Query 000963
Match_columns 1208
No_of_seqs 462 out of 1583
Neff 5.2
Searched_HMMs 46136
Date Thu Mar 28 11:54:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000963.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000963hhsearch_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 2.6E-53 5.6E-58 463.8 6.1 225 976-1206 21-247 (276)
2 PF05495 zf-CHY: CHY zinc fing 99.8 7E-21 1.5E-25 171.9 1.0 70 990-1067 1-71 (71)
3 PF01814 Hemerythrin: Hemeryth 99.2 2.5E-10 5.4E-15 111.0 14.0 124 293-425 2-133 (133)
4 PF01814 Hemerythrin: Hemeryth 99.2 2.4E-10 5.2E-15 111.1 12.5 129 43-176 2-133 (133)
5 PF13639 zf-RING_2: Ring finge 99.0 6.6E-11 1.4E-15 97.2 1.4 44 1117-1161 1-44 (44)
6 PF14599 zinc_ribbon_6: Zinc-r 99.0 1.1E-10 2.3E-15 102.6 0.5 43 1164-1206 1-43 (61)
7 COG4357 Zinc finger domain con 98.9 1.3E-10 2.8E-15 108.6 -1.0 57 986-1042 11-75 (105)
8 PRK10992 iron-sulfur cluster r 98.8 6.8E-08 1.5E-12 105.6 13.9 132 293-427 75-218 (220)
9 COG5243 HRD1 HRD ubiquitin lig 98.7 8.4E-09 1.8E-13 116.1 3.0 57 1113-1169 284-350 (491)
10 KOG4628 Predicted E3 ubiquitin 98.7 1E-08 2.2E-13 117.3 3.2 49 1117-1166 230-279 (348)
11 TIGR03652 FeS_repair_RIC iron- 98.7 1.5E-07 3.4E-12 102.5 12.2 129 294-425 72-216 (216)
12 PF12678 zf-rbx1: RING-H2 zinc 98.6 1.9E-08 4E-13 91.9 3.2 47 1115-1161 18-73 (73)
13 PRK10992 iron-sulfur cluster r 98.6 4.5E-07 9.7E-12 99.3 14.3 129 49-178 82-218 (220)
14 PF12861 zf-Apc11: Anaphase-pr 98.5 5.3E-08 1.1E-12 90.8 3.4 47 1116-1164 32-81 (85)
15 COG3945 Uncharacterized conser 98.5 1.9E-06 4.1E-11 90.0 14.8 140 292-440 8-158 (189)
16 TIGR03652 FeS_repair_RIC iron- 98.5 1.4E-06 3E-11 95.1 13.1 127 49-175 78-215 (216)
17 cd00162 RING RING-finger (Real 98.4 2E-07 4.3E-12 74.7 3.7 44 1118-1164 1-45 (45)
18 PHA02929 N1R/p28-like protein; 98.4 2E-07 4.4E-12 102.6 4.5 54 1113-1166 171-228 (238)
19 PF13923 zf-C3HC4_2: Zinc fing 98.4 1.6E-07 3.6E-12 75.4 2.2 39 1119-1160 1-39 (39)
20 PRK13276 cell wall biosynthesi 98.3 5.8E-06 1.3E-10 90.5 13.7 125 49-174 85-221 (224)
21 COG5540 RING-finger-containing 98.3 2.8E-07 6E-12 102.0 3.5 54 1111-1165 318-372 (374)
22 PRK13276 cell wall biosynthesi 98.3 5.8E-06 1.3E-10 90.5 13.1 128 294-424 79-222 (224)
23 PF13920 zf-C3HC4_3: Zinc fing 98.2 8.2E-07 1.8E-11 75.1 2.0 47 1116-1166 2-49 (50)
24 PF15227 zf-C3HC4_4: zinc fing 98.1 6.6E-07 1.4E-11 73.4 1.0 38 1119-1160 1-42 (42)
25 PF14634 zf-RING_5: zinc-RING 98.1 2.3E-06 4.9E-11 70.7 3.0 44 1118-1162 1-44 (44)
26 COG2846 Regulator of cell morp 98.0 4.1E-05 8.9E-10 81.3 12.0 128 295-425 79-217 (221)
27 PF00097 zf-C3HC4: Zinc finger 98.0 2.6E-06 5.6E-11 68.8 2.4 39 1119-1160 1-41 (41)
28 COG5194 APC11 Component of SCF 98.0 3.2E-06 7E-11 77.3 2.9 49 1116-1164 31-80 (88)
29 smart00184 RING Ring finger. E 98.0 3.6E-06 7.8E-11 65.1 2.8 38 1119-1160 1-39 (39)
30 KOG0320 Predicted E3 ubiquitin 98.0 2.3E-06 5E-11 89.2 2.2 47 1117-1165 132-178 (187)
31 PLN03208 E3 ubiquitin-protein 98.0 6.6E-06 1.4E-10 87.7 4.5 54 1109-1166 11-80 (193)
32 PF13445 zf-RING_UBOX: RING-ty 97.9 5.9E-06 1.3E-10 68.3 2.3 39 1119-1158 1-43 (43)
33 PHA02926 zinc finger-like prot 97.8 9.9E-06 2.1E-10 87.3 3.3 53 1113-1165 167-230 (242)
34 smart00504 Ubox Modified RING 97.8 2.2E-05 4.8E-10 68.7 3.9 45 1117-1165 2-46 (63)
35 KOG0802 E3 ubiquitin ligase [P 97.7 1.1E-05 2.3E-10 99.3 1.2 53 1112-1164 287-340 (543)
36 KOG1493 Anaphase-promoting com 97.7 8.2E-06 1.8E-10 74.2 -0.7 46 1117-1164 32-80 (84)
37 COG2846 Regulator of cell morp 97.6 0.00065 1.4E-08 72.5 12.2 132 45-176 79-217 (221)
38 COG3945 Uncharacterized conser 97.5 0.0012 2.6E-08 69.6 12.2 139 44-189 10-156 (189)
39 TIGR00599 rad18 DNA repair pro 97.5 7E-05 1.5E-09 88.2 3.4 47 1115-1165 25-71 (397)
40 KOG0317 Predicted E3 ubiquitin 97.5 5.4E-05 1.2E-09 84.4 2.3 46 1116-1165 239-284 (293)
41 KOG0823 Predicted E3 ubiquitin 97.4 7.9E-05 1.7E-09 81.0 3.1 50 1113-1166 44-96 (230)
42 TIGR00570 cdk7 CDK-activating 97.4 0.00012 2.5E-09 83.5 3.9 51 1116-1166 3-55 (309)
43 KOG1428 Inhibitor of type V ad 97.4 6.9E-05 1.5E-09 94.7 1.6 112 1029-1164 3417-3543(3738)
44 KOG2164 Predicted E3 ubiquitin 97.3 0.00013 2.8E-09 86.7 2.6 48 1115-1166 185-237 (513)
45 KOG0804 Cytoplasmic Zn-finger 97.2 0.00014 2.9E-09 85.1 2.4 47 1116-1164 175-221 (493)
46 KOG0287 Postreplication repair 97.2 0.00019 4.2E-09 81.0 2.7 46 1117-1166 24-69 (442)
47 KOG0828 Predicted E3 ubiquitin 97.2 0.00015 3.1E-09 85.2 1.5 50 1116-1165 571-634 (636)
48 KOG2930 SCF ubiquitin ligase, 97.1 0.0001 2.2E-09 70.8 -0.2 28 1136-1163 79-106 (114)
49 KOG2177 Predicted E3 ubiquitin 97.1 0.00024 5.1E-09 77.5 1.9 44 1115-1162 12-55 (386)
50 PF11793 FANCL_C: FANCL C-term 97.0 0.00021 4.6E-09 65.0 0.4 50 1116-1165 2-66 (70)
51 smart00744 RINGv The RING-vari 97.0 0.00051 1.1E-08 58.4 2.6 42 1118-1161 1-49 (49)
52 COG5574 PEX10 RING-finger-cont 96.7 0.00077 1.7E-08 74.7 2.1 46 1116-1165 215-262 (271)
53 KOG0827 Predicted E3 ubiquitin 96.7 0.0007 1.5E-08 77.9 1.6 46 1116-1162 4-53 (465)
54 KOG0825 PHD Zn-finger protein 96.6 0.00041 9E-09 84.9 -0.6 51 1115-1166 122-172 (1134)
55 KOG4172 Predicted E3 ubiquitin 96.4 0.0008 1.7E-08 57.9 0.2 51 1115-1169 6-58 (62)
56 KOG1039 Predicted E3 ubiquitin 96.4 0.0017 3.8E-08 75.4 2.3 85 1114-1200 159-256 (344)
57 KOG1734 Predicted RING-contain 96.3 0.00097 2.1E-08 73.7 0.1 50 1116-1165 224-281 (328)
58 KOG4265 Predicted E3 ubiquitin 96.3 0.0025 5.5E-08 73.4 3.1 51 1112-1166 286-337 (349)
59 KOG1940 Zn-finger protein [Gen 96.3 0.00047 1E-08 77.7 -2.9 133 690-854 17-149 (276)
60 PF04564 U-box: U-box domain; 96.2 0.0026 5.7E-08 58.2 2.4 47 1116-1166 4-51 (73)
61 COG5432 RAD18 RING-finger-cont 96.2 0.0022 4.8E-08 71.5 1.8 45 1116-1164 25-69 (391)
62 PF14835 zf-RING_6: zf-RING of 96.2 0.002 4.2E-08 57.7 1.1 56 1117-1178 8-65 (65)
63 KOG2879 Predicted E3 ubiquitin 95.6 0.0091 2E-07 66.7 3.3 51 1115-1168 238-290 (298)
64 COG2461 Uncharacterized conser 95.5 0.086 1.9E-06 61.9 11.0 132 291-441 85-223 (409)
65 KOG0311 Predicted E3 ubiquitin 95.4 0.0028 6E-08 72.7 -1.4 48 1116-1166 43-91 (381)
66 KOG0978 E3 ubiquitin ligase in 95.3 0.0058 1.3E-07 76.2 0.8 47 1117-1167 644-691 (698)
67 KOG1941 Acetylcholine receptor 95.1 0.0054 1.2E-07 70.8 -0.4 61 1107-1168 357-419 (518)
68 KOG1645 RING-finger-containing 94.9 0.017 3.8E-07 67.4 2.9 48 1116-1163 4-54 (463)
69 KOG4739 Uncharacterized protei 94.2 0.023 5E-07 62.8 1.8 37 1127-1165 12-48 (233)
70 KOG0824 Predicted E3 ubiquitin 94.1 0.028 6E-07 63.7 2.3 48 1114-1165 5-53 (324)
71 PF14570 zf-RING_4: RING/Ubox 93.9 0.043 9.2E-07 46.8 2.5 46 1119-1164 1-47 (48)
72 KOG1785 Tyrosine kinase negati 93.7 0.019 4.2E-07 66.5 0.2 53 1108-1164 361-415 (563)
73 KOG3039 Uncharacterized conser 93.7 0.048 1E-06 60.1 3.1 53 1113-1166 218-271 (303)
74 COG5219 Uncharacterized conser 93.6 0.027 5.8E-07 70.9 1.1 52 1113-1164 1466-1522(1525)
75 KOG2660 Locus-specific chromos 93.3 0.024 5.1E-07 65.0 -0.1 50 1114-1166 13-62 (331)
76 KOG3800 Predicted E3 ubiquitin 93.2 0.052 1.1E-06 61.3 2.4 48 1118-1165 2-51 (300)
77 PF11789 zf-Nse: Zinc-finger o 93.0 0.055 1.2E-06 47.7 1.8 42 1115-1159 10-53 (57)
78 KOG4445 Uncharacterized conser 92.8 0.036 7.8E-07 62.5 0.4 54 1112-1166 111-187 (368)
79 KOG2272 Focal adhesion protein 92.4 0.044 9.6E-07 60.5 0.5 108 989-1124 63-200 (332)
80 PF10367 Vps39_2: Vacuolar sor 92.2 0.055 1.2E-06 52.0 0.9 38 1109-1148 71-108 (109)
81 KOG1571 Predicted E3 ubiquitin 91.4 0.099 2.2E-06 60.8 1.9 48 1111-1165 300-347 (355)
82 KOG3970 Predicted E3 ubiquitin 91.2 0.17 3.6E-06 55.3 3.3 51 1114-1166 48-106 (299)
83 KOG3268 Predicted E3 ubiquitin 91.1 0.14 3E-06 54.1 2.5 30 1136-1165 188-228 (234)
84 COG5175 MOT2 Transcriptional r 91.1 0.085 1.8E-06 60.3 1.0 58 1116-1173 14-72 (480)
85 COG5152 Uncharacterized conser 90.5 0.12 2.6E-06 55.5 1.3 58 1117-1178 197-254 (259)
86 KOG0297 TNF receptor-associate 90.4 0.16 3.4E-06 60.8 2.4 54 1114-1170 19-72 (391)
87 KOG0309 Conserved WD40 repeat- 90.1 0.19 4.1E-06 62.5 2.7 48 1110-1159 1022-1069(1081)
88 KOG4275 Predicted E3 ubiquitin 90.0 0.061 1.3E-06 60.6 -1.4 49 1115-1171 299-348 (350)
89 KOG1002 Nucleotide excision re 89.8 0.11 2.4E-06 62.3 0.5 51 1111-1165 531-586 (791)
90 PF04641 Rtf2: Rtf2 RING-finge 89.4 0.26 5.6E-06 55.8 3.0 51 1113-1165 110-161 (260)
91 PF14447 Prok-RING_4: Prokaryo 89.3 0.15 3.2E-06 44.6 0.7 44 1116-1165 7-50 (55)
92 KOG1814 Predicted E3 ubiquitin 89.0 0.21 4.6E-06 58.8 2.0 53 1107-1161 176-236 (445)
93 KOG1813 Predicted E3 ubiquitin 88.9 0.19 4.1E-06 57.1 1.4 61 1116-1180 241-301 (313)
94 KOG4159 Predicted E3 ubiquitin 88.5 0.38 8.3E-06 57.5 3.7 49 1114-1166 82-130 (398)
95 COG2461 Uncharacterized conser 87.7 2.4 5.1E-05 50.4 9.3 137 41-191 85-222 (409)
96 PF05883 Baculo_RING: Baculovi 87.6 0.24 5.2E-06 50.7 1.1 38 1116-1154 26-69 (134)
97 KOG3002 Zn finger protein [Gen 87.5 0.45 9.8E-06 55.0 3.4 62 1116-1187 48-111 (299)
98 PF12906 RINGv: RING-variant d 87.1 0.36 7.9E-06 40.9 1.7 40 1119-1160 1-47 (47)
99 KOG1701 Focal adhesion adaptor 85.2 0.12 2.7E-06 61.0 -2.7 120 1060-1206 277-426 (468)
100 PF03854 zf-P11: P-11 zinc fin 84.8 0.29 6.3E-06 41.5 0.1 44 1117-1166 3-47 (50)
101 KOG3161 Predicted E3 ubiquitin 84.2 0.42 9E-06 58.9 1.0 43 1117-1162 12-54 (861)
102 KOG4692 Predicted E3 ubiquitin 83.0 0.73 1.6E-05 53.3 2.3 52 1111-1166 417-468 (489)
103 KOG2114 Vacuolar assembly/sort 82.9 0.63 1.4E-05 59.2 1.9 44 643-686 332-375 (933)
104 COG5236 Uncharacterized conser 82.3 1.2 2.6E-05 51.5 3.6 63 1096-1162 40-105 (493)
105 TIGR02481 hemeryth_dom hemeryt 79.7 6.4 0.00014 39.2 7.4 58 361-428 12-73 (126)
106 KOG4185 Predicted E3 ubiquitin 79.3 1.4 3.1E-05 50.3 3.0 47 1117-1164 4-54 (296)
107 PRK04023 DNA polymerase II lar 79.1 1.6 3.6E-05 56.7 3.7 45 1030-1080 627-671 (1121)
108 KOG2817 Predicted E3 ubiquitin 78.8 1.4 3E-05 52.2 2.7 45 1117-1162 335-382 (394)
109 COG5592 Uncharacterized conser 78.7 5.9 0.00013 42.0 6.9 110 681-827 30-148 (171)
110 PF08746 zf-RING-like: RING-li 78.7 1 2.2E-05 37.6 1.2 41 1119-1160 1-43 (43)
111 COG5222 Uncharacterized conser 78.1 1.3 2.8E-05 50.3 2.1 43 1117-1162 275-318 (427)
112 PRK14890 putative Zn-ribbon RN 76.0 2.1 4.5E-05 38.2 2.3 46 1028-1080 6-56 (59)
113 PF07191 zinc-ribbons_6: zinc- 75.6 0.3 6.4E-06 44.9 -3.0 62 1116-1205 1-62 (70)
114 KOG4443 Putative transcription 74.0 1.8 4E-05 53.9 2.1 70 1116-1190 145-225 (694)
115 PHA02862 5L protein; Provision 73.9 2.1 4.7E-05 44.4 2.2 56 1116-1177 2-64 (156)
116 COG5220 TFB3 Cdk activating ki 73.0 0.91 2E-05 50.3 -0.7 50 1116-1165 10-64 (314)
117 KOG0269 WD40 repeat-containing 72.8 3.2 7E-05 52.6 3.8 73 1070-1162 751-825 (839)
118 PF07800 DUF1644: Protein of u 71.8 4 8.6E-05 43.1 3.6 33 1116-1152 2-47 (162)
119 smart00132 LIM Zinc-binding do 71.3 2.6 5.6E-05 32.7 1.7 38 1118-1165 1-38 (39)
120 PHA02825 LAP/PHD finger-like p 70.4 3.2 7E-05 43.8 2.6 45 1115-1164 7-58 (162)
121 COG5592 Uncharacterized conser 70.2 24 0.00051 37.6 8.7 93 329-435 29-135 (171)
122 PF06524 NOA36: NOA36 protein; 69.9 2.2 4.8E-05 47.9 1.4 65 1005-1080 140-217 (314)
123 KOG2034 Vacuolar sorting prote 69.8 2.2 4.7E-05 55.0 1.4 43 1107-1151 808-850 (911)
124 PF01529 zf-DHHC: DHHC palmito 68.3 3.7 8.1E-05 42.9 2.6 47 1052-1104 43-89 (174)
125 PF14446 Prok-RING_1: Prokaryo 68.0 4.9 0.00011 35.4 2.8 37 1114-1150 3-39 (54)
126 TIGR00595 priA primosomal prot 67.3 3.8 8.3E-05 50.8 2.8 48 999-1052 214-261 (505)
127 TIGR02481 hemeryth_dom hemeryt 66.3 91 0.002 31.0 11.9 109 297-424 13-125 (126)
128 KOG0827 Predicted E3 ubiquitin 66.1 0.6 1.3E-05 54.7 -4.0 53 1114-1166 194-246 (465)
129 KOG0298 DEAD box-containing he 64.7 2.4 5.3E-05 56.4 0.5 51 1116-1169 1153-1203(1394)
130 PF02084 Bindin: Bindin; Inte 64.3 19 0.00041 40.1 7.0 45 72-127 124-169 (238)
131 KOG2462 C2H2-type Zn-finger pr 64.2 7.7 0.00017 44.3 4.2 15 1154-1168 215-229 (279)
132 PF09538 FYDLN_acid: Protein o 63.8 3.6 7.8E-05 41.0 1.4 17 1064-1080 18-34 (108)
133 KOG1001 Helicase-like transcri 61.6 3.5 7.6E-05 52.8 1.0 43 1117-1164 455-499 (674)
134 PRK00808 hypothetical protein; 60.9 28 0.00061 36.2 7.4 96 361-467 16-122 (150)
135 KOG2068 MOT2 transcription fac 59.0 6 0.00013 46.2 2.2 53 1114-1166 247-299 (327)
136 TIGR02300 FYDLN_acid conserved 58.2 5.4 0.00012 40.8 1.5 18 1064-1081 18-35 (129)
137 PRK05580 primosome assembly pr 58.1 6.7 0.00014 50.5 2.7 49 999-1053 382-430 (679)
138 COG5109 Uncharacterized conser 58.1 6.8 0.00015 45.3 2.4 44 1117-1161 337-383 (396)
139 PF05502 Dynactin_p62: Dynacti 58.1 6.6 0.00014 48.5 2.6 12 1053-1064 22-33 (483)
140 COG1198 PriA Primosomal protei 57.4 8 0.00017 50.0 3.2 54 999-1059 436-489 (730)
141 PRK14714 DNA polymerase II lar 56.9 9.4 0.0002 51.3 3.7 23 297-319 7-29 (1337)
142 PHA03096 p28-like protein; Pro 56.5 5.9 0.00013 45.7 1.7 46 1117-1162 179-231 (284)
143 COG2888 Predicted Zn-ribbon RN 56.4 7.4 0.00016 34.9 1.8 45 1029-1080 9-58 (61)
144 PF02891 zf-MIZ: MIZ/SP-RING z 55.1 8.9 0.00019 33.0 2.1 41 1117-1163 3-50 (50)
145 PRK14873 primosome assembly pr 54.2 8.1 0.00018 49.6 2.5 47 999-1052 384-430 (665)
146 KOG2066 Vacuolar assembly/sort 53.5 5.1 0.00011 51.2 0.5 88 405-496 393-485 (846)
147 KOG1952 Transcription factor N 53.4 7.4 0.00016 50.1 1.9 48 1115-1163 190-245 (950)
148 PF14357 DUF4404: Domain of un 53.3 92 0.002 29.9 8.8 82 54-139 2-83 (85)
149 KOG1812 Predicted E3 ubiquitin 53.0 5.7 0.00012 47.7 0.9 36 1116-1152 146-182 (384)
150 PF09538 FYDLN_acid: Protein o 52.9 7.7 0.00017 38.7 1.6 32 997-1042 8-39 (108)
151 KOG0826 Predicted E3 ubiquitin 52.6 10 0.00022 44.2 2.7 46 1116-1164 300-345 (357)
152 COG4888 Uncharacterized Zn rib 50.5 7 0.00015 38.4 0.8 32 1070-1101 20-56 (104)
153 PF07227 DUF1423: Protein of u 50.2 14 0.0003 44.9 3.4 31 920-952 21-51 (446)
154 cd00522 Hemerythrin Hemerythri 50.1 67 0.0014 31.8 7.7 51 361-428 14-68 (113)
155 PLN03086 PRLI-interacting fact 50.0 24 0.00053 44.4 5.5 12 1154-1165 504-515 (567)
156 PRK00808 hypothetical protein; 49.6 3.2E+02 0.007 28.4 13.0 110 297-428 17-130 (150)
157 cd00350 rubredoxin_like Rubred 49.6 12 0.00026 29.4 1.9 24 1057-1080 1-25 (33)
158 KOG2932 E3 ubiquitin ligase in 48.9 9.2 0.0002 44.2 1.6 30 1134-1165 105-134 (389)
159 PLN02189 cellulose synthase 48.9 13 0.00028 49.5 3.0 53 1112-1165 30-87 (1040)
160 PF04216 FdhE: Protein involve 48.4 3.9 8.5E-05 47.0 -1.4 50 1140-1201 197-246 (290)
161 PRK01917 cation-binding hemery 47.0 48 0.001 34.1 6.4 70 398-467 38-120 (139)
162 KOG4362 Transcriptional regula 46.6 9.3 0.0002 48.6 1.3 78 1115-1206 20-104 (684)
163 PLN02436 cellulose synthase A 45.7 15 0.00033 48.9 3.0 53 1111-1164 31-88 (1094)
164 PF05290 Baculo_IE-1: Baculovi 45.4 12 0.00025 38.7 1.6 49 1115-1167 79-134 (140)
165 PRK04023 DNA polymerase II lar 45.0 19 0.00041 47.7 3.6 48 1042-1101 626-673 (1121)
166 KOG0006 E3 ubiquitin-protein l 44.4 19 0.00042 41.7 3.2 76 1066-1151 169-254 (446)
167 KOG1100 Predicted E3 ubiquitin 44.4 11 0.00023 41.8 1.2 38 1119-1164 161-199 (207)
168 KOG4367 Predicted Zn-finger pr 42.5 9.7 0.00021 45.5 0.6 33 1115-1151 3-35 (699)
169 KOG3850 Predicted membrane pro 42.4 7.1E+02 0.015 30.4 15.3 129 301-445 262-396 (455)
170 PF06937 EURL: EURL protein; 41.4 17 0.00036 41.5 2.2 43 1113-1158 27-74 (285)
171 KOG1280 Uncharacterized conser 40.4 20 0.00044 42.2 2.6 26 1052-1080 60-87 (381)
172 PLN03086 PRLI-interacting fact 39.3 13 0.00029 46.6 1.1 31 1092-1125 479-513 (567)
173 PF07191 zinc-ribbons_6: zinc- 38.4 10 0.00022 35.2 -0.1 10 1055-1064 48-57 (70)
174 PLN02638 cellulose synthase A 37.9 23 0.00049 47.4 2.8 53 1111-1164 12-69 (1079)
175 PF14631 FancD2: Fanconi anaem 37.9 7.4E+02 0.016 35.3 17.0 99 127-228 192-306 (1426)
176 PF12773 DZR: Double zinc ribb 37.3 29 0.00062 29.3 2.5 16 1032-1047 1-17 (50)
177 COG0143 MetG Methionyl-tRNA sy 36.8 23 0.00049 44.7 2.5 45 1054-1104 123-168 (558)
178 PF13901 DUF4206: Domain of un 36.6 19 0.00042 39.5 1.7 31 1127-1162 167-197 (202)
179 KOG1829 Uncharacterized conser 35.1 13 0.00027 46.9 -0.0 29 989-1018 345-377 (580)
180 PF06220 zf-U1: U1 zinc finger 35.0 15 0.00032 30.1 0.4 13 1055-1067 1-13 (38)
181 PRK03564 formate dehydrogenase 34.7 14 0.00031 43.1 0.4 23 1140-1162 212-234 (309)
182 TIGR01562 FdhE formate dehydro 34.3 12 0.00025 43.8 -0.4 43 1116-1163 184-233 (305)
183 KOG1311 DHHC-type Zn-finger pr 34.1 32 0.00069 39.7 3.0 48 1051-1104 107-154 (299)
184 PRK00420 hypothetical protein; 34.0 22 0.00047 35.9 1.4 30 1115-1165 22-51 (112)
185 KOG1609 Protein involved in mR 33.9 17 0.00036 41.6 0.7 50 1116-1165 78-134 (323)
186 PRK14892 putative transcriptio 33.9 26 0.00056 34.6 1.9 31 1090-1125 20-51 (99)
187 PRK14559 putative protein seri 33.5 31 0.00067 44.3 3.0 17 1031-1047 3-20 (645)
188 PF00412 LIM: LIM domain; Int 33.1 15 0.00032 31.4 0.1 40 1119-1168 1-40 (58)
189 PRK00398 rpoP DNA-directed RNA 32.3 36 0.00079 28.5 2.3 8 1072-1079 21-28 (46)
190 KOG2807 RNA polymerase II tran 32.1 50 0.0011 38.8 4.0 47 1115-1162 329-375 (378)
191 KOG2593 Transcription initiati 32.0 20 0.00043 43.4 1.0 19 912-930 50-68 (436)
192 smart00734 ZnF_Rad18 Rad18-lik 32.0 29 0.00063 26.1 1.5 19 1156-1175 3-21 (26)
193 KOG2807 RNA polymerase II tran 31.7 16 0.00034 42.7 0.0 20 858-877 85-104 (378)
194 TIGR00373 conserved hypothetic 30.8 17 0.00037 38.5 0.1 22 1058-1079 110-135 (158)
195 PF03833 PolC_DP2: DNA polymer 30.7 17 0.00036 47.3 0.0 20 924-943 582-601 (900)
196 PRK06266 transcription initiat 29.6 19 0.00041 38.9 0.2 23 1057-1079 117-143 (178)
197 PRK07219 DNA topoisomerase I; 29.5 72 0.0016 42.3 5.4 63 1060-1127 672-744 (822)
198 TIGR02300 FYDLN_acid conserved 29.4 31 0.00067 35.5 1.7 32 997-1042 8-39 (129)
199 KOG0801 Predicted E3 ubiquitin 29.0 27 0.00059 37.1 1.2 30 1114-1144 175-204 (205)
200 KOG3362 Predicted BBOX Zn-fing 28.6 19 0.00041 37.6 -0.0 25 1056-1084 117-143 (156)
201 PF00539 Tat: Transactivating 28.4 56 0.0012 30.3 2.9 18 1072-1092 36-53 (68)
202 KOG4399 C2HC-type Zn-finger pr 28.3 14 0.00031 41.7 -1.0 94 989-1102 209-302 (325)
203 PLN02400 cellulose synthase 28.3 31 0.00067 46.3 1.8 53 1111-1164 31-88 (1085)
204 KOG3183 Predicted Zn-finger pr 28.2 31 0.00068 38.8 1.6 81 1092-1206 24-128 (250)
205 cd00729 rubredoxin_SM Rubredox 27.8 43 0.00094 26.7 1.9 24 1057-1080 2-26 (34)
206 PHA00626 hypothetical protein 27.6 47 0.001 29.7 2.2 30 1044-1080 2-31 (59)
207 KOG4399 C2HC-type Zn-finger pr 27.4 18 0.0004 40.9 -0.3 71 1052-1125 199-270 (325)
208 KOG4654 Uncharacterized conser 27.3 8.9E+02 0.019 26.9 12.4 55 43-103 41-99 (252)
209 TIGR00622 ssl1 transcription f 26.6 1.3E+02 0.0028 30.6 5.3 45 1116-1161 55-110 (112)
210 KOG4718 Non-SMC (structural ma 26.5 33 0.00072 38.0 1.4 41 1118-1161 183-223 (235)
211 PF08271 TF_Zn_Ribbon: TFIIB z 25.9 32 0.00068 28.5 0.9 10 1070-1079 17-26 (43)
212 KOG3842 Adaptor protein Pellin 25.7 45 0.00098 38.8 2.3 57 1110-1166 333-415 (429)
213 PF10235 Cript: Microtubule-as 25.5 40 0.00088 32.8 1.6 42 1116-1170 44-85 (90)
214 PRK14714 DNA polymerase II lar 24.7 63 0.0014 44.1 3.6 53 1028-1083 666-720 (1337)
215 PLN02195 cellulose synthase A 24.5 51 0.0011 43.9 2.7 50 1115-1165 5-59 (977)
216 PLN02915 cellulose synthase A 24.3 49 0.0011 44.3 2.6 50 1115-1165 14-68 (1044)
217 PF06377 Adipokin_hormo: Adipo 24.2 1.7E+02 0.0036 25.6 4.8 37 629-665 7-45 (48)
218 KOG1312 DHHC-type Zn-finger pr 24.1 25 0.00054 40.5 -0.1 33 1076-1112 149-181 (341)
219 COG1996 RPC10 DNA-directed RNA 23.9 42 0.00091 29.2 1.2 30 1054-1083 3-35 (49)
220 PF00301 Rubredoxin: Rubredoxi 23.9 51 0.0011 28.4 1.7 9 1057-1065 1-9 (47)
221 COG1198 PriA Primosomal protei 23.5 70 0.0015 41.8 3.6 44 1027-1079 433-482 (730)
222 PF01780 Ribosomal_L37ae: Ribo 23.4 29 0.00063 33.8 0.2 22 1073-1098 36-60 (90)
223 cd00522 Hemerythrin Hemerythri 22.7 4.1E+02 0.0089 26.3 8.2 61 117-195 14-78 (113)
224 PF05502 Dynactin_p62: Dynacti 22.6 64 0.0014 40.2 3.0 8 1007-1014 5-12 (483)
225 PRK10722 hypothetical protein; 22.6 5.2E+02 0.011 29.6 9.6 115 180-319 88-203 (247)
226 PF05129 Elf1: Transcription e 22.4 33 0.00071 32.6 0.4 32 1071-1102 21-57 (81)
227 smart00451 ZnF_U1 U1-like zinc 22.3 43 0.00093 25.8 0.9 11 1056-1066 2-12 (35)
228 KOG2272 Focal adhesion protein 22.3 47 0.001 37.6 1.6 92 993-1098 115-228 (332)
229 KOG3842 Adaptor protein Pellin 22.2 39 0.00085 39.3 1.0 47 1113-1162 287-349 (429)
230 PF09788 Tmemb_55A: Transmembr 21.7 72 0.0015 36.4 2.8 62 1088-1162 103-185 (256)
231 PF07227 DUF1423: Protein of u 21.7 65 0.0014 39.4 2.7 45 1118-1163 130-192 (446)
232 KOG1044 Actin-binding LIM Zn-f 21.6 55 0.0012 41.1 2.0 14 1134-1147 79-92 (670)
233 PF15353 HECA: Headcase protei 21.4 45 0.00099 33.3 1.1 16 1137-1152 39-54 (107)
234 COG5183 SSM4 Protein involved 21.3 35 0.00075 44.1 0.4 49 1115-1165 11-66 (1175)
235 PRK14559 putative protein seri 21.1 68 0.0015 41.4 2.8 18 1029-1047 15-32 (645)
236 PF13894 zf-C2H2_4: C2H2-type 21.1 39 0.00084 23.2 0.4 17 1155-1171 1-17 (24)
237 cd02341 ZZ_ZZZ3 Zinc finger, Z 20.6 56 0.0012 28.2 1.4 22 1073-1098 1-22 (48)
238 KOG1044 Actin-binding LIM Zn-f 20.2 1E+02 0.0022 38.9 3.9 93 1028-1129 41-146 (670)
239 PF13824 zf-Mss51: Zinc-finger 20.1 65 0.0014 28.7 1.7 12 1070-1081 12-23 (55)
240 smart00249 PHD PHD zinc finger 20.1 37 0.00081 27.0 0.2 41 1119-1160 2-47 (47)
241 TIGR00058 Hemerythrin hemeryth 20.0 4.5E+02 0.0098 26.2 7.9 96 361-467 10-110 (115)
No 1
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=100.00 E-value=2.6e-53 Score=463.85 Aligned_cols=225 Identities=47% Similarity=1.027 Sum_probs=215.4
Q ss_pred CCCCccccccccCCCccccccccccccccCCcccCcccccccCCCCcccccccccccccccccccCCCCCCCCCCCCccc
Q 000963 976 CSPSFRDAEKQVFGCEHYKRNCKLRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGLSM 1055 (1208)
Q Consensus 976 ~~~~~~~~~~~~~gC~HY~r~c~l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~~~C~~~~C~~~~~ 1055 (1208)
..+++.|+...++||+||+|+|++++|||+++|+|++||++..+|.++|+.+.+++|+.|.++||++++|.+ | +..+
T Consensus 21 ~~~~~~d~~~~~~~c~hy~r~~~~~a~ccd~~~~C~hCH~~s~~h~~~r~~v~~~~C~~C~~~q~~~~~c~~--c-~~~~ 97 (276)
T KOG1940|consen 21 IHSDAEDEIAFPYGCPHYRRNCKSRAPCCDREITCRHCHNESEDHDLDRKTVYELLCMKCRKIQPVGQICSN--C-HVEL 97 (276)
T ss_pred cccccccccccccCCchhhhccccccccccceeeeEEecChhhhcccchhhhhhhhhhhHHhhhhhhhcccc--c-hhhh
Confidence 346788999999999999999999999999999999999999999999999999999999999999999999 4 6679
Q ss_pred ceEecCcccCcCCC-CccccCCCCCccccCCCCCccccccCCccccccccc-cccccccCCcCCCccccccccccCCCce
Q 000963 1056 AKYYCGICKFFDDE-RVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKKL-VDHKCREKGLETNCPICCDFLFTSSATV 1133 (1208)
Q Consensus 1056 a~y~C~~C~l~d~~-k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~~~l-~~H~C~e~~~~~~CpICle~lf~s~~~v 1133 (1208)
++|||.+||+|||+ ..||||++|||||+|.++ +||||++|+.|+++.+ +.|+|+|++++.|||||.|+||++...+
T Consensus 98 g~~~c~~C~l~dd~~~~~~hC~~C~icr~g~~~--~~fhc~~c~~c~~~~~~~~H~c~e~~~~~ncPic~e~l~~s~~~~ 175 (276)
T KOG1940|consen 98 GEYYCLICKLFDDDPSKQYHCDLCGICREGLGL--DFFHCKKCKACLSAYLSNWHKCVERSSEFNCPICKEYLFLSFEDA 175 (276)
T ss_pred hhhcCcccccccccccceecccccccccccccc--chhHHhhhHhHHhhhcccccchhhhcccCCCchhHHHhccccccC
Confidence 99999999999988 599999999999999875 9999999999999999 5699999999999999999999999999
Q ss_pred eecCCCCcCChhhHHHHHhcCCCCCCCCcCccchhHhhhhcHHHHhhcCCcHHhhccccEEEcCCCCCcCccc
Q 000963 1134 RALPCGHFMHSDCFQAYTCSHYICPICSKSLGDMAVYFGMLDALLASEQLPEEYRDRCQVKILHIFKLLGSFK 1206 (1208)
Q Consensus 1134 ~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~m~~~~~~lD~~i~~~pmP~ey~~~~~~IlCndc~~~~~~~ 1206 (1208)
..++|||++|..||.++...+|+||+|.+ ++||..+|+++|.+|+.+|||++|++++++|+||||+..+.+|
T Consensus 176 ~~~~CgH~~h~~cf~e~~~~~y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p~~y~~~~~~i~cndC~~~~~~k 247 (276)
T KOG1940|consen 176 GVLKCGHYMHSRCFEEMICEGYTCPICSK-PGDMSHYFRKLDKELAGSPMPEEYKNKTQDILCNDCGSGTNVK 247 (276)
T ss_pred CccCcccchHHHHHHHHhccCCCCCcccc-hHHHHHHHHHHHHHHhcCCCCchhhchhheeeccCCCCCCccc
Confidence 99999999999999999988899999999 9999999999999999999999999999999999999988765
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=99.80 E-value=7e-21 Score=171.94 Aligned_cols=70 Identities=44% Similarity=1.197 Sum_probs=53.8
Q ss_pred Ccccccc-ccccccccCCcccCcccccccCCCCcccccccccccccccccccCCCCCCCCCCCCcccceEecCcccCcC
Q 000963 990 CEHYKRN-CKLRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKFFD 1067 (1208)
Q Consensus 990 C~HY~r~-c~l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~~~C~~~~C~~~~~a~y~C~~C~l~d 1067 (1208)
|+||+|+ |+|+||||++|||||+|||+.++|+++|+.+++|+||.|+++|++++. + | + |+|+|++|++||
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 999999999999999999999999999999999999999999999988 4 5 4 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=99.20 E-value=2.5e-10 Score=111.00 Aligned_cols=124 Identities=26% Similarity=0.366 Sum_probs=110.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhhhhccccchhhhhhhhh--------hhHH
Q 000963 293 PIDEIMLWHNAIKRELNDIAEAARKIQLSGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL--------SFAQ 364 (1208)
Q Consensus 293 pid~l~~~HkALRrEL~~L~~~a~~i~~~gd~~~L~~L~~r~~fl~~vl~~Hs~aEDevlFPaL~~r~--------~me~ 364 (1208)
+++.|...|+.||+.++.+...+... ++..++..+...+.+|...+..|+..||.++||.|..+. .+..
T Consensus 2 ~i~~l~~~H~~~~~~~~~l~~~~~~~---~~~~~~~~l~~~~~~l~~~l~~H~~~EE~~l~p~l~~~~~~~~~~~~~~~~ 78 (133)
T PF01814_consen 2 PIDELRRDHRALRRLLAELEEALDEL---PDDEDLRALRELLDELRRELRHHHAREEEYLFPALERRDPRGDALIAELRR 78 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHH-CCCHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhC---cCchhHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhccccchhhHHH
Confidence 78999999999999999999999987 455578999999999999999999999999999999332 8999
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 000963 365 EHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLA 425 (1208)
Q Consensus 365 EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPLl 425 (1208)
||..+...++.+...+...... ......+...+..+...+..|+.+||+.+||++
T Consensus 79 eH~~~~~~l~~l~~~~~~~~~~------~~~~~~~~~~~~~l~~~l~~H~~~Ee~~l~P~~ 133 (133)
T PF01814_consen 79 EHEEIRALLDELEEALARYSGD------EEDAEELREALRALAEWLRRHIAKEEEVLFPLL 133 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHTHGGGHHHH
T ss_pred HHHHHHHHHHHHHHHHhhCccc------cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 9999999999999999776511 255678889999999999999999999999986
No 4
>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=99.17 E-value=2.4e-10 Score=111.07 Aligned_cols=129 Identities=33% Similarity=0.412 Sum_probs=115.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHHHhhccccccchhhHHHh---hhhHHHHHH
Q 000963 43 PILIFLFFHKAIKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR---VKNIARTYS 119 (1208)
Q Consensus 43 Pi~~~~~~HkAlR~eL~~l~~~a~~~~~~~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI~PaLd~R---v~~v~~~~~ 119 (1208)
||+.+...|+.||+.+..+...+... ++......+...+.+|...+..|+..|++++||.|+.+ .++.+..+.
T Consensus 2 ~i~~l~~~H~~~~~~~~~l~~~~~~~----~~~~~~~~l~~~~~~l~~~l~~H~~~EE~~l~p~l~~~~~~~~~~~~~~~ 77 (133)
T PF01814_consen 2 PIDELRRDHRALRRLLAELEEALDEL----PDDEDLRALRELLDELRRELRHHHAREEEYLFPALERRDPRGDALIAELR 77 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH----CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHH-CCCHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhC----cCchhHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhccccchhhHH
Confidence 78899999999999999999998888 24556899999999999999999999999999999944 377889999
Q ss_pred hhhhhHHHHHHHHHHHHHhhhcCchhHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhH
Q 000963 120 LEHEGESVLFDQLFELLNSSMRNEESYRRELASCTGALQTSISQHMSKEEEQVFPLL 176 (1208)
Q Consensus 120 ~EH~~~~~lf~~L~~~l~~~~~~~~~~~~eLa~~l~~l~~~l~qHm~~EE~qv~PLl 176 (1208)
.||..+...++.+...+..+. ........+...+.++...+.+||.+||+.++|++
T Consensus 78 ~eH~~~~~~l~~l~~~~~~~~-~~~~~~~~~~~~~~~l~~~l~~H~~~Ee~~l~P~~ 133 (133)
T PF01814_consen 78 REHEEIRALLDELEEALARYS-GDEEDAEELREALRALAEWLRRHIAKEEEVLFPLL 133 (133)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHTHGGGHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhCc-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 999999999999999999997 33466778888888888899999999999999985
No 5
>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=99.03 E-value=6.6e-11 Score=97.19 Aligned_cols=44 Identities=34% Similarity=0.923 Sum_probs=37.6
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCC
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICS 1161 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCr 1161 (1208)
++||||++.+. ..+.+..++|||.||.+|+.+|++.+++||+||
T Consensus 1 d~C~IC~~~~~-~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFE-DGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHH-TTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhc-CCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 47999999944 466677899999999999999999999999997
No 6
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=98.97 E-value=1.1e-10 Score=102.56 Aligned_cols=43 Identities=30% Similarity=0.460 Sum_probs=12.5
Q ss_pred ccchhHhhhhcHHHHhhcCCcHHhhccccEEEcCCCCCcCccc
Q 000963 1164 LGDMAVYFGMLDALLASEQLPEEYRDRCQVKILHIFKLLGSFK 1206 (1208)
Q Consensus 1164 l~~m~~~~~~lD~~i~~~pmP~ey~~~~~~IlCndc~~~~~~~ 1206 (1208)
|.||+.+|++||++|+++|||++|++++++|+||||++.|.++
T Consensus 1 v~dM~~~w~~LD~~i~~~pmP~~Y~~~~v~IlCNDC~~~s~v~ 43 (61)
T PF14599_consen 1 VVDMSAYWRMLDAEIAATPMPEEYRNKKVWILCNDCNAKSEVP 43 (61)
T ss_dssp ---------------------------EEEEEESSS--EEEEE
T ss_pred CCCHHHHHHHHHHHHHhCCCCHHHhCCEEEEECCCCCCcccee
Confidence 5799999999999999999999999999999999999988765
No 7
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=98.92 E-value=1.3e-10 Score=108.58 Aligned_cols=57 Identities=30% Similarity=0.725 Sum_probs=50.2
Q ss_pred ccCCCcccccc---ccccccccCCcccCcccccccCCCCcccc-----cccccccccccccccCC
Q 000963 986 QVFGCEHYKRN---CKLRAACCGKLFTCRFCHDKVSDHSMDRK-----ATTEMMCMRCLKVQPVG 1042 (1208)
Q Consensus 986 ~~~gC~HY~r~---c~l~~~cC~k~y~Cr~CHde~~~H~~~r~-----~~~~~~C~~C~~~q~~~ 1042 (1208)
++++|.||+.. ++|+|.||+|||+|..|||+.++||+.++ ..+.|+||.|.++..++
T Consensus 11 ~etRC~Hyht~~Diialkc~~C~kyYaCy~CHdel~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~ 75 (105)
T COG4357 11 QETRCLHYHTPLDIIALKCKCCQKYYACYHCHDELEDHPFEPWGLQEFNPKAIICGVCRKLLTRA 75 (105)
T ss_pred ccceeeEecCccceEeeeechhhhhhhHHHHHhHHhcCCCccCChhhcCCccEEhhhhhhhhhHH
Confidence 57899999999 78999999999999999999999999864 34579999999877654
No 8
>PRK10992 iron-sulfur cluster repair di-iron protein; Provisional
Probab=98.78 E-value=6.8e-08 Score=105.63 Aligned_cols=132 Identities=18% Similarity=0.324 Sum_probs=106.8
Q ss_pred hHHHH-HHHHHHHHHHHHHHHHHHHhhcc-cC-CcccHHHHHHHHHHHHHHHHhhhhccccchhhhhhhhh---------
Q 000963 293 PIDEI-MLWHNAIKRELNDIAEAARKIQL-SG-DFSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL--------- 360 (1208)
Q Consensus 293 pid~l-~~~HkALRrEL~~L~~~a~~i~~-~g-d~~~L~~L~~r~~fl~~vl~~Hs~aEDevlFPaL~~r~--------- 360 (1208)
-||.+ ..-|..+|++|..|.+.+..+.. .| +...+..+..-+..|...+..|+..|++++||+|.+..
T Consensus 75 LidyI~~~~H~~~r~~lp~L~~l~~kv~~vhg~~~~~~~~~~~l~~~~~~el~~H~~kEE~~LFP~l~~~~~~~~~~pi~ 154 (220)
T PRK10992 75 LIDHIIVRYHDRHREQLPELILLATKVERVHGDKPDCPRGLAKYLTALHEELSSHMMKEEQILFPMIKQGMGSQAMGPIS 154 (220)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcccccccchHH
Confidence 35555 78899999999999999977642 23 34567888888999999999999999999999999631
Q ss_pred hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Q 000963 361 SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLARR 427 (1208)
Q Consensus 361 ~me~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPLl~~ 427 (1208)
.|..||+++...+.+|..++...... ......++.+-..+..+...|.+|..+||+.+||++..
T Consensus 155 vm~~EHd~~~~~l~~L~~lt~~~~~p---~~ac~~~~~l~~~l~~~~~dL~~HI~~EnniLFP~a~~ 218 (220)
T PRK10992 155 VMESEHDEAGELLEVIKHLTNNVTPP---PEACTTWRALYNGINELIDDLMEHIHLENNVLFPRALA 218 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCC---hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 89999999999999999888664211 11124577777888889999999999999999998864
No 9
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=8.4e-09 Score=116.09 Aligned_cols=57 Identities=32% Similarity=0.800 Sum_probs=48.9
Q ss_pred CCcCCCccccccccccCC---------CceeecCCCCcCChhhHHHHHhcCCCCCCCCcC-ccchhH
Q 000963 1113 KGLETNCPICCDFLFTSS---------ATVRALPCGHFMHSDCFQAYTCSHYICPICSKS-LGDMAV 1169 (1208)
Q Consensus 1113 ~~~~~~CpICle~lf~s~---------~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrks-l~~m~~ 1169 (1208)
...+..|.||+|+||.+. ...+.|||||.+|.+|++.|++...+|||||.+ ++|+..
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 456889999999988776 223569999999999999999999999999999 667765
No 10
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=1e-08 Score=117.29 Aligned_cols=49 Identities=27% Similarity=0.845 Sum_probs=44.4
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhcC-CCCCCCCcCccc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSH-YICPICSKSLGD 1166 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~-~~CPiCrksl~~ 1166 (1208)
..|+||+|+ |..++.+++|||+|.||..|+++|+... ..||+|+..+.+
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 599999999 9999999999999999999999998766 459999998864
No 11
>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=98.66 E-value=1.5e-07 Score=102.48 Aligned_cols=129 Identities=20% Similarity=0.309 Sum_probs=103.2
Q ss_pred HHHH-HHHHHHHHHHHHHHHHHHHhhcc--cCCcccHHHHHHHHHHHHHHHHhhhhccccchhhhhhhh-----------
Q 000963 294 IDEI-MLWHNAIKRELNDIAEAARKIQL--SGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVE----------- 359 (1208)
Q Consensus 294 id~l-~~~HkALRrEL~~L~~~a~~i~~--~gd~~~L~~L~~r~~fl~~vl~~Hs~aEDevlFPaL~~r----------- 359 (1208)
||.+ ...|..||++|..|...+.++.. ..+...+..+..-+..|...+..|+..|++++||+|...
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 4444 67899999999999998877642 233446788889999999999999999999999999741
Q ss_pred -h-hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 000963 360 -L-SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLA 425 (1208)
Q Consensus 360 -~-~me~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPLl 425 (1208)
+ .|..||+++...+.+|..++..... |......++.+...+..+...|.+|..+||+.+||.+
T Consensus 152 pi~~m~~EH~~~~~~l~~L~~l~~~~~~---p~~ac~~~~~~~~~l~~~~~~L~~HI~~En~iLFP~~ 216 (216)
T TIGR03652 152 PISVMESEHDEAGDLLKELRELTNDYTP---PEDACNTWRALYSGLEELEDDLHEHIHLENNILFPRA 216 (216)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHcCCCC---CcchhHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Confidence 1 7999999999999999988865321 1111245677778888899999999999999999963
No 12
>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=98.63 E-value=1.9e-08 Score=91.91 Aligned_cols=47 Identities=30% Similarity=0.757 Sum_probs=37.6
Q ss_pred cCCCccccccccccC---------CCceeecCCCCcCChhhHHHHHhcCCCCCCCC
Q 000963 1115 LETNCPICCDFLFTS---------SATVRALPCGHFMHSDCFQAYTCSHYICPICS 1161 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s---------~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCr 1161 (1208)
.+++|+||++.|.+. ..++...+|||.||..||.+|++.+.+||+||
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 366799999997433 24556679999999999999999999999997
No 13
>PRK10992 iron-sulfur cluster repair di-iron protein; Provisional
Probab=98.62 E-value=4.5e-07 Score=99.27 Aligned_cols=129 Identities=17% Similarity=0.222 Sum_probs=110.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc--CCCCcchHHHHHHHHHHHHHHHHHhhccccccchhhHHHh----hhhHHHHHHhhh
Q 000963 49 FFHKAIKSELDVLHRAAMAFAT--NLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR----VKNIARTYSLEH 122 (1208)
Q Consensus 49 ~~HkAlR~eL~~l~~~a~~~~~--~~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI~PaLd~R----v~~v~~~~~~EH 122 (1208)
.-|.-+|++|..|.+++..+.. + ++......+.+-++-|..-+..|+..|.+++||.|... ..+.+..|..||
T Consensus 82 ~~H~~~r~~lp~L~~l~~kv~~vhg-~~~~~~~~~~~l~~~~~~el~~H~~kEE~~LFP~l~~~~~~~~~~pi~vm~~EH 160 (220)
T PRK10992 82 RYHDRHREQLPELILLATKVERVHG-DKPDCPRGLAKYLTALHEELSSHMMKEEQILFPMIKQGMGSQAMGPISVMESEH 160 (220)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcccccccchHHHHHHHH
Confidence 6699999999999999988874 2 45567788888999999999999999999999999962 356789999999
Q ss_pred hhHHHHHHHHHHHHHhhhcCch--hHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhHhh
Q 000963 123 EGESVLFDQLFELLNSSMRNEE--SYRRELASCTGALQTSISQHMSKEEEQVFPLLIE 178 (1208)
Q Consensus 123 ~~~~~lf~~L~~~l~~~~~~~~--~~~~eLa~~l~~l~~~l~qHm~~EE~qv~PLl~~ 178 (1208)
.++..++..|..+.+......+ ..++.+...+..+...|.+|.++|+..+||.+.+
T Consensus 161 d~~~~~l~~L~~lt~~~~~p~~ac~~~~~l~~~l~~~~~dL~~HI~~EnniLFP~a~~ 218 (220)
T PRK10992 161 DEAGELLEVIKHLTNNVTPPPEACTTWRALYNGINELIDDLMEHIHLENNVLFPRALA 218 (220)
T ss_pred HHHHHHHHHHHHHHhcCCCChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 9999999999999988754333 5678888888888889999999999999998764
No 14
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.53 E-value=5.3e-08 Score=90.80 Aligned_cols=47 Identities=21% Similarity=0.514 Sum_probs=35.8
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhc---CCCCCCCCcCc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS---HYICPICSKSL 1164 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~---~~~CPiCrksl 1164 (1208)
+..||.|..+ ...-|++...|||.||.+||.+|+.+ +..||+||...
T Consensus 32 dg~Cp~Ck~P--gd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 32 DGCCPDCKFP--GDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred ccCCCCccCC--CCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 4567888754 33335566789999999999999974 47899999753
No 15
>COG3945 Uncharacterized conserved protein [Function unknown]
Probab=98.52 E-value=1.9e-06 Score=90.00 Aligned_cols=140 Identities=21% Similarity=0.284 Sum_probs=111.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhcccC--CcccHHHHHHHHHHHHHHHHhhhhccccchhhhhhhhh---------
Q 000963 292 CPIDEIMLWHNAIKRELNDIAEAARKIQLSG--DFSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL--------- 360 (1208)
Q Consensus 292 ~pid~l~~~HkALRrEL~~L~~~a~~i~~~g--d~~~L~~L~~r~~fl~~vl~~Hs~aEDevlFPaL~~r~--------- 360 (1208)
.-++.|+-.|+.|.+-|.-|+..+..+. .| +.+++..+.+-++-|++- +||..|+.++||-|..+.
T Consensus 8 ~~i~~lvEeH~yIlraL~iLr~~~~~~~-~g~i~y~~v~~iidFi~nfaDk--cHH~KEE~~LF~~m~~~g~~~~~~~i~ 84 (189)
T COG3945 8 DSIKLLVEEHTYILRALSILRKALDLIK-NGPIDYSDVKEIIDFIRNFADK--CHHGKEEKLLFNYMEHEGGPFEEGPIY 84 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccc-CCCCCHHHHHHHHHHHHHHHHh--ccchHHHHHHHHHHHHhCCCcccCcee
Confidence 3578889999999999999988887775 44 334555555555555554 578889999999999774
Q ss_pred hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhCCHHHHHHHHHh
Q 000963 361 SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLARRHFSPKRQRELLYQ 440 (1208)
Q Consensus 361 ~me~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPLl~~~fS~eEq~eL~~~ 440 (1208)
.|..||...-.++..|.+.+..+.+.+. +....++..+......+.+|..+|+.++||++.+.||.+ |.++..+
T Consensus 85 ~m~~EH~~~R~i~r~lee~~~~~kngd~-----~~~~~~i~~A~~y~~likrHIdkEdnvlfp~a~~~~s~e-~~~v~~e 158 (189)
T COG3945 85 VMTVEHGEGRYIIRDLEEAYERLKNGDE-----DSKDDVIDYAVAYLNLIKRHIDKEDNVLFPFAESTLSEE-LNEVNSE 158 (189)
T ss_pred eehhhhhhHHHHHHHHHHHHHHHHcccc-----chHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH-HHHHHHH
Confidence 8999999999999999999998875532 224556666777788999999999999999999999999 6666544
No 16
>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=98.47 E-value=1.4e-06 Score=95.12 Aligned_cols=127 Identities=24% Similarity=0.300 Sum_probs=106.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc-CCCCcchHHHHHHHHHHHHHHHHHhhccccccchhhHHH--hh------hhHHHHHH
Q 000963 49 FFHKAIKSELDVLHRAAMAFAT-NLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDI--RV------KNIARTYS 119 (1208)
Q Consensus 49 ~~HkAlR~eL~~l~~~a~~~~~-~~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI~PaLd~--Rv------~~v~~~~~ 119 (1208)
.-|..+|++|..|..++..+.. .-.+...+..+.+-++.|..-+..|+..|.+++||+|.. +. .+.+..|.
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 7799999999999998888774 114456778999999999999999999999999999984 21 22889999
Q ss_pred hhhhhHHHHHHHHHHHHHhhhcCch--hHHHHHHHHHHHHHHHHHHhHHHHHHHhhhh
Q 000963 120 LEHEGESVLFDQLFELLNSSMRNEE--SYRRELASCTGALQTSISQHMSKEEEQVFPL 175 (1208)
Q Consensus 120 ~EH~~~~~lf~~L~~~l~~~~~~~~--~~~~eLa~~l~~l~~~l~qHm~~EE~qv~PL 175 (1208)
.||.++...+++|...++......+ ..++.+...+.++...|.+|.++||..+||.
T Consensus 158 ~EH~~~~~~l~~L~~l~~~~~~p~~ac~~~~~~~~~l~~~~~~L~~HI~~En~iLFP~ 215 (216)
T TIGR03652 158 SEHDEAGDLLKELRELTNDYTPPEDACNTWRALYSGLEELEDDLHEHIHLENNILFPR 215 (216)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 9999999999999999987754332 5577777778888889999999999999995
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=98.42 E-value=2e-07 Score=74.73 Aligned_cols=44 Identities=34% Similarity=0.921 Sum_probs=37.1
Q ss_pred CccccccccccCCCceeecCCCCcCChhhHHHHHhc-CCCCCCCCcCc
Q 000963 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS-HYICPICSKSL 1164 (1208)
Q Consensus 1118 ~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~-~~~CPiCrksl 1164 (1208)
.|+||++.+ ..++...+|||.||..|+..|+.. ...||+|++.+
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 345666789999999999999987 78899999754
No 18
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.40 E-value=2e-07 Score=102.55 Aligned_cols=54 Identities=17% Similarity=0.549 Sum_probs=42.8
Q ss_pred CCcCCCccccccccccCCC----ceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1113 KGLETNCPICCDFLFTSSA----TVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1113 ~~~~~~CpICle~lf~s~~----~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
.+.+..||||+|.+..... -.+..+|||.||..|+.+|+..+.+||+||+.+..
T Consensus 171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 3456899999998664321 12345899999999999999999999999997763
No 19
>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=98.38 E-value=1.6e-07 Score=75.39 Aligned_cols=39 Identities=41% Similarity=0.974 Sum_probs=33.5
Q ss_pred ccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCC
Q 000963 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPIC 1160 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiC 1160 (1208)
||||++.+.+ +++.++|||.|+.+|+.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC---cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999997443 77889999999999999999889999998
No 20
>PRK13276 cell wall biosynthesis protein ScdA; Provisional
Probab=98.33 E-value=5.8e-06 Score=90.51 Aligned_cols=125 Identities=21% Similarity=0.253 Sum_probs=111.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc--CCCCcchHHHHHHHHHHHHHHHHHhhccccccchhhHHHh--------hhhHHHHH
Q 000963 49 FFHKAIKSELDVLHRAAMAFAT--NLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR--------VKNIARTY 118 (1208)
Q Consensus 49 ~~HkAlR~eL~~l~~~a~~~~~--~~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI~PaLd~R--------v~~v~~~~ 118 (1208)
..|.-+|++|..|..++..|.. + ++......|.+.|..|+.=+..|..-|.+++||.+... +.+.+..|
T Consensus 85 ~hH~~~r~~lp~l~~l~~kV~~VHg-~~~p~l~~l~~lf~~l~~eL~~H~~KEE~ilFP~i~~~~~~~~~~~~~~pI~~m 163 (224)
T PRK13276 85 AYHEPLREEFKNLTPYVTKLSKVHG-PNHPYLVELKETYDTFKNGMLEHMQKEDDVDFPKLIKYEQGEVVDDINTVIDDL 163 (224)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhccccchhhhhHHHHH
Confidence 7899999999999999999986 3 45668999999999999999999999999999999752 35578999
Q ss_pred HhhhhhHHHHHHHHHHHHHhhhcCch--hHHHHHHHHHHHHHHHHHHhHHHHHHHhhh
Q 000963 119 SLEHEGESVLFDQLFELLNSSMRNEE--SYRRELASCTGALQTSISQHMSKEEEQVFP 174 (1208)
Q Consensus 119 ~~EH~~~~~lf~~L~~~l~~~~~~~~--~~~~eLa~~l~~l~~~l~qHm~~EE~qv~P 174 (1208)
..||+++.+.+.+|.++.+-++...+ ..|+.|=.-+.++...|.+|.+.|-.-+||
T Consensus 164 ~~EH~~~g~~l~~i~~lTn~yt~P~~AC~t~r~ly~~L~~fe~dL~~HIhLENnILFP 221 (224)
T PRK13276 164 VSDHIATGQLLVKMSELTSSYEPPIEACGTWRLVYQRLKALEVLTHEHVHLENHVLFK 221 (224)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 99999999999999999998876554 778888888888888999999999999988
No 21
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=2.8e-07 Score=102.05 Aligned_cols=54 Identities=28% Similarity=0.698 Sum_probs=46.4
Q ss_pred ccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHh-cCCCCCCCCcCcc
Q 000963 1111 REKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC-SHYICPICSKSLG 1165 (1208)
Q Consensus 1111 ~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~-~~~~CPiCrksl~ 1165 (1208)
+|.....+|+|||++ |...+.++++||.|.||..|+++|+- .+..||+|+..+.
T Consensus 318 ~ea~~GveCaICms~-fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 318 VEADKGVECAICMSN-FIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred HhcCCCceEEEEhhh-hcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 344456899999999 67888899999999999999999987 6789999998765
No 22
>PRK13276 cell wall biosynthesis protein ScdA; Provisional
Probab=98.31 E-value=5.8e-06 Score=90.54 Aligned_cols=128 Identities=13% Similarity=0.167 Sum_probs=107.0
Q ss_pred HHH-HHHHHHHHHHHHHHHHHHHHhhcc--cCCcccHHHHHHHHHHHHHHHHhhhhccccchhhhhhhh-----------
Q 000963 294 IDE-IMLWHNAIKRELNDIAEAARKIQL--SGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVE----------- 359 (1208)
Q Consensus 294 id~-l~~~HkALRrEL~~L~~~a~~i~~--~gd~~~L~~L~~r~~fl~~vl~~Hs~aEDevlFPaL~~r----------- 359 (1208)
||. +...|..+|++|..|...+.++.. .++.+.+..+...+..+..-|..|-..|+.++||++.+.
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 443 367899999999999999988742 344557899999999999999999999999999999651
Q ss_pred --hhhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 000963 360 --LSFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPL 424 (1208)
Q Consensus 360 --~~me~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPL 424 (1208)
..|+.||+.+.+.+.+|++++..... |.++...|+.|=..+.++...|.+|.+.|-+.+||-
T Consensus 159 pI~~m~~EH~~~g~~l~~i~~lTn~yt~---P~~AC~t~r~ly~~L~~fe~dL~~HIhLENnILFPr 222 (224)
T PRK13276 159 VIDDLVSDHIATGQLLVKMSELTSSYEP---PIEACGTWRLVYQRLKALEVLTHEHVHLENHVLFKK 222 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCC---CcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC
Confidence 18999999999999999999876532 223356788888888999999999999999999993
No 23
>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=98.16 E-value=8.2e-07 Score=75.06 Aligned_cols=47 Identities=32% Similarity=0.844 Sum_probs=38.6
Q ss_pred CCCccccccccccCCCceeecCCCCc-CChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHF-MHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~-fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
+..|+||++. ...+.++||||. |+..|+..|.+...+||+||+.+.+
T Consensus 2 ~~~C~iC~~~----~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFEN----PRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSS----BSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCcc----CCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 4689999986 223677899999 9999999999999999999998753
No 24
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.14 E-value=6.6e-07 Score=73.41 Aligned_cols=38 Identities=39% Similarity=1.010 Sum_probs=27.3
Q ss_pred ccccccccccCCCceeecCCCCcCChhhHHHHHhcC----CCCCCC
Q 000963 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSH----YICPIC 1160 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~----~~CPiC 1160 (1208)
||||++++.. |+ .|+|||.|+..|+..|.+.. +.||+|
T Consensus 1 CpiC~~~~~~---Pv-~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PV-SLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EE-E-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---cc-ccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999998443 33 49999999999999987643 689998
No 25
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.08 E-value=2.3e-06 Score=70.71 Aligned_cols=44 Identities=30% Similarity=0.803 Sum_probs=37.8
Q ss_pred CccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCc
Q 000963 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSK 1162 (1208)
Q Consensus 1118 ~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrk 1162 (1208)
.|+||.+. |+...+..+++|||.|+..|+..+......||+|++
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 49999998 455666788999999999999998866789999986
No 26
>COG2846 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]
Probab=98.04 E-value=4.1e-05 Score=81.32 Aligned_cols=128 Identities=18% Similarity=0.313 Sum_probs=104.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcc-cCC-cccHHHHHHHHHHHHHHHHhhhhccccchhhhhhhhh---------hhH
Q 000963 295 DEIMLWHNAIKRELNDIAEAARKIQL-SGD-FSDLSAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL---------SFA 363 (1208)
Q Consensus 295 d~l~~~HkALRrEL~~L~~~a~~i~~-~gd-~~~L~~L~~r~~fl~~vl~~Hs~aEDevlFPaL~~r~---------~me 363 (1208)
.++...|+-.|.+|.+|-..+.++.. -|| ++-...|.+-+..|...|.-|-..|++++||++..-. .|+
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 45688999999999999999888732 344 3456888888999999999999999999999998432 999
Q ss_pred HhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 000963 364 QEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLA 425 (1208)
Q Consensus 364 ~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPLl 425 (1208)
.||++..++++.+..++..... |..+...++.|=.-+..+.+.+.+|++-|=..+||=+
T Consensus 159 ~EHde~g~~l~~lk~lT~n~tp---P~~AC~tWkalY~gl~~~~dDl~~HIHLENnvLFpr~ 217 (221)
T COG2846 159 SEHDEAGELLEVLKHLTNNYTP---PEEACGTWKALYNGLNEFIDDLMEHIHLENNVLFPRV 217 (221)
T ss_pred HHHHHHHHHHHHHHHHhcCCCC---ChHHHhHHHHHHHHHHHHHHHHHHHHHhhhccccchh
Confidence 9999999999999999876532 2222345677777788889999999999999999954
No 27
>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=98.03 E-value=2.6e-06 Score=68.79 Aligned_cols=39 Identities=38% Similarity=0.993 Sum_probs=33.0
Q ss_pred ccccccccccCCCceeecCCCCcCChhhHHHHHh--cCCCCCCC
Q 000963 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC--SHYICPIC 1160 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~--~~~~CPiC 1160 (1208)
||||++.+ ..++..++|||.|+..|+.+|++ ..+.||+|
T Consensus 1 C~iC~~~~---~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPF---EDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBC---SSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccc---cCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999973 23456899999999999999987 56789998
No 28
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.02 E-value=3.2e-06 Score=77.33 Aligned_cols=49 Identities=20% Similarity=0.425 Sum_probs=37.7
Q ss_pred CCCccccccccccCCC-ceeecCCCCcCChhhHHHHHhcCCCCCCCCcCc
Q 000963 1116 ETNCPICCDFLFTSSA-TVRALPCGHFMHSDCFQAYTCSHYICPICSKSL 1164 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~-~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl 1164 (1208)
.+.||-|...+-...+ ++.---|.|.||.+||..|+.+...||++++..
T Consensus 31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 3567777765533333 334468999999999999999999999999854
No 29
>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=98.01 E-value=3.6e-06 Score=65.08 Aligned_cols=38 Identities=37% Similarity=0.943 Sum_probs=32.4
Q ss_pred ccccccccccCCCceeecCCCCcCChhhHHHHHh-cCCCCCCC
Q 000963 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC-SHYICPIC 1160 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~-~~~~CPiC 1160 (1208)
|+||++. ......++|||.||..|++.|+. ...+||+|
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 33566789999999999999987 66789998
No 30
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=2.3e-06 Score=89.24 Aligned_cols=47 Identities=30% Similarity=0.710 Sum_probs=38.6
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
-.|||||+. +....+ +.-.|||.||++||+..++....||+|+|.|-
T Consensus 132 ~~CPiCl~~-~sek~~-vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 132 YKCPICLDS-VSEKVP-VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred cCCCceecc-hhhccc-cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 789999998 433222 33799999999999999999999999998543
No 31
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.96 E-value=6.6e-06 Score=87.71 Aligned_cols=54 Identities=26% Similarity=0.658 Sum_probs=40.8
Q ss_pred ccccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhc----------------CCCCCCCCcCccc
Q 000963 1109 KCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS----------------HYICPICSKSLGD 1166 (1208)
Q Consensus 1109 ~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~----------------~~~CPiCrksl~~ 1166 (1208)
+-++...+..||||++. + .+++ +.+|||.||..||.+|+.. ..+||+|+..+..
T Consensus 11 ~~~~~~~~~~CpICld~-~--~dPV-vT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 11 TLVDSGGDFDCNICLDQ-V--RDPV-VTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred eeccCCCccCCccCCCc-C--CCcE-EcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 33444557899999997 3 2344 4789999999999999742 3579999998853
No 32
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.90 E-value=5.9e-06 Score=68.28 Aligned_cols=39 Identities=38% Similarity=0.950 Sum_probs=23.3
Q ss_pred ccccccccccCCCceeecCCCCcCChhhHHHHHhc----CCCCC
Q 000963 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS----HYICP 1158 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~----~~~CP 1158 (1208)
||||.| +-+...+.++|+|||.|+.+|++++.+. ..+||
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 4454555677999999999999999873 35787
No 33
>PHA02926 zinc finger-like protein; Provisional
Probab=97.84 E-value=9.9e-06 Score=87.34 Aligned_cols=53 Identities=21% Similarity=0.540 Sum_probs=40.8
Q ss_pred CCcCCCccccccccccCC-----CceeecCCCCcCChhhHHHHHhcC------CCCCCCCcCcc
Q 000963 1113 KGLETNCPICCDFLFTSS-----ATVRALPCGHFMHSDCFQAYTCSH------YICPICSKSLG 1165 (1208)
Q Consensus 1113 ~~~~~~CpICle~lf~s~-----~~v~~LpCGH~fH~~Ci~~~~~~~------~~CPiCrksl~ 1165 (1208)
.+.+..|+||+|.++... ......+|+|.||..|+..|.+.. ..||+||....
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 455789999999876542 123446999999999999998742 45999998664
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=97.78 E-value=2.2e-05 Score=68.72 Aligned_cols=45 Identities=24% Similarity=0.434 Sum_probs=38.1
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
-.||||++.|-+ |+ .++|||.|...||.+|++.+.+||+|++.+.
T Consensus 2 ~~Cpi~~~~~~~---Pv-~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKD---PV-ILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCC---CE-ECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 469999997443 44 4799999999999999988899999998773
No 35
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=1.1e-05 Score=99.27 Aligned_cols=53 Identities=30% Similarity=0.702 Sum_probs=44.1
Q ss_pred cCCcCCCccccccccccCCC-ceeecCCCCcCChhhHHHHHhcCCCCCCCCcCc
Q 000963 1112 EKGLETNCPICCDFLFTSSA-TVRALPCGHFMHSDCFQAYTCSHYICPICSKSL 1164 (1208)
Q Consensus 1112 e~~~~~~CpICle~lf~s~~-~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl 1164 (1208)
....+..|+||.|.|+.... ....|+|||.||..|+..|++...+||+||..+
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 34457899999999987533 235699999999999999999999999999833
No 36
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=8.2e-06 Score=74.16 Aligned_cols=46 Identities=22% Similarity=0.478 Sum_probs=31.6
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhc---CCCCCCCCcCc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS---HYICPICSKSL 1164 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~---~~~CPiCrksl 1164 (1208)
..||-|.-+ ...-|.+.--|.|.||..||.+|+.. ...||+||...
T Consensus 32 g~Cp~Ck~P--gDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 32 GCCPDCKLP--GDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CcCCCCcCC--CCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 456666532 22333433479999999999999854 35799999753
No 37
>COG2846 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]
Probab=97.59 E-value=0.00065 Score=72.47 Aligned_cols=132 Identities=18% Similarity=0.239 Sum_probs=109.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcc-CCCCcchHHHHHHHHHHHHHHHHHhhccccccchhhHHHh----hhhHHHHHH
Q 000963 45 LIFLFFHKAIKSELDVLHRAAMAFAT-NLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIR----VKNIARTYS 119 (1208)
Q Consensus 45 ~~~~~~HkAlR~eL~~l~~~a~~~~~-~~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI~PaLd~R----v~~v~~~~~ 119 (1208)
.|..-+|.-.|.+|..|..+|..|.. -.+.+.-.+.|.+-+.-|..-+..|-.-|++++||.+..= +.+....|+
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 45668999999999999999998886 1145567888999999999999999999999999999743 256889999
Q ss_pred hhhhhHHHHHHHHHHHHHhhhcCch--hHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhH
Q 000963 120 LEHEGESVLFDQLFELLNSSMRNEE--SYRRELASCTGALQTSISQHMSKEEEQVFPLL 176 (1208)
Q Consensus 120 ~EH~~~~~lf~~L~~~l~~~~~~~~--~~~~eLa~~l~~l~~~l~qHm~~EE~qv~PLl 176 (1208)
.||+++..+++.+.+..+..+-..+ ..++.|=.-+.++.+.+.+|++-|---+||=+
T Consensus 159 ~EHde~g~~l~~lk~lT~n~tpP~~AC~tWkalY~gl~~~~dDl~~HIHLENnvLFpr~ 217 (221)
T COG2846 159 SEHDEAGELLEVLKHLTNNYTPPEEACGTWKALYNGLNEFIDDLMEHIHLENNVLFPRV 217 (221)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCChHHHhHHHHHHHHHHHHHHHHHHHHHhhhccccchh
Confidence 9999999999999999988865544 55666666666666699999999988888754
No 38
>COG3945 Uncharacterized conserved protein [Function unknown]
Probab=97.47 E-value=0.0012 Score=69.57 Aligned_cols=139 Identities=18% Similarity=0.235 Sum_probs=109.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHHHhhccccccchhhHHHhh----hhHHHHHH
Q 000963 44 ILIFLFFHKAIKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIRV----KNIARTYS 119 (1208)
Q Consensus 44 i~~~~~~HkAlR~eL~~l~~~a~~~~~~~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI~PaLd~Rv----~~v~~~~~ 119 (1208)
|..|+==|+-|-|-|.-|....--+..+-=|.+++..+++-++-+.+ ++||.-|+.++||-+..+. ++....|.
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 56777789999998888877776666511245566666655555444 5688999999999999886 57899999
Q ss_pred hhhhhHHHHHHHHHHHHHhhhcCch----hHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhHhhcCCHHHHHHHH
Q 000963 120 LEHEGESVLFDQLFELLNSSMRNEE----SYRRELASCTGALQTSISQHMSKEEEQVFPLLIEKFSFEEQASLV 189 (1208)
Q Consensus 120 ~EH~~~~~lf~~L~~~l~~~~~~~~----~~~~eLa~~l~~l~~~l~qHm~~EE~qv~PLl~~~fS~~E~a~L~ 189 (1208)
-||..--.++..+.+.+.+|.-.++ .+...+++.+. .+.+|.++|+..+||.+.+.||.+ |..+.
T Consensus 88 ~EH~~~R~i~r~lee~~~~~kngd~~~~~~~i~~A~~y~~----likrHIdkEdnvlfp~a~~~~s~e-~~~v~ 156 (189)
T COG3945 88 VEHGEGRYIIRDLEEAYERLKNGDEDSKDDVIDYAVAYLN----LIKRHIDKEDNVLFPFAESTLSEE-LNEVN 156 (189)
T ss_pred hhhhhHHHHHHHHHHHHHHHHccccchHHHHHHHHHHHHH----HHHHHHhhhhhHHHHHHHHHHHHH-HHHHH
Confidence 9999999999999999999975544 45555555665 999999999999999999999999 55544
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=97.46 E-value=7e-05 Score=88.25 Aligned_cols=47 Identities=28% Similarity=0.585 Sum_probs=39.4
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
....|+||++.+.. ++ +++|||.||..|+..|+.....||+|+..+.
T Consensus 25 ~~l~C~IC~d~~~~---Pv-itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 25 TSLRCHICKDFFDV---PV-LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred cccCCCcCchhhhC---cc-CCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 35789999997432 33 5899999999999999988889999999775
No 40
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=5.4e-05 Score=84.43 Aligned_cols=46 Identities=24% Similarity=0.709 Sum_probs=38.5
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
...|.+|+|....+ ...||||.||-.||..|.....-||+||....
T Consensus 239 ~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 239 TRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CCceEEEecCCCCC----CcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 35699999975443 34899999999999999999889999998654
No 41
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.44 E-value=7.9e-05 Score=81.03 Aligned_cols=50 Identities=26% Similarity=0.618 Sum_probs=39.2
Q ss_pred CCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcC---CCCCCCCcCccc
Q 000963 1113 KGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSH---YICPICSKSLGD 1166 (1208)
Q Consensus 1113 ~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~---~~CPiCrksl~~ 1166 (1208)
.+..-+|-||+|- ..+||+ -.|||.||-.||.+|+..+ ..||+|+-.|..
T Consensus 44 ~~~~FdCNICLd~---akdPVv-TlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDL---AKDPVV-TLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeeccc---cCCCEE-eecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 3456789999985 566666 4599999999999998753 458999987754
No 42
>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=97.39 E-value=0.00012 Score=83.45 Aligned_cols=51 Identities=22% Similarity=0.523 Sum_probs=38.5
Q ss_pred CCCccccccccccCCCce-eecCCCCcCChhhHHHHH-hcCCCCCCCCcCccc
Q 000963 1116 ETNCPICCDFLFTSSATV-RALPCGHFMHSDCFQAYT-CSHYICPICSKSLGD 1166 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v-~~LpCGH~fH~~Ci~~~~-~~~~~CPiCrksl~~ 1166 (1208)
+..||||+.+.+.+..-. .+.+|||.||..|++..+ .....||+|++++..
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 467999999766554422 223899999999999955 556789999997753
No 43
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.35 E-value=6.9e-05 Score=94.75 Aligned_cols=112 Identities=27% Similarity=0.571 Sum_probs=75.5
Q ss_pred cccccccccc-----ccCCCCCCCCCCCCcccceEecCcccCcCCCCccccCCCCCccccCCCCCccccccCCccccccc
Q 000963 1029 EMMCMRCLKV-----QPVGPVCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAK 1103 (1208)
Q Consensus 1029 ~~~C~~C~~~-----q~~~~~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~~ 1103 (1208)
.-.|.+|+.. |.++.+|....| ...|+--|++-+-... .|| | . ++--||.-|=.|-.-
T Consensus 3417 ~~aCRFCGs~~~tE~sav~~vCs~aDC--~eYAK~ACs~~H~C~H--------~CG----G--v-kNEE~CLPCl~Cdks 3479 (3738)
T KOG1428|consen 3417 SEACRFCGSRSGTELSAVGSVCSDADC--QEYAKIACSKTHPCGH--------PCG----G--V-KNEEHCLPCLHCDKS 3479 (3738)
T ss_pred hhHhhhccCCCCcchhcccCccccHHH--HHHHHHHHhccCcCCC--------ccc----C--c-cchhhcccccccChh
Confidence 4478888744 567889998888 5678877865332211 233 1 1 255666666555321
Q ss_pred cccccccccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcC----------CCCCCCCcCc
Q 000963 1104 KLVDHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSH----------YICPICSKSL 1164 (1208)
Q Consensus 1104 ~l~~H~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~----------~~CPiCrksl 1164 (1208)
. .....++.|.||.-+ --+..|...|.|||.||.+|-...+..+ ..||||...+
T Consensus 3480 ~------tkQD~DDmCmICFTE-~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3480 A------TKQDADDMCMICFTE-ALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred h------hhcccCceEEEEehh-hhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 1 123457899999877 4466788889999999999999876542 4699999866
No 44
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.27 E-value=0.00013 Score=86.72 Aligned_cols=48 Identities=33% Similarity=0.762 Sum_probs=37.6
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcC-----CCCCCCCcCccc
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSH-----YICPICSKSLGD 1166 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~-----~~CPiCrksl~~ 1166 (1208)
++..||||+++ ...+++ +.|||.||-.||-+|+... ..||+|+..+.-
T Consensus 185 t~~~CPICL~~---~~~p~~-t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 185 TDMQCPICLEP---PSVPVR-TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred cCCcCCcccCC---CCcccc-cccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 37899999987 444444 4599999999999987543 569999987753
No 45
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.25 E-value=0.00014 Score=85.06 Aligned_cols=47 Identities=23% Similarity=0.689 Sum_probs=41.5
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSL 1164 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl 1164 (1208)
--.||||+|.|-.+.+.+....|.|.||-.|+..|. ..+||+||...
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q 221 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQ 221 (493)
T ss_pred CCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhc
Confidence 457999999999999988888999999999999995 56899999543
No 46
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.18 E-value=0.00019 Score=81.04 Aligned_cols=46 Identities=26% Similarity=0.717 Sum_probs=38.9
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
..|-||.|| |. ..++.||||.||.-||..|+..+..||.|...+..
T Consensus 24 LRC~IC~ey-f~---ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 24 LRCGICFEY-FN---IPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHhHHHHH-hc---CceeccccchHHHHHHHHHhccCCCCCceecccch
Confidence 469999998 43 23457999999999999999999999999997753
No 47
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.16 E-value=0.00015 Score=85.23 Aligned_cols=50 Identities=26% Similarity=0.633 Sum_probs=37.2
Q ss_pred CCCccccccccc----c---------CCCceeecCCCCcCChhhHHHHHh-cCCCCCCCCcCcc
Q 000963 1116 ETNCPICCDFLF----T---------SSATVRALPCGHFMHSDCFQAYTC-SHYICPICSKSLG 1165 (1208)
Q Consensus 1116 ~~~CpICle~lf----~---------s~~~v~~LpCGH~fH~~Ci~~~~~-~~~~CPiCrksl~ 1165 (1208)
..+|+|||.++- + -+..+++-||.|.||+.|+.+|+. .+..||+||..+.
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 357888887651 1 111345569999999999999998 5668999998765
No 48
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.12 E-value=0.0001 Score=70.78 Aligned_cols=28 Identities=25% Similarity=0.637 Sum_probs=26.4
Q ss_pred cCCCCcCChhhHHHHHhcCCCCCCCCcC
Q 000963 1136 LPCGHFMHSDCFQAYTCSHYICPICSKS 1163 (1208)
Q Consensus 1136 LpCGH~fH~~Ci~~~~~~~~~CPiCrks 1163 (1208)
.-|.|.||..||..|++++..||+|.+.
T Consensus 79 G~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 79 GVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 5899999999999999999999999984
No 49
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.06 E-value=0.00024 Score=77.55 Aligned_cols=44 Identities=32% Similarity=0.788 Sum_probs=37.1
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCc
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSK 1162 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrk 1162 (1208)
.+..||||++++... +.+||||.|+..|+..++.....||.|+.
T Consensus 12 ~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 467899999984433 67999999999999998776789999994
No 50
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=96.96 E-value=0.00021 Score=65.04 Aligned_cols=50 Identities=26% Similarity=0.603 Sum_probs=23.3
Q ss_pred CCCccccccccc-cCCCceeec---CCCCcCChhhHHHHHhc----C-------CCCCCCCcCcc
Q 000963 1116 ETNCPICCDFLF-TSSATVRAL---PCGHFMHSDCFQAYTCS----H-------YICPICSKSLG 1165 (1208)
Q Consensus 1116 ~~~CpICle~lf-~s~~~v~~L---pCGH~fH~~Ci~~~~~~----~-------~~CPiCrksl~ 1165 (1208)
+..|+||..++. ....+..+- .|+..||..|+.+|+.. + .+||.|++.|.
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 468999999876 333444442 79999999999999752 1 35999998764
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=96.96 E-value=0.00051 Score=58.41 Aligned_cols=42 Identities=26% Similarity=0.736 Sum_probs=32.3
Q ss_pred CccccccccccCCCceeecCCC-----CcCChhhHHHHHhc--CCCCCCCC
Q 000963 1118 NCPICCDFLFTSSATVRALPCG-----HFMHSDCFQAYTCS--HYICPICS 1161 (1208)
Q Consensus 1118 ~CpICle~lf~s~~~v~~LpCG-----H~fH~~Ci~~~~~~--~~~CPiCr 1161 (1208)
.|-||++ +.......+.||. |++|..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~--~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD--EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC--CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3889998 2334445578995 99999999999854 45899996
No 52
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.69 E-value=0.00077 Score=74.68 Aligned_cols=46 Identities=26% Similarity=0.709 Sum_probs=37.8
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHH-HHhcCCC-CCCCCcCcc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQA-YTCSHYI-CPICSKSLG 1165 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~-~~~~~~~-CPiCrksl~ 1165 (1208)
+-.|+||+|..... ...+|||.||-.|+-. |++..+- ||+||.-+.
T Consensus 215 d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 215 DYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 56799999975443 3489999999999999 9988876 999997554
No 53
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.67 E-value=0.0007 Score=77.94 Aligned_cols=46 Identities=26% Similarity=0.642 Sum_probs=37.3
Q ss_pred CCCccccccccccCCCceeec-CCCCcCChhhHHHHHhc---CCCCCCCCc
Q 000963 1116 ETNCPICCDFLFTSSATVRAL-PCGHFMHSDCFQAYTCS---HYICPICSK 1162 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~L-pCGH~fH~~Ci~~~~~~---~~~CPiCrk 1162 (1208)
.-.|.|| +++|.....+... .|||.||..|+.+|... +..||||+-
T Consensus 4 ~A~C~Ic-~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 4 MAECHIC-IDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred cceeeEe-ccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence 3569999 6678877777665 59999999999999875 358999993
No 54
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.62 E-value=0.00041 Score=84.90 Aligned_cols=51 Identities=18% Similarity=0.524 Sum_probs=40.9
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
....||+|+.. |.........+|+|+||..||..|.+...+||+|++.+..
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 36789999976 4333333447999999999999999999999999997653
No 55
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.45 E-value=0.0008 Score=57.90 Aligned_cols=51 Identities=29% Similarity=0.663 Sum_probs=37.7
Q ss_pred cCCCccccccccccCCCceeecCCCCc-CChhhHHHHH-hcCCCCCCCCcCccchhH
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHF-MHSDCFQAYT-CSHYICPICSKSLGDMAV 1169 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~-fH~~Ci~~~~-~~~~~CPiCrksl~~m~~ 1169 (1208)
....|.||+|. ..+.|. --|||. |+-.|-.... ..+..|||||.++.+.-.
T Consensus 6 ~~dECTICye~---pvdsVl-YtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dvIk 58 (62)
T KOG4172|consen 6 WSDECTICYEH---PVDSVL-YTCGHMCMCYACGLRLKKALHGCCPICRAPIKDVIK 58 (62)
T ss_pred cccceeeeccC---cchHHH-HHcchHHhHHHHHHHHHHccCCcCcchhhHHHHHHH
Confidence 35789999987 333333 469997 8888876644 478999999998877543
No 56
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.36 E-value=0.0017 Score=75.43 Aligned_cols=85 Identities=19% Similarity=0.413 Sum_probs=59.8
Q ss_pred CcCCCccccccccccCC---Cceee-cCCCCcCChhhHHHHHh--c-----CCCCCCCCcCcc--chhHhhhhcHHHHhh
Q 000963 1114 GLETNCPICCDFLFTSS---ATVRA-LPCGHFMHSDCFQAYTC--S-----HYICPICSKSLG--DMAVYFGMLDALLAS 1180 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~---~~v~~-LpCGH~fH~~Ci~~~~~--~-----~~~CPiCrksl~--~m~~~~~~lD~~i~~ 1180 (1208)
+.+..|-||+|.+.... ..-.+ ++|.|.|+..||..|-. . ...||+||...- ..+.+|-.-.. +.
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 56789999999876554 10122 57999999999999973 3 467999998664 33334543333 67
Q ss_pred cCCcHHhhccccEEEcCCCC
Q 000963 1181 EQLPEEYRDRCQVKILHIFK 1200 (1208)
Q Consensus 1181 ~pmP~ey~~~~~~IlCndc~ 1200 (1208)
++++++|+...-...|+.-+
T Consensus 237 ~~li~e~~~~~s~~~c~yf~ 256 (344)
T KOG1039|consen 237 QKLIEEYEAEMSAKDCKYFS 256 (344)
T ss_pred cccHHHHHHHhhccchhhhc
Confidence 88899998777667776544
No 57
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.34 E-value=0.00097 Score=73.73 Aligned_cols=50 Identities=22% Similarity=0.638 Sum_probs=39.5
Q ss_pred CCCccccccccccCCC------ceeecCCCCcCChhhHHHHH--hcCCCCCCCCcCcc
Q 000963 1116 ETNCPICCDFLFTSSA------TVRALPCGHFMHSDCFQAYT--CSHYICPICSKSLG 1165 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~------~v~~LpCGH~fH~~Ci~~~~--~~~~~CPiCrksl~ 1165 (1208)
++.|+||...++.+.+ ..-.|.|+|.||.-||+-|- -...+||-|++.+.
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 5778899888766651 34569999999999999994 45689999998653
No 58
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.30 E-value=0.0025 Score=73.38 Aligned_cols=51 Identities=29% Similarity=0.674 Sum_probs=41.5
Q ss_pred cCCcCCCccccccccccCCCceeecCCCCc-CChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1112 EKGLETNCPICCDFLFTSSATVRALPCGHF-MHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1112 e~~~~~~CpICle~lf~s~~~v~~LpCGH~-fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
++.....|.||+.+ ++ .+.+|||-|. +|+.|.+...-....|||||..+..
T Consensus 286 ~~~~gkeCVIClse---~r-dt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 286 ESESGKECVICLSE---SR-DTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cccCCCeeEEEecC---Cc-ceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 33446789999976 44 4677999998 9999999988778899999987753
No 59
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.27 E-value=0.00047 Score=77.65 Aligned_cols=133 Identities=17% Similarity=0.114 Sum_probs=97.1
Q ss_pred HHHHHhhhcccccccccccccccccccCcccchhhHHHHHHHHHHHHHHHhhhhhhhhccccccCccccccccccchhhh
Q 000963 690 GLYRAHSNAEDDIVFPALESKETLSNVSHSYTLDHKQEEKLFEDISSALSELTELHECLSTDLTGDLTRNSLESCDQNET 769 (1208)
Q Consensus 690 ~v~~~HS~AEDeivfPaLe~k~~~~nvs~s~~~DH~~ee~lfe~i~~~L~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 769 (1208)
.++..|+.++|++-||+..+.....+..+++..||.-.=.+.++.+.... . .+
T Consensus 17 ~~~~~~~~~~d~~~~~~~c~hy~r~~~~~a~ccd~~~~C~hCH~~s~~h~--------------------------~-~r 69 (276)
T KOG1940|consen 17 ALSSIHSDAEDEIAFPYGCPHYRRNCKSRAPCCDREITCRHCHNESEDHD--------------------------L-DR 69 (276)
T ss_pred hhhhcccccccccccccCCchhhhccccccccccceeeeEEecChhhhcc--------------------------c-ch
Confidence 78999999999999999999887777777777777666665555422110 0 11
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhcCCHHHHHHHHHHHHhccCHHHHHHhHhHHhhcCCHHHHHH
Q 000963 770 VRKYNEKATELQGMCKSIRVTLDQHVFREELELWPLFDRHFSVEEQDKIVGRIIGTTGAEVLQSMLPWVTSALTQEEQNT 849 (1208)
Q Consensus 770 ~~~~~e~~~kL~~~~~sl~~~L~~H~~~EE~Ev~PL~~k~fS~eeQ~~lv~~~l~~~p~~~L~~~LPWl~~~LteeE~~~ 849 (1208)
..++.-++.+.....++..+.+..|.. +.+.|=++.+.|.+++| +++.-+.+.+--+.++. |||.-.....+..+
T Consensus 70 ~~v~~~~C~~C~~~q~~~~~c~~c~~~--~g~~~c~~C~l~dd~~~-~~~hC~~C~icr~g~~~--~~fhc~~c~~c~~~ 144 (276)
T KOG1940|consen 70 KTVYELLCMKCRKIQPVGQICSNCHVE--LGEYYCLICKLFDDDPS-KQYHCDLCGICREGLGL--DFFHCKKCKACLSA 144 (276)
T ss_pred hhhhhhhhhhHHhhhhhhhccccchhh--hhhhcCccccccccccc-ceecccccccccccccc--chhHHhhhHhHHhh
Confidence 223334555555555666688888888 99999999999999999 88888877665444443 99998887777776
Q ss_pred HHHHh
Q 000963 850 MMDTW 854 (1208)
Q Consensus 850 ml~~~ 854 (1208)
-|.+|
T Consensus 145 ~~~~~ 149 (276)
T KOG1940|consen 145 YLSNW 149 (276)
T ss_pred hcccc
Confidence 66665
No 60
>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=96.24 E-value=0.0026 Score=58.22 Aligned_cols=47 Identities=23% Similarity=0.419 Sum_probs=35.0
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhc-CCCCCCCCcCccc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS-HYICPICSKSLGD 1166 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~-~~~CPiCrksl~~ 1166 (1208)
+-.|||+.+-|.+ || ++||||+|-+.||..|+.. +.+||+|+..+..
T Consensus 4 ~f~CpIt~~lM~d---PV-i~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 4 EFLCPITGELMRD---PV-ILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGB-TTTSSB-SS---EE-EETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred ccCCcCcCcHhhC---ce-eCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 4579999986443 44 4899999999999999987 8999999987764
No 61
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=96.18 E-value=0.0022 Score=71.46 Aligned_cols=45 Identities=24% Similarity=0.532 Sum_probs=37.4
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSL 1164 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl 1164 (1208)
-..|-||.++|.-. ...+|||.||.-||..++..+..||+|+...
T Consensus 25 ~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 25 MLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred HHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccH
Confidence 45799999984322 3469999999999999999999999999854
No 62
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.17 E-value=0.002 Score=57.65 Aligned_cols=56 Identities=29% Similarity=0.585 Sum_probs=26.6
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc--chhHhhhhcHHHH
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG--DMAVYFGMLDALL 1178 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~--~m~~~~~~lD~~i 1178 (1208)
..|++|.+.|. .||....|.|.|++.|+...+. +.||+|+.+.- |+. ..+.||..|
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 46999998744 3677779999999999977543 56999999874 332 245555543
No 63
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.57 E-value=0.0091 Score=66.67 Aligned_cols=51 Identities=22% Similarity=0.643 Sum_probs=43.2
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHHh--cCCCCCCCCcCccchh
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC--SHYICPICSKSLGDMA 1168 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~--~~~~CPiCrksl~~m~ 1168 (1208)
....||+|.++ ++.|.+..+|||.+|--|+..-.. .+++||.|+..+..|.
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 46789999997 788888899999999999988543 4689999999887665
No 64
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=95.52 E-value=0.086 Score=61.88 Aligned_cols=132 Identities=14% Similarity=0.208 Sum_probs=102.9
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHhhcccCCcccH-HHHHHHHHHHHHHHHhhhhccccchhhhhhhhh------hhH
Q 000963 291 SCPIDEIMLWHNAIKRELNDIAEAARKIQLSGDFSDL-SAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL------SFA 363 (1208)
Q Consensus 291 ~~pid~l~~~HkALRrEL~~L~~~a~~i~~~gd~~~L-~~L~~r~~fl~~vl~~Hs~aEDevlFPaL~~r~------~me 363 (1208)
-+|+..|+..-+++|..|+.+.+. .. + ..+ -.+...+.++-.+=+ |=+++...|||.++.|- .|-
T Consensus 85 gHPv~tl~~EN~~i~~ll~~~l~~---~~---~-~~ik~~l~~lv~~L~~vg~-Hy~RKe~lIfp~~Er~GitapptVmW 156 (409)
T COG2461 85 GHPVRTLKRENKAIRSLLANLLQF---PP---K-KEIKEKLVELVSELDKIGK-HYTRKEMLIFPYIERRGITAPPTVMW 156 (409)
T ss_pred CCcHHHHhcccHHHHHHHHHHhhc---cc---c-HHHHHHHHHHHHHHHHhcc-ccccccccchhHHHHcCCCCCCeeee
Confidence 689999999999999554444333 21 2 233 555566666666666 99999999999999885 889
Q ss_pred HhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhCCHHHHHHHHHhH
Q 000963 364 QEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLARRHFSPKRQRELLYQS 441 (1208)
Q Consensus 364 ~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPLl~~~fS~eEq~eL~~~~ 441 (1208)
-.|+++-..|..+...+... + ..++...+..+.+.+..=+.+||+.+.|.+-..||..||.++-.+.
T Consensus 157 ~~dDeiRe~lk~~~~~l~~~--s---------~~~~ve~~~~~~t~i~dmIFkEe~Ilypt~~d~~te~ew~~i~~~~ 223 (409)
T COG2461 157 VKDDEIREALKELLKLLKEV--S---------IEEFVEKAESVLTEIEDMIFKEENILYPTLLDLLTEGEWEAIKEQS 223 (409)
T ss_pred ccCcHHHHHHHHHHHHhhcc--C---------hHHHHHHHHHHHHHHHHHHHhhhhhHHhHHHHhcCHHHHHHHHhcC
Confidence 99999988888888887621 1 2456667777888899999999999999999999999999987654
No 65
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.40 E-value=0.0028 Score=72.72 Aligned_cols=48 Identities=29% Similarity=0.598 Sum_probs=38.4
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHH-hcCCCCCCCCcCccc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYT-CSHYICPICSKSLGD 1166 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~-~~~~~CPiCrksl~~ 1166 (1208)
+-.||||++-|-.. .....|+|-||.+||..-+ ..+..||.|||.++.
T Consensus 43 ~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 43 QVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 56899999865443 3457899999999998865 457889999998853
No 66
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=95.28 E-value=0.0058 Score=76.18 Aligned_cols=47 Identities=23% Similarity=0.612 Sum_probs=37.3
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhc-CCCCCCCCcCccch
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS-HYICPICSKSLGDM 1167 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~-~~~CPiCrksl~~m 1167 (1208)
..||+|-. ....+++..|||.||..|+...+.. ..+||.|...+|.-
T Consensus 644 LkCs~Cn~----R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 644 LKCSVCNT----RWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAN 691 (698)
T ss_pred eeCCCccC----chhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence 46999963 3445667899999999999997654 57899999988743
No 67
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=95.08 E-value=0.0054 Score=70.84 Aligned_cols=61 Identities=31% Similarity=0.658 Sum_probs=48.1
Q ss_pred ccccccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcC--CCCCCCCcCccchh
Q 000963 1107 DHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSH--YICPICSKSLGDMA 1168 (1208)
Q Consensus 1107 ~H~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~--~~CPiCrksl~~m~ 1168 (1208)
-|.|++ .++-+|-.|.|-+=...+....|||.|.||..|+.+++..+ .+||-|+|....|.
T Consensus 357 a~~~~~-e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrSs~~ 419 (518)
T KOG1941|consen 357 AHECVE-ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRSSMK 419 (518)
T ss_pred HHHHHH-HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHhhcc
Confidence 455554 36789999999876667777889999999999999998654 67999997554444
No 68
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.87 E-value=0.017 Score=67.39 Aligned_cols=48 Identities=35% Similarity=0.844 Sum_probs=38.3
Q ss_pred CCCccccccccccCCCc-eeecCCCCcCChhhHHHHHhc--CCCCCCCCcC
Q 000963 1116 ETNCPICCDFLFTSSAT-VRALPCGHFMHSDCFQAYTCS--HYICPICSKS 1163 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~-v~~LpCGH~fH~~Ci~~~~~~--~~~CPiCrks 1163 (1208)
...||||++..-.+.+- ++.|.|||.|=..|++.|+-. ...||.|.-.
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGK 54 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCCh
Confidence 46899999987666553 455899999999999999953 3569999863
No 69
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.15 E-value=0.023 Score=62.80 Aligned_cols=37 Identities=30% Similarity=0.696 Sum_probs=27.6
Q ss_pred ccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1127 FTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1127 f~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
|.+..+-....|+|.||..|...-. ...||+|+|++.
T Consensus 12 ~~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir 48 (233)
T KOG4739|consen 12 FPSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIR 48 (233)
T ss_pred cCCCCceeeeechhhhhhhhcccCC--ccccccccceee
Confidence 5555555667999999999995422 238999999863
No 70
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.10 E-value=0.028 Score=63.67 Aligned_cols=48 Identities=19% Similarity=0.437 Sum_probs=37.5
Q ss_pred CcCCCccccccccccCCCceeecCCCCcCChhhHHHH-HhcCCCCCCCCcCcc
Q 000963 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAY-TCSHYICPICSKSLG 1165 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~-~~~~~~CPiCrksl~ 1165 (1208)
.+...|+||+.. ..-| +.|+|+|.|+..|++-- .....+||+||..+.
T Consensus 5 ~~~~eC~IC~nt---~n~P-v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pid 53 (324)
T KOG0824|consen 5 TKKKECLICYNT---GNCP-VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPID 53 (324)
T ss_pred ccCCcceeeecc---CCcC-ccccccchhhhhhhcchhhcCCCCCceecCCCC
Confidence 356789999876 3344 45999999999999874 445567999999774
No 71
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.90 E-value=0.043 Score=46.77 Aligned_cols=46 Identities=22% Similarity=0.514 Sum_probs=24.1
Q ss_pred ccccccccccCCCceeecCCCCcCChhhHHHHHh-cCCCCCCCCcCc
Q 000963 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC-SHYICPICSKSL 1164 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~-~~~~CPiCrksl 1164 (1208)
||+|.+.+-.+.....-=+||+-++..|+..... ...+||-||+..
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 8999999844443333347799999999999886 578999999864
No 72
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=93.74 E-value=0.019 Score=66.50 Aligned_cols=53 Identities=28% Similarity=0.691 Sum_probs=43.4
Q ss_pred cccccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhc--CCCCCCCCcCc
Q 000963 1108 HKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS--HYICPICSKSL 1164 (1208)
Q Consensus 1108 H~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~--~~~CPiCrksl 1164 (1208)
-.|.-+++-.-|-||-|. .+.|++=||||.+|..|+..|-.+ ..+||-||-.+
T Consensus 361 LYceMgsTFeLCKICaen----dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 361 LYCEMGSTFELCKICAEN----DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHccchHHHHHHhhcc----CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 346666778899999874 566888899999999999999743 58999999866
No 73
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.67 E-value=0.048 Score=60.11 Aligned_cols=53 Identities=25% Similarity=0.508 Sum_probs=44.9
Q ss_pred CCcCCCccccccccccCCCceeec-CCCCcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1113 KGLETNCPICCDFLFTSSATVRAL-PCGHFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1113 ~~~~~~CpICle~lf~s~~~v~~L-pCGH~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
.+..-.||||.+.|- +..+..+| ||||.+..+|.++++.....||||.+.+-+
T Consensus 218 ~s~ryiCpvtrd~Lt-Nt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 218 ASKRYICPVTRDTLT-NTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred hccceecccchhhhc-CccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 335678999999854 55666666 999999999999999999999999998865
No 74
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.58 E-value=0.027 Score=70.91 Aligned_cols=52 Identities=25% Similarity=0.578 Sum_probs=37.3
Q ss_pred CCcCCCccccccccc--cCCCce-eecCCCCcCChhhHHHHHhc--CCCCCCCCcCc
Q 000963 1113 KGLETNCPICCDFLF--TSSATV-RALPCGHFMHSDCFQAYTCS--HYICPICSKSL 1164 (1208)
Q Consensus 1113 ~~~~~~CpICle~lf--~s~~~v-~~LpCGH~fH~~Ci~~~~~~--~~~CPiCrksl 1164 (1208)
-+....||||.--|. +..-|. +-..|.|.||..|+.+|.++ +.+||+||.++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 355788999986553 111122 22468899999999999865 57899999655
No 75
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=93.26 E-value=0.024 Score=65.00 Aligned_cols=50 Identities=20% Similarity=0.564 Sum_probs=42.7
Q ss_pred CcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
.....|++|..||.+.++ +.-|=|+||+.||..|+.....||.|...+..
T Consensus 13 n~~itC~LC~GYliDATT---I~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATT---ITECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred ccceehhhccceeecchh---HHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 345689999999776654 56899999999999999999999999998764
No 76
>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=93.18 E-value=0.052 Score=61.33 Aligned_cols=48 Identities=23% Similarity=0.459 Sum_probs=38.3
Q ss_pred CccccccccccCCCceee-cCCCCcCChhhHHHHH-hcCCCCCCCCcCcc
Q 000963 1118 NCPICCDFLFTSSATVRA-LPCGHFMHSDCFQAYT-CSHYICPICSKSLG 1165 (1208)
Q Consensus 1118 ~CpICle~lf~s~~~v~~-LpCGH~fH~~Ci~~~~-~~~~~CPiCrksl~ 1165 (1208)
.||+|.-+.+.+..-+.. =+|||.+|..|++... ...+.||.|.+.+.
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 599999887776553322 3999999999999965 56799999999774
No 77
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=93.01 E-value=0.055 Score=47.69 Aligned_cols=42 Identities=26% Similarity=0.646 Sum_probs=29.3
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHHh--cCCCCCC
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC--SHYICPI 1159 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~--~~~~CPi 1159 (1208)
....|||.+.. | .+||+-..|||.|-++.|.+|++ ....||+
T Consensus 10 ~~~~CPiT~~~-~--~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQP-F--EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB----SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCCh-h--hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 45789999987 3 35888889999999999999994 3567998
No 78
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=92.75 E-value=0.036 Score=62.55 Aligned_cols=54 Identities=28% Similarity=0.671 Sum_probs=42.9
Q ss_pred cCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhc-----------------------CCCCCCCCcCccc
Q 000963 1112 EKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS-----------------------HYICPICSKSLGD 1166 (1208)
Q Consensus 1112 e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~-----------------------~~~CPiCrksl~~ 1166 (1208)
.+-..+.|.||+=- |.+.....+.+|-|+||..|+..|+.. .-.||||+..+++
T Consensus 111 nn~p~gqCvICLyg-fa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 111 NNHPNGQCVICLYG-FASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCCCCceEEEEEe-ecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 35568899999965 777777888999999999999988640 1359999998764
No 79
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=92.39 E-value=0.044 Score=60.46 Aligned_cols=108 Identities=29% Similarity=0.619 Sum_probs=66.9
Q ss_pred CCccccccccccccccCC--------------------cccCcccccccCCCCcccccccccccccccccccCCCCCCCC
Q 000963 989 GCEHYKRNCKLRAACCGK--------------------LFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTL 1048 (1208)
Q Consensus 989 gC~HY~r~c~l~~~cC~k--------------------~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~~~C~~~ 1048 (1208)
-|.|=- --|.+|||+| -|.|..|.....|--+-|. ..+.+|-.|+..-.+
T Consensus 63 YCEhDF--~~LfaPcC~kC~EFiiGrVikamnnSwHp~CF~Cd~Cn~~Lad~gf~rn-qgr~LC~~Cn~k~Ka------- 132 (332)
T KOG2272|consen 63 YCEHDF--HVLFAPCCGKCGEFIIGRVIKAMNNSWHPACFRCDLCNKHLADQGFYRN-QGRALCRECNQKEKA------- 132 (332)
T ss_pred cccccc--hhhhchhhcccccchhhHHHHhhccccCcccchhHHHHHHHhhhhhHhh-cchHHhhhhhhhhcc-------
Confidence 366622 1377888876 3667777777666666664 347788887654332
Q ss_pred CCCCcccceEecCccc-CcCCC-----CccccCCCCCccccCCCCCccccccCCccccccccc----cccccccCCcCCC
Q 000963 1049 SCSGLSMAKYYCGICK-FFDDE-----RVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKKL----VDHKCREKGLETN 1118 (1208)
Q Consensus 1049 ~C~~~~~a~y~C~~C~-l~d~~-----k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~~~l----~~H~C~e~~~~~~ 1118 (1208)
.--|+|.|.+|+ +.|++ .++|| -.-|.|.+||.=+...- +.--|..=....-
T Consensus 133 ----~~~g~YvC~KCh~~iD~~~l~fr~d~yH--------------~yHFkCt~C~keL~sdaRevk~eLyClrChD~mg 194 (332)
T KOG2272|consen 133 ----KGRGRYVCQKCHAHIDEQPLTFRGDPYH--------------PYHFKCTTCGKELTSDAREVKGELYCLRCHDKMG 194 (332)
T ss_pred ----cccceeehhhhhhhcccccccccCCCCC--------------ccceecccccccccchhhhhccceeccccccccC
Confidence 235799999998 46766 57777 26688888887664332 2333333333345
Q ss_pred cccccc
Q 000963 1119 CPICCD 1124 (1208)
Q Consensus 1119 CpICle 1124 (1208)
||||..
T Consensus 195 ipiCga 200 (332)
T KOG2272|consen 195 IPICGA 200 (332)
T ss_pred Cccccc
Confidence 555543
No 80
>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=92.24 E-value=0.055 Score=52.04 Aligned_cols=38 Identities=26% Similarity=0.616 Sum_probs=29.8
Q ss_pred ccccCCcCCCccccccccccCCCceeecCCCCcCChhhHH
Q 000963 1109 KCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQ 1148 (1208)
Q Consensus 1109 ~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~ 1148 (1208)
.++.-.....|+||...|.+ ....+.||||.+|..|++
T Consensus 71 ~~v~i~~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 71 RSVVITESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ceEEECCCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence 34444557789999999776 356778999999999974
No 81
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.36 E-value=0.099 Score=60.76 Aligned_cols=48 Identities=27% Similarity=0.580 Sum_probs=34.5
Q ss_pred ccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1111 REKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1111 ~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
.+.....+|.||++. + ....++||||.-+ |..-.. ....||+||..+.
T Consensus 300 ~~~~~p~lcVVcl~e-~---~~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDE-P---KSAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRIR 347 (355)
T ss_pred cccCCCCceEEecCC-c---cceeeecCCcEEE--chHHHh-hCCCCchhHHHHH
Confidence 345668999999986 2 2367899999966 664443 2345999998774
No 82
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.23 E-value=0.17 Score=55.27 Aligned_cols=51 Identities=29% Similarity=0.661 Sum_probs=40.6
Q ss_pred CcCCCccccccccccCCCceeecCCCCcCChhhHHHHHh--------cCCCCCCCCcCccc
Q 000963 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC--------SHYICPICSKSLGD 1166 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~--------~~~~CPiCrksl~~ 1166 (1208)
.-..||..|.-.|-. ++. +.|-|=|.||-.|+++|.. ..|.||-|+..|..
T Consensus 48 DY~pNC~LC~t~La~-gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLAS-GDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCCCceeCCcccc-Ccc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 447899999988654 443 4488999999999999964 25999999998863
No 83
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.12 E-value=0.14 Score=54.14 Aligned_cols=30 Identities=27% Similarity=0.723 Sum_probs=25.3
Q ss_pred cCCCCcCChhhHHHHHhc------C-----CCCCCCCcCcc
Q 000963 1136 LPCGHFMHSDCFQAYTCS------H-----YICPICSKSLG 1165 (1208)
Q Consensus 1136 LpCGH~fH~~Ci~~~~~~------~-----~~CPiCrksl~ 1165 (1208)
..||-.||+-|+..|++. + ..||.|++++.
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 579999999999999863 1 35999999885
No 84
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.10 E-value=0.085 Score=60.34 Aligned_cols=58 Identities=22% Similarity=0.522 Sum_probs=44.3
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHh-cCCCCCCCCcCccchhHhhhh
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC-SHYICPICSKSLGDMAVYFGM 1173 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~-~~~~CPiCrksl~~m~~~~~~ 1173 (1208)
++-||.|+|+|--++..-.--|||--+|+-|+...-. -+.+||-||+...+-.+.|..
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~~ 72 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYVT 72 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeEEe
Confidence 4559999999876666555568999999999987654 378999999988765554443
No 85
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=90.50 E-value=0.12 Score=55.49 Aligned_cols=58 Identities=26% Similarity=0.351 Sum_probs=41.2
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccchhHhhhhcHHHH
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGDMAVYFGMLDALL 1178 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~m~~~~~~lD~~i 1178 (1208)
-.|-||.++ |.+ || +-.|||.||..|+-.=.+....|-+|.+...-.......++..+
T Consensus 197 F~C~iCKkd-y~s--pv-vt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G~f~V~~d~~kmL 254 (259)
T COG5152 197 FLCGICKKD-YES--PV-VTECGHSFCSLCAIRKYQKGDECGVCGKATYGRFWVVSDLQKML 254 (259)
T ss_pred eeehhchhh-ccc--hh-hhhcchhHHHHHHHHHhccCCcceecchhhccceeHHhhHHHHH
Confidence 468999988 544 33 47899999999997766677899999997654333334444443
No 86
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=90.38 E-value=0.16 Score=60.79 Aligned_cols=54 Identities=28% Similarity=0.641 Sum_probs=42.5
Q ss_pred CcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccchhHh
Q 000963 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGDMAVY 1170 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~m~~~ 1170 (1208)
..+..||||+.-+- +|+....|||.|+..|+..|+..+..||.|+..+..-..+
T Consensus 19 ~~~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 19 DENLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred cccccCcccccccc---CCCCCCCCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 34678999997633 3444468999999999999999899999998877654433
No 87
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.07 E-value=0.19 Score=62.53 Aligned_cols=48 Identities=27% Similarity=0.523 Sum_probs=34.7
Q ss_pred cccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCC
Q 000963 1110 CREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPI 1159 (1208)
Q Consensus 1110 C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPi 1159 (1208)
|+-......|.||.--+..+ ...-+.|||.+|..|+.+|.+..-.||.
T Consensus 1022 ~~~~~~~~~C~~C~l~V~gs--s~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1022 AICKGFTFQCAICHLAVRGS--SNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccceeeeeeEeeEeecc--chhhccccccccHHHHHHHHhcCCcCCC
Confidence 33333445588887554433 3455789999999999999999888883
No 88
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.98 E-value=0.061 Score=60.63 Aligned_cols=49 Identities=29% Similarity=0.638 Sum_probs=33.6
Q ss_pred cCCCccccccccccCCCceeecCCCCcC-ChhhHHHHHhcCCCCCCCCcCccchhHhh
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFM-HSDCFQAYTCSHYICPICSKSLGDMAVYF 1171 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~f-H~~Ci~~~~~~~~~CPiCrksl~~m~~~~ 1171 (1208)
++.-|.||++- .....+|+|||.. +.+|-..+ .-|||||+-|......|
T Consensus 299 ~~~LC~ICmDa----P~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~rvvrif 348 (350)
T KOG4275|consen 299 TRRLCAICMDA----PRDCVFLECGHMVTCTKCGKRM----NECPICRQYIVRVVRIF 348 (350)
T ss_pred HHHHHHHHhcC----CcceEEeecCcEEeehhhcccc----ccCchHHHHHHHHHhhh
Confidence 37889999875 3347789999973 44444222 37999998776555444
No 89
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=89.80 E-value=0.11 Score=62.28 Aligned_cols=51 Identities=25% Similarity=0.570 Sum_probs=41.1
Q ss_pred ccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHh-----cCCCCCCCCcCcc
Q 000963 1111 REKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC-----SHYICPICSKSLG 1165 (1208)
Q Consensus 1111 ~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~-----~~~~CPiCrksl~ 1165 (1208)
.|+..+..|-+|.|+ . +....-.|.|.||+-|+.+|.. .+.+||+|.+.+.
T Consensus 531 ~enk~~~~C~lc~d~---a-ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 531 DENKGEVECGLCHDP---A-EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccccCceeecccCCh---h-hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 567788999999886 2 3345679999999999999975 2578999999663
No 90
>PF04641 Rtf2: Rtf2 RING-finger
Probab=89.38 E-value=0.26 Score=55.78 Aligned_cols=51 Identities=20% Similarity=0.483 Sum_probs=40.9
Q ss_pred CCcCCCccccccccccCCCceeec-CCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1113 KGLETNCPICCDFLFTSSATVRAL-PCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1113 ~~~~~~CpICle~lf~s~~~v~~L-pCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
....-.|||....| ++....++| ||||.|-..++++.- ....||+|.+++.
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 45577899999985 565566665 999999999999984 4567999999764
No 91
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=89.27 E-value=0.15 Score=44.64 Aligned_cols=44 Identities=30% Similarity=0.759 Sum_probs=29.6
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
+..|-.|... .. .-.++||||.+...|++-+ .-..||+|.+.+.
T Consensus 7 ~~~~~~~~~~---~~-~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~ 50 (55)
T PF14447_consen 7 EQPCVFCGFV---GT-KGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFE 50 (55)
T ss_pred ceeEEEcccc---cc-ccccccccceeeccccChh--hccCCCCCCCccc
Confidence 3445555432 22 2356899999999998653 2346999998764
No 92
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.97 E-value=0.21 Score=58.84 Aligned_cols=53 Identities=23% Similarity=0.439 Sum_probs=38.3
Q ss_pred ccccccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHh--------cCCCCCCCC
Q 000963 1107 DHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC--------SHYICPICS 1161 (1208)
Q Consensus 1107 ~H~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~--------~~~~CPiCr 1161 (1208)
+|.+.-++ --.|-||++. +........+||+|+|++.|...|.. +..+||-|+
T Consensus 176 ~~~~F~~s-lf~C~ICf~e-~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 176 TLEKFVNS-LFDCCICFEE-QMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred HHHHHHhh-cccceeeehh-hcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 44444333 4589999987 55555677899999999999999864 235797554
No 93
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.89 E-value=0.19 Score=57.10 Aligned_cols=61 Identities=21% Similarity=0.357 Sum_probs=42.6
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccchhHhhhhcHHHHhh
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGDMAVYFGMLDALLAS 1180 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~m~~~~~~lD~~i~~ 1180 (1208)
...|-||..+... || +-.|||+|+..|.-.-.+....|+||++.+-.....-..|...+..
T Consensus 241 Pf~c~icr~~f~~---pV-vt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~~~~akeL~~~L~~ 301 (313)
T KOG1813|consen 241 PFKCFICRKYFYR---PV-VTKCGHYFCEVCALKPYQKGEKCYVCSQQTHGSFNVAKELLVSLKL 301 (313)
T ss_pred Ccccccccccccc---ch-hhcCCceeehhhhccccccCCcceecccccccccchHHHHHHHHHh
Confidence 4569999998433 33 4789999999999877777789999999775433222333444433
No 94
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.46 E-value=0.38 Score=57.50 Aligned_cols=49 Identities=29% Similarity=0.694 Sum_probs=40.0
Q ss_pred CcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
..+-.|-||+.-++.. + ..||||.|+..|++.-+....-||+|+-.+..
T Consensus 82 ~sef~c~vc~~~l~~p---v-~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---V-VTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---c-cccccccccHHHHHHHhccCCCCccccccccc
Confidence 4577899999876643 3 36999999999999977777889999998864
No 95
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=87.72 E-value=2.4 Score=50.37 Aligned_cols=137 Identities=22% Similarity=0.221 Sum_probs=104.4
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHHHhhccccccchhhHHHhh-hhHHHHHH
Q 000963 41 KSPILIFLFFHKAIKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIRV-KNIARTYS 119 (1208)
Q Consensus 41 ~~Pi~~~~~~HkAlR~eL~~l~~~a~~~~~~~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI~PaLd~Rv-~~v~~~~~ 119 (1208)
.+|+..|.-=-+++|..|+.+.+. . .+..-...+...+.+|..+=+ |-+-+-..|||-++.|- ..+.-.|-
T Consensus 85 gHPv~tl~~EN~~i~~ll~~~l~~---~----~~~~ik~~l~~lv~~L~~vg~-Hy~RKe~lIfp~~Er~GitapptVmW 156 (409)
T COG2461 85 GHPVRTLKRENKAIRSLLANLLQF---P----PKKEIKEKLVELVSELDKIGK-HYTRKEMLIFPYIERRGITAPPTVMW 156 (409)
T ss_pred CCcHHHHhcccHHHHHHHHHHhhc---c----ccHHHHHHHHHHHHHHHHhcc-ccccccccchhHHHHcCCCCCCeeee
Confidence 569988888888888665555332 1 123344556667777777777 99999999999999886 45777788
Q ss_pred hhhhhHHHHHHHHHHHHHhhhcCchhHHHHHHHHHHHHHHHHHHhHHHHHHHhhhhHhhcCCHHHHHHHHHH
Q 000963 120 LEHEGESVLFDQLFELLNSSMRNEESYRRELASCTGALQTSISQHMSKEEEQVFPLLIEKFSFEEQASLVWQ 191 (1208)
Q Consensus 120 ~EH~~~~~lf~~L~~~l~~~~~~~~~~~~eLa~~l~~l~~~l~qHm~~EE~qv~PLl~~~fS~~E~a~L~~~ 191 (1208)
.-|.++-..|..+...+. ..+. .+++.....+.+.+..=+.+||.-+.|-+..-||..||.++..+
T Consensus 157 ~~dDeiRe~lk~~~~~l~--~~s~----~~~ve~~~~~~t~i~dmIFkEe~Ilypt~~d~~te~ew~~i~~~ 222 (409)
T COG2461 157 VKDDEIREALKELLKLLK--EVSI----EEFVEKAESVLTEIEDMIFKEENILYPTLLDLLTEGEWEAIKEQ 222 (409)
T ss_pred ccCcHHHHHHHHHHHHhh--ccCh----HHHHHHHHHHHHHHHHHHHhhhhhHHhHHHHhcCHHHHHHHHhc
Confidence 899999999999888887 1122 33334444555688888899999999999999999999999988
No 96
>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=87.60 E-value=0.24 Score=50.68 Aligned_cols=38 Identities=21% Similarity=0.438 Sum_probs=32.3
Q ss_pred CCCccccccccccCCCceeecCCC------CcCChhhHHHHHhcC
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCG------HFMHSDCFQAYTCSH 1154 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCG------H~fH~~Ci~~~~~~~ 1154 (1208)
...|.||++.+-. ...|+.++|| |.||.+|++.|.+..
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 4679999999776 6788889998 999999999996543
No 97
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=87.52 E-value=0.45 Score=54.98 Aligned_cols=62 Identities=23% Similarity=0.604 Sum_probs=46.2
Q ss_pred CCCccccccccccCCCceeecCC--CCcCChhhHHHHHhcCCCCCCCCcCccchhHhhhhcHHHHhhcCCcHHh
Q 000963 1116 ETNCPICCDFLFTSSATVRALPC--GHFMHSDCFQAYTCSHYICPICSKSLGDMAVYFGMLDALLASEQLPEEY 1187 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpC--GH~fH~~Ci~~~~~~~~~CPiCrksl~~m~~~~~~lD~~i~~~pmP~ey 1187 (1208)
-.+||||.++|..+ + +.| ||..+..|-. +...+||.|+..+++.. -+.++..++....|=.|
T Consensus 48 lleCPvC~~~l~~P---i--~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g~~R--~~amEkV~e~~~vpC~~ 111 (299)
T KOG3002|consen 48 LLDCPVCFNPLSPP---I--FQCDNGHLACSSCRT---KVSNKCPTCRLPIGNIR--CRAMEKVAEAVLVPCKN 111 (299)
T ss_pred hccCchhhccCccc---c--eecCCCcEehhhhhh---hhcccCCccccccccHH--HHHHHHHHHhceecccc
Confidence 46899999986543 3 556 8999999984 56889999999999653 35567777776665443
No 98
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=87.07 E-value=0.36 Score=40.88 Aligned_cols=40 Identities=25% Similarity=0.674 Sum_probs=26.3
Q ss_pred ccccccccccCCCceeecCCC-----CcCChhhHHHHHh--cCCCCCCC
Q 000963 1119 CPICCDFLFTSSATVRALPCG-----HFMHSDCFQAYTC--SHYICPIC 1160 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCG-----H~fH~~Ci~~~~~--~~~~CPiC 1160 (1208)
|-||++.-.++. ..+.||+ -+.|..|+..|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~--~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE--PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS---EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC--ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 678988733322 3446774 6899999999986 45789998
No 99
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=85.24 E-value=0.12 Score=60.96 Aligned_cols=120 Identities=23% Similarity=0.513 Sum_probs=0.0
Q ss_pred cCccc--CcCCC------Ccccc--CCCCCccccCCCCCccccccCC---ccccccccccccccccCCcCCCcccccccc
Q 000963 1060 CGICK--FFDDE------RVVYH--CPFCNLCRVGRGLGVDFFHCMT---CNCCLAKKLVDHKCREKGLETNCPICCDFL 1126 (1208)
Q Consensus 1060 C~~C~--l~d~~------k~~yH--C~~CgiCRvG~gl~~~~fHC~~---C~~C~~~~l~~H~C~e~~~~~~CpICle~l 1126 (1208)
|-.|+ ++.+. +.+|| |=.|+.||.-.. |..||.-+. |--|+.-+ -..|-.|.+.|
T Consensus 277 C~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~-Gq~FY~v~~k~~CE~cyq~t-----------lekC~~Cg~~I 344 (468)
T KOG1701|consen 277 CAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLA-GQSFYQVDGKPYCEGCYQDT-----------LEKCNKCGEPI 344 (468)
T ss_pred hhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhc-cccccccCCcccchHHHHHH-----------HHHHhhhhhHH
Q ss_pred ccCCCceeec-CCCCcCChhhHHHHHhcCCCCCCCCcCc----------------cchhHhhhhcHHHHhhcCCcHHhhc
Q 000963 1127 FTSSATVRAL-PCGHFMHSDCFQAYTCSHYICPICSKSL----------------GDMAVYFGMLDALLASEQLPEEYRD 1189 (1208)
Q Consensus 1127 f~s~~~v~~L-pCGH~fH~~Ci~~~~~~~~~CPiCrksl----------------~~m~~~~~~lD~~i~~~pmP~ey~~ 1189 (1208)
.+ ++| .||-.||..|| +|=+|.+.+ .|....|..-=..-..--||.+=++
T Consensus 345 ~d-----~iLrA~GkayHp~CF--------~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~ 411 (468)
T KOG1701|consen 345 MD-----RILRALGKAYHPGCF--------TCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKD 411 (468)
T ss_pred HH-----HHHHhcccccCCCce--------EEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCc
Q ss_pred cccEEEcCCCCCcCccc
Q 000963 1190 RCQVKILHIFKLLGSFK 1206 (1208)
Q Consensus 1190 ~~~~IlCndc~~~~~~~ 1206 (1208)
..+.|.|.| ++-||.
T Consensus 412 etvRvvamd--r~fHv~ 426 (468)
T KOG1701|consen 412 ETVRVVAMD--RDFHVN 426 (468)
T ss_pred ceEEEEEcc--cccccc
No 100
>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=84.84 E-value=0.29 Score=41.55 Aligned_cols=44 Identities=27% Similarity=0.689 Sum_probs=26.2
Q ss_pred CCccccccccccCCCceeecCCC-CcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCG-HFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCG-H~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
.||--|.. .... .+.|. |+.+..|+.-++..+..||||++++..
T Consensus 3 ~nCKsCWf---~~k~---Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 3 YNCKSCWF---ANKG---LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ----SS-S-----SS---EEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ccChhhhh---cCCC---eeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 45667763 3332 45797 999999999999999999999998764
No 101
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.24 E-value=0.42 Score=58.88 Aligned_cols=43 Identities=26% Similarity=0.623 Sum_probs=35.0
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSK 1162 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrk 1162 (1208)
.+|+||+..+|.++-.-+.|-|||.+|..|.... .+.+|| |+.
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC-CCc
Confidence 4799998887877776777999999999999764 366788 765
No 102
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.02 E-value=0.73 Score=53.35 Aligned_cols=52 Identities=21% Similarity=0.402 Sum_probs=42.6
Q ss_pred ccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1111 REKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1111 ~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
...+.++.||||.-. .. ..++-||||--|..||.+.+.+...|=-|+.++.+
T Consensus 417 lp~sEd~lCpICyA~---pi-~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAG---PI-NAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CCCcccccCcceecc---cc-hhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 446778999999754 32 24557999999999999999999999999998875
No 103
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.87 E-value=0.63 Score=59.18 Aligned_cols=44 Identities=16% Similarity=0.097 Sum_probs=32.4
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHhcccCCCChhHHHHHHHHHH
Q 000963 643 SRPIDNIFKFHKAIRKDLEYLDGESGKLNDCNETFLRQFTGRFR 686 (1208)
Q Consensus 643 ~~PId~i~~~HkAIRkdL~~L~~ea~~l~~~d~~~l~~f~~r~~ 686 (1208)
-.|+|.=...-.-++|.|-.+|--.++=...|+..++.+...+.
T Consensus 332 L~ek~le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYg 375 (933)
T KOG2114|consen 332 LIEKDLETKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYG 375 (933)
T ss_pred eeeccHHHHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 34666667777778899988888888776568888877765543
No 104
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=82.33 E-value=1.2 Score=51.51 Aligned_cols=63 Identities=22% Similarity=0.452 Sum_probs=44.3
Q ss_pred Cccccccccc-cccccccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHH--HhcCCCCCCCCc
Q 000963 1096 TCNCCLAKKL-VDHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAY--TCSHYICPICSK 1162 (1208)
Q Consensus 1096 ~C~~C~~~~l-~~H~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~--~~~~~~CPiCrk 1162 (1208)
+=+.|...++ ..-+=..+..+++|-||-+. .+-+.++||||-+|-.|.-.. +...-.||+|+.
T Consensus 40 KNnlsaEPnlttsSaddtDEen~~C~ICA~~----~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrT 105 (493)
T COG5236 40 KNNLSAEPNLTTSSADDTDEENMNCQICAGS----TTYSARYPCGHQICHACAVRLRALYMQKGCPLCRT 105 (493)
T ss_pred ccccccCCccccccccccccccceeEEecCC----ceEEEeccCCchHHHHHHHHHHHHHhccCCCcccc
Confidence 4456665555 33333334567899999875 444567999999999998664 445677999997
No 105
>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=79.67 E-value=6.4 Score=39.20 Aligned_cols=58 Identities=19% Similarity=0.241 Sum_probs=40.2
Q ss_pred hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHH----HHHHHhh
Q 000963 361 SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQV----LPLARRH 428 (1208)
Q Consensus 361 ~me~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qv----fPLl~~~ 428 (1208)
.+..+|++.-++++.|..++.. ..+ ..++...+..|..-...||..||.-. +|-+..|
T Consensus 12 ~ID~qH~~l~~~in~l~~a~~~---~~~-------~~~~~~~l~~L~~y~~~HF~~EE~~M~~~~yp~~~~H 73 (126)
T TIGR02481 12 EIDAQHKELFELINELYDALSA---GNG-------KDELKEILDELIDYTENHFADEEELMEEYGYPDLEEH 73 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc---CCC-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHH
Confidence 5667888877777777766532 111 24667788888999999999999765 4444444
No 106
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.27 E-value=1.4 Score=50.35 Aligned_cols=47 Identities=28% Similarity=0.742 Sum_probs=36.8
Q ss_pred CCccccccccccCCCc---eeecCCCCcCChhhHHHHHhcC-CCCCCCCcCc
Q 000963 1117 TNCPICCDFLFTSSAT---VRALPCGHFMHSDCFQAYTCSH-YICPICSKSL 1164 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~---v~~LpCGH~fH~~Ci~~~~~~~-~~CPiCrksl 1164 (1208)
..|-||-++ |.+... .+.|.|||.++..|+.+.+... ..||-||...
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 468899988 656533 3568999999999999887554 5689999984
No 107
>PRK04023 DNA polymerase II large subunit; Validated
Probab=79.11 E-value=1.6 Score=56.74 Aligned_cols=45 Identities=24% Similarity=0.456 Sum_probs=21.9
Q ss_pred cccccccccccCCCCCCCCCCCCcccceEecCcccCcCCCCccccCCCCCc
Q 000963 1030 MMCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNL 1080 (1208)
Q Consensus 1030 ~~C~~C~~~q~~~~~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~Cgi 1080 (1208)
-.|..|+++. +...|.+ |+...-.-|+|..|.- .-..|.|+.||.
T Consensus 627 RfCpsCG~~t-~~frCP~--CG~~Te~i~fCP~CG~---~~~~y~CPKCG~ 671 (1121)
T PRK04023 627 RKCPSCGKET-FYRRCPF--CGTHTEPVYRCPRCGI---EVEEDECEKCGR 671 (1121)
T ss_pred ccCCCCCCcC-CcccCCC--CCCCCCcceeCccccC---cCCCCcCCCCCC
Confidence 3455555543 3345654 5433344556666621 122355666663
No 108
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.82 E-value=1.4 Score=52.20 Aligned_cols=45 Identities=22% Similarity=0.547 Sum_probs=36.3
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhcC---CCCCCCCc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSH---YICPICSK 1162 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~---~~CPiCrk 1162 (1208)
-.|||=.|- -+...|.+.|.|||.+..+-++...++. ++||.|-.
T Consensus 335 F~CPVlKeq-tsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 335 FICPVLKEQ-TSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred eecccchhh-ccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 568888775 5555677789999999999999987653 78999975
No 109
>COG5592 Uncharacterized conserved protein [Function unknown]
Probab=78.73 E-value=5.9 Score=41.98 Aligned_cols=110 Identities=21% Similarity=0.217 Sum_probs=74.3
Q ss_pred HHHHHHHHHHHHHHhhhcccccccccccc-----ccccccc--CcccchhhHHHHHHHHHHHHHHHhhhhhhhhcccccc
Q 000963 681 FTGRFRLLWGLYRAHSNAEDDIVFPALES-----KETLSNV--SHSYTLDHKQEEKLFEDISSALSELTELHECLSTDLT 753 (1208)
Q Consensus 681 f~~r~~fl~~v~~~HS~AEDeivfPaLe~-----k~~~~nv--s~s~~~DH~~ee~lfe~i~~~L~~~~~l~~~~~~~~~ 753 (1208)
.....+|+|.++..|---|-++.||+.=- .-..... .--+..||+.+|.|+..+-..
T Consensus 30 ~le~~gf~~k~~k~h~e~Ee~ilF~v~Vd~~~ed~~~fkdt~~~~~i~~DHkliE~l~tnlik~---------------- 93 (171)
T COG5592 30 ILEFEGFNEKLGKDHVELEEKILFPVIVDADMEDLYVFKDTPEVDRIKNDHKLIETLATNLIKW---------------- 93 (171)
T ss_pred HHhhcchHHHHhhhHHHHHHHhhhhhccchHHHHHHhhhccchhhHhHhhHHHHHHHHHHHHhh----------------
Confidence 33445589999999999999999997532 1111222 236889999999999887111
Q ss_pred CccccccccccchhhhHhhHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhcCCHHHHH--HHHHHHHhccC
Q 000963 754 GDLTRNSLESCDQNETVRKYNEKATELQGMCKSIRVTLDQHVFREELELWPLFDRHFSVEEQD--KIVGRIIGTTG 827 (1208)
Q Consensus 754 ~~~~~~~~~~~~~~~~~~~~~e~~~kL~~~~~sl~~~L~~H~~~EE~Ev~PL~~k~fS~eeQ~--~lv~~~l~~~p 827 (1208)
.+ . .|.+.-.-.+.++|..|=..||..++|-.++.=...+|. +++=.+|-..+
T Consensus 94 --------------kR----~---~k~~e~~p~fyK~LtdHn~aEE~~IfPrvks~~~E~~~~~~kl~LeiI~~~~ 148 (171)
T COG5592 94 --------------KR----P---DKIKERVPLFYKTLTDHNLAEEEYIFPRVKSLKGEDEQSALKLALEIIEQYG 148 (171)
T ss_pred --------------cc----c---hHHHHHHHHHHHHHHHccccccchhhHHHHhhcchhhHHHHHHHHHHHHHhC
Confidence 01 1 245555677888999999999999999987765444444 34444444444
No 110
>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=78.68 E-value=1 Score=37.56 Aligned_cols=41 Identities=29% Similarity=0.731 Sum_probs=20.5
Q ss_pred ccccccccccCCCceeecCCCCcCChhhHHHHHhcCC--CCCCC
Q 000963 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHY--ICPIC 1160 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~--~CPiC 1160 (1208)
|-+|.+- .+....-..-.|+=.+|..|++.|++... +||.|
T Consensus 1 C~~C~~i-v~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEI-VTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB--SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred Ccccchh-HeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 5667664 33322111224777899999999987654 79988
No 111
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=78.06 E-value=1.3 Score=50.31 Aligned_cols=43 Identities=30% Similarity=0.778 Sum_probs=34.7
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHH-HhcCCCCCCCCc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAY-TCSHYICPICSK 1162 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~-~~~~~~CPiCrk 1162 (1208)
..||.|.--+.. +++.--|||.|+.+||..- +.+.+.||.|.+
T Consensus 275 LkCplc~~Llrn---p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 679999876443 5555678999999999975 567899999987
No 112
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=75.97 E-value=2.1 Score=38.22 Aligned_cols=46 Identities=26% Similarity=0.658 Sum_probs=28.4
Q ss_pred cccccccccccccCCC-----CCCCCCCCCcccceEecCcccCcCCCCccccCCCCCc
Q 000963 1028 TEMMCMRCLKVQPVGP-----VCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNL 1080 (1208)
Q Consensus 1028 ~~~~C~~C~~~q~~~~-----~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~Cgi 1080 (1208)
....|..|+.+-...+ .|.| | |.. -=|-|.+|+-..+ .|.||+||+
T Consensus 6 ~~~~CtSCg~~i~~~~~~~~F~CPn--C-G~~-~I~RC~~CRk~~~---~Y~CP~CGF 56 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKAVKFLCPN--C-GEV-IIYRCEKCRKQSN---PYTCPKCGF 56 (59)
T ss_pred cCccccCCCCcccCCCccCEeeCCC--C-CCe-eEeechhHHhcCC---ceECCCCCC
Confidence 3456888876654333 5765 5 432 2345777776654 688888885
No 113
>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=75.57 E-value=0.3 Score=44.86 Aligned_cols=62 Identities=24% Similarity=0.365 Sum_probs=34.3
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccchhHhhhhcHHHHhhcCCcHHhhccccEEE
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGDMAVYFGMLDALLASEQLPEEYRDRCQVKI 1195 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~m~~~~~~lD~~i~~~pmP~ey~~~~~~Il 1195 (1208)
+..||+|..+|-... ||+.+..|-..|.. ...||-|...+..+. .-.-++.+
T Consensus 1 e~~CP~C~~~L~~~~--------~~~~C~~C~~~~~~-~a~CPdC~~~Le~Lk-------------------ACGAvdYF 52 (70)
T PF07191_consen 1 ENTCPKCQQELEWQG--------GHYHCEACQKDYKK-EAFCPDCGQPLEVLK-------------------ACGAVDYF 52 (70)
T ss_dssp --B-SSS-SBEEEET--------TEEEETTT--EEEE-EEE-TTT-SB-EEEE-------------------ETTEEEEE
T ss_pred CCcCCCCCCccEEeC--------CEEECcccccccee-cccCCCcccHHHHHH-------------------Hhccccee
Confidence 357999998854332 78888888876542 457999998776543 12236889
Q ss_pred cCCCCCcCcc
Q 000963 1196 LHIFKLLGSF 1205 (1208)
Q Consensus 1196 Cndc~~~~~~ 1205 (1208)
||.|.++-|-
T Consensus 53 C~~c~gLiSK 62 (70)
T PF07191_consen 53 CNHCHGLISK 62 (70)
T ss_dssp -TTTT-EE-T
T ss_pred eccCCceeec
Confidence 9999887653
No 114
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=74.02 E-value=1.8 Score=53.90 Aligned_cols=70 Identities=17% Similarity=0.404 Sum_probs=43.9
Q ss_pred CCCccccccccccCCCceeecCCC---CcCChhhHHHHHh--------cCCCCCCCCcCccchhHhhhhcHHHHhhcCCc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCG---HFMHSDCFQAYTC--------SHYICPICSKSLGDMAVYFGMLDALLASEQLP 1184 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCG---H~fH~~Ci~~~~~--------~~~~CPiCrksl~~m~~~~~~lD~~i~~~pmP 1184 (1208)
-..||+|+-. |...++...+-|- --.|-.|..-+.. ..|.|-+|| ....+.+.+...+...-+|
T Consensus 145 ~~~cPvc~~~-Y~~~e~~~~~~c~~c~rwsh~~c~~~sdd~~~q~~vD~~~~CS~CR----~es~qvKdi~~~vqe~~~~ 219 (694)
T KOG4443|consen 145 LSYCPVCLIV-YQDSESLPMVCCSICQRWSHGGCDGISDDKYMQAQVDLQYKCSTCR----GESYQVKDISDALQETWKA 219 (694)
T ss_pred cccCchHHHh-hhhccchhhHHHHHhcccccCCCCccchHHHHHHhhhhhcccceee----hhhhhhhhHHHHHHhhcch
Confidence 4689999854 4444444334443 4467777654321 369999999 3444567777777777777
Q ss_pred HHhhcc
Q 000963 1185 EEYRDR 1190 (1208)
Q Consensus 1185 ~ey~~~ 1190 (1208)
..|.+.
T Consensus 220 k~~~~~ 225 (694)
T KOG4443|consen 220 KDKPDK 225 (694)
T ss_pred hhcccc
Confidence 666443
No 115
>PHA02862 5L protein; Provisional
Probab=73.87 E-value=2.1 Score=44.38 Aligned_cols=56 Identities=20% Similarity=0.447 Sum_probs=37.5
Q ss_pred CCCccccccccccCCCceeecCCC-----CcCChhhHHHHHhc--CCCCCCCCcCccchhHhhhhcHHH
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCG-----HFMHSDCFQAYTCS--HYICPICSKSLGDMAVYFGMLDAL 1177 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCG-----H~fH~~Ci~~~~~~--~~~CPiCrksl~~m~~~~~~lD~~ 1177 (1208)
...|=||.+. ..+.+ -||. -..|++|+..|+.. +..||+|+.... +...++.+.+-
T Consensus 2 ~diCWIC~~~---~~e~~--~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~-Ik~~yKpf~kW 64 (156)
T PHA02862 2 SDICWICNDV---CDERN--NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN-IKKTYVSFKKW 64 (156)
T ss_pred CCEEEEecCc---CCCCc--ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE-EEEccccHHHh
Confidence 4679999886 22222 4663 78999999999964 467999998764 33334444333
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=73.04 E-value=0.91 Score=50.27 Aligned_cols=50 Identities=26% Similarity=0.574 Sum_probs=38.8
Q ss_pred CCCccccccccccCCCceeec-C-CCCcCChhhHHHHHh-cCCCCC--CCCcCcc
Q 000963 1116 ETNCPICCDFLFTSSATVRAL-P-CGHFMHSDCFQAYTC-SHYICP--ICSKSLG 1165 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~L-p-CGH~fH~~Ci~~~~~-~~~~CP--iCrksl~ 1165 (1208)
+..||||.-+.+-+..-...+ | |=|-||.+|.+..+. ..-.|| -|.|.+.
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 558999999988877633332 6 999999999999665 456799 8988664
No 117
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=72.84 E-value=3.2 Score=52.58 Aligned_cols=73 Identities=23% Similarity=0.541 Sum_probs=49.8
Q ss_pred CccccCCCCCccccCCCCCccccccCCccccccccccccccccCCcCCCccccccccccCCCceeecCCCCcCChhhHHH
Q 000963 1070 RVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKKLVDHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQA 1149 (1208)
Q Consensus 1070 k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~~~l~~H~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~ 1149 (1208)
--+|-|+.|+---+++++ .-|++|-.|-+ ..|.+|-..+.. ..+.---|||-.|.+|+.+
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--------------AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKS 810 (839)
T ss_pred eeeccccccCCccccccc----eeechHHHHhh--------------cCceeecceeee--eEeecccccccccHHHHHH
Confidence 457788888877776653 45666665544 369999765432 1223347999999999999
Q ss_pred HHhcCCCCCC--CCc
Q 000963 1150 YTCSHYICPI--CSK 1162 (1208)
Q Consensus 1150 ~~~~~~~CPi--Crk 1162 (1208)
|...+.-||. |.+
T Consensus 811 w~~~~s~ca~~~C~~ 825 (839)
T KOG0269|consen 811 WFFKASPCAKSICPH 825 (839)
T ss_pred HHhcCCCCccccCCc
Confidence 9987776654 544
No 118
>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=71.80 E-value=4 Score=43.12 Aligned_cols=33 Identities=27% Similarity=0.811 Sum_probs=22.2
Q ss_pred CCCccccccccccCCCceeecCC------------C-CcCChhhHHHHHh
Q 000963 1116 ETNCPICCDFLFTSSATVRALPC------------G-HFMHSDCFQAYTC 1152 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpC------------G-H~fH~~Ci~~~~~ 1152 (1208)
+-.||||||. +-.. +.|-| + =+-|+.|+++|-+
T Consensus 2 d~~CpICme~---PHNA-VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEH---PHNA-VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccC---CCce-EEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 4679999997 2222 33445 3 3458899999864
No 119
>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=71.26 E-value=2.6 Score=32.74 Aligned_cols=38 Identities=34% Similarity=0.766 Sum_probs=26.3
Q ss_pred CccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1118 ~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
.|+.|.+.|......+.. =|..||.+|| +|..|++++.
T Consensus 1 ~C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcCc
Confidence 388898886654232222 3789999877 7888888764
No 120
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=70.38 E-value=3.2 Score=43.81 Aligned_cols=45 Identities=22% Similarity=0.621 Sum_probs=32.4
Q ss_pred cCCCccccccccccCCCceeecCCC--C---cCChhhHHHHHhc--CCCCCCCCcCc
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCG--H---FMHSDCFQAYTCS--HYICPICSKSL 1164 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCG--H---~fH~~Ci~~~~~~--~~~CPiCrksl 1164 (1208)
.+..|-||.+. .... .-||. . ..|++|++.|+.. ..+||+|+...
T Consensus 7 ~~~~CRIC~~~---~~~~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 7 MDKCCWICKDE---YDVV--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCeeEecCCC---CCCc--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 46789999876 2221 24664 4 6699999999864 46799999865
No 121
>COG5592 Uncharacterized conserved protein [Function unknown]
Probab=70.18 E-value=24 Score=37.63 Aligned_cols=93 Identities=17% Similarity=0.176 Sum_probs=67.0
Q ss_pred HHHHHHHHHHHHHHhhhhccccchhhhhhhh-----h---------hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHH
Q 000963 329 AFNKRLQFIAEVCIFHSIAEDKVIFPAVDVE-----L---------SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAE 394 (1208)
Q Consensus 329 ~L~~r~~fl~~vl~~Hs~aEDevlFPaL~~r-----~---------~me~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~ 394 (1208)
.+.+-..|...+.+.|-.-|.+.+||+.-.. . ++..+|..|+-+.+.+...- +.
T Consensus 29 e~le~~gf~~k~~k~h~e~Ee~ilF~v~Vd~~~ed~~~fkdt~~~~~i~~DHkliE~l~tnlik~k--------R~---- 96 (171)
T COG5592 29 EILEFEGFNEKLGKDHVELEEKILFPVIVDADMEDLYVFKDTPEVDRIKNDHKLIETLATNLIKWK--------RP---- 96 (171)
T ss_pred HHHhhcchHHHHhhhHHHHHHHhhhhhccchHHHHHHhhhccchhhHhHhhHHHHHHHHHHHHhhc--------cc----
Confidence 3334444889999999999999999986421 0 77889998888777654321 11
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhCCHHHHH
Q 000963 395 FYTKLCSQADLIMASIQKHFRNEEVQVLPLARRHFSPKRQR 435 (1208)
Q Consensus 395 ~~~eLa~~le~L~~~L~~Hl~~EE~qvfPLl~~~fS~eEq~ 435 (1208)
++.-.-+...+.+|++|=..||..+||-+...--..||.
T Consensus 97 --~k~~e~~p~fyK~LtdHn~aEE~~IfPrvks~~~E~~~~ 135 (171)
T COG5592 97 --DKIKERVPLFYKTLTDHNLAEEEYIFPRVKSLKGEDEQS 135 (171)
T ss_pred --hHHHHHHHHHHHHHHHccccccchhhHHHHhhcchhhHH
Confidence 234456777799999999999999999877655443333
No 122
>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=69.87 E-value=2.2 Score=47.91 Aligned_cols=65 Identities=29% Similarity=0.772 Sum_probs=43.1
Q ss_pred CCcccCccccccc-CCCCcccccccccccccccccccCCCCCCCCCCCCcccceEecCcccC--cCCC----------Cc
Q 000963 1005 GKLFTCRFCHDKV-SDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKF--FDDE----------RV 1071 (1208)
Q Consensus 1005 ~k~y~Cr~CHde~-~~H~~~r~~~~~~~C~~C~~~q~~~~~C~~~~C~~~~~a~y~C~~C~l--~d~~----------k~ 1071 (1208)
|+.|.|-+|++-. +|-.|+-.+ .|+....-+-.|.+ | ..++.|.|-.||. .||. ..
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 6789999999873 555555322 35555666667876 6 3689999999985 3443 24
Q ss_pred cccCCCCCc
Q 000963 1072 VYHCPFCNL 1080 (1208)
Q Consensus 1072 ~yHC~~Cgi 1080 (1208)
++-||+||.
T Consensus 209 ~~PCPKCg~ 217 (314)
T PF06524_consen 209 PIPCPKCGY 217 (314)
T ss_pred CCCCCCCCC
Confidence 556666664
No 123
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.77 E-value=2.2 Score=54.95 Aligned_cols=43 Identities=26% Similarity=0.583 Sum_probs=32.3
Q ss_pred ccccccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHH
Q 000963 1107 DHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYT 1151 (1208)
Q Consensus 1107 ~H~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~ 1151 (1208)
.|.|+--.....|-+|.-.|+.. |-.+.||||.||..|+.+-.
T Consensus 808 ~~ry~v~ep~d~C~~C~~~ll~~--pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 808 RQRYRVLEPQDSCDHCGRPLLIK--PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred hcceEEecCccchHHhcchhhcC--cceeeeccchHHHHHHHHHH
Confidence 44554444577899999876643 66778999999999998764
No 124
>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=68.26 E-value=3.7 Score=42.88 Aligned_cols=47 Identities=26% Similarity=0.579 Sum_probs=39.0
Q ss_pred CcccceEecCcccCcCCCCccccCCCCCccccCCCCCccccccCCcccccccc
Q 000963 1052 GLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKK 1104 (1208)
Q Consensus 1052 ~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~~~ 1104 (1208)
+......||..|+.+-.. ..+||..||.|-.+. -.||.=-|.|++..
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 456778899999999766 489999999999985 36999999998764
No 125
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=67.98 E-value=4.9 Score=35.38 Aligned_cols=37 Identities=24% Similarity=0.518 Sum_probs=29.5
Q ss_pred CcCCCccccccccccCCCceeecCCCCcCChhhHHHH
Q 000963 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAY 1150 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~ 1150 (1208)
.+...|++|.+.+....+-|+-..||=.+|+.|.+..
T Consensus 3 ~~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 3 YEGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred ccCccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 3567899999996666665666799999999999653
No 126
>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=67.25 E-value=3.8 Score=50.79 Aligned_cols=48 Identities=23% Similarity=0.632 Sum_probs=41.5
Q ss_pred ccccccCCcccCcccccccCCCCcccccccccccccccccccCCCCCCCCCCCC
Q 000963 999 LRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSG 1052 (1208)
Q Consensus 999 l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~~~C~~~~C~~ 1052 (1208)
+.|.-||....|..|.-...-|.- ...+.|-.|+..+++...|.+ |++
T Consensus 214 ~~C~~Cg~~~~C~~C~~~l~~h~~----~~~l~Ch~Cg~~~~~~~~Cp~--C~s 261 (505)
T TIGR00595 214 LLCRSCGYILCCPNCDVSLTYHKK----EGKLRCHYCGYQEPIPKTCPQ--CGS 261 (505)
T ss_pred eEhhhCcCccCCCCCCCceEEecC----CCeEEcCCCcCcCCCCCCCCC--CCC
Confidence 789999999999999888777743 448999999999999999977 754
No 127
>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=66.30 E-value=91 Score=30.97 Aligned_cols=109 Identities=17% Similarity=0.282 Sum_probs=68.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhhhhccccch----hhhhhhhhhhHHhHHHHHHH
Q 000963 297 IMLWHNAIKRELNDIAEAARKIQLSGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVI----FPAVDVELSFAQEHAEEEIQ 372 (1208)
Q Consensus 297 l~~~HkALRrEL~~L~~~a~~i~~~gd~~~L~~L~~r~~fl~~vl~~Hs~aEDevl----FPaL~~r~~me~EH~~ie~l 372 (1208)
+=.-|+.|=..++.+.+.+.. + .....+...+.+|.+....|-..|+.++ ||.+..+. .+|+ ..
T Consensus 13 ID~qH~~l~~~in~l~~a~~~----~--~~~~~~~~~l~~L~~y~~~HF~~EE~~M~~~~yp~~~~H~---~~H~---~~ 80 (126)
T TIGR02481 13 IDAQHKELFELINELYDALSA----G--NGKDELKEILDELIDYTENHFADEEELMEEYGYPDLEEHK---KEHE---KF 80 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHc----C--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHH---HHHH---HH
Confidence 335688887787777776543 1 1245677778888999999999998765 77776543 3444 44
Q ss_pred HHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 000963 373 FDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPL 424 (1208)
Q Consensus 373 ~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPL 424 (1208)
++.+..+...+.... + ..... ..+..+..-|..|+..+-..+.+.
T Consensus 81 l~~l~~l~~~~~~~~-~---~~~~~---~~~~~l~~Wl~~HI~~~D~~~~~~ 125 (126)
T TIGR02481 81 VKKIEELQEAVAEGA-D---ESLAE---ELLDFLKDWLVNHILKEDKKYAPY 125 (126)
T ss_pred HHHHHHHHHHHHcCC-c---hhHHH---HHHHHHHHHHHHHhHHHhHHHHhh
Confidence 555555554443221 1 11222 344556778999999888776553
No 128
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.13 E-value=0.6 Score=54.74 Aligned_cols=53 Identities=23% Similarity=0.468 Sum_probs=44.8
Q ss_pred CcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
+.-..|.||.+.+...-..+..+.|||.+|..|+.+|+.....||.|++.+..
T Consensus 194 slv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 194 SLVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 34567999999876655567778999999999999999989999999998864
No 129
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=64.71 E-value=2.4 Score=56.39 Aligned_cols=51 Identities=29% Similarity=0.595 Sum_probs=41.1
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccchhH
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGDMAV 1169 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~m~~ 1169 (1208)
...|+||++-+.... .+--|||.++..|+..|+..+..||+|+...++...
T Consensus 1153 ~~~c~ic~dil~~~~---~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~~dfg~ 1203 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQG---GIAGCGHEPCCRCDELWLYASSRCPICKSIKGDFGT 1203 (1394)
T ss_pred ccchHHHHHHHHhcC---CeeeechhHhhhHHHHHHHHhccCcchhhhhhhhcc
Confidence 449999999865332 245799999999999999999999999976666443
No 130
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=64.34 E-value=19 Score=40.07 Aligned_cols=45 Identities=24% Similarity=0.336 Sum_probs=26.5
Q ss_pred CCCcchHHHHHHHHHHHHHHHHHhhccccccchhhHHHhhh-hHHHHHHhhhhhHHH
Q 000963 72 LGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIRVK-NIARTYSLEHEGESV 127 (1208)
Q Consensus 72 ~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI~PaLd~Rv~-~v~~~~~~EH~~~~~ 127 (1208)
+.|+=++.-|++| ||||++ +|==.=|--|+ -|+.+|..|-++++.
T Consensus 124 INDPYDlGLLLRh-------LRHHSN----LLAnIgdP~VreqVLsAMqEeeeEEe~ 169 (238)
T PF02084_consen 124 INDPYDLGLLLRH-------LRHHSN----LLANIGDPEVREQVLSAMQEEEEEEEQ 169 (238)
T ss_pred cCChhhHHHHHHH-------HHHHHH----HHhhcCCHHHHHHHHHHHhhhHHHHHH
Confidence 4677777766655 578988 22111112234 488899887665554
No 131
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=64.20 E-value=7.7 Score=44.30 Aligned_cols=15 Identities=33% Similarity=0.930 Sum_probs=10.9
Q ss_pred CCCCCCCCcCccchh
Q 000963 1154 HYICPICSKSLGDMA 1168 (1208)
Q Consensus 1154 ~~~CPiCrksl~~m~ 1168 (1208)
.|.||.|+|.+.|-+
T Consensus 215 PF~C~hC~kAFADRS 229 (279)
T KOG2462|consen 215 PFSCPHCGKAFADRS 229 (279)
T ss_pred CccCCcccchhcchH
Confidence 377888888777754
No 132
>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=63.83 E-value=3.6 Score=41.01 Aligned_cols=17 Identities=35% Similarity=0.757 Sum_probs=14.7
Q ss_pred cCcCCCCccccCCCCCc
Q 000963 1064 KFFDDERVVYHCPFCNL 1080 (1208)
Q Consensus 1064 ~l~d~~k~~yHC~~Cgi 1080 (1208)
||||=.|.+-.||+||-
T Consensus 18 kFYDLnk~PivCP~CG~ 34 (108)
T PF09538_consen 18 KFYDLNKDPIVCPKCGT 34 (108)
T ss_pred hhccCCCCCccCCCCCC
Confidence 67888899999999994
No 133
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=61.59 E-value=3.5 Score=52.79 Aligned_cols=43 Identities=30% Similarity=0.745 Sum_probs=33.8
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhc--CCCCCCCCcCc
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS--HYICPICSKSL 1164 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~--~~~CPiCrksl 1164 (1208)
..|+||++ .+.....+|||.|+.+|+.+.+.. ...||+|+..+
T Consensus 455 ~~c~ic~~-----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc-----cccceeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 78999998 234566799999999999998753 24699999644
No 134
>PRK00808 hypothetical protein; Provisional
Probab=60.91 E-value=28 Score=36.21 Aligned_cols=96 Identities=19% Similarity=0.197 Sum_probs=57.2
Q ss_pred hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHH----HHHHHhhCCH-----
Q 000963 361 SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQV----LPLARRHFSP----- 431 (1208)
Q Consensus 361 ~me~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qv----fPLl~~~fS~----- 431 (1208)
.+..+|++.-.+++.|..++.. .+ ...+...+..|.+-...||..||.-. +|-+..|--.
T Consensus 16 ~ID~qH~~L~~lin~l~~a~~~---~~--------~~~i~~~l~~L~~y~~~HF~~EE~lM~~~~Yp~~~~H~~~H~~fl 84 (150)
T PRK00808 16 VIDQQHKRIVDYINHLHDAQDS---PD--------RLAVAEVIDELIDYTLSHFAFEESLMEEAGYPFLVPHKRVHELFI 84 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHc---Cc--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 5667888777777776655521 11 24577778899999999999999753 4444443221
Q ss_pred HHHHHHHHhHhh--cCCHHHHHHHHhhhcCCCCHHHHH
Q 000963 432 KRQRELLYQSLC--VMPLKLIECVLPWLVGSLSEEEAR 467 (1208)
Q Consensus 432 eEq~eL~~~~l~--smPl~~l~~vLpWl~~~Ls~eE~~ 467 (1208)
++..++..++.. .+...++..+..||+.++.-..++
T Consensus 85 ~~l~~l~~~~~~g~~~~~~l~~~L~~WL~~HI~~~D~~ 122 (150)
T PRK00808 85 KRVEEYRERFQAGEDVADELHGMLSRWLFNHIRNDDAA 122 (150)
T ss_pred HHHHHHHHHHHccchHHHHHHHHHHHHHHHHHHHHhHH
Confidence 222222222211 123345556777887777666544
No 135
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=58.99 E-value=6 Score=46.18 Aligned_cols=53 Identities=25% Similarity=0.533 Sum_probs=40.5
Q ss_pred CcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccc
Q 000963 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGD 1166 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~ 1166 (1208)
+-...||||-+++-..+....--|||+-+|..|...-...+.+||.|++....
T Consensus 247 ~v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 247 SVPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred ccCCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 34578999999864443333334789999999998888889999999987653
No 136
>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=58.17 E-value=5.4 Score=40.78 Aligned_cols=18 Identities=28% Similarity=0.392 Sum_probs=15.4
Q ss_pred cCcCCCCccccCCCCCcc
Q 000963 1064 KFFDDERVVYHCPFCNLC 1081 (1208)
Q Consensus 1064 ~l~d~~k~~yHC~~CgiC 1081 (1208)
||||-.|.+-.||+||.=
T Consensus 18 kFYDLnk~p~vcP~cg~~ 35 (129)
T TIGR02300 18 KFYDLNRRPAVSPYTGEQ 35 (129)
T ss_pred cccccCCCCccCCCcCCc
Confidence 688888999999999954
No 137
>PRK05580 primosome assembly protein PriA; Validated
Probab=58.13 E-value=6.7 Score=50.46 Aligned_cols=49 Identities=22% Similarity=0.611 Sum_probs=41.9
Q ss_pred ccccccCCcccCcccccccCCCCcccccccccccccccccccCCCCCCCCCCCCc
Q 000963 999 LRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGL 1053 (1208)
Q Consensus 999 l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~~~C~~~~C~~~ 1053 (1208)
+.|.-||....|..|.-...-|.. ...+.|-.|+..+++...|.+ |++.
T Consensus 382 ~~C~~Cg~~~~C~~C~~~l~~h~~----~~~l~Ch~Cg~~~~~~~~Cp~--Cg~~ 430 (679)
T PRK05580 382 LLCRDCGWVAECPHCDASLTLHRF----QRRLRCHHCGYQEPIPKACPE--CGST 430 (679)
T ss_pred eEhhhCcCccCCCCCCCceeEECC----CCeEECCCCcCCCCCCCCCCC--CcCC
Confidence 899999999999999988777743 458999999999999999987 7543
No 138
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=58.10 E-value=6.8 Score=45.26 Aligned_cols=44 Identities=23% Similarity=0.637 Sum_probs=34.3
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHHHHhc---CCCCCCCC
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCS---HYICPICS 1161 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~---~~~CPiCr 1161 (1208)
-.|||=.|. -+...|.+.|.|||.+-.+-++..-+. .+.||.|-
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 457777664 555566777999999999999888664 47899996
No 139
>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=58.08 E-value=6.6 Score=48.52 Aligned_cols=12 Identities=33% Similarity=0.883 Sum_probs=6.1
Q ss_pred cccceEecCccc
Q 000963 1053 LSMAKYYCGICK 1064 (1208)
Q Consensus 1053 ~~~a~y~C~~C~ 1064 (1208)
..+-.|||+.|-
T Consensus 22 ~Ei~~~yCp~CL 33 (483)
T PF05502_consen 22 EEIDSYYCPNCL 33 (483)
T ss_pred cccceeECcccc
Confidence 445555555553
No 140
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=57.38 E-value=8 Score=49.96 Aligned_cols=54 Identities=24% Similarity=0.551 Sum_probs=43.0
Q ss_pred ccccccCCcccCcccccccCCCCcccccccccccccccccccCCCCCCCCCCCCcccceEe
Q 000963 999 LRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYY 1059 (1208)
Q Consensus 999 l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~~~C~~~~C~~~~~a~y~ 1059 (1208)
+.|..||-.+.|++|=.-..=|.. +..+.|-+|+..+++-..|.+ | |...=+|+
T Consensus 436 l~C~~Cg~v~~Cp~Cd~~lt~H~~----~~~L~CH~Cg~~~~~p~~Cp~--C-gs~~L~~~ 489 (730)
T COG1198 436 LLCRDCGYIAECPNCDSPLTLHKA----TGQLRCHYCGYQEPIPQSCPE--C-GSEHLRAV 489 (730)
T ss_pred eecccCCCcccCCCCCcceEEecC----CCeeEeCCCCCCCCCCCCCCC--C-CCCeeEEe
Confidence 899999999999999666555533 369999999999999999977 7 44444444
No 141
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=56.94 E-value=9.4 Score=51.35 Aligned_cols=23 Identities=22% Similarity=0.369 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 000963 297 IMLWHNAIKRELNDIAEAARKIQ 319 (1208)
Q Consensus 297 l~~~HkALRrEL~~L~~~a~~i~ 319 (1208)
+..-++-|.+++.++.+.|.+.+
T Consensus 7 ~~~Yf~~l~~~~~~~~~iA~~ar 29 (1337)
T PRK14714 7 MERYFERLERELDKAYEVAEAAR 29 (1337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445566666666666665553
No 142
>PHA03096 p28-like protein; Provisional
Probab=56.48 E-value=5.9 Score=45.74 Aligned_cols=46 Identities=13% Similarity=0.170 Sum_probs=29.8
Q ss_pred CCccccccccccCC---Cceee-cCCCCcCChhhHHHHHhcC---CCCCCCCc
Q 000963 1117 TNCPICCDFLFTSS---ATVRA-LPCGHFMHSDCFQAYTCSH---YICPICSK 1162 (1208)
Q Consensus 1117 ~~CpICle~lf~s~---~~v~~-LpCGH~fH~~Ci~~~~~~~---~~CPiCrk 1162 (1208)
-.|-||+|...... ..-.. -.|-|.|+..|+..|.... -+||.|+.
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 46888888765432 11122 3899999999999997532 34555554
No 143
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=56.40 E-value=7.4 Score=34.86 Aligned_cols=45 Identities=29% Similarity=0.855 Sum_probs=30.2
Q ss_pred ccccccccccccCCC-----CCCCCCCCCcccceEecCcccCcCCCCccccCCCCCc
Q 000963 1029 EMMCMRCLKVQPVGP-----VCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNL 1080 (1208)
Q Consensus 1029 ~~~C~~C~~~q~~~~-----~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~Cgi 1080 (1208)
...|..|+.+-.+.+ .|.| | | ..-=|-|..|+-..+ .|.||+||+
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPn--C-G-e~~I~Rc~~CRk~g~---~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPN--C-G-EVEIYRCAKCRKLGN---PYRCPKCGF 58 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCC--C-C-ceeeehhhhHHHcCC---ceECCCcCc
Confidence 467888888775433 4766 5 4 233467777876654 688888885
No 144
>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=55.12 E-value=8.9 Score=33.05 Aligned_cols=41 Identities=32% Similarity=0.835 Sum_probs=20.2
Q ss_pred CCccccccccccCCCceeecCCCCcCChhhHHH--HHh-----cCCCCCCCCcC
Q 000963 1117 TNCPICCDFLFTSSATVRALPCGHFMHSDCFQA--YTC-----SHYICPICSKS 1163 (1208)
Q Consensus 1117 ~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~--~~~-----~~~~CPiCrks 1163 (1208)
-.|||....|. .|++-..|.|. +||+- |+. ....||+|+++
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 46999987743 47888889877 46654 543 24679999874
No 145
>PRK14873 primosome assembly protein PriA; Provisional
Probab=54.18 E-value=8.1 Score=49.58 Aligned_cols=47 Identities=26% Similarity=0.461 Sum_probs=38.6
Q ss_pred ccccccCCcccCcccccccCCCCcccccccccccccccccccCCCCCCCCCCCC
Q 000963 999 LRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSG 1052 (1208)
Q Consensus 999 l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~~~C~~~~C~~ 1052 (1208)
+.|..||....|..|.-...=|. ....+.|-.|+..+ +...|.+ |++
T Consensus 384 l~C~~Cg~~~~C~~C~~~L~~h~----~~~~l~Ch~CG~~~-~p~~Cp~--Cgs 430 (665)
T PRK14873 384 LACARCRTPARCRHCTGPLGLPS----AGGTPRCRWCGRAA-PDWRCPR--CGS 430 (665)
T ss_pred eEhhhCcCeeECCCCCCceeEec----CCCeeECCCCcCCC-cCccCCC--CcC
Confidence 89999999999999988877664 24589999999977 5789977 754
No 146
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=53.46 E-value=5.1 Score=51.17 Aligned_cols=88 Identities=13% Similarity=0.053 Sum_probs=61.8
Q ss_pred HHHHHHHHhHHHHHH-----HHHHHHHhhCCHHHHHHHHHhHhhcCCHHHHHHHHhhhcCCCCHHHHHHHHHHhhhhCCC
Q 000963 405 LIMASIQKHFRNEEV-----QVLPLARRHFSPKRQRELLYQSLCVMPLKLIECVLPWLVGSLSEEEARSFLQNIYMAAPA 479 (1208)
Q Consensus 405 ~L~~~L~~Hl~~EE~-----qvfPLl~~~fS~eEq~eL~~~~l~smPl~~l~~vLpWl~~~Ls~eE~~~~L~~l~~~aP~ 479 (1208)
.+-...-.|+..|++ -+.|.+=.. +.+||+..+.+|.-.--+..+.-+||=.-+.|.|.-...+|.-.=. |-
T Consensus 393 kv~~~yI~HLl~~~~y~~Aas~~p~m~gn-~~~eWe~~V~~f~e~~~l~~Ia~~lPt~~~rL~p~vYemvLve~L~--~~ 469 (846)
T KOG2066|consen 393 KVGKTYIDHLLFEGKYDEAASLCPKMLGN-NAAEWELWVFKFAELDQLTDIAPYLPTGPPRLKPLVYEMVLVEFLA--SD 469 (846)
T ss_pred HHHHHHHHHHHhcchHHHHHhhhHHHhcc-hHHHHHHHHHHhccccccchhhccCCCCCcccCchHHHHHHHHHHH--HH
Confidence 334446666654443 344444333 4578999999988777777888889988899999999988876554 55
Q ss_pred ChhHHHHHHHHhhhcCC
Q 000963 480 SDSALITLFAGWACKGH 496 (1208)
Q Consensus 480 ~~~~~~~l~~~w~~~~~ 496 (1208)
.+. |-.+++.|-+.-|
T Consensus 470 ~~~-F~e~i~~Wp~~Ly 485 (846)
T KOG2066|consen 470 VKG-FLELIKEWPGHLY 485 (846)
T ss_pred HHH-HHHHHHhCChhhh
Confidence 555 8889999955444
No 147
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=53.39 E-value=7.4 Score=50.10 Aligned_cols=48 Identities=27% Similarity=0.661 Sum_probs=34.9
Q ss_pred cCCCccccccccccCCCceee-cCCCCcCChhhHHHHHhc-------CCCCCCCCcC
Q 000963 1115 LETNCPICCDFLFTSSATVRA-LPCGHFMHSDCFQAYTCS-------HYICPICSKS 1163 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~-LpCGH~fH~~Ci~~~~~~-------~~~CPiCrks 1163 (1208)
....|.||.|.|-. +.++-. -.|=|.||..||..|.+. ..+||-|+..
T Consensus 190 ~~yeCmIC~e~I~~-t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 190 RKYECMICTERIKR-TAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred CceEEEEeeeeccc-cCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 35679999998654 334432 256699999999999763 3679999943
No 148
>PF14357 DUF4404: Domain of unknown function (DUF4404)
Probab=53.26 E-value=92 Score=29.87 Aligned_cols=82 Identities=13% Similarity=0.095 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHHHhhccccccchhhHHHhhhhHHHHHHhhhhhHHHHHHHHH
Q 000963 54 IKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVIFPALDIRVKNIARTYSLEHEGESVLFDQLF 133 (1208)
Q Consensus 54 lR~eL~~l~~~a~~~~~~~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI~PaLd~Rv~~v~~~~~~EH~~~~~lf~~L~ 133 (1208)
||..|..|+.-+...++ -|......|..=-+.+...+.. ..|...--+.|..|+...+.+|+.+|=.....+..|-
T Consensus 2 L~~~L~~L~~eL~~~~~--ld~~~~~~L~~l~~dIe~~L~~--~~~~~~~~~~l~d~l~~av~~FE~~HP~l~~~lr~i~ 77 (85)
T PF14357_consen 2 LQELLEKLHQELEQNPP--LDEETRAELSSLDDDIEAQLAE--EDEAEAEDESLVDRLNEAVERFEASHPKLAGILRNIM 77 (85)
T ss_pred HHHHHHHHHHHHhcCCC--CCHHHHHHHHHHHHHHHHHHhc--CCcccccchhHHHHHHHHHHHHHHhCCcHHHHHHHHH
Confidence 57888888888888887 5666666665555555666554 5677788899999999999999999999998888887
Q ss_pred HHHHhh
Q 000963 134 ELLNSS 139 (1208)
Q Consensus 134 ~~l~~~ 139 (1208)
..|..+
T Consensus 78 ~sLa~M 83 (85)
T PF14357_consen 78 DSLANM 83 (85)
T ss_pred HHHHHC
Confidence 777543
No 149
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.05 E-value=5.7 Score=47.68 Aligned_cols=36 Identities=25% Similarity=0.488 Sum_probs=26.6
Q ss_pred CCCccccc-cccccCCCceeecCCCCcCChhhHHHHHh
Q 000963 1116 ETNCPICC-DFLFTSSATVRALPCGHFMHSDCFQAYTC 1152 (1208)
Q Consensus 1116 ~~~CpICl-e~lf~s~~~v~~LpCGH~fH~~Ci~~~~~ 1152 (1208)
...|.||. ++.+....-. +..|||.|+.+|..+++.
T Consensus 146 ~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred cccCccCccccccHhhhHH-HhcccchhhhHHhHHHhh
Confidence 46799999 5433323323 578999999999999976
No 150
>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=52.88 E-value=7.7 Score=38.74 Aligned_cols=32 Identities=25% Similarity=0.517 Sum_probs=24.1
Q ss_pred ccccccccCCcccCcccccccCCCCcccccccccccccccccccCC
Q 000963 997 CKLRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVG 1042 (1208)
Q Consensus 997 c~l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~ 1042 (1208)
-|-.||-||+-| .+... ..++|.+|+++|++.
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 466789998744 34433 579999999999887
No 151
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=52.59 E-value=10 Score=44.19 Aligned_cols=46 Identities=17% Similarity=0.366 Sum_probs=34.9
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSL 1164 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl 1164 (1208)
...||||+... .++.+.--=|-.||-.|+-.|.....+|||=.+++
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 57899998752 22333223499999999999999999999877655
No 152
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=50.46 E-value=7 Score=38.42 Aligned_cols=32 Identities=22% Similarity=0.656 Sum_probs=26.6
Q ss_pred CccccCCCCC-----ccccCCCCCccccccCCccccc
Q 000963 1070 RVVYHCPFCN-----LCRVGRGLGVDFFHCMTCNCCL 1101 (1208)
Q Consensus 1070 k~~yHC~~Cg-----iCRvG~gl~~~~fHC~~C~~C~ 1101 (1208)
+..|-||.|| +|-|.+++++-+-||..||.-.
T Consensus 20 ~k~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~ 56 (104)
T COG4888 20 PKTFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSF 56 (104)
T ss_pred CceEecCccCCeeeeEEEEEecCceeEEEcccCcceE
Confidence 4578899998 8999888888899999998754
No 153
>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=50.15 E-value=14 Score=44.87 Aligned_cols=31 Identities=23% Similarity=0.356 Sum_probs=17.7
Q ss_pred HHHHHHHhhhccCCCCCHHHHHHHHHHHHHHHH
Q 000963 920 NELEAEIRKVSRDSTLDPRRKAYLIQNLMTSRW 952 (1208)
Q Consensus 920 ~~l~~~Ir~i~~~~~l~~~~ka~liq~Lm~~~~ 952 (1208)
..|+..||.|--. .+.+..-...|+++-.|-
T Consensus 21 ~~lk~~lr~i~~~--~~~r~e~~~lQ~~l~~Rs 51 (446)
T PF07227_consen 21 EELKEYLREILEG--PEKREEFVALQKLLQRRS 51 (446)
T ss_pred HHHHHHHHHHHhC--cchHHHHHHHHHHHhccc
Confidence 3566777777533 444444556677665553
No 154
>cd00522 Hemerythrin Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the muscle tissue of sipunculids as well as in polycheate and oligocheate annelids. In addition to oxygen transport, Mhr proteins are involved in cadmium fixation and host anti-bacterial defense. Hr and Mhr proteins have the same "four alpha helix bundle" motif and active site structure. Hr forms oligomers, the octameric form being most prevalent, while Mhr is monomeric.
Probab=50.06 E-value=67 Score=31.83 Aligned_cols=51 Identities=20% Similarity=0.232 Sum_probs=31.9
Q ss_pred hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHH----HHHHHhh
Q 000963 361 SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQV----LPLARRH 428 (1208)
Q Consensus 361 ~me~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qv----fPLl~~~ 428 (1208)
.+..+|++.-.+++.|..++.. ...+..|..-...||..||.-. +|-+..|
T Consensus 14 ~ID~qH~~L~~l~n~l~~a~~~-----------------~~~l~~L~~y~~~HF~~EE~~M~~~~yp~~~~H 68 (113)
T cd00522 14 VIDDEHKTLFNGINDLSEANNR-----------------ADNLKELVDYTVKHFKDEEALMEAAGYPDYEEH 68 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHhH-----------------HHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHH
Confidence 4456666665555555544422 2346677777899999999764 4555544
No 155
>PLN03086 PRLI-interacting factor K; Provisional
Probab=49.97 E-value=24 Score=44.43 Aligned_cols=12 Identities=17% Similarity=0.562 Sum_probs=8.9
Q ss_pred CCCCCCCCcCcc
Q 000963 1154 HYICPICSKSLG 1165 (1208)
Q Consensus 1154 ~~~CPiCrksl~ 1165 (1208)
.+.||.|.+.+.
T Consensus 504 pi~C~fC~~~v~ 515 (567)
T PLN03086 504 LITCRFCGDMVQ 515 (567)
T ss_pred ceeCCCCCCccc
Confidence 467888888773
No 156
>PRK00808 hypothetical protein; Provisional
Probab=49.62 E-value=3.2e+02 Score=28.45 Aligned_cols=110 Identities=16% Similarity=0.231 Sum_probs=71.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhhhhccccch----hhhhhhhhhhHHhHHHHHHH
Q 000963 297 IMLWHNAIKRELNDIAEAARKIQLSGDFSDLSAFNKRLQFIAEVCIFHSIAEDKVI----FPAVDVELSFAQEHAEEEIQ 372 (1208)
Q Consensus 297 l~~~HkALRrEL~~L~~~a~~i~~~gd~~~L~~L~~r~~fl~~vl~~Hs~aEDevl----FPaL~~r~~me~EH~~ie~l 372 (1208)
+=.-|+.|=.-++.|...+. .++ ...+..-+.+|.+....|=..|+.++ ||.++.+. .+++..
T Consensus 17 ID~qH~~L~~lin~l~~a~~----~~~---~~~i~~~l~~L~~y~~~HF~~EE~lM~~~~Yp~~~~H~------~~H~~f 83 (150)
T PRK00808 17 IDQQHKRIVDYINHLHDAQD----SPD---RLAVAEVIDELIDYTLSHFAFEESLMEEAGYPFLVPHK------RVHELF 83 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHH----cCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHH------HHHHHH
Confidence 33467777666666665542 222 24566668888898999999898764 77776444 333444
Q ss_pred HHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Q 000963 373 FDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLARRH 428 (1208)
Q Consensus 373 ~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPLl~~~ 428 (1208)
++.+..+...... + . ... ...+.-|..-|..|...+-....+.+.+.
T Consensus 84 l~~l~~l~~~~~~-g-~----~~~---~~l~~~L~~WL~~HI~~~D~~~~~~l~~~ 130 (150)
T PRK00808 84 IKRVEEYRERFQA-G-E----DVA---DELHGMLSRWLFNHIRNDDAAYVDAVKAN 130 (150)
T ss_pred HHHHHHHHHHHHc-c-c----hHH---HHHHHHHHHHHHHHHHHHhHHHHHHHHHh
Confidence 5555555544432 2 1 122 23445678889999999999999998885
No 157
>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=49.57 E-value=12 Score=29.43 Aligned_cols=24 Identities=38% Similarity=1.089 Sum_probs=18.9
Q ss_pred eEecCcccCc-CCCCccccCCCCCc
Q 000963 1057 KYYCGICKFF-DDERVVYHCPFCNL 1080 (1208)
Q Consensus 1057 ~y~C~~C~l~-d~~k~~yHC~~Cgi 1080 (1208)
.|-|.+|.+. |.++..+.||.||.
T Consensus 1 ~~~C~~CGy~y~~~~~~~~CP~Cg~ 25 (33)
T cd00350 1 KYVCPVCGYIYDGEEAPWVCPVCGA 25 (33)
T ss_pred CEECCCCCCEECCCcCCCcCcCCCC
Confidence 4788999765 65578999999985
No 158
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=48.89 E-value=9.2 Score=44.18 Aligned_cols=30 Identities=33% Similarity=0.892 Sum_probs=21.8
Q ss_pred eecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1134 RALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1134 ~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
+.+||.|.||.+|...- .-..||.|.-.|.
T Consensus 105 RmIPCkHvFCl~CAr~~--~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 105 RMIPCKHVFCLECARSD--SDKICPLCDDRVQ 134 (389)
T ss_pred cccccchhhhhhhhhcC--ccccCcCcccHHH
Confidence 45799999999998431 2357999987554
No 159
>PLN02189 cellulose synthase
Probab=48.88 E-value=13 Score=49.49 Aligned_cols=53 Identities=21% Similarity=0.399 Sum_probs=36.4
Q ss_pred cCCcCCCccccccccccCCCceeec---CCCCcCChhhHHHHHh--cCCCCCCCCcCcc
Q 000963 1112 EKGLETNCPICCDFLFTSSATVRAL---PCGHFMHSDCFQAYTC--SHYICPICSKSLG 1165 (1208)
Q Consensus 1112 e~~~~~~CpICle~lf~s~~~v~~L---pCGH~fH~~Ci~~~~~--~~~~CPiCrksl~ 1165 (1208)
++.....|.||.|++=...+.-.+. -||--.|+.|+ +|.+ .+..||-|+...-
T Consensus 30 ~~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cy-eyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 30 RNLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCY-EYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccCccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchh
Confidence 3445679999999965333322333 46777999999 6653 4678999998553
No 160
>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=48.43 E-value=3.9 Score=47.03 Aligned_cols=50 Identities=18% Similarity=0.232 Sum_probs=21.6
Q ss_pred CcCChhhHHHHHhcCCCCCCCCcCccchhHhhhhcHHHHhhcCCcHHhhccccEEEcCCCCC
Q 000963 1140 HFMHSDCFQAYTCSHYICPICSKSLGDMAVYFGMLDALLASEQLPEEYRDRCQVKILHIFKL 1201 (1208)
Q Consensus 1140 H~fH~~Ci~~~~~~~~~CPiCrksl~~m~~~~~~lD~~i~~~pmP~ey~~~~~~IlCndc~~ 1201 (1208)
|.+|.-|-..|-.....||.|..+=..--.+|. .++....+ .-.|.+|+.
T Consensus 197 ~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l~~~~-----------~e~~~~~r-ve~C~~C~~ 246 (290)
T PF04216_consen 197 YLHCSLCGTEWRFVRIKCPYCGNTDHEKLEYFT-----------VEGEPAYR-VEVCESCGS 246 (290)
T ss_dssp EEEETTT--EEE--TTS-TTT---SS-EEE-------------------SEE-EEEETTTTE
T ss_pred EEEcCCCCCeeeecCCCCcCCCCCCCcceeeEe-----------cCCCCcEE-EEECCcccc
Confidence 445567888887778899999975443222332 11112344 445999974
No 161
>PRK01917 cation-binding hemerythrin HHE family protein; Provisional
Probab=46.99 E-value=48 Score=34.15 Aligned_cols=70 Identities=13% Similarity=0.159 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHH----HHHHHhhCCH-----HHHHHHHHhHhh----cCCHHHHHHHHhhhcCCCCHH
Q 000963 398 KLCSQADLIMASIQKHFRNEEVQV----LPLARRHFSP-----KRQRELLYQSLC----VMPLKLIECVLPWLVGSLSEE 464 (1208)
Q Consensus 398 eLa~~le~L~~~L~~Hl~~EE~qv----fPLl~~~fS~-----eEq~eL~~~~l~----smPl~~l~~vLpWl~~~Ls~e 464 (1208)
.+...++.|..-...||..||.-. +|-+..|--. ++..++..+... .+...++..+..||+.++.-.
T Consensus 38 ~i~~~l~~L~~y~~~HF~~EE~lM~~~~YP~~~~H~~eH~~fl~~v~~l~~~~~~~g~~~~~~~l~~~L~~Wl~~HI~~~ 117 (139)
T PRK01917 38 DFLQALDAWIDHTRHHFAQEERWMEATKFGPRHCHRAEHDEVLAVAADVREKVARDGDFELGRRLVAELPEWFDQHVRTM 117 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 356778888999999999999643 3433333211 112222222211 233444555667877776655
Q ss_pred HHH
Q 000963 465 EAR 467 (1208)
Q Consensus 465 E~~ 467 (1208)
.++
T Consensus 118 D~~ 120 (139)
T PRK01917 118 DAM 120 (139)
T ss_pred HHH
Confidence 544
No 162
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=46.63 E-value=9.3 Score=48.61 Aligned_cols=78 Identities=22% Similarity=0.335 Sum_probs=50.8
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHHh---cCCCCCCCCcCccch----hHhhhhcHHHHhhcCCcHHh
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTC---SHYICPICSKSLGDM----AVYFGMLDALLASEQLPEEY 1187 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~---~~~~CPiCrksl~~m----~~~~~~lD~~i~~~pmP~ey 1187 (1208)
..-.||||++..|+. ..+.|-|.|...|+..-+. ..-.||+|+..+..- +..+.++-+ +|
T Consensus 20 k~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~Es~r~sq~vq---------e~ 86 (684)
T KOG4362|consen 20 KILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRESPRFSQLSK---------ES 86 (684)
T ss_pred hhccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccccchHHHHHH---------Hh
Confidence 367899999998876 3489999999999987432 345799999665432 222222222 33
Q ss_pred hccccEEEcCCCCCcCccc
Q 000963 1188 RDRCQVKILHIFKLLGSFK 1206 (1208)
Q Consensus 1188 ~~~~~~IlCndc~~~~~~~ 1206 (1208)
-+.. .+.|-||+.+..++
T Consensus 87 lk~k-~~~~~~~~l~~s~~ 104 (684)
T KOG4362|consen 87 LKTK-SASQCDTGLEYSFK 104 (684)
T ss_pred cCCc-cccccccccccccc
Confidence 3332 45677777776664
No 163
>PLN02436 cellulose synthase A
Probab=45.74 E-value=15 Score=48.91 Aligned_cols=53 Identities=19% Similarity=0.441 Sum_probs=36.7
Q ss_pred ccCCcCCCccccccccccCCCceeec---CCCCcCChhhHHHHHh--cCCCCCCCCcCc
Q 000963 1111 REKGLETNCPICCDFLFTSSATVRAL---PCGHFMHSDCFQAYTC--SHYICPICSKSL 1164 (1208)
Q Consensus 1111 ~e~~~~~~CpICle~lf~s~~~v~~L---pCGH~fH~~Ci~~~~~--~~~~CPiCrksl 1164 (1208)
......+.|.||.|++=...+.-.+. -||--.|+.|+ +|.+ .+..||-|+...
T Consensus 31 ~~~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cy-eyer~eg~~~Cpqckt~Y 88 (1094)
T PLN02436 31 VQELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCY-EYERREGNQACPQCKTRY 88 (1094)
T ss_pred ccccCCccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCch
Confidence 33445679999999974444333344 46666999999 6653 467899999855
No 164
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=45.42 E-value=12 Score=38.70 Aligned_cols=49 Identities=27% Similarity=0.534 Sum_probs=35.4
Q ss_pred cCCCccccccccccCCCceeec----CCCCcCChhhHHHHHhc---CCCCCCCCcCccch
Q 000963 1115 LETNCPICCDFLFTSSATVRAL----PCGHFMHSDCFQAYTCS---HYICPICSKSLGDM 1167 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~L----pCGH~fH~~Ci~~~~~~---~~~CPiCrksl~~m 1167 (1208)
.--.|-||.|. |.+ -++| =||-.++..|+...++. +..||+|+.|.-.-
T Consensus 79 ~lYeCnIC~et---S~e-e~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKET---SAE-ERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccc---cch-hhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 34578899875 333 2344 38999999999996653 46799999887543
No 165
>PRK04023 DNA polymerase II large subunit; Validated
Probab=44.96 E-value=19 Score=47.66 Aligned_cols=48 Identities=25% Similarity=0.551 Sum_probs=28.8
Q ss_pred CCCCCCCCCCCcccceEecCcccCcCCCCccccCCCCCccccCCCCCccccccCCccccc
Q 000963 1042 GPVCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCL 1101 (1208)
Q Consensus 1042 ~~~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~ 1101 (1208)
...|.. | |......+|..|.-- ...+|.|+.||..-.+ ..|.+||.=.
T Consensus 626 ~RfCps--C-G~~t~~frCP~CG~~--Te~i~fCP~CG~~~~~-------y~CPKCG~El 673 (1121)
T PRK04023 626 RRKCPS--C-GKETFYRRCPFCGTH--TEPVYRCPRCGIEVEE-------DECEKCGREP 673 (1121)
T ss_pred CccCCC--C-CCcCCcccCCCCCCC--CCcceeCccccCcCCC-------CcCCCCCCCC
Confidence 356765 5 556666677777544 3567777777554332 3477776544
No 166
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=44.39 E-value=19 Score=41.71 Aligned_cols=76 Identities=26% Similarity=0.520 Sum_probs=51.2
Q ss_pred cCCC----CccccCCCCCccccCCCCCccccccCCcccccccc--c--cccccccCCcCCCccccccccccCCCceeecC
Q 000963 1066 FDDE----RVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKK--L--VDHKCREKGLETNCPICCDFLFTSSATVRALP 1137 (1208)
Q Consensus 1066 ~d~~----k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~~~--l--~~H~C~e~~~~~~CpICle~lf~s~~~v~~Lp 1137 (1208)
|||= +-+=||..|-. -| -.-+=||.| +.|.+-. . ..|--..|.....|-.|-+- +++|.+++
T Consensus 169 WdDVLks~Ripg~Ces~~~--pg-~fAEFfFKC---~ah~~~~k~~aa~lhli~~N~~ni~C~~Ctdv----~~~vlvf~ 238 (446)
T KOG0006|consen 169 WDDVLKSKRIPGVCESCCT--PG-LFAEFFFKC---GAHPTSDKETAAALHLIATNSRNITCITCTDV----RSPVLVFQ 238 (446)
T ss_pred hhhhhhcccCccccccccC--Cc-chHhheehh---ccCCCccccchhHHHHhhcccccceeEEecCC----ccceEEEe
Confidence 6664 66778877642 22 112345655 4554332 2 45666667778899999764 45788899
Q ss_pred CC--CcCChhhHHHHH
Q 000963 1138 CG--HFMHSDCFQAYT 1151 (1208)
Q Consensus 1138 CG--H~fH~~Ci~~~~ 1151 (1208)
|. |..+..||.-|-
T Consensus 239 Cns~HvtC~dCFr~yc 254 (446)
T KOG0006|consen 239 CNSRHVTCLDCFRLYC 254 (446)
T ss_pred cCCceeehHHhhhhHh
Confidence 98 999999999874
No 167
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.39 E-value=11 Score=41.78 Aligned_cols=38 Identities=39% Similarity=0.822 Sum_probs=27.7
Q ss_pred ccccccccccCCCceeecCCCCc-CChhhHHHHHhcCCCCCCCCcCc
Q 000963 1119 CPICCDFLFTSSATVRALPCGHF-MHSDCFQAYTCSHYICPICSKSL 1164 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCGH~-fH~~Ci~~~~~~~~~CPiCrksl 1164 (1208)
|-.|.+. ...|..+||-|. +|..|-.. -..||||+...
T Consensus 161 Cr~C~~~----~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGER----EATVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcC----CceEEeecccceEeccccccc----CccCCCCcChh
Confidence 8888775 334778999976 67788743 45699999654
No 168
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=42.53 E-value=9.7 Score=45.51 Aligned_cols=33 Identities=30% Similarity=0.783 Sum_probs=25.7
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHH
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYT 1151 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~ 1151 (1208)
.+..||||..+ |. +| .+|||||.+|+.|....+
T Consensus 3 eelkc~vc~~f-~~--ep-iil~c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 3 EELKCPVCGSF-YR--EP-IILPCSHNLCQACARNIL 35 (699)
T ss_pred ccccCceehhh-cc--Cc-eEeecccHHHHHHHHhhc
Confidence 36789999976 43 33 469999999999998754
No 169
>KOG3850 consensus Predicted membrane protein [Function unknown]
Probab=42.41 E-value=7.1e+02 Score=30.37 Aligned_cols=129 Identities=19% Similarity=0.247 Sum_probs=73.9
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCcccH-HHHHHHHHHHHHHHHhhhhccccchhhhhhhhh--hhHHhHHHHHHHHHHHH
Q 000963 301 HNAIKRELNDIAEAARKIQLSGDFSDL-SAFNKRLQFIAEVCIFHSIAEDKVIFPAVDVEL--SFAQEHAEEEIQFDKLR 377 (1208)
Q Consensus 301 HkALRrEL~~L~~~a~~i~~~gd~~~L-~~L~~r~~fl~~vl~~Hs~aEDevlFPaL~~r~--~me~EH~~ie~l~e~l~ 377 (1208)
=+||-.||++|.+.-..++ .+..+| .++..-+.|+.+.|. |+.+-.-.|++.+ ..+....+|..+=-++.
T Consensus 262 l~aileeL~eIk~~q~~Le--esye~Lke~~krdy~fi~etLQ-----EERyR~erLEEqLNdlteLqQnEi~nLKqEla 334 (455)
T KOG3850|consen 262 LDAILEELREIKETQALLE--ESYERLKEQIKRDYKFIAETLQ-----EERYRYERLEEQLNDLTELQQNEIANLKQELA 334 (455)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 4577788888888777764 333455 666666777777776 6666666666555 33444444333222222
Q ss_pred HHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH---HHHHhhCCHHHHHHHHHhHhhcC
Q 000963 378 CLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVL---PLARRHFSPKRQRELLYQSLCVM 445 (1208)
Q Consensus 378 ~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvf---PLl~~~fS~eEq~eL~~~~l~sm 445 (1208)
..-..++= .-| +=+..+.+.+++...|+.+=|.+.- -+--++++++-|..|+.+++-.+
T Consensus 335 smeervaY--------Qsy-ERaRdIqEalEscqtrisKlEl~qq~qqv~Q~e~~~na~a~~llgk~iNii 396 (455)
T KOG3850|consen 335 SMEERVAY--------QSY-ERARDIQEALESCQTRISKLELQQQQQQVVQLEGLENAVARRLLGKFINII 396 (455)
T ss_pred HHHHHHHH--------HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHH
Confidence 11111100 001 1244566667777777777776554 22345677778888888877643
No 170
>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=41.45 E-value=17 Score=41.48 Aligned_cols=43 Identities=28% Similarity=0.536 Sum_probs=26.4
Q ss_pred CCcCCCccccccccccCCCceeecCCCC----cCChhhHHHH-HhcCCCCC
Q 000963 1113 KGLETNCPICCDFLFTSSATVRALPCGH----FMHSDCFQAY-TCSHYICP 1158 (1208)
Q Consensus 1113 ~~~~~~CpICle~lf~s~~~v~~LpCGH----~fH~~Ci~~~-~~~~~~CP 1158 (1208)
..+-.-|+||+|- ...+.+-.-| -| -=|++||++| +-.+..||
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 3455679999885 3222222111 12 2489999998 45678898
No 171
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=40.43 E-value=20 Score=42.17 Aligned_cols=26 Identities=19% Similarity=0.734 Sum_probs=19.5
Q ss_pred CcccceEe--cCcccCcCCCCccccCCCCCc
Q 000963 1052 GLSMAKYY--CGICKFFDDERVVYHCPFCNL 1080 (1208)
Q Consensus 1052 ~~~~a~y~--C~~C~l~d~~k~~yHC~~Cgi 1080 (1208)
...|--|| |.||+.++. .|.|++||+
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 34566666 778877655 899999995
No 172
>PLN03086 PRLI-interacting factor K; Provisional
Probab=39.30 E-value=13 Score=46.63 Aligned_cols=31 Identities=32% Similarity=0.836 Sum_probs=18.2
Q ss_pred cccCCccccccccc-cccc---cccCCcCCCccccccc
Q 000963 1092 FHCMTCNCCLAKKL-VDHK---CREKGLETNCPICCDF 1125 (1208)
Q Consensus 1092 fHC~~C~~C~~~~l-~~H~---C~e~~~~~~CpICle~ 1125 (1208)
+.|. ||..+.... ..|. |-++ ...|+.|...
T Consensus 479 v~Cp-Cg~~~~R~~L~~H~~thCp~K--pi~C~fC~~~ 513 (567)
T PLN03086 479 LQCP-CGVVLEKEQMVQHQASTCPLR--LITCRFCGDM 513 (567)
T ss_pred ccCC-CCCCcchhHHHhhhhccCCCC--ceeCCCCCCc
Confidence 3466 665443332 5663 5554 5679999765
No 173
>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=38.36 E-value=10 Score=35.15 Aligned_cols=10 Identities=30% Similarity=1.152 Sum_probs=7.3
Q ss_pred cceEecCccc
Q 000963 1055 MAKYYCGICK 1064 (1208)
Q Consensus 1055 ~a~y~C~~C~ 1064 (1208)
-+.|||..|+
T Consensus 48 AvdYFC~~c~ 57 (70)
T PF07191_consen 48 AVDYFCNHCH 57 (70)
T ss_dssp EEEEE-TTTT
T ss_pred ccceeeccCC
Confidence 4689999986
No 174
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=37.87 E-value=23 Score=47.44 Aligned_cols=53 Identities=21% Similarity=0.461 Sum_probs=36.4
Q ss_pred ccCCcCCCccccccccccCCCceeec---CCCCcCChhhHHHHHh--cCCCCCCCCcCc
Q 000963 1111 REKGLETNCPICCDFLFTSSATVRAL---PCGHFMHSDCFQAYTC--SHYICPICSKSL 1164 (1208)
Q Consensus 1111 ~e~~~~~~CpICle~lf~s~~~v~~L---pCGH~fH~~Ci~~~~~--~~~~CPiCrksl 1164 (1208)
..+...+.|-||.|++=...+.-.+. -||--.|+.|+ +|-+ .+..||.|+...
T Consensus 12 ~~~~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EYEr~eG~q~CPqCktrY 69 (1079)
T PLN02638 12 MKHGGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EYERKDGNQSCPQCKTKY 69 (1079)
T ss_pred ccccCCceeeecccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCch
Confidence 34445678999999964443333334 55666999999 6653 467899999754
No 175
>PF14631 FancD2: Fanconi anaemia protein FancD2 nuclease; PDB: 3S4W_B.
Probab=37.86 E-value=7.4e+02 Score=35.35 Aligned_cols=99 Identities=20% Similarity=0.290 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHhhhcCchhHHHHHHHHHH---------HHHHHHHHhHHHHHHHhhhhHhh----cCCHHHHHHH---HH
Q 000963 127 VLFDQLFELLNSSMRNEESYRRELASCTG---------ALQTSISQHMSKEEEQVFPLLIE----KFSFEEQASL---VW 190 (1208)
Q Consensus 127 ~lf~~L~~~l~~~~~~~~~~~~eLa~~l~---------~l~~~l~qHm~~EE~qv~PLl~~----~fS~~E~a~L---~~ 190 (1208)
.++++|++.++.. +..+-+++...+- .+-..|.+=|..++.-+.|.|.. .++++.+..+ +-
T Consensus 192 ~l~~kl~~~l~~a---p~~lq~eiI~~LPeIl~ds~h~~v~~~L~~ll~~~~~L~~~iLd~Ls~L~Ls~~~l~~vr~~vl 268 (1426)
T PF14631_consen 192 ELTDKLFEVLSIA---PVELQKEIISSLPEILDDSQHDEVVEELLELLQENPELTVPILDALSNLNLSPELLEEVREKVL 268 (1426)
T ss_dssp HHHHHHHHHHHHS----TTTHHHHHHTHHHHS-GGGHHHHHHHHHHHHHH-STTHHHHHHHHHHS---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhC---CHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHhcCCchhhhHHHHHhcCCCCHHHHHHHHHHHH
Confidence 5566666665543 2223344444432 22223333344444445566554 3455555444 45
Q ss_pred HHhcccCHHHHHHHHhhhcCCCCHHHHHHHHHHHhhcC
Q 000963 191 QFLCSIPVNMMAEFLPWLSSSISSDEHQDMRKCLCKII 228 (1208)
Q Consensus 191 ~~i~siP~~~m~~~LpWm~~~lsp~Er~~~l~~l~~~~ 228 (1208)
..+.+++++.|..++..++.++++.+-..+...||+..
T Consensus 269 ~~L~s~~~e~LP~lirFLL~s~t~~da~evI~~LR~~L 306 (1426)
T PF14631_consen 269 EKLSSVDLEDLPVLIRFLLQSITPSDAVEVISELRENL 306 (1426)
T ss_dssp HSTTSS-TTHHHHHHHHHHHS-SSTTHHHHHHHHHHHH
T ss_pred HHHhcCChhhhHHHHHHHHHhCCcccHHHHHHHHHHHc
Confidence 57788999999999999999999999999999999864
No 176
>PF12773 DZR: Double zinc ribbon
Probab=37.27 E-value=29 Score=29.29 Aligned_cols=16 Identities=25% Similarity=0.663 Sum_probs=8.5
Q ss_pred cccccccccC-CCCCCC
Q 000963 1032 CMRCLKVQPV-GPVCTT 1047 (1208)
Q Consensus 1032 C~~C~~~q~~-~~~C~~ 1047 (1208)
|..|+++.+. +..|.+
T Consensus 1 Cp~Cg~~~~~~~~fC~~ 17 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPH 17 (50)
T ss_pred CCCcCCcCCccccCChh
Confidence 4556655444 345655
No 177
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=36.82 E-value=23 Score=44.70 Aligned_cols=45 Identities=24% Similarity=0.447 Sum_probs=35.0
Q ss_pred ccceEecCcccCcCCC-CccccCCCCCccccCCCCCccccccCCcccccccc
Q 000963 1054 SMAKYYCGICKFFDDE-RVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKK 1104 (1208)
Q Consensus 1054 ~~a~y~C~~C~l~d~~-k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~~~ 1104 (1208)
....+||..|.-|=.| .-.=.||+||.+..++ -||+.||.++...
T Consensus 123 ~~~~~Yc~~~e~fl~dr~v~g~cp~cg~~~arG------D~Ce~Cg~~~~P~ 168 (558)
T COG0143 123 EYEGLYCVSCERFLPDRYVEGTCPKCGGEDARG------DQCENCGRTLDPT 168 (558)
T ss_pred ceeeeEcccccccccchheeccCCCcCccccCc------chhhhccCcCCch
Confidence 4566899999876555 4455799999999985 4899999998753
No 178
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=36.56 E-value=19 Score=39.52 Aligned_cols=31 Identities=35% Similarity=0.881 Sum_probs=22.1
Q ss_pred ccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCc
Q 000963 1127 FTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSK 1162 (1208)
Q Consensus 1127 f~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrk 1162 (1208)
|+..+.++--.|+-.||..|+. ...||-|.+
T Consensus 167 F~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 167 FQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 3333334446899999999995 366999975
No 179
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=35.09 E-value=13 Score=46.88 Aligned_cols=29 Identities=31% Similarity=0.595 Sum_probs=23.3
Q ss_pred CCcccccc----ccccccccCCcccCcccccccC
Q 000963 989 GCEHYKRN----CKLRAACCGKLFTCRFCHDKVS 1018 (1208)
Q Consensus 989 gC~HY~r~----c~l~~~cC~k~y~Cr~CHde~~ 1018 (1208)
||.|+--. ..-.|.-+|+|| |..||....
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 78888773 457788899977 999998855
No 180
>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=35.05 E-value=15 Score=30.08 Aligned_cols=13 Identities=46% Similarity=1.185 Sum_probs=5.5
Q ss_pred cceEecCcccCcC
Q 000963 1055 MAKYYCGICKFFD 1067 (1208)
Q Consensus 1055 ~a~y~C~~C~l~d 1067 (1208)
|.+|||+.|+.|=
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 181
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=34.73 E-value=14 Score=43.12 Aligned_cols=23 Identities=13% Similarity=0.355 Sum_probs=17.5
Q ss_pred CcCChhhHHHHHhcCCCCCCCCc
Q 000963 1140 HFMHSDCFQAYTCSHYICPICSK 1162 (1208)
Q Consensus 1140 H~fH~~Ci~~~~~~~~~CPiCrk 1162 (1208)
|..|.-|--+|-..+..||-|..
T Consensus 212 yL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 212 YLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred EEEcCCCCCcccccCccCCCCCC
Confidence 33445677788878899999995
No 182
>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=34.33 E-value=12 Score=43.79 Aligned_cols=43 Identities=28% Similarity=0.497 Sum_probs=27.0
Q ss_pred CCCccccccccccC-------CCceeecCCCCcCChhhHHHHHhcCCCCCCCCcC
Q 000963 1116 ETNCPICCDFLFTS-------SATVRALPCGHFMHSDCFQAYTCSHYICPICSKS 1163 (1208)
Q Consensus 1116 ~~~CpICle~lf~s-------~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrks 1163 (1208)
...||||...=.-+ ....++|- |.-|--+|-..+..||.|..+
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~-----CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLS-----CSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEE-----cCCCCCcccccCccCCCCCCC
Confidence 45788887641000 12234444 456777888788999999964
No 183
>KOG1311 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=34.11 E-value=32 Score=39.67 Aligned_cols=48 Identities=27% Similarity=0.744 Sum_probs=38.5
Q ss_pred CCcccceEecCcccCcCCCCccccCCCCCccccCCCCCccccccCCcccccccc
Q 000963 1051 SGLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKK 1104 (1208)
Q Consensus 1051 ~~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~~~ 1104 (1208)
.|....-+||..|+++-.. -..||.-||.|-.+.. -||.=-|.|+...
T Consensus 107 ~~~~~~~~~C~~C~~~rPp-Rs~HCsvC~~CV~rfD-----HHC~WvnnCVG~r 154 (299)
T KOG1311|consen 107 NGIQVEWKYCDTCQLYRPP-RSSHCSVCNNCVLRFD-----HHCPWLNNCIGER 154 (299)
T ss_pred CCcccceEEcCcCcccCCC-CcccchhhcccccccC-----CCCCCccceECCC
Confidence 3667788999999999554 5789999999988753 6999888888654
No 184
>PRK00420 hypothetical protein; Validated
Probab=34.04 E-value=22 Score=35.88 Aligned_cols=30 Identities=30% Similarity=0.665 Sum_probs=21.1
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG 1165 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~ 1165 (1208)
....||+|.-+||.... ....||.|++.+.
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 35789999988775322 3567888888553
No 185
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=33.90 E-value=17 Score=41.65 Aligned_cols=50 Identities=22% Similarity=0.543 Sum_probs=36.9
Q ss_pred CCCccccccccccCCCceeecCCC-----CcCChhhHHHHHh--cCCCCCCCCcCcc
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCG-----HFMHSDCFQAYTC--SHYICPICSKSLG 1165 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCG-----H~fH~~Ci~~~~~--~~~~CPiCrksl~ 1165 (1208)
+..|-||.+..+.........||. .+.|..|++.|.. ....|.+|.....
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 467999999765443223446773 8889999999986 5678999998553
No 186
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=33.89 E-value=26 Score=34.63 Aligned_cols=31 Identities=19% Similarity=0.504 Sum_probs=18.2
Q ss_pred cccccCCcc-ccccccccccccccCCcCCCccccccc
Q 000963 1090 DFFHCMTCN-CCLAKKLVDHKCREKGLETNCPICCDF 1125 (1208)
Q Consensus 1090 ~~fHC~~C~-~C~~~~l~~H~C~e~~~~~~CpICle~ 1125 (1208)
.+|+|..|| ..+++.++. +..+..||+|..+
T Consensus 20 t~f~CP~Cge~~v~v~~~k-----~~~h~~C~~CG~y 51 (99)
T PRK14892 20 KIFECPRCGKVSISVKIKK-----NIAIITCGNCGLY 51 (99)
T ss_pred cEeECCCCCCeEeeeecCC-----CcceEECCCCCCc
Confidence 566666666 333333322 4567788888876
No 187
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=33.52 E-value=31 Score=44.34 Aligned_cols=17 Identities=24% Similarity=0.688 Sum_probs=8.7
Q ss_pred ccccccccccCC-CCCCC
Q 000963 1031 MCMRCLKVQPVG-PVCTT 1047 (1208)
Q Consensus 1031 ~C~~C~~~q~~~-~~C~~ 1047 (1208)
+|..|+.+-|.+ ..|.+
T Consensus 3 ~Cp~Cg~~n~~~akFC~~ 20 (645)
T PRK14559 3 ICPQCQFENPNNNRFCQK 20 (645)
T ss_pred cCCCCCCcCCCCCccccc
Confidence 456665554443 34554
No 188
>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=33.12 E-value=15 Score=31.44 Aligned_cols=40 Identities=30% Similarity=0.758 Sum_probs=28.4
Q ss_pred ccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccchh
Q 000963 1119 CPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGDMA 1168 (1208)
Q Consensus 1119 CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~m~ 1168 (1208)
|+.|...|.... +.+..-|..+|..|| +|-.|++++.+..
T Consensus 1 C~~C~~~I~~~~--~~~~~~~~~~H~~Cf--------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTE--IVIKAMGKFWHPECF--------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSS--EEEEETTEEEETTTS--------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcE--EEEEeCCcEEEcccc--------ccCCCCCccCCCe
Confidence 778888866332 232345899999877 8889999887654
No 189
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=32.26 E-value=36 Score=28.52 Aligned_cols=8 Identities=38% Similarity=1.344 Sum_probs=4.7
Q ss_pred cccCCCCC
Q 000963 1072 VYHCPFCN 1079 (1208)
Q Consensus 1072 ~yHC~~Cg 1079 (1208)
..+||+||
T Consensus 21 ~~~Cp~CG 28 (46)
T PRK00398 21 GVRCPYCG 28 (46)
T ss_pred ceECCCCC
Confidence 45666665
No 190
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=32.10 E-value=50 Score=38.78 Aligned_cols=47 Identities=26% Similarity=0.373 Sum_probs=31.6
Q ss_pred cCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCc
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSK 1162 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrk 1162 (1208)
....|-.|.+.+.++ ..++--.|.+.||..|-.-.-.+--.||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~-~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSS-GRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCC-CcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 345599997774443 34555688999999997443334457998863
No 191
>KOG2593 consensus Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=32.04 E-value=20 Score=43.37 Aligned_cols=19 Identities=16% Similarity=0.469 Sum_probs=14.4
Q ss_pred hHHHhcCHHHHHHHHhhhc
Q 000963 912 NDIFRMNQNELEAEIRKVS 930 (1208)
Q Consensus 912 ~~~~~~~q~~l~~~Ir~i~ 930 (1208)
...+++|+.+||..|++.-
T Consensus 50 ~~llk~~~KqLR~li~~Lr 68 (436)
T KOG2593|consen 50 KELLKFNKKQLRKLIASLR 68 (436)
T ss_pred HHHhcccHHHHHHHHHHhh
Confidence 3456788889888888774
No 192
>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=32.04 E-value=29 Score=26.12 Aligned_cols=19 Identities=26% Similarity=0.641 Sum_probs=13.1
Q ss_pred CCCCCCcCccchhHhhhhcH
Q 000963 1156 ICPICSKSLGDMAVYFGMLD 1175 (1208)
Q Consensus 1156 ~CPiCrksl~~m~~~~~~lD 1175 (1208)
.||||.+.+ .+....+-+|
T Consensus 3 ~CPiC~~~v-~~~~in~HLD 21 (26)
T smart00734 3 QCPVCFREV-PENLINSHLD 21 (26)
T ss_pred cCCCCcCcc-cHHHHHHHHH
Confidence 699999988 4444455555
No 193
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=31.67 E-value=16 Score=42.69 Aligned_cols=20 Identities=10% Similarity=0.345 Sum_probs=14.6
Q ss_pred hhhhhHHHHHHHhhcCCCCC
Q 000963 858 TKNTMFSEWLNEWWEGPPAP 877 (1208)
Q Consensus 858 ~~~t~f~~WL~eW~~~~~~~ 877 (1208)
.-.++....+.|.|+..|.+
T Consensus 85 ~~~K~le~Fv~eFFdQNPiS 104 (378)
T KOG2807|consen 85 NVIKYLEGFVPEFFDQNPIS 104 (378)
T ss_pred HHHHHHHHHHHHHhccCchh
Confidence 33467778888899887765
No 194
>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=30.81 E-value=17 Score=38.48 Aligned_cols=22 Identities=23% Similarity=0.794 Sum_probs=12.1
Q ss_pred EecCcccC---cCCC-CccccCCCCC
Q 000963 1058 YYCGICKF---FDDE-RVVYHCPFCN 1079 (1208)
Q Consensus 1058 y~C~~C~l---~d~~-k~~yHC~~Cg 1079 (1208)
|+|+.|+. |++. ..-|+||.||
T Consensus 110 Y~Cp~c~~r~tf~eA~~~~F~Cp~Cg 135 (158)
T TIGR00373 110 FICPNMCVRFTFNEAMELNFTCPRCG 135 (158)
T ss_pred EECCCCCcEeeHHHHHHcCCcCCCCC
Confidence 55666652 3333 4456666666
No 195
>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=30.65 E-value=17 Score=47.34 Aligned_cols=20 Identities=20% Similarity=0.157 Sum_probs=0.0
Q ss_pred HHHhhhccCCCCCHHHHHHH
Q 000963 924 AEIRKVSRDSTLDPRRKAYL 943 (1208)
Q Consensus 924 ~~Ir~i~~~~~l~~~~ka~l 943 (1208)
..+.-|+..+.+.=+.||.-
T Consensus 582 ~~l~~vn~~sg~~ir~rapt 601 (900)
T PF03833_consen 582 NALEAVNELSGFKIRDRAPT 601 (900)
T ss_dssp --------------------
T ss_pred cHHHHHHHhCCCEecccCcc
Confidence 34444555555555555543
No 196
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=29.62 E-value=19 Score=38.92 Aligned_cols=23 Identities=30% Similarity=1.037 Sum_probs=12.5
Q ss_pred eEecCcccC---cCCC-CccccCCCCC
Q 000963 1057 KYYCGICKF---FDDE-RVVYHCPFCN 1079 (1208)
Q Consensus 1057 ~y~C~~C~l---~d~~-k~~yHC~~Cg 1079 (1208)
-|+|+.|+. |++. ...|+||.||
T Consensus 117 ~Y~Cp~C~~rytf~eA~~~~F~Cp~Cg 143 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAMEYGFRCPQCG 143 (178)
T ss_pred EEECCCCCcEEeHHHHhhcCCcCCCCC
Confidence 466666642 3333 4456666665
No 197
>PRK07219 DNA topoisomerase I; Validated
Probab=29.46 E-value=72 Score=42.28 Aligned_cols=63 Identities=25% Similarity=0.495 Sum_probs=34.6
Q ss_pred cCcccCcCCC----CccccCCCCCcc---ccCCCCCccccccCC---ccccccccccccccccCCcCCCccccccccc
Q 000963 1060 CGICKFFDDE----RVVYHCPFCNLC---RVGRGLGVDFFHCMT---CNCCLAKKLVDHKCREKGLETNCPICCDFLF 1127 (1208)
Q Consensus 1060 C~~C~l~d~~----k~~yHC~~CgiC---RvG~gl~~~~fHC~~---C~~C~~~~l~~H~C~e~~~~~~CpICle~lf 1127 (1208)
|..|+..... .....|+.||-- |.|+. | .|+-|.+ |+.-..+.-..+. ......||-|...+.
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 7778765432 346789999821 22322 3 3888875 6543332211111 124568999976544
No 198
>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=29.45 E-value=31 Score=35.48 Aligned_cols=32 Identities=16% Similarity=0.044 Sum_probs=23.0
Q ss_pred ccccccccCCcccCcccccccCCCCcccccccccccccccccccCC
Q 000963 997 CKLRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVG 1042 (1208)
Q Consensus 997 c~l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~ 1042 (1208)
-|-.||-||+-| .+... ..++|.+|++.+++.
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 356789998744 23222 689999999999876
No 199
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.01 E-value=27 Score=37.08 Aligned_cols=30 Identities=30% Similarity=0.540 Sum_probs=23.0
Q ss_pred CcCCCccccccccccCCCceeecCCCCcCCh
Q 000963 1114 GLETNCPICCDFLFTSSATVRALPCGHFMHS 1144 (1208)
Q Consensus 1114 ~~~~~CpICle~lf~s~~~v~~LpCGH~fH~ 1144 (1208)
.....|.||+|+|... ..+..|||-=.||+
T Consensus 175 ddkGECvICLEdL~~G-dtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAG-DTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCC-CceeccceEEEeec
Confidence 3467899999997654 45777999877775
No 200
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=28.57 E-value=19 Score=37.62 Aligned_cols=25 Identities=28% Similarity=0.902 Sum_probs=17.8
Q ss_pred ceEecCcccCcCCCCccccCCCCC--ccccC
Q 000963 1056 AKYYCGICKFFDDERVVYHCPFCN--LCRVG 1084 (1208)
Q Consensus 1056 a~y~C~~C~l~d~~k~~yHC~~Cg--iCRvG 1084 (1208)
.+-||.+|.+| ++|-|-.|| +|-|+
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 45577888755 578888887 67665
No 201
>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=28.37 E-value=56 Score=30.28 Aligned_cols=18 Identities=44% Similarity=1.139 Sum_probs=13.4
Q ss_pred cccCCCCCccccCCCCCcccc
Q 000963 1072 VYHCPFCNLCRVGRGLGVDFF 1092 (1208)
Q Consensus 1072 ~yHC~~CgiCRvG~gl~~~~f 1092 (1208)
.|||. +|-+-+|||+.|.
T Consensus 36 cyHCq---lCFl~KgLGI~Y~ 53 (68)
T PF00539_consen 36 CYHCQ---LCFLQKGLGISYG 53 (68)
T ss_dssp TSSSS---CCCCCTSSSTSSS
T ss_pred eeece---eeeeeCCCccccc
Confidence 46765 6778899998764
No 202
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=28.29 E-value=14 Score=41.74 Aligned_cols=94 Identities=21% Similarity=0.348 Sum_probs=56.0
Q ss_pred CCccccccccccccccCCcccCcccccccCCCCcccccccccccccccccccCCCCCCCCCCCCcccceEecCcccCcCC
Q 000963 989 GCEHYKRNCKLRAACCGKLFTCRFCHDKVSDHSMDRKATTEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKFFDD 1068 (1208)
Q Consensus 989 gC~HY~r~c~l~~~cC~k~y~Cr~CHde~~~H~~~r~~~~~~~C~~C~~~q~~~~~C~~~~C~~~~~a~y~C~~C~l~d~ 1068 (1208)
-|+-|-|.--+.|.-|+. |..=-. |+.-.-.+|..|....- -.|+- | +...+.-+|.||.=+|.
T Consensus 209 ~~~~Yv~~~~~H~~~~~S---~~~~~~--------~~~~H~~~~~~~~~~~~--i~C~~--~-~~~A~~~~C~iC~~~~~ 272 (325)
T KOG4399|consen 209 PCQRYVSLENQHCEHCNS---CTSKDG--------RKWNHCFLCKKCVKPSW--IHCSI--C-NHCAVKHGCFICGELDH 272 (325)
T ss_pred ehHHHHHHHhhhchhhcc---cccchh--------HHHhHhHHhhhhcccce--eeeec--c-cchhhhcceeecccccc
Confidence 467776665555544443 211000 12222334444544433 24544 3 33445668999999988
Q ss_pred CCccccCCCCCccccCCCCCccccccCCcccccc
Q 000963 1069 ERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLA 1102 (1208)
Q Consensus 1069 ~k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~ 1102 (1208)
++ -|||.|.-||--+. ...-||.+|..|..
T Consensus 273 ~R--~~C~~~kA~~~~~Q--~K~N~~~~~~~~~q 302 (325)
T KOG4399|consen 273 KR--STCPNIKAVRKQKQ--RKSNKMKMETTKGQ 302 (325)
T ss_pred cc--ccCccHHHHHHHHh--cccchhhhhhhhhh
Confidence 77 89999999997543 25678888888864
No 203
>PLN02400 cellulose synthase
Probab=28.27 E-value=31 Score=46.26 Aligned_cols=53 Identities=19% Similarity=0.357 Sum_probs=36.5
Q ss_pred ccCCcCCCccccccccccCCCceee---cCCCCcCChhhHHHHHh--cCCCCCCCCcCc
Q 000963 1111 REKGLETNCPICCDFLFTSSATVRA---LPCGHFMHSDCFQAYTC--SHYICPICSKSL 1164 (1208)
Q Consensus 1111 ~e~~~~~~CpICle~lf~s~~~v~~---LpCGH~fH~~Ci~~~~~--~~~~CPiCrksl 1164 (1208)
..+...+.|-||.|++=...+.-.+ --||--.|+.|+ +|-+ .+..||.|+...
T Consensus 31 ~~~~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY-EYERkeGnq~CPQCkTrY 88 (1085)
T PLN02400 31 LKNLNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCY-EYERKDGTQCCPQCKTRY 88 (1085)
T ss_pred ccccCCceeeecccccCcCCCCCEEEEEccCCCccccchh-heecccCCccCcccCCcc
Confidence 3344567999999996444333333 356677999999 6643 467899999755
No 204
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=28.18 E-value=31 Score=38.81 Aligned_cols=81 Identities=17% Similarity=0.328 Sum_probs=0.0
Q ss_pred cccCCccccccccc---cccccccCCcCCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCcc--c
Q 000963 1092 FHCMTCNCCLAKKL---VDHKCREKGLETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLG--D 1166 (1208)
Q Consensus 1092 fHC~~C~~C~~~~l---~~H~C~e~~~~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~--~ 1166 (1208)
|+|+.|+.=+-..- ..|.|... +.... ...+||+|.+++. +
T Consensus 24 f~Cd~C~~~FC~eHrsye~H~Cp~~-------------~~~~~---------------------~v~icp~cs~pv~~~~ 69 (250)
T KOG3183|consen 24 FKCDGCSGIFCLEHRSYESHHCPKG-------------LRIDV---------------------QVPICPLCSKPVPTKK 69 (250)
T ss_pred eeeCCccchhhhccchHhhcCCCcc-------------cccce---------------------eecccCCCCCCCCCCC
Q ss_pred hhHhhhhcHHHHhh--cCCcHHhhccccE-----------------EEcCCCCCcCccc
Q 000963 1167 MAVYFGMLDALLAS--EQLPEEYRDRCQV-----------------KILHIFKLLGSFK 1206 (1208)
Q Consensus 1167 m~~~~~~lD~~i~~--~pmP~ey~~~~~~-----------------IlCndc~~~~~~~ 1206 (1208)
-+.++..+...+.. ++-|..++...-. |.|-+|+++...|
T Consensus 70 de~~~~~v~~h~~~dC~~~~~~~~~k~~t~kc~~~~c~k~~~~~~~~~c~~c~~~~c~k 128 (250)
T KOG3183|consen 70 DEAPDKVVEPHISNDCDRHPEQKKRKVFTNKCPVPRCKKTLTLANKITCSKCGRNFCLK 128 (250)
T ss_pred CcchhhhhchhhccccccCchhhhcccccccCCchhhHHHHHHHHhhhhHhhcchhhhh
No 205
>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=27.75 E-value=43 Score=26.70 Aligned_cols=24 Identities=25% Similarity=0.897 Sum_probs=17.0
Q ss_pred eEecCcccCc-CCCCccccCCCCCc
Q 000963 1057 KYYCGICKFF-DDERVVYHCPFCNL 1080 (1208)
Q Consensus 1057 ~y~C~~C~l~-d~~k~~yHC~~Cgi 1080 (1208)
.|-|.+|.+. +.++.+..||-||.
T Consensus 2 ~~~C~~CG~i~~g~~~p~~CP~Cg~ 26 (34)
T cd00729 2 VWVCPVCGYIHEGEEAPEKCPICGA 26 (34)
T ss_pred eEECCCCCCEeECCcCCCcCcCCCC
Confidence 4778888765 54467777887774
No 206
>PHA00626 hypothetical protein
Probab=27.63 E-value=47 Score=29.70 Aligned_cols=30 Identities=23% Similarity=0.526 Sum_probs=0.0
Q ss_pred CCCCCCCCCcccceEecCcccCcCCCCccccCCCCCc
Q 000963 1044 VCTTLSCSGLSMAKYYCGICKFFDDERVVYHCPFCNL 1080 (1208)
Q Consensus 1044 ~C~~~~C~~~~~a~y~C~~C~l~d~~k~~yHC~~Cgi 1080 (1208)
.|.+ |+..... -|.+|+-+.+. |.|++||.
T Consensus 2 ~CP~--CGS~~Iv--rcg~cr~~snr---YkCkdCGY 31 (59)
T PHA00626 2 SCPK--CGSGNIA--KEKTMRGWSDD---YVCCDCGY 31 (59)
T ss_pred CCCC--CCCceee--eeceecccCcc---eEcCCCCC
No 207
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only]
Probab=27.41 E-value=18 Score=40.88 Aligned_cols=71 Identities=23% Similarity=0.591 Sum_probs=47.7
Q ss_pred CcccceEecCcccCcCCCCccccCCCCCccccCCCCCccccccCCccccccccc-cccccccCCcCCCccccccc
Q 000963 1052 GLSMAKYYCGICKFFDDERVVYHCPFCNLCRVGRGLGVDFFHCMTCNCCLAKKL-VDHKCREKGLETNCPICCDF 1125 (1208)
Q Consensus 1052 ~~~~a~y~C~~C~l~d~~k~~yHC~~CgiCRvG~gl~~~~fHC~~C~~C~~~~l-~~H~C~e~~~~~~CpICle~ 1125 (1208)
+..-+-+||+.|-.|=. +..-||+.|+-|..-.| +-|-||.+|-.|+-.++ .--.|..-+...-|-||.++
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 44555667999977633 45669999999987654 68999999999987765 21112222234567777775
No 208
>KOG4654 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.26 E-value=8.9e+02 Score=26.86 Aligned_cols=55 Identities=18% Similarity=0.097 Sum_probs=33.8
Q ss_pred chHHHH----HHHHHHHHHHHHHHHHHHhhccCCCCcchHHHHHHHHHHHHHHHHHhhccccccc
Q 000963 43 PILIFL----FFHKAIKSELDVLHRAAMAFATNLGGGGDINKLLERYHFFRAIYKHHCNAEDEVI 103 (1208)
Q Consensus 43 Pi~~~~----~~HkAlR~eL~~l~~~a~~~~~~~gd~~~~~~l~~r~~~L~~~~~~H~~aEDevI 103 (1208)
|+|+|. ++|||+-..-..= -|+-- -=...|++|..-++|+.+....-+..||.+-
T Consensus 41 p~dlY~~c~q~Vhk~lc~~kkc~----iRl~Y--~W~ELW~aL~n~L~Flmsne~~llak~dif~ 99 (252)
T KOG4654|consen 41 PADLYFLCFQFVHKALCSLKKCG----IRLEY--HWLELWRALFNFLDFLMSNEINLLAKEDIFR 99 (252)
T ss_pred ChhHHHHHHHHHHHHHHHHHhhc----ceeee--HHHHHHHHHHHHHHHHHHhHhhhcchhhHHH
Confidence 777776 7888875432211 11111 1123677788888888888888888887653
No 209
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.64 E-value=1.3e+02 Score=30.57 Aligned_cols=45 Identities=22% Similarity=0.315 Sum_probs=27.2
Q ss_pred CCCccccccccccCC-----------CceeecCCCCcCChhhHHHHHhcCCCCCCCC
Q 000963 1116 ETNCPICCDFLFTSS-----------ATVRALPCGHFMHSDCFQAYTCSHYICPICS 1161 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~-----------~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCr 1161 (1208)
...|--|+.. |... ..+.--.|++.|+.+|-.-+-..--.||-|.
T Consensus 55 ~~~C~~C~~~-f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGP-FPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCC-CCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 3469999886 4321 1122357788888888644444445688775
No 210
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=26.47 E-value=33 Score=38.01 Aligned_cols=41 Identities=32% Similarity=0.775 Sum_probs=28.3
Q ss_pred CccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCC
Q 000963 1118 NCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICS 1161 (1208)
Q Consensus 1118 ~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCr 1161 (1208)
+|-+|..-+.. .++--.||=-||..|+..|+.....||-|+
T Consensus 183 ~Cn~Ch~LvIq---g~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 183 NCNLCHCLVIQ---GIRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHhHhHHHhhe---eeccCcccchhhhHHHHHHhcccCcCCchh
Confidence 56666553221 123345666799999999999899999996
No 211
>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=25.93 E-value=32 Score=28.52 Aligned_cols=10 Identities=40% Similarity=0.846 Sum_probs=4.0
Q ss_pred CccccCCCCC
Q 000963 1070 RVVYHCPFCN 1079 (1208)
Q Consensus 1070 k~~yHC~~Cg 1079 (1208)
...|-|..||
T Consensus 17 ~g~~vC~~CG 26 (43)
T PF08271_consen 17 RGELVCPNCG 26 (43)
T ss_dssp TTEEEETTT-
T ss_pred CCeEECCCCC
Confidence 4444444443
No 212
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=25.72 E-value=45 Score=38.84 Aligned_cols=57 Identities=26% Similarity=0.592 Sum_probs=34.5
Q ss_pred cccCCc--CCCcccccccc--------------ccCCCcee-ecCCCCcCChhhHHHHHhc---------CCCCCCCCcC
Q 000963 1110 CREKGL--ETNCPICCDFL--------------FTSSATVR-ALPCGHFMHSDCFQAYTCS---------HYICPICSKS 1163 (1208)
Q Consensus 1110 C~e~~~--~~~CpICle~l--------------f~s~~~v~-~LpCGH~fH~~Ci~~~~~~---------~~~CPiCrks 1163 (1208)
|.|+.. +..||+|+..= .+..-+.. +-||||.--.+=..-|... +-.||-|-..
T Consensus 333 ~~e~~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~ 412 (429)
T KOG3842|consen 333 VRENTGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQ 412 (429)
T ss_pred cccccCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhh
Confidence 344443 77899987520 12222222 3599998777666666542 3469999877
Q ss_pred ccc
Q 000963 1164 LGD 1166 (1208)
Q Consensus 1164 l~~ 1166 (1208)
+..
T Consensus 413 L~g 415 (429)
T KOG3842|consen 413 LAG 415 (429)
T ss_pred hcc
Confidence 654
No 213
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=25.55 E-value=40 Score=32.79 Aligned_cols=42 Identities=26% Similarity=0.550 Sum_probs=31.0
Q ss_pred CCCccccccccccCCCceeecCCCCcCChhhHHHHHhcCCCCCCCCcCccchhHh
Q 000963 1116 ETNCPICCDFLFTSSATVRALPCGHFMHSDCFQAYTCSHYICPICSKSLGDMAVY 1170 (1208)
Q Consensus 1116 ~~~CpICle~lf~s~~~v~~LpCGH~fH~~Ci~~~~~~~~~CPiCrksl~~m~~~ 1170 (1208)
...|-||..-+.. =||.|+..|. .....|.+|+|.|.|...|
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CA----YkkGiCamCGKki~dtk~y 85 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCA----YKKGICAMCGKKILDTKNY 85 (90)
T ss_pred Ccccccccccccc---------CCCccChhhh----cccCcccccCCeecccccc
Confidence 4578899765332 2888999996 3467999999999886544
No 214
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=24.70 E-value=63 Score=44.09 Aligned_cols=53 Identities=23% Similarity=0.412 Sum_probs=30.2
Q ss_pred cccccccccccccCCCCCCCCCCCCcccceEecCcccCc--CCCCccccCCCCCcccc
Q 000963 1028 TEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYYCGICKFF--DDERVVYHCPFCNLCRV 1083 (1208)
Q Consensus 1028 ~~~~C~~C~~~q~~~~~C~~~~C~~~~~a~y~C~~C~l~--d~~k~~yHC~~CgiCRv 1083 (1208)
....|..|+++-+. ..|.. |+...-..|+|..|+.- .++....+|++||.=-+
T Consensus 666 ~~rkCPkCG~~t~~-~fCP~--CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 666 GRRRCPSCGTETYE-NRCPD--CGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EEEECCCCCCcccc-ccCcc--cCCcCCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 35667777776443 36755 64333356677777652 12222667888884433
No 215
>PLN02195 cellulose synthase A
Probab=24.53 E-value=51 Score=43.90 Aligned_cols=50 Identities=16% Similarity=0.338 Sum_probs=34.9
Q ss_pred cCCCccccccccccCCCceee---cCCCCcCChhhHHHHHh--cCCCCCCCCcCcc
Q 000963 1115 LETNCPICCDFLFTSSATVRA---LPCGHFMHSDCFQAYTC--SHYICPICSKSLG 1165 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~---LpCGH~fH~~Ci~~~~~--~~~~CPiCrksl~ 1165 (1208)
....|-||.|++-...+.-.+ --||--.|+.|+ +|-+ .+..||.|+....
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 356899999976433332233 367777999999 6654 4678999998665
No 216
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=24.35 E-value=49 Score=44.32 Aligned_cols=50 Identities=20% Similarity=0.498 Sum_probs=35.1
Q ss_pred cCCCccccccccccCCCceeec---CCCCcCChhhHHHHHh--cCCCCCCCCcCcc
Q 000963 1115 LETNCPICCDFLFTSSATVRAL---PCGHFMHSDCFQAYTC--SHYICPICSKSLG 1165 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~L---pCGH~fH~~Ci~~~~~--~~~~CPiCrksl~ 1165 (1208)
..+.|-||.|++=...+.-.+. -||--.|+.|+ +|.+ .+..||.|+....
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 4678999999864444333334 55666999999 6643 4678999997553
No 217
>PF06377 Adipokin_hormo: Adipokinetic hormone; InterPro: IPR010475 This family consists of several insect adipokinetic hormone as well as the related crustacean red pigment concentrating hormone (RPCH) []. Flight activity of insects comprises one of the most intense biochemical processes known in nature, and therefore provides an attractive model system to study the hormonal regulation of metabolism during physical exercise. In long-distance flying insects, such as the migratory locust, both carbohydrate and lipid reserves are utilised as fuels for sustained flight activity. The mobilisation of these energy stores in Locusta migratoria (Migratory locust) is mediated by three structurally related adipokinetic hormones (AKHs), which are all capable of stimulating the release of both carbohydrates and lipids from the fat body [].; GO: 0005179 hormone activity
Probab=24.16 E-value=1.7e+02 Score=25.57 Aligned_cols=37 Identities=14% Similarity=0.260 Sum_probs=25.3
Q ss_pred ccccCCCCCCC--CCCCCchhHHHHHHHHHHHHHHHHHH
Q 000963 629 NWETDLSSADI--GCASRPIDNIFKFHKAIRKDLEYLDG 665 (1208)
Q Consensus 629 ~~~~~~~~~~~--~~~~~PId~i~~~HkAIRkdL~~L~~ 665 (1208)
+|++....... +.-..|+|.+..+-+.|+.|-++|.+
T Consensus 7 ~WGKRs~~~~~~~~~C~~s~e~l~~iy~~iQ~EAqkl~~ 45 (48)
T PF06377_consen 7 GWGKRSAGARGRADDCKSSVESLLHIYKLIQNEAQKLLD 45 (48)
T ss_pred CcccccccCCCCCCCCCCcHHHHHHHHHHHHHHHHHHHh
Confidence 56555332222 12245899999999999999988864
No 218
>KOG1312 consensus DHHC-type Zn-finger proteins [General function prediction only]
Probab=24.09 E-value=25 Score=40.54 Aligned_cols=33 Identities=30% Similarity=0.779 Sum_probs=25.3
Q ss_pred CCCCccccCCCCCccccccCCcccccccccccccccc
Q 000963 1076 PFCNLCRVGRGLGVDFFHCMTCNCCLAKKLVDHKCRE 1112 (1208)
Q Consensus 1076 ~~CgiCRvG~gl~~~~fHC~~C~~C~~~~l~~H~C~e 1112 (1208)
.+|..|++.|. -...||..||.|+.. .+|.|+=
T Consensus 149 ~kCSTCki~KP--ARSKHCsiCNrCV~r--fDHHCiW 181 (341)
T KOG1312|consen 149 VKCSTCKIRKP--ARSKHCSICNRCVHR--FDHHCIW 181 (341)
T ss_pred CccccccCCCc--cccccchHHHHHHHH--hccceEe
Confidence 67888888764 468899999999764 4777763
No 219
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=23.90 E-value=42 Score=29.21 Aligned_cols=30 Identities=23% Similarity=0.609 Sum_probs=21.8
Q ss_pred ccceEecCccc-CcCCC--CccccCCCCCcccc
Q 000963 1054 SMAKYYCGICK-FFDDE--RVVYHCPFCNLCRV 1083 (1208)
Q Consensus 1054 ~~a~y~C~~C~-l~d~~--k~~yHC~~CgiCRv 1083 (1208)
.+..|-|..|. .++.+ ..-+.|++||.=.+
T Consensus 3 ~~~~Y~C~~Cg~~~~~~~~~~~irCp~Cg~rIl 35 (49)
T COG1996 3 AMMEYKCARCGREVELDQETRGIRCPYCGSRIL 35 (49)
T ss_pred ceEEEEhhhcCCeeehhhccCceeCCCCCcEEE
Confidence 36679999994 45533 78889999995433
No 220
>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=23.86 E-value=51 Score=28.38 Aligned_cols=9 Identities=44% Similarity=1.397 Sum_probs=6.5
Q ss_pred eEecCcccC
Q 000963 1057 KYYCGICKF 1065 (1208)
Q Consensus 1057 ~y~C~~C~l 1065 (1208)
+|.|.+|.+
T Consensus 1 ky~C~~Cgy 9 (47)
T PF00301_consen 1 KYQCPVCGY 9 (47)
T ss_dssp EEEETTTSB
T ss_pred CcCCCCCCE
Confidence 577788865
No 221
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=23.49 E-value=70 Score=41.77 Aligned_cols=44 Identities=23% Similarity=0.724 Sum_probs=27.2
Q ss_pred ccccccccccccccCCCCCCCCCCCCcccc------eEecCcccCcCCCCccccCCCCC
Q 000963 1027 TTEMMCMRCLKVQPVGPVCTTLSCSGLSMA------KYYCGICKFFDDERVVYHCPFCN 1079 (1208)
Q Consensus 1027 ~~~~~C~~C~~~q~~~~~C~~~~C~~~~~a------~y~C~~C~l~d~~k~~yHC~~Cg 1079 (1208)
.+.++|..|+.+- .|.| | ...+. ...|..|..= .+.+.+||.||
T Consensus 433 s~~l~C~~Cg~v~----~Cp~--C-d~~lt~H~~~~~L~CH~Cg~~--~~~p~~Cp~Cg 482 (730)
T COG1198 433 APLLLCRDCGYIA----ECPN--C-DSPLTLHKATGQLRCHYCGYQ--EPIPQSCPECG 482 (730)
T ss_pred cceeecccCCCcc----cCCC--C-CcceEEecCCCeeEeCCCCCC--CCCCCCCCCCC
Confidence 4689999999874 5777 5 44433 3344444332 25677777777
No 222
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 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 ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=23.45 E-value=29 Score=33.75 Aligned_cols=22 Identities=45% Similarity=1.313 Sum_probs=0.0
Q ss_pred ccCCCCC---ccccCCCCCccccccCCcc
Q 000963 1073 YHCPFCN---LCRVGRGLGVDFFHCMTCN 1098 (1208)
Q Consensus 1073 yHC~~Cg---iCRvG~gl~~~~fHC~~C~ 1098 (1208)
|.|++|| +=|++.| +.+|.+|+
T Consensus 36 y~Cp~Cgk~~vkR~a~G----IW~C~~C~ 60 (90)
T PF01780_consen 36 YTCPFCGKTSVKRVATG----IWKCKKCG 60 (90)
T ss_dssp BEESSSSSSEEEEEETT----EEEETTTT
T ss_pred CcCCCCCCceeEEeeeE----EeecCCCC
No 223
>cd00522 Hemerythrin Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the muscle tissue of sipunculids as well as in polycheate and oligocheate annelids. In addition to oxygen transport, Mhr proteins are involved in cadmium fixation and host anti-bacterial defense. Hr and Mhr proteins have the same "four alpha helix bundle" motif and active site structure. Hr forms oligomers, the octameric form being most prevalent, while Mhr is monomeric.
Probab=22.73 E-value=4.1e+02 Score=26.26 Aligned_cols=61 Identities=21% Similarity=0.114 Sum_probs=35.0
Q ss_pred HHHhhhhhHHHHHHHHHHHHHhhhcCchhHHHHHHHHHHHHHHHHHHhHHHHHHHhh----hhHhhcCCHHHHHHHHHHH
Q 000963 117 TYSLEHEGESVLFDQLFELLNSSMRNEESYRRELASCTGALQTSISQHMSKEEEQVF----PLLIEKFSFEEQASLVWQF 192 (1208)
Q Consensus 117 ~~~~EH~~~~~lf~~L~~~l~~~~~~~~~~~~eLa~~l~~l~~~l~qHm~~EE~qv~----PLl~~~fS~~E~a~L~~~~ 192 (1208)
.+..||++.=+++++|..++.. ...+..|..-...|...||.-.- |-+..| ...+.+|
T Consensus 14 ~ID~qH~~L~~l~n~l~~a~~~------------~~~l~~L~~y~~~HF~~EE~~M~~~~yp~~~~H------~~~H~~f 75 (113)
T cd00522 14 VIDDEHKTLFNGINDLSEANNR------------ADNLKELVDYTVKHFKDEEALMEAAGYPDYEEH------KKIHEDF 75 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHhH------------HHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHH------HHHHHHH
Confidence 3455555444444444444332 34566777788899999998653 444433 5555555
Q ss_pred hcc
Q 000963 193 LCS 195 (1208)
Q Consensus 193 i~s 195 (1208)
+..
T Consensus 76 ~~~ 78 (113)
T cd00522 76 VEK 78 (113)
T ss_pred HHH
Confidence 543
No 224
>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=22.64 E-value=64 Score=40.18 Aligned_cols=8 Identities=50% Similarity=1.505 Sum_probs=4.0
Q ss_pred cccCcccc
Q 000963 1007 LFTCRFCH 1014 (1208)
Q Consensus 1007 ~y~Cr~CH 1014 (1208)
.|-|+.||
T Consensus 5 L~fC~~C~ 12 (483)
T PF05502_consen 5 LYFCEHCH 12 (483)
T ss_pred ceeccccc
Confidence 34455554
No 225
>PRK10722 hypothetical protein; Provisional
Probab=22.58 E-value=5.2e+02 Score=29.65 Aligned_cols=115 Identities=10% Similarity=0.149 Sum_probs=73.4
Q ss_pred CCHHHHHHHHHHHhcccCHHHHHHHHhhhcCCCCHHHHHHHHHHHhhcCCc-hhHHHHHHHHHhcCCCCCCCcccchhhh
Q 000963 180 FSFEEQASLVWQFLCSIPVNMMAEFLPWLSSSISSDEHQDMRKCLCKIIPK-EKLLRQVIFAWMEGVKVSDKSCEDNLEH 258 (1208)
Q Consensus 180 fS~~E~a~L~~~~i~siP~~~m~~~LpWm~~~lsp~Er~~~l~~l~~~~P~-~~~l~~~~~~W~~~~~~~~~~~~~~~~~ 258 (1208)
++++|......++....|-+.+..-+-.--...++.||+.|+..|-...+. +..|+-++--|..+-- -++
T Consensus 88 L~~~ear~ea~~~~~~~w~~afkq~ILL~~a~~t~~err~~l~rl~~~~~~~p~~lrPL~qlwr~~Q~---------l~l 158 (247)
T PRK10722 88 LMPAQARAQAKRLPDDSWQNAFKQGILLADAKITPAERRQIVERLNAYSLQIPAQVRPLYQLWRDGQA---------LQL 158 (247)
T ss_pred cCHHHHHHHHHhcCCCCHHHHHHHHHHHcCCCCChHHHHHHHHHHhhcccccchhhhHHHHHHHHhhH---------HHH
Confidence 455666677777666666555555555555667799999999999866554 7788888888877421 000
Q ss_pred hhccCcccccccccccchhhhhhccCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 000963 259 RCQRWFSCACESSRSSKRKYVELSYDLTDSSMSCPIDEIMLWHNAIKRELNDIAEAARKIQ 319 (1208)
Q Consensus 259 ~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~pid~l~~~HkALRrEL~~L~~~a~~i~ 319 (1208)
... -.++.|...-.+ + ..-+|.+..-++.++++|+.+.+-+..+.
T Consensus 159 ~La-----------eEr~Ry~rLQq~-s----D~qlD~lrqq~~~Lq~~L~~t~rKLEnLT 203 (247)
T PRK10722 159 ALA-----------EERQRYQKLQQS-S----DSELDALRQQQQRLQYQLELTTRKLENLT 203 (247)
T ss_pred hHH-----------HHHHHHHHHhhc-c----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 000 011222221100 0 23688999999999999999888877653
No 226
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=22.37 E-value=33 Score=32.61 Aligned_cols=32 Identities=28% Similarity=0.879 Sum_probs=12.2
Q ss_pred ccccCCCCC-----ccccCCCCCccccccCCcccccc
Q 000963 1071 VVYHCPFCN-----LCRVGRGLGVDFFHCMTCNCCLA 1102 (1208)
Q Consensus 1071 ~~yHC~~Cg-----iCRvG~gl~~~~fHC~~C~~C~~ 1102 (1208)
..|.||+|| .|.+-+..|.-.-+|..||.-+.
T Consensus 21 ~~F~CPfC~~~~sV~v~idkk~~~~~~~C~~Cg~~~~ 57 (81)
T PF05129_consen 21 KVFDCPFCNHEKSVSVKIDKKEGIGILSCRVCGESFQ 57 (81)
T ss_dssp S----TTT--SS-EEEEEETTTTEEEEEESSS--EEE
T ss_pred ceEcCCcCCCCCeEEEEEEccCCEEEEEecCCCCeEE
Confidence 456666666 44444333344455555554443
No 227
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=22.26 E-value=43 Score=25.83 Aligned_cols=11 Identities=27% Similarity=1.081 Sum_probs=8.4
Q ss_pred ceEecCcccCc
Q 000963 1056 AKYYCGICKFF 1066 (1208)
Q Consensus 1056 a~y~C~~C~l~ 1066 (1208)
+.|||++|+.+
T Consensus 2 ~~~~C~~C~~~ 12 (35)
T smart00451 2 GGFYCKLCNVT 12 (35)
T ss_pred cCeEccccCCc
Confidence 57888888754
No 228
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=22.26 E-value=47 Score=37.63 Aligned_cols=92 Identities=22% Similarity=0.572 Sum_probs=57.6
Q ss_pred ccccccccccccCC--------cccCcccccccCCCCcc----cccccccccccccccccCCCCCCCCCCCCcccceEec
Q 000963 993 YKRNCKLRAACCGK--------LFTCRFCHDKVSDHSMD----RKATTEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYYC 1060 (1208)
Q Consensus 993 Y~r~c~l~~~cC~k--------~y~Cr~CHde~~~H~~~----r~~~~~~~C~~C~~~q~~~~~C~~~~C~~~~~a~y~C 1060 (1208)
|+..=...|.-|+. .|.|..||.-..+.++. -+-.-...|..|+++...... ..-+.-||
T Consensus 115 ~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~~iD~~~l~fr~d~yH~yHFkCt~C~keL~sdaR--------evk~eLyC 186 (332)
T KOG2272|consen 115 YRNQGRALCRECNQKEKAKGRGRYVCQKCHAHIDEQPLTFRGDPYHPYHFKCTTCGKELTSDAR--------EVKGELYC 186 (332)
T ss_pred HhhcchHHhhhhhhhhcccccceeehhhhhhhcccccccccCCCCCccceecccccccccchhh--------hhccceec
Confidence 44334455555643 79999999886664443 233357889999988765332 23456788
Q ss_pred CcccCcCCCCccccCCCCCcccc----------CCCCCccccccCCcc
Q 000963 1061 GICKFFDDERVVYHCPFCNLCRV----------GRGLGVDFFHCMTCN 1098 (1208)
Q Consensus 1061 ~~C~l~d~~k~~yHC~~CgiCRv----------G~gl~~~~fHC~~C~ 1098 (1208)
.-|. +.+-||-||-||. |+--..+-|-|.+|-
T Consensus 187 lrCh------D~mgipiCgaC~rpIeervi~amgKhWHveHFvCa~Ce 228 (332)
T KOG2272|consen 187 LRCH------DKMGIPICGACRRPIEERVIFAMGKHWHVEHFVCAKCE 228 (332)
T ss_pred cccc------cccCCcccccccCchHHHHHHHhccccchhheeehhcC
Confidence 8774 2356888999986 333333566666663
No 229
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=22.24 E-value=39 Score=39.32 Aligned_cols=47 Identities=21% Similarity=0.562 Sum_probs=31.9
Q ss_pred CCcCCCcccccccc----------ccCCCceeecCCCCcCChhhHHHHHh------cCCCCCCCCc
Q 000963 1113 KGLETNCPICCDFL----------FTSSATVRALPCGHFMHSDCFQAYTC------SHYICPICSK 1162 (1208)
Q Consensus 1113 ~~~~~~CpICle~l----------f~s~~~v~~LpCGH~fH~~Ci~~~~~------~~~~CPiCrk 1162 (1208)
|+..-.|||=+..| .+...|.++|.|||. +=+..|-. ....||+|+.
T Consensus 287 NA~RPQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV---~G~H~WG~~e~~g~~~r~CPmC~~ 349 (429)
T KOG3842|consen 287 NAARPQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHV---HGYHNWGVRENTGQRERECPMCRV 349 (429)
T ss_pred hccCCCCCcccceeecccccccccccccCCeEEEecccc---ccccccccccccCcccCcCCeeee
Confidence 45677899988776 233457889999965 22334632 2467999996
No 230
>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=21.75 E-value=72 Score=36.45 Aligned_cols=62 Identities=29% Similarity=0.778 Sum_probs=36.5
Q ss_pred CccccccCCccccccccccccccccCCcCCCccc--cccccccCCC------------ce-eecCCCCcCChhhHHHHHh
Q 000963 1088 GVDFFHCMTCNCCLAKKLVDHKCREKGLETNCPI--CCDFLFTSSA------------TV-RALPCGHFMHSDCFQAYTC 1152 (1208)
Q Consensus 1088 ~~~~fHC~~C~~C~~~~l~~H~C~e~~~~~~CpI--Cle~lf~s~~------------~v-~~LpCGH~fH~~Ci~~~~~ 1152 (1208)
|+.|.-|. ||+ +- .|.+.+..-.||- |.--|-.... +. ..+.||| |-+.++-
T Consensus 103 GKKYVRCP-CNC-LL------ICk~sS~rIaCPRp~CkRiI~L~~~~~~p~~~~~~~~p~~~rv~Cgh-----C~~~Fl~ 169 (256)
T PF09788_consen 103 GKKYVRCP-CNC-LL------ICKSSSQRIACPRPNCKRIINLGPSHQGPVTPPVPTQPGSCRVICGH-----CSNTFLF 169 (256)
T ss_pred CCeeEecC-Cce-EE------EeecccccccCCCCCCcceEEeCCccCCCCCCCCCCCCCceeEECCC-----CCCcEec
Confidence 47888886 443 22 3666677778876 7654422211 11 2356887 5555432
Q ss_pred -----cC-CCCCCCCc
Q 000963 1153 -----SH-YICPICSK 1162 (1208)
Q Consensus 1153 -----~~-~~CPiCrk 1162 (1208)
.. -+||-|||
T Consensus 170 ~~~~~~tlARCPHCrK 185 (256)
T PF09788_consen 170 NTLTSNTLARCPHCRK 185 (256)
T ss_pred cCCCCCccccCCCCce
Confidence 12 37999998
No 231
>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=21.74 E-value=65 Score=39.43 Aligned_cols=45 Identities=31% Similarity=0.645 Sum_probs=28.5
Q ss_pred CccccccccccCCCceeec---CCCCcCChhhHHH-H-Hh-------------cCCCCCCCCcC
Q 000963 1118 NCPICCDFLFTSSATVRAL---PCGHFMHSDCFQA-Y-TC-------------SHYICPICSKS 1163 (1208)
Q Consensus 1118 ~CpICle~lf~s~~~v~~L---pCGH~fH~~Ci~~-~-~~-------------~~~~CPiCrks 1163 (1208)
.|+||.-+=+.. .+...+ -|||.-|.+|--. . +. ..|.|--|.+.
T Consensus 130 ~C~iC~kfD~~~-n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~ 192 (446)
T PF07227_consen 130 MCCICSKFDDNK-NTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKT 192 (446)
T ss_pred CccccCCcccCC-CCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCCh
Confidence 588887653333 233333 6899999999754 2 11 13678888874
No 232
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=21.59 E-value=55 Score=41.07 Aligned_cols=14 Identities=29% Similarity=0.591 Sum_probs=10.4
Q ss_pred eecCCCCcCChhhH
Q 000963 1134 RALPCGHFMHSDCF 1147 (1208)
Q Consensus 1134 ~~LpCGH~fH~~Ci 1147 (1208)
++..=|-+||..|+
T Consensus 79 vvsa~gktyh~~cf 92 (670)
T KOG1044|consen 79 VVSTLGKTYHPKCF 92 (670)
T ss_pred eEecccceeccccc
Confidence 34455889999887
No 233
>PF15353 HECA: Headcase protein family homologue
Probab=21.42 E-value=45 Score=33.28 Aligned_cols=16 Identities=38% Similarity=1.105 Sum_probs=14.0
Q ss_pred CCCCcCChhhHHHHHh
Q 000963 1137 PCGHFMHSDCFQAYTC 1152 (1208)
Q Consensus 1137 pCGH~fH~~Ci~~~~~ 1152 (1208)
|.|++||.+||++|-.
T Consensus 39 p~~~~MH~~CF~~wE~ 54 (107)
T PF15353_consen 39 PFGQYMHRECFEKWED 54 (107)
T ss_pred CCCCchHHHHHHHHHH
Confidence 5589999999999965
No 234
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=21.34 E-value=35 Score=44.08 Aligned_cols=49 Identities=20% Similarity=0.524 Sum_probs=32.8
Q ss_pred cCCCccccccccccCCCceeecCCC-----CcCChhhHHHHHhcC--CCCCCCCcCcc
Q 000963 1115 LETNCPICCDFLFTSSATVRALPCG-----HFMHSDCFQAYTCSH--YICPICSKSLG 1165 (1208)
Q Consensus 1115 ~~~~CpICle~lf~s~~~v~~LpCG-----H~fH~~Ci~~~~~~~--~~CPiCrksl~ 1165 (1208)
....|-||.-+ -..++|. .=||. -++|++|+.+|+..+ ..|-+|+..+.
T Consensus 11 d~~~CRICr~e-~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 11 DKRSCRICRTE-DIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred cchhceeecCC-CCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 34678888754 2222222 23553 689999999999654 57999997653
No 235
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=21.11 E-value=68 Score=41.37 Aligned_cols=18 Identities=17% Similarity=0.480 Sum_probs=11.0
Q ss_pred ccccccccccccCCCCCCC
Q 000963 1029 EMMCMRCLKVQPVGPVCTT 1047 (1208)
Q Consensus 1029 ~~~C~~C~~~q~~~~~C~~ 1047 (1208)
.-+|..|++..+. ..|.+
T Consensus 15 akFC~~CG~~l~~-~~Cp~ 32 (645)
T PRK14559 15 NRFCQKCGTSLTH-KPCPQ 32 (645)
T ss_pred CccccccCCCCCC-CcCCC
Confidence 4467777776543 45655
No 236
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=21.06 E-value=39 Score=23.21 Aligned_cols=17 Identities=35% Similarity=0.778 Sum_probs=10.8
Q ss_pred CCCCCCCcCccchhHhh
Q 000963 1155 YICPICSKSLGDMAVYF 1171 (1208)
Q Consensus 1155 ~~CPiCrksl~~m~~~~ 1171 (1208)
|.||+|.+...+.....
T Consensus 1 ~~C~~C~~~~~~~~~l~ 17 (24)
T PF13894_consen 1 FQCPICGKSFRSKSELR 17 (24)
T ss_dssp EE-SSTS-EESSHHHHH
T ss_pred CCCcCCCCcCCcHHHHH
Confidence 46999999888766543
No 237
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=20.65 E-value=56 Score=28.15 Aligned_cols=22 Identities=23% Similarity=0.857 Sum_probs=14.4
Q ss_pred ccCCCCCccccCCCCCccccccCCcc
Q 000963 1073 YHCPFCNLCRVGRGLGVDFFHCMTCN 1098 (1208)
Q Consensus 1073 yHC~~CgiCRvG~gl~~~~fHC~~C~ 1098 (1208)
|.|+.|+..-+-+ ..|||..|.
T Consensus 1 y~Cd~C~~~pI~G----~R~~C~~C~ 22 (48)
T cd02341 1 FKCDSCGIEPIPG----TRYHCSECD 22 (48)
T ss_pred CCCCCCCCCcccc----ceEECCCCC
Confidence 6788888744331 458888765
No 238
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=20.24 E-value=1e+02 Score=38.88 Aligned_cols=93 Identities=20% Similarity=0.356 Sum_probs=46.4
Q ss_pred cccccccccccccCCCCCCCCCCCCcccceEec-CcccCcCCC------Ccccc--CCCCCccccCCCCCccccccCC--
Q 000963 1028 TEMMCMRCLKVQPVGPVCTTLSCSGLSMAKYYC-GICKFFDDE------RVVYH--CPFCNLCRVGRGLGVDFFHCMT-- 1096 (1208)
Q Consensus 1028 ~~~~C~~C~~~q~~~~~C~~~~C~~~~~a~y~C-~~C~l~d~~------k~~yH--C~~CgiCRvG~gl~~~~fHC~~-- 1096 (1208)
.-..|..|+.--..+.-|.. | +. +||| ..|.-|--. -..|| |-.|-+|+....-|....-|.+
T Consensus 41 ~cf~c~~cg~~la~~gff~k--~-~~---~~ygt~~c~~~~~gevvsa~gktyh~~cf~cs~ck~pf~~g~~vt~~gk~~ 114 (670)
T KOG1044|consen 41 NCFQCKKCGRNLAEGGFFTK--P-EN---RLYGTDDCRAFVEGEVVSTLGKTYHPKCFSCSTCKSPFKSGDKVTFSGKEC 114 (670)
T ss_pred eeeeccccCCCcccccceec--c-cc---eeecccchhhhccceeEecccceeccccceecccCCCCCCCCeeeecchhh
Confidence 34456666655555555655 2 22 6666 445444221 45676 6777777765433322111111
Q ss_pred -cccccccc-ccccccccCCcCCCccccccccccC
Q 000963 1097 -CNCCLAKK-LVDHKCREKGLETNCPICCDFLFTS 1129 (1208)
Q Consensus 1097 -C~~C~~~~-l~~H~C~e~~~~~~CpICle~lf~s 1129 (1208)
|..|.... +. =.+...-.+|+-|.+.|...
T Consensus 115 ~c~~c~~~~~~~---p~~~~~ps~cagc~~~lk~g 146 (670)
T KOG1044|consen 115 LCQTCSQPMPVS---PAESYGPSTCAGCGEELKNG 146 (670)
T ss_pred hhhhhcCcccCC---cccccCCccccchhhhhhcc
Confidence 22222111 01 11224567899999987654
No 239
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=20.13 E-value=65 Score=28.73 Aligned_cols=12 Identities=33% Similarity=0.930 Sum_probs=8.7
Q ss_pred CccccCCCCCcc
Q 000963 1070 RVVYHCPFCNLC 1081 (1208)
Q Consensus 1070 k~~yHC~~CgiC 1081 (1208)
...|-|++|||-
T Consensus 12 ~v~~~Cp~cGip 23 (55)
T PF13824_consen 12 HVNFECPDCGIP 23 (55)
T ss_pred ccCCcCCCCCCc
Confidence 566888888863
No 240
>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 TIGR00058 Hemerythrin hemerythrin family non-heme iron proteins. This family includes oxygen carrier proteins of various oligomeric states from the vascular fluid (hemerythrin) and muscle (myohemerythrin) of some marine invertebrates. Each unit binds 2 non-heme Fe using 5 H, one E and one D. One member of this family,from the sandworm Nereis diversicolor, is an unusual (non-metallothionein) cadmium-binding protein. Homologous proteins, excluded from this narrowly defined family, are found in archaea and bacteria (see pfam01814).
Probab=20.05 E-value=4.5e+02 Score=26.21 Aligned_cols=96 Identities=14% Similarity=0.194 Sum_probs=0.0
Q ss_pred hhHHhHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhCCHHHHH-----
Q 000963 361 SFAQEHAEEEIQFDKLRCLIESIQSAGANSSTAEFYTKLCSQADLIMASIQKHFRNEEVQVLPLARRHFSPKRQR----- 435 (1208)
Q Consensus 361 ~me~EH~~ie~l~e~l~~ll~~l~~~~~~~~~~~~~~eLa~~le~L~~~L~~Hl~~EE~qvfPLl~~~fS~eEq~----- 435 (1208)
.|+..+..||..=.+|..++..+..+. . ...++.|..-...||..||.-.-..-=..+..-..+
T Consensus 10 ~~~~G~~~ID~qH~~L~~lin~l~~~~------~-----~~~l~~L~~y~~~HF~~EE~lM~~~~yp~~~~H~~~H~~f~ 78 (115)
T TIGR00058 10 SFKVFYDNLDEEHKTLFNGIFALAADN------S-----ATALKELIDVTVLHFLDEEAMMIAANYSDYDEHKKAHDDFL 78 (115)
T ss_pred hhhcCCHHHHHHHHHHHHHHHHHHhcc------h-----HHHHHHHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Q ss_pred HHHHhHhhcCCHHHHHHHHhhhcCCCCHHHHH
Q 000963 436 ELLYQSLCVMPLKLIECVLPWLVGSLSEEEAR 467 (1208)
Q Consensus 436 eL~~~~l~smPl~~l~~vLpWl~~~Ls~eE~~ 467 (1208)
+-+..+......+++..+-.|++.++--..++
T Consensus 79 ~~l~~~~~~~~~~~~~~l~~Wl~~HI~~~D~~ 110 (115)
T TIGR00058 79 AVLRGLKAPVPQDDLLYAKDWLVNHIKTTDFK 110 (115)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHH
Done!