Query 000906
Match_columns 1231
No_of_seqs 417 out of 1624
Neff 4.2
Searched_HMMs 46136
Date Tue Apr 2 00:39:44 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000906.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000906hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1940 Zn-finger protein [Gen 100.0 6.1E-51 1.3E-55 443.3 5.9 247 967-1229 1-249 (276)
2 PF05495 zf-CHY: CHY zinc fing 99.8 2.6E-21 5.6E-26 174.6 1.3 70 1007-1084 1-71 (71)
3 PF01814 Hemerythrin: Hemeryth 99.1 6.3E-10 1.4E-14 105.7 12.7 124 36-168 2-128 (133)
4 PF13639 zf-RING_2: Ring finge 99.1 2.8E-11 6.1E-16 99.3 1.2 44 1134-1178 1-44 (44)
5 PF01814 Hemerythrin: Hemeryth 99.0 5.3E-09 1.1E-13 99.4 13.0 131 592-742 2-133 (133)
6 COG4357 Zinc finger domain con 99.0 8.6E-11 1.9E-15 111.1 -0.3 67 1003-1072 11-90 (105)
7 PF12861 zf-Apc11: Anaphase-pr 98.9 5E-10 1.1E-14 104.8 3.7 48 1132-1181 31-81 (85)
8 COG5243 HRD1 HRD ubiquitin lig 98.8 1.1E-09 2.4E-14 123.4 2.9 57 1130-1186 284-350 (491)
9 PF12678 zf-rbx1: RING-H2 zinc 98.8 3.6E-09 7.7E-14 96.5 3.3 47 1132-1178 18-73 (73)
10 KOG4628 Predicted E3 ubiquitin 98.8 2.1E-09 4.5E-14 122.4 1.9 49 1134-1183 230-279 (348)
11 PRK10992 iron-sulfur cluster r 98.7 2.7E-07 5.8E-12 100.2 14.0 126 42-168 82-211 (220)
12 COG5194 APC11 Component of SCF 98.6 2.1E-08 4.5E-13 92.6 2.8 50 1133-1182 31-81 (88)
13 TIGR03652 FeS_repair_RIC iron- 98.5 9.1E-07 2E-11 95.5 13.8 126 42-168 78-211 (216)
14 KOG1493 Anaphase-promoting com 98.5 1.8E-08 3.9E-13 92.3 0.1 49 1132-1182 30-81 (84)
15 PHA02929 N1R/p28-like protein; 98.5 6.9E-08 1.5E-12 105.8 4.4 53 1131-1183 172-228 (238)
16 PF14599 zinc_ribbon_6: Zinc-r 98.5 1.8E-08 3.9E-13 89.5 -1.2 45 1181-1229 1-45 (61)
17 cd00162 RING RING-finger (Real 98.5 1.2E-07 2.6E-12 75.2 3.3 44 1135-1181 1-45 (45)
18 COG5540 RING-finger-containing 98.4 9.2E-08 2E-12 106.2 2.6 57 1124-1181 314-371 (374)
19 PRK10992 iron-sulfur cluster r 98.4 2E-06 4.3E-11 93.6 12.4 136 593-744 76-218 (220)
20 TIGR03652 FeS_repair_RIC iron- 98.3 2.8E-06 6.1E-11 91.8 11.1 133 593-741 72-215 (216)
21 PF13923 zf-C3HC4_2: Zinc fing 98.3 2.2E-07 4.7E-12 74.8 1.7 39 1136-1177 1-39 (39)
22 PF13920 zf-C3HC4_3: Zinc fing 98.2 3.8E-07 8.2E-12 77.0 1.7 47 1133-1183 2-49 (50)
23 PRK13276 cell wall biosynthesi 98.2 1.1E-05 2.5E-10 88.0 13.0 126 42-168 85-218 (224)
24 PRK13276 cell wall biosynthesi 98.1 7.7E-06 1.7E-10 89.3 9.7 132 593-740 79-221 (224)
25 smart00184 RING Ring finger. E 98.1 2.3E-06 4.9E-11 65.6 3.0 38 1136-1177 1-39 (39)
26 PF14634 zf-RING_5: zinc-RING 98.1 2.6E-06 5.7E-11 70.5 3.4 44 1135-1179 1-44 (44)
27 KOG2930 SCF ubiquitin ligase, 98.1 6.1E-07 1.3E-11 86.5 -0.6 33 1149-1181 75-107 (114)
28 KOG0802 E3 ubiquitin ligase [P 98.0 1.7E-06 3.8E-11 104.7 1.3 53 1129-1181 287-340 (543)
29 PF15227 zf-C3HC4_4: zinc fing 98.0 3.7E-06 8E-11 69.5 2.7 38 1136-1177 1-42 (42)
30 KOG0320 Predicted E3 ubiquitin 98.0 3.3E-06 7.3E-11 88.5 2.6 48 1133-1182 131-178 (187)
31 PLN03208 E3 ubiquitin-protein 98.0 6.1E-06 1.3E-10 88.1 4.5 51 1128-1182 13-79 (193)
32 PHA02926 zinc finger-like prot 97.9 5E-06 1.1E-10 90.0 3.3 53 1130-1182 167-230 (242)
33 PF00097 zf-C3HC4: Zinc finger 97.9 4.8E-06 1E-10 67.1 1.9 39 1136-1177 1-41 (41)
34 smart00504 Ubox Modified RING 97.8 1.6E-05 3.5E-10 69.1 3.9 45 1134-1182 2-46 (63)
35 KOG0825 PHD Zn-finger protein 97.8 2.9E-06 6.2E-11 102.9 -1.1 51 1132-1183 122-172 (1134)
36 PF13445 zf-RING_UBOX: RING-ty 97.8 9.5E-06 2.1E-10 67.7 2.1 39 1136-1175 1-43 (43)
37 KOG0317 Predicted E3 ubiquitin 97.7 1.3E-05 2.8E-10 89.4 2.0 46 1133-1182 239-284 (293)
38 COG2846 Regulator of cell morp 97.6 0.00052 1.1E-08 73.6 11.5 130 38-168 79-212 (221)
39 TIGR00599 rad18 DNA repair pro 97.5 4.7E-05 1E-09 89.2 3.1 46 1133-1182 26-71 (397)
40 KOG0828 Predicted E3 ubiquitin 97.5 3.2E-05 7E-10 90.7 1.3 50 1133-1182 571-634 (636)
41 TIGR00570 cdk7 CDK-activating 97.4 0.0001 2.2E-09 83.7 4.2 50 1133-1182 3-54 (309)
42 COG3945 Uncharacterized conser 97.4 0.0027 5.9E-08 67.4 14.3 141 37-207 10-155 (189)
43 KOG1428 Inhibitor of type V ad 97.4 5.3E-05 1.1E-09 95.7 1.7 109 1046-1182 3417-3544(3738)
44 KOG2164 Predicted E3 ubiquitin 97.4 7.5E-05 1.6E-09 88.6 2.6 46 1133-1182 186-236 (513)
45 KOG0823 Predicted E3 ubiquitin 97.4 0.0001 2.2E-09 80.4 3.0 49 1131-1183 45-96 (230)
46 COG2846 Regulator of cell morp 97.3 0.0015 3.3E-08 70.2 10.7 133 593-742 77-217 (221)
47 KOG0804 Cytoplasmic Zn-finger 97.3 9.7E-05 2.1E-09 86.3 1.9 44 1134-1179 176-219 (493)
48 KOG0287 Postreplication repair 97.3 0.00013 2.9E-09 82.6 2.8 45 1134-1182 24-68 (442)
49 COG3945 Uncharacterized conser 97.1 0.0071 1.5E-07 64.4 13.3 142 593-755 10-156 (189)
50 KOG2177 Predicted E3 ubiquitin 97.1 0.0002 4.3E-09 75.6 1.9 44 1132-1179 12-55 (386)
51 smart00744 RINGv The RING-vari 97.1 0.00032 6.9E-09 60.0 2.6 42 1135-1178 1-49 (49)
52 KOG1734 Predicted RING-contain 97.0 0.00018 3.9E-09 79.7 0.5 49 1133-1181 224-280 (328)
53 PF11793 FANCL_C: FANCL C-term 96.9 0.00018 3.9E-09 65.6 -0.3 50 1133-1182 2-66 (70)
54 KOG0827 Predicted E3 ubiquitin 96.9 0.00037 8E-09 80.4 1.6 45 1133-1178 4-52 (465)
55 COG5574 PEX10 RING-finger-cont 96.9 0.00047 1E-08 76.5 2.0 46 1133-1182 215-262 (271)
56 PF04564 U-box: U-box domain; 96.5 0.0014 3.1E-08 59.9 2.3 46 1134-1183 5-51 (73)
57 KOG4172 Predicted E3 ubiquitin 96.4 0.00076 1.6E-08 59.2 -0.2 53 1132-1188 6-60 (62)
58 KOG4265 Predicted E3 ubiquitin 96.3 0.0022 4.8E-08 73.8 2.7 47 1132-1182 289-336 (349)
59 COG5432 RAD18 RING-finger-cont 96.3 0.0022 4.7E-08 72.0 2.3 45 1134-1182 26-70 (391)
60 KOG1941 Acetylcholine receptor 96.2 0.0008 1.7E-08 77.7 -1.3 61 1124-1185 357-419 (518)
61 PF14835 zf-RING_6: zf-RING of 96.0 0.0039 8.4E-08 56.5 2.2 56 1134-1195 8-65 (65)
62 KOG1039 Predicted E3 ubiquitin 95.8 0.0035 7.7E-08 72.7 1.4 75 1131-1207 159-246 (344)
63 KOG0978 E3 ubiquitin ligase in 95.6 0.0035 7.7E-08 77.8 0.5 46 1134-1183 644-690 (698)
64 KOG0311 Predicted E3 ubiquitin 95.4 0.0029 6.2E-08 72.8 -1.4 47 1133-1182 43-90 (381)
65 COG5219 Uncharacterized conser 95.2 0.0064 1.4E-07 76.3 0.7 51 1131-1181 1467-1522(1525)
66 KOG1645 RING-finger-containing 95.1 0.012 2.6E-07 68.8 2.6 49 1133-1181 4-55 (463)
67 KOG1785 Tyrosine kinase negati 95.1 0.0064 1.4E-07 70.6 0.4 53 1126-1182 362-416 (563)
68 KOG2879 Predicted E3 ubiquitin 95.1 0.016 3.6E-07 65.0 3.4 51 1132-1185 238-290 (298)
69 KOG4739 Uncharacterized protei 93.8 0.029 6.3E-07 62.1 1.8 36 1144-1181 12-47 (233)
70 KOG0824 Predicted E3 ubiquitin 93.7 0.036 7.7E-07 63.1 2.2 47 1132-1182 6-53 (324)
71 PF14570 zf-RING_4: RING/Ubox 93.6 0.056 1.2E-06 46.7 2.6 46 1136-1181 1-47 (48)
72 KOG4445 Uncharacterized conser 93.4 0.02 4.3E-07 64.9 -0.4 52 1131-1183 113-187 (368)
73 PF10367 Vps39_2: Vacuolar sor 93.2 0.034 7.3E-07 52.9 0.9 37 1127-1165 72-108 (109)
74 PF11789 zf-Nse: Zinc-finger o 92.9 0.061 1.3E-06 47.7 1.9 42 1132-1176 10-53 (57)
75 KOG0309 Conserved WD40 repeat- 92.9 0.059 1.3E-06 66.9 2.5 43 1132-1176 1027-1069(1081)
76 KOG3039 Uncharacterized conser 92.0 0.12 2.5E-06 57.7 3.1 55 1128-1183 216-271 (303)
77 KOG3800 Predicted E3 ubiquitin 91.8 0.11 2.3E-06 59.1 2.6 48 1135-1182 2-51 (300)
78 KOG1002 Nucleotide excision re 91.4 0.069 1.5E-06 64.2 0.7 51 1128-1182 531-586 (791)
79 PF12906 RINGv: RING-variant d 91.3 0.1 2.2E-06 44.5 1.4 40 1136-1177 1-47 (47)
80 COG5152 Uncharacterized conser 91.2 0.1 2.2E-06 56.5 1.6 45 1134-1182 197-241 (259)
81 KOG4275 Predicted E3 ubiquitin 91.2 0.037 8E-07 62.7 -1.7 59 1123-1189 287-349 (350)
82 KOG3970 Predicted E3 ubiquitin 90.9 0.17 3.7E-06 55.7 3.0 51 1130-1182 47-105 (299)
83 PF14447 Prok-RING_4: Prokaryo 90.6 0.11 2.3E-06 46.2 0.8 44 1133-1182 7-50 (55)
84 KOG1571 Predicted E3 ubiquitin 90.5 0.13 2.8E-06 60.0 1.8 47 1129-1182 301-347 (355)
85 PF04641 Rtf2: Rtf2 RING-finge 90.1 0.2 4.4E-06 56.2 2.9 51 1130-1182 110-161 (260)
86 COG5175 MOT2 Transcriptional r 90.1 0.095 2.1E-06 60.3 0.2 55 1133-1187 14-69 (480)
87 KOG1940 Zn-finger protein [Gen 89.6 0.022 4.7E-07 64.5 -5.2 251 636-956 17-275 (276)
88 KOG0297 TNF receptor-associate 89.6 0.18 3.9E-06 59.8 2.0 49 1132-1183 20-68 (391)
89 KOG3268 Predicted E3 ubiquitin 89.6 0.2 4.3E-06 53.6 2.0 30 1153-1182 188-228 (234)
90 KOG1813 Predicted E3 ubiquitin 89.5 0.2 4.4E-06 57.1 2.3 46 1134-1183 242-287 (313)
91 KOG4159 Predicted E3 ubiquitin 89.1 0.34 7.3E-06 57.8 3.8 49 1131-1183 82-130 (398)
92 PF07800 DUF1644: Protein of u 87.7 0.42 9.2E-06 50.5 3.0 32 1133-1168 2-46 (162)
93 KOG2660 Locus-specific chromos 87.7 0.14 3E-06 59.1 -0.6 49 1132-1183 14-62 (331)
94 COG2461 Uncharacterized conser 87.3 4.7 0.0001 48.1 11.3 138 33-210 84-222 (409)
95 PF05883 Baculo_RING: Baculovi 87.3 0.25 5.3E-06 51.0 1.0 43 1133-1176 26-74 (134)
96 KOG0269 WD40 repeat-containing 87.0 0.36 7.7E-06 60.7 2.3 70 1087-1176 751-820 (839)
97 PHA02862 5L protein; Provision 86.6 0.4 8.7E-06 50.0 2.1 45 1133-1182 2-53 (156)
98 KOG2114 Vacuolar assembly/sort 86.3 0.46 9.9E-06 60.4 2.7 42 1135-1182 842-883 (933)
99 PRK14890 putative Zn-ribbon RN 85.9 0.53 1.1E-05 42.4 2.2 47 1044-1097 5-56 (59)
100 KOG3002 Zn finger protein [Gen 84.9 0.9 2E-05 52.5 4.0 65 1133-1205 48-112 (299)
101 PRK04023 DNA polymerase II lar 84.1 0.81 1.7E-05 59.4 3.5 14 335-348 175-188 (1121)
102 KOG1814 Predicted E3 ubiquitin 83.6 0.58 1.3E-05 55.6 1.8 45 1133-1178 184-236 (445)
103 KOG2272 Focal adhesion protein 82.9 0.65 1.4E-05 52.1 1.8 85 1006-1118 63-173 (332)
104 PF03854 zf-P11: P-11 zinc fin 82.8 0.49 1.1E-05 41.1 0.6 43 1134-1182 3-46 (50)
105 KOG4692 Predicted E3 ubiquitin 82.6 0.78 1.7E-05 53.5 2.3 52 1128-1183 417-468 (489)
106 KOG2817 Predicted E3 ubiquitin 81.6 1 2.2E-05 53.4 2.7 47 1133-1180 334-383 (394)
107 KOG4185 Predicted E3 ubiquitin 80.5 1.5 3.2E-05 49.7 3.5 47 1134-1181 4-54 (296)
108 COG5236 Uncharacterized conser 79.8 1.5 3.2E-05 51.2 3.2 68 1110-1181 37-107 (493)
109 COG2888 Predicted Zn-ribbon RN 78.7 1.2 2.7E-05 40.3 1.7 45 1046-1097 9-58 (61)
110 KOG2034 Vacuolar sorting prote 78.5 0.92 2E-05 58.1 1.2 43 1124-1168 808-850 (911)
111 PHA02825 LAP/PHD finger-like p 78.3 1.7 3.6E-05 46.2 2.8 46 1132-1182 7-59 (162)
112 COG2461 Uncharacterized conser 76.5 22 0.00048 42.8 11.4 138 590-757 85-222 (409)
113 TIGR00595 priA primosomal prot 75.5 1.8 4E-05 53.1 2.6 50 1015-1071 213-262 (505)
114 KOG3161 Predicted E3 ubiquitin 74.2 1.1 2.5E-05 55.4 0.4 44 1134-1180 12-55 (861)
115 KOG1701 Focal adhesion adaptor 74.2 0.86 1.9E-05 54.4 -0.6 136 1027-1181 277-437 (468)
116 COG5220 TFB3 Cdk activating ki 73.9 1 2.2E-05 50.3 -0.1 49 1133-1181 10-63 (314)
117 COG1198 PriA Primosomal protei 72.4 2.7 5.9E-05 53.8 3.1 55 1015-1076 435-489 (730)
118 KOG0827 Predicted E3 ubiquitin 72.3 0.29 6.2E-06 57.6 -4.9 51 1132-1182 195-245 (465)
119 COG5592 Uncharacterized conser 70.7 29 0.00063 37.4 9.6 132 598-766 10-151 (171)
120 PF09538 FYDLN_acid: Protein o 70.3 2.3 5E-05 42.5 1.5 20 1081-1100 18-37 (108)
121 PRK14714 DNA polymerase II lar 68.7 4.1 8.8E-05 54.5 3.5 19 942-960 588-606 (1337)
122 smart00132 LIM Zinc-binding do 68.4 2.8 6E-05 32.6 1.3 37 1136-1182 2-38 (39)
123 KOG1512 PHD Zn-finger protein 68.3 2.6 5.5E-05 48.3 1.5 18 1214-1231 329-346 (381)
124 KOG1001 Helicase-like transcri 68.0 2.4 5.1E-05 54.0 1.3 43 1134-1181 455-499 (674)
125 PF06524 NOA36: NOA36 protein; 67.8 2.7 5.9E-05 47.6 1.5 65 1022-1097 140-217 (314)
126 PF08746 zf-RING-like: RING-li 67.1 2.5 5.5E-05 35.6 0.9 24 1154-1177 18-43 (43)
127 PRK14873 primosome assembly pr 67.1 3.4 7.3E-05 52.6 2.3 48 1016-1071 384-431 (665)
128 PF01529 zf-DHHC: DHHC palmito 66.3 4.3 9.3E-05 42.0 2.5 47 1069-1121 43-89 (174)
129 PRK05580 primosome assembly pr 66.0 3.8 8.2E-05 52.1 2.5 51 1015-1072 381-431 (679)
130 COG5592 Uncharacterized conser 65.5 45 0.00098 36.0 9.7 129 39-215 7-147 (171)
131 PHA03096 p28-like protein; Pro 65.0 3.4 7.3E-05 47.6 1.6 46 1134-1179 179-231 (284)
132 PF12773 DZR: Double zinc ribb 64.8 5.3 0.00011 33.9 2.4 22 1049-1073 1-23 (50)
133 KOG2068 MOT2 transcription fac 64.8 4.7 0.0001 47.2 2.7 51 1132-1182 248-298 (327)
134 PLN03086 PRLI-interacting fact 64.5 2.7 5.9E-05 52.4 0.8 53 1087-1142 451-513 (567)
135 TIGR02300 FYDLN_acid conserved 64.4 3.7 7.9E-05 42.3 1.5 19 1081-1099 18-36 (129)
136 PF05502 Dynactin_p62: Dynacti 63.4 5.1 0.00011 49.2 2.8 10 1134-1143 53-62 (483)
137 PRK14559 putative protein seri 62.1 5.4 0.00012 50.6 2.8 46 1047-1096 2-48 (645)
138 PRK04023 DNA polymerase II lar 61.8 6.3 0.00014 51.7 3.3 51 1044-1100 624-674 (1121)
139 PF07191 zinc-ribbons_6: zinc- 61.0 4 8.6E-05 38.2 1.0 34 1045-1081 16-57 (70)
140 COG1198 PriA Primosomal protei 59.3 6.8 0.00015 50.4 3.0 50 1039-1097 427-483 (730)
141 COG5109 Uncharacterized conser 59.2 6.3 0.00014 45.9 2.4 44 1134-1178 337-383 (396)
142 COG5222 Uncharacterized conser 59.0 5.6 0.00012 45.9 1.9 43 1134-1179 275-318 (427)
143 KOG1952 Transcription factor N 58.0 4.3 9.2E-05 52.2 0.9 48 1133-1181 191-246 (950)
144 PF14446 Prok-RING_1: Prokaryo 57.5 8.9 0.00019 34.4 2.5 36 1132-1167 4-39 (54)
145 KOG2066 Vacuolar assembly/sort 56.9 3.9 8.4E-05 52.2 0.3 84 721-806 392-480 (846)
146 cd00350 rubredoxin_like Rubred 55.2 8.6 0.00019 30.6 1.9 24 1074-1097 1-25 (33)
147 PF07227 DUF1423: Protein of u 54.1 11 0.00024 45.7 3.5 30 938-969 21-50 (446)
148 COG5183 SSM4 Protein involved 53.6 7.5 0.00016 49.8 2.0 49 1132-1182 11-66 (1175)
149 KOG1100 Predicted E3 ubiquitin 51.6 6.8 0.00015 43.3 1.1 39 1136-1182 161-200 (207)
150 KOG1812 Predicted E3 ubiquitin 51.6 11 0.00023 45.3 2.8 47 1133-1179 306-353 (384)
151 KOG0298 DEAD box-containing he 51.4 4.2 9E-05 54.3 -0.7 50 1133-1185 1153-1202(1394)
152 PLN02189 cellulose synthase 50.3 12 0.00026 49.6 3.1 52 1130-1182 31-87 (1040)
153 PF09538 FYDLN_acid: Protein o 50.1 8.8 0.00019 38.5 1.5 32 1014-1059 8-39 (108)
154 KOG4443 Putative transcription 49.4 6.6 0.00014 49.4 0.6 45 1133-1178 145-200 (694)
155 KOG4399 C2HC-type Zn-finger pr 48.8 4.4 9.5E-05 46.0 -0.9 63 1048-1119 240-302 (325)
156 PF03833 PolC_DP2: DNA polymer 48.7 5.8 0.00013 51.3 0.0 47 740-786 431-477 (900)
157 PRK14714 DNA polymerase II lar 48.2 15 0.00033 49.5 3.5 51 1046-1100 667-720 (1337)
158 KOG0826 Predicted E3 ubiquitin 48.1 13 0.00027 43.8 2.5 46 1133-1181 300-345 (357)
159 PLN02436 cellulose synthase A 47.6 14 0.00031 49.1 3.1 52 1130-1182 33-89 (1094)
160 PF05290 Baculo_IE-1: Baculovi 47.0 12 0.00025 39.1 1.8 47 1133-1183 80-133 (140)
161 TIGR02481 hemeryth_dom hemeryt 47.0 2.6E+02 0.0056 27.7 11.2 103 43-169 16-122 (126)
162 PF03833 PolC_DP2: DNA polymer 46.8 6.4 0.00014 50.9 0.0 48 1044-1097 653-700 (900)
163 KOG1812 Predicted E3 ubiquitin 46.7 8.1 0.00018 46.2 0.8 37 1133-1169 146-182 (384)
164 COG0143 MetG Methionyl-tRNA sy 46.7 13 0.00028 46.7 2.5 46 1070-1121 122-168 (558)
165 KOG2462 C2H2-type Zn-finger pr 46.2 25 0.00055 40.5 4.5 107 1073-1193 129-265 (279)
166 KOG1609 Protein involved in mR 44.6 9.9 0.00021 42.8 1.0 50 1133-1182 78-134 (323)
167 PF05502 Dynactin_p62: Dynacti 44.5 16 0.00034 45.1 2.8 14 1069-1082 21-34 (483)
168 TIGR02481 hemeryth_dom hemeryt 44.5 1.2E+02 0.0026 30.0 8.5 58 111-177 12-69 (126)
169 PF02891 zf-MIZ: MIZ/SP-RING z 44.4 16 0.00035 31.8 2.1 41 1134-1180 3-50 (50)
170 KOG1311 DHHC-type Zn-finger pr 44.3 19 0.00041 41.2 3.2 47 1069-1121 108-154 (299)
171 KOG4443 Putative transcription 42.6 18 0.00039 45.8 2.8 72 1134-1229 19-98 (694)
172 KOG1829 Uncharacterized conser 41.5 8.1 0.00018 48.4 -0.3 29 1006-1035 345-377 (580)
173 KOG0801 Predicted E3 ubiquitin 41.3 12 0.00027 40.0 1.1 29 1132-1161 176-204 (205)
174 PRK00420 hypothetical protein; 40.8 16 0.00034 37.1 1.6 30 1132-1182 22-51 (112)
175 PF13901 DUF4206: Domain of un 40.8 13 0.00028 40.7 1.2 27 1148-1179 171-197 (202)
176 PRK03564 formate dehydrogenase 39.2 26 0.00056 41.1 3.3 24 1044-1070 210-234 (309)
177 PRK07219 DNA topoisomerase I; 38.6 47 0.001 43.6 5.8 63 1077-1144 672-744 (822)
178 PHA00626 hypothetical protein 38.6 23 0.0005 32.1 2.1 7 1090-1096 24-30 (59)
179 PLN02638 cellulose synthase A 38.2 23 0.00051 47.3 3.0 51 1130-1181 14-69 (1079)
180 PRK00398 rpoP DNA-directed RNA 37.5 26 0.00057 29.6 2.3 23 1074-1096 3-28 (46)
181 PF10272 Tmpp129: Putative tra 36.2 32 0.00069 41.2 3.5 18 1165-1182 334-351 (358)
182 KOG2593 Transcription initiati 35.5 16 0.00035 44.2 1.0 20 930-949 50-69 (436)
183 KOG1280 Uncharacterized conser 34.9 32 0.00068 40.9 3.1 26 1069-1097 60-87 (381)
184 KOG4718 Non-SMC (structural ma 34.9 17 0.00037 40.5 0.9 42 1134-1178 182-223 (235)
185 cd00729 rubredoxin_SM Rubredox 34.7 28 0.00061 28.2 1.9 24 1074-1097 2-26 (34)
186 KOG3362 Predicted BBOX Zn-fing 34.0 13 0.00029 39.1 -0.1 25 1073-1101 117-143 (156)
187 KOG3842 Adaptor protein Pellin 34.0 20 0.00044 41.9 1.4 45 1130-1179 287-349 (429)
188 COG3809 Uncharacterized protei 33.8 28 0.00062 33.5 2.0 50 1135-1206 3-54 (88)
189 COG4888 Uncharacterized Zn rib 33.6 18 0.0004 36.1 0.8 29 1088-1116 21-54 (104)
190 TIGR00373 conserved hypothetic 32.9 15 0.00033 38.8 0.2 10 1087-1096 126-135 (158)
191 PF07191 zinc-ribbons_6: zinc- 32.4 8.7 0.00019 36.0 -1.5 40 1134-1182 2-41 (70)
192 PRK14559 putative protein seri 31.9 30 0.00065 44.3 2.5 34 1046-1083 15-50 (645)
193 PRK06266 transcription initiat 31.9 17 0.00036 39.3 0.3 10 1087-1096 134-143 (178)
194 KOG3053 Uncharacterized conser 31.5 18 0.00038 41.4 0.4 53 1128-1182 15-82 (293)
195 PF06937 EURL: EURL protein; 31.1 29 0.00064 39.9 2.0 43 1130-1175 27-74 (285)
196 smart00734 ZnF_Rad18 Rad18-lik 30.8 38 0.00082 26.0 1.9 20 1173-1193 3-22 (26)
197 PF02318 FYVE_2: FYVE-type zin 30.6 15 0.00032 36.9 -0.4 30 1059-1095 71-100 (118)
198 KOG4367 Predicted Zn-finger pr 30.3 25 0.00054 42.6 1.3 33 1132-1168 3-35 (699)
199 PLN02400 cellulose synthase 30.0 33 0.00072 46.0 2.5 51 1130-1181 33-88 (1085)
200 PF14969 DUF4508: Domain of un 29.4 89 0.0019 31.3 4.7 61 747-808 1-72 (98)
201 PF00412 LIM: LIM domain; Int 29.3 20 0.00043 30.6 0.3 39 1136-1184 1-39 (58)
202 PF00539 Tat: Transactivating 29.2 52 0.0011 30.9 2.9 29 1060-1109 25-53 (68)
203 PF06524 NOA36: NOA36 protein; 29.0 46 0.00099 38.3 3.0 15 1082-1096 135-149 (314)
204 PRK03564 formate dehydrogenase 29.0 33 0.0007 40.3 2.0 19 1161-1179 216-234 (309)
205 PLN02915 cellulose synthase A 28.0 41 0.00088 45.0 2.7 50 1132-1182 14-68 (1044)
206 PF00628 PHD: PHD-finger; Int 27.7 10 0.00022 32.1 -1.8 42 1136-1179 2-50 (51)
207 PF14357 DUF4404: Domain of un 27.5 4.4E+02 0.0095 25.6 8.9 82 47-133 2-83 (85)
208 KOG1311 DHHC-type Zn-finger pr 27.2 33 0.00072 39.2 1.6 34 1088-1128 112-145 (299)
209 PLN02195 cellulose synthase A 27.0 47 0.001 44.2 3.0 50 1132-1182 5-59 (977)
210 KOG3896 Dynactin, subunit p62 26.6 29 0.00063 41.0 1.0 8 1136-1143 48-55 (449)
211 TIGR02300 FYDLN_acid conserved 26.2 37 0.0008 35.3 1.6 32 1014-1059 8-39 (129)
212 PHA00626 hypothetical protein 25.9 43 0.00093 30.5 1.7 34 1047-1085 1-34 (59)
213 KOG4399 C2HC-type Zn-finger pr 25.8 20 0.00043 41.0 -0.4 71 1069-1142 199-270 (325)
214 PF09788 Tmemb_55A: Transmembr 25.8 56 0.0012 37.5 3.0 64 1105-1181 103-187 (256)
215 smart00249 PHD PHD zinc finger 25.7 30 0.00066 27.5 0.7 41 1135-1177 1-47 (47)
216 KOG1044 Actin-binding LIM Zn-f 25.6 58 0.0013 41.0 3.3 90 1046-1146 42-146 (670)
217 PF01599 Ribosomal_S27: Riboso 25.5 43 0.00094 29.4 1.6 28 1054-1082 13-46 (47)
218 PF04710 Pellino: Pellino; In 25.2 25 0.00054 42.4 0.1 49 1130-1181 274-338 (416)
219 PF00301 Rubredoxin: Rubredoxi 25.1 47 0.001 29.0 1.7 12 1074-1085 1-13 (47)
220 PF06757 Ins_allergen_rp: Inse 24.8 8.8E+02 0.019 26.1 11.6 154 46-224 3-165 (179)
221 COG1107 Archaea-specific RecJ- 24.6 51 0.0011 41.7 2.5 62 1017-1081 4-87 (715)
222 PRK00808 hypothetical protein; 24.5 4E+02 0.0087 27.8 8.8 24 715-738 42-65 (150)
223 KOG3990 Uncharacterized conser 24.5 7 0.00015 44.3 -4.2 72 1024-1101 6-83 (305)
224 KOG2932 E3 ubiquitin ligase in 24.4 33 0.00071 40.3 0.9 30 1151-1182 105-134 (389)
225 PHA01486 nonstructural protein 24.4 59 0.0013 25.8 1.9 21 332-352 6-26 (32)
226 PF06220 zf-U1: U1 zinc finger 24.3 30 0.00065 28.8 0.4 13 1072-1084 1-13 (38)
227 PF08271 TF_Zn_Ribbon: TFIIB z 24.2 38 0.00082 28.3 1.0 13 1084-1096 14-26 (43)
228 PRK14873 primosome assembly pr 24.0 49 0.0011 42.6 2.4 49 1040-1098 376-431 (665)
229 KOG1280 Uncharacterized conser 23.7 45 0.00098 39.7 1.8 15 1070-1084 19-33 (381)
230 TIGR01562 FdhE formate dehydro 23.6 61 0.0013 38.1 2.9 25 1044-1071 208-233 (305)
231 PF14445 Prok-RING_2: Prokaryo 23.6 7.5 0.00016 34.4 -3.3 45 1070-1119 3-52 (57)
232 KOG2272 Focal adhesion protein 23.6 45 0.00097 38.2 1.7 79 1009-1101 114-204 (332)
233 KOG0006 E3 ubiquitin-protein l 22.6 79 0.0017 37.3 3.4 76 1083-1168 169-254 (446)
234 TIGR01562 FdhE formate dehydro 22.5 42 0.00091 39.4 1.3 20 1161-1180 214-233 (305)
235 PF07227 DUF1423: Protein of u 22.4 63 0.0014 39.7 2.7 47 1134-1181 129-193 (446)
236 COG1996 RPC10 DNA-directed RNA 22.3 47 0.001 29.4 1.2 27 1071-1097 3-32 (49)
237 PRK14892 putative transcriptio 22.0 54 0.0012 32.7 1.7 27 1088-1116 20-50 (99)
238 TIGR00622 ssl1 transcription f 21.1 1.7E+02 0.0037 30.0 5.1 83 1090-1180 2-112 (112)
239 PRK01917 cation-binding hemery 21.1 3.8E+02 0.0082 27.7 7.7 38 717-760 40-81 (139)
240 PRK00432 30S ribosomal protein 20.7 55 0.0012 28.8 1.3 9 1107-1115 36-44 (50)
241 TIGR00595 priA primosomal prot 20.6 61 0.0013 40.2 2.2 45 1045-1098 212-262 (505)
242 KOG0802 E3 ubiquitin ligase [P 20.4 44 0.00096 41.7 1.0 43 1132-1182 478-520 (543)
243 PF04216 FdhE: Protein involve 20.3 25 0.00053 40.3 -1.1 26 1157-1182 197-222 (290)
244 PF13248 zf-ribbon_3: zinc-rib 20.2 55 0.0012 24.9 1.1 23 1046-1071 2-25 (26)
245 KOG1815 Predicted E3 ubiquitin 20.1 57 0.0012 39.8 1.8 49 1131-1182 68-126 (444)
No 1
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=100.00 E-value=6.1e-51 Score=443.30 Aligned_cols=247 Identities=47% Similarity=0.943 Sum_probs=225.4
Q ss_pred hhhHHhhhhccCCCccCCCCCCCCCCCCCCccCccccccccccccccccccccccCCcccCcccccccCCCccccccccc
Q 000906 967 MSRWITGQQMTHSKVTISSSGEEIPGQQPSYRDTEKLIFGCKHYKRNCKLVATCCNSLYTCIRCHDEVADHALDRKSISE 1046 (1231)
Q Consensus 967 ~sr~~~~q~~~~~~~~~~~~~~~~~~~~psy~d~~~~~~GC~HY~R~ckL~cpCC~k~YpCR~CHDe~~dH~ldR~~~~~ 1046 (1231)
|+||.+.|+....... ...+..+.+.|+...++||+||+|+|++++|||++||+||+||++..+|.++|+.+.+
T Consensus 1 ~~~~~~~~~~~~~~~~------~~~~~~~~~~d~~~~~~~c~hy~r~~~~~a~ccd~~~~C~hCH~~s~~h~~~r~~v~~ 74 (276)
T KOG1940|consen 1 MSRLAADQSFLEEFAQ------ALSSIHSDAEDEIAFPYGCPHYRRNCKSRAPCCDREITCRHCHNESEDHDLDRKTVYE 74 (276)
T ss_pred CccchhhhhhhHHHHh------hhhhcccccccccccccCCchhhhccccccccccceeeeEEecChhhhcccchhhhhh
Confidence 3566666655433222 1223457888999999999999999999999999999999999999999999999999
Q ss_pred cccccccccccCCCccCCCccCCcccceEecCccccccCC-CCcccCCCCCccccCCCCCcccccCCCCcccccccc-cc
Q 000906 1047 MMCMKCLIIQPVGSTCSTTSCKNFSMARYYCRICKLFDDE-REIYHCPYCNLCRVGKGLGIDYFHCMNCNACMSRSL-QV 1124 (1231)
Q Consensus 1047 m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~C~iCkl~Ddd-k~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~s~~l-~~ 1124 (1231)
|+||.|.++|++++.|.+ | +..+++|||.+|++||++ ..||||+.|||||+|.++ |||||++|+.|++..+ ..
T Consensus 75 ~~C~~C~~~q~~~~~c~~--c-~~~~g~~~c~~C~l~dd~~~~~~hC~~C~icr~g~~~--~~fhc~~c~~c~~~~~~~~ 149 (276)
T KOG1940|consen 75 LLCMKCRKIQPVGQICSN--C-HVELGEYYCLICKLFDDDPSKQYHCDLCGICREGLGL--DFFHCKKCKACLSAYLSNW 149 (276)
T ss_pred hhhhhHHhhhhhhhcccc--c-hhhhhhhcCcccccccccccceecccccccccccccc--chhHHhhhHhHHhhhcccc
Confidence 999999999999999988 8 888999999999999988 599999999999999775 9999999999999998 45
Q ss_pred cccccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccChHHHHHHhHHHHhhcCCChhh
Q 000906 1125 HICREKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGDMKVYFSMLDALLAEEKMPPEY 1204 (1231)
Q Consensus 1125 HkC~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~dm~~~f~~LD~eia~qpmPeey 1204 (1231)
|+|+|++.+.+||||.++||++...+..++|||.+|..||+++...+|+||+|.+ ++||..+|+++|.+|+.+|||++|
T Consensus 150 H~c~e~~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p~~y 228 (276)
T KOG1940|consen 150 HKCVERSSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK-PGDMSHYFRKLDKELAGSPMPEEY 228 (276)
T ss_pred cchhhhcccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc-hHHHHHHHHHHHHHHhcCCCCchh
Confidence 9999999999999999999999999999999999999999999877799999999 999999999999999999999999
Q ss_pred hcccCCCCCcccCCCCCCCCCcccc
Q 000906 1205 LGQTQVRNPLIPLNVANVSPDIFFD 1229 (1231)
Q Consensus 1205 r~~~q~~~~~i~Cn~C~ss~~~~f~ 1229 (1231)
++++ .++.||+||...++-|+
T Consensus 229 ~~~~----~~i~cndC~~~~~~k~~ 249 (276)
T KOG1940|consen 229 KNKT----QDILCNDCGSGTNVKYH 249 (276)
T ss_pred hchh----heeeccCCCCCCcccee
Confidence 9988 48999999999988775
No 2
>PF05495 zf-CHY: CHY zinc finger; InterPro: IPR008913 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. Pirh2 is an eukaryotic ubiquitin protein ligase, which has been shown to promote p53 degradation in mammals. Pirh2 physically interacts with p53 and promotes ubiquitination of p53 independently of MDM2. Like MDM2, Pirh2 is thought to participate in an autoregulatory feedback loop that controls p53 function. Pirh2 proteins contain three distinct zinc fingers, the CHY-type, the CTCHY-type which is C-terminal to the CHY-type zinc finger and a RING finger. The CHY-type zinc finger has no currently known function []. As well as Pirh2, the CHY-type zinc finger is also found in the following proteins: Yeast helper of Tim protein 13. Hot13 may have a role in the assembly and recycling of the small Tims, a complex of the mitochondrial intermembrane space that participates in the TIM22 import pathway for assembly of the inner membrane [] Several plant hypothetical proteins that also contain haemerythrin cation binding domains Several protozoan hypothetical proteins that also contain a Myb domain The solution structure of this zinc finger has been solved and binds 3 zinc atoms as shown in the following schematic representation: ++---------+-----+ || | | CXHYxxxxxxxxxCCxxxxxCxxCHxxxxxHxxxxxxxxxxxCxxCxxxxxxxxxCxxC | | | | | | | | +-+-----------------+--+ +--+---------+--+ 'C': conserved cysteine involved in the binding of one zinc atom. 'H': conserved histidine involved in the binding of one zinc atom. More information about these proteins can be found at Protein of the Month: Zinc Fingers []; GO: 0008270 zinc ion binding; PDB: 2DKT_A 2K2C_A.
Probab=99.81 E-value=2.6e-21 Score=174.64 Aligned_cols=70 Identities=43% Similarity=1.062 Sum_probs=53.8
Q ss_pred ccccccc-ccccccccCCcccCcccccccCCCccccccccccccccccccccCCCccCCCccCCcccceEecCcccccc
Q 000906 1007 CKHYKRN-CKLVATCCNSLYTCIRCHDEVADHALDRKSISEMMCMKCLIIQPVGSTCSTTSCKNFSMARYYCRICKLFD 1084 (1231)
Q Consensus 1007 C~HY~R~-ckL~cpCC~k~YpCR~CHDe~~dH~ldR~~~~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~C~iCkl~D 1084 (1231)
|+||+|+ |+|+||||++|||||+|||+.++|+++|+.+++|+||.|+++|++++. + | + |+|+|++|++||
T Consensus 1 C~HY~~~~~~~~~~cC~~~y~C~~CHde~~~H~~~~~~~~~v~Cg~C~~~~~~~~~--~--c-~---~~~~C~~C~~~~ 71 (71)
T PF05495_consen 1 CKHYHRSLCAIRFPCCGKYYPCRFCHDELEDHPFDRWPVKRVICGKCRTEQPIDEY--S--C-G---ADYFCPICGLYF 71 (71)
T ss_dssp -SS---S-EEEEETTTTEEESSHHHHHHCSSS---TTT--EEEETTT--EEES-SB--T--T------SEEETTTTEEE
T ss_pred CCCCCCCcEEEECCcccCeecHHHHHHHhccCccccccccCeECCCCCCccChhhh--h--c-C---CCccCcCcCCCC
Confidence 8999999 999999999999999999999999999999999999999999999977 4 8 6 999999999986
No 3
>PF01814 Hemerythrin: Hemerythrin HHE cation binding domain; InterPro: IPR012312 The haemerythrin family is composed of haemerythrin proteins found in invertebrates, and a broader collection of bacterial and archaeal homologues. Haemerythrin is an oxygen-binding protein found in the vascular system and coelemic fluid, or in muscles (myohaemerythrin) in invertebrates []. Many of the homologous proteins found in prokaryotes are multi-domain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (IPR000160 from INTERPRO) and methyl-accepting chemotaxis protein (MCP) signalling domain (IPR004089 from INTERPRO). Most haemerythrins are oxygen-carriers with a bound non-haem iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. The prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium. Haemerythrins and myohaemerythrins [, ] are small proteins of about 110 to 129 amino acid residues that bind two iron atoms. They are left-twisted 4-alpha-helical bundles, which provide a hydrophobic pocket where dioxygen binds as a peroxo species, interacting with adjacent aliphatic side chains via van der Waals forces []. In both haemerythrins and myohaemerythrins, the active centre is a binuclear iron complex, bound directly to the protein via 7 amino acid side chains [], 5 His, 1 Glu and 1 Asp []. Ovohaemerythrin [], a yolk protein from the leech Theromyzon tessulatum seems to belong to this family of proteins, it may play a role in the detoxification of free iron after a blood meal []. This entry represents a haemerythrin/HHE cation-binding motif that occurs as a duplicated domain in haemerythrin and related proteins. This domain binds iron in haemerythrin, but can bind other metals in related proteins, such as cadmium in a Nereis diversicolor protein (P80255 from SWISSPROT). A bacterial protein, Q7WX96 from SWISSPROT, is a regulator of response to NO, which suggests a different set-up for its metal ligands. A protein from Cryptococcus neoformans (Filobasidiella neoformans) that contains haemerythrin/HHE cation-binding motifs is also involved in NO response []. A Staphylococcus aureus protein (P72360 from SWISSPROT) has been noted to be important when the organism switches to living in environments with low oxygen concentrations; perhaps this protein acts as an oxygen store or scavenger.; PDB: 3CAX_A 3V5Z_B 3U9M_G 3V5Y_A 3U9J_B 3V5X_A 2MHR_A 1A7E_A 1A7D_A 2IGF_P ....
Probab=99.12 E-value=6.3e-10 Score=105.72 Aligned_cols=124 Identities=26% Similarity=0.322 Sum_probs=109.5
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhhHhHHhh---hchhhhhH
Q 000906 36 PILLLVYFHKAQRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVIFLALDAH---IKNVVSTY 112 (1231)
Q Consensus 36 pi~~~~~~HkAlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevIfPaL~~r---~~nv~~~~ 112 (1231)
||+.+...|+.+|+.+..+...+... .++.....+...+..|...+..|+..|++++||.|+.+ .+..+..+
T Consensus 2 ~i~~l~~~H~~~~~~~~~l~~~~~~~-----~~~~~~~~l~~~~~~l~~~l~~H~~~EE~~l~p~l~~~~~~~~~~~~~~ 76 (133)
T PF01814_consen 2 PIDELRRDHRALRRLLAELEEALDEL-----PDDEDLRALRELLDELRRELRHHHAREEEYLFPALERRDPRGDALIAEL 76 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH-----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHH-CCCHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhC-----cCchhHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhccccchhhH
Confidence 57889999999999999999987777 33478899999999999999999999999999999943 55788999
Q ss_pred HhhhhhHHHHHHHHHHHHhhhcCCCCCCCchHHHHHHHHhHHHHHHHHhhHHHHHh
Q 000906 113 SLEHESIDELFDSVFDLLNVLLGGSENVSKPFQEVVFCIGTIKTFICQHMLKEEEQ 168 (1231)
Q Consensus 113 ~~EH~~~d~Lfd~v~~lL~~~~~~~~~~~~~~~eLa~~i~~l~t~l~qHm~~EE~q 168 (1231)
..||..+..+++.+...+.... +. ......+...+..+...+.+||.+||+.
T Consensus 77 ~~eH~~~~~~l~~l~~~~~~~~-~~---~~~~~~~~~~~~~l~~~l~~H~~~Ee~~ 128 (133)
T PF01814_consen 77 RREHEEIRALLDELEEALARYS-GD---EEDAEELREALRALAEWLRRHIAKEEEV 128 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH-HH---HHHHHHHHHHHHHHHHHHHHHHHHTHGG
T ss_pred HHHHHHHHHHHHHHHHHHhhCc-cc---cchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999887 11 1456788888899999999999999999
No 4
>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=99.08 E-value=2.8e-11 Score=99.28 Aligned_cols=44 Identities=39% Similarity=1.112 Sum_probs=38.4
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCC
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICS 1178 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICR 1178 (1231)
++||||+++ +...+.++.++|||.||..|+.+|++.+++||+||
T Consensus 1 d~C~IC~~~-~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEE-FEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCB-HHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChh-hcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 479999999 55567888999999999999999999999999997
No 5
>PF01814 Hemerythrin: Hemerythrin HHE cation binding domain; InterPro: IPR012312 The haemerythrin family is composed of haemerythrin proteins found in invertebrates, and a broader collection of bacterial and archaeal homologues. Haemerythrin is an oxygen-binding protein found in the vascular system and coelemic fluid, or in muscles (myohaemerythrin) in invertebrates []. Many of the homologous proteins found in prokaryotes are multi-domain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (IPR000160 from INTERPRO) and methyl-accepting chemotaxis protein (MCP) signalling domain (IPR004089 from INTERPRO). Most haemerythrins are oxygen-carriers with a bound non-haem iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. The prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium. Haemerythrins and myohaemerythrins [, ] are small proteins of about 110 to 129 amino acid residues that bind two iron atoms. They are left-twisted 4-alpha-helical bundles, which provide a hydrophobic pocket where dioxygen binds as a peroxo species, interacting with adjacent aliphatic side chains via van der Waals forces []. In both haemerythrins and myohaemerythrins, the active centre is a binuclear iron complex, bound directly to the protein via 7 amino acid side chains [], 5 His, 1 Glu and 1 Asp []. Ovohaemerythrin [], a yolk protein from the leech Theromyzon tessulatum seems to belong to this family of proteins, it may play a role in the detoxification of free iron after a blood meal []. This entry represents a haemerythrin/HHE cation-binding motif that occurs as a duplicated domain in haemerythrin and related proteins. This domain binds iron in haemerythrin, but can bind other metals in related proteins, such as cadmium in a Nereis diversicolor protein (P80255 from SWISSPROT). A bacterial protein, Q7WX96 from SWISSPROT, is a regulator of response to NO, which suggests a different set-up for its metal ligands. A protein from Cryptococcus neoformans (Filobasidiella neoformans) that contains haemerythrin/HHE cation-binding motifs is also involved in NO response []. A Staphylococcus aureus protein (P72360 from SWISSPROT) has been noted to be important when the organism switches to living in environments with low oxygen concentrations; perhaps this protein acts as an oxygen store or scavenger.; PDB: 3CAX_A 3V5Z_B 3U9M_G 3V5Y_A 3U9J_B 3V5X_A 2MHR_A 1A7E_A 1A7D_A 2IGF_P ....
Probab=98.99 E-value=5.3e-09 Score=99.41 Aligned_cols=131 Identities=21% Similarity=0.293 Sum_probs=103.8
Q ss_pred CchhHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHhhcccccccccchhcc-ccccccchhhhHhH
Q 000906 592 PMDLIFFFHKALKKDLDYLVFGSAQLAENALFLVEFHRRFNLIRLLYEIHSDAEDEIAFPAMEAK-GKLQNISHSYSIDH 670 (1231)
Q Consensus 592 Pid~If~fHKALRrEL~~L~~~a~rl~~D~~~l~~~~~Rf~~L~~~yr~Hs~aEDEvIfPALeaR-~~l~NVs~syslEH 670 (1231)
||+.|...|+.||+.+..|.....+. +++.....+...+..|...+..|+..|++++||.|+.+ .........+..+|
T Consensus 2 ~i~~l~~~H~~~~~~~~~l~~~~~~~-~~~~~~~~l~~~~~~l~~~l~~H~~~EE~~l~p~l~~~~~~~~~~~~~~~~eH 80 (133)
T PF01814_consen 2 PIDELRRDHRALRRLLAELEEALDEL-PDDEDLRALRELLDELRRELRHHHAREEEYLFPALERRDPRGDALIAELRREH 80 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHH-CCCHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhC-cCchhHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhccccchhhHHHHH
Confidence 68889999999999999999888888 77778999999999999999999999999999999932 23335555666777
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 000906 671 RLEAEHFKKISNILIEMLELQASVSSNESNAQDKRMLKYKQLCIRLQDICKSMHKLLSEHIHREETELWPLF 742 (1231)
Q Consensus 671 k~Ee~Lf~~Is~lLa~l~~L~~~~~a~~~~~~~~~~~~y~~La~~La~~~~aL~tsL~qHL~~EE~el~PLl 742 (1231)
.....+.+.|...+.... . -......+...++.+...+..||..||..++|++
T Consensus 81 ~~~~~~l~~l~~~~~~~~----------~---------~~~~~~~~~~~~~~l~~~l~~H~~~Ee~~l~P~~ 133 (133)
T PF01814_consen 81 EEIRALLDELEEALARYS----------G---------DEEDAEELREALRALAEWLRRHIAKEEEVLFPLL 133 (133)
T ss_dssp HHHHHHHHHHHHHHHHHH----------H---------HHHHHHHHHHHHHHHHHHHHHHHHHTHGGGHHHH
T ss_pred HHHHHHHHHHHHHHhhCc----------c---------ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 776666666666665442 0 1133445556678899999999999999999985
No 6
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=98.97 E-value=8.6e-11 Score=111.11 Aligned_cols=67 Identities=27% Similarity=0.692 Sum_probs=55.2
Q ss_pred ccccccccccc---ccccccccCCcccCcccccccCCCccccc-----cccccccccccccccCC-----CccCCCccCC
Q 000906 1003 LIFGCKHYKRN---CKLVATCCNSLYTCIRCHDEVADHALDRK-----SISEMMCMKCLIIQPVG-----STCSTTSCKN 1069 (1231)
Q Consensus 1003 ~~~GC~HY~R~---ckL~cpCC~k~YpCR~CHDe~~dH~ldR~-----~~~~m~C~~C~~~Qp~~-----~~C~~~sC~g 1069 (1231)
+...|.||+.. ++|+|.||+|||+|..|||+.++||+.++ ..+.|+||.|.+..... ..|++ | .
T Consensus 11 ~etRC~Hyht~~Diialkc~~C~kyYaCy~CHdel~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~EY~~~~~Cp~--C-~ 87 (105)
T COG4357 11 QETRCLHYHTPLDIIALKCKCCQKYYACYHCHDELEDHPFEPWGLQEFNPKAIICGVCRKLLTRAEYGMCGSCPY--C-Q 87 (105)
T ss_pred ccceeeEecCccceEeeeechhhhhhhHHHHHhHHhcCCCccCChhhcCCccEEhhhhhhhhhHHHHhhcCCCCC--c-C
Confidence 45689999999 89999999999999999999999998774 34679999998874332 35866 8 6
Q ss_pred ccc
Q 000906 1070 FSM 1072 (1231)
Q Consensus 1070 ~~f 1072 (1231)
.+|
T Consensus 88 spF 90 (105)
T COG4357 88 SPF 90 (105)
T ss_pred CCC
Confidence 665
No 7
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.94 E-value=5e-10 Score=104.84 Aligned_cols=48 Identities=27% Similarity=0.621 Sum_probs=40.8
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhcc---CCCCCCCCccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT---HYTCPICSKSL 1181 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~---~~tCPICRksv 1181 (1231)
+++.||.|..+ +...+++...|||.||.+||.+|+++ +.+||+||+..
T Consensus 31 fdg~Cp~Ck~P--gd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 31 FDGCCPDCKFP--GDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred cccCCCCccCC--CCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 46789999877 56678888899999999999999854 57899999875
No 8
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.1e-09 Score=123.40 Aligned_cols=57 Identities=32% Similarity=0.811 Sum_probs=48.5
Q ss_pred CCCCCCCcccccccccCC---------CCceEcCcCCcccHHhHHHhhccCCCCCCCCcc-ccChHH
Q 000906 1130 KSFMDNCPICHEDLFSST---------NPAKALPCGHMMHSTCFQDYTCTHYTCPICSKS-LGDMKV 1186 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf~s~---------~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRks-v~dm~~ 1186 (1231)
...+..|.||+++|+.++ ...+.|||||.+|.+|++.|+++..+|||||.+ ++|+..
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~ 350 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSS 350 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccCC
Confidence 456788999999988665 345789999999999999999999999999999 456543
No 9
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.78 E-value=3.6e-09 Score=96.46 Aligned_cols=47 Identities=38% Similarity=0.836 Sum_probs=37.7
Q ss_pred CCCCCcccccccccC---------CCCceEcCcCCcccHHhHHHhhccCCCCCCCC
Q 000906 1132 FMDNCPICHEDLFSS---------TNPAKALPCGHMMHSTCFQDYTCTHYTCPICS 1178 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s---------~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICR 1178 (1231)
.+++|+||+++|.+. ..++..++|||.||.+||.+|++.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 356799999997332 24566779999999999999999999999998
No 10
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=2.1e-09 Score=122.41 Aligned_cols=49 Identities=31% Similarity=0.885 Sum_probs=44.4
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccC-CCCCCCCccccC
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTH-YTCPICSKSLGD 1183 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~-~tCPICRksv~d 1183 (1231)
..|+||+|+ |..++.++.|||+|.||..|++.|+..+ ..||+|++++..
T Consensus 230 ~~CaIClEd-Y~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLED-YEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecc-cccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 689999999 9999999999999999999999998555 559999998864
No 11
>PRK10992 iron-sulfur cluster repair di-iron protein; Provisional
Probab=98.66 E-value=2.7e-07 Score=100.21 Aligned_cols=126 Identities=18% Similarity=0.220 Sum_probs=106.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhhHhHHhh----hchhhhhHHhhhh
Q 000906 42 YFHKAQRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVIFLALDAH----IKNVVSTYSLEHE 117 (1231)
Q Consensus 42 ~~HkAlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevIfPaL~~r----~~nv~~~~~~EH~ 117 (1231)
..|.-+|++|..|.+++..+.+...++.....++..-|+-|..-+..|+..|..++||+|... +.+....|..||+
T Consensus 82 ~~H~~~r~~lp~L~~l~~kv~~vhg~~~~~~~~~~~l~~~~~~el~~H~~kEE~~LFP~l~~~~~~~~~~pi~vm~~EHd 161 (220)
T PRK10992 82 RYHDRHREQLPELILLATKVERVHGDKPDCPRGLAKYLTALHEELSSHMMKEEQILFPMIKQGMGSQAMGPISVMESEHD 161 (220)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcccccccchHHHHHHHHH
Confidence 569999999999999998877654455567788899999999999999999999999999973 4467889999999
Q ss_pred hHHHHHHHHHHHHhhhcCCCCCCCchHHHHHHHHhHHHHHHHHhhHHHHHh
Q 000906 118 SIDELFDSVFDLLNVLLGGSENVSKPFQEVVFCIGTIKTFICQHMLKEEEQ 168 (1231)
Q Consensus 118 ~~d~Lfd~v~~lL~~~~~~~~~~~~~~~eLa~~i~~l~t~l~qHm~~EE~q 168 (1231)
.+..++..+.++.+......+ ....++.+...+..+...|.+|..+|+..
T Consensus 162 ~~~~~l~~L~~lt~~~~~p~~-ac~~~~~l~~~l~~~~~dL~~HI~~Enni 211 (220)
T PRK10992 162 EAGELLEVIKHLTNNVTPPPE-ACTTWRALYNGINELIDDLMEHIHLENNV 211 (220)
T ss_pred HHHHHHHHHHHHHhcCCCChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999887643222 22458888888899999999999999999
No 12
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.60 E-value=2.1e-08 Score=92.61 Aligned_cols=50 Identities=24% Similarity=0.519 Sum_probs=40.5
Q ss_pred CCCCcccccccc-cCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLF-SSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf-~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
.+.||-|.-.+- +...++...-|.|.||.+||..|+.++..||+||++..
T Consensus 31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 467888876442 23346677889999999999999999999999999864
No 13
>TIGR03652 FeS_repair_RIC iron-sulfur cluster repair di-iron protein. Members of this protein family, designated variously as YftE, NorA, DrnN, and NipC, are di-iron proteins involved in the repair of iron-sulfur clusters. Previously assigned names reflect pleiotropic effects of damage from NO or other oxidative stress when this protein is mutated. The suggested name now is RIC, for Repair of Iron Centers.
Probab=98.54 E-value=9.1e-07 Score=95.48 Aligned_cols=126 Identities=19% Similarity=0.241 Sum_probs=106.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhhHhHHh--h-h-----chhhhhHH
Q 000906 42 YFHKAQRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVIFLALDA--H-I-----KNVVSTYS 113 (1231)
Q Consensus 42 ~~HkAlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevIfPaL~~--r-~-----~nv~~~~~ 113 (1231)
.-|..+|++|..|.+++..+.+....+...+..+..-|+.|..-+..|+..|..++||+|.. + . .+.+..|.
T Consensus 78 ~hH~~i~~~l~~L~~l~~kv~~~hg~~~~~l~~l~~~~~~~~~eL~~H~~kEE~~LFP~l~~~~~g~~~~~~~~pi~~m~ 157 (216)
T TIGR03652 78 RHHEYLREELPELIPLATKVARVHGDHHPELIGLAELFRELKAELEQHLMKEEQILFPAIIEYKRGNPAQAIGTPISVME 157 (216)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHccCccccccchHHHHH
Confidence 77999999999999999888765555567778999999999999999999999999999985 2 2 23788999
Q ss_pred hhhhhHHHHHHHHHHHHhhhcCCCCCCCchHHHHHHHHhHHHHHHHHhhHHHHHh
Q 000906 114 LEHESIDELFDSVFDLLNVLLGGSENVSKPFQEVVFCIGTIKTFICQHMLKEEEQ 168 (1231)
Q Consensus 114 ~EH~~~d~Lfd~v~~lL~~~~~~~~~~~~~~~eLa~~i~~l~t~l~qHm~~EE~q 168 (1231)
.||+.+..++.++..+.+......+ +...++.+...+..+...|.+|..+||..
T Consensus 158 ~EH~~~~~~l~~L~~l~~~~~~p~~-ac~~~~~~~~~l~~~~~~L~~HI~~En~i 211 (216)
T TIGR03652 158 SEHDEAGDLLKELRELTNDYTPPED-ACNTWRALYSGLEELEDDLHEHIHLENNI 211 (216)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCcc-hhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999987654332 22457788788888888999999999999
No 14
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=1.8e-08 Score=92.33 Aligned_cols=49 Identities=24% Similarity=0.579 Sum_probs=40.3
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhc---cCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTC---THYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~---~~~tCPICRksv~ 1182 (1231)
+++.||-|+-+ +++.|++..-|.|.||.+||.+|+. +...||+||++..
T Consensus 30 Fdg~Cp~Ck~P--gDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 30 FDGCCPDCKLP--GDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred cCCcCCCCcCC--CCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 46789999866 6777887778999999999999973 3477999998753
No 15
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.51 E-value=6.9e-08 Score=105.81 Aligned_cols=53 Identities=23% Similarity=0.535 Sum_probs=42.2
Q ss_pred CCCCCCcccccccccCCC----CceEcCcCCcccHHhHHHhhccCCCCCCCCccccC
Q 000906 1131 SFMDNCPICHEDLFSSTN----PAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1131 s~e~~CPIClE~Lf~s~~----~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~d 1183 (1231)
+.+..||||++.+..... -.+..+|||.||..|+.+|++.+.+||+||+.+..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 446789999999654321 12345899999999999999999999999998853
No 16
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=98.47 E-value=1.8e-08 Score=89.49 Aligned_cols=45 Identities=36% Similarity=0.530 Sum_probs=12.6
Q ss_pred ccChHHHHHHhHHHHhhcCCChhhhcccCCCCCcccCCCCCCCCCcccc
Q 000906 1181 LGDMKVYFSMLDALLAEEKMPPEYLGQTQVRNPLIPLNVANVSPDIFFD 1229 (1231)
Q Consensus 1181 v~dm~~~f~~LD~eia~qpmPeeyr~~~q~~~~~i~Cn~C~ss~~~~f~ 1229 (1231)
++||+.+|+.||.+|+++|||++|+++. ++|+||+|+.++++.|+
T Consensus 1 v~dM~~~w~~LD~~i~~~pmP~~Y~~~~----v~IlCNDC~~~s~v~fH 45 (61)
T PF14599_consen 1 VVDMSAYWRMLDAEIAATPMPEEYRNKK----VWILCNDCNAKSEVPFH 45 (61)
T ss_dssp ---------------------------E----EEEEESSS--EEEEE--
T ss_pred CCCHHHHHHHHHHHHHhCCCCHHHhCCE----EEEECCCCCCccceeee
Confidence 4799999999999999999999999975 69999999999998876
No 17
>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=98.46 E-value=1.2e-07 Score=75.25 Aligned_cols=44 Identities=36% Similarity=1.059 Sum_probs=36.9
Q ss_pred CCcccccccccCCCCceEcCcCCcccHHhHHHhhcc-CCCCCCCCccc
Q 000906 1135 NCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT-HYTCPICSKSL 1181 (1231)
Q Consensus 1135 ~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~-~~tCPICRksv 1181 (1231)
.|+||++.+ ..++...+|||.||..|+..|+.. +.+||+|++.+
T Consensus 1 ~C~iC~~~~---~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF---REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh---hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999985 345566779999999999999876 78899999764
No 18
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.43 E-value=9.2e-08 Score=106.19 Aligned_cols=57 Identities=25% Similarity=0.661 Sum_probs=47.8
Q ss_pred ccccccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhc-cCCCCCCCCccc
Q 000906 1124 VHICREKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTC-THYTCPICSKSL 1181 (1231)
Q Consensus 1124 ~HkC~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~-~~~tCPICRksv 1181 (1231)
...-.|.....+|+|||++ |...+.+++|||.|.||..|++.|+. .+.+||+||..+
T Consensus 314 ~e~~~ea~~GveCaICms~-fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~i 371 (374)
T COG5540 314 IERAVEADKGVECAICMSN-FIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAI 371 (374)
T ss_pred hHhHHhcCCCceEEEEhhh-hcccceEEEeccCceechhHHHHHHhhhcccCCccCCCC
Confidence 3344455566899999999 67777899999999999999999985 678999999765
No 19
>PRK10992 iron-sulfur cluster repair di-iron protein; Provisional
Probab=98.41 E-value=2e-06 Score=93.56 Aligned_cols=136 Identities=16% Similarity=0.209 Sum_probs=98.9
Q ss_pred chhHH-HHHHHHHHHHHHHHHHhcccc---C-CHHHHHHHHHHHHHHHHHHHHhhcccccccccchhcccc--ccccchh
Q 000906 593 MDLIF-FFHKALKKDLDYLVFGSAQLA---E-NALFLVEFHRRFNLIRLLYEIHSDAEDEIAFPAMEAKGK--LQNISHS 665 (1231)
Q Consensus 593 id~If-~fHKALRrEL~~L~~~a~rl~---~-D~~~l~~~~~Rf~~L~~~yr~Hs~aEDEvIfPALeaR~~--l~NVs~s 665 (1231)
||.|. ..|.-+|++|..|..++.++. | +......+..-|+-|..-+..|+..|.+++||+|+...+ +.+....
T Consensus 76 idyI~~~~H~~~r~~lp~L~~l~~kv~~vhg~~~~~~~~~~~l~~~~~~el~~H~~kEE~~LFP~l~~~~~~~~~~pi~v 155 (220)
T PRK10992 76 IDHIIVRYHDRHREQLPELILLATKVERVHGDKPDCPRGLAKYLTALHEELSSHMMKEEQILFPMIKQGMGSQAMGPISV 155 (220)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcccccccchHHH
Confidence 56665 889999999999999888776 4 667788999999999999999999999999999995321 2344556
Q ss_pred hhHhHHHHHHHHHHHHHHHHHHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHh
Q 000906 666 YSIDHRLEAEHFKKISNILIEMLELQASVSSNESNAQDKRMLKYKQLCIRLQDICKSMHKLLSEHIHREETELWPLFRE 744 (1231)
Q Consensus 666 yslEHk~Ee~Lf~~Is~lLa~l~~L~~~~~a~~~~~~~~~~~~y~~La~~La~~~~aL~tsL~qHL~~EE~el~PLl~~ 744 (1231)
+..||....+++.+|..+.+.. .... ..-..|+.+-.. ++.+..-|.+|+++||..+||.+..
T Consensus 156 m~~EHd~~~~~l~~L~~lt~~~----------~~p~--~ac~~~~~l~~~----l~~~~~dL~~HI~~EnniLFP~a~~ 218 (220)
T PRK10992 156 MESEHDEAGELLEVIKHLTNNV----------TPPP--EACTTWRALYNG----INELIDDLMEHIHLENNVLFPRALA 218 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC----------CCCh--hhhHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 6678888777777666665432 1101 011123333333 4557777999999999999998754
No 20
>TIGR03652 FeS_repair_RIC iron-sulfur cluster repair di-iron protein. Members of this protein family, designated variously as YftE, NorA, DrnN, and NipC, are di-iron proteins involved in the repair of iron-sulfur clusters. Previously assigned names reflect pleiotropic effects of damage from NO or other oxidative stress when this protein is mutated. The suggested name now is RIC, for Repair of Iron Centers.
Probab=98.33 E-value=2.8e-06 Score=91.76 Aligned_cols=133 Identities=23% Similarity=0.333 Sum_probs=96.0
Q ss_pred chhHH-HHHHHHHHHHHHHHHHhcccc----CCHHHHHHHHHHHHHHHHHHHHhhcccccccccchhc--cccc----cc
Q 000906 593 MDLIF-FFHKALKKDLDYLVFGSAQLA----ENALFLVEFHRRFNLIRLLYEIHSDAEDEIAFPAMEA--KGKL----QN 661 (1231)
Q Consensus 593 id~If-~fHKALRrEL~~L~~~a~rl~----~D~~~l~~~~~Rf~~L~~~yr~Hs~aEDEvIfPALea--R~~l----~N 661 (1231)
||.|. ..|+.||++|..|..++.++. .+...+..+..-|+.|..-+..|+.-|.+++||+|+. ++.. .+
T Consensus 72 id~i~~~hH~~i~~~l~~L~~l~~kv~~~hg~~~~~l~~l~~~~~~~~~eL~~H~~kEE~~LFP~l~~~~~g~~~~~~~~ 151 (216)
T TIGR03652 72 IDHIVDRHHEYLREELPELIPLATKVARVHGDHHPELIGLAELFRELKAELEQHLMKEEQILFPAIIEYKRGNPAQAIGT 151 (216)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHccCccccccc
Confidence 56666 899999999999988887775 3667788999999999999999999999999999984 2221 22
Q ss_pred cchhhhHhHHHHHHHHHHHHHHHHHHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 000906 662 ISHSYSIDHRLEAEHFKKISNILIEMLELQASVSSNESNAQDKRMLKYKQLCIRLQDICKSMHKLLSEHIHREETELWPL 741 (1231)
Q Consensus 662 Vs~syslEHk~Ee~Lf~~Is~lLa~l~~L~~~~~a~~~~~~~~~~~~y~~La~~La~~~~aL~tsL~qHL~~EE~el~PL 741 (1231)
....+..||....+++.+|..+.... .... .+. ..|+.+... +..+..-|.+|+++||..+||.
T Consensus 152 pi~~m~~EH~~~~~~l~~L~~l~~~~-------~~p~-~ac----~~~~~~~~~----l~~~~~~L~~HI~~En~iLFP~ 215 (216)
T TIGR03652 152 PISVMESEHDEAGDLLKELRELTNDY-------TPPE-DAC----NTWRALYSG----LEELEDDLHEHIHLENNILFPR 215 (216)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHcCC-------CCCc-chh----HHHHHHHHH----HHHHHHHHHHHHHHHHhhcccC
Confidence 56677788888777777666666332 1010 011 123333322 4556677999999999999995
No 21
>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=98.32 E-value=2.2e-07 Score=74.83 Aligned_cols=39 Identities=38% Similarity=1.082 Sum_probs=33.0
Q ss_pred CcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCC
Q 000906 1136 CPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPIC 1177 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPIC 1177 (1231)
||||++.+. ++++.++|||.|+..|+.+|++.+.+||+|
T Consensus 1 C~iC~~~~~---~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELR---DPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-S---SEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCccc---CcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 899998843 266789999999999999999888999998
No 22
>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=98.24 E-value=3.8e-07 Score=77.01 Aligned_cols=47 Identities=32% Similarity=0.837 Sum_probs=38.9
Q ss_pred CCCCcccccccccCCCCceEcCcCCc-ccHHhHHHhhccCCCCCCCCccccC
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHM-MHSTCFQDYTCTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~-fH~~Ci~~wl~~~~tCPICRksv~d 1183 (1231)
+..|+||++.. ..+..+||||. |+..|+..|++...+||+||+++.+
T Consensus 2 ~~~C~iC~~~~----~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENP----RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSB----SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccC----CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 36799999872 34788899999 9999999999999999999998753
No 23
>PRK13276 cell wall biosynthesis protein ScdA; Provisional
Probab=98.23 E-value=1.1e-05 Score=88.05 Aligned_cols=126 Identities=17% Similarity=0.203 Sum_probs=108.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhhHhHHhh--------hchhhhhHH
Q 000906 42 YFHKAQRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVIFLALDAH--------IKNVVSTYS 113 (1231)
Q Consensus 42 ~~HkAlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevIfPaL~~r--------~~nv~~~~~ 113 (1231)
..|.-+|++|..|..++..|.+--.++......+..-|..++.-+..|..-|..++||++... +.+....|.
T Consensus 85 ~hH~~~r~~lp~l~~l~~kV~~VHg~~~p~l~~l~~lf~~l~~eL~~H~~KEE~ilFP~i~~~~~~~~~~~~~~pI~~m~ 164 (224)
T PRK13276 85 AYHEPLREEFKNLTPYVTKLSKVHGPNHPYLVELKETYDTFKNGMLEHMQKEDDVDFPKLIKYEQGEVVDDINTVIDDLV 164 (224)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhccccchhhhhHHHHHH
Confidence 789999999999999998888654444457889999999999999999999999999999762 345789999
Q ss_pred hhhhhHHHHHHHHHHHHhhhcCCCCCCCchHHHHHHHHhHHHHHHHHhhHHHHHh
Q 000906 114 LEHESIDELFDSVFDLLNVLLGGSENVSKPFQEVVFCIGTIKTFICQHMLKEEEQ 168 (1231)
Q Consensus 114 ~EH~~~d~Lfd~v~~lL~~~~~~~~~~~~~~~eLa~~i~~l~t~l~qHm~~EE~q 168 (1231)
.||+++.+++.+|.++.+......++ -..||.|=..+.++...|.+|.+.|-.-
T Consensus 165 ~EH~~~g~~l~~i~~lTn~yt~P~~A-C~t~r~ly~~L~~fe~dL~~HIhLENnI 218 (224)
T PRK13276 165 SDHIATGQLLVKMSELTSSYEPPIEA-CGTWRLVYQRLKALEVLTHEHVHLENHV 218 (224)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCCcch-hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999988765553 3568888888888899999999999877
No 24
>PRK13276 cell wall biosynthesis protein ScdA; Provisional
Probab=98.15 E-value=7.7e-06 Score=89.31 Aligned_cols=132 Identities=21% Similarity=0.337 Sum_probs=100.0
Q ss_pred chhHH-HHHHHHHHHHHHHHHHhcccc----CCHHHHHHHHHHHHHHHHHHHHhhcccccccccchhccc--c----ccc
Q 000906 593 MDLIF-FFHKALKKDLDYLVFGSAQLA----ENALFLVEFHRRFNLIRLLYEIHSDAEDEIAFPAMEAKG--K----LQN 661 (1231)
Q Consensus 593 id~If-~fHKALRrEL~~L~~~a~rl~----~D~~~l~~~~~Rf~~L~~~yr~Hs~aEDEvIfPALeaR~--~----l~N 661 (1231)
||.|. ..|.-+|++|..|..++.++. ++...+..+...|..++.-+..|-.-|..++||++.... + +.+
T Consensus 79 id~I~~~hH~~~r~~lp~l~~l~~kV~~VHg~~~p~l~~l~~lf~~l~~eL~~H~~KEE~ilFP~i~~~~~~~~~~~~~~ 158 (224)
T PRK13276 79 IQYIQSAYHEPLREEFKNLTPYVTKLSKVHGPNHPYLVELKETYDTFKNGMLEHMQKEDDVDFPKLIKYEQGEVVDDINT 158 (224)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhccccchhhhh
Confidence 66776 899999999999999998887 466689999999999999999999999999999997622 1 223
Q ss_pred cchhhhHhHHHHHHHHHHHHHHHHHHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 000906 662 ISHSYSIDHRLEAEHFKKISNILIEMLELQASVSSNESNAQDKRMLKYKQLCIRLQDICKSMHKLLSEHIHREETELWP 740 (1231)
Q Consensus 662 Vs~syslEHk~Ee~Lf~~Is~lLa~l~~L~~~~~a~~~~~~~~~~~~y~~La~~La~~~~aL~tsL~qHL~~EE~el~P 740 (1231)
.-..+..||..+.+.+..|..+-+..+ .-+++.....+.|.. ++++..-|.+|++.|-.-+||
T Consensus 159 pI~~m~~EH~~~g~~l~~i~~lTn~yt--------~P~~AC~t~r~ly~~--------L~~fe~dL~~HIhLENnILFP 221 (224)
T PRK13276 159 VIDDLVSDHIATGQLLVKMSELTSSYE--------PPIEACGTWRLVYQR--------LKALEVLTHEHVHLENHVLFK 221 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCC--------CCcchhHHHHHHHHH--------HHHHHHHHHHHHHHHHHHccc
Confidence 446677888888887777777765442 111222233334443 445666699999999999998
No 25
>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=98.09 E-value=2.3e-06 Score=65.59 Aligned_cols=38 Identities=42% Similarity=1.082 Sum_probs=32.9
Q ss_pred CcccccccccCCCCceEcCcCCcccHHhHHHhhc-cCCCCCCC
Q 000906 1136 CPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTC-THYTCPIC 1177 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~-~~~tCPIC 1177 (1231)
|+||++. ....+.++|||.||..|+..|+. .+.+||+|
T Consensus 1 C~iC~~~----~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEE----LKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccC----CCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 8999987 34678889999999999999987 66789998
No 26
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.08 E-value=2.6e-06 Score=70.46 Aligned_cols=44 Identities=32% Similarity=0.881 Sum_probs=38.4
Q ss_pred CCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCc
Q 000906 1135 NCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSK 1179 (1231)
Q Consensus 1135 ~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRk 1179 (1231)
.|+||.+. |.......+++|||.|+..|+..+......||+|++
T Consensus 1 ~C~~C~~~-~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEK-YSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCcc-ccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 49999999 555667788999999999999999977788999996
No 27
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=6.1e-07 Score=86.55 Aligned_cols=33 Identities=24% Similarity=0.487 Sum_probs=29.7
Q ss_pred CceEcCcCCcccHHhHHHhhccCCCCCCCCccc
Q 000906 1149 PAKALPCGHMMHSTCFQDYTCTHYTCPICSKSL 1181 (1231)
Q Consensus 1149 ~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv 1181 (1231)
.|...-|.|.||.+||..|++++..||+|.+.-
T Consensus 75 ~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 75 TVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred EEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 456678999999999999999999999999864
No 28
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=1.7e-06 Score=104.67 Aligned_cols=53 Identities=38% Similarity=0.800 Sum_probs=44.4
Q ss_pred cCCCCCCCcccccccccCCC-CceEcCcCCcccHHhHHHhhccCCCCCCCCccc
Q 000906 1129 EKSFMDNCPICHEDLFSSTN-PAKALPCGHMMHSTCFQDYTCTHYTCPICSKSL 1181 (1231)
Q Consensus 1129 E~s~e~~CPIClE~Lf~s~~-~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv 1181 (1231)
....+..|+||.|.|..... ....|||||.||..|+..|++..++||+||..+
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 44457899999999876432 246799999999999999999999999999844
No 29
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.99 E-value=3.7e-06 Score=69.48 Aligned_cols=38 Identities=34% Similarity=0.937 Sum_probs=28.0
Q ss_pred CcccccccccCCCCceEcCcCCcccHHhHHHhhccC----CCCCCC
Q 000906 1136 CPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTH----YTCPIC 1177 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~----~tCPIC 1177 (1231)
||||++.+. ..+.|+|||.|...|+..|++.. +.||+|
T Consensus 1 CpiC~~~~~----~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK----DPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S----SEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhC----CccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999853 45779999999999999997432 679998
No 30
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=3.3e-06 Score=88.54 Aligned_cols=48 Identities=31% Similarity=0.737 Sum_probs=39.5
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
-..|||||+. +... ..+...|||.|+..||...++....||+|+|.|.
T Consensus 131 ~~~CPiCl~~-~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 131 TYKCPICLDS-VSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccCCCceecc-hhhc-cccccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 3789999998 4332 2244799999999999999999999999999663
No 31
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.97 E-value=6.1e-06 Score=88.05 Aligned_cols=51 Identities=22% Similarity=0.604 Sum_probs=39.5
Q ss_pred ccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhcc----------------CCCCCCCCcccc
Q 000906 1128 REKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT----------------HYTCPICSKSLG 1182 (1231)
Q Consensus 1128 ~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~----------------~~tCPICRksv~ 1182 (1231)
++...+..||||++.+ ...++++|||.||..|+..|+.. ..+||+||..+.
T Consensus 13 ~~~~~~~~CpICld~~----~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 13 VDSGGDFDCNICLDQV----RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred ccCCCccCCccCCCcC----CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 3344567899999973 23466899999999999999731 357999999984
No 32
>PHA02926 zinc finger-like protein; Provisional
Probab=97.95 E-value=5e-06 Score=89.98 Aligned_cols=53 Identities=28% Similarity=0.544 Sum_probs=40.7
Q ss_pred CCCCCCCcccccccccCC-----CCceEcCcCCcccHHhHHHhhccC------CCCCCCCcccc
Q 000906 1130 KSFMDNCPICHEDLFSST-----NPAKALPCGHMMHSTCFQDYTCTH------YTCPICSKSLG 1182 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf~s~-----~~v~~LpCGH~fH~~Ci~~wl~~~------~tCPICRksv~ 1182 (1231)
.+.+..|+||+|.++... ......+|+|.||..|+..|.+.+ .+||+||..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 455789999999876532 123445999999999999998542 45999999875
No 33
>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=97.91 E-value=4.8e-06 Score=67.15 Aligned_cols=39 Identities=38% Similarity=1.034 Sum_probs=32.7
Q ss_pred CcccccccccCCCCceEcCcCCcccHHhHHHhhc--cCCCCCCC
Q 000906 1136 CPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTC--THYTCPIC 1177 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~--~~~tCPIC 1177 (1231)
|+||++.+. .++..++|||.|+..|+.+|++ ...+||+|
T Consensus 1 C~iC~~~~~---~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFE---DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCS---SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCcccc---CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999842 2346899999999999999987 56789998
No 34
>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=97.83 E-value=1.6e-05 Score=69.07 Aligned_cols=45 Identities=27% Similarity=0.456 Sum_probs=38.4
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
-.||||++.|- . + +.++|||.|...|+.+|+..+.+||+|++.+.
T Consensus 2 ~~Cpi~~~~~~-~--P-v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMK-D--P-VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCC-C--C-EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 46999999853 2 3 56799999999999999988889999999873
No 35
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.82 E-value=2.9e-06 Score=102.89 Aligned_cols=51 Identities=18% Similarity=0.472 Sum_probs=41.7
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccC
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~d 1183 (1231)
....||+|+.. |.......-.+|+|+||.+||..|.+...+||+||+.++.
T Consensus 122 ~~~~CP~Ci~s-~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 122 VENQCPNCLKS-CNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhhHHHHH-HHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 35679999977 5444333446899999999999999999999999998854
No 36
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.82 E-value=9.5e-06 Score=67.71 Aligned_cols=39 Identities=41% Similarity=1.094 Sum_probs=23.8
Q ss_pred CcccccccccCCCCceEcCcCCcccHHhHHHhhcc----CCCCC
Q 000906 1136 CPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT----HYTCP 1175 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~----~~tCP 1175 (1231)
||||+| +-+...+.++|+|||.|...|++.+.+. ..+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 999999 4555667788999999999999999853 45687
No 37
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=1.3e-05 Score=89.38 Aligned_cols=46 Identities=26% Similarity=0.792 Sum_probs=38.8
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
...|.+|+|..- .....||||.|+..||..|.+.+.-||+||..+.
T Consensus 239 ~~kC~LCLe~~~----~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 239 TRKCSLCLENRS----NPSATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CCceEEEecCCC----CCCcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 356999999843 3356899999999999999998889999998774
No 38
>COG2846 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]
Probab=97.59 E-value=0.00052 Score=73.64 Aligned_cols=130 Identities=19% Similarity=0.232 Sum_probs=107.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhhHhHHhh----hchhhhhHH
Q 000906 38 LLLVYFHKAQRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVIFLALDAH----IKNVVSTYS 113 (1231)
Q Consensus 38 ~~~~~~HkAlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevIfPaL~~r----~~nv~~~~~ 113 (1231)
.|...+|.-.|.+|.+|..+|..+.+-..+-+.--..|..-++-|+.-+.-|-.-|++++||.+..- +.+....|+
T Consensus 79 hIi~ryH~~hReqlpeLi~latKverVHgd~p~~p~gl~~~L~~l~~eL~~HMmKEEqIlFPmi~~G~g~~a~~pI~vm~ 158 (221)
T COG2846 79 HIIVRYHERHREQLPELIPLATKVERVHGDKPSCPAGLAELLEALKEELESHMMKEEQILFPMIKQGMGSQAAGPISVME 158 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhHHHHhccCcccCcchHHHH
Confidence 3556899999999999999999998755555567788888889999999999999999999999764 335778899
Q ss_pred hhhhhHHHHHHHHHHHHhhhcCCCCCCCchHHHHHHHHhHHHHHHHHhhHHHHHh
Q 000906 114 LEHESIDELFDSVFDLLNVLLGGSENVSKPFQEVVFCIGTIKTFICQHMLKEEEQ 168 (1231)
Q Consensus 114 ~EH~~~d~Lfd~v~~lL~~~~~~~~~~~~~~~eLa~~i~~l~t~l~qHm~~EE~q 168 (1231)
.||++..++++.+.++-+...-..++ =..++.|=.-+.++.+-+..|++-|---
T Consensus 159 ~EHde~g~~l~~lk~lT~n~tpP~~A-C~tWkalY~gl~~~~dDl~~HIHLENnv 212 (221)
T COG2846 159 SEHDEAGELLEVLKHLTNNYTPPEEA-CGTWKALYNGLNEFIDDLMEHIHLENNV 212 (221)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCChHH-HhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 99999999999999998887655543 2356777777777888999999998766
No 39
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.53 E-value=4.7e-05 Score=89.21 Aligned_cols=46 Identities=24% Similarity=0.551 Sum_probs=39.1
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
...|+||++.+. .+ +.++|||.||..|+..|+.....||+|+..+.
T Consensus 26 ~l~C~IC~d~~~---~P-vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 26 SLRCHICKDFFD---VP-VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred ccCCCcCchhhh---Cc-cCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 468999998842 23 46899999999999999988888999999885
No 40
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.50 E-value=3.2e-05 Score=90.67 Aligned_cols=50 Identities=26% Similarity=0.663 Sum_probs=38.1
Q ss_pred CCCCcccccccc----cCC---------CCceEcCcCCcccHHhHHHhhc-cCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLF----SST---------NPAKALPCGHMMHSTCFQDYTC-THYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf----~s~---------~~v~~LpCGH~fH~~Ci~~wl~-~~~tCPICRksv~ 1182 (1231)
..+|+|||.++- +++ ...++.||.|.||..|+.+|+. .+..||+||.++.
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 467888888762 111 2345669999999999999997 5668999998763
No 41
>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=97.44 E-value=0.0001 Score=83.73 Aligned_cols=50 Identities=22% Similarity=0.541 Sum_probs=38.2
Q ss_pred CCCCcccccccccCCCC-ceEcCcCCcccHHhHHHhh-ccCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNP-AKALPCGHMMHSTCFQDYT-CTHYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~-v~~LpCGH~fH~~Ci~~wl-~~~~tCPICRksv~ 1182 (1231)
+..||||+...+.+..- ..+-+|||.|+.+|++..+ .....||.|++++.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr 54 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR 54 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence 46799999975555442 2333899999999999954 56678999999884
No 42
>COG3945 Uncharacterized conserved protein [Function unknown]
Probab=97.44 E-value=0.0027 Score=67.38 Aligned_cols=141 Identities=18% Similarity=0.181 Sum_probs=109.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhhHhHHhhh----chhhhhH
Q 000906 37 ILLLVYFHKAQRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVIFLALDAHI----KNVVSTY 112 (1231)
Q Consensus 37 i~~~~~~HkAlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevIfPaL~~r~----~nv~~~~ 112 (1231)
|.+|+==|+-+-+-|.-|....--..+| .-|+.++..+.+-.+-+.. ++||.-|+-++|+-|..+. ++....|
T Consensus 10 i~~lvEeH~yIlraL~iLr~~~~~~~~g-~i~y~~v~~iidFi~nfaD--kcHH~KEE~~LF~~m~~~g~~~~~~~i~~m 86 (189)
T COG3945 10 IKLLVEEHTYILRALSILRKALDLIKNG-PIDYSDVKEIIDFIRNFAD--KCHHGKEEKLLFNYMEHEGGPFEEGPIYVM 86 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCC-CCCHHHHHHHHHHHHHHHH--hccchHHHHHHHHHHHHhCCCcccCceeee
Confidence 4567777888877777665554445555 6678888888765554443 6789999999999999885 4688899
Q ss_pred HhhhhhHHHHHHHHHHHHhhhcCCCCCCC-chHHHHHHHHhHHHHHHHHhhHHHHHhhhccCCCCCcccccCCCCcccch
Q 000906 113 SLEHESIDELFDSVFDLLNVLLGGSENVS-KPFQEVVFCIGTIKTFICQHMLKEEEQYVLSSKYPTASLVNEGGIHEDEV 191 (1231)
Q Consensus 113 ~~EH~~~d~Lfd~v~~lL~~~~~~~~~~~-~~~~eLa~~i~~l~t~l~qHm~~EE~q~~~~~~~~~~~~~~~~~~~~~~v 191 (1231)
.-||..-..+.-++.++++.+..++++.. .....++..+. .+.+|.++|+-. +
T Consensus 87 ~~EH~~~R~i~r~lee~~~~~kngd~~~~~~~i~~A~~y~~----likrHIdkEdnv----------------------l 140 (189)
T COG3945 87 TVEHGEGRYIIRDLEEAYERLKNGDEDSKDDVIDYAVAYLN----LIKRHIDKEDNV----------------------L 140 (189)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHH----HHHHHHhhhhhH----------------------H
Confidence 99999999999999999999998876432 23344444555 899999999999 9
Q ss_pred hhHHHhcCCHHHHHHH
Q 000906 192 FPLLVRQFSSTEQASL 207 (1231)
Q Consensus 192 ~PLl~~~fS~~Eqa~L 207 (1231)
||.+.+.||.+ |..+
T Consensus 141 fp~a~~~~s~e-~~~v 155 (189)
T COG3945 141 FPFAESTLSEE-LNEV 155 (189)
T ss_pred HHHHHHHHHHH-HHHH
Confidence 99999999999 6655
No 43
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.42 E-value=5.3e-05 Score=95.71 Aligned_cols=109 Identities=28% Similarity=0.612 Sum_probs=73.5
Q ss_pred cccccccccc-----ccCCCccCCCccCCcccceEecCc---cccccCC-CCcccCCCCCccccCCCCCcccccCCCCcc
Q 000906 1046 EMMCMKCLII-----QPVGSTCSTTSCKNFSMARYYCRI---CKLFDDE-REIYHCPYCNLCRVGKGLGIDYFHCMNCNA 1116 (1231)
Q Consensus 1046 ~m~C~~C~~~-----Qp~~~~C~~~sC~g~~fa~Y~C~i---Ckl~Ddd-k~~YHC~~CgICRvG~gL~~d~fHC~~Cn~ 1116 (1231)
.--|.+|+.. |.++..|....| ...|+.-|++ |+.+... | +--||.-|=.
T Consensus 3417 ~~aCRFCGs~~~tE~sav~~vCs~aDC--~eYAK~ACs~~H~C~H~CGGvk-------------------NEE~CLPCl~ 3475 (3738)
T KOG1428|consen 3417 SEACRFCGSRSGTELSAVGSVCSDADC--QEYAKIACSKTHPCGHPCGGVK-------------------NEEHCLPCLH 3475 (3738)
T ss_pred hhHhhhccCCCCcchhcccCccccHHH--HHHHHHHHhccCcCCCcccCcc-------------------chhhcccccc
Confidence 3468888754 677888988778 5677777765 3333222 2 3345555544
Q ss_pred cccccccccccccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccC----------CCCCCCCcccc
Q 000906 1117 CMSRSLQVHICREKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTH----------YTCPICSKSLG 1182 (1231)
Q Consensus 1117 C~s~~l~~HkC~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~----------~tCPICRksv~ 1182 (1231)
|-.-. .....++.|.||..+ --+.-|...|.|||.||.+|.+.-+.++ ..||||...|.
T Consensus 3476 Cdks~------tkQD~DDmCmICFTE-~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3476 CDKSA------TKQDADDMCMICFTE-ALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cChhh------hhcccCceEEEEehh-hhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 43211 123457889999877 4566788999999999999998754322 57999999884
No 44
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=7.5e-05 Score=88.61 Aligned_cols=46 Identities=33% Similarity=0.837 Sum_probs=35.9
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhcc-----CCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT-----HYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~-----~~tCPICRksv~ 1182 (1231)
+..||||+++ ...+++ +.|||.|+..||-+|+.. -..||||+..|.
T Consensus 186 ~~~CPICL~~---~~~p~~-t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~ 236 (513)
T KOG2164|consen 186 DMQCPICLEP---PSVPVR-TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTIT 236 (513)
T ss_pred CCcCCcccCC---CCcccc-cccCceeeHHHHHHHHhhhcccCCccCCchhhhcc
Confidence 7889999998 223333 459999999999998743 357999999885
No 45
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.37 E-value=0.0001 Score=80.41 Aligned_cols=49 Identities=24% Similarity=0.629 Sum_probs=37.8
Q ss_pred CCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhcc---CCCCCCCCccccC
Q 000906 1131 SFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT---HYTCPICSKSLGD 1183 (1231)
Q Consensus 1131 s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~---~~tCPICRksv~d 1183 (1231)
...-+|-||+|- ..++ ++..|||+|+..||-+|+.. +..||+|+-.|..
T Consensus 45 ~~~FdCNICLd~---akdP-VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 45 GGFFDCNICLDL---AKDP-VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCceeeeeeccc---cCCC-EEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 345689999976 3444 45569999999999999843 4568999988864
No 46
>COG2846 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]
Probab=97.31 E-value=0.0015 Score=70.24 Aligned_cols=133 Identities=19% Similarity=0.245 Sum_probs=96.3
Q ss_pred chhHH-HHHHHHHHHHHHHHHHhcccc---C-CHHHHHHHHHHHHHHHHHHHHhhcccccccccchhccccccccc---h
Q 000906 593 MDLIF-FFHKALKKDLDYLVFGSAQLA---E-NALFLVEFHRRFNLIRLLYEIHSDAEDEIAFPAMEAKGKLQNIS---H 664 (1231)
Q Consensus 593 id~If-~fHKALRrEL~~L~~~a~rl~---~-D~~~l~~~~~Rf~~L~~~yr~Hs~aEDEvIfPALeaR~~l~NVs---~ 664 (1231)
||.|. .+|.-.|.+|..|..++.++. | .+...+.+..-++-|+.-+.-|-.-|++++||.+.. +--.+++ .
T Consensus 77 IdhIi~ryH~~hReqlpeLi~latKverVHgd~p~~p~gl~~~L~~l~~eL~~HMmKEEqIlFPmi~~-G~g~~a~~pI~ 155 (221)
T COG2846 77 IDHIIVRYHERHREQLPELIPLATKVERVHGDKPSCPAGLAELLEALKEELESHMMKEEQILFPMIKQ-GMGSQAAGPIS 155 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHhhHHHHh-ccCcccCcchH
Confidence 67776 999999999999999998886 5 577888888899999999999999999999999975 2211222 2
Q ss_pred hhhHhHHHHHHHHHHHHHHHHHHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 000906 665 SYSIDHRLEAEHFKKISNILIEMLELQASVSSNESNAQDKRMLKYKQLCIRLQDICKSMHKLLSEHIHREETELWPLF 742 (1231)
Q Consensus 665 syslEHk~Ee~Lf~~Is~lLa~l~~L~~~~~a~~~~~~~~~~~~y~~La~~La~~~~aL~tsL~qHL~~EE~el~PLl 742 (1231)
.+..||.+..++++.|.++-...+ -. ..+...+.+.|..+-. +.+-|.+|++-|=--+||=+
T Consensus 156 vm~~EHde~g~~l~~lk~lT~n~t-------pP-~~AC~tWkalY~gl~~--------~~dDl~~HIHLENnvLFpr~ 217 (221)
T COG2846 156 VMESEHDEAGELLEVLKHLTNNYT-------PP-EEACGTWKALYNGLNE--------FIDDLMEHIHLENNVLFPRV 217 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCC-------CC-hHHHhHHHHHHHHHHH--------HHHHHHHHHHhhhccccchh
Confidence 334777777776666666654331 11 1233355566665544 45558999999988888743
No 47
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.29 E-value=9.7e-05 Score=86.35 Aligned_cols=44 Identities=32% Similarity=0.817 Sum_probs=39.6
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSK 1179 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRk 1179 (1231)
-+||||+|.|-.+...++...|.|.||-.|+..|. ..+||+||-
T Consensus 176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~ 219 (493)
T KOG0804|consen 176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRY 219 (493)
T ss_pred CCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhh
Confidence 47999999998888888888999999999999997 457999994
No 48
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.28 E-value=0.00013 Score=82.63 Aligned_cols=45 Identities=31% Similarity=0.727 Sum_probs=39.4
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
--|-||.|+ | ...+..||||.|+.-||+.+++.+..||.|+.++.
T Consensus 24 LRC~IC~ey-f---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 24 LRCGICFEY-F---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHhHHHHH-h---cCceeccccchHHHHHHHHHhccCCCCCceecccc
Confidence 359999999 4 23467799999999999999999999999999985
No 49
>COG3945 Uncharacterized conserved protein [Function unknown]
Probab=97.13 E-value=0.0071 Score=64.38 Aligned_cols=142 Identities=15% Similarity=0.187 Sum_probs=96.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHhcccc-C--CHHHHHHHHHHHHHHHHHHHHhhcccccccccchhcccc--ccccchhhh
Q 000906 593 MDLIFFFHKALKKDLDYLVFGSAQLA-E--NALFLVEFHRRFNLIRLLYEIHSDAEDEIAFPAMEAKGK--LQNISHSYS 667 (1231)
Q Consensus 593 id~If~fHKALRrEL~~L~~~a~rl~-~--D~~~l~~~~~Rf~~L~~~yr~Hs~aEDEvIfPALeaR~~--l~NVs~sys 667 (1231)
|++|+==|+-|-|-|.-|...+--+. | |..++..+.+-.+-+.+ +.||.-|+-++||-|+.+.. ..+.-..++
T Consensus 10 i~~lvEeH~yIlraL~iLr~~~~~~~~g~i~y~~v~~iidFi~nfaD--kcHH~KEE~~LF~~m~~~g~~~~~~~i~~m~ 87 (189)
T COG3945 10 IKLLVEEHTYILRALSILRKALDLIKNGPIDYSDVKEIIDFIRNFAD--KCHHGKEEKLLFNYMEHEGGPFEEGPIYVMT 87 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHH--hccchHHHHHHHHHHHHhCCCcccCceeeeh
Confidence 34555668888888877765555544 2 66666666544443333 56899999999999998754 446677788
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhCC
Q 000906 668 IDHRLEAEHFKKISNILIEMLELQASVSSNESNAQDKRMLKYKQLCIRLQDICKSMHKLLSEHIHREETELWPLFRECFS 747 (1231)
Q Consensus 668 lEHk~Ee~Lf~~Is~lLa~l~~L~~~~~a~~~~~~~~~~~~y~~La~~La~~~~aL~tsL~qHL~~EE~el~PLl~~hFS 747 (1231)
.||..=..+..++..++.++... +.. . ...+.. ..... -..+.+|+++|+..++|++.+.||
T Consensus 88 ~EH~~~R~i~r~lee~~~~~kng------d~~-~-~~~~i~--~A~~y--------~~likrHIdkEdnvlfp~a~~~~s 149 (189)
T COG3945 88 VEHGEGRYIIRDLEEAYERLKNG------DED-S-KDDVID--YAVAY--------LNLIKRHIDKEDNVLFPFAESTLS 149 (189)
T ss_pred hhhhhHHHHHHHHHHHHHHHHcc------ccc-h-HHHHHH--HHHHH--------HHHHHHHHhhhhhHHHHHHHHHHH
Confidence 99999777777777777766321 111 1 011111 22222 334899999999999999999999
Q ss_pred HHHHHHHH
Q 000906 748 IEEQEKII 755 (1231)
Q Consensus 748 ~eEqa~Lv 755 (1231)
.+ |.++.
T Consensus 150 ~e-~~~v~ 156 (189)
T COG3945 150 EE-LNEVN 156 (189)
T ss_pred HH-HHHHH
Confidence 99 66653
No 50
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.12 E-value=0.0002 Score=75.57 Aligned_cols=44 Identities=34% Similarity=0.754 Sum_probs=37.3
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSK 1179 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRk 1179 (1231)
....||||+++ |... +.+||||.|+..|+..++.....||.||.
T Consensus 12 ~~~~C~iC~~~-~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEY-FREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHH-hhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 35789999999 4332 78999999999999999877788999994
No 51
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.11 E-value=0.00032 Score=60.03 Aligned_cols=42 Identities=29% Similarity=0.804 Sum_probs=32.8
Q ss_pred CCcccccccccCCCCceEcCcC-----CcccHHhHHHhhc--cCCCCCCCC
Q 000906 1135 NCPICHEDLFSSTNPAKALPCG-----HMMHSTCFQDYTC--THYTCPICS 1178 (1231)
Q Consensus 1135 ~CPIClE~Lf~s~~~v~~LpCG-----H~fH~~Ci~~wl~--~~~tCPICR 1178 (1231)
.|-||++. .+.....+.||. |++|..|+.+|+. .+.+||+|+
T Consensus 1 ~CrIC~~~--~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDE--GDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCC--CCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 48899983 344555678995 9999999999984 456899995
No 52
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.02 E-value=0.00018 Score=79.73 Aligned_cols=49 Identities=24% Similarity=0.686 Sum_probs=40.1
Q ss_pred CCCCcccccccccCC------CCceEcCcCCcccHHhHHHh--hccCCCCCCCCccc
Q 000906 1133 MDNCPICHEDLFSST------NPAKALPCGHMMHSTCFQDY--TCTHYTCPICSKSL 1181 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~------~~v~~LpCGH~fH~~Ci~~w--l~~~~tCPICRksv 1181 (1231)
++.|+||...+..+. ++...|.|+|.||.-||+-| ...+.+||.|++.+
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 567999998866554 24567999999999999999 36779999999877
No 53
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.95 E-value=0.00018 Score=65.63 Aligned_cols=50 Identities=24% Similarity=0.601 Sum_probs=23.3
Q ss_pred CCCCcccccccccC-CCCceEc---CcCCcccHHhHHHhhcc----C-------CCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSS-TNPAKAL---PCGHMMHSTCFQDYTCT----H-------YTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s-~~~v~~L---pCGH~fH~~Ci~~wl~~----~-------~tCPICRksv~ 1182 (1231)
+..|+||.+++.+. ..+..+- .|+..||..|+.+|+.. + .+||.|+++|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 45799999986623 3333332 69999999999999731 1 36999999873
No 54
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00037 Score=80.40 Aligned_cols=45 Identities=33% Similarity=0.826 Sum_probs=36.7
Q ss_pred CCCCcccccccccCCCCceEc-CcCCcccHHhHHHhhcc---CCCCCCCC
Q 000906 1133 MDNCPICHEDLFSSTNPAKAL-PCGHMMHSTCFQDYTCT---HYTCPICS 1178 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~L-pCGH~fH~~Ci~~wl~~---~~tCPICR 1178 (1231)
...|.|| ++++.....+... .|||.||..|+.+|... +..||||+
T Consensus 4 ~A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 3569999 6778777777665 49999999999999854 35899999
No 55
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.00047 Score=76.53 Aligned_cols=46 Identities=28% Similarity=0.712 Sum_probs=38.2
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHH-hhccCCC-CCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQD-YTCTHYT-CPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~-wl~~~~t-CPICRksv~ 1182 (1231)
+..|+||++... .....+|||.|+..|+.. |.+.++- ||+||..+.
T Consensus 215 d~kC~lC~e~~~----~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 215 DYKCFLCLEEPE----VPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccceeeeecccC----CcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 456999999854 345689999999999999 9887776 999998764
No 56
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=96.53 E-value=0.0014 Score=59.92 Aligned_cols=46 Identities=24% Similarity=0.354 Sum_probs=35.0
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhcc-CCCCCCCCccccC
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT-HYTCPICSKSLGD 1183 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~-~~tCPICRksv~d 1183 (1231)
-.||||.+-|. ..+.+||||.|-..||..|+.. +.+||+|++.+..
T Consensus 5 f~CpIt~~lM~----dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 5 FLCPITGELMR----DPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GB-TTTSSB-S----SEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cCCcCcCcHhh----CceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 46999998864 3467899999999999999977 8899999998853
No 57
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.41 E-value=0.00076 Score=59.17 Aligned_cols=53 Identities=32% Similarity=0.700 Sum_probs=38.1
Q ss_pred CCCCCcccccccccCCCCceEcCcCCc-ccHHhHHHhh-ccCCCCCCCCccccChHHHH
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHM-MHSTCFQDYT-CTHYTCPICSKSLGDMKVYF 1188 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~-fH~~Ci~~wl-~~~~tCPICRksv~dm~~~f 1188 (1231)
..+.|.||+|.- .+. +.--|||. ++..|-.+.+ ..+.+|||||.++.+.-..|
T Consensus 6 ~~dECTICye~p---vds-VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIkTY 60 (62)
T KOG4172|consen 6 WSDECTICYEHP---VDS-VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIKTY 60 (62)
T ss_pred cccceeeeccCc---chH-HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHHhh
Confidence 357899999872 122 23369998 8888876654 57899999999997754433
No 58
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.30 E-value=0.0022 Score=73.84 Aligned_cols=47 Identities=28% Similarity=0.727 Sum_probs=39.4
Q ss_pred CCCCCcccccccccCCCCceEcCcCCc-ccHHhHHHhhccCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHM-MHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~-fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
....|.||+.+ .....+|||-|. ++..|.+...-..+.|||||+.+.
T Consensus 289 ~gkeCVIClse----~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSE----SRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecC----CcceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 35689999977 345788999998 999999998766678999999885
No 59
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=96.26 E-value=0.0022 Score=71.96 Aligned_cols=45 Identities=27% Similarity=0.559 Sum_probs=38.1
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
.-|-||.+++. .....+|||.|+.-||+.++..+..||+||.+..
T Consensus 26 lrC~IC~~~i~----ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 26 LRCRICDCRIS----IPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred HHhhhhhheee----cceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 46999999842 2345699999999999999999999999998773
No 60
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.23 E-value=0.0008 Score=77.69 Aligned_cols=61 Identities=33% Similarity=0.663 Sum_probs=48.6
Q ss_pred ccccccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccC--CCCCCCCccccChH
Q 000906 1124 VHICREKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTH--YTCPICSKSLGDMK 1185 (1231)
Q Consensus 1124 ~HkC~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~--~tCPICRksv~dm~ 1185 (1231)
.|.|.+. ++-.|-.|.|.+-...+....|||.|.||..|+.+++..+ .+||.||+-...|.
T Consensus 357 a~~~~~e-~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrSs~~ 419 (518)
T KOG1941|consen 357 AHECVEE-TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRSSMK 419 (518)
T ss_pred HHHHHHH-HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHhhcc
Confidence 4667654 6789999999976666777889999999999999998554 67999996554443
No 61
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.02 E-value=0.0039 Score=56.55 Aligned_cols=56 Identities=29% Similarity=0.634 Sum_probs=26.9
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc--ChHHHHHHhHHHH
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG--DMKVYFSMLDALL 1195 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~--dm~~~f~~LD~ei 1195 (1231)
--|++|.+.|. .+|....|.|.|++.|+..-+. ..||+|+.+.- |+. .-+.||..|
T Consensus 8 LrCs~C~~~l~---~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~-~NrqLd~~i 65 (65)
T PF14835_consen 8 LRCSICFDILK---EPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQ-INRQLDSMI 65 (65)
T ss_dssp TS-SSS-S--S---S-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS-----HHHHHHH
T ss_pred cCCcHHHHHhc---CCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHH-hhhhhhccC
Confidence 45999998853 4666779999999999988764 35999999883 433 234555543
No 62
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.82 E-value=0.0035 Score=72.69 Aligned_cols=75 Identities=19% Similarity=0.444 Sum_probs=49.6
Q ss_pred CCCCCCcccccccccCCC---CceE-cCcCCcccHHhHHHhh--cc-----CCCCCCCCcccc--ChHHHHHHhHHHHhh
Q 000906 1131 SFMDNCPICHEDLFSSTN---PAKA-LPCGHMMHSTCFQDYT--CT-----HYTCPICSKSLG--DMKVYFSMLDALLAE 1197 (1231)
Q Consensus 1131 s~e~~CPIClE~Lf~s~~---~v~~-LpCGH~fH~~Ci~~wl--~~-----~~tCPICRksv~--dm~~~f~~LD~eia~ 1197 (1231)
+.+..|-||+|.+..... .-.. .+|.|.|+..|++.|. .. ...||+||...- .-..+|-.-.. +.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~Wv~t~~--~k 236 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFWVETKE--EK 236 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccceeeeecc--cc
Confidence 557899999998764430 0122 4699999999999997 22 467999998873 23334432222 55
Q ss_pred cCCChhhhcc
Q 000906 1198 EKMPPEYLGQ 1207 (1231)
Q Consensus 1198 qpmPeeyr~~ 1207 (1231)
++++++|...
T Consensus 237 ~~li~e~~~~ 246 (344)
T KOG1039|consen 237 QKLIEEYEAE 246 (344)
T ss_pred cccHHHHHHH
Confidence 6667776543
No 63
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=95.64 E-value=0.0035 Score=77.78 Aligned_cols=46 Identities=28% Similarity=0.673 Sum_probs=36.8
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhcc-CCCCCCCCccccC
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT-HYTCPICSKSLGD 1183 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~-~~tCPICRksv~d 1183 (1231)
..||+|-.. ...++...|||.||..|+.....+ ..+||.|+..+|.
T Consensus 644 LkCs~Cn~R----~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 644 LKCSVCNTR----WKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred eeCCCccCc----hhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 568888744 345667799999999999998754 5779999999973
No 64
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.37 E-value=0.0029 Score=72.82 Aligned_cols=47 Identities=28% Similarity=0.498 Sum_probs=38.0
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhh-ccCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYT-CTHYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl-~~~~tCPICRksv~ 1182 (1231)
+..||||++-|... ....-|+|-|+..||..-+ .++..||.|||.++
T Consensus 43 ~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 43 QVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 56899999875432 3446799999999998776 67789999999995
No 65
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.21 E-value=0.0064 Score=76.26 Aligned_cols=51 Identities=24% Similarity=0.656 Sum_probs=36.5
Q ss_pred CCCCCCcccccccc--cCCCCc-eEcCcCCcccHHhHHHhh--ccCCCCCCCCccc
Q 000906 1131 SFMDNCPICHEDLF--SSTNPA-KALPCGHMMHSTCFQDYT--CTHYTCPICSKSL 1181 (1231)
Q Consensus 1131 s~e~~CPIClE~Lf--~s~~~v-~~LpCGH~fH~~Ci~~wl--~~~~tCPICRksv 1181 (1231)
++...|+||..-|. +..-|- +.-.|.|.||..|+-.|. +.+.+||+||..+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 45678999986653 111111 234588999999999997 4568899999765
No 66
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.13 E-value=0.012 Score=68.85 Aligned_cols=49 Identities=33% Similarity=0.805 Sum_probs=38.2
Q ss_pred CCCCcccccccccCCCC-ceEcCcCCcccHHhHHHhhc--cCCCCCCCCccc
Q 000906 1133 MDNCPICHEDLFSSTNP-AKALPCGHMMHSTCFQDYTC--THYTCPICSKSL 1181 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~-v~~LpCGH~fH~~Ci~~wl~--~~~tCPICRksv 1181 (1231)
...||||++..-.+++- ++.+.|||.|-..|++.|+. ...+||.|....
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 36799999986555543 45579999999999999984 346799998654
No 67
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=95.13 E-value=0.0064 Score=70.61 Aligned_cols=53 Identities=30% Similarity=0.796 Sum_probs=43.8
Q ss_pred ccccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhh-c-cCCCCCCCCcccc
Q 000906 1126 ICREKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYT-C-THYTCPICSKSLG 1182 (1231)
Q Consensus 1126 kC~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl-~-~~~tCPICRksv~ 1182 (1231)
.|.-+++-.-|-||-|. ...|+.=||||.++..|+..|- + ...+||.||-.|.
T Consensus 362 YceMgsTFeLCKICaen----dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 362 YCEMGSTFELCKICAEN----DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHccchHHHHHHhhcc----CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 36667777889999876 5577888999999999999996 3 3689999998883
No 68
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.09 E-value=0.016 Score=64.99 Aligned_cols=51 Identities=27% Similarity=0.696 Sum_probs=41.9
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhh--ccCCCCCCCCccccChH
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYT--CTHYTCPICSKSLGDMK 1185 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl--~~~~tCPICRksv~dm~ 1185 (1231)
.+..||+|.++ +.-|....+|||.|+--|+..-. ..+.+||.|+..+..|+
T Consensus 238 ~~~~C~~Cg~~---PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 238 SDTECPVCGEP---PTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred CCceeeccCCC---CCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 45789999988 56677788999999999998874 45689999998886554
No 69
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=93.85 E-value=0.029 Score=62.12 Aligned_cols=36 Identities=31% Similarity=0.744 Sum_probs=27.3
Q ss_pred ccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccc
Q 000906 1144 FSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSL 1181 (1231)
Q Consensus 1144 f~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv 1181 (1231)
|.+..+-....|+|+|+..|...-.. ..||+|++++
T Consensus 12 ~~~~~~f~LTaC~HvfC~~C~k~~~~--~~C~lCkk~i 47 (233)
T KOG4739|consen 12 FPSQDPFFLTACRHVFCEPCLKASSP--DVCPLCKKSI 47 (233)
T ss_pred cCCCCceeeeechhhhhhhhcccCCc--ccccccccee
Confidence 44444556679999999999965432 3899999998
No 70
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.71 E-value=0.036 Score=63.10 Aligned_cols=47 Identities=23% Similarity=0.478 Sum_probs=37.6
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHh-hccCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDY-TCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~w-l~~~~tCPICRksv~ 1182 (1231)
....|+||+... ..+ +.|+|+|.|+..|+.-- .....+||+||.+|-
T Consensus 6 ~~~eC~IC~nt~---n~P-v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 6 KKKECLICYNTG---NCP-VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred cCCcceeeeccC---CcC-ccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 457899998763 334 67999999999999874 456678999999984
No 71
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.58 E-value=0.056 Score=46.74 Aligned_cols=46 Identities=26% Similarity=0.655 Sum_probs=24.1
Q ss_pred CcccccccccCCCCceEcCcCCcccHHhHHHhhc-cCCCCCCCCccc
Q 000906 1136 CPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTC-THYTCPICSKSL 1181 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~-~~~tCPICRksv 1181 (1231)
||+|.++|-.++....--+||+.+...|+..-+. .+..||-||+.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 8999999844433333336899999999999885 578999999864
No 72
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=93.41 E-value=0.02 Score=64.93 Aligned_cols=52 Identities=27% Similarity=0.631 Sum_probs=41.4
Q ss_pred CCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhcc-----------------------CCCCCCCCccccC
Q 000906 1131 SFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT-----------------------HYTCPICSKSLGD 1183 (1231)
Q Consensus 1131 s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~-----------------------~~tCPICRksv~d 1183 (1231)
--.+.|.||+.- |-+.....+.+|-|+||..|+..|+.. ...|||||..|++
T Consensus 113 ~p~gqCvICLyg-fa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 113 HPNGQCVICLYG-FASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCCceEEEEEe-ecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 346789999987 777776788899999999999887520 1359999999865
No 73
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=93.20 E-value=0.034 Score=52.94 Aligned_cols=37 Identities=24% Similarity=0.614 Sum_probs=28.8
Q ss_pred cccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHH
Q 000906 1127 CREKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQ 1165 (1231)
Q Consensus 1127 C~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~ 1165 (1231)
++.-.....|++|...|.+ ....+.||||.+|..|++
T Consensus 72 ~v~i~~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 72 SVVITESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred eEEECCCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence 3444456779999999765 356778999999999985
No 74
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=92.89 E-value=0.061 Score=47.73 Aligned_cols=42 Identities=26% Similarity=0.650 Sum_probs=29.0
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhh--ccCCCCCC
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYT--CTHYTCPI 1176 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl--~~~~tCPI 1176 (1231)
....|||.+.++ .+||+...|||.|-...|.+|+ .....||+
T Consensus 10 ~~~~CPiT~~~~---~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPF---EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB----SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChh---hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 346799999884 3578888999999999999999 34567998
No 75
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.87 E-value=0.059 Score=66.87 Aligned_cols=43 Identities=33% Similarity=0.685 Sum_probs=33.3
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCC
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPI 1176 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPI 1176 (1231)
....|.||.-.+.++ ....+.|||.+|..|+.+|++..-.||.
T Consensus 1027 ~~~~C~~C~l~V~gs--s~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1027 FTFQCAICHLAVRGS--SNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ceeeeeeEeeEeecc--chhhccccccccHHHHHHHHhcCCcCCC
Confidence 445588887665444 2355789999999999999998888983
No 76
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.98 E-value=0.12 Score=57.67 Aligned_cols=55 Identities=27% Similarity=0.535 Sum_probs=46.8
Q ss_pred ccCCCCCCCcccccccccCCCCceEc-CcCCcccHHhHHHhhccCCCCCCCCccccC
Q 000906 1128 REKSFMDNCPICHEDLFSSTNPAKAL-PCGHMMHSTCFQDYTCTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1128 ~E~s~e~~CPIClE~Lf~s~~~v~~L-pCGH~fH~~Ci~~wl~~~~tCPICRksv~d 1183 (1231)
+..+....||||.+.| ++..+..+| ||||++...|....+..-..||+|.+++.+
T Consensus 216 ~a~s~ryiCpvtrd~L-tNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 216 IAASKRYICPVTRDTL-TNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred hhhccceecccchhhh-cCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 3344567899999995 666777777 999999999999999999999999999865
No 77
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=91.79 E-value=0.11 Score=59.12 Aligned_cols=48 Identities=25% Similarity=0.580 Sum_probs=38.4
Q ss_pred CCcccccccccCCCCceE-cCcCCcccHHhHHHhh-ccCCCCCCCCcccc
Q 000906 1135 NCPICHEDLFSSTNPAKA-LPCGHMMHSTCFQDYT-CTHYTCPICSKSLG 1182 (1231)
Q Consensus 1135 ~CPIClE~Lf~s~~~v~~-LpCGH~fH~~Ci~~wl-~~~~tCPICRksv~ 1182 (1231)
.||+|+.+.+.+..-+.. =+|||.++.+|++.-. .+.+.||.|.+.+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 599999987766543322 2999999999999986 56789999998873
No 78
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=91.42 E-value=0.069 Score=64.21 Aligned_cols=51 Identities=25% Similarity=0.638 Sum_probs=41.2
Q ss_pred ccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhh-----ccCCCCCCCCcccc
Q 000906 1128 REKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYT-----CTHYTCPICSKSLG 1182 (1231)
Q Consensus 1128 ~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl-----~~~~tCPICRksv~ 1182 (1231)
.++..+..|-+|.++ .+......|.|.|+.-|+.+|. ..+.+||+|...+.
T Consensus 531 ~enk~~~~C~lc~d~----aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 531 DENKGEVECGLCHDP----AEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccccCceeecccCCh----hhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 466778899999987 2445677899999999999995 34589999998873
No 79
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=91.28 E-value=0.1 Score=44.55 Aligned_cols=40 Identities=28% Similarity=0.724 Sum_probs=26.2
Q ss_pred CcccccccccCCCCceEcCcC-----CcccHHhHHHhhc--cCCCCCCC
Q 000906 1136 CPICHEDLFSSTNPAKALPCG-----HMMHSTCFQDYTC--THYTCPIC 1177 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCG-----H~fH~~Ci~~wl~--~~~tCPIC 1177 (1231)
|-||++.-.. ....+.||+ -+.|..|+..|+. .+.+|++|
T Consensus 1 CrIC~~~~~~--~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEE--DEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SS--SS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCC--CCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 6689887322 224556775 5899999999974 56789998
No 80
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=91.24 E-value=0.1 Score=56.53 Aligned_cols=45 Identities=29% Similarity=0.541 Sum_probs=37.3
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
-.|-||.++ |.+ .++..|||.|+..|+-.-.+...+|-+|.+..-
T Consensus 197 F~C~iCKkd-y~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 197 FLCGICKKD-YES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred eeehhchhh-ccc---hhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 469999998 544 356789999999999888888889999998763
No 81
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.22 E-value=0.037 Score=62.67 Aligned_cols=59 Identities=24% Similarity=0.482 Sum_probs=39.3
Q ss_pred cccccccCCC---CCCCcccccccccCCCCceEcCcCCcc-cHHhHHHhhccCCCCCCCCccccChHHHHH
Q 000906 1123 QVHICREKSF---MDNCPICHEDLFSSTNPAKALPCGHMM-HSTCFQDYTCTHYTCPICSKSLGDMKVYFS 1189 (1231)
Q Consensus 1123 ~~HkC~E~s~---e~~CPIClE~Lf~s~~~v~~LpCGH~f-H~~Ci~~wl~~~~tCPICRksv~dm~~~f~ 1189 (1231)
++|.+-.... +.-|.||++- ....++|+|||.. +..|-... ..|||||+-|......|+
T Consensus 287 ~~~g~~~~~s~~~~~LC~ICmDa----P~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~rvvrif~ 349 (350)
T KOG4275|consen 287 GNDGEQHSRSLATRRLCAICMDA----PRDCVFLECGHMVTCTKCGKRM----NECPICRQYIVRVVRIFR 349 (350)
T ss_pred cccccccccchhHHHHHHHHhcC----CcceEEeecCcEEeehhhcccc----ccCchHHHHHHHHHhhhc
Confidence 4455544444 6789999875 3457899999973 34443222 379999998876655553
No 82
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.93 E-value=0.17 Score=55.69 Aligned_cols=51 Identities=29% Similarity=0.746 Sum_probs=40.0
Q ss_pred CCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhc--------cCCCCCCCCcccc
Q 000906 1130 KSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTC--------THYTCPICSKSLG 1182 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~--------~~~tCPICRksv~ 1182 (1231)
.....+|..|.-.|- +++ ...|-|=|.||..|+++|.. ..|+||-|.+.|.
T Consensus 47 sDY~pNC~LC~t~La-~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLA-SGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred cCCCCCCceeCCccc-cCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 334678999999864 444 35577999999999999952 2499999999985
No 83
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=90.55 E-value=0.11 Score=46.21 Aligned_cols=44 Identities=27% Similarity=0.733 Sum_probs=30.7
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
+..|-.|... ...-.++||||++...|+.-+- -+-||+|.+.+.
T Consensus 7 ~~~~~~~~~~----~~~~~~~pCgH~I~~~~f~~~r--YngCPfC~~~~~ 50 (55)
T PF14447_consen 7 EQPCVFCGFV----GTKGTVLPCGHLICDNCFPGER--YNGCPFCGTPFE 50 (55)
T ss_pred ceeEEEcccc----ccccccccccceeeccccChhh--ccCCCCCCCccc
Confidence 3456666543 2234678999999999986543 345999999874
No 84
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.52 E-value=0.13 Score=59.95 Aligned_cols=47 Identities=28% Similarity=0.632 Sum_probs=34.1
Q ss_pred cCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1129 EKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1129 E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
+.....+|.||.+. + ....++||||.-+ |..-.. ...+||+||+.+.
T Consensus 301 ~~~~p~lcVVcl~e-~---~~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDE-P---KSAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCC-c---cceeeecCCcEEE--chHHHh-hCCCCchhHHHHH
Confidence 44557899999987 3 3468899999955 554443 3345999999884
No 85
>PF04641 Rtf2: Rtf2 RING-finger
Probab=90.13 E-value=0.2 Score=56.18 Aligned_cols=51 Identities=20% Similarity=0.544 Sum_probs=40.6
Q ss_pred CCCCCCCcccccccccCCCCceEc-CcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1130 KSFMDNCPICHEDLFSSTNPAKAL-PCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf~s~~~v~~L-pCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
....-.|||....| ++....++| ||||+|-..++.+.- ....||+|.+++.
T Consensus 110 ~~~~~~CPvt~~~~-~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 110 SEGRFICPVTGKEF-NGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT 161 (260)
T ss_pred CCceeECCCCCccc-CCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence 34556899999995 555555665 999999999999995 4567999999984
No 86
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=90.10 E-value=0.095 Score=60.33 Aligned_cols=55 Identities=25% Similarity=0.596 Sum_probs=42.0
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhh-ccCCCCCCCCccccChHHH
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYT-CTHYTCPICSKSLGDMKVY 1187 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl-~~~~tCPICRksv~dm~~~ 1187 (1231)
++.||.|+|+|--++..-.--|||--++.-|+..-- .-+.+||-||+.+.+-.+.
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 456999999986665555556899999999987764 3478999999988654333
No 87
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=89.60 E-value=0.022 Score=64.53 Aligned_cols=251 Identities=21% Similarity=0.149 Sum_probs=166.4
Q ss_pred HHHHHhhcccccccccchhccccccccchhhhHhHHHHHHHHHHHHHHHHHHHHHhhhcccccchhhHHHHHHHHHHHHH
Q 000906 636 LLYEIHSDAEDEIAFPAMEAKGKLQNISHSYSIDHRLEAEHFKKISNILIEMLELQASVSSNESNAQDKRMLKYKQLCIR 715 (1231)
Q Consensus 636 ~~yr~Hs~aEDEvIfPALeaR~~l~NVs~syslEHk~Ee~Lf~~Is~lLa~l~~L~~~~~a~~~~~~~~~~~~y~~La~~ 715 (1231)
..|..|..++|+.-||++.+.....+.++++..+|.-+=.|+...+... .. .+...+.-++..
T Consensus 17 ~~~~~~~~~~d~~~~~~~c~hy~r~~~~~a~ccd~~~~C~hCH~~s~~h----------~~-------~r~~v~~~~C~~ 79 (276)
T KOG1940|consen 17 ALSSIHSDAEDEIAFPYGCPHYRRNCKSRAPCCDREITCRHCHNESEDH----------DL-------DRKTVYELLCMK 79 (276)
T ss_pred hhhhcccccccccccccCCchhhhccccccccccceeeeEEecChhhhc----------cc-------chhhhhhhhhhh
Confidence 7899999999999999999988877778777777665544444444311 00 111345567777
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHhhCCHHHHHHHHHHHhccCCHHHHHHHHhHHhcCCCHHHHHHHHHHHHHhhh
Q 000906 716 LQDICKSMHKLLSEHIHREETELWPLFRECFSIEEQEKIIKCMLGRIRAETLQDMLPWLMASLTPREQNAMMSLWCSATK 795 (1231)
Q Consensus 716 La~~~~aL~tsL~qHL~~EE~el~PLl~~hFS~eEqa~Lv~r~iasIP~e~L~~~LPWLlssLtpeEr~~mL~~lr~a~~ 795 (1231)
.....+..++.+..|+. +.++|=++...|+++++ ++..-..|.|--+-.+. +|+.-....+++.+-+..|..-.
T Consensus 80 C~~~q~~~~~c~~c~~~--~g~~~c~~C~l~dd~~~-~~~hC~~C~icr~g~~~--~~fhc~~c~~c~~~~~~~~H~c~- 153 (276)
T KOG1940|consen 80 CRKIQPVGQICSNCHVE--LGEYYCLICKLFDDDPS-KQYHCDLCGICREGLGL--DFFHCKKCKACLSAYLSNWHKCV- 153 (276)
T ss_pred HHhhhhhhhccccchhh--hhhhcCccccccccccc-ceecccccccccccccc--chhHHhhhHhHHhhhcccccchh-
Confidence 77777778899999998 99999999999999999 88888766654444343 99987777777766666551111
Q ss_pred hhhHHHHHHHHhcCCCCCccccccCCCCCCCCChhhHHhhhccccCccccccccCCCCCCccccCCCCCCCCC-----Cc
Q 000906 796 CTMFEEWLGEWWEGYDMTSARVESSVSPIFAGDPLEIISTYLSKEVPEEWNGESCNKGSNFTQNNYNGTDIGP-----LR 870 (1231)
Q Consensus 796 ~tmf~~wl~eW~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~ 870 (1231)
.... ...+|....+-|++.+.++.+..+=.-.+.-|.+....| +.-| ++
T Consensus 154 ------------------e~~~-------~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~~~d 207 (276)
T KOG1940|consen 154 ------------------ERSS-------EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSKPGD 207 (276)
T ss_pred ------------------hhcc-------cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccchHH
Confidence 1110 122689999999999998887666655566777776667 5553 45
Q ss_pred ccccccccchhhhhhhhhhhhccccccCCCCccCchhhhc---cccccCCCCCCCCcccCcchhHHhcCHHHHHHHHhcc
Q 000906 871 KSSVGCKEQNFIEELSNYECSKCIKLCSDGDKKRSNEAVG---LMAWIDKPGQNFPEKCRNHENILAVSQESLEAAIRRV 947 (1231)
Q Consensus 871 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~m~q~~le~~ir~i 947 (1231)
.+..+.++..++.. +.. +...++.++ .++--+ | ....+.-++-|-+...+..+|.|
T Consensus 208 ~~~~~~~~d~~l~~------~~~--------p~~y~~~~~~i~cndC~~--~-----~~~k~~~l~~kc~~c~~~~~r~~ 266 (276)
T KOG1940|consen 208 MSHYFRKLDKELAG------SPM--------PEEYKNKTQDILCNDCGS--G-----TNVKYHILYHKCGKCGSYNTRMI 266 (276)
T ss_pred HHHHHHHHHHHHhc------CCC--------CchhhchhheeeccCCCC--C-----CccceehhhhhCCCcccceeeec
Confidence 55555555554331 100 000000111 111111 1 12457778889999999999999
Q ss_pred ccCCCCChh
Q 000906 948 SRDSSLDPQ 956 (1231)
Q Consensus 948 ~~~~~l~p~ 956 (1231)
++++.++|+
T Consensus 267 ~~~~~~~~~ 275 (276)
T KOG1940|consen 267 SDPSKYDPQ 275 (276)
T ss_pred cCCCccCCC
Confidence 988877765
No 88
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=89.60 E-value=0.18 Score=59.84 Aligned_cols=49 Identities=31% Similarity=0.729 Sum_probs=39.9
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccC
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~d 1183 (1231)
.+..||||+..+- +++....|||.|+..|+..|+..+..||.|+..+..
T Consensus 20 ~~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 20 ENLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred ccccCcccccccc---CCCCCCCCCCcccccccchhhccCcCCcccccccch
Confidence 3467999998743 344446899999999999999889999999988754
No 89
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.55 E-value=0.2 Score=53.60 Aligned_cols=30 Identities=30% Similarity=0.842 Sum_probs=25.1
Q ss_pred cCcCCcccHHhHHHhhcc------C-----CCCCCCCcccc
Q 000906 1153 LPCGHMMHSTCFQDYTCT------H-----YTCPICSKSLG 1182 (1231)
Q Consensus 1153 LpCGH~fH~~Ci~~wl~~------~-----~tCPICRksv~ 1182 (1231)
..||-.||.-|+..|++. + ..||.|.+++.
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 569999999999999742 1 57999999884
No 90
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.54 E-value=0.2 Score=57.08 Aligned_cols=46 Identities=24% Similarity=0.472 Sum_probs=38.3
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccC
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~d 1183 (1231)
..|-||..+ |. ..++..|||+|+..|...-+.....|++|.+.+-.
T Consensus 242 f~c~icr~~-f~---~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKY-FY---RPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred ccccccccc-cc---cchhhcCCceeehhhhccccccCCcceeccccccc
Confidence 459999999 42 23567899999999998888888999999998843
No 91
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.12 E-value=0.34 Score=57.81 Aligned_cols=49 Identities=27% Similarity=0.682 Sum_probs=40.3
Q ss_pred CCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccC
Q 000906 1131 SFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1131 s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~d 1183 (1231)
..+-.|-||+.-++ +.+.+||||.|+..|+..-+..+.-||+||-.+..
T Consensus 82 ~sef~c~vc~~~l~----~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALY----PPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcC----CCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 44678999987765 34556999999999999988878889999998864
No 92
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=87.74 E-value=0.42 Score=50.48 Aligned_cols=32 Identities=34% Similarity=0.730 Sum_probs=22.0
Q ss_pred CCCCcccccccccCCCCceEcCcC-------------CcccHHhHHHhh
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCG-------------HMMHSTCFQDYT 1168 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCG-------------H~fH~~Ci~~wl 1168 (1231)
+..||||||.= -..+.|-|. =+-|+.|++++-
T Consensus 2 d~~CpICme~P----HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHP----HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCC----CceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence 46799999972 233445553 246999999984
No 93
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=87.69 E-value=0.14 Score=59.11 Aligned_cols=49 Identities=22% Similarity=0.497 Sum_probs=40.2
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccC
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~d 1183 (1231)
....|.+|..+|-+.++ +.-|=|.|+..||..++..+.+||+|.-.+..
T Consensus 14 ~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred cceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 34689999999654432 34699999999999999889999999988853
No 94
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=87.29 E-value=4.7 Score=48.12 Aligned_cols=138 Identities=22% Similarity=0.263 Sum_probs=108.2
Q ss_pred CCcchhhHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhhHhHHhh-hchhhhh
Q 000906 33 VDAPILLLVYFHKAQRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVIFLALDAH-IKNVVST 111 (1231)
Q Consensus 33 ~~~pi~~~~~~HkAlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevIfPaL~~r-~~nv~~~ 111 (1231)
+.-|+..|..=-+++|..|+.+.+. .. +..-...+...+.+|..+=+ |-+-+-..|||-++.| +..++-.
T Consensus 84 ~gHPv~tl~~EN~~i~~ll~~~l~~---~~-----~~~ik~~l~~lv~~L~~vg~-Hy~RKe~lIfp~~Er~GitapptV 154 (409)
T COG2461 84 PGHPVRTLKRENKAIRSLLANLLQF---PP-----KKEIKEKLVELVSELDKIGK-HYTRKEMLIFPYIERRGITAPPTV 154 (409)
T ss_pred CCCcHHHHhcccHHHHHHHHHHhhc---cc-----cHHHHHHHHHHHHHHHHhcc-ccccccccchhHHHHcCCCCCCee
Confidence 5668888887788888666555443 21 12445566677778888888 9999999999999988 4567778
Q ss_pred HHhhhhhHHHHHHHHHHHHhhhcCCCCCCCchHHHHHHHHhHHHHHHHHhhHHHHHhhhccCCCCCcccccCCCCcccch
Q 000906 112 YSLEHESIDELFDSVFDLLNVLLGGSENVSKPFQEVVFCIGTIKTFICQHMLKEEEQYVLSSKYPTASLVNEGGIHEDEV 191 (1231)
Q Consensus 112 ~~~EH~~~d~Lfd~v~~lL~~~~~~~~~~~~~~~eLa~~i~~l~t~l~qHm~~EE~q~~~~~~~~~~~~~~~~~~~~~~v 191 (1231)
|--.|..+.+.+..+..+|. ... ..+++.....+.|.+..=|.+||.= +
T Consensus 155 mW~~dDeiRe~lk~~~~~l~---~~s------~~~~ve~~~~~~t~i~dmIFkEe~I----------------------l 203 (409)
T COG2461 155 MWVKDDEIREALKELLKLLK---EVS------IEEFVEKAESVLTEIEDMIFKEENI----------------------L 203 (409)
T ss_pred eeccCcHHHHHHHHHHHHhh---ccC------hHHHHHHHHHHHHHHHHHHHhhhhh----------------------H
Confidence 89999999999999999988 222 2456666667778899999999999 9
Q ss_pred hhHHHhcCCHHHHHHHHHh
Q 000906 192 FPLLVRQFSSTEQASLVCQ 210 (1231)
Q Consensus 192 ~PLl~~~fS~~Eqa~Lv~~ 210 (1231)
.|.+..-||..||.++..+
T Consensus 204 ypt~~d~~te~ew~~i~~~ 222 (409)
T COG2461 204 YPTLLDLLTEGEWEAIKEQ 222 (409)
T ss_pred HhHHHHhcCHHHHHHHHhc
Confidence 9999999999999999665
No 95
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=87.29 E-value=0.25 Score=50.96 Aligned_cols=43 Identities=16% Similarity=0.379 Sum_probs=34.3
Q ss_pred CCCCcccccccccCCCCceEcCcC------CcccHHhHHHhhccCCCCCC
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCG------HMMHSTCFQDYTCTHYTCPI 1176 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCG------H~fH~~Ci~~wl~~~~tCPI 1176 (1231)
...|.||++.+-. ...++.++|| |.||..|+..|.+.+.+=|-
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPf 74 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPF 74 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCc
Confidence 4679999999766 6788999998 88999999999654444443
No 96
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=87.02 E-value=0.36 Score=60.67 Aligned_cols=70 Identities=23% Similarity=0.502 Sum_probs=45.2
Q ss_pred CCcccCCCCCccccCCCCCcccccCCCCcccccccccccccccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHH
Q 000906 1087 REIYHCPYCNLCRVGKGLGIDYFHCMNCNACMSRSLQVHICREKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQD 1166 (1231)
Q Consensus 1087 k~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~s~~l~~HkC~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~ 1166 (1231)
--+|-|+.|+-=-+++++ .-|++|-.|-+ ..|.+|-..+.+- .+..--|||..|..|+..
T Consensus 751 ~i~~~~~nc~a~~~~~~~----~~c~rc~s~a~--------------~~CtVC~~vi~G~--~~~c~~C~H~gH~sh~~s 810 (839)
T KOG0269|consen 751 TIHYACPNCDAPMVLTKL----WQCDRCESRAS--------------AKCTVCDLVIRGV--DVWCQVCGHGGHDSHLKS 810 (839)
T ss_pred eeeccccccCCccccccc----eeechHHHHhh--------------cCceeecceeeee--EeecccccccccHHHHHH
Confidence 356777777766666543 34555555433 3599997664322 112235999999999999
Q ss_pred hhccCCCCCC
Q 000906 1167 YTCTHYTCPI 1176 (1231)
Q Consensus 1167 wl~~~~tCPI 1176 (1231)
|...+.-||.
T Consensus 811 w~~~~s~ca~ 820 (839)
T KOG0269|consen 811 WFFKASPCAK 820 (839)
T ss_pred HHhcCCCCcc
Confidence 9876666654
No 97
>PHA02862 5L protein; Provisional
Probab=86.58 E-value=0.4 Score=49.98 Aligned_cols=45 Identities=24% Similarity=0.595 Sum_probs=33.4
Q ss_pred CCCCcccccccccCCCCceEcCcC-----CcccHHhHHHhhc--cCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCG-----HMMHSTCFQDYTC--THYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCG-----H~fH~~Ci~~wl~--~~~tCPICRksv~ 1182 (1231)
.+.|=||.+. . ++. .-||. -..|..|+.+|+. .+..||+|+..+.
T Consensus 2 ~diCWIC~~~--~-~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDV--C-DER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCc--C-CCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 4579999887 1 222 24664 6799999999984 4578999999884
No 98
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=86.33 E-value=0.46 Score=60.40 Aligned_cols=42 Identities=31% Similarity=0.744 Sum_probs=31.0
Q ss_pred CCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1135 NCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1135 ~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
.|..|--.| .-|.+...|||.||.+|+. .....||-|+-.+.
T Consensus 842 kCs~C~~~L---dlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 842 KCSACEGTL---DLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eecccCCcc---ccceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence 466665443 3366777899999999998 55678999998553
No 99
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=85.90 E-value=0.53 Score=42.45 Aligned_cols=47 Identities=26% Similarity=0.633 Sum_probs=31.7
Q ss_pred ccccccccccccccC-----CCccCCCccCCcccceEecCccccccCCCCcccCCCCCc
Q 000906 1044 ISEMMCMKCLIIQPV-----GSTCSTTSCKNFSMARYYCRICKLFDDEREIYHCPYCNL 1097 (1231)
Q Consensus 1044 ~~~m~C~~C~~~Qp~-----~~~C~~~sC~g~~fa~Y~C~iCkl~Dddk~~YHC~~CgI 1097 (1231)
.....|..|+..-.. .-.|+| | |.. -=|-|.+|+-..+ .|.||+||+
T Consensus 5 ~~~~~CtSCg~~i~~~~~~~~F~CPn--C-G~~-~I~RC~~CRk~~~---~Y~CP~CGF 56 (59)
T PRK14890 5 MEPPKCTSCGIEIAPREKAVKFLCPN--C-GEV-IIYRCEKCRKQSN---PYTCPKCGF 56 (59)
T ss_pred ccCccccCCCCcccCCCccCEeeCCC--C-CCe-eEeechhHHhcCC---ceECCCCCC
Confidence 345578888866432 246876 9 664 1344889987765 699999985
No 100
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=84.87 E-value=0.9 Score=52.48 Aligned_cols=65 Identities=22% Similarity=0.546 Sum_probs=46.3
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccChHHHHHHhHHHHhhcCCChhhh
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGDMKVYFSMLDALLAEEKMPPEYL 1205 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~dm~~~f~~LD~eia~qpmPeeyr 1205 (1231)
-.+||||.++|.. ++..-+=||..+..|-. +...+||.||.++++.. -+.++..+++...|=.|.
T Consensus 48 lleCPvC~~~l~~---Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~~R--~~amEkV~e~~~vpC~~~ 112 (299)
T KOG3002|consen 48 LLDCPVCFNPLSP---PIFQCDNGHLACSSCRT---KVSNKCPTCRLPIGNIR--CRAMEKVAEAVLVPCKNA 112 (299)
T ss_pred hccCchhhccCcc---cceecCCCcEehhhhhh---hhcccCCccccccccHH--HHHHHHHHHhceeccccc
Confidence 3589999999642 33333338999999986 45688999999999652 345677777777665443
No 101
>PRK04023 DNA polymerase II large subunit; Validated
Probab=84.13 E-value=0.81 Score=59.40 Aligned_cols=14 Identities=21% Similarity=0.356 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHccc
Q 000906 335 KDLEGILESLLQMK 348 (1231)
Q Consensus 335 ~~l~~i~~~~~~~~ 348 (1231)
.|.....||+..-+
T Consensus 175 ~EieRyvEEi~lY~ 188 (1121)
T PRK04023 175 DEIERYVEEIELYK 188 (1121)
T ss_pred HHHHHHHHHHHHHH
Confidence 56677777776554
No 102
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.62 E-value=0.58 Score=55.56 Aligned_cols=45 Identities=31% Similarity=0.697 Sum_probs=33.5
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhc--------cCCCCCCCC
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTC--------THYTCPICS 1178 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~--------~~~tCPICR 1178 (1231)
--.|-||++. +....-.+.+||+|+|+..|...|.. ...+||-|.
T Consensus 184 lf~C~ICf~e-~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 184 LFDCCICFEE-QMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred cccceeeehh-hcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 3568899988 44434567899999999999999952 236798554
No 103
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=82.89 E-value=0.65 Score=52.07 Aligned_cols=85 Identities=27% Similarity=0.658 Sum_probs=51.0
Q ss_pred ccccccccccccccccCC--------------------cccCcccccccCCCccccccccccccccccccccCCCccCCC
Q 000906 1006 GCKHYKRNCKLVATCCNS--------------------LYTCIRCHDEVADHALDRKSISEMMCMKCLIIQPVGSTCSTT 1065 (1231)
Q Consensus 1006 GC~HY~R~ckL~cpCC~k--------------------~YpCR~CHDe~~dH~ldR~~~~~m~C~~C~~~Qp~~~~C~~~ 1065 (1231)
=|.|=- --|.+|||+| -|.|..|.....|--+-|.+ ...+|-.|+..-.
T Consensus 63 YCEhDF--~~LfaPcC~kC~EFiiGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rnq-gr~LC~~Cn~k~K-------- 131 (332)
T KOG2272|consen 63 YCEHDF--HVLFAPCCGKCGEFIIGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRNQ-GRALCRECNQKEK-------- 131 (332)
T ss_pred cccccc--hhhhchhhcccccchhhHHHHhhccccCcccchhHHHHHHHhhhhhHhhc-chHHhhhhhhhhc--------
Confidence 366632 2467788876 25566666555565555543 4667777654422
Q ss_pred ccCCcccceEecCcccc-ccCC-----CCcccCCCCCccccCCCCCcccccCCCCcccc
Q 000906 1066 SCKNFSMARYYCRICKL-FDDE-----REIYHCPYCNLCRVGKGLGIDYFHCMNCNACM 1118 (1231)
Q Consensus 1066 sC~g~~fa~Y~C~iCkl-~Ddd-----k~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~ 1118 (1231)
-..-|+|.|.+|+- .|++ .++|| -.-|.|.+||.=+
T Consensus 132 ---a~~~g~YvC~KCh~~iD~~~l~fr~d~yH--------------~yHFkCt~C~keL 173 (332)
T KOG2272|consen 132 ---AKGRGRYVCQKCHAHIDEQPLTFRGDPYH--------------PYHFKCTTCGKEL 173 (332)
T ss_pred ---ccccceeehhhhhhhcccccccccCCCCC--------------ccceecccccccc
Confidence 12457999999985 5665 45665 1346677776544
No 104
>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=82.83 E-value=0.49 Score=41.07 Aligned_cols=43 Identities=28% Similarity=0.627 Sum_probs=26.2
Q ss_pred CCCcccccccccCCCCceEcCcC-CcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCG-HMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCG-H~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
.+|--|... .. -.+.|. |+.+..|+.-.++.+..||||.+++.
T Consensus 3 ~nCKsCWf~---~k---~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 3 YNCKSCWFA---NK---GLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp ----SS-S-----S---SEEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred ccChhhhhc---CC---CeeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 456667643 21 245797 99999999999999999999998774
No 105
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.57 E-value=0.78 Score=53.46 Aligned_cols=52 Identities=25% Similarity=0.426 Sum_probs=42.8
Q ss_pred ccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccC
Q 000906 1128 REKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1128 ~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~d 1183 (1231)
...+.++.||||.-. .-..++-||||--+..||.+.+.++..|=.|+.++.+
T Consensus 417 lp~sEd~lCpICyA~----pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAG----PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CCCcccccCcceecc----cchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 345678899999754 2234667999999999999999999999999999875
No 106
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.56 E-value=1 Score=53.43 Aligned_cols=47 Identities=28% Similarity=0.677 Sum_probs=38.3
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhcc-C--CCCCCCCcc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT-H--YTCPICSKS 1180 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~-~--~tCPICRks 1180 (1231)
--.|||=.+. -+...|.+.|.|||++-..-++...++ . ..||.|-..
T Consensus 334 vF~CPVlKeq-tsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 334 VFICPVLKEQ-TSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred eeecccchhh-ccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 3579998887 666678899999999999999998643 3 789999753
No 107
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.51 E-value=1.5 Score=49.69 Aligned_cols=47 Identities=32% Similarity=0.820 Sum_probs=37.3
Q ss_pred CCCcccccccccCCC---CceEcCcCCcccHHhHHHhhcc-CCCCCCCCccc
Q 000906 1134 DNCPICHEDLFSSTN---PAKALPCGHMMHSTCFQDYTCT-HYTCPICSKSL 1181 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~---~v~~LpCGH~fH~~Ci~~wl~~-~~tCPICRksv 1181 (1231)
..|-||-++ |.+.+ ..+.|.|||.+...|+...+.. ...||-||.+.
T Consensus 4 ~~c~~c~~~-~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNED-YSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCcc-ccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 468899998 65553 3467899999999999988754 45689999994
No 108
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=79.78 E-value=1.5 Score=51.22 Aligned_cols=68 Identities=21% Similarity=0.399 Sum_probs=46.3
Q ss_pred cCCCCcccccccc-cccccccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHh--hccCCCCCCCCccc
Q 000906 1110 HCMNCNACMSRSL-QVHICREKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDY--TCTHYTCPICSKSL 1181 (1231)
Q Consensus 1110 HC~~Cn~C~s~~l-~~HkC~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~w--l~~~~tCPICRksv 1181 (1231)
.-.+-+.|...++ ..-+=........|.||-+.+ +-+..+||||-++-.|--.. +-....||+||..-
T Consensus 37 kqkKNnlsaEPnlttsSaddtDEen~~C~ICA~~~----TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 37 KQKKNNLSAEPNLTTSSADDTDEENMNCQICAGST----TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred hccccccccCCccccccccccccccceeEEecCCc----eEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 3456677776665 222222233457899998874 34567899999999998765 44556799999754
No 109
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=78.73 E-value=1.2 Score=40.26 Aligned_cols=45 Identities=27% Similarity=0.704 Sum_probs=32.4
Q ss_pred ccccccccccccCC-----CccCCCccCCcccceEecCccccccCCCCcccCCCCCc
Q 000906 1046 EMMCMKCLIIQPVG-----STCSTTSCKNFSMARYYCRICKLFDDEREIYHCPYCNL 1097 (1231)
Q Consensus 1046 ~m~C~~C~~~Qp~~-----~~C~~~sC~g~~fa~Y~C~iCkl~Dddk~~YHC~~CgI 1097 (1231)
...|..|+.+-.++ -.|+| | |..+ =|-|.+|+-..+ +|.|++||+
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPn--C-Ge~~-I~Rc~~CRk~g~---~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPN--C-GEVE-IYRCAKCRKLGN---PYRCPKCGF 58 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCC--C-Ccee-eehhhhHHHcCC---ceECCCcCc
Confidence 56899998876444 35877 9 6333 367888887765 799999985
No 110
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.53 E-value=0.92 Score=58.11 Aligned_cols=43 Identities=28% Similarity=0.574 Sum_probs=32.4
Q ss_pred ccccccCCCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhh
Q 000906 1124 VHICREKSFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYT 1168 (1231)
Q Consensus 1124 ~HkC~E~s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl 1168 (1231)
.|+|+--.....|-+|.-+|+. ++-.+.||||.||..|+..-.
T Consensus 808 ~~ry~v~ep~d~C~~C~~~ll~--~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 808 RQRYRVLEPQDSCDHCGRPLLI--KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred hcceEEecCccchHHhcchhhc--CcceeeeccchHHHHHHHHHH
Confidence 3445444457889999988653 366778999999999998764
No 111
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=78.28 E-value=1.7 Score=46.25 Aligned_cols=46 Identities=20% Similarity=0.667 Sum_probs=32.9
Q ss_pred CCCCCcccccccccCCCCceEcCcC--C---cccHHhHHHhhc--cCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCG--H---MMHSTCFQDYTC--THYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCG--H---~fH~~Ci~~wl~--~~~tCPICRksv~ 1182 (1231)
.+..|=||.+. -+ . ..-||. . ..|.+|++.|+. +..+||+|+..+.
T Consensus 7 ~~~~CRIC~~~-~~--~--~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 7 MDKCCWICKDE-YD--V--VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCeeEecCCC-CC--C--ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 35679999877 11 1 224664 4 679999999974 4577999998873
No 112
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=76.45 E-value=22 Score=42.76 Aligned_cols=138 Identities=17% Similarity=0.194 Sum_probs=91.9
Q ss_pred CCCchhHHHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHhhcccccccccchhccccccccchhhhHh
Q 000906 590 PIPMDLIFFFHKALKKDLDYLVFGSAQLAENALFLVEFHRRFNLIRLLYEIHSDAEDEIAFPAMEAKGKLQNISHSYSID 669 (1231)
Q Consensus 590 ~~Pid~If~fHKALRrEL~~L~~~a~rl~~D~~~l~~~~~Rf~~L~~~yr~Hs~aEDEvIfPALeaR~~l~NVs~syslE 669 (1231)
-+|+-.+|.=-+++|..|+.+.... .+..-...+...+.+|..+=. |-+-+-..|||-|+.|+- ..++-.+-..
T Consensus 85 gHPv~tl~~EN~~i~~ll~~~l~~~----~~~~ik~~l~~lv~~L~~vg~-Hy~RKe~lIfp~~Er~Gi-tapptVmW~~ 158 (409)
T COG2461 85 GHPVRTLKRENKAIRSLLANLLQFP----PKKEIKEKLVELVSELDKIGK-HYTRKEMLIFPYIERRGI-TAPPTVMWVK 158 (409)
T ss_pred CCcHHHHhcccHHHHHHHHHHhhcc----ccHHHHHHHHHHHHHHHHhcc-ccccccccchhHHHHcCC-CCCCeeeecc
Confidence 5777777777788884444443221 234445556666667776667 999999999999998733 3333444577
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhCCHH
Q 000906 670 HRLEAEHFKKISNILIEMLELQASVSSNESNAQDKRMLKYKQLCIRLQDICKSMHKLLSEHIHREETELWPLFRECFSIE 749 (1231)
Q Consensus 670 Hk~Ee~Lf~~Is~lLa~l~~L~~~~~a~~~~~~~~~~~~y~~La~~La~~~~aL~tsL~qHL~~EE~el~PLl~~hFS~e 749 (1231)
|...-+.+..+..+|.+. +. ..+.+. ..++.+.+..=|.+||.-+.|.+..-||..
T Consensus 159 dDeiRe~lk~~~~~l~~~------------s~-----~~~ve~-------~~~~~t~i~dmIFkEe~Ilypt~~d~~te~ 214 (409)
T COG2461 159 DDEIREALKELLKLLKEV------------SI-----EEFVEK-------AESVLTEIEDMIFKEENILYPTLLDLLTEG 214 (409)
T ss_pred CcHHHHHHHHHHHHhhcc------------Ch-----HHHHHH-------HHHHHHHHHHHHHhhhhhHHhHHHHhcCHH
Confidence 777655566666655311 11 112222 344566677889999999999999999999
Q ss_pred HHHHHHHH
Q 000906 750 EQEKIIKC 757 (1231)
Q Consensus 750 Eqa~Lv~r 757 (1231)
||.+|-.+
T Consensus 215 ew~~i~~~ 222 (409)
T COG2461 215 EWEAIKEQ 222 (409)
T ss_pred HHHHHHhc
Confidence 99998544
No 113
>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=75.52 E-value=1.8 Score=53.08 Aligned_cols=50 Identities=22% Similarity=0.587 Sum_probs=41.8
Q ss_pred cccccccCCcccCcccccccCCCccccccccccccccccccccCCCccCCCccCCcc
Q 000906 1015 KLVATCCNSLYTCIRCHDEVADHALDRKSISEMMCMKCLIIQPVGSTCSTTSCKNFS 1071 (1231)
Q Consensus 1015 kL~cpCC~k~YpCR~CHDe~~dH~ldR~~~~~m~C~~C~~~Qp~~~~C~~~sC~g~~ 1071 (1231)
.+.|.-||....|..|.-...-|.- ...+.|-.|+..+++...|++ | |..
T Consensus 213 ~~~C~~Cg~~~~C~~C~~~l~~h~~----~~~l~Ch~Cg~~~~~~~~Cp~--C-~s~ 262 (505)
T TIGR00595 213 NLLCRSCGYILCCPNCDVSLTYHKK----EGKLRCHYCGYQEPIPKTCPQ--C-GSE 262 (505)
T ss_pred eeEhhhCcCccCCCCCCCceEEecC----CCeEEcCCCcCcCCCCCCCCC--C-CCC
Confidence 3789999999999999877777753 348999999999999999977 9 543
No 114
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.20 E-value=1.1 Score=55.44 Aligned_cols=44 Identities=25% Similarity=0.539 Sum_probs=34.5
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKS 1180 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRks 1180 (1231)
-+|+||+...+.++-..+.|-|||.++.+|....- +.+|| |..+
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp-~~~D 55 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP-TKRD 55 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC-CCcc
Confidence 47999987767776667889999999999997654 55788 6654
No 115
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=74.18 E-value=0.86 Score=54.35 Aligned_cols=136 Identities=24% Similarity=0.568 Sum_probs=0.0
Q ss_pred CcccccccCCC-----cccc-ccccccccccccccccCCCccCCCccCCcccceEecCccccccCCCCcccCCCCC----
Q 000906 1027 CIRCHDEVADH-----ALDR-KSISEMMCMKCLIIQPVGSTCSTTSCKNFSMARYYCRICKLFDDEREIYHCPYCN---- 1096 (1231)
Q Consensus 1027 CR~CHDe~~dH-----~ldR-~~~~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~C~iCkl~Dddk~~YHC~~Cg---- 1096 (1231)
|-+||..+.-- .|++ +.|.-..|..|.+.- .++.--+ .-++-||.-|..-.-|| |..||
T Consensus 277 C~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L-~Gq~FY~------v~~k~~CE~cyq~tlek----C~~Cg~~I~ 345 (468)
T KOG1701|consen 277 CAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQL-AGQSFYQ------VDGKPYCEGCYQDTLEK----CNKCGEPIM 345 (468)
T ss_pred hhhcCCcccCcchHHHHhhhhhcccceehHhhhhhh-ccccccc------cCCcccchHHHHHHHHH----HhhhhhHHH
Q ss_pred ---ccccCCCCCcccccCCCCccccccc-c-----ccccccc---CCCCCCCccccccc---ccCCCCceEcCcCCcccH
Q 000906 1097 ---LCRVGKGLGIDYFHCMNCNACMSRS-L-----QVHICRE---KSFMDNCPICHEDL---FSSTNPAKALPCGHMMHS 1161 (1231)
Q Consensus 1097 ---ICRvG~gL~~d~fHC~~Cn~C~s~~-l-----~~HkC~E---~s~e~~CPIClE~L---f~s~~~v~~LpCGH~fH~ 1161 (1231)
+=-.|+--.-.-|.|-.|+-|+.-. + ++=.|++ +.+--.|.||.++| -+..+.|++..=+--||.
T Consensus 346 d~iLrA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etvRvvamdr~fHv 425 (468)
T KOG1701|consen 346 DRILRALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETVRVVAMDRDFHV 425 (468)
T ss_pred HHHHHhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCcceEEEEEccccccc
Q ss_pred HhHHHhhccCCCCCCCCccc
Q 000906 1162 TCFQDYTCTHYTCPICSKSL 1181 (1231)
Q Consensus 1162 ~Ci~~wl~~~~tCPICRksv 1181 (1231)
.|+ +|--|+..+
T Consensus 426 ~CY--------~CEDCg~~L 437 (468)
T KOG1701|consen 426 NCY--------KCEDCGLLL 437 (468)
T ss_pred cce--------ehhhcCccc
No 116
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=73.90 E-value=1 Score=50.30 Aligned_cols=49 Identities=29% Similarity=0.671 Sum_probs=38.4
Q ss_pred CCCCcccccccccCCCCceEc-C-cCCcccHHhHHHhhcc-CCCCC--CCCccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKAL-P-CGHMMHSTCFQDYTCT-HYTCP--ICSKSL 1181 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~L-p-CGH~fH~~Ci~~wl~~-~~tCP--ICRksv 1181 (1231)
+..||||..+.+-+.+-...+ | |=|-|+.+|.+.-++. --.|| -|.+.+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 457999999988776533333 6 9999999999998754 46799 898766
No 117
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=72.41 E-value=2.7 Score=53.84 Aligned_cols=55 Identities=20% Similarity=0.503 Sum_probs=44.1
Q ss_pred cccccccCCcccCcccccccCCCccccccccccccccccccccCCCccCCCccCCcccceEe
Q 000906 1015 KLVATCCNSLYTCIRCHDEVADHALDRKSISEMMCMKCLIIQPVGSTCSTTSCKNFSMARYY 1076 (1231)
Q Consensus 1015 kL~cpCC~k~YpCR~CHDe~~dH~ldR~~~~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~ 1076 (1231)
-+.|..||-.+.|++|=.-..=|.- +..+.|-+|+..+++...|++ | |...=+|+
T Consensus 435 ~l~C~~Cg~v~~Cp~Cd~~lt~H~~----~~~L~CH~Cg~~~~~p~~Cp~--C-gs~~L~~~ 489 (730)
T COG1198 435 LLLCRDCGYIAECPNCDSPLTLHKA----TGQLRCHYCGYQEPIPQSCPE--C-GSEHLRAV 489 (730)
T ss_pred eeecccCCCcccCCCCCcceEEecC----CCeeEeCCCCCCCCCCCCCCC--C-CCCeeEEe
Confidence 3789999999999999555554533 368999999999999999976 9 77655555
No 118
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.25 E-value=0.29 Score=57.56 Aligned_cols=51 Identities=25% Similarity=0.548 Sum_probs=43.4
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
....|.||.+.+...-..+..+.|||.+|..|+..|+.+...||.|++.+.
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 346799999997655456677899999999999999988889999999984
No 119
>COG5592 Uncharacterized conserved protein [Function unknown]
Probab=70.71 E-value=29 Score=37.36 Aligned_cols=132 Identities=17% Similarity=0.164 Sum_probs=86.1
Q ss_pred HHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHHHHhhcccccccccc-----hhcccccc--ccchhhhHhH
Q 000906 598 FFHKALKKDLDYLVFGSAQLAENALFLVEFHRRFNLIRLLYEIHSDAEDEIAFPA-----MEAKGKLQ--NISHSYSIDH 670 (1231)
Q Consensus 598 ~fHKALRrEL~~L~~~a~rl~~D~~~l~~~~~Rf~~L~~~yr~Hs~aEDEvIfPA-----LeaR~~l~--NVs~syslEH 670 (1231)
..|..+|+-=..+ +..++-.+..-+.|++.+++-|-.-|-.++||. ++.+-..+ +....|..+|
T Consensus 10 v~~l~~r~len~~---------~~~~~~e~le~~gf~~k~~k~h~e~Ee~ilF~v~Vd~~~ed~~~fkdt~~~~~i~~DH 80 (171)
T COG5592 10 VLHLSIRNLENLA---------YGKDLLEILEFEGFNEKLGKDHVELEEKILFPVIVDADMEDLYVFKDTPEVDRIKNDH 80 (171)
T ss_pred hhhhhhhhchhHH---------hHHHHHHHHhhcchHHHHhhhHHHHHHHhhhhhccchHHHHHHhhhccchhhHhHhhH
Confidence 5666666532222 333455555566699999999999999999995 33332233 4467788999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhCCHH-
Q 000906 671 RLEAEHFKKISNILIEMLELQASVSSNESNAQDKRMLKYKQLCIRLQDICKSMHKLLSEHIHREETELWPLFRECFSIE- 749 (1231)
Q Consensus 671 k~Ee~Lf~~Is~lLa~l~~L~~~~~a~~~~~~~~~~~~y~~La~~La~~~~aL~tsL~qHL~~EE~el~PLl~~hFS~e- 749 (1231)
+-++-|++.+-..- |+ .++ +.-+....++|..|=..||..++|-+.. ++.+
T Consensus 81 kliE~l~tnlik~k-------------R~-------~k~-------~e~~p~fyK~LtdHn~aEE~~IfPrvks-~~~E~ 132 (171)
T COG5592 81 KLIETLATNLIKWK-------------RP-------DKI-------KERVPLFYKTLTDHNLAEEEYIFPRVKS-LKGED 132 (171)
T ss_pred HHHHHHHHHHHhhc-------------cc-------hHH-------HHHHHHHHHHHHHccccccchhhHHHHh-hcchh
Confidence 99888775542221 21 112 2223446778999999999999997655 4444
Q ss_pred --HHHHHHHHHhccCCHHH
Q 000906 750 --EQEKIIKCMLGRIRAET 766 (1231)
Q Consensus 750 --Eqa~Lv~r~iasIP~e~ 766 (1231)
++.+++-.+|..++++.
T Consensus 133 ~~~~~kl~LeiI~~~~~dr 151 (171)
T COG5592 133 EQSALKLALEIIEQYGFDR 151 (171)
T ss_pred hHHHHHHHHHHHHHhCchh
Confidence 66677777777766554
No 120
>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=70.34 E-value=2.3 Score=42.55 Aligned_cols=20 Identities=25% Similarity=0.527 Sum_probs=16.2
Q ss_pred ccccCCCCcccCCCCCcccc
Q 000906 1081 KLFDDEREIYHCPYCNLCRV 1100 (1231)
Q Consensus 1081 kl~Dddk~~YHC~~CgICRv 1100 (1231)
||||=+|.+..||+||-=..
T Consensus 18 kFYDLnk~PivCP~CG~~~~ 37 (108)
T PF09538_consen 18 KFYDLNKDPIVCPKCGTEFP 37 (108)
T ss_pred hhccCCCCCccCCCCCCccC
Confidence 67888899999999995433
No 121
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=68.70 E-value=4.1 Score=54.51 Aligned_cols=19 Identities=11% Similarity=0.158 Sum_probs=11.7
Q ss_pred HHHhccccCCCCChhhHHH
Q 000906 942 AAIRRVSRDSSLDPQKKSF 960 (1231)
Q Consensus 942 ~~ir~i~~~~~l~p~~ka~ 960 (1231)
..|+-|+..+.+.=++||.
T Consensus 588 ~~~~~vn~~s~~~ir~ra~ 606 (1337)
T PRK14714 588 NAIDLINELAPFKVRERAP 606 (1337)
T ss_pred cHHHHHHhhCCcEEeccCc
Confidence 4466666666666666664
No 122
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=68.41 E-value=2.8 Score=32.59 Aligned_cols=37 Identities=30% Similarity=0.698 Sum_probs=26.1
Q ss_pred CcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1136 CPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
|+.|.+.+..... .+..=|..||..|| +|..|++++.
T Consensus 2 C~~C~~~i~~~~~--~~~~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGEL--VLRALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcE--EEEeCCccccccCC--------CCcccCCcCc
Confidence 7889888654422 22234789999987 7889998764
No 123
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=68.34 E-value=2.6 Score=48.28 Aligned_cols=18 Identities=22% Similarity=0.346 Sum_probs=16.8
Q ss_pred cccCCCCCCCCCcccccC
Q 000906 1214 LIPLNVANVSPDIFFDGL 1231 (1231)
Q Consensus 1214 ~i~Cn~C~ss~~~~f~gl 1231 (1231)
.+.|+.|+-.+|+|||||
T Consensus 329 ~~FCD~CDRG~HT~CVGL 346 (381)
T KOG1512|consen 329 HLFCDVCDRGPHTLCVGL 346 (381)
T ss_pred eeccccccCCCCcccccc
Confidence 578999999999999998
No 124
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=68.01 E-value=2.4 Score=53.98 Aligned_cols=43 Identities=26% Similarity=0.628 Sum_probs=34.9
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhc--cCCCCCCCCccc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTC--THYTCPICSKSL 1181 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~--~~~tCPICRksv 1181 (1231)
..|+||++. +.....+|||.|+..|+...+. ....||+||..+
T Consensus 455 ~~c~ic~~~-----~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCDL-----DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred ccccccccc-----ccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 789999983 4567789999999999999863 334699999766
No 125
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=67.83 E-value=2.7 Score=47.60 Aligned_cols=65 Identities=25% Similarity=0.768 Sum_probs=39.5
Q ss_pred CCcccCccccccc-CCCccccccccccccccccccccCCCccCCCccCCcccceEecCcccc-c-cCC----------CC
Q 000906 1022 NSLYTCIRCHDEV-ADHALDRKSISEMMCMKCLIIQPVGSTCSTTSCKNFSMARYYCRICKL-F-DDE----------RE 1088 (1231)
Q Consensus 1022 ~k~YpCR~CHDe~-~dH~ldR~~~~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~C~iCkl-~-Ddd----------k~ 1088 (1231)
|+.|.|-||++-. +|-.++-.+ .|+....-+-.|.. | ..++.|.|-.||. | |+. ..
T Consensus 140 Grif~CsfC~~flCEDDQFEHQA-------sCQvLe~E~~KC~S--C--NrlGq~sCLRCK~cfCddHvrrKg~ky~k~k 208 (314)
T PF06524_consen 140 GRIFKCSFCDNFLCEDDQFEHQA-------SCQVLESETFKCQS--C--NRLGQYSCLRCKICFCDDHVRRKGFKYEKGK 208 (314)
T ss_pred CeEEEeecCCCeeeccchhhhhh-------hhhhhhcccccccc--c--ccccchhhhheeeeehhhhhhhcccccccCC
Confidence 6789999998773 443343322 24444444556744 7 5678888888885 3 332 24
Q ss_pred cccCCCCCc
Q 000906 1089 IYHCPYCNL 1097 (1231)
Q Consensus 1089 ~YHC~~CgI 1097 (1231)
++-||+||.
T Consensus 209 ~~PCPKCg~ 217 (314)
T PF06524_consen 209 PIPCPKCGY 217 (314)
T ss_pred CCCCCCCCC
Confidence 556777664
No 126
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=67.14 E-value=2.5 Score=35.65 Aligned_cols=24 Identities=33% Similarity=0.930 Sum_probs=15.5
Q ss_pred CcCCcccHHhHHHhhccCC--CCCCC
Q 000906 1154 PCGHMMHSTCFQDYTCTHY--TCPIC 1177 (1231)
Q Consensus 1154 pCGH~fH~~Ci~~wl~~~~--tCPIC 1177 (1231)
.|+=.+|..|+..|++... +||.|
T Consensus 18 ~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 18 DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 3777899999999986554 79988
No 127
>PRK14873 primosome assembly protein PriA; Provisional
Probab=67.12 E-value=3.4 Score=52.59 Aligned_cols=48 Identities=17% Similarity=0.344 Sum_probs=38.8
Q ss_pred ccccccCCcccCcccccccCCCccccccccccccccccccccCCCccCCCccCCcc
Q 000906 1016 LVATCCNSLYTCIRCHDEVADHALDRKSISEMMCMKCLIIQPVGSTCSTTSCKNFS 1071 (1231)
Q Consensus 1016 L~cpCC~k~YpCR~CHDe~~dH~ldR~~~~~m~C~~C~~~Qp~~~~C~~~sC~g~~ 1071 (1231)
+.|..||....|..|.--..=|. ....+.|-.|+..+ ....|++ | |..
T Consensus 384 l~C~~Cg~~~~C~~C~~~L~~h~----~~~~l~Ch~CG~~~-~p~~Cp~--C-gs~ 431 (665)
T PRK14873 384 LACARCRTPARCRHCTGPLGLPS----AGGTPRCRWCGRAA-PDWRCPR--C-GSD 431 (665)
T ss_pred eEhhhCcCeeECCCCCCceeEec----CCCeeECCCCcCCC-cCccCCC--C-cCC
Confidence 68999999999999988877664 23578999999977 4679976 9 554
No 128
>PF01529 zf-DHHC: DHHC palmitoyltransferase; InterPro: IPR001594 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 DHHC-type zinc finger domain, which is also known as NEW1 []. The DHHC Zn-finger was first isolated in the Drosophila putative transcription factor DNZ1 and was named after a conserved sequence motif []. This domain has palmitoyltransferase activity; this post-translational modification attaches the C16 saturated fatty acid palmitate via a thioester linkage, predominantly to cysteine residues []. This domain is found in the DHHC proteins which are palmitoyl transferases []; the DHHC motif is found within a cysteine-rich domain which is thought to contain the catalytic site. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=66.26 E-value=4.3 Score=41.97 Aligned_cols=47 Identities=28% Similarity=0.609 Sum_probs=39.6
Q ss_pred CcccceEecCccccccCCCCcccCCCCCccccCCCCCcccccCCCCccccccc
Q 000906 1069 NFSMARYYCRICKLFDDEREIYHCPYCNLCRVGKGLGIDYFHCMNCNACMSRS 1121 (1231)
Q Consensus 1069 g~~fa~Y~C~iCkl~Dddk~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~s~~ 1121 (1231)
+......||..|+.+-.. ..+||..||.|-.+- -.||.=-|.|+...
T Consensus 43 ~~~~~~~~C~~C~~~kp~-Rs~HC~~C~~CV~~~-----DHHC~w~~~cIG~~ 89 (174)
T PF01529_consen 43 DENGELKYCSTCKIIKPP-RSHHCRVCNRCVLRF-----DHHCPWLGNCIGRR 89 (174)
T ss_pred ccCCCCEECcccCCcCCC-cceeccccccccccc-----cccchhhccccccc
Confidence 677888899999999776 589999999999983 36999999998765
No 129
>PRK05580 primosome assembly protein PriA; Validated
Probab=65.99 E-value=3.8 Score=52.12 Aligned_cols=51 Identities=20% Similarity=0.526 Sum_probs=42.2
Q ss_pred cccccccCCcccCcccccccCCCccccccccccccccccccccCCCccCCCccCCccc
Q 000906 1015 KLVATCCNSLYTCIRCHDEVADHALDRKSISEMMCMKCLIIQPVGSTCSTTSCKNFSM 1072 (1231)
Q Consensus 1015 kL~cpCC~k~YpCR~CHDe~~dH~ldR~~~~~m~C~~C~~~Qp~~~~C~~~sC~g~~f 1072 (1231)
-+.|.-||....|..|.-...-|.. ...+.|-.|+..++....|++ | |...
T Consensus 381 ~~~C~~Cg~~~~C~~C~~~l~~h~~----~~~l~Ch~Cg~~~~~~~~Cp~--C-g~~~ 431 (679)
T PRK05580 381 FLLCRDCGWVAECPHCDASLTLHRF----QRRLRCHHCGYQEPIPKACPE--C-GSTD 431 (679)
T ss_pred ceEhhhCcCccCCCCCCCceeEECC----CCeEECCCCcCCCCCCCCCCC--C-cCCe
Confidence 3689999999999999887777753 457999999999999999977 9 5543
No 130
>COG5592 Uncharacterized conserved protein [Function unknown]
Probab=65.51 E-value=45 Score=35.98 Aligned_cols=129 Identities=22% Similarity=0.276 Sum_probs=86.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhhHhH-----Hhh--hc--hhh
Q 000906 39 LLVYFHKAQRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVIFLAL-----DAH--IK--NVV 109 (1231)
Q Consensus 39 ~~~~~HkAlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevIfPaL-----~~r--~~--nv~ 109 (1231)
++.+.|..+|+- .+++ . ..++.++..-+.|...+++-|-.-|-..+||.. ++. .+ +.+
T Consensus 7 l~~v~~l~~r~l----en~~------~---~~~~~e~le~~gf~~k~~k~h~e~Ee~ilF~v~Vd~~~ed~~~fkdt~~~ 73 (171)
T COG5592 7 LLMVLHLSIRNL----ENLA------Y---GKDLLEILEFEGFNEKLGKDHVELEEKILFPVIVDADMEDLYVFKDTPEV 73 (171)
T ss_pred HHhhhhhhhhhc----hhHH------h---HHHHHHHHhhcchHHHHhhhHHHHHHHhhhhhccchHHHHHHhhhccchh
Confidence 455677777763 2221 1 145667777777999999999999999999953 333 12 458
Q ss_pred hhHHhhhhhHHHHHHHHHHHHhhhcCCCCCCCchHHHHHHHHhHHHHHHHHhhHHHHHhhhccCCCCCcccccCCCCccc
Q 000906 110 STYSLEHESIDELFDSVFDLLNVLLGGSENVSKPFQEVVFCIGTIKTFICQHMLKEEEQYVLSSKYPTASLVNEGGIHED 189 (1231)
Q Consensus 110 ~~~~~EH~~~d~Lfd~v~~lL~~~~~~~~~~~~~~~eLa~~i~~l~t~l~qHm~~EE~q~~~~~~~~~~~~~~~~~~~~~ 189 (1231)
..|..+|.-|+-|++.+-..- +. +-.-.-+..+-..|..|=..||+.
T Consensus 74 ~~i~~DHkliE~l~tnlik~k------R~------~k~~e~~p~fyK~LtdHn~aEE~~--------------------- 120 (171)
T COG5592 74 DRIKNDHKLIETLATNLIKWK------RP------DKIKERVPLFYKTLTDHNLAEEEY--------------------- 120 (171)
T ss_pred hHhHhhHHHHHHHHHHHHhhc------cc------hHHHHHHHHHHHHHHHccccccch---------------------
Confidence 899999999999998775541 11 233344555666899999999999
Q ss_pred chhhHHHhcCCHH---HHHHHHHhHhcCC
Q 000906 190 EVFPLLVRQFSST---EQASLVCQFLCSV 215 (1231)
Q Consensus 190 ~v~PLl~~~fS~~---Eqa~Lv~~f~~si 215 (1231)
+||- |+.++.+ +++.++-..+..+
T Consensus 121 -IfPr-vks~~~E~~~~~~kl~LeiI~~~ 147 (171)
T COG5592 121 -IFPR-VKSLKGEDEQSALKLALEIIEQY 147 (171)
T ss_pred -hhHH-HHhhcchhhHHHHHHHHHHHHHh
Confidence 9998 5666655 3334444444443
No 131
>PHA03096 p28-like protein; Provisional
Probab=64.99 E-value=3.4 Score=47.63 Aligned_cols=46 Identities=20% Similarity=0.289 Sum_probs=30.3
Q ss_pred CCCcccccccccCC---CCceEc-CcCCcccHHhHHHhhcc---CCCCCCCCc
Q 000906 1134 DNCPICHEDLFSST---NPAKAL-PCGHMMHSTCFQDYTCT---HYTCPICSK 1179 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~---~~v~~L-pCGH~fH~~Ci~~wl~~---~~tCPICRk 1179 (1231)
-.|.||+|...... ..--.| .|.|.|+..|+..|... .-+||.|++
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 56888888765321 111234 69999999999999632 244666654
No 132
>PF12773 DZR: Double zinc ribbon
Probab=64.83 E-value=5.3 Score=33.86 Aligned_cols=22 Identities=23% Similarity=0.640 Sum_probs=13.8
Q ss_pred cccccccccC-CCccCCCccCCcccc
Q 000906 1049 CMKCLIIQPV-GSTCSTTSCKNFSMA 1073 (1231)
Q Consensus 1049 C~~C~~~Qp~-~~~C~~~sC~g~~fa 1073 (1231)
|..|+++.+. ...|.+ | |..+.
T Consensus 1 Cp~Cg~~~~~~~~fC~~--C-G~~l~ 23 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPH--C-GTPLP 23 (50)
T ss_pred CCCcCCcCCccccCChh--h-cCChh
Confidence 5667766433 356766 7 76665
No 133
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=64.83 E-value=4.7 Score=47.16 Aligned_cols=51 Identities=29% Similarity=0.571 Sum_probs=40.1
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
-...||||-+++...+....--|||+.++..|...-...+.+||.||++..
T Consensus 248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred cCCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 346799999997444444344578999999999888889999999998774
No 134
>PLN03086 PRLI-interacting factor K; Provisional
Probab=64.54 E-value=2.7 Score=52.37 Aligned_cols=53 Identities=17% Similarity=0.525 Sum_probs=28.3
Q ss_pred CCcccCCCCCccccCCCCCc------ccccCCCCccccccc-ccccc---cccCCCCCCCcccccc
Q 000906 1087 REIYHCPYCNLCRVGKGLGI------DYFHCMNCNACMSRS-LQVHI---CREKSFMDNCPICHED 1142 (1231)
Q Consensus 1087 k~~YHC~~CgICRvG~gL~~------d~fHC~~Cn~C~s~~-l~~Hk---C~E~s~e~~CPIClE~ 1142 (1231)
+..+||+.||-=-....|.. .-+.|. |+..+... +..|. |.++ ...|+.|...
T Consensus 451 ~~H~~C~~Cgk~f~~s~LekH~~~~Hkpv~Cp-Cg~~~~R~~L~~H~~thCp~K--pi~C~fC~~~ 513 (567)
T PLN03086 451 KNHVHCEKCGQAFQQGEMEKHMKVFHEPLQCP-CGVVLEKEQMVQHQASTCPLR--LITCRFCGDM 513 (567)
T ss_pred ccCccCCCCCCccchHHHHHHHHhcCCCccCC-CCCCcchhHHHhhhhccCCCC--ceeCCCCCCc
Confidence 55678888864211111110 113576 76554333 36674 5443 5679999866
No 135
>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=64.38 E-value=3.7 Score=42.33 Aligned_cols=19 Identities=26% Similarity=0.303 Sum_probs=16.2
Q ss_pred ccccCCCCcccCCCCCccc
Q 000906 1081 KLFDDEREIYHCPYCNLCR 1099 (1231)
Q Consensus 1081 kl~Dddk~~YHC~~CgICR 1099 (1231)
||||-.|.+..||+||.=.
T Consensus 18 kFYDLnk~p~vcP~cg~~~ 36 (129)
T TIGR02300 18 KFYDLNRRPAVSPYTGEQF 36 (129)
T ss_pred cccccCCCCccCCCcCCcc
Confidence 6788889999999999654
No 136
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=63.37 E-value=5.1 Score=49.21 Aligned_cols=10 Identities=50% Similarity=1.188 Sum_probs=5.4
Q ss_pred CCCccccccc
Q 000906 1134 DNCPICHEDL 1143 (1231)
Q Consensus 1134 ~~CPIClE~L 1143 (1231)
-+||+|.-.|
T Consensus 53 f~CP~C~~~L 62 (483)
T PF05502_consen 53 FDCPICFSPL 62 (483)
T ss_pred ccCCCCCCcc
Confidence 3466665554
No 137
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=62.06 E-value=5.4 Score=50.62 Aligned_cols=46 Identities=26% Similarity=0.670 Sum_probs=24.6
Q ss_pred cccccccccccCC-CccCCCccCCcccceEecCccccccCCCCcccCCCCC
Q 000906 1047 MMCMKCLIIQPVG-STCSTTSCKNFSMARYYCRICKLFDDEREIYHCPYCN 1096 (1231)
Q Consensus 1047 m~C~~C~~~Qp~~-~~C~~~sC~g~~fa~Y~C~iCkl~Dddk~~YHC~~Cg 1096 (1231)
++|..|+.+-+.+ ..|.+ | |..+..-.|..|.---. .+.-.|+.||
T Consensus 2 ~~Cp~Cg~~n~~~akFC~~--C-G~~l~~~~Cp~CG~~~~-~~~~fC~~CG 48 (645)
T PRK14559 2 LICPQCQFENPNNNRFCQK--C-GTSLTHKPCPQCGTEVP-VDEAHCPNCG 48 (645)
T ss_pred CcCCCCCCcCCCCCccccc--c-CCCCCCCcCCCCCCCCC-cccccccccC
Confidence 4677777764443 45755 7 76665445555543211 2333555555
No 138
>PRK04023 DNA polymerase II large subunit; Validated
Probab=61.83 E-value=6.3 Score=51.74 Aligned_cols=51 Identities=22% Similarity=0.406 Sum_probs=33.7
Q ss_pred ccccccccccccccCCCccCCCccCCcccceEecCccccccCCCCcccCCCCCcccc
Q 000906 1044 ISEMMCMKCLIIQPVGSTCSTTSCKNFSMARYYCRICKLFDDEREIYHCPYCNLCRV 1100 (1231)
Q Consensus 1044 ~~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~C~iCkl~Dddk~~YHC~~CgICRv 1100 (1231)
+..-.|..|++.. +...|++ |+...-.-|+|+.|.-- -..|.|++||.=..
T Consensus 624 Vg~RfCpsCG~~t-~~frCP~--CG~~Te~i~fCP~CG~~---~~~y~CPKCG~El~ 674 (1121)
T PRK04023 624 IGRRKCPSCGKET-FYRRCPF--CGTHTEPVYRCPRCGIE---VEEDECEKCGREPT 674 (1121)
T ss_pred ccCccCCCCCCcC-CcccCCC--CCCCCCcceeCccccCc---CCCCcCCCCCCCCC
Confidence 3455788888886 4458876 94455667788888332 33477888885443
No 139
>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=60.96 E-value=4 Score=38.21 Aligned_cols=34 Identities=21% Similarity=0.606 Sum_probs=16.8
Q ss_pred cccccccccccccCCCccCCCccCCcc--------cceEecCccc
Q 000906 1045 SEMMCMKCLIIQPVGSTCSTTSCKNFS--------MARYYCRICK 1081 (1231)
Q Consensus 1045 ~~m~C~~C~~~Qp~~~~C~~~sC~g~~--------fa~Y~C~iCk 1081 (1231)
....|..|+..-.....|+. | +.. -+.|||..||
T Consensus 16 ~~~~C~~C~~~~~~~a~CPd--C-~~~Le~LkACGAvdYFC~~c~ 57 (70)
T PF07191_consen 16 GHYHCEACQKDYKKEAFCPD--C-GQPLEVLKACGAVDYFCNHCH 57 (70)
T ss_dssp TEEEETTT--EEEEEEE-TT--T--SB-EEEEETTEEEEE-TTTT
T ss_pred CEEECccccccceecccCCC--c-ccHHHHHHHhcccceeeccCC
Confidence 45566666655444445644 6 442 3578888876
No 140
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=59.32 E-value=6.8 Score=50.42 Aligned_cols=50 Identities=26% Similarity=0.697 Sum_probs=29.9
Q ss_pred cccccc-cccccccccccccCCCccCCCccCCcccc------eEecCccccccCCCCcccCCCCCc
Q 000906 1039 LDRKSI-SEMMCMKCLIIQPVGSTCSTTSCKNFSMA------RYYCRICKLFDDEREIYHCPYCNL 1097 (1231)
Q Consensus 1039 ldR~~~-~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa------~Y~C~iCkl~Dddk~~YHC~~CgI 1097 (1231)
+.|+.- +.++|..|+.+- .|+| | ...+. ...|--|+.= .+.+.+||.||-
T Consensus 427 lnRRGys~~l~C~~Cg~v~----~Cp~--C-d~~lt~H~~~~~L~CH~Cg~~--~~~p~~Cp~Cgs 483 (730)
T COG1198 427 LNRRGYAPLLLCRDCGYIA----ECPN--C-DSPLTLHKATGQLRCHYCGYQ--EPIPQSCPECGS 483 (730)
T ss_pred EccCCccceeecccCCCcc----cCCC--C-CcceEEecCCCeeEeCCCCCC--CCCCCCCCCCCC
Confidence 344333 489999999886 7977 9 55443 3334444332 145666666663
No 141
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=59.24 E-value=6.3 Score=45.88 Aligned_cols=44 Identities=27% Similarity=0.683 Sum_probs=35.7
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhcc---CCCCCCCC
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCT---HYTCPICS 1178 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~---~~tCPICR 1178 (1231)
-.||+=.|. -+...+.+.|.|||.+-..-++...++ ++.||.|-
T Consensus 337 FiCPVlKe~-~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 337 FICPVLKEL-CTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeccccHhh-hcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 468887776 666678899999999999999888643 47899996
No 142
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=58.95 E-value=5.6 Score=45.86 Aligned_cols=43 Identities=37% Similarity=0.836 Sum_probs=34.0
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhh-ccCCCCCCCCc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYT-CTHYTCPICSK 1179 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl-~~~~tCPICRk 1179 (1231)
..||.|.--|. .+++.--|||.|+..||..-+ ...+.||.|.+
T Consensus 275 LkCplc~~Llr---np~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLR---NPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhh---CcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 57999986643 345555689999999999875 66789999987
No 143
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=57.96 E-value=4.3 Score=52.19 Aligned_cols=48 Identities=27% Similarity=0.684 Sum_probs=34.3
Q ss_pred CCCCcccccccccCCCCceE-cCcCCcccHHhHHHhhcc-------CCCCCCCCccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKA-LPCGHMMHSTCFQDYTCT-------HYTCPICSKSL 1181 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~-LpCGH~fH~~Ci~~wl~~-------~~tCPICRksv 1181 (1231)
...|.||.+.|- .+.++-. -.|=|+||..||..|.+. .-+||-|+...
T Consensus 191 ~yeCmIC~e~I~-~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 191 KYECMICTERIK-RTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred ceEEEEeeeecc-ccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 467999999964 3333322 256699999999999632 36799999443
No 144
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=57.51 E-value=8.9 Score=34.36 Aligned_cols=36 Identities=19% Similarity=0.511 Sum_probs=26.8
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHh
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDY 1167 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~w 1167 (1231)
....|++|.+.+...++.|+---||-.+|+.|...-
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 456799999995445444444579999999998654
No 145
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.93 E-value=3.9 Score=52.22 Aligned_cols=84 Identities=19% Similarity=0.181 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHHHH-----HhHHHHhhCCHHHHHHHHHHHhccCCHHHHHHHHhHHhcCCCHHHHHHHHHHHHHhhh
Q 000906 721 KSMHKLLSEHIHREETE-----LWPLFRECFSIEEQEKIIKCMLGRIRAETLQDMLPWLMASLTPREQNAMMSLWCSATK 795 (1231)
Q Consensus 721 ~aL~tsL~qHL~~EE~e-----l~PLl~~hFS~eEqa~Lv~r~iasIP~e~L~~~LPWLlssLtpeEr~~mL~~lr~a~~ 795 (1231)
+.+......|+-.|++- +.|.+-.. ..+||+..|..|.-.=--..+..+||=--+-|.|.-..++|...-. +.
T Consensus 392 ~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn-~~~eWe~~V~~f~e~~~l~~Ia~~lPt~~~rL~p~vYemvLve~L~-~~ 469 (846)
T KOG2066|consen 392 KKVGKTYIDHLLFEGKYDEAASLCPKMLGN-NAAEWELWVFKFAELDQLTDIAPYLPTGPPRLKPLVYEMVLVEFLA-SD 469 (846)
T ss_pred HHHHHHHHHHHHhcchHHHHHhhhHHHhcc-hHHHHHHHHHHhccccccchhhccCCCCCcccCchHHHHHHHHHHH-HH
Confidence 34445566676433321 22222211 3567888877776654444567777777777888888887775544 66
Q ss_pred hhhHHHHHHHH
Q 000906 796 CTMFEEWLGEW 806 (1231)
Q Consensus 796 ~tmf~~wl~eW 806 (1231)
..-|-+-+.+|
T Consensus 470 ~~~F~e~i~~W 480 (846)
T KOG2066|consen 470 VKGFLELIKEW 480 (846)
T ss_pred HHHHHHHHHhC
Confidence 67788888886
No 146
>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=55.18 E-value=8.6 Score=30.64 Aligned_cols=24 Identities=33% Similarity=0.992 Sum_probs=19.0
Q ss_pred eEecCccccc-cCCCCcccCCCCCc
Q 000906 1074 RYYCRICKLF-DDEREIYHCPYCNL 1097 (1231)
Q Consensus 1074 ~Y~C~iCkl~-Dddk~~YHC~~CgI 1097 (1231)
.|-|.+|.+. +.++..+.||.||.
T Consensus 1 ~~~C~~CGy~y~~~~~~~~CP~Cg~ 25 (33)
T cd00350 1 KYVCPVCGYIYDGEEAPWVCPVCGA 25 (33)
T ss_pred CEECCCCCCEECCCcCCCcCcCCCC
Confidence 4789999775 65578999999985
No 147
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=54.07 E-value=11 Score=45.74 Aligned_cols=30 Identities=23% Similarity=0.381 Sum_probs=19.4
Q ss_pred HHHHHHHhccccCCCCChhhHHHHHHHHHhhh
Q 000906 938 ESLEAAIRRVSRDSSLDPQKKSFIIQNLLMSR 969 (1231)
Q Consensus 938 ~~le~~ir~i~~~~~l~p~~ka~liq~Lm~sr 969 (1231)
+.|+..||.|--. .+.+..-...|+++..|
T Consensus 21 ~~lk~~lr~i~~~--~~~r~e~~~lQ~~l~~R 50 (446)
T PF07227_consen 21 EELKEYLREILEG--PEKREEFVALQKLLQRR 50 (446)
T ss_pred HHHHHHHHHHHhC--cchHHHHHHHHHHHhcc
Confidence 4577788887643 44555566778887544
No 148
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=53.56 E-value=7.5 Score=49.77 Aligned_cols=49 Identities=20% Similarity=0.545 Sum_probs=34.8
Q ss_pred CCCCCcccccccccCCCCceEcCcC-----CcccHHhHHHhhc--cCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCG-----HMMHSTCFQDYTC--THYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCG-----H~fH~~Ci~~wl~--~~~tCPICRksv~ 1182 (1231)
....|-||.-+ +-.+....-||. -++|.+|+.+|+. ....|-+|.-.+.
T Consensus 11 d~~~CRICr~e--~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 11 DKRSCRICRTE--DIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred cchhceeecCC--CCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 34678899866 222333455664 6799999999984 4467999998774
No 149
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.61 E-value=6.8 Score=43.26 Aligned_cols=39 Identities=31% Similarity=0.745 Sum_probs=28.2
Q ss_pred CcccccccccCCCCceEcCcCCc-ccHHhHHHhhccCCCCCCCCcccc
Q 000906 1136 CPICHEDLFSSTNPAKALPCGHM-MHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCGH~-fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
|-.|.+. ...|..+||-|. ++..|-.. -..||||+....
T Consensus 161 Cr~C~~~----~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER----EATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC----CceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 8888776 234778899976 66778643 345999997653
No 150
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.57 E-value=11 Score=45.26 Aligned_cols=47 Identities=23% Similarity=0.514 Sum_probs=33.8
Q ss_pred CCCCccccccc-ccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCc
Q 000906 1133 MDNCPICHEDL-FSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSK 1179 (1231)
Q Consensus 1133 e~~CPIClE~L-f~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRk 1179 (1231)
--.||.|.-.+ ...+...+.-+|||-|+-.|...|...+..|.-|-+
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~r 353 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECCR 353 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCccc
Confidence 45799998764 233345555579999999999999877766655544
No 151
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=51.39 E-value=4.2 Score=54.32 Aligned_cols=50 Identities=28% Similarity=0.531 Sum_probs=39.7
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccChH
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGDMK 1185 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~dm~ 1185 (1231)
...|+||++-+..- -...-|||.++..|+..|+..+..||+|....++..
T Consensus 1153 ~~~c~ic~dil~~~---~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~~dfg 1202 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQ---GGIAGCGHEPCCRCDELWLYASSRCPICKSIKGDFG 1202 (1394)
T ss_pred ccchHHHHHHHHhc---CCeeeechhHhhhHHHHHHHHhccCcchhhhhhhhc
Confidence 34899999886422 133469999999999999999999999997776543
No 152
>PLN02189 cellulose synthase
Probab=50.29 E-value=12 Score=49.60 Aligned_cols=52 Identities=19% Similarity=0.506 Sum_probs=36.3
Q ss_pred CCCCCCCcccccccccCCCCceEc---CcCCcccHHhHHHhh--ccCCCCCCCCcccc
Q 000906 1130 KSFMDNCPICHEDLFSSTNPAKAL---PCGHMMHSTCFQDYT--CTHYTCPICSKSLG 1182 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf~s~~~v~~L---pCGH~fH~~Ci~~wl--~~~~tCPICRksv~ 1182 (1231)
+.....|.||.+++-...+.-.+. -||--.++.|+ +|- ..+..||-|+..+.
T Consensus 31 ~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cy-eyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 31 NLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCY-EYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cccCccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchh
Confidence 334568999999964333322333 36677999999 664 45788999998873
No 153
>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=50.05 E-value=8.8 Score=38.54 Aligned_cols=32 Identities=22% Similarity=0.451 Sum_probs=23.6
Q ss_pred ccccccccCCcccCcccccccCCCccccccccccccccccccccCC
Q 000906 1014 CKLVATCCNSLYTCIRCHDEVADHALDRKSISEMMCMKCLIIQPVG 1059 (1231)
Q Consensus 1014 ckL~cpCC~k~YpCR~CHDe~~dH~ldR~~~~~m~C~~C~~~Qp~~ 1059 (1231)
-|-.||-||+-| .+... ..++|.+|+++|++.
T Consensus 8 tKR~Cp~CG~kF-------------YDLnk-~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSCGAKF-------------YDLNK-DPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCCcchh-------------ccCCC-CCccCCCCCCccCcc
Confidence 466889998744 24433 579999999998776
No 154
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=49.43 E-value=6.6 Score=49.38 Aligned_cols=45 Identities=20% Similarity=0.562 Sum_probs=29.4
Q ss_pred CCCCcccccccccCCCCceEcCcC---CcccHHhHHHhh--------ccCCCCCCCC
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCG---HMMHSTCFQDYT--------CTHYTCPICS 1178 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCG---H~fH~~Ci~~wl--------~~~~tCPICR 1178 (1231)
-..||+|+-. |...+....+-|. --.|..|..-+. ...|.|-+||
T Consensus 145 ~~~cPvc~~~-Y~~~e~~~~~~c~~c~rwsh~~c~~~sdd~~~q~~vD~~~~CS~CR 200 (694)
T KOG4443|consen 145 LSYCPVCLIV-YQDSESLPMVCCSICQRWSHGGCDGISDDKYMQAQVDLQYKCSTCR 200 (694)
T ss_pred cccCchHHHh-hhhccchhhHHHHHhcccccCCCCccchHHHHHHhhhhhcccceee
Confidence 4679999854 5555555444444 447888875432 2368999999
No 155
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=48.82 E-value=4.4 Score=45.98 Aligned_cols=63 Identities=25% Similarity=0.395 Sum_probs=44.6
Q ss_pred ccccccccccCCCccCCCccCCcccceEecCccccccCCCCcccCCCCCccccCCCCCcccccCCCCccccc
Q 000906 1048 MCMKCLIIQPVGSTCSTTSCKNFSMARYYCRICKLFDDEREIYHCPYCNLCRVGKGLGIDYFHCMNCNACMS 1119 (1231)
Q Consensus 1048 ~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~C~iCkl~Dddk~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~s 1119 (1231)
+|..|....- -.|+- | +...+.-+|.||.-+|.++ -|||.|.-||.-+. ...-||..|..|..
T Consensus 240 ~~~~~~~~~~--i~C~~--~-~~~A~~~~C~iC~~~~~~R--~~C~~~kA~~~~~Q--~K~N~~~~~~~~~q 302 (325)
T KOG4399|consen 240 LCKKCVKPSW--IHCSI--C-NHCAVKHGCFICGELDHKR--STCPNIKAVRKQKQ--RKSNKMKMETTKGQ 302 (325)
T ss_pred Hhhhhcccce--eeeec--c-cchhhhcceeecccccccc--ccCccHHHHHHHHh--cccchhhhhhhhhh
Confidence 4445544433 25644 6 6666788999999998876 89999999996542 24678888877764
No 156
>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=48.72 E-value=5.8 Score=51.28 Aligned_cols=47 Identities=15% Similarity=0.102 Sum_probs=0.0
Q ss_pred HHHHhhCCHHHHHHHHHHHhccCCHHHHHHHHhHHhcCCCHHHHHHH
Q 000906 740 PLFRECFSIEEQEKIIKCMLGRIRAETLQDMLPWLMASLTPREQNAM 786 (1231)
Q Consensus 740 PLl~~hFS~eEqa~Lv~r~iasIP~e~L~~~LPWLlssLtpeEr~~m 786 (1231)
||+=..|..+=|.+....-....+++.+..+..+-+..-|++|.-.+
T Consensus 431 ~L~Ps~y~~EWW~qe~~~~~~~~~~~~~~~~~~~~~~~p~~~eA~~~ 477 (900)
T PF03833_consen 431 PLVPSSYCEEWWIQELEKAGPEYDPEALKDLPRVDLEDPSAEEALEI 477 (900)
T ss_dssp -----------------------------------------------
T ss_pred cCCCccchHHHHHHHHHHhccccCHHHHhhhhcccccCCCHHHHHHH
Confidence 56666777777776666665556666666666666666666664433
No 157
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=48.24 E-value=15 Score=49.53 Aligned_cols=51 Identities=24% Similarity=0.489 Sum_probs=30.6
Q ss_pred ccccccccccccCCCccCCCccCCccc-ceEecCccccc--cCCCCcccCCCCCcccc
Q 000906 1046 EMMCMKCLIIQPVGSTCSTTSCKNFSM-ARYYCRICKLF--DDEREIYHCPYCNLCRV 1100 (1231)
Q Consensus 1046 ~m~C~~C~~~Qp~~~~C~~~sC~g~~f-a~Y~C~iCkl~--Dddk~~YHC~~CgICRv 1100 (1231)
...|..|+++-+. ..|+. | |... ..|.|..|+.- .++.....|++||.=.+
T Consensus 667 ~rkCPkCG~~t~~-~fCP~--C-Gs~te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 667 RRRCPSCGTETYE-NRCPD--C-GTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EEECCCCCCcccc-ccCcc--c-CCcCCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 5567777776543 37755 8 4443 56677777662 12233667888885433
No 158
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=48.05 E-value=13 Score=43.78 Aligned_cols=46 Identities=22% Similarity=0.512 Sum_probs=35.0
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSL 1181 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv 1181 (1231)
...||||+... ..+.+.--=|-+||-.|+..|+.+..+||+=..++
T Consensus 300 ~~~CpvClk~r---~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 300 REVCPVCLKKR---QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred cccChhHHhcc---CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 56799998662 12222223499999999999999999999987766
No 159
>PLN02436 cellulose synthase A
Probab=47.57 E-value=14 Score=49.12 Aligned_cols=52 Identities=17% Similarity=0.535 Sum_probs=36.6
Q ss_pred CCCCCCCcccccccccCCCCceEcC---cCCcccHHhHHHhh--ccCCCCCCCCcccc
Q 000906 1130 KSFMDNCPICHEDLFSSTNPAKALP---CGHMMHSTCFQDYT--CTHYTCPICSKSLG 1182 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf~s~~~v~~Lp---CGH~fH~~Ci~~wl--~~~~tCPICRksv~ 1182 (1231)
......|.||.+++-...+.-.+.. ||--.++.|+ +|. ..+..||-|+..+.
T Consensus 33 ~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cy-eyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 33 ELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCY-EYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccCCccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchh
Confidence 3345689999999743333334444 5666999999 664 45688999998873
No 160
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=47.03 E-value=12 Score=39.14 Aligned_cols=47 Identities=30% Similarity=0.768 Sum_probs=34.4
Q ss_pred CCCCcccccccccCCCCceEc-C---cCCcccHHhHHHhh---ccCCCCCCCCccccC
Q 000906 1133 MDNCPICHEDLFSSTNPAKAL-P---CGHMMHSTCFQDYT---CTHYTCPICSKSLGD 1183 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~L-p---CGH~fH~~Ci~~wl---~~~~tCPICRksv~d 1183 (1231)
--.|-||.|. |.+ -++| | ||-.++..|....+ .....||+|+.++..
T Consensus 80 lYeCnIC~et---S~e-e~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 80 LYECNICKET---SAE-ERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred ceeccCcccc---cch-hhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 4579999876 322 2444 2 99999999998855 345789999998854
No 161
>TIGR02481 hemeryth_dom hemerythrin-like metal-binding domain. This model describes both members of the hemerythrin (TIGR00058) family of marine invertebrates and a broader collection of bacterial and archaeal homologs. Many of the latter group are multidomain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (TIGR00254, pfam00990) and methyl-accepting chemotaxis protein signaling domain (pfam00015). Most hemerythrins are oxygen-carriers with a bound non-heme iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. Patterns of conserved residues suggest that all prokaryotic instances of this domain bind iron or another heavy metal, but the exact function is unknown. Not surprisingly, the prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium.
Probab=46.99 E-value=2.6e+02 Score=27.69 Aligned_cols=103 Identities=18% Similarity=0.261 Sum_probs=64.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhh----hHhHHhhhchhhhhHHhhhhh
Q 000906 43 FHKAQRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVI----FLALDAHIKNVVSTYSLEHES 118 (1231)
Q Consensus 43 ~HkAlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevI----fPaL~~r~~nv~~~~~~EH~~ 118 (1231)
=|+-|=+-+..|..+ +..+.. ..++...+..|...-+.|-..|-.+. ||.+.. -.+.
T Consensus 16 qH~~l~~~in~l~~a---~~~~~~-----~~~~~~~l~~L~~y~~~HF~~EE~~M~~~~yp~~~~-----------H~~~ 76 (126)
T TIGR02481 16 QHKELFELINELYDA---LSAGNG-----KDELKEILDELIDYTENHFADEEELMEEYGYPDLEE-----------HKKE 76 (126)
T ss_pred HHHHHHHHHHHHHHH---HHcCCC-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHH-----------HHHH
Confidence 455555555555443 322221 24667778888999999999887754 443332 2445
Q ss_pred HHHHHHHHHHHHhhhcCCCCCCCchHHHHHHHHhHHHHHHHHhhHHHHHhh
Q 000906 119 IDELFDSVFDLLNVLLGGSENVSKPFQEVVFCIGTIKTFICQHMLKEEEQY 169 (1231)
Q Consensus 119 ~d~Lfd~v~~lL~~~~~~~~~~~~~~~eLa~~i~~l~t~l~qHm~~EE~q~ 169 (1231)
|+.+++.+..+...+..+... . .....+.-|.+-+.+|+..+-..|
T Consensus 77 H~~~l~~l~~l~~~~~~~~~~--~---~~~~~~~~l~~Wl~~HI~~~D~~~ 122 (126)
T TIGR02481 77 HEKFVKKIEELQEAVAEGADE--S---LAEELLDFLKDWLVNHILKEDKKY 122 (126)
T ss_pred HHHHHHHHHHHHHHHHcCCch--h---HHHHHHHHHHHHHHHHhHHHhHHH
Confidence 667888888888777655111 2 223344556789999999988773
No 162
>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=46.83 E-value=6.4 Score=50.88 Aligned_cols=48 Identities=27% Similarity=0.595 Sum_probs=0.0
Q ss_pred ccccccccccccccCCCccCCCccCCcccceEecCccccccCCCCcccCCCCCc
Q 000906 1044 ISEMMCMKCLIIQPVGSTCSTTSCKNFSMARYYCRICKLFDDEREIYHCPYCNL 1097 (1231)
Q Consensus 1044 ~~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~C~iCkl~Dddk~~YHC~~CgI 1097 (1231)
+-.-.|..|+++... ..|+. |+....-.|+|+.|+.--++. +|++||.
T Consensus 653 i~~r~Cp~Cg~~t~~-~~Cp~--CG~~T~~~~~Cp~C~~~~~~~---~C~~C~~ 700 (900)
T PF03833_consen 653 IGRRRCPKCGKETFY-NRCPE--CGSHTEPVYVCPDCGIEVEED---ECPKCGR 700 (900)
T ss_dssp ------------------------------------------------------
T ss_pred eecccCcccCCcchh-hcCcc--cCCccccceeccccccccCcc---ccccccc
Confidence 445678888887543 37865 855566777788876532221 6777764
No 163
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.72 E-value=8.1 Score=46.22 Aligned_cols=37 Identities=22% Similarity=0.485 Sum_probs=25.9
Q ss_pred CCCCcccccccccCCCCceEcCcCCcccHHhHHHhhc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTC 1169 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~ 1169 (1231)
...|.||............+..|||.|+.+|..++..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 4679999933222322223678999999999999974
No 164
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=46.67 E-value=13 Score=46.65 Aligned_cols=46 Identities=22% Similarity=0.436 Sum_probs=35.0
Q ss_pred cccceEecCccccccCC-CCcccCCCCCccccCCCCCcccccCCCCccccccc
Q 000906 1070 FSMARYYCRICKLFDDE-REIYHCPYCNLCRVGKGLGIDYFHCMNCNACMSRS 1121 (1231)
Q Consensus 1070 ~~fa~Y~C~iCkl~Ddd-k~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~s~~ 1121 (1231)
.....+||..|.-|=.| .-.=.||+||.+..++ -+|+.||.++...
T Consensus 122 ~~~~~~Yc~~~e~fl~dr~v~g~cp~cg~~~arG------D~Ce~Cg~~~~P~ 168 (558)
T COG0143 122 REYEGLYCVSCERFLPDRYVEGTCPKCGGEDARG------DQCENCGRTLDPT 168 (558)
T ss_pred cceeeeEcccccccccchheeccCCCcCccccCc------chhhhccCcCCch
Confidence 35566788888776555 4455799999999985 3899999988764
No 165
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=46.19 E-value=25 Score=40.50 Aligned_cols=107 Identities=21% Similarity=0.461 Sum_probs=0.0
Q ss_pred ceEecCcc-ccccCC-----CCcccCCCCCccccCCCCCcccccCCCCcccc------cccccccccccCCCCCCCcccc
Q 000906 1073 ARYYCRIC-KLFDDE-----REIYHCPYCNLCRVGKGLGIDYFHCMNCNACM------SRSLQVHICREKSFMDNCPICH 1140 (1231)
Q Consensus 1073 a~Y~C~iC-kl~Ddd-----k~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~------s~~l~~HkC~E~s~e~~CPICl 1140 (1231)
.+|-|+.| |-|... -.++||+-=- ...|.|..|+-=| .+-+.+|. ....|+||.
T Consensus 129 ~r~~c~eCgk~ysT~snLsrHkQ~H~~~~s---------~ka~~C~~C~K~YvSmpALkMHirTH~-----l~c~C~iCG 194 (279)
T KOG2462|consen 129 PRYKCPECGKSYSTSSNLSRHKQTHRSLDS---------KKAFSCKYCGKVYVSMPALKMHIRTHT-----LPCECGICG 194 (279)
T ss_pred Cceeccccccccccccccchhhcccccccc---------cccccCCCCCceeeehHHHhhHhhccC-----CCccccccc
Q ss_pred ccc------------ccCCCCceEcCcCCcccH-HhHHHhhccC-----CCCCCCCccccChHHHHHHhHH
Q 000906 1141 EDL------------FSSTNPAKALPCGHMMHS-TCFQDYTCTH-----YTCPICSKSLGDMKVYFSMLDA 1193 (1231)
Q Consensus 1141 E~L------------f~s~~~v~~LpCGH~fH~-~Ci~~wl~~~-----~tCPICRksv~dm~~~f~~LD~ 1193 (1231)
-.+ .+...|-.---||=.|-. .=++.-+.++ |+|+.|.|++.-|+-..+-+..
T Consensus 195 KaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFsl~SyLnKH~ES 265 (279)
T KOG2462|consen 195 KAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFALKSYLNKHSES 265 (279)
T ss_pred ccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHHHHHHHHHhhhh
No 166
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=44.56 E-value=9.9 Score=42.83 Aligned_cols=50 Identities=28% Similarity=0.578 Sum_probs=37.1
Q ss_pred CCCCcccccccccCCCCceEcCcC-----CcccHHhHHHhhc--cCCCCCCCCcccc
Q 000906 1133 MDNCPICHEDLFSSTNPAKALPCG-----HMMHSTCFQDYTC--THYTCPICSKSLG 1182 (1231)
Q Consensus 1133 e~~CPIClE~Lf~s~~~v~~LpCG-----H~fH~~Ci~~wl~--~~~tCPICRksv~ 1182 (1231)
+..|=||.+............||. .+.|..|+..|.. .+.+|.+|...+.
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 467999999755433223456774 7789999999975 6788999998764
No 167
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=44.49 E-value=16 Score=45.12 Aligned_cols=14 Identities=29% Similarity=0.809 Sum_probs=8.3
Q ss_pred CcccceEecCcccc
Q 000906 1069 NFSMARYYCRICKL 1082 (1231)
Q Consensus 1069 g~~fa~Y~C~iCkl 1082 (1231)
....-.|||+.|-+
T Consensus 21 ~~Ei~~~yCp~CL~ 34 (483)
T PF05502_consen 21 SEEIDSYYCPNCLF 34 (483)
T ss_pred ccccceeECccccc
Confidence 34455577777754
No 168
>TIGR02481 hemeryth_dom hemerythrin-like metal-binding domain. This model describes both members of the hemerythrin (TIGR00058) family of marine invertebrates and a broader collection of bacterial and archaeal homologs. Many of the latter group are multidomain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (TIGR00254, pfam00990) and methyl-accepting chemotaxis protein signaling domain (pfam00015). Most hemerythrins are oxygen-carriers with a bound non-heme iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. Patterns of conserved residues suggest that all prokaryotic instances of this domain bind iron or another heavy metal, but the exact function is unknown. Not surprisingly, the prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium.
Probab=44.47 E-value=1.2e+02 Score=30.04 Aligned_cols=58 Identities=22% Similarity=0.385 Sum_probs=37.9
Q ss_pred hHHhhhhhHHHHHHHHHHHHhhhcCCCCCCCchHHHHHHHHhHHHHHHHHhhHHHHHhhhccCCCCC
Q 000906 111 TYSLEHESIDELFDSVFDLLNVLLGGSENVSKPFQEVVFCIGTIKTFICQHMLKEEEQYVLSSKYPT 177 (1231)
Q Consensus 111 ~~~~EH~~~d~Lfd~v~~lL~~~~~~~~~~~~~~~eLa~~i~~l~t~l~qHm~~EE~q~~~~~~~~~ 177 (1231)
.+..+|+. ||+.+..+......+.+ ..++...+..|......|-..||.- .....||.
T Consensus 12 ~ID~qH~~---l~~~in~l~~a~~~~~~-----~~~~~~~l~~L~~y~~~HF~~EE~~-M~~~~yp~ 69 (126)
T TIGR02481 12 EIDAQHKE---LFELINELYDALSAGNG-----KDELKEILDELIDYTENHFADEEEL-MEEYGYPD 69 (126)
T ss_pred HHHHHHHH---HHHHHHHHHHHHHcCCC-----HHHHHHHHHHHHHHHHHHHHHHHHH-HHHcCCCC
Confidence 34455554 55555555555544333 3577788888888999999888875 55666664
No 169
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 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 MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=44.37 E-value=16 Score=31.78 Aligned_cols=41 Identities=29% Similarity=0.863 Sum_probs=19.4
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHH--hh-----ccCCCCCCCCcc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQD--YT-----CTHYTCPICSKS 1180 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~--wl-----~~~~tCPICRks 1180 (1231)
-.|||....|. .|++...|.|. .||+- |+ .....||+|+++
T Consensus 3 L~CPls~~~i~---~P~Rg~~C~H~---~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIR---IPVRGKNCKHL---QCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-S---SEEEETT--SS-----EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEE---eCccCCcCccc---ceECHHHHHHHhhccCCeECcCCcCc
Confidence 36899887753 47788889877 46543 44 234679999974
No 170
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=44.32 E-value=19 Score=41.16 Aligned_cols=47 Identities=28% Similarity=0.685 Sum_probs=38.6
Q ss_pred CcccceEecCccccccCCCCcccCCCCCccccCCCCCcccccCCCCccccccc
Q 000906 1069 NFSMARYYCRICKLFDDEREIYHCPYCNLCRVGKGLGIDYFHCMNCNACMSRS 1121 (1231)
Q Consensus 1069 g~~fa~Y~C~iCkl~Dddk~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~s~~ 1121 (1231)
|....-+||+.|+++-.. ...||.-||.|-.+- --||.=-|.|+...
T Consensus 108 ~~~~~~~~C~~C~~~rPp-Rs~HCsvC~~CV~rf-----DHHC~WvnnCVG~r 154 (299)
T KOG1311|consen 108 GIQVEWKYCDTCQLYRPP-RSSHCSVCNNCVLRF-----DHHCPWLNNCIGER 154 (299)
T ss_pred CcccceEEcCcCcccCCC-Ccccchhhccccccc-----CCCCCCccceECCC
Confidence 777888999999999664 678999999998873 26999888888654
No 171
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=42.59 E-value=18 Score=45.77 Aligned_cols=72 Identities=19% Similarity=0.450 Sum_probs=46.8
Q ss_pred CCCcccccccccCCCCceEc---CcCCcccHHhHHHhhc-----cCCCCCCCCccccChHHHHHHhHHHHhhcCCChhhh
Q 000906 1134 DNCPICHEDLFSSTNPAKAL---PCGHMMHSTCFQDYTC-----THYTCPICSKSLGDMKVYFSMLDALLAEEKMPPEYL 1205 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~L---pCGH~fH~~Ci~~wl~-----~~~tCPICRksv~dm~~~f~~LD~eia~qpmPeeyr 1205 (1231)
..|++|--. +...+-..+ .||-.+|..|...|+. ...+||-|+...+ +.
T Consensus 19 ~mc~l~~s~--G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~---------------------c~ 75 (694)
T KOG4443|consen 19 LMCPLCGSS--GKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEA---------------------CG 75 (694)
T ss_pred hhhhhhccc--cccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeee---------------------cc
Confidence 457777532 444333333 5899999999999973 3468999997664 11
Q ss_pred cccCCCCCcccCCCCCCCCCcccc
Q 000906 1206 GQTQVRNPLIPLNVANVSPDIFFD 1229 (1231)
Q Consensus 1206 ~~~q~~~~~i~Cn~C~ss~~~~f~ 1229 (1231)
...+..-...|..|+.++|.||.
T Consensus 76 -~~gD~~kf~~Ck~cDvsyh~yc~ 98 (694)
T KOG4443|consen 76 -TTGDPKKFLLCKRCDVSYHCYCQ 98 (694)
T ss_pred -ccCCccccccccccccccccccc
Confidence 11222225678888888888773
No 172
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=41.45 E-value=8.1 Score=48.43 Aligned_cols=29 Identities=21% Similarity=0.453 Sum_probs=23.2
Q ss_pred cccccccc----ccccccccCCcccCcccccccC
Q 000906 1006 GCKHYKRN----CKLVATCCNSLYTCIRCHDEVA 1035 (1231)
Q Consensus 1006 GC~HY~R~----ckL~cpCC~k~YpCR~CHDe~~ 1035 (1231)
||.|+--. +.-.|.-+|+|| |..||....
T Consensus 345 gC~~~i~~~~~~~~R~C~y~G~y~-C~~Ch~~~~ 377 (580)
T KOG1829|consen 345 GCGHTIGPDLEQRPRLCRYLGKYF-CDCCHQNDK 377 (580)
T ss_pred ccCCCcccccccchhHhhhhhhhh-CchhcccCc
Confidence 88888772 556888999977 999998754
No 173
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.27 E-value=12 Score=40.01 Aligned_cols=29 Identities=34% Similarity=0.658 Sum_probs=23.0
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccH
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHS 1161 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~ 1161 (1231)
....|.||+|+| .....+..|||==.||.
T Consensus 176 dkGECvICLEdL-~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDL-EAGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhc-cCCCceeccceEEEeec
Confidence 357899999996 45667888999877775
No 174
>PRK00420 hypothetical protein; Validated
Probab=40.84 E-value=16 Score=37.15 Aligned_cols=30 Identities=27% Similarity=0.664 Sum_probs=21.7
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
....||+|..+||.... +...||.|++.+.
T Consensus 22 l~~~CP~Cg~pLf~lk~---------------------g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 22 LSKHCPVCGLPLFELKD---------------------GEVVCPVHGKVYI 51 (112)
T ss_pred ccCCCCCCCCcceecCC---------------------CceECCCCCCeee
Confidence 35789999999885322 3456999998763
No 175
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=40.82 E-value=13 Score=40.72 Aligned_cols=27 Identities=26% Similarity=0.915 Sum_probs=20.4
Q ss_pred CCceEcCcCCcccHHhHHHhhccCCCCCCCCc
Q 000906 1148 NPAKALPCGHMMHSTCFQDYTCTHYTCPICSK 1179 (1231)
Q Consensus 1148 ~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRk 1179 (1231)
..++--.||-.||..|+.. ..||-|.+
T Consensus 171 ~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 171 TTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 3344467999999999962 56999975
No 176
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=39.16 E-value=26 Score=41.15 Aligned_cols=24 Identities=25% Similarity=0.480 Sum_probs=17.3
Q ss_pred cccccccccccccc-CCCccCCCccCCc
Q 000906 1044 ISEMMCMKCLIIQP-VGSTCSTTSCKNF 1070 (1231)
Q Consensus 1044 ~~~m~C~~C~~~Qp-~~~~C~~~sC~g~ 1070 (1231)
..-..|..|.++=. +.-.|++ | |.
T Consensus 210 ~RyL~CslC~teW~~~R~~C~~--C-g~ 234 (309)
T PRK03564 210 LRYLHCNLCESEWHVVRVKCSN--C-EQ 234 (309)
T ss_pred ceEEEcCCCCCcccccCccCCC--C-CC
Confidence 46789999999843 3357977 9 54
No 177
>PRK07219 DNA topoisomerase I; Validated
Probab=38.57 E-value=47 Score=43.62 Aligned_cols=63 Identities=27% Similarity=0.538 Sum_probs=33.6
Q ss_pred cCccccccCC----CCcccCCCCCcc---ccCCCCCcccccCCC---CcccccccccccccccCCCCCCCcccccccc
Q 000906 1077 CRICKLFDDE----REIYHCPYCNLC---RVGKGLGIDYFHCMN---CNACMSRSLQVHICREKSFMDNCPICHEDLF 1144 (1231)
Q Consensus 1077 C~iCkl~Ddd----k~~YHC~~CgIC---RvG~gL~~d~fHC~~---Cn~C~s~~l~~HkC~E~s~e~~CPIClE~Lf 1144 (1231)
|..|+..... .....|+.||-- |.|+. | .|+-|.+ |+.-..+.-..+. ......||-|..++.
T Consensus 672 CP~C~~~~~~~~~~~~~~~CP~Cg~~l~~k~gr~-G-~F~~Cs~yp~C~~~~~l~~~~~~---~~~~~~CpkCg~~l~ 744 (822)
T PRK07219 672 CPDCEAEKEEEDPDEVIGPCPKCGGELAIKQLKY-G-SFLGCTNYPKCKYTLPLPRRGKI---TVTDEKCPECGLPLL 744 (822)
T ss_pred CCCCCCCccccccccccccCCCCCCeeEEEcCCC-C-CeeeCCCCCCCCceeeccccccc---ccccCCCCCCCCeEE
Confidence 7777765432 246789999722 22222 2 2778865 6543322101111 123467999977654
No 178
>PHA00626 hypothetical protein
Probab=38.57 E-value=23 Score=32.14 Aligned_cols=7 Identities=43% Similarity=1.108 Sum_probs=3.5
Q ss_pred ccCCCCC
Q 000906 1090 YHCPYCN 1096 (1231)
Q Consensus 1090 YHC~~Cg 1096 (1231)
|.|++||
T Consensus 24 YkCkdCG 30 (59)
T PHA00626 24 YVCCDCG 30 (59)
T ss_pred eEcCCCC
Confidence 4455554
No 179
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=38.19 E-value=23 Score=47.26 Aligned_cols=51 Identities=18% Similarity=0.521 Sum_probs=35.7
Q ss_pred CCCCCCCcccccccccCCCCceEc---CcCCcccHHhHHHhh--ccCCCCCCCCccc
Q 000906 1130 KSFMDNCPICHEDLFSSTNPAKAL---PCGHMMHSTCFQDYT--CTHYTCPICSKSL 1181 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf~s~~~v~~L---pCGH~fH~~Ci~~wl--~~~~tCPICRksv 1181 (1231)
......|-||.+++--..+.-.++ -||--.++.|+ +|- ..+..||-|+..+
T Consensus 14 ~~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EYEr~eG~q~CPqCktrY 69 (1079)
T PLN02638 14 HGGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EYERKDGNQSCPQCKTKY 69 (1079)
T ss_pred ccCCceeeecccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCch
Confidence 334568999999964333333344 45566999999 664 4678899999877
No 180
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=37.53 E-value=26 Score=29.62 Aligned_cols=23 Identities=35% Similarity=0.901 Sum_probs=11.0
Q ss_pred eEecCcccc---ccCCCCcccCCCCC
Q 000906 1074 RYYCRICKL---FDDEREIYHCPYCN 1096 (1231)
Q Consensus 1074 ~Y~C~iCkl---~Dddk~~YHC~~Cg 1096 (1231)
.|-|..|.- +++.....+||+||
T Consensus 3 ~y~C~~CG~~~~~~~~~~~~~Cp~CG 28 (46)
T PRK00398 3 EYKCARCGREVELDEYGTGVRCPYCG 28 (46)
T ss_pred EEECCCCCCEEEECCCCCceECCCCC
Confidence 445555532 22223356666666
No 181
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=36.18 E-value=32 Score=41.15 Aligned_cols=18 Identities=17% Similarity=0.615 Sum_probs=14.0
Q ss_pred HHhhccCCCCCCCCcccc
Q 000906 1165 QDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1165 ~~wl~~~~tCPICRksv~ 1182 (1231)
+.|++++-+||+||+.+.
T Consensus 334 ~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 334 ETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred hhhhcCCCCCCCCcccce
Confidence 356667789999999874
No 182
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=35.53 E-value=16 Score=44.21 Aligned_cols=20 Identities=15% Similarity=0.341 Sum_probs=14.8
Q ss_pred hhHHhcCHHHHHHHHhcccc
Q 000906 930 ENILAVSQESLEAAIRRVSR 949 (1231)
Q Consensus 930 ~~~~~m~q~~le~~ir~i~~ 949 (1231)
...+++|+.+||.-|++.-.
T Consensus 50 ~~llk~~~KqLR~li~~Lre 69 (436)
T KOG2593|consen 50 KELLKFNKKQLRKLIASLRE 69 (436)
T ss_pred HHHhcccHHHHHHHHHHhhh
Confidence 45677888888888877743
No 183
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=34.90 E-value=32 Score=40.89 Aligned_cols=26 Identities=23% Similarity=0.696 Sum_probs=19.9
Q ss_pred CcccceEe--cCccccccCCCCcccCCCCCc
Q 000906 1069 NFSMARYY--CRICKLFDDEREIYHCPYCNL 1097 (1231)
Q Consensus 1069 g~~fa~Y~--C~iCkl~Dddk~~YHC~~CgI 1097 (1231)
...|--|| |.||+..+. .|-|++||+
T Consensus 60 ~~dfeL~f~Ge~i~~y~~q---SftCPyC~~ 87 (381)
T KOG1280|consen 60 RVDFELYFGGEPISHYDPQ---SFTCPYCGI 87 (381)
T ss_pred ccceeeEecCccccccccc---cccCCcccc
Confidence 55666666 788887765 799999995
No 184
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=34.87 E-value=17 Score=40.54 Aligned_cols=42 Identities=29% Similarity=0.689 Sum_probs=31.1
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCC
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICS 1178 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICR 1178 (1231)
.+|-+|..-+. ..++...||=-||..|+..|+.....||-|+
T Consensus 182 k~Cn~Ch~LvI---qg~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVI---QGIRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHhHhHHHhh---eeeccCcccchhhhHHHHHHhcccCcCCchh
Confidence 46777776532 2233456777799999999998899999996
No 185
>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=34.68 E-value=28 Score=28.16 Aligned_cols=24 Identities=25% Similarity=0.796 Sum_probs=17.4
Q ss_pred eEecCccccc-cCCCCcccCCCCCc
Q 000906 1074 RYYCRICKLF-DDEREIYHCPYCNL 1097 (1231)
Q Consensus 1074 ~Y~C~iCkl~-Dddk~~YHC~~CgI 1097 (1231)
.|-|.+|.+. +.++.+..||.||.
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCC
Confidence 4778999765 54467778888874
No 186
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=34.04 E-value=13 Score=39.13 Aligned_cols=25 Identities=32% Similarity=0.879 Sum_probs=16.2
Q ss_pred ceEecCccccccCCCCcccCCCCC--ccccC
Q 000906 1073 ARYYCRICKLFDDEREIYHCPYCN--LCRVG 1101 (1231)
Q Consensus 1073 a~Y~C~iCkl~Dddk~~YHC~~Cg--ICRvG 1101 (1231)
.+-||.+|.+| ++|-|-.|| +|-|+
T Consensus 117 ~r~fCaVCG~~----S~ysC~~CG~kyCsv~ 143 (156)
T KOG3362|consen 117 LRKFCAVCGYD----SKYSCVNCGTKYCSVR 143 (156)
T ss_pred cchhhhhcCCC----chhHHHhcCCceeech
Confidence 34566777755 567777777 56655
No 187
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=34.01 E-value=20 Score=41.85 Aligned_cols=45 Identities=27% Similarity=0.647 Sum_probs=31.1
Q ss_pred CCCCCCCcccccccc----------cCCCCceEcCcCCc--ccHHhHHHhh------ccCCCCCCCCc
Q 000906 1130 KSFMDNCPICHEDLF----------SSTNPAKALPCGHM--MHSTCFQDYT------CTHYTCPICSK 1179 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf----------~s~~~v~~LpCGH~--fH~~Ci~~wl------~~~~tCPICRk 1179 (1231)
++..-.||+=+..|- ...++.++|.|||. +| .|- .....||+|+.
T Consensus 287 NA~RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~H-----~WG~~e~~g~~~r~CPmC~~ 349 (429)
T KOG3842|consen 287 NAARPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGYH-----NWGVRENTGQRERECPMCRV 349 (429)
T ss_pred hccCCCCCcccceeecccccccccccccCCeEEEecccccccc-----ccccccccCcccCcCCeeee
Confidence 556678998887662 23457789999976 55 473 22467999994
No 188
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.84 E-value=28 Score=33.49 Aligned_cols=50 Identities=32% Similarity=0.540 Sum_probs=31.0
Q ss_pred CCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccChHHHHHHhHHHHhhc--CCChhhhc
Q 000906 1135 NCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGDMKVYFSMLDALLAEE--KMPPEYLG 1206 (1231)
Q Consensus 1135 ~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~dm~~~f~~LD~eia~q--pmPeeyr~ 1206 (1231)
.||||--.|-.+...-+ .--.||-||..-.|- ..||.+|+.. |.|.+|++
T Consensus 3 lCP~C~v~l~~~~rs~v------------------EiD~CPrCrGVWLDr----GELdKli~r~r~pqpa~ys~ 54 (88)
T COG3809 3 LCPICGVELVMSVRSGV------------------EIDYCPRCRGVWLDR----GELDKLIERSRYPQPAEYSQ 54 (88)
T ss_pred ccCcCCceeeeeeecCc------------------eeeeCCccccEeecc----hhHHHHHHHhcCCCCcccCC
Confidence 69999887643322111 114699999877665 4567777654 55556654
No 189
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=33.64 E-value=18 Score=36.11 Aligned_cols=29 Identities=34% Similarity=0.813 Sum_probs=21.5
Q ss_pred CcccCCCCC-----ccccCCCCCcccccCCCCcc
Q 000906 1088 EIYHCPYCN-----LCRVGKGLGIDYFHCMNCNA 1116 (1231)
Q Consensus 1088 ~~YHC~~Cg-----ICRvG~gL~~d~fHC~~Cn~ 1116 (1231)
..|.||.|| +|.|.++.++-+-+|..||.
T Consensus 21 k~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGl 54 (104)
T COG4888 21 KTFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGL 54 (104)
T ss_pred ceEecCccCCeeeeEEEEEecCceeEEEcccCcc
Confidence 567777777 67777777777778777776
No 190
>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=32.88 E-value=15 Score=38.82 Aligned_cols=10 Identities=30% Similarity=0.959 Sum_probs=5.5
Q ss_pred CCcccCCCCC
Q 000906 1087 REIYHCPYCN 1096 (1231)
Q Consensus 1087 k~~YHC~~Cg 1096 (1231)
..-|+||.||
T Consensus 126 ~~~F~Cp~Cg 135 (158)
T TIGR00373 126 ELNFTCPRCG 135 (158)
T ss_pred HcCCcCCCCC
Confidence 3346666665
No 191
>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=32.37 E-value=8.7 Score=36.04 Aligned_cols=40 Identities=33% Similarity=0.765 Sum_probs=22.9
Q ss_pred CCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1134 DNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
..||.|..+|-..+ ||+.+..|-..+.. ...||-|.+.+.
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~~~~-~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKDYKK-EAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--EEEE-EEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC--------CEEECcccccccee-cccCCCcccHHH
Confidence 57999999863222 78888888887753 346999998874
No 192
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=31.92 E-value=30 Score=44.29 Aligned_cols=34 Identities=21% Similarity=0.474 Sum_probs=17.9
Q ss_pred ccccccccccccCCCccCCCccCCc--ccceEecCccccc
Q 000906 1046 EMMCMKCLIIQPVGSTCSTTSCKNF--SMARYYCRICKLF 1083 (1231)
Q Consensus 1046 ~m~C~~C~~~Qp~~~~C~~~sC~g~--~fa~Y~C~iCkl~ 1083 (1231)
.-.|..|++.... ..|++ | |. ..+.-||+.|...
T Consensus 15 akFC~~CG~~l~~-~~Cp~--C-G~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 15 NRFCQKCGTSLTH-KPCPQ--C-GTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CccccccCCCCCC-CcCCC--C-CCCCCcccccccccCCc
Confidence 3456666665432 35644 6 43 3455566666543
No 193
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=31.89 E-value=17 Score=39.32 Aligned_cols=10 Identities=30% Similarity=0.939 Sum_probs=5.4
Q ss_pred CCcccCCCCC
Q 000906 1087 REIYHCPYCN 1096 (1231)
Q Consensus 1087 k~~YHC~~Cg 1096 (1231)
..-|+||.||
T Consensus 134 ~~~F~Cp~Cg 143 (178)
T PRK06266 134 EYGFRCPQCG 143 (178)
T ss_pred hcCCcCCCCC
Confidence 3345666665
No 194
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.54 E-value=18 Score=41.40 Aligned_cols=53 Identities=21% Similarity=0.538 Sum_probs=36.5
Q ss_pred ccCCCCCCCcccccccccCCCCc--eEcCcC-----CcccHHhHHHhhccC--------CCCCCCCcccc
Q 000906 1128 REKSFMDNCPICHEDLFSSTNPA--KALPCG-----HMMHSTCFQDYTCTH--------YTCPICSKSLG 1182 (1231)
Q Consensus 1128 ~E~s~e~~CPIClE~Lf~s~~~v--~~LpCG-----H~fH~~Ci~~wl~~~--------~tCPICRksv~ 1182 (1231)
.+...+-.|=||... +++... -+-||- |-.|..|+..|+..+ -.||-|+....
T Consensus 15 ~~~e~eR~CWiCF~T--deDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 15 DNQELERCCWICFAT--DEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred CccccceeEEEEecc--CcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 345567789999876 222222 234773 889999999997322 35999998763
No 195
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=31.08 E-value=29 Score=39.90 Aligned_cols=43 Identities=30% Similarity=0.587 Sum_probs=26.2
Q ss_pred CCCCCCCcccccccccCCCCceEcCcCCc----ccHHhHHHh-hccCCCCC
Q 000906 1130 KSFMDNCPICHEDLFSSTNPAKALPCGHM----MHSTCFQDY-TCTHYTCP 1175 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf~s~~~v~~LpCGH~----fH~~Ci~~w-l~~~~tCP 1175 (1231)
..+-.-|+||.|- ...+-+-.-| =|. =|+.||..| +-.+..||
T Consensus 27 ~~tLsfChiCfEl-~iegvpks~l--lHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 27 TETLSFCHICFEL-SIEGVPKSNL--LHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred ccceeecceeecc-ccccCccccc--cccccccchHHHHHHHHHHHcCCCC
Confidence 3455679999875 3222211111 122 489999999 56678898
No 196
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=30.81 E-value=38 Score=26.00 Aligned_cols=20 Identities=30% Similarity=0.707 Sum_probs=13.9
Q ss_pred CCCCCCccccChHHHHHHhHH
Q 000906 1173 TCPICSKSLGDMKVYFSMLDA 1193 (1231)
Q Consensus 1173 tCPICRksv~dm~~~f~~LD~ 1193 (1231)
.||||.+.+ .+....+-+|.
T Consensus 3 ~CPiC~~~v-~~~~in~HLD~ 22 (26)
T smart00734 3 QCPVCFREV-PENLINSHLDS 22 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHHH
Confidence 699999988 45555555663
No 197
>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=30.63 E-value=15 Score=36.94 Aligned_cols=30 Identities=27% Similarity=0.940 Sum_probs=19.4
Q ss_pred CCccCCCccCCcccceEecCccccccCCCCcccCCCC
Q 000906 1059 GSTCSTTSCKNFSMARYYCRICKLFDDEREIYHCPYC 1095 (1231)
Q Consensus 1059 ~~~C~~~sC~g~~fa~Y~C~iCkl~Dddk~~YHC~~C 1095 (1231)
+..|.. | ..+.|..|..+...+..|.|..|
T Consensus 71 ~~~C~~--C-----~~~VC~~C~~~~~~~~~WlC~vC 100 (118)
T PF02318_consen 71 GRVCVD--C-----KHRVCKKCGVYSKKEPIWLCKVC 100 (118)
T ss_dssp CEEETT--T-----TEEEETTSEEETSSSCCEEEHHH
T ss_pred CCcCCc--C-----CccccCccCCcCCCCCCEEChhh
Confidence 446755 7 56678888888555566666544
No 198
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=30.29 E-value=25 Score=42.60 Aligned_cols=33 Identities=24% Similarity=0.624 Sum_probs=26.5
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhh
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYT 1168 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl 1168 (1231)
.+-.||||... | +...+|||||.++..|...-+
T Consensus 3 eelkc~vc~~f-~---~epiil~c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 3 EELKCPVCGSF-Y---REPIILPCSHNLCQACARNIL 35 (699)
T ss_pred ccccCceehhh-c---cCceEeecccHHHHHHHHhhc
Confidence 35679999976 5 245789999999999998764
No 199
>PLN02400 cellulose synthase
Probab=29.96 E-value=33 Score=45.97 Aligned_cols=51 Identities=20% Similarity=0.488 Sum_probs=35.9
Q ss_pred CCCCCCCcccccccccCCCCceEc---CcCCcccHHhHHHhh--ccCCCCCCCCccc
Q 000906 1130 KSFMDNCPICHEDLFSSTNPAKAL---PCGHMMHSTCFQDYT--CTHYTCPICSKSL 1181 (1231)
Q Consensus 1130 ~s~e~~CPIClE~Lf~s~~~v~~L---pCGH~fH~~Ci~~wl--~~~~tCPICRksv 1181 (1231)
....+.|-||.+++=...+.-.+. -||--.++.|+ +|- ..+..||-|+..+
T Consensus 33 ~~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY-EYERkeGnq~CPQCkTrY 88 (1085)
T PLN02400 33 NLNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCY-EYERKDGTQCCPQCKTRY 88 (1085)
T ss_pred ccCCceeeecccccCcCCCCCEEEEEccCCCccccchh-heecccCCccCcccCCcc
Confidence 334568999999964333333333 56666999999 664 4578899999877
No 200
>PF14969 DUF4508: Domain of unknown function (DUF4508)
Probab=29.37 E-value=89 Score=31.32 Aligned_cols=61 Identities=16% Similarity=0.358 Sum_probs=46.3
Q ss_pred CHHHHHHHHHHHhccCCHHHHHHHHhHHhcCCCHHHHHHHHHHHHHh-----h------hhhhHHHHHHHHhc
Q 000906 747 SIEEQEKIIKCMLGRIRAETLQDMLPWLMASLTPREQNAMMSLWCSA-----T------KCTMFEEWLGEWWE 808 (1231)
Q Consensus 747 S~eEqa~Lv~r~iasIP~e~L~~~LPWLlssLtpeEr~~mL~~lr~a-----~------~~tmf~~wl~eW~~ 808 (1231)
|.+|+.-|+.=|-+--... -.+||+=|++.+.|..-+.+++.|... | +-+||.||-..|=.
T Consensus 1 t~qe~r~vl~WF~~WS~~Q-Re~Fl~~Lv~ka~p~~v~~Ll~~l~~l~v~dkppsiFqCqlkLf~qWf~~W~~ 72 (98)
T PF14969_consen 1 TDQEMRYVLQWFQEWSELQ-REDFLQDLVEKAVPGKVNGLLDSLENLSVQDKPPSIFQCQLKLFRQWFPKWSE 72 (98)
T ss_pred CcHHHHHHHHHHHhcCHHH-HHHHHHHHHHHhccchHHHHHHHHHhCcCCCCCCcHHHHhHHHHHHHHhhccH
Confidence 4556666665555555553 489999999999999999999999776 2 25899999999854
No 201
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=29.35 E-value=20 Score=30.64 Aligned_cols=39 Identities=28% Similarity=0.743 Sum_probs=28.2
Q ss_pred CcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCccccCh
Q 000906 1136 CPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLGDM 1184 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~dm 1184 (1231)
|+.|...+... .+.+..-|..||..|+ +|-.|++++.+.
T Consensus 1 C~~C~~~I~~~--~~~~~~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGT--EIVIKAMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSS--SEEEEETTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCc--EEEEEeCCcEEEcccc--------ccCCCCCccCCC
Confidence 77888886533 2332356899999887 799999988654
No 202
>PF00539 Tat: Transactivating regulatory protein (Tat); InterPro: IPR001831 Like other lentiviruses, Human immunodeficiency virus 1 (HIV-1) encodes a trans-activating regulatory protein (Tat), which is essential for efficient transcription of the viral genome [, ]. Tat acts by binding to an RNA stem-loop structure, the trans-activating response element (TAR), found at the 5' ends of nascent HIV-1 transcripts. In binding to TAR, Tat alters the properties of the transcription complex, recruits a positive transcription elongation complex (P-TEFb) and hence increases the production of full-length viral RNA []. Tat protein also associates with RNA polymerase II complexes during early transcription elongation after the promoter clearance and before the synthesis of full-length TAR RNA transcript. This interaction of Tat with RNA polymerase II elongation complexes is P-TEFb-independent. There are two Tat binding sites on each transcription elongation complex; one is located on TAR RNA and the other one on RNA polymerase II near the exit site for nascent mRNA transcripts which suggests that two Tat molecules are involved in performing various functions during a single round of HIV-1 mRNA synthesis []. The minimum Tat sequence that can mediate specific TAR binding in vitro has been mapped to a basic domain of 10 amino acids, comprising mostly Arg and Lys residues. Regulatory activity, however, also requires the 47 N-terminal residues, which interact with components of the transcription complex and function as a transcriptional activation domain [, , ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 2W2H_D 1ZBN_B 1TVS_A 1TVT_A 3O6L_C 3O6M_C 3MI9_C 3MIA_C 1JFW_A 1TBC_A ....
Probab=29.18 E-value=52 Score=30.95 Aligned_cols=29 Identities=55% Similarity=1.395 Sum_probs=20.9
Q ss_pred CccCCCccCCcccceEecCccccccCCCCcccCCCCCccccCCCCCcccc
Q 000906 1060 STCSTTSCKNFSMARYYCRICKLFDDEREIYHCPYCNLCRVGKGLGIDYF 1109 (1231)
Q Consensus 1060 ~~C~~~sC~g~~fa~Y~C~iCkl~Dddk~~YHC~~CgICRvG~gL~~d~f 1109 (1231)
..|.+ | ||.+| .|||. +|=.-+|||+.|.
T Consensus 25 t~Cn~--C--------yCK~C--------cyHCq---lCFl~KgLGI~Y~ 53 (68)
T PF00539_consen 25 TPCNK--C--------YCKKC--------CYHCQ---LCFLQKGLGISYG 53 (68)
T ss_dssp SSSSS--S--------SSTTS--------TSSSS---CCCCCTSSSTSSS
T ss_pred CCcCC--c--------ccCcc--------eeece---eeeeeCCCccccc
Confidence 47865 8 78777 46766 6677888998764
No 203
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=29.03 E-value=46 Score=38.31 Aligned_cols=15 Identities=27% Similarity=1.099 Sum_probs=7.1
Q ss_pred cccCCCCcccCCCCC
Q 000906 1082 LFDDEREIYHCPYCN 1096 (1231)
Q Consensus 1082 l~Dddk~~YHC~~Cg 1096 (1231)
+||..-.+|.|.+|+
T Consensus 135 vw~hGGrif~CsfC~ 149 (314)
T PF06524_consen 135 VWDHGGRIFKCSFCD 149 (314)
T ss_pred cccCCCeEEEeecCC
Confidence 344444455555554
No 204
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=29.02 E-value=33 Score=40.33 Aligned_cols=19 Identities=16% Similarity=0.628 Sum_probs=13.3
Q ss_pred HHhHHHhhccCCCCCCCCc
Q 000906 1161 STCFQDYTCTHYTCPICSK 1179 (1231)
Q Consensus 1161 ~~Ci~~wl~~~~tCPICRk 1179 (1231)
.-|-.+|--.+..||.|..
T Consensus 216 slC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 216 NLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCcccccCccCCCCCC
Confidence 3566677666777888875
No 205
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=27.98 E-value=41 Score=45.05 Aligned_cols=50 Identities=18% Similarity=0.564 Sum_probs=35.4
Q ss_pred CCCCCcccccccccCCCCceEc---CcCCcccHHhHHHhh--ccCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKAL---PCGHMMHSTCFQDYT--CTHYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~L---pCGH~fH~~Ci~~wl--~~~~tCPICRksv~ 1182 (1231)
....|-||.+++-...+.-.+. -||--.++.|+ +|- ..+..||-|+..+.
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cy-eye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCY-EYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCchh
Confidence 4578999999964333333344 45666999999 664 45688999998774
No 206
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=27.73 E-value=10 Score=32.06 Aligned_cols=42 Identities=21% Similarity=0.646 Sum_probs=28.4
Q ss_pred CcccccccccCCCCceE-cCcCCcccHHhHHHhh------ccCCCCCCCCc
Q 000906 1136 CPICHEDLFSSTNPAKA-LPCGHMMHSTCFQDYT------CTHYTCPICSK 1179 (1231)
Q Consensus 1136 CPIClE~Lf~s~~~v~~-LpCGH~fH~~Ci~~wl------~~~~tCPICRk 1179 (1231)
|+||... ......+. -.|+-.||..|+..-. ...+.||.|+.
T Consensus 2 C~vC~~~--~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQS--DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSS--CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCc--CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 8889874 22222222 4789999999997753 23688998863
No 207
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=27.50 E-value=4.4e+02 Score=25.57 Aligned_cols=82 Identities=16% Similarity=0.143 Sum_probs=58.3
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHhhhccchhhhhHhHHhhhchhhhhHHhhhhhHHHHHHHH
Q 000906 47 QRAELVELHRLAVTALERGFHDRKLILELQRRFEFLKVVYKYHCVAEDEVIFLALDAHIKNVVSTYSLEHESIDELFDSV 126 (1231)
Q Consensus 47 lR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~~~l~~~~~~H~~aEDevIfPaL~~r~~nv~~~~~~EH~~~d~Lfd~v 126 (1231)
+|..|..|+.--....+- |+.....|..=-+.+...+.. ..+...--+.|..++...+..++.+|=.....+.+|
T Consensus 2 L~~~L~~L~~eL~~~~~l---d~~~~~~L~~l~~dIe~~L~~--~~~~~~~~~~l~d~l~~av~~FE~~HP~l~~~lr~i 76 (85)
T PF14357_consen 2 LQELLEKLHQELEQNPPL---DEETRAELSSLDDDIEAQLAE--EDEAEAEDESLVDRLNEAVERFEASHPKLAGILRNI 76 (85)
T ss_pred HHHHHHHHHHHHhcCCCC---CHHHHHHHHHHHHHHHHHHhc--CCcccccchhHHHHHHHHHHHHHHhCCcHHHHHHHH
Confidence 567777777664333333 345555555555555555554 556677888999999999999999999999998888
Q ss_pred HHHHhhh
Q 000906 127 FDLLNVL 133 (1231)
Q Consensus 127 ~~lL~~~ 133 (1231)
-..|+.+
T Consensus 77 ~~sLa~M 83 (85)
T PF14357_consen 77 MDSLANM 83 (85)
T ss_pred HHHHHHC
Confidence 8887653
No 208
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=27.20 E-value=33 Score=39.24 Aligned_cols=34 Identities=38% Similarity=0.732 Sum_probs=26.6
Q ss_pred CcccCCCCCccccCCCCCcccccCCCCcccccccccccccc
Q 000906 1088 EIYHCPYCNLCRVGKGLGIDYFHCMNCNACMSRSLQVHICR 1128 (1231)
Q Consensus 1088 ~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~s~~l~~HkC~ 1128 (1231)
+...|+.|.+-|-.. -.||..||.|+..- +|-|.
T Consensus 112 ~~~~C~~C~~~rPpR-----s~HCsvC~~CV~rf--DHHC~ 145 (299)
T KOG1311|consen 112 EWKYCDTCQLYRPPR-----SSHCSVCNNCVLRF--DHHCP 145 (299)
T ss_pred ceEEcCcCcccCCCC-----cccchhhccccccc--CCCCC
Confidence 478899999988764 58999999998753 56553
No 209
>PLN02195 cellulose synthase A
Probab=27.01 E-value=47 Score=44.21 Aligned_cols=50 Identities=18% Similarity=0.418 Sum_probs=35.5
Q ss_pred CCCCCcccccccccCCCCceEc---CcCCcccHHhHHHhh--ccCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKAL---PCGHMMHSTCFQDYT--CTHYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~L---pCGH~fH~~Ci~~wl--~~~~tCPICRksv~ 1182 (1231)
....|-||.+.+-...+.-.+. -||--.++.|+ +|- ..+..||-|+..+.
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCccc
Confidence 4568999999763333322333 57777999999 664 45788999998875
No 210
>KOG3896 consensus Dynactin, subunit p62 [Cell motility]
Probab=26.65 E-value=29 Score=40.99 Aligned_cols=8 Identities=50% Similarity=1.248 Sum_probs=5.2
Q ss_pred Cccccccc
Q 000906 1136 CPICHEDL 1143 (1231)
Q Consensus 1136 CPIClE~L 1143 (1231)
||-|+|.+
T Consensus 48 Cp~CLEn~ 55 (449)
T KOG3896|consen 48 CPRCLENS 55 (449)
T ss_pred chhhccCC
Confidence 66677663
No 211
>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=26.25 E-value=37 Score=35.32 Aligned_cols=32 Identities=13% Similarity=-0.005 Sum_probs=22.1
Q ss_pred ccccccccCCcccCcccccccCCCccccccccccccccccccccCC
Q 000906 1014 CKLVATCCNSLYTCIRCHDEVADHALDRKSISEMMCMKCLIIQPVG 1059 (1231)
Q Consensus 1014 ckL~cpCC~k~YpCR~CHDe~~dH~ldR~~~~~m~C~~C~~~Qp~~ 1059 (1231)
-|-.||.||+-| .+... ..++|.+|++.++..
T Consensus 8 tKr~Cp~cg~kF-------------YDLnk-~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 8 TKRICPNTGSKF-------------YDLNR-RPAVSPYTGEQFPPE 39 (129)
T ss_pred ccccCCCcCccc-------------cccCC-CCccCCCcCCccCcc
Confidence 456788888744 23222 588999999988765
No 212
>PHA00626 hypothetical protein
Probab=25.94 E-value=43 Score=30.52 Aligned_cols=34 Identities=26% Similarity=0.271 Sum_probs=19.3
Q ss_pred cccccccccccCCCccCCCccCCcccceEecCccccccC
Q 000906 1047 MMCMKCLIIQPVGSTCSTTSCKNFSMARYYCRICKLFDD 1085 (1231)
Q Consensus 1047 m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~C~iCkl~Dd 1085 (1231)
|.|..|+..+-+ .|.. | ...-.+|-|..|.+++.
T Consensus 1 m~CP~CGS~~Iv--rcg~--c-r~~snrYkCkdCGY~ft 34 (59)
T PHA00626 1 MSCPKCGSGNIA--KEKT--M-RGWSDDYVCCDCGYNDS 34 (59)
T ss_pred CCCCCCCCceee--eece--e-cccCcceEcCCCCCeec
Confidence 456666665433 3433 4 44456777777776543
No 213
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=25.84 E-value=20 Score=41.00 Aligned_cols=71 Identities=28% Similarity=0.647 Sum_probs=45.3
Q ss_pred CcccceEecCccccccCCCCcccCCCCCccccCCCCCcccccCCCCcccccccc-cccccccCCCCCCCcccccc
Q 000906 1069 NFSMARYYCRICKLFDDEREIYHCPYCNLCRVGKGLGIDYFHCMNCNACMSRSL-QVHICREKSFMDNCPICHED 1142 (1231)
Q Consensus 1069 g~~fa~Y~C~iCkl~Dddk~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~s~~l-~~HkC~E~s~e~~CPIClE~ 1142 (1231)
+..-+-.||+.|-.|=. +..-||+.|+.|..-.| +-+-||-.|-.|+-..+ .--.|..-+...-|-||-++
T Consensus 199 ~~EE~~~~~~~~~~Yv~-~~~~H~~~~~S~~~~~~--~~~~H~~~~~~~~~~~~i~C~~~~~~A~~~~C~iC~~~ 270 (325)
T KOG4399|consen 199 PTEEGYRFCSPCQRYVS-LENQHCEHCNSCTSKDG--RKWNHCFLCKKCVKPSWIHCSICNHCAVKHGCFICGEL 270 (325)
T ss_pred ccccceEEEeehHHHHH-HHhhhchhhcccccchh--HHHhHhHHhhhhcccceeeeecccchhhhcceeecccc
Confidence 55556667888876633 45678999999987653 57889988888887764 11111112223346677665
No 214
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=25.83 E-value=56 Score=37.47 Aligned_cols=64 Identities=31% Similarity=0.746 Sum_probs=38.0
Q ss_pred CcccccCCCCcccccccccccccccCCCCCCCcc--cccccccCCC------------Cc-eEcCcCCcccHHhHHHhh-
Q 000906 1105 GIDYFHCMNCNACMSRSLQVHICREKSFMDNCPI--CHEDLFSSTN------------PA-KALPCGHMMHSTCFQDYT- 1168 (1231)
Q Consensus 1105 ~~d~fHC~~Cn~C~s~~l~~HkC~E~s~e~~CPI--ClE~Lf~s~~------------~v-~~LpCGH~fH~~Ci~~wl- 1168 (1231)
|+.|.-|. ||+-+ .|.+.+..-.||- |+--+..... +. ..+.||| |-+.++
T Consensus 103 GKKYVRCP-CNCLL-------ICk~sS~rIaCPRp~CkRiI~L~~~~~~p~~~~~~~~p~~~rv~Cgh-----C~~~Fl~ 169 (256)
T PF09788_consen 103 GKKYVRCP-CNCLL-------ICKSSSQRIACPRPNCKRIINLGPSHQGPVTPPVPTQPGSCRVICGH-----CSNTFLF 169 (256)
T ss_pred CCeeEecC-CceEE-------EeecccccccCCCCCCcceEEeCCccCCCCCCCCCCCCCceeEECCC-----CCCcEec
Confidence 46788886 77643 3666777778887 8755421111 11 2356887 555543
Q ss_pred ---c-cC-CCCCCCCccc
Q 000906 1169 ---C-TH-YTCPICSKSL 1181 (1231)
Q Consensus 1169 ---~-~~-~tCPICRksv 1181 (1231)
. +. -+||-|||.-
T Consensus 170 ~~~~~~tlARCPHCrKvS 187 (256)
T PF09788_consen 170 NTLTSNTLARCPHCRKVS 187 (256)
T ss_pred cCCCCCccccCCCCceec
Confidence 1 22 4799999754
No 215
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=25.65 E-value=58 Score=41.04 Aligned_cols=90 Identities=26% Similarity=0.417 Sum_probs=46.1
Q ss_pred ccccccccccccCCCccCCCccCCcccceEec-CccccccCC------CCccc--CCCCCccccCCCCCccc------cc
Q 000906 1046 EMMCMKCLIIQPVGSTCSTTSCKNFSMARYYC-RICKLFDDE------REIYH--CPYCNLCRVGKGLGIDY------FH 1110 (1231)
Q Consensus 1046 ~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~C-~iCkl~Ddd------k~~YH--C~~CgICRvG~gL~~d~------fH 1110 (1231)
-..|-.|+.--..+-.|.. | +. +||| ..|.-|-.. -..|| |-.|.+|+..---|.-. --
T Consensus 42 cf~c~~cg~~la~~gff~k--~-~~---~~ygt~~c~~~~~gevvsa~gktyh~~cf~cs~ck~pf~~g~~vt~~gk~~~ 115 (670)
T KOG1044|consen 42 CFQCKKCGRNLAEGGFFTK--P-EN---RLYGTDDCRAFVEGEVVSTLGKTYHPKCFSCSTCKSPFKSGDKVTFSGKECL 115 (670)
T ss_pred eeeccccCCCcccccceec--c-cc---eeecccchhhhccceeEecccceeccccceecccCCCCCCCCeeeecchhhh
Confidence 4445555554433445655 5 33 6666 445444222 46777 77888888764333211 22
Q ss_pred CCCCcccccccccccccccCCCCCCCcccccccccC
Q 000906 1111 CMNCNACMSRSLQVHICREKSFMDNCPICHEDLFSS 1146 (1231)
Q Consensus 1111 C~~Cn~C~s~~l~~HkC~E~s~e~~CPIClE~Lf~s 1146 (1231)
|.+|..=++.. =.+..+-.+|.-|.+.|...
T Consensus 116 c~~c~~~~~~~-----p~~~~~ps~cagc~~~lk~g 146 (670)
T KOG1044|consen 116 CQTCSQPMPVS-----PAESYGPSTCAGCGEELKNG 146 (670)
T ss_pred hhhhcCcccCC-----cccccCCccccchhhhhhcc
Confidence 33333222221 11223457899999996533
No 217
>PF01599 Ribosomal_S27: Ribosomal protein S27a; InterPro: IPR002906 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 [, ]. This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesized as a C-terminal extension of ubiquitin (CEP) (IPR000626 from INTERPRO). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis []. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2K4X_A 3U5C_f 3U5G_f 2XZN_9 2XZM_9.
Probab=25.49 E-value=43 Score=29.38 Aligned_cols=28 Identities=25% Similarity=0.662 Sum_probs=15.3
Q ss_pred ccccCCCccCCCccCCc--cc----ceEecCcccc
Q 000906 1054 IIQPVGSTCSTTSCKNF--SM----ARYYCRICKL 1082 (1231)
Q Consensus 1054 ~~Qp~~~~C~~~sC~g~--~f----a~Y~C~iCkl 1082 (1231)
+++.....|+++.| |. -| .++||.+|.+
T Consensus 13 kv~r~rk~CP~~~C-G~GvFMA~H~dR~~CGKCg~ 46 (47)
T PF01599_consen 13 KVKRLRKECPSPRC-GAGVFMAEHKDRHYCGKCGY 46 (47)
T ss_dssp EEEESSEE-TSTTT-TSSSEEEE-SSEEEETTTSS
T ss_pred cEEEhhhcCCCccc-CCceEeeecCCCccCCCccc
Confidence 34445567876668 44 33 4566666653
No 218
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=25.16 E-value=25 Score=42.41 Aligned_cols=49 Identities=24% Similarity=0.491 Sum_probs=0.5
Q ss_pred CCCCCCCccccccc----------ccCCCCceEcCcCCcccHHhHHHhhc------cCCCCCCCCccc
Q 000906 1130 KSFMDNCPICHEDL----------FSSTNPAKALPCGHMMHSTCFQDYTC------THYTCPICSKSL 1181 (1231)
Q Consensus 1130 ~s~e~~CPIClE~L----------f~s~~~v~~LpCGH~fH~~Ci~~wl~------~~~tCPICRksv 1181 (1231)
+...-.|||=+-.| -...++.++|.|||.+-.+ .|-. ...+||+|++.=
T Consensus 274 Na~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 274 NAGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp S-------------------------------------------------------------------
T ss_pred hhcCCCCCcCCCccccccccccccccccCceeeccccceeeec---ccccccccccccccCCCccccC
Confidence 55567899887665 2344577899999864332 4631 257899999643
No 219
>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=25.13 E-value=47 Score=29.00 Aligned_cols=12 Identities=33% Similarity=1.165 Sum_probs=7.9
Q ss_pred eEecCcccc-ccC
Q 000906 1074 RYYCRICKL-FDD 1085 (1231)
Q Consensus 1074 ~Y~C~iCkl-~Dd 1085 (1231)
+|.|.+|.+ ||.
T Consensus 1 ky~C~~CgyvYd~ 13 (47)
T PF00301_consen 1 KYQCPVCGYVYDP 13 (47)
T ss_dssp EEEETTTSBEEET
T ss_pred CcCCCCCCEEEcC
Confidence 577888865 443
No 220
>PF06757 Ins_allergen_rp: Insect allergen related repeat, nitrile-specifier detoxification; InterPro: IPR010629 This entry represents several insect specific allergen repeats. These repeats are commonly found in various proteins from cockroaches, fruit flies and mosquitos. It has been suggested that the repeat sequences have evolved by duplication of an ancestral amino acid domain, which may have arisen from the mitochondrial energy transfer proteins []. This family exemplifies a case of novel gene evolution. The case in point is the arms-race between plants and their infective insective herbivores in the area of the glucosinolate-myrosinase system. Brassicas have developed the glucosinolate-myrosinase system as chemical defence mechanism against the insects, and consequently the insects have adapted to produce a detoxifying molecule, nitrile-specifier protein (NSP). NSP is present in the Pieris rapae (Cabbage white butterfly). NSP is structurally different from and has no amino acid homology to any known detoxifying enzymes, and it appears to have arisen by a process of domain and gene duplication of a sequence of unknown function that is widespread in insect species and referred to as insect-allergen-repeat protein. Thus this family is found either as a single domain or as a multiple repeat-domain [].
Probab=24.75 E-value=8.8e+02 Score=26.06 Aligned_cols=154 Identities=16% Similarity=0.165 Sum_probs=90.5
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHH----HHHHHHHHhhhccchhhhhHhHHhhhchhhhhH-HhhhhhHH
Q 000906 46 AQRAELVELHRLAVTALERGFHDRKLILELQRRF----EFLKVVYKYHCVAEDEVIFLALDAHIKNVVSTY-SLEHESID 120 (1231)
Q Consensus 46 AlR~eL~~L~~la~~~~~~d~~d~~~i~~l~~r~----~~l~~~~~~H~~aEDevIfPaL~~r~~nv~~~~-~~EH~~~d 120 (1231)
.|..++.++..+ ++ . ..+..+..+| ..++.++.|=-+.|=.-+|--|.+ .|.+..-+ -++..+++
T Consensus 3 ~L~~d~~dfl~l---Ip---~---~~i~~i~~~Y~~~D~efq~~~~yl~s~~f~~l~~~l~~-~pE~~~l~~yL~~~gld 72 (179)
T PF06757_consen 3 SLQEDFQDFLDL---IP---M---EEIQDIVQRYYLEDAEFQAAVRYLNSSEFKQLWQQLEA-LPEVKALLDYLESAGLD 72 (179)
T ss_pred hHHHHHHHHHHh---cC---H---HHHHHHHHHHHHcCHHHHHHHHHHcChHHHHHHHHHHc-CHHHHHHHHHHHHCCCC
Confidence 456677777666 22 1 3466666666 356677776655543445555554 44332222 23344444
Q ss_pred H--HHHHHHHHHhhhcCCCCCCCc--hHHHHHHHHhHHHHHHHHhhHHHHHhhhccCCCCCcccccCCCCcccchhhHHH
Q 000906 121 E--LFDSVFDLLNVLLGGSENVSK--PFQEVVFCIGTIKTFICQHMLKEEEQYVLSSKYPTASLVNEGGIHEDEVFPLLV 196 (1231)
Q Consensus 121 ~--Lfd~v~~lL~~~~~~~~~~~~--~~~eLa~~i~~l~t~l~qHm~~EE~q~~~~~~~~~~~~~~~~~~~~~~v~PLl~ 196 (1231)
- .++.+..+++...-.+..... ..+-+..++. .+..+|..++-.-....|..| ++.|.-++
T Consensus 73 v~~~i~~i~~~l~~~~~~p~~~~~~~~~~g~~g~~~----di~~~lP~~~l~aL~~~K~~~-----------s~~F~~f~ 137 (179)
T PF06757_consen 73 VYYYINQINDLLGLPPLNPTPSLSCSRGGGLNGFVD----DILALLPRDKLRALYEEKLAT-----------SPEFAEFV 137 (179)
T ss_pred HHHHHHHHHHHHcCCcCCCCcccccccCCCHHHHHH----HHHHHCCHHHHHHHHHHHHHC-----------CHHHHHHH
Confidence 3 788888888655433321111 2233444444 666677776666333344433 55999999
Q ss_pred hcCCHHHHHHHHHhHhcCCCHHHHHHHH
Q 000906 197 RQFSSTEQASLVCQFLCSVPVMLLEVLL 224 (1231)
Q Consensus 197 ~~fS~~Eqa~Lv~~f~~siP~~~l~~~L 224 (1231)
+.++..||..++...+.+-++..+..-|
T Consensus 138 ~~l~S~ef~~~~~~~~~~~~~~~~~~~L 165 (179)
T PF06757_consen 138 EALRSPEFQQLYNALWASPEFQRLLNEL 165 (179)
T ss_pred HHHcCHHHHHHHHHHHcCHHHHHHHHHH
Confidence 9999999999999999886655544433
No 221
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=24.59 E-value=51 Score=41.70 Aligned_cols=62 Identities=26% Similarity=0.422 Sum_probs=40.7
Q ss_pred cccccCC-------cccCcccccccCCC-------------ccccccccccccccccccc--cCCCccCCCccCCcccce
Q 000906 1017 VATCCNS-------LYTCIRCHDEVADH-------------ALDRKSISEMMCMKCLIIQ--PVGSTCSTTSCKNFSMAR 1074 (1231)
Q Consensus 1017 ~cpCC~k-------~YpCR~CHDe~~dH-------------~ldR~~~~~m~C~~C~~~Q--p~~~~C~~~sC~g~~fa~ 1074 (1231)
.||.|+. .=.|..||--.-.- ..|-+....+.|.+|.-.. ++-..|.. | |-.---
T Consensus 4 ~C~~C~g~G~i~v~~e~c~vc~gtG~~~~~d~k~~~~~~~~~~D~~~~~~~pc~~c~gkG~V~v~~~c~~--c-~G~gkv 80 (715)
T COG1107 4 KCPECGGKGKIVVGEEECPVCHGTGFSDDFDPKGVANLSRETVDLFASFEIPCPKCRGKGTVTVYDTCPE--C-GGTGKV 80 (715)
T ss_pred cccccCCCceEeeeeeecccccccccccccChhhhhhhhhccccccccCCCCCCeeccceeEEEEeeccc--C-CCceeE
Confidence 5777743 33488999663211 2333444589999997543 45578977 9 777777
Q ss_pred EecCccc
Q 000906 1075 YYCRICK 1081 (1231)
Q Consensus 1075 Y~C~iCk 1081 (1231)
+.|.+|.
T Consensus 81 ~~c~~cG 87 (715)
T COG1107 81 LTCDICG 87 (715)
T ss_pred Eeecccc
Confidence 8888884
No 222
>PRK00808 hypothetical protein; Provisional
Probab=24.54 E-value=4e+02 Score=27.77 Aligned_cols=24 Identities=13% Similarity=0.224 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 000906 715 RLQDICKSMHKLLSEHIHREETEL 738 (1231)
Q Consensus 715 ~La~~~~aL~tsL~qHL~~EE~el 738 (1231)
.+..+++.|..-...|...||.-.
T Consensus 42 ~i~~~l~~L~~y~~~HF~~EE~lM 65 (150)
T PRK00808 42 AVAEVIDELIDYTLSHFAFEESLM 65 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344567788888999999999865
No 223
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.52 E-value=7 Score=44.25 Aligned_cols=72 Identities=26% Similarity=0.688 Sum_probs=44.7
Q ss_pred cccCcccccccCCCccccccccccccccccccccCCCccCCCccC----CcccceEecCccccccCC-CCcccCCCCCc-
Q 000906 1024 LYTCIRCHDEVADHALDRKSISEMMCMKCLIIQPVGSTCSTTSCK----NFSMARYYCRICKLFDDE-REIYHCPYCNL- 1097 (1231)
Q Consensus 1024 ~YpCR~CHDe~~dH~ldR~~~~~m~C~~C~~~Qp~~~~C~~~sC~----g~~fa~Y~C~iCkl~Ddd-k~~YHC~~CgI- 1097 (1231)
+|.|..||-. ||++--.+-.-+|-.|...-|++ .|.+ |. ...+..-.|-+|-.+-.- -.++-|.+|+|
T Consensus 6 L~aCtkC~~r---~p~eals~gQqlCk~Cr~a~~vg-Kcty--Crse~q~askt~t~CkkCah~~~kfG~P~pC~~Ckii 79 (305)
T KOG3990|consen 6 LYACTKCRQR---LPFEALSQGQQLCKECRIAHPVG-KCTY--CRSEFQQASKTNTICKKCAHNVRKFGTPKPCQYCKII 79 (305)
T ss_pred HHHHHhHhhh---CcHHHHHHHHHHHHHhcccCCcc-ccch--hHHHhhhhhhhhhHHHHHHHHHHhcCCCCcchhhhhh
Confidence 6888888864 56666556677788888777777 5655 62 223444445555332111 35778999986
Q ss_pred cccC
Q 000906 1098 CRVG 1101 (1231)
Q Consensus 1098 CRvG 1101 (1231)
|-.+
T Consensus 80 aAF~ 83 (305)
T KOG3990|consen 80 AAFI 83 (305)
T ss_pred hhhc
Confidence 4333
No 224
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=24.44 E-value=33 Score=40.26 Aligned_cols=30 Identities=23% Similarity=0.790 Sum_probs=22.4
Q ss_pred eEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1151 KALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1151 ~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
+.+||.|+|+..|...-- -..||.|.-.|.
T Consensus 105 RmIPCkHvFCl~CAr~~~--dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 105 RMIPCKHVFCLECARSDS--DKICPLCDDRVQ 134 (389)
T ss_pred cccccchhhhhhhhhcCc--cccCcCcccHHH
Confidence 567999999999985432 346999887763
No 225
>PHA01486 nonstructural protein
Probab=24.44 E-value=59 Score=25.77 Aligned_cols=21 Identities=33% Similarity=0.420 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHcccCCCC
Q 000906 332 IIRKDLEGILESLLQMKSSNA 352 (1231)
Q Consensus 332 ai~~~l~~i~~~~~~~~~s~~ 352 (1231)
-||+||+.|+--+|++..|.|
T Consensus 6 dirrdlrsiairlrklpassd 26 (32)
T PHA01486 6 DIRRDLRSIAIRLRKLPASSD 26 (32)
T ss_pred hHHHHHHHHHHHHHhCCCcHH
Confidence 489999999999999987753
No 226
>PF06220 zf-U1: U1 zinc finger; InterPro: IPR013085 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc finger motif found in several U1 small nuclear ribonucleoprotein C (U1-C) proteins. Some proteins contain multiple copies of this motif. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' splice site is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' splice site. Binding of TIA-1 in the vicinity of a 5' splice site helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2VRD_A.
Probab=24.26 E-value=30 Score=28.76 Aligned_cols=13 Identities=54% Similarity=1.257 Sum_probs=5.5
Q ss_pred cceEecCcccccc
Q 000906 1072 MARYYCRICKLFD 1084 (1231)
Q Consensus 1072 fa~Y~C~iCkl~D 1084 (1231)
|.+|||+-|+.|=
T Consensus 1 m~ryyCdyC~~~~ 13 (38)
T PF06220_consen 1 MPRYYCDYCKKYL 13 (38)
T ss_dssp --S-B-TTT--B-
T ss_pred CcCeeccccccee
Confidence 5689999998764
No 227
>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=24.20 E-value=38 Score=28.33 Aligned_cols=13 Identities=46% Similarity=0.933 Sum_probs=5.9
Q ss_pred cCCCCcccCCCCC
Q 000906 1084 DDEREIYHCPYCN 1096 (1231)
Q Consensus 1084 Dddk~~YHC~~Cg 1096 (1231)
|...+-+-|..||
T Consensus 14 D~~~g~~vC~~CG 26 (43)
T PF08271_consen 14 DPERGELVCPNCG 26 (43)
T ss_dssp ETTTTEEEETTT-
T ss_pred cCCCCeEECCCCC
Confidence 4334555555554
No 228
>PRK14873 primosome assembly protein PriA; Provisional
Probab=24.01 E-value=49 Score=42.57 Aligned_cols=49 Identities=22% Similarity=0.606 Sum_probs=29.6
Q ss_pred ccccc-cccccccccccccCCCccCCCccCCcccce------EecCccccccCCCCcccCCCCCcc
Q 000906 1040 DRKSI-SEMMCMKCLIIQPVGSTCSTTSCKNFSMAR------YYCRICKLFDDEREIYHCPYCNLC 1098 (1231)
Q Consensus 1040 dR~~~-~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~------Y~C~iCkl~Dddk~~YHC~~CgIC 1098 (1231)
+|+.- ..++|..|+..- .|++ | +..+.- -.|.-|.+ ...+..|+.||--
T Consensus 376 nRrGyap~l~C~~Cg~~~----~C~~--C-~~~L~~h~~~~~l~Ch~CG~---~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 376 PRRGYVPSLACARCRTPA----RCRH--C-TGPLGLPSAGGTPRCRWCGR---AAPDWRCPRCGSD 431 (665)
T ss_pred cCCCCCCeeEhhhCcCee----ECCC--C-CCceeEecCCCeeECCCCcC---CCcCccCCCCcCC
Confidence 44433 577999999876 7877 8 655542 23555543 2235667777654
No 229
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=23.67 E-value=45 Score=39.66 Aligned_cols=15 Identities=40% Similarity=0.981 Sum_probs=11.2
Q ss_pred cccceEecCcccccc
Q 000906 1070 FSMARYYCRICKLFD 1084 (1231)
Q Consensus 1070 ~~fa~Y~C~iCkl~D 1084 (1231)
..|-+|.|-+|.=||
T Consensus 19 ~t~rrYkCL~C~DyD 33 (381)
T KOG1280|consen 19 FTFRRYKCLRCSDYD 33 (381)
T ss_pred eeeeeeEeeeecchh
Confidence 367788899987664
No 230
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=23.63 E-value=61 Score=38.08 Aligned_cols=25 Identities=28% Similarity=0.509 Sum_probs=17.8
Q ss_pred cccccccccccccc-CCCccCCCccCCcc
Q 000906 1044 ISEMMCMKCLIIQP-VGSTCSTTSCKNFS 1071 (1231)
Q Consensus 1044 ~~~m~C~~C~~~Qp-~~~~C~~~sC~g~~ 1071 (1231)
..-+.|..|.++=. +.-.|++ | |..
T Consensus 208 ~RyL~CslC~teW~~~R~~C~~--C-g~~ 233 (305)
T TIGR01562 208 LRYLSCSLCATEWHYVRVKCSH--C-EES 233 (305)
T ss_pred ceEEEcCCCCCcccccCccCCC--C-CCC
Confidence 35789999999843 3357977 9 554
No 231
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=23.61 E-value=7.5 Score=34.44 Aligned_cols=45 Identities=29% Similarity=0.799 Sum_probs=26.0
Q ss_pred cccceEecCccccccCCCCcccCCCCC-----ccccCCCCCcccccCCCCccccc
Q 000906 1070 FSMARYYCRICKLFDDEREIYHCPYCN-----LCRVGKGLGIDYFHCMNCNACMS 1119 (1231)
Q Consensus 1070 ~~fa~Y~C~iCkl~Dddk~~YHC~~Cg-----ICRvG~gL~~d~fHC~~Cn~C~s 1119 (1231)
.+|++|.|+.|+--..-++.-.|--|| -|-. +.|+.|+.|+.=+.
T Consensus 3 ~SFsry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~-----deYY~CksC~Gii~ 52 (57)
T PF14445_consen 3 HSFSRYSCDLCNSSHPISELRQCVLCGRWACNSCWQ-----DEYYTCKSCNGIIN 52 (57)
T ss_pred hHHhhHhHHhhcccCcHHHHHHHhhhchhhhhhhhh-----hhHhHHHhhhchhh
Confidence 468888888887543334444455444 2322 35777777765443
No 232
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=23.60 E-value=45 Score=38.20 Aligned_cols=79 Identities=23% Similarity=0.555 Sum_probs=48.5
Q ss_pred cccccccccccccCC--------cccCcccccccCCCcc----ccccccccccccccccccCCCccCCCccCCcccceEe
Q 000906 1009 HYKRNCKLVATCCNS--------LYTCIRCHDEVADHAL----DRKSISEMMCMKCLIIQPVGSTCSTTSCKNFSMARYY 1076 (1231)
Q Consensus 1009 HY~R~ckL~cpCC~k--------~YpCR~CHDe~~dH~l----dR~~~~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~Y~ 1076 (1231)
-|+..=...|.-|+. .|.|..||.-..+-++ |-+..-...|..|+++-.... ...-+.-|
T Consensus 114 f~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~keL~sda--------Revk~eLy 185 (332)
T KOG2272|consen 114 FYRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCGKELTSDA--------REVKGELY 185 (332)
T ss_pred hHhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceecccccccccchh--------hhhcccee
Confidence 344444455666643 7999999988665433 333445778888888754331 22334556
Q ss_pred cCccccccCCCCcccCCCCCccccC
Q 000906 1077 CRICKLFDDEREIYHCPYCNLCRVG 1101 (1231)
Q Consensus 1077 C~iCkl~Dddk~~YHC~~CgICRvG 1101 (1231)
|.-|. +.+-||-||-||..
T Consensus 186 ClrCh------D~mgipiCgaC~rp 204 (332)
T KOG2272|consen 186 CLRCH------DKMGIPICGACRRP 204 (332)
T ss_pred ccccc------cccCCcccccccCc
Confidence 66664 23557888888865
No 233
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=22.57 E-value=79 Score=37.33 Aligned_cols=76 Identities=25% Similarity=0.474 Sum_probs=49.5
Q ss_pred ccCC----CCcccCCCCCccccCCCCCcccccCCCCccccccc--c--cccccccCCCCCCCcccccccccCCCCceEcC
Q 000906 1083 FDDE----REIYHCPYCNLCRVGKGLGIDYFHCMNCNACMSRS--L--QVHICREKSFMDNCPICHEDLFSSTNPAKALP 1154 (1231)
Q Consensus 1083 ~Ddd----k~~YHC~~CgICRvG~gL~~d~fHC~~Cn~C~s~~--l--~~HkC~E~s~e~~CPIClE~Lf~s~~~v~~Lp 1154 (1231)
|||= +-+=||..|- --| -..+=||.|- .|.+.. . ..|--..+.....|-.|-+- ..+|.+++
T Consensus 169 WdDVLks~Ripg~Ces~~--~pg-~fAEFfFKC~---ah~~~~k~~aa~lhli~~N~~ni~C~~Ctdv----~~~vlvf~ 238 (446)
T KOG0006|consen 169 WDDVLKSKRIPGVCESCC--TPG-LFAEFFFKCG---AHPTSDKETAAALHLIATNSRNITCITCTDV----RSPVLVFQ 238 (446)
T ss_pred hhhhhhcccCcccccccc--CCc-chHhheehhc---cCCCccccchhHHHHhhcccccceeEEecCC----ccceEEEe
Confidence 7765 5677787753 222 1223456654 444432 2 35655566667789999754 45788899
Q ss_pred cC--CcccHHhHHHhh
Q 000906 1155 CG--HMMHSTCFQDYT 1168 (1231)
Q Consensus 1155 CG--H~fH~~Ci~~wl 1168 (1231)
|. |..+..||.-|-
T Consensus 239 Cns~HvtC~dCFr~yc 254 (446)
T KOG0006|consen 239 CNSRHVTCLDCFRLYC 254 (446)
T ss_pred cCCceeehHHhhhhHh
Confidence 99 999999999773
No 234
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=22.55 E-value=42 Score=39.35 Aligned_cols=20 Identities=25% Similarity=0.675 Sum_probs=14.3
Q ss_pred HHhHHHhhccCCCCCCCCcc
Q 000906 1161 STCFQDYTCTHYTCPICSKS 1180 (1231)
Q Consensus 1161 ~~Ci~~wl~~~~tCPICRks 1180 (1231)
.-|-.+|--.+..||.|..+
T Consensus 214 slC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 214 SLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCCCcccccCccCCCCCCC
Confidence 35777787667788888864
No 235
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=22.43 E-value=63 Score=39.70 Aligned_cols=47 Identities=26% Similarity=0.499 Sum_probs=30.8
Q ss_pred CCCcccccccccCCCCceEc---CcCCcccHHhHHHh-h--------------ccCCCCCCCCccc
Q 000906 1134 DNCPICHEDLFSSTNPAKAL---PCGHMMHSTCFQDY-T--------------CTHYTCPICSKSL 1181 (1231)
Q Consensus 1134 ~~CPIClE~Lf~s~~~v~~L---pCGH~fH~~Ci~~w-l--------------~~~~tCPICRksv 1181 (1231)
..|+||.-+ -....+..++ -|||.-|..|--.- + ...|.|--|.+.-
T Consensus 129 C~C~iC~kf-D~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~s 193 (446)
T PF07227_consen 129 CMCCICSKF-DDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTS 193 (446)
T ss_pred CCccccCCc-ccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChh
Confidence 347888664 2233455665 47899999997552 1 1137899998865
No 236
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=22.26 E-value=47 Score=29.40 Aligned_cols=27 Identities=30% Similarity=0.749 Sum_probs=19.5
Q ss_pred ccceEecCccc-cccCC--CCcccCCCCCc
Q 000906 1071 SMARYYCRICK-LFDDE--REIYHCPYCNL 1097 (1231)
Q Consensus 1071 ~fa~Y~C~iCk-l~Ddd--k~~YHC~~CgI 1097 (1231)
.+..|-|..|. .++.+ ..-+.|++||.
T Consensus 3 ~~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~ 32 (49)
T COG1996 3 AMMEYKCARCGREVELDQETRGIRCPYCGS 32 (49)
T ss_pred ceEEEEhhhcCCeeehhhccCceeCCCCCc
Confidence 35678888884 45533 77888999984
No 237
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=22.00 E-value=54 Score=32.73 Aligned_cols=27 Identities=33% Similarity=0.892 Sum_probs=0.0
Q ss_pred CcccCCCCC----ccccCCCCCcccccCCCCcc
Q 000906 1088 EIYHCPYCN----LCRVGKGLGIDYFHCMNCNA 1116 (1231)
Q Consensus 1088 ~~YHC~~Cg----ICRvG~gL~~d~fHC~~Cn~ 1116 (1231)
.+|+|++|| .|.+++ |.-...|.+||.
T Consensus 20 t~f~CP~Cge~~v~v~~~k--~~~h~~C~~CG~ 50 (99)
T PRK14892 20 KIFECPRCGKVSISVKIKK--NIAIITCGNCGL 50 (99)
T ss_pred cEeECCCCCCeEeeeecCC--CcceEECCCCCC
No 238
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.15 E-value=1.7e+02 Score=29.98 Aligned_cols=83 Identities=20% Similarity=0.425 Sum_probs=0.0
Q ss_pred ccCCCCC--ccccCCCCCcccccCCCCcccc---------------cccccccccccCCCCCCCcccccccccCCCC---
Q 000906 1090 YHCPYCN--LCRVGKGLGIDYFHCMNCNACM---------------SRSLQVHICREKSFMDNCPICHEDLFSSTNP--- 1149 (1231)
Q Consensus 1090 YHC~~Cg--ICRvG~gL~~d~fHC~~Cn~C~---------------s~~l~~HkC~E~s~e~~CPIClE~Lf~s~~~--- 1149 (1231)
|+|+.|+ +|.++ .-|..||.=+ ..++..-.-.+......|--|... |.....
T Consensus 2 Y~CPrC~skvC~LP-------~~CpiCgLtLVss~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~-f~~~~~~~~ 73 (112)
T TIGR00622 2 YFCPQCRAKVCELP-------VECPICGLTLILSTHLARSYHHLFPLKAFQEIPLEEYNGSRFCFGCQGP-FPKPPVSPF 73 (112)
T ss_pred ccCCCCCCCccCCC-------CcCCcCCCEEeccchHHHhhhccCCCcccccccccccCCCCcccCcCCC-CCCcccccc
Q ss_pred --------ceEcCcCCcccHHhHHHhhccCCCCCCCCcc
Q 000906 1150 --------AKALPCGHMMHSTCFQDYTCTHYTCPICSKS 1180 (1231)
Q Consensus 1150 --------v~~LpCGH~fH~~Ci~~wl~~~~tCPICRks 1180 (1231)
..--.|++.|..+|-.-+-..=..||-|...
T Consensus 74 ~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~~ 112 (112)
T TIGR00622 74 DELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIHK 112 (112)
T ss_pred cccccccceeCCCCCCccccccchhhhhhccCCcCCCCC
No 239
>PRK01917 cation-binding hemerythrin HHE family protein; Provisional
Probab=21.14 E-value=3.8e+02 Score=27.69 Aligned_cols=38 Identities=11% Similarity=0.004 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH----hHHHHhhCCHHHHHHHHHHHhc
Q 000906 717 QDICKSMHKLLSEHIHREETEL----WPLFRECFSIEEQEKIIKCMLG 760 (1231)
Q Consensus 717 a~~~~aL~tsL~qHL~~EE~el----~PLl~~hFS~eEqa~Lv~r~ia 760 (1231)
...++.|..-...|...||.-. .|-+.. -.+.+.+|+.
T Consensus 40 ~~~l~~L~~y~~~HF~~EE~lM~~~~YP~~~~------H~~eH~~fl~ 81 (139)
T PRK01917 40 LQALDAWIDHTRHHFAQEERWMEATKFGPRHC------HRAEHDEVLA 81 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCChHH------HHHHHHHHHH
Confidence 3456778888999999999754 444433 3455555554
No 240
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=20.67 E-value=55 Score=28.80 Aligned_cols=9 Identities=44% Similarity=1.228 Sum_probs=4.9
Q ss_pred ccccCCCCc
Q 000906 1107 DYFHCMNCN 1115 (1231)
Q Consensus 1107 d~fHC~~Cn 1115 (1231)
+.++|.+|+
T Consensus 36 ~r~~C~~Cg 44 (50)
T PRK00432 36 DRWHCGKCG 44 (50)
T ss_pred CcEECCCcC
Confidence 455555555
No 241
>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=20.61 E-value=61 Score=40.23 Aligned_cols=45 Identities=24% Similarity=0.671 Sum_probs=29.0
Q ss_pred cccccccccccccCCCccCCCccCCcccce------EecCccccccCCCCcccCCCCCcc
Q 000906 1045 SEMMCMKCLIIQPVGSTCSTTSCKNFSMAR------YYCRICKLFDDEREIYHCPYCNLC 1098 (1231)
Q Consensus 1045 ~~m~C~~C~~~Qp~~~~C~~~sC~g~~fa~------Y~C~iCkl~Dddk~~YHC~~CgIC 1098 (1231)
..++|..|+..- .|++ | +..+.- -.|..|.+-- .-+..||.||--
T Consensus 212 ~~~~C~~Cg~~~----~C~~--C-~~~l~~h~~~~~l~Ch~Cg~~~--~~~~~Cp~C~s~ 262 (505)
T TIGR00595 212 KNLLCRSCGYIL----CCPN--C-DVSLTYHKKEGKLRCHYCGYQE--PIPKTCPQCGSE 262 (505)
T ss_pred CeeEhhhCcCcc----CCCC--C-CCceEEecCCCeEEcCCCcCcC--CCCCCCCCCCCC
Confidence 578999999876 7877 9 655542 3355554321 345678888754
No 242
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.36 E-value=44 Score=41.69 Aligned_cols=43 Identities=28% Similarity=0.828 Sum_probs=35.7
Q ss_pred CCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1132 FMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1132 ~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
.+++|.||.+.+ ..+.-+|- |..|+..|+.....||.|++.+.
T Consensus 478 ~~~~~~~~~~~~-----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~ 520 (543)
T KOG0802|consen 478 PNDVCAICYQEM-----SARITPCS---HALCLRKWLYVQEVCPLCHTYMK 520 (543)
T ss_pred ccCcchHHHHHH-----Hhcccccc---chhHHHhhhhhccccCCCchhhh
Confidence 468999999996 23445677 99999999999999999998774
No 243
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=20.25 E-value=25 Score=40.32 Aligned_cols=26 Identities=19% Similarity=0.490 Sum_probs=12.3
Q ss_pred CcccHHhHHHhhccCCCCCCCCcccc
Q 000906 1157 HMMHSTCFQDYTCTHYTCPICSKSLG 1182 (1231)
Q Consensus 1157 H~fH~~Ci~~wl~~~~tCPICRksv~ 1182 (1231)
|.++.-|-.+|.-.+.+||.|..+=.
T Consensus 197 ~L~Cs~C~t~W~~~R~~Cp~Cg~~~~ 222 (290)
T PF04216_consen 197 YLHCSLCGTEWRFVRIKCPYCGNTDH 222 (290)
T ss_dssp EEEETTT--EEE--TTS-TTT---SS
T ss_pred EEEcCCCCCeeeecCCCCcCCCCCCC
Confidence 33445677888777788999986543
No 244
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=20.22 E-value=55 Score=24.88 Aligned_cols=23 Identities=30% Similarity=0.712 Sum_probs=15.0
Q ss_pred cccccccccc-ccCCCccCCCccCCcc
Q 000906 1046 EMMCMKCLII-QPVGSTCSTTSCKNFS 1071 (1231)
Q Consensus 1046 ~m~C~~C~~~-Qp~~~~C~~~sC~g~~ 1071 (1231)
.+.|..|+++ .+-...|++ | |..
T Consensus 2 ~~~Cp~Cg~~~~~~~~fC~~--C-G~~ 25 (26)
T PF13248_consen 2 EMFCPNCGAEIDPDAKFCPN--C-GAK 25 (26)
T ss_pred cCCCcccCCcCCcccccChh--h-CCC
Confidence 4678888876 333467866 8 654
No 245
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.13 E-value=57 Score=39.78 Aligned_cols=49 Identities=31% Similarity=0.679 Sum_probs=35.0
Q ss_pred CCCCCCcccccccccCCCCceEcCcCCcccHHhHHHhhccC--------CCCC--CCCcccc
Q 000906 1131 SFMDNCPICHEDLFSSTNPAKALPCGHMMHSTCFQDYTCTH--------YTCP--ICSKSLG 1182 (1231)
Q Consensus 1131 s~e~~CPIClE~Lf~s~~~v~~LpCGH~fH~~Ci~~wl~~~--------~tCP--ICRksv~ 1182 (1231)
.....|.||.+. +.. ....+.|||.|...|...|+.++ .+|| -|...++
T Consensus 68 ~~~~~c~ic~~~-~~~--~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~ 126 (444)
T KOG1815|consen 68 KGDVQCGICVES-YDG--EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVG 126 (444)
T ss_pred CccccCCcccCC-Ccc--hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCC
Confidence 456789999887 322 45668999999999999997432 2466 4666554
Done!