Query 015350
Match_columns 408
No_of_seqs 415 out of 2737
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 05:29:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015350.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015350hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5243 HRD1 HRD ubiquitin lig 100.0 1.8E-54 4E-59 404.3 28.9 334 2-339 1-350 (491)
2 KOG0802 E3 ubiquitin ligase [P 100.0 5.3E-37 1.1E-41 318.6 27.6 329 7-335 2-342 (543)
3 KOG4628 Predicted E3 ubiquitin 99.5 6.8E-14 1.5E-18 134.5 10.6 74 264-337 202-281 (348)
4 PF13639 zf-RING_2: Ring finge 99.3 5E-13 1.1E-17 91.4 1.5 41 290-330 1-44 (44)
5 PLN03208 E3 ubiquitin-protein 99.2 2.9E-11 6.4E-16 107.1 7.1 50 287-336 16-81 (193)
6 KOG0317 Predicted E3 ubiquitin 99.2 6.2E-12 1.3E-16 116.4 2.6 52 286-337 236-287 (293)
7 PHA02929 N1R/p28-like protein; 99.2 2E-11 4.3E-16 112.7 4.5 48 287-334 172-227 (238)
8 PF12678 zf-rbx1: RING-H2 zinc 99.1 3.2E-11 7E-16 91.6 2.9 44 287-330 17-73 (73)
9 KOG0823 Predicted E3 ubiquitin 99.1 1.2E-10 2.6E-15 105.0 6.5 52 286-337 44-98 (230)
10 PF13920 zf-C3HC4_3: Zinc fing 99.0 1.2E-10 2.6E-15 81.9 2.5 46 289-334 2-48 (50)
11 PF13923 zf-C3HC4_2: Zinc fing 99.0 2.3E-10 4.9E-15 76.0 1.9 38 292-329 1-39 (39)
12 PF15227 zf-C3HC4_4: zinc fing 98.9 4.1E-10 8.9E-15 75.9 2.0 38 292-329 1-42 (42)
13 COG5540 RING-finger-containing 98.9 7.2E-10 1.6E-14 102.9 3.2 49 288-336 322-374 (374)
14 smart00504 Ubox Modified RING 98.8 1.9E-09 4.2E-14 79.4 3.3 46 290-335 2-47 (63)
15 cd00162 RING RING-finger (Real 98.8 2E-09 4.4E-14 73.1 3.1 43 291-333 1-45 (45)
16 PF12861 zf-Apc11: Anaphase-pr 98.8 3.6E-09 7.9E-14 81.2 3.2 48 288-335 20-83 (85)
17 KOG1734 Predicted RING-contain 98.8 7.1E-07 1.5E-11 81.9 17.3 58 287-344 222-291 (328)
18 PF00097 zf-C3HC4: Zinc finger 98.7 3.6E-09 7.8E-14 71.0 1.8 38 292-329 1-41 (41)
19 KOG0320 Predicted E3 ubiquitin 98.7 5E-09 1.1E-13 90.6 3.0 49 289-337 131-181 (187)
20 PHA02926 zinc finger-like prot 98.7 7.4E-09 1.6E-13 92.8 2.5 48 287-334 168-230 (242)
21 smart00184 RING Ring finger. E 98.7 1.6E-08 3.5E-13 66.1 2.9 38 292-329 1-39 (39)
22 KOG0828 Predicted E3 ubiquitin 98.6 1.7E-07 3.7E-12 92.4 9.7 49 287-335 569-635 (636)
23 TIGR00599 rad18 DNA repair pro 98.6 2.6E-08 5.6E-13 98.7 3.6 49 287-335 24-72 (397)
24 COG5574 PEX10 RING-finger-cont 98.5 2.9E-08 6.2E-13 91.2 2.1 50 288-337 214-265 (271)
25 PF14634 zf-RING_5: zinc-RING 98.5 4.3E-08 9.2E-13 66.8 2.3 41 291-331 1-44 (44)
26 PF13445 zf-RING_UBOX: RING-ty 98.5 4.9E-08 1.1E-12 65.8 1.3 35 292-327 1-43 (43)
27 PF04564 U-box: U-box domain; 98.4 8.9E-08 1.9E-12 72.8 1.8 49 288-336 3-52 (73)
28 KOG0287 Postreplication repair 98.4 7.6E-08 1.6E-12 90.8 1.2 47 289-335 23-69 (442)
29 PF13705 TRC8_N: TRC8 N-termin 98.4 2.7E-06 5.8E-11 86.0 12.2 112 112-227 355-467 (508)
30 COG5432 RAD18 RING-finger-cont 98.3 2E-07 4.3E-12 86.3 1.8 46 289-334 25-70 (391)
31 KOG2164 Predicted E3 ubiquitin 98.3 2.4E-07 5.1E-12 92.5 2.2 53 289-341 186-243 (513)
32 COG5194 APC11 Component of SCF 98.3 5.7E-07 1.2E-11 67.2 2.7 47 289-335 20-82 (88)
33 KOG4265 Predicted E3 ubiquitin 98.3 6.5E-07 1.4E-11 85.9 3.7 49 287-335 288-337 (349)
34 KOG1493 Anaphase-promoting com 98.2 3.5E-07 7.5E-12 67.7 1.1 48 287-334 18-81 (84)
35 COG5219 Uncharacterized conser 98.1 8.9E-07 1.9E-11 93.3 1.3 48 287-334 1467-1523(1525)
36 KOG1785 Tyrosine kinase negati 98.1 2.3E-06 4.9E-11 82.6 3.8 49 290-338 370-420 (563)
37 KOG2930 SCF ubiquitin ligase, 98.1 1.5E-06 3.3E-11 68.2 1.6 46 289-334 46-108 (114)
38 PF11793 FANCL_C: FANCL C-term 98.0 1.1E-06 2.3E-11 66.2 0.2 46 289-334 2-66 (70)
39 KOG2177 Predicted E3 ubiquitin 98.0 2.1E-06 4.5E-11 82.6 1.5 45 287-331 11-55 (386)
40 TIGR00570 cdk7 CDK-activating 97.9 5.5E-06 1.2E-10 79.1 3.0 49 289-337 3-57 (309)
41 KOG0824 Predicted E3 ubiquitin 97.9 5.4E-06 1.2E-10 77.6 1.7 49 288-336 6-55 (324)
42 KOG4172 Predicted E3 ubiquitin 97.9 2.9E-06 6.4E-11 58.7 -0.1 47 288-334 6-54 (62)
43 smart00744 RINGv The RING-vari 97.8 1E-05 2.3E-10 56.3 2.5 40 291-330 1-49 (49)
44 KOG0311 Predicted E3 ubiquitin 97.8 3.3E-06 7.1E-11 80.7 -0.5 54 287-340 41-96 (381)
45 PF14835 zf-RING_6: zf-RING of 97.8 4.7E-06 1E-10 60.2 0.4 46 289-336 7-53 (65)
46 KOG1941 Acetylcholine receptor 97.7 1.5E-05 3.2E-10 77.0 2.5 46 287-332 363-414 (518)
47 KOG2879 Predicted E3 ubiquitin 97.7 0.00011 2.4E-09 68.1 7.1 50 286-335 236-288 (298)
48 KOG4159 Predicted E3 ubiquitin 97.6 2.2E-05 4.9E-10 78.1 2.2 49 287-335 82-130 (398)
49 KOG0804 Cytoplasmic Zn-finger 97.6 2.5E-05 5.3E-10 76.9 1.2 45 288-334 174-222 (493)
50 KOG0827 Predicted E3 ubiquitin 97.5 5.1E-05 1.1E-09 73.4 1.7 45 290-334 5-56 (465)
51 KOG0978 E3 ubiquitin ligase in 97.4 3.6E-05 7.9E-10 80.8 0.7 50 288-337 642-692 (698)
52 KOG1039 Predicted E3 ubiquitin 97.3 8.6E-05 1.9E-09 72.5 1.9 48 287-334 159-221 (344)
53 KOG2114 Vacuolar assembly/sort 97.2 0.00025 5.3E-09 75.0 3.9 67 264-333 815-882 (933)
54 KOG4692 Predicted E3 ubiquitin 97.2 0.00049 1.1E-08 65.9 5.5 49 287-335 420-468 (489)
55 COG5222 Uncharacterized conser 97.2 0.00012 2.5E-09 68.5 1.3 45 289-333 274-321 (427)
56 COG5152 Uncharacterized conser 97.2 0.00013 2.8E-09 64.3 1.5 48 287-334 194-241 (259)
57 KOG0297 TNF receptor-associate 97.2 0.00016 3.5E-09 72.6 1.6 52 287-338 19-71 (391)
58 KOG1002 Nucleotide excision re 97.2 0.00024 5.1E-09 71.3 2.6 50 287-336 534-588 (791)
59 KOG1645 RING-finger-containing 97.1 0.00026 5.6E-09 69.1 2.6 46 288-333 3-55 (463)
60 KOG1571 Predicted E3 ubiquitin 97.1 0.0005 1.1E-08 66.4 4.5 45 287-334 303-347 (355)
61 KOG3970 Predicted E3 ubiquitin 97.0 0.001 2.2E-08 59.9 5.2 53 289-341 50-112 (299)
62 KOG1813 Predicted E3 ubiquitin 97.0 0.00024 5.2E-09 66.7 1.1 48 288-335 240-287 (313)
63 PF11789 zf-Nse: Zinc-finger o 96.8 0.0005 1.1E-08 49.4 1.3 41 288-328 10-53 (57)
64 KOG4275 Predicted E3 ubiquitin 96.8 0.00019 4.2E-09 67.0 -1.1 42 289-334 300-342 (350)
65 KOG2660 Locus-specific chromos 96.8 0.00033 7.2E-09 66.8 0.1 48 288-335 14-62 (331)
66 KOG0825 PHD Zn-finger protein 96.6 0.00041 8.8E-09 72.6 -0.4 31 305-335 142-172 (1134)
67 COG5236 Uncharacterized conser 96.3 0.0025 5.5E-08 60.9 2.7 56 279-334 51-108 (493)
68 KOG4445 Uncharacterized conser 96.3 0.0021 4.5E-08 60.4 1.9 52 289-340 115-192 (368)
69 PHA02825 LAP/PHD finger-like p 96.3 0.0032 7E-08 54.1 2.8 49 286-335 5-60 (162)
70 PF14447 Prok-RING_4: Prokaryo 96.2 0.0024 5.3E-08 44.8 1.4 46 289-336 7-52 (55)
71 PHA02862 5L protein; Provision 96.2 0.0032 6.9E-08 53.1 2.2 45 289-334 2-53 (156)
72 KOG1428 Inhibitor of type V ad 96.0 0.0036 7.7E-08 69.4 2.4 48 287-334 3484-3544(3738)
73 PF14570 zf-RING_4: RING/Ubox 95.8 0.0035 7.6E-08 43.0 0.8 42 292-333 1-47 (48)
74 KOG0826 Predicted E3 ubiquitin 95.7 0.058 1.3E-06 51.7 8.8 47 287-333 298-345 (357)
75 PF10367 Vps39_2: Vacuolar sor 95.4 0.011 2.4E-07 47.9 2.7 31 287-317 76-108 (109)
76 KOG3268 Predicted E3 ubiquitin 95.4 0.0061 1.3E-07 53.1 1.1 48 290-337 166-231 (234)
77 KOG4367 Predicted Zn-finger pr 95.3 0.025 5.3E-07 55.9 5.0 35 288-322 3-37 (699)
78 KOG2932 E3 ubiquitin ligase in 94.9 0.031 6.7E-07 53.0 4.1 42 290-333 91-133 (389)
79 COG5175 MOT2 Transcriptional r 94.9 0.014 3.1E-07 55.8 1.8 49 287-335 12-65 (480)
80 KOG1814 Predicted E3 ubiquitin 94.8 0.0096 2.1E-07 58.6 0.6 45 287-331 182-237 (445)
81 KOG3039 Uncharacterized conser 94.6 0.024 5.3E-07 52.0 2.6 50 288-337 220-273 (303)
82 KOG0802 E3 ubiquitin ligase [P 94.4 0.026 5.7E-07 59.4 2.9 60 275-338 465-524 (543)
83 PF12906 RINGv: RING-variant d 94.4 0.025 5.4E-07 38.9 1.8 38 292-329 1-47 (47)
84 PF10272 Tmpp129: Putative tra 94.0 0.069 1.5E-06 52.7 4.6 50 286-335 268-352 (358)
85 KOG4185 Predicted E3 ubiquitin 94.0 0.032 7E-07 54.0 2.3 44 290-333 4-54 (296)
86 KOG1001 Helicase-like transcri 93.7 0.025 5.4E-07 60.6 1.0 46 290-336 455-502 (674)
87 PF07800 DUF1644: Protein of u 93.6 0.076 1.7E-06 45.8 3.5 32 289-320 2-46 (162)
88 PHA03096 p28-like protein; Pro 93.4 0.035 7.7E-07 53.2 1.4 42 290-331 179-231 (284)
89 PF05883 Baculo_RING: Baculovi 93.4 0.046 1E-06 45.9 1.8 35 289-323 26-69 (134)
90 KOG4739 Uncharacterized protei 93.4 0.036 7.8E-07 51.1 1.3 42 292-335 6-49 (233)
91 PF04641 Rtf2: Rtf2 RING-finge 93.1 0.084 1.8E-06 50.2 3.5 49 287-336 111-163 (260)
92 PF08746 zf-RING-like: RING-li 92.9 0.087 1.9E-06 35.5 2.2 38 292-329 1-43 (43)
93 COG5183 SSM4 Protein involved 92.8 0.074 1.6E-06 56.5 2.7 48 287-334 10-66 (1175)
94 KOG1940 Zn-finger protein [Gen 92.8 0.052 1.1E-06 51.5 1.4 41 291-331 160-204 (276)
95 KOG1952 Transcription factor N 92.7 0.051 1.1E-06 58.0 1.4 46 287-332 189-245 (950)
96 KOG2034 Vacuolar sorting prote 92.7 0.089 1.9E-06 56.7 3.2 34 287-320 815-850 (911)
97 KOG0298 DEAD box-containing he 92.2 0.088 1.9E-06 58.8 2.4 46 288-333 1152-1198(1394)
98 PF03854 zf-P11: P-11 zinc fin 92.0 0.084 1.8E-06 35.8 1.3 43 291-335 4-47 (50)
99 KOG1100 Predicted E3 ubiquitin 91.9 0.072 1.6E-06 48.8 1.2 40 291-334 160-200 (207)
100 KOG3053 Uncharacterized conser 91.2 0.091 2E-06 48.6 1.1 47 287-333 18-81 (293)
101 KOG0827 Predicted E3 ubiquitin 90.3 0.025 5.4E-07 55.2 -3.6 46 289-334 196-245 (465)
102 PF05290 Baculo_IE-1: Baculovi 89.7 1.1 2.5E-05 37.5 6.2 48 289-336 80-134 (140)
103 KOG3800 Predicted E3 ubiquitin 89.4 0.24 5.3E-06 46.8 2.3 43 291-333 2-50 (300)
104 COG5220 TFB3 Cdk activating ki 89.1 0.21 4.6E-06 45.8 1.6 45 287-331 8-61 (314)
105 KOG3002 Zn finger protein [Gen 88.2 0.29 6.4E-06 47.3 2.1 44 287-334 46-91 (299)
106 KOG0824 Predicted E3 ubiquitin 86.7 0.93 2E-05 43.2 4.4 49 287-335 103-152 (324)
107 KOG3161 Predicted E3 ubiquitin 86.7 0.25 5.3E-06 51.4 0.6 39 290-331 12-54 (861)
108 KOG0801 Predicted E3 ubiquitin 84.9 0.41 8.9E-06 41.3 1.0 28 286-313 174-204 (205)
109 PRK12495 hypothetical protein; 84.6 3.3 7.1E-05 37.9 6.6 58 256-335 13-70 (226)
110 KOG0309 Conserved WD40 repeat- 83.2 0.62 1.4E-05 49.5 1.7 24 305-328 1046-1069(1081)
111 PF02891 zf-MIZ: MIZ/SP-RING z 83.2 0.98 2.1E-05 31.4 2.2 42 290-332 3-50 (50)
112 KOG2817 Predicted E3 ubiquitin 83.1 0.99 2.2E-05 44.7 2.9 44 287-330 332-381 (394)
113 KOG1609 Protein involved in mR 82.8 0.69 1.5E-05 44.9 1.8 48 289-336 78-136 (323)
114 KOG4362 Transcriptional regula 82.4 0.38 8.3E-06 51.0 -0.2 47 289-335 21-70 (684)
115 KOG2068 MOT2 transcription fac 82.1 1.8 3.9E-05 41.9 4.2 45 290-334 250-298 (327)
116 KOG3899 Uncharacterized conser 80.9 0.81 1.8E-05 43.3 1.4 30 307-336 325-367 (381)
117 KOG0269 WD40 repeat-containing 79.9 1.2 2.6E-05 47.4 2.4 38 291-328 781-820 (839)
118 KOG0825 PHD Zn-finger protein 77.5 1.3 2.7E-05 47.5 1.7 47 288-334 95-154 (1134)
119 PLN02400 cellulose synthase 74.7 5.1 0.00011 45.0 5.5 47 288-334 35-89 (1085)
120 PF04216 FdhE: Protein involve 73.0 1.2 2.5E-05 43.1 0.1 45 287-331 170-219 (290)
121 KOG1829 Uncharacterized conser 72.8 1.4 2.9E-05 46.3 0.5 41 287-330 509-557 (580)
122 KOG3579 Predicted E3 ubiquitin 72.1 2.5 5.4E-05 40.0 2.0 35 288-322 267-305 (352)
123 KOG4718 Non-SMC (structural ma 71.2 1.9 4.1E-05 39.0 1.0 43 289-331 181-224 (235)
124 KOG1812 Predicted E3 ubiquitin 71.2 1.7 3.7E-05 43.7 0.8 35 288-322 145-183 (384)
125 KOG3842 Adaptor protein Pellin 70.6 3.4 7.4E-05 39.7 2.6 49 287-335 339-415 (429)
126 PLN02189 cellulose synthase 70.0 5.7 0.00012 44.4 4.5 47 288-334 33-87 (1040)
127 KOG3113 Uncharacterized conser 68.2 4.8 0.0001 37.5 3.0 48 287-336 109-160 (293)
128 PLN02436 cellulose synthase A 67.9 6.7 0.00015 44.0 4.5 47 288-334 35-89 (1094)
129 PF07191 zinc-ribbons_6: zinc- 66.4 0.69 1.5E-05 34.4 -2.3 40 290-334 2-41 (70)
130 PF14569 zf-UDP: Zinc-binding 65.7 7.5 0.00016 29.5 3.0 47 288-334 8-62 (80)
131 PLN02638 cellulose synthase A 64.8 9.4 0.0002 43.0 4.9 47 288-334 16-70 (1079)
132 PF10571 UPF0547: Uncharacteri 63.8 2.7 5.9E-05 25.0 0.3 10 291-300 2-11 (26)
133 KOG3039 Uncharacterized conser 63.1 4.9 0.00011 37.3 2.0 33 288-320 42-74 (303)
134 PF06906 DUF1272: Protein of u 62.1 13 0.00027 26.4 3.4 45 290-336 6-54 (57)
135 KOG2066 Vacuolar assembly/sort 61.1 3.3 7.1E-05 44.6 0.6 43 287-330 782-831 (846)
136 PF04710 Pellino: Pellino; In 61.0 2.8 6E-05 41.7 0.0 46 289-334 328-401 (416)
137 PF13901 DUF4206: Domain of un 60.4 5.3 0.00012 36.4 1.8 40 287-331 150-197 (202)
138 KOG1815 Predicted E3 ubiquitin 57.7 5.3 0.00011 41.1 1.4 36 287-322 68-104 (444)
139 PF14446 Prok-RING_1: Prokaryo 54.9 12 0.00026 26.4 2.4 37 288-328 4-44 (54)
140 PF00412 LIM: LIM domain; Int 54.1 8.2 0.00018 27.0 1.5 37 292-336 1-39 (58)
141 smart00132 LIM Zinc-binding do 50.7 11 0.00024 23.5 1.7 36 291-334 1-38 (39)
142 smart00249 PHD PHD zinc finger 50.6 7 0.00015 25.6 0.7 28 291-318 1-31 (47)
143 KOG1812 Predicted E3 ubiquitin 50.4 8.1 0.00017 38.9 1.3 45 287-331 304-353 (384)
144 KOG3005 GIY-YIG type nuclease 50.1 7.7 0.00017 36.6 1.0 45 289-333 182-242 (276)
145 PRK03564 formate dehydrogenase 49.6 8.1 0.00018 37.6 1.2 45 287-331 185-234 (309)
146 PLN02915 cellulose synthase A 49.1 21 0.00046 40.1 4.4 47 288-334 14-68 (1044)
147 KOG3799 Rab3 effector RIM1 and 49.0 26 0.00056 29.5 3.8 43 287-333 63-117 (169)
148 KOG2846 Predicted membrane pro 47.1 36 0.00078 33.2 5.1 34 304-338 220-257 (328)
149 TIGR01562 FdhE formate dehydro 46.4 7.8 0.00017 37.7 0.5 44 288-331 183-232 (305)
150 KOG2807 RNA polymerase II tran 44.3 16 0.00034 35.5 2.1 42 289-330 330-374 (378)
151 PF06844 DUF1244: Protein of u 41.6 15 0.00032 27.0 1.2 13 310-322 11-23 (68)
152 PF04710 Pellino: Pellino; In 41.4 8.8 0.00019 38.2 0.0 26 305-333 307-338 (416)
153 PF07975 C1_4: TFIIH C1-like d 41.4 18 0.00039 25.3 1.5 25 306-330 26-50 (51)
154 PF10497 zf-4CXXC_R1: Zinc-fin 40.3 30 0.00064 28.1 2.9 44 289-332 7-70 (105)
155 COG5109 Uncharacterized conser 38.1 24 0.00053 34.1 2.4 42 288-329 335-382 (396)
156 PLN02248 cellulose synthase-li 34.5 50 0.0011 37.6 4.4 30 307-336 150-179 (1135)
157 PF01363 FYVE: FYVE zinc finge 34.2 13 0.00028 27.2 -0.1 33 288-320 8-44 (69)
158 PF02318 FYVE_2: FYVE-type zin 33.3 13 0.00029 30.7 -0.2 43 288-331 53-102 (118)
159 cd00350 rubredoxin_like Rubred 32.9 31 0.00068 21.4 1.6 10 322-331 16-25 (33)
160 KOG2113 Predicted RNA binding 32.2 26 0.00057 33.8 1.6 43 288-332 342-385 (394)
161 PF09723 Zn-ribbon_8: Zinc rib 32.0 11 0.00024 25.0 -0.7 25 306-331 10-34 (42)
162 KOG2302 T-type voltage-gated C 31.7 8.5E+02 0.018 28.1 16.6 19 193-211 1336-1354(1956)
163 COG5243 HRD1 HRD ubiquitin lig 31.6 5.4E+02 0.012 25.8 12.8 10 289-298 334-343 (491)
164 PF11023 DUF2614: Protein of u 31.4 15 0.00033 30.0 -0.1 23 318-340 80-102 (114)
165 PRK04023 DNA polymerase II lar 31.3 21 0.00046 39.9 0.9 48 287-336 624-676 (1121)
166 PLN02195 cellulose synthase A 30.1 46 0.001 37.3 3.2 48 287-334 4-59 (977)
167 KOG0957 PHD finger protein [Ge 29.7 33 0.00072 35.2 1.9 42 289-330 544-596 (707)
168 PF04423 Rad50_zn_hook: Rad50 29.6 18 0.0004 25.2 0.1 10 325-334 22-31 (54)
169 KOG2231 Predicted E3 ubiquitin 29.1 40 0.00086 36.3 2.5 50 291-340 2-58 (669)
170 TIGR00622 ssl1 transcription f 28.9 42 0.00091 27.5 2.1 41 290-330 56-110 (112)
171 PF00628 PHD: PHD-finger; Int 28.7 22 0.00049 24.1 0.4 41 291-331 1-50 (51)
172 PF09889 DUF2116: Uncharacteri 28.2 31 0.00067 24.9 1.0 16 322-337 2-17 (59)
173 KOG3842 Adaptor protein Pellin 28.2 30 0.00065 33.4 1.2 24 304-332 319-350 (429)
174 COG3813 Uncharacterized protei 27.1 46 0.00099 24.9 1.8 43 292-336 8-54 (84)
175 KOG4185 Predicted E3 ubiquitin 27.1 8.4 0.00018 37.1 -2.8 46 288-333 206-266 (296)
176 COG3364 Zn-ribbon containing p 26.8 50 0.0011 26.5 2.0 27 304-334 5-31 (112)
177 TIGR02367 PylS pyrrolysyl-tRNA 26.5 96 0.0021 31.8 4.5 15 318-332 57-74 (453)
178 KOG2071 mRNA cleavage and poly 26.2 35 0.00076 35.9 1.4 31 289-319 513-556 (579)
179 PF14169 YdjO: Cold-inducible 25.9 35 0.00076 24.6 1.0 15 322-336 38-52 (59)
180 PF13832 zf-HC5HC2H_2: PHD-zin 25.6 73 0.0016 25.5 3.0 29 288-318 54-87 (110)
181 KOG0314 Predicted E3 ubiquitin 25.4 85 0.0018 32.2 3.9 15 287-301 217-232 (448)
182 KOG2857 Predicted MYND Zn-fing 25.3 1.1E+02 0.0024 26.1 3.9 10 324-333 18-27 (157)
183 PF12660 zf-TFIIIC: Putative z 25.2 14 0.00031 29.5 -1.3 46 290-336 15-68 (99)
184 PRK11595 DNA utilization prote 25.0 61 0.0013 29.9 2.7 39 290-333 6-44 (227)
185 PF14311 DUF4379: Domain of un 24.7 40 0.00087 23.5 1.1 22 307-329 34-55 (55)
186 cd04718 BAH_plant_2 BAH, or Br 24.7 28 0.0006 30.0 0.3 24 311-334 2-29 (148)
187 KOG2041 WD40 repeat protein [G 24.7 80 0.0017 34.2 3.7 25 306-334 1161-1185(1189)
188 TIGR02652 conserved hypothetic 24.5 46 0.001 28.3 1.6 13 323-335 9-21 (163)
189 COG4647 AcxC Acetone carboxyla 24.3 92 0.002 26.1 3.2 26 289-314 57-82 (165)
190 PF06676 DUF1178: Protein of u 24.2 56 0.0012 28.2 2.1 22 307-333 10-42 (148)
191 KOG4451 Uncharacterized conser 24.1 60 0.0013 29.9 2.3 25 311-335 251-275 (286)
192 PF10235 Cript: Microtubule-as 23.9 88 0.0019 24.6 2.9 39 289-336 44-82 (90)
193 PF09654 DUF2396: Protein of u 23.4 51 0.0011 28.0 1.6 13 323-335 6-18 (161)
194 PF13261 DUF4052: Protein of u 23.3 2.1E+02 0.0045 25.5 5.4 56 11-66 51-106 (217)
195 KOG1815 Predicted E3 ubiquitin 23.1 31 0.00068 35.4 0.4 21 109-129 30-50 (444)
196 PF09726 Macoilin: Transmembra 22.9 4.8E+02 0.01 28.6 9.3 12 116-127 43-54 (697)
197 smart00064 FYVE Protein presen 22.4 52 0.0011 23.8 1.4 32 289-320 10-45 (68)
198 PRK02935 hypothetical protein; 21.7 46 0.00099 26.9 1.0 22 318-339 81-102 (110)
199 KOG2113 Predicted RNA binding 21.6 31 0.00066 33.4 -0.0 46 289-334 136-183 (394)
200 KOG1245 Chromatin remodeling c 20.9 97 0.0021 36.7 3.8 45 289-333 1108-1159(1404)
201 KOG0289 mRNA splicing factor [ 20.4 85 0.0018 31.9 2.7 49 291-339 2-51 (506)
202 cd00065 FYVE FYVE domain; Zinc 20.4 55 0.0012 22.7 1.1 30 290-319 3-36 (57)
No 1
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.8e-54 Score=404.35 Aligned_cols=334 Identities=32% Similarity=0.551 Sum_probs=283.6
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHhcccchhhhhhhcc-CCchHHHHHHHHHHHHHHHHHHHHHHhcccCcHHHHHHHHHh
Q 015350 2 MRLQTYAGFSFMATLAVVYHAFNSRRQFYPSMVYLST-SKISLVLLMNMGLVIMCILWQLIKKVFLGSLREAEVERLNEQ 80 (408)
Q Consensus 2 ~~~~~y~~~s~~~~~~~v~~a~~~~~~fy~~~v~l~~-s~~~~~il~N~~~~~~~~~~~~~~~~~fG~Lr~~E~e~l~e~ 80 (408)
||..+|+..++++.+..++-++++..+-|++.+..++ |+.++++..|++++++.++|+++++++||+||..|.||++|+
T Consensus 1 ~r~i~y~l~~~Vl~~l~~~~~~~~s~t~ys~l~~t~~ls~~hi~i~~~~ill~~~l~~~~l~~llFGsLr~~E~e~~~E~ 80 (491)
T COG5243 1 MRFILYVLASLVLFGLSVLLSLYSSATVYSALVMTSQLSPVHITIGLNVILLLFFLIANALKTLLFGSLRTFELELLYEQ 80 (491)
T ss_pred CceeehhHHHHHHHHHHHHHHHhccceeeeeeeeeeccCcchhHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHh
Confidence 6889999999999999999999999999999999888 889999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccCCCCchHH--HHHHHHHHHHHHHHHHHHHH
Q 015350 81 SRREIMEILFAITIFRQDFSVSFLAMVTTLLLIKALHWLAQKRVEYIETTPTVPLLSH--IRIVSFMSFLLLVDSLFLYS 158 (408)
Q Consensus 81 ~~~~v~~~~~~~~if~~~~~~~~~~~~~~l~~lk~fh~l~~dR~e~l~~sp~~~~~~h--~R~~~~l~~ll~~d~~~~~~ 158 (408)
+|++++|+++++++|++++++++..+++.|+++|+||||+++|+|-+. ..++....| -|....+.+|.++|.-+++.
T Consensus 81 l~~tlt~~ll~iS~F~e~i~fs~~~l~~~Ll~~kvfhwil~~R~er~~-~~st~~~~~ifSrfS~~~~lL~ild~~li~~ 159 (491)
T COG5243 81 LWITLTEILLAISVFREAISFSFFMLLSTLLFAKVFHWILSFRTERLQ-IQSTDQRFHIFSRFSCAYFLLSILDASLIYL 159 (491)
T ss_pred hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 999999999999999999999999999999999999999999999543 234455555 37777778888999777777
Q ss_pred HHHHHHhhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 015350 159 SVKFLLQTRQASVSLFFSFEYMILATTTVSIFVKYVFYVSDMLMEGQWERKAVYTFYLELIRDLLHLSMYLCFFLVIFMN 238 (408)
Q Consensus 159 ~~~~~~~~~~~~~~~~f~fE~~il~~~~l~~~~~y~~~~~d~~~~~~we~k~~~~~y~~l~~~~l~l~~~~~f~~~i~~~ 238 (408)
|+....-.++...+ +|-+||-.+....-+...|-.++..|.+++. +.|..+.|++|+..+-+.+..|..+++..+..
T Consensus 160 CiSs~~liD~~~lf-L~~c~F~~~ll~l~s~~n~~cV~n~~~~ddD--d~rs~~~f~~~v~y~g~tllays~l~~~~~~~ 236 (491)
T COG5243 160 CISSEHLIDKSTLF-LFVCEFSVLLLNLTSEANKLCVYNYEARDDD--DERSTYLFRLEVCYDGLTLLAYSLLFMYQFPY 236 (491)
T ss_pred HhhhHhhhhhhHHH-HHHHHHHHHHHHHHHhhcccceeeccccccc--ccceeeeeeeehHHHHHHHHHHHHHHHhhccc
Confidence 66521111222222 3444555443333333334455555665544 67788999999999999999999999999999
Q ss_pred hcccHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccCCCCCCcccccCCCCccccccccc-c------------CCeEE
Q 015350 239 YGVPLHLIRELYETFRNFRIRVADYVRYRKITSNMNDRFPDASPEELDASDSTCIICREEM-T------------TAKKL 305 (408)
Q Consensus 239 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~-~------------~~~~l 305 (408)
+++|++++++.|..+-.+.+|++.+.++++..|++++.++.++.|++.++|..|.||+|++ . .|+++
T Consensus 237 ~r~Pi~l~r~~~t~~~AL~~~i~~~~~~~r~~kdl~~~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL 316 (491)
T COG5243 237 VRVPIYLIRQMYTCFYALFRRIREHARFRRATKDLNAMYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL 316 (491)
T ss_pred hhchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccc
Confidence 9999999999999999999999999999999999999999999999999999999999995 3 35889
Q ss_pred eecccccHhhHHHHHhcCCCCccccCcccCCCCC
Q 015350 306 ICGHLFHVHCLRSWLERQHTCPTCRALVVPPENG 339 (408)
Q Consensus 306 pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~~~~ 339 (408)
||||.+|.+|++.|++++++||.||.++.-++.+
T Consensus 317 pCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~ 350 (491)
T COG5243 317 PCGHILHLHCLKNWLERQQTCPICRRPVIFDQSS 350 (491)
T ss_pred cccceeeHHHHHHHHHhccCCCcccCccccccCC
Confidence 9999999999999999999999999997555444
No 2
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=5.3e-37 Score=318.62 Aligned_cols=329 Identities=30% Similarity=0.501 Sum_probs=286.9
Q ss_pred HHHHHHHHHHHHHHHHHHhcccchhhhhhhccCCchHHHHHHHHHHHHHHHHHHHHHHhcccCcHHHHHHHHHhhH-HHH
Q 015350 7 YAGFSFMATLAVVYHAFNSRRQFYPSMVYLSTSKISLVLLMNMGLVIMCILWQLIKKVFLGSLREAEVERLNEQSR-REI 85 (408)
Q Consensus 7 y~~~s~~~~~~~v~~a~~~~~~fy~~~v~l~~s~~~~~il~N~~~~~~~~~~~~~~~~~fG~Lr~~E~e~l~e~~~-~~v 85 (408)
|.+.|.+++...+.+|+....|+|++.+++.+++.++.++.|++++...++++.++.+|||.|+..|.||+.|++| +.+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~q~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~sl~~~~~g~l~~~~~e~~~~~l~~~~~ 81 (543)
T KOG0802|consen 2 YVRSSALATIKTIFSAYLGSAQSISTTVLLLSSPTSLAVLLNRALVVLALILLSLQLIFFGALLLSEAEHLSHSLWNLIG 81 (543)
T ss_pred cchhhHHHHHHHHHHHHHhhhcccccceeeecccHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677889999999999999999999999999999999999999999999999999999999999999999999999 666
Q ss_pred HHHHHHH--HhccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 015350 86 MEILFAI--TIFRQDFSVSFLAMVTTLLLIKALHWLAQKRVEYIETTPTVPLLSHIRIVSFMSFLLLVDSLFLYSSVKFL 163 (408)
Q Consensus 86 ~~~~~~~--~if~~~~~~~~~~~~~~l~~lk~fh~l~~dR~e~l~~sp~~~~~~h~R~~~~l~~ll~~d~~~~~~~~~~~ 163 (408)
.+..+.. +.|+..++..+..++.+++++|+|||+++||++.++.+|..+.+.|.|+.+.+..+.+.|....+.++...
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~~l~~~~~~~~~~~~~v~~~~~~l~~~~~~~~~~s~~~~ 161 (543)
T KOG0802|consen 82 LKYTFLLGYVTFRTVLSELFSLWLLLLLFLHVFHLLASDRLPRLFFSPLITTLNHFRVVSVLFALLIVDGHLVYNSLKTA 161 (543)
T ss_pred HHhhhhhccccccchhhHHHHHHHHHHHHHHHHHHHHHhHHHHHHhCcchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6766665 77777777567778888999999999999999999999999999999999998888888887777776666
Q ss_pred HhhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccH
Q 015350 164 LQTRQASVSLFFSFEYMILATTTVSIFVKYVFYVSDMLMEGQWERKAVYTFYLELIRDLLHLSMYLCFFLVIFMNYGVPL 243 (408)
Q Consensus 164 ~~~~~~~~~~~f~fE~~il~~~~l~~~~~y~~~~~d~~~~~~we~k~~~~~y~~l~~~~l~l~~~~~f~~~i~~~~~~~l 243 (408)
+++.+..+.+.+.+|.+++...+.....+|+++..+-....+|+.+..+.++.+...+......+..++.+.+..+++++
T Consensus 162 ~~t~~~~~l~~~~~~~~~~~~~~~~~~~~y~l~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ 241 (543)
T KOG0802|consen 162 YRTYGLSMLIELTFPSLLVVFWTALVILQYVLHSTADHIHIRSEDLSLLTFTLIIFGCMTLLVLLIMSAVISLVVHGILL 241 (543)
T ss_pred HHhhhhhheeccchHHHHHHHHHHHHHHHHHHhcchhhcCcccCccceeechhHHHhhhhHHHHHhhhHHHHHHHhHhhh
Confidence 66666777777899999888777777788999887523345679999999999988888888888888899999999999
Q ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHhhhhh-hccCCCCCCccc--ccCCCCccccccccccC-----CeEEeecccccHh
Q 015350 244 HLIRELYETF-RNFRIRVADYVRYRKITSN-MNDRFPDASPEE--LDASDSTCIICREEMTT-----AKKLICGHLFHVH 314 (408)
Q Consensus 244 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~~C~IC~~~~~~-----~~~lpC~H~Fh~~ 314 (408)
++.+.++... ....++.....+.+..... +....+..+.++ ....++.|+||+|++.. ++++||+|.||..
T Consensus 242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~ 321 (543)
T KOG0802|consen 242 GLVADLYNTPFLEVERRLRELAPLRRVILATLQTGLPGATLEERGLALSDELCIICLEELHSGHNITPKRLPCGHIFHDS 321 (543)
T ss_pred hhhHHHhhhhhhhHHHHccchHHHHHHhhccccccccccChHHhhhhhcCCeeeeechhhccccccccceeecccchHHH
Confidence 9999999887 7777788888888777777 777888888776 66778999999999988 7999999999999
Q ss_pred hHHHHHhcCCCCccccCcccC
Q 015350 315 CLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 315 Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
|+++|++++++||.||..+..
T Consensus 322 CL~~W~er~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 322 CLRSWFERQQTCPTCRTVLYD 342 (543)
T ss_pred HHHHHHHHhCcCCcchhhhhc
Confidence 999999999999999995543
No 3
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.51 E-value=6.8e-14 Score=134.50 Aligned_cols=74 Identities=30% Similarity=0.711 Sum_probs=53.4
Q ss_pred HHHHhhhhhhccCCCCCCccccc--CCCCccccccccccCCeE---EeecccccHhhHHHHHhcCCC-CccccCcccCCC
Q 015350 264 VRYRKITSNMNDRFPDASPEELD--ASDSTCIICREEMTTAKK---LICGHLFHVHCLRSWLERQHT-CPTCRALVVPPE 337 (408)
Q Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~C~IC~~~~~~~~~---lpC~H~Fh~~Cl~~wl~~~~~-CP~Cr~~i~~~~ 337 (408)
.+.++..+++-+++|-.+..... ...+.|+||+|+++++.+ |||+|.||..|+++|+.+..+ ||+|++++..+.
T Consensus 202 ~~~~r~~k~~l~~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 202 LRRNRLIKRLLKKLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhhhhHHHHHhhCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 34455555555555554433322 122589999999998855 699999999999999988755 999999886543
No 4
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.31 E-value=5e-13 Score=91.41 Aligned_cols=41 Identities=49% Similarity=1.226 Sum_probs=35.3
Q ss_pred CccccccccccC---CeEEeecccccHhhHHHHHhcCCCCcccc
Q 015350 290 STCIICREEMTT---AKKLICGHLFHVHCLRSWLERQHTCPTCR 330 (408)
Q Consensus 290 ~~C~IC~~~~~~---~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr 330 (408)
++|+||++++.. ...++|||.||.+|+.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 479999999954 35679999999999999999999999997
No 5
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.20 E-value=2.9e-11 Score=107.09 Aligned_cols=50 Identities=30% Similarity=0.767 Sum_probs=43.5
Q ss_pred CCCCccccccccccCCeEEeecccccHhhHHHHHhc----------------CCCCccccCcccCC
Q 015350 287 ASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLER----------------QHTCPTCRALVVPP 336 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~----------------~~~CP~Cr~~i~~~ 336 (408)
.++.+|+||++.+++|+.++|||.||..|+.+|+.. ...||.||.++...
T Consensus 16 ~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 16 GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 346789999999999999999999999999999852 24799999999653
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=6.2e-12 Score=116.39 Aligned_cols=52 Identities=27% Similarity=0.761 Sum_probs=47.0
Q ss_pred cCCCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccCCC
Q 015350 286 DASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVPPE 337 (408)
Q Consensus 286 ~~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~~ 337 (408)
...+..|.+|+|..++|..+||||+||..||.+|......||+||....+.+
T Consensus 236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 3456789999999999999999999999999999999999999999887543
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.17 E-value=2e-11 Score=112.72 Aligned_cols=48 Identities=31% Similarity=0.848 Sum_probs=41.1
Q ss_pred CCCCccccccccccCC--------eEEeecccccHhhHHHHHhcCCCCccccCccc
Q 015350 287 ASDSTCIICREEMTTA--------KKLICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~--------~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
..+.+|+||++.+.++ ...+|+|.||..|+.+|++++.+||+||.++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 3467999999987653 33579999999999999999999999999875
No 8
>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=99.12 E-value=3.2e-11 Score=91.62 Aligned_cols=44 Identities=45% Similarity=1.138 Sum_probs=35.6
Q ss_pred CCCCccccccccccCC-------------eEEeecccccHhhHHHHHhcCCCCcccc
Q 015350 287 ASDSTCIICREEMTTA-------------KKLICGHLFHVHCLRSWLERQHTCPTCR 330 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~-------------~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr 330 (408)
..++.|+||++.+.++ ...+|||.||..||.+|++.+.+||+||
T Consensus 17 ~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 17 IADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3455699999999332 2247999999999999999999999998
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.11 E-value=1.2e-10 Score=105.00 Aligned_cols=52 Identities=35% Similarity=0.733 Sum_probs=45.4
Q ss_pred cCCCCccccccccccCCeEEeecccccHhhHHHHHhc---CCCCccccCcccCCC
Q 015350 286 DASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLER---QHTCPTCRALVVPPE 337 (408)
Q Consensus 286 ~~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~---~~~CP~Cr~~i~~~~ 337 (408)
+....+|.||+|.-++|+.+.|||.||+.||.+|++. .+.||+|+..+..++
T Consensus 44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 3557899999999999999999999999999999976 345999999987544
No 10
>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=99.03 E-value=1.2e-10 Score=81.89 Aligned_cols=46 Identities=39% Similarity=0.820 Sum_probs=41.2
Q ss_pred CCccccccccccCCeEEeeccc-ccHhhHHHHHhcCCCCccccCccc
Q 015350 289 DSTCIICREEMTTAKKLICGHL-FHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H~-Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
+..|.||++...+...+||||. ||..|..+|.++...||.||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5689999999999888999999 999999999999999999999875
No 11
>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=98.97 E-value=2.3e-10 Score=76.05 Aligned_cols=38 Identities=37% Similarity=0.964 Sum_probs=33.8
Q ss_pred cccccccccCC-eEEeecccccHhhHHHHHhcCCCCccc
Q 015350 292 CIICREEMTTA-KKLICGHLFHVHCLRSWLERQHTCPTC 329 (408)
Q Consensus 292 C~IC~~~~~~~-~~lpC~H~Fh~~Cl~~wl~~~~~CP~C 329 (408)
|+||++.+.++ ..++|||.||.+|+.+|++++.+||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999999 568999999999999999998899998
No 12
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.93 E-value=4.1e-10 Score=75.85 Aligned_cols=38 Identities=34% Similarity=0.851 Sum_probs=30.5
Q ss_pred cccccccccCCeEEeecccccHhhHHHHHhcC----CCCccc
Q 015350 292 CIICREEMTTAKKLICGHLFHVHCLRSWLERQ----HTCPTC 329 (408)
Q Consensus 292 C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~----~~CP~C 329 (408)
|+||++.+++|+.++|||.||.+|+.+|.+.. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999999999999999999988653 359987
No 13
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=7.2e-10 Score=102.88 Aligned_cols=49 Identities=37% Similarity=0.921 Sum_probs=41.9
Q ss_pred CCCccccccccccCCe---EEeecccccHhhHHHHHh-cCCCCccccCcccCC
Q 015350 288 SDSTCIICREEMTTAK---KLICGHLFHVHCLRSWLE-RQHTCPTCRALVVPP 336 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~---~lpC~H~Fh~~Cl~~wl~-~~~~CP~Cr~~i~~~ 336 (408)
.+-+|+||++++.+.. .+||.|.||..|+.+|+. -+..||+||.+++++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPPp 374 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPPP 374 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCCC
Confidence 3568999999997664 469999999999999997 567899999998763
No 14
>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=98.85 E-value=1.9e-09 Score=79.42 Aligned_cols=46 Identities=22% Similarity=0.319 Sum_probs=42.6
Q ss_pred CccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 290 STCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 290 ~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
..|+||.+.+++|+.+||||+|+++|+.+|++++.+||.|+.++..
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 4799999999999999999999999999999888899999988743
No 15
>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=98.84 E-value=2e-09 Score=73.07 Aligned_cols=43 Identities=42% Similarity=1.066 Sum_probs=37.3
Q ss_pred ccccccccccCCeEEe-ecccccHhhHHHHHhc-CCCCccccCcc
Q 015350 291 TCIICREEMTTAKKLI-CGHLFHVHCLRSWLER-QHTCPTCRALV 333 (408)
Q Consensus 291 ~C~IC~~~~~~~~~lp-C~H~Fh~~Cl~~wl~~-~~~CP~Cr~~i 333 (408)
.|+||++.+.++..++ |||.||..|+++|+++ +..||.||.++
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999997776665 9999999999999987 77899999764
No 16
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.79 E-value=3.6e-09 Score=81.15 Aligned_cols=48 Identities=35% Similarity=0.773 Sum_probs=37.9
Q ss_pred CCCccccccccccC------------CeE-EeecccccHhhHHHHHhc---CCCCccccCcccC
Q 015350 288 SDSTCIICREEMTT------------AKK-LICGHLFHVHCLRSWLER---QHTCPTCRALVVP 335 (408)
Q Consensus 288 ~~~~C~IC~~~~~~------------~~~-lpC~H~Fh~~Cl~~wl~~---~~~CP~Cr~~i~~ 335 (408)
+++.|.||+..++. |.. -.|+|.||..||.+|+++ ++.||+||++..-
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 47889999998862 111 159999999999999975 4679999998653
No 17
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=7.1e-07 Score=81.95 Aligned_cols=58 Identities=33% Similarity=0.744 Sum_probs=44.8
Q ss_pred CCCCccccccccccC----------CeEEeecccccHhhHHHHH--hcCCCCccccCcccCCCCCCCCCC
Q 015350 287 ASDSTCIICREEMTT----------AKKLICGHLFHVHCLRSWL--ERQHTCPTCRALVVPPENGASTAG 344 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~----------~~~lpC~H~Fh~~Cl~~wl--~~~~~CP~Cr~~i~~~~~~~~~~~ 344 (408)
.++..|++|-..+.. .-+|.|+|+||+.|++.|. .++++||.|+..+..+.-.+++.+
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnpWe 291 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNPWE 291 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccCccc
Confidence 457899999877643 2368999999999999996 567899999988865544444443
No 18
>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=98.75 E-value=3.6e-09 Score=71.01 Aligned_cols=38 Identities=47% Similarity=1.047 Sum_probs=34.8
Q ss_pred cccccccccCCe-EEeecccccHhhHHHHHh--cCCCCccc
Q 015350 292 CIICREEMTTAK-KLICGHLFHVHCLRSWLE--RQHTCPTC 329 (408)
Q Consensus 292 C~IC~~~~~~~~-~lpC~H~Fh~~Cl~~wl~--~~~~CP~C 329 (408)
|+||++.+.++. .++|||.||..|+++|++ ....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999999998 789999999999999998 46679998
No 19
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=5e-09 Score=90.60 Aligned_cols=49 Identities=29% Similarity=0.760 Sum_probs=42.4
Q ss_pred CCccccccccccCCe--EEeecccccHhhHHHHHhcCCCCccccCcccCCC
Q 015350 289 DSTCIICREEMTTAK--KLICGHLFHVHCLRSWLERQHTCPTCRALVVPPE 337 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~--~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~~ 337 (408)
...|+||++.+.+.. .+.|||+||..|++.-++....||+||+.|..++
T Consensus 131 ~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 467999999997654 4789999999999999999999999999887554
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=98.69 E-value=7.4e-09 Score=92.80 Aligned_cols=48 Identities=27% Similarity=0.737 Sum_probs=37.8
Q ss_pred CCCCccccccccccC---------CeEEeecccccHhhHHHHHhcC------CCCccccCccc
Q 015350 287 ASDSTCIICREEMTT---------AKKLICGHLFHVHCLRSWLERQ------HTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~---------~~~lpC~H~Fh~~Cl~~wl~~~------~~CP~Cr~~i~ 334 (408)
+.+.+|+||+|...+ +...+|+|.||..|++.|.+.+ .+||.||....
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 457899999998633 2234899999999999999753 35999998764
No 21
>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=98.66 E-value=1.6e-08 Score=66.12 Aligned_cols=38 Identities=47% Similarity=1.128 Sum_probs=34.7
Q ss_pred cccccccccCCeEEeecccccHhhHHHHHh-cCCCCccc
Q 015350 292 CIICREEMTTAKKLICGHLFHVHCLRSWLE-RQHTCPTC 329 (408)
Q Consensus 292 C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~-~~~~CP~C 329 (408)
|+||++....+..++|||.||..|+++|++ .+..||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 889999988888999999999999999998 56679987
No 22
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=1.7e-07 Score=92.43 Aligned_cols=49 Identities=31% Similarity=0.841 Sum_probs=39.2
Q ss_pred CCCCccccccccccC-----------------CeEEeecccccHhhHHHHHhc-CCCCccccCcccC
Q 015350 287 ASDSTCIICREEMTT-----------------AKKLICGHLFHVHCLRSWLER-QHTCPTCRALVVP 335 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~-----------------~~~lpC~H~Fh~~Cl~~wl~~-~~~CP~Cr~~i~~ 335 (408)
+...+|+||+.+.+- =..+||.|+||..|+.+|++. +-.||.||+++++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 456789999988642 012499999999999999995 4489999999864
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.60 E-value=2.6e-08 Score=98.68 Aligned_cols=49 Identities=31% Similarity=0.632 Sum_probs=44.7
Q ss_pred CCCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 287 ASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
.....|+||.+.+..|+.++|||.||..|+..|+.....||.||.++..
T Consensus 24 e~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 24 DTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred ccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 3467999999999999999999999999999999888889999998764
No 24
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=2.9e-08 Score=91.17 Aligned_cols=50 Identities=40% Similarity=0.897 Sum_probs=44.3
Q ss_pred CCCccccccccccCCeEEeecccccHhhHHH-HHhcCCC-CccccCcccCCC
Q 015350 288 SDSTCIICREEMTTAKKLICGHLFHVHCLRS-WLERQHT-CPTCRALVVPPE 337 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~-wl~~~~~-CP~Cr~~i~~~~ 337 (408)
.+..|+||++....|..+||||+||..||.. |-.++.. ||+||+...+.+
T Consensus 214 ~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 214 ADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred cccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 3678999999999999999999999999999 9877666 999999886654
No 25
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.54 E-value=4.3e-08 Score=66.85 Aligned_cols=41 Identities=34% Similarity=0.859 Sum_probs=34.8
Q ss_pred cccccccccc---CCeEEeecccccHhhHHHHHhcCCCCccccC
Q 015350 291 TCIICREEMT---TAKKLICGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 291 ~C~IC~~~~~---~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
.|+||.+.+. .+..++|||.||..|+.........||.||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4899999992 3456799999999999998866778999985
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.47 E-value=4.9e-08 Score=65.78 Aligned_cols=35 Identities=40% Similarity=0.977 Sum_probs=22.2
Q ss_pred cccccccccC----CeEEeecccccHhhHHHHHhcC----CCCc
Q 015350 292 CIICREEMTT----AKKLICGHLFHVHCLRSWLERQ----HTCP 327 (408)
Q Consensus 292 C~IC~~~~~~----~~~lpC~H~Fh~~Cl~~wl~~~----~~CP 327 (408)
|+||.| +.+ |+.|+|||.||++|++++.+++ ..||
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 899999 877 8899999999999999998753 2476
No 27
>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=98.43 E-value=8.9e-08 Score=72.79 Aligned_cols=49 Identities=27% Similarity=0.406 Sum_probs=39.9
Q ss_pred CCCccccccccccCCeEEeecccccHhhHHHHHhc-CCCCccccCcccCC
Q 015350 288 SDSTCIICREEMTTAKKLICGHLFHVHCLRSWLER-QHTCPTCRALVVPP 336 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~-~~~CP~Cr~~i~~~ 336 (408)
+...|+||.+.|.+|+.+||||.|.+.|+.+|+++ +.+||.|+.++...
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 35689999999999999999999999999999988 88999999888643
No 28
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.41 E-value=7.6e-08 Score=90.83 Aligned_cols=47 Identities=32% Similarity=0.609 Sum_probs=44.1
Q ss_pred CCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 289 DSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
-..|.||.|.+..|..+||+|.||.-||+..|..++.||.|+.++.+
T Consensus 23 lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 23 LLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccch
Confidence 46899999999999999999999999999999999999999988864
No 29
>PF13705 TRC8_N: TRC8 N-terminal domain
Probab=98.40 E-value=2.7e-06 Score=85.98 Aligned_cols=112 Identities=21% Similarity=0.382 Sum_probs=82.2
Q ss_pred HHHHHHHHHhhhhhcccccCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhCCchHHHHHHHHHHHHHHHHHHHH
Q 015350 112 LIKALHWLAQKRVEYIETTPTVPLLSHIRIVSFMSFLLLVDSLFLYSSVK-FLLQTRQASVSLFFSFEYMILATTTVSIF 190 (408)
Q Consensus 112 ~lk~fh~l~~dR~e~l~~sp~~~~~~h~R~~~~l~~ll~~d~~~~~~~~~-~~~~~~~~~~~~~f~fE~~il~~~~l~~~ 190 (408)
++...|-+.+-.+-.|..|++.++++|.|.+++..+++++..++.|.... +.+++|...+.. |+.|-. +..+.++
T Consensus 355 ~Lh~~~ei~~pvLmsL~As~~~s~~rH~R~L~v~~~Ll~~P~~~~y~l~~~~~i~tWll~v~s-~~~~t~---vkv~~sl 430 (508)
T PF13705_consen 355 LLHSLHEIVDPVLMSLSASHNRSFWRHFRALSVCLFLLVFPLYLSYYLWSFFPIDTWLLIVTS-FCVETI---VKVLGSL 430 (508)
T ss_pred HHHHHHHHhHHHHHhccCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhCChHHHHHHHHH-HHHHHH---HHHHHHH
Confidence 44555555556666677888899999999999999999999877654433 234444333322 344443 4456667
Q ss_pred HHHHHHhhhcccccccccchhHHHHHHHHHHHHHHHH
Q 015350 191 VKYVFYVSDMLMEGQWERKAVYTFYLELIRDLLHLSM 227 (408)
Q Consensus 191 ~~y~~~~~d~~~~~~we~k~~~~~y~~l~~~~l~l~~ 227 (408)
..|.+++.|.+.+..||+.+++.||++.....+++..
T Consensus 431 ~iY~Lf~vd~~~~~~WE~LDD~VYyv~a~~~~~EFl~ 467 (508)
T PF13705_consen 431 AIYILFMVDARREEPWEKLDDYVYYVRATGRVLEFLV 467 (508)
T ss_pred HHHHHHHHHhhcccchhhcccEEEEEeccCcEeeehh
Confidence 7899999999999999999999999999888877643
No 30
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.32 E-value=2e-07 Score=86.32 Aligned_cols=46 Identities=33% Similarity=0.668 Sum_probs=43.1
Q ss_pred CCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCccc
Q 015350 289 DSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
-..|-||-+.+..|..++|||.||.-||+..|..++.||.||.+..
T Consensus 25 ~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 25 MLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred HHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 4689999999999999999999999999999999999999998764
No 31
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.31 E-value=2.4e-07 Score=92.54 Aligned_cols=53 Identities=26% Similarity=0.612 Sum_probs=44.4
Q ss_pred CCccccccccccCCeEEeecccccHhhHHHHHhc-----CCCCccccCcccCCCCCCC
Q 015350 289 DSTCIICREEMTTAKKLICGHLFHVHCLRSWLER-----QHTCPTCRALVVPPENGAS 341 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~-----~~~CP~Cr~~i~~~~~~~~ 341 (408)
+..|+||++....|..+.|||+||..||.+.+.. ...||+||..+..++..+.
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv 243 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPV 243 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeee
Confidence 7789999999999999999999999999996543 3469999999987554443
No 32
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.26 E-value=5.7e-07 Score=67.20 Aligned_cols=47 Identities=34% Similarity=0.844 Sum_probs=36.4
Q ss_pred CCccccccccccC-----------CeE--E---eecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 289 DSTCIICREEMTT-----------AKK--L---ICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 289 ~~~C~IC~~~~~~-----------~~~--l---pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
-+.|+||+..+.. +.. + .|+|.||..||.+||..+..||+||++..-
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 3578888776532 111 1 499999999999999999999999998754
No 33
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=6.5e-07 Score=85.93 Aligned_cols=49 Identities=31% Similarity=0.650 Sum_probs=44.2
Q ss_pred CCCCccccccccccCCeEEeeccc-ccHhhHHHHHhcCCCCccccCcccC
Q 015350 287 ASDSTCIICREEMTTAKKLICGHL-FHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H~-Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
+++.+|.||+.+-++-..|||.|. .|..|.+.-.-+++.||+||+++..
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 457899999999999999999997 9999999977778899999999864
No 34
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=3.5e-07 Score=67.73 Aligned_cols=48 Identities=46% Similarity=0.917 Sum_probs=36.9
Q ss_pred CCCCccccccccccCC---eEE----------eecccccHhhHHHHHhc---CCCCccccCccc
Q 015350 287 ASDSTCIICREEMTTA---KKL----------ICGHLFHVHCLRSWLER---QHTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~---~~l----------pC~H~Fh~~Cl~~wl~~---~~~CP~Cr~~i~ 334 (408)
..++.|.||+-.|+.. -++ .|.|.||..|+.+|+.. +..||+||++..
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 3456899999888632 223 39999999999999965 446999999764
No 35
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.10 E-value=8.9e-07 Score=93.26 Aligned_cols=48 Identities=29% Similarity=0.857 Sum_probs=38.1
Q ss_pred CCCCcccccccccc-CCeEE------eecccccHhhHHHHHhc--CCCCccccCccc
Q 015350 287 ASDSTCIICREEMT-TAKKL------ICGHLFHVHCLRSWLER--QHTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~-~~~~l------pC~H~Fh~~Cl~~wl~~--~~~CP~Cr~~i~ 334 (408)
+..++|+||...+. ..+++ .|+|.||..|+.+|... +.+||+||.+++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 45678999998775 22333 49999999999999965 567999998775
No 36
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.10 E-value=2.3e-06 Score=82.61 Aligned_cols=49 Identities=37% Similarity=0.792 Sum_probs=41.8
Q ss_pred CccccccccccCCeEEeecccccHhhHHHHHhc--CCCCccccCcccCCCC
Q 015350 290 STCIICREEMTTAKKLICGHLFHVHCLRSWLER--QHTCPTCRALVVPPEN 338 (408)
Q Consensus 290 ~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~--~~~CP~Cr~~i~~~~~ 338 (408)
..|.||-|.-++.+.-||||..|..|+..|-.. .++||.||.+|...+.
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~ 420 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP 420 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence 459999998888777899999999999999844 6789999999975443
No 37
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=1.5e-06 Score=68.18 Aligned_cols=46 Identities=33% Similarity=0.848 Sum_probs=35.8
Q ss_pred CCccccccccccC---------------CeEE--eecccccHhhHHHHHhcCCCCccccCccc
Q 015350 289 DSTCIICREEMTT---------------AKKL--ICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 289 ~~~C~IC~~~~~~---------------~~~l--pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
-+.|+||+..+-+ .... .|+|.||..|+.+|+++++.||+|.++..
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 4679999865411 1111 59999999999999999999999988754
No 38
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.04 E-value=1.1e-06 Score=66.20 Aligned_cols=46 Identities=28% Similarity=0.745 Sum_probs=23.0
Q ss_pred CCccccccccccCCeEE--------eecccccHhhHHHHHhc---C--------CCCccccCccc
Q 015350 289 DSTCIICREEMTTAKKL--------ICGHLFHVHCLRSWLER---Q--------HTCPTCRALVV 334 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~l--------pC~H~Fh~~Cl~~wl~~---~--------~~CP~Cr~~i~ 334 (408)
+.+|.||.+...+...+ .|++.||..||.+|+.. . .+||.|+.+|.
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 45799999886522221 49999999999999853 1 14999999875
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=2.1e-06 Score=82.63 Aligned_cols=45 Identities=38% Similarity=0.727 Sum_probs=40.1
Q ss_pred CCCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccC
Q 015350 287 ASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
.+...|+||++.+..|+.+||||.||..|+..+......||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 457789999999999988999999999999998775567999993
No 40
>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=97.93 E-value=5.5e-06 Score=79.07 Aligned_cols=49 Identities=22% Similarity=0.646 Sum_probs=36.5
Q ss_pred CCcccccccc-ccCCe-E-E--eecccccHhhHHHHH-hcCCCCccccCcccCCC
Q 015350 289 DSTCIICREE-MTTAK-K-L--ICGHLFHVHCLRSWL-ERQHTCPTCRALVVPPE 337 (408)
Q Consensus 289 ~~~C~IC~~~-~~~~~-~-l--pC~H~Fh~~Cl~~wl-~~~~~CP~Cr~~i~~~~ 337 (408)
+..||+|..+ +..|. + + +|||.||..|+...+ .....||.|+.++....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4589999985 33333 2 2 799999999999954 55568999998886543
No 41
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=5.4e-06 Score=77.65 Aligned_cols=49 Identities=24% Similarity=0.582 Sum_probs=41.8
Q ss_pred CCCccccccccccCCeEEeecccccHhhHHHHHhc-CCCCccccCcccCC
Q 015350 288 SDSTCIICREEMTTAKKLICGHLFHVHCLRSWLER-QHTCPTCRALVVPP 336 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~-~~~CP~Cr~~i~~~ 336 (408)
.+.+|+||+.....|+.++|+|.||.-|++.-... ..+||+||.++.+.
T Consensus 6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred cCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 35689999999999999999999999999885544 45699999999753
No 42
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.86 E-value=2.9e-06 Score=58.67 Aligned_cols=47 Identities=28% Similarity=0.555 Sum_probs=38.8
Q ss_pred CCCccccccccccCCeEEeeccc-ccHhhHHH-HHhcCCCCccccCccc
Q 015350 288 SDSTCIICREEMTTAKKLICGHL-FHVHCLRS-WLERQHTCPTCRALVV 334 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC~H~-Fh~~Cl~~-wl~~~~~CP~Cr~~i~ 334 (408)
.+++|.||+|.-.+.+.-.|||. .|..|-.+ |-..+..||+||+++.
T Consensus 6 ~~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 35789999998777777789997 89999877 4446788999999875
No 43
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.85 E-value=1e-05 Score=56.27 Aligned_cols=40 Identities=30% Similarity=0.805 Sum_probs=30.7
Q ss_pred ccccccccc--cCCeEEeec-----ccccHhhHHHHHhc--CCCCcccc
Q 015350 291 TCIICREEM--TTAKKLICG-----HLFHVHCLRSWLER--QHTCPTCR 330 (408)
Q Consensus 291 ~C~IC~~~~--~~~~~lpC~-----H~Fh~~Cl~~wl~~--~~~CP~Cr 330 (408)
.|.||++.. .++...||. |.+|..|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 489999832 344556885 88999999999955 44899995
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=3.3e-06 Score=80.67 Aligned_cols=54 Identities=26% Similarity=0.518 Sum_probs=43.9
Q ss_pred CCCCccccccccccCCeEEe-ecccccHhhHHHHHh-cCCCCccccCcccCCCCCC
Q 015350 287 ASDSTCIICREEMTTAKKLI-CGHLFHVHCLRSWLE-RQHTCPTCRALVVPPENGA 340 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lp-C~H~Fh~~Cl~~wl~-~~~~CP~Cr~~i~~~~~~~ 340 (408)
..+..|+||++.++....++ |.|.||.+|+..-+. .++.||.||+.+.......
T Consensus 41 ~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr 96 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLR 96 (381)
T ss_pred hhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCC
Confidence 34678999999998887774 999999999988664 4788999999987654433
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.82 E-value=4.7e-06 Score=60.24 Aligned_cols=46 Identities=26% Similarity=0.596 Sum_probs=25.0
Q ss_pred CCccccccccccCCeEE-eecccccHhhHHHHHhcCCCCccccCcccCC
Q 015350 289 DSTCIICREEMTTAKKL-ICGHLFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~l-pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
-..|++|.+.+++|+.+ .|.|.||..|+.+-+. ..||+|+.+-...
T Consensus 7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q 53 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ 53 (65)
T ss_dssp TTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence 45799999999999875 7999999999988554 4599998876443
No 46
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.75 E-value=1.5e-05 Score=76.98 Aligned_cols=46 Identities=37% Similarity=0.928 Sum_probs=36.4
Q ss_pred CCCCccccccccccCC----eEEeecccccHhhHHHHHhcC--CCCccccCc
Q 015350 287 ASDSTCIICREEMTTA----KKLICGHLFHVHCLRSWLERQ--HTCPTCRAL 332 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~----~~lpC~H~Fh~~Cl~~wl~~~--~~CP~Cr~~ 332 (408)
+.+.-|..|-|.+... ..+||.|+||.+|+.+.++++ ++||.||+-
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 3467899999877432 347999999999999999764 579999943
No 47
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=0.00011 Score=68.06 Aligned_cols=50 Identities=32% Similarity=0.691 Sum_probs=40.4
Q ss_pred cCCCCccccccccccCCeEE-eecccccHhhHHHHHhc--CCCCccccCcccC
Q 015350 286 DASDSTCIICREEMTTAKKL-ICGHLFHVHCLRSWLER--QHTCPTCRALVVP 335 (408)
Q Consensus 286 ~~~~~~C~IC~~~~~~~~~l-pC~H~Fh~~Cl~~wl~~--~~~CP~Cr~~i~~ 335 (408)
...+.+|++|.+.-..|-.. +|||++|.-|+..=..- ..+||.|..+..+
T Consensus 236 ~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred ccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 35678999999999888765 69999999999885543 4689999776653
No 48
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=2.2e-05 Score=78.05 Aligned_cols=49 Identities=31% Similarity=0.730 Sum_probs=45.3
Q ss_pred CCCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 287 ASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
..+..|.||.+.+.+|+.+||||.||..|+.+-+.+...||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 5688999999999999999999999999999988888899999998874
No 49
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.56 E-value=2.5e-05 Score=76.92 Aligned_cols=45 Identities=36% Similarity=0.921 Sum_probs=36.9
Q ss_pred CCCccccccccccCCe----EEeecccccHhhHHHHHhcCCCCccccCccc
Q 015350 288 SDSTCIICREEMTTAK----KLICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~----~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
+-..|++|+|.|++.. .+.|.|.||..|+..|- ..+||+||....
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 3468999999998754 45899999999999985 467999997655
No 50
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=5.1e-05 Score=73.36 Aligned_cols=45 Identities=36% Similarity=0.979 Sum_probs=32.9
Q ss_pred CccccccccccCCeEE----eecccccHhhHHHHHhcC---CCCccccCccc
Q 015350 290 STCIICREEMTTAKKL----ICGHLFHVHCLRSWLERQ---HTCPTCRALVV 334 (408)
Q Consensus 290 ~~C~IC~~~~~~~~~l----pC~H~Fh~~Cl~~wl~~~---~~CP~Cr~~i~ 334 (408)
..|.||-+-......+ .|||+||..|+..|.+.. .+||.||-.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 4799994444333333 499999999999999763 47999994443
No 51
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=3.6e-05 Score=80.77 Aligned_cols=50 Identities=30% Similarity=0.674 Sum_probs=42.4
Q ss_pred CCCccccccccccCCeEEeecccccHhhHHHHHh-cCCCCccccCcccCCC
Q 015350 288 SDSTCIICREEMTTAKKLICGHLFHVHCLRSWLE-RQHTCPTCRALVVPPE 337 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~-~~~~CP~Cr~~i~~~~ 337 (408)
.-..|+.|-+..++.+.+.|+|.||..|+++-++ ++..||.|...+.+.+
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 4577999998888888889999999999999875 5778999988876543
No 52
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.35 E-value=8.6e-05 Score=72.48 Aligned_cols=48 Identities=31% Similarity=0.779 Sum_probs=38.0
Q ss_pred CCCCccccccccccCCe-----E---EeecccccHhhHHHHH--hc-----CCCCccccCccc
Q 015350 287 ASDSTCIICREEMTTAK-----K---LICGHLFHVHCLRSWL--ER-----QHTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~-----~---lpC~H~Fh~~Cl~~wl--~~-----~~~CP~Cr~~i~ 334 (408)
..+..|.||+|...+.. . .+|.|.||..|++.|- .+ .+.||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 45779999999876543 2 3699999999999998 34 467999997763
No 53
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.24 E-value=0.00025 Score=75.02 Aligned_cols=67 Identities=22% Similarity=0.545 Sum_probs=49.7
Q ss_pred HHHHhhhhhhccCCCCCCcccccCCCCccccccccccCCeE-EeecccccHhhHHHHHhcCCCCccccCcc
Q 015350 264 VRYRKITSNMNDRFPDASPEELDASDSTCIICREEMTTAKK-LICGHLFHVHCLRSWLERQHTCPTCRALV 333 (408)
Q Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~-lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i 333 (408)
..+++..+++++.+.+....+..-....|..|...++.|.. -.|||.||.+|+. .....||.|+.+.
T Consensus 815 e~yk~~i~e~r~~l~~lr~sa~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 815 EVYKKDIEEKRQELETLRTSAQIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred HHHHHHHHHHHHHHHHhhcccceeeeeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 34566666666666655544444445789999999998854 6999999999997 5667899998744
No 54
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.00049 Score=65.87 Aligned_cols=49 Identities=24% Similarity=0.451 Sum_probs=44.8
Q ss_pred CCCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 287 ASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
.+++.|+||...-..++..||+|.-|..||.+.+...+.|=.|+..+..
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 5678999999998888899999999999999999999999999988764
No 55
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.22 E-value=0.00012 Score=68.46 Aligned_cols=45 Identities=29% Similarity=0.684 Sum_probs=37.9
Q ss_pred CCccccccccccCCeEEe-ecccccHhhHHHHH-hcCCCCcccc-Ccc
Q 015350 289 DSTCIICREEMTTAKKLI-CGHLFHVHCLRSWL-ERQHTCPTCR-ALV 333 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lp-C~H~Fh~~Cl~~wl-~~~~~CP~Cr-~~i 333 (408)
...|+.|...+..|.++| |+|.||.+||..-| +....||.|. +++
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdv 321 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDV 321 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccccc
Confidence 478999999999999985 89999999998754 6678899994 444
No 56
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.22 E-value=0.00013 Score=64.30 Aligned_cols=48 Identities=21% Similarity=0.463 Sum_probs=42.7
Q ss_pred CCCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCccc
Q 015350 287 ASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
.-...|.||-++++.|+.+.|||.||..|...-.+....|-.|.+...
T Consensus 194 ~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 194 KIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred CCceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 346789999999999999999999999999998888899999977553
No 57
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.16 E-value=0.00016 Score=72.64 Aligned_cols=52 Identities=29% Similarity=0.659 Sum_probs=45.9
Q ss_pred CCCCccccccccccCCeE-EeecccccHhhHHHHHhcCCCCccccCcccCCCC
Q 015350 287 ASDSTCIICREEMTTAKK-LICGHLFHVHCLRSWLERQHTCPTCRALVVPPEN 338 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~-lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~~~ 338 (408)
..+..|++|...+.+|.. +.|||.||..|+.+|+..++.||.|+..+...+.
T Consensus 19 ~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred cccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhhc
Confidence 456789999999999998 4999999999999999999999999988865443
No 58
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.15 E-value=0.00024 Score=71.28 Aligned_cols=50 Identities=22% Similarity=0.567 Sum_probs=42.4
Q ss_pred CCCCccccccccccCCeEEeecccccHhhHHHHHhc-----CCCCccccCcccCC
Q 015350 287 ASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLER-----QHTCPTCRALVVPP 336 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~-----~~~CP~Cr~~i~~~ 336 (408)
.++..|.+|-|.-+++....|.|.||+-|++++... +.+||.|...+.-+
T Consensus 534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 345689999999999999999999999999998754 56899998877543
No 59
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.13 E-value=0.00026 Score=69.08 Aligned_cols=46 Identities=41% Similarity=0.972 Sum_probs=36.9
Q ss_pred CCCccccccccccCCe-----EEeecccccHhhHHHHHhc--CCCCccccCcc
Q 015350 288 SDSTCIICREEMTTAK-----KLICGHLFHVHCLRSWLER--QHTCPTCRALV 333 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~-----~lpC~H~Fh~~Cl~~wl~~--~~~CP~Cr~~i 333 (408)
.+..|+||+|.+..+. .+.|||.|..+|+++|+.+ ...||.|..+-
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 3578999999997653 4679999999999999964 24599997543
No 60
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.13 E-value=0.0005 Score=66.43 Aligned_cols=45 Identities=27% Similarity=0.674 Sum_probs=35.2
Q ss_pred CCCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCccc
Q 015350 287 ASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
...+.|.||.++.++.+.+||||.-| |..- -+...+||+||+.+.
T Consensus 303 ~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~c-s~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSAVFVPCGHVCC--CTLC-SKHLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccceeeecCCcEEE--chHH-HhhCCCCchhHHHHH
Confidence 45678999999999999999999855 5432 234556999999874
No 61
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.03 E-value=0.001 Score=59.89 Aligned_cols=53 Identities=32% Similarity=0.783 Sum_probs=42.0
Q ss_pred CCccccccccccCC--eEEeecccccHhhHHHHHhc--------CCCCccccCcccCCCCCCC
Q 015350 289 DSTCIICREEMTTA--KKLICGHLFHVHCLRSWLER--------QHTCPTCRALVVPPENGAS 341 (408)
Q Consensus 289 ~~~C~IC~~~~~~~--~~lpC~H~Fh~~Cl~~wl~~--------~~~CP~Cr~~i~~~~~~~~ 341 (408)
+..|..|-..+..+ ..|-|-|.||.+|+.+|-.+ ...||.|.++|.++.+..+
T Consensus 50 ~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nlvs 112 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVS 112 (299)
T ss_pred CCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccc
Confidence 34699998888765 45789999999999999755 3369999999988765443
No 62
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.01 E-value=0.00024 Score=66.67 Aligned_cols=48 Identities=23% Similarity=0.459 Sum_probs=43.2
Q ss_pred CCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 288 SDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
-.+.|-||.+.+..|+.+.|+|.||..|-..-+++...|++|.+....
T Consensus 240 ~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred CCccccccccccccchhhcCCceeehhhhccccccCCcceeccccccc
Confidence 356799999999999999999999999999888888999999887653
No 63
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.84 E-value=0.0005 Score=49.38 Aligned_cols=41 Identities=24% Similarity=0.573 Sum_probs=29.2
Q ss_pred CCCccccccccccCCeEE-eecccccHhhHHHHHhc--CCCCcc
Q 015350 288 SDSTCIICREEMTTAKKL-ICGHLFHVHCLRSWLER--QHTCPT 328 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~l-pC~H~Fh~~Cl~~wl~~--~~~CP~ 328 (408)
....|+|....+++|++- .|||.|-++.+.+|+++ ...||.
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 457899999999999885 89999999999999944 446998
No 64
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.83 E-value=0.00019 Score=66.95 Aligned_cols=42 Identities=31% Similarity=0.748 Sum_probs=36.1
Q ss_pred CCccccccccccCCeEEeeccc-ccHhhHHHHHhcCCCCccccCccc
Q 015350 289 DSTCIICREEMTTAKKLICGHL-FHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H~-Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
+..|+||+|...+...|+|||. -|.+|-+. -+.||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccc----cccCchHHHHHH
Confidence 6789999999999999999995 88899754 348999998774
No 65
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.79 E-value=0.00033 Score=66.82 Aligned_cols=48 Identities=29% Similarity=0.685 Sum_probs=42.5
Q ss_pred CCCccccccccccCCeEE-eecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 288 SDSTCIICREEMTTAKKL-ICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~l-pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
....|.+|...+.++..+ -|-|.||.+||...++....||.|...+..
T Consensus 14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred cceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 456899999999998776 699999999999999999999999987754
No 66
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.65 E-value=0.00041 Score=72.56 Aligned_cols=31 Identities=29% Similarity=0.525 Sum_probs=28.1
Q ss_pred EeecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 305 LICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 305 lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
.+|+|.||..|+..|-...++||+||.....
T Consensus 142 k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 142 KHTAHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred cccccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 4799999999999999999999999988754
No 67
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.31 E-value=0.0025 Score=60.95 Aligned_cols=56 Identities=29% Similarity=0.561 Sum_probs=44.9
Q ss_pred CCCcccccCCCCccccccccccCCeEEeecccccHhhHHH--HHhcCCCCccccCccc
Q 015350 279 DASPEELDASDSTCIICREEMTTAKKLICGHLFHVHCLRS--WLERQHTCPTCRALVV 334 (408)
Q Consensus 279 ~~~~~~~~~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~--wl~~~~~CP~Cr~~i~ 334 (408)
+.+.++.++++..|.||-+...-...+||+|..|--|-.+ -|..++.||.||.+..
T Consensus 51 tsSaddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 51 TSSADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 3445555667788999999988888999999999999865 3567889999998653
No 68
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.27 E-value=0.0021 Score=60.44 Aligned_cols=52 Identities=29% Similarity=0.730 Sum_probs=39.5
Q ss_pred CCccccccccccCCe---EEeecccccHhhHHHHHhc-----------------------CCCCccccCcccCCCCCC
Q 015350 289 DSTCIICREEMTTAK---KLICGHLFHVHCLRSWLER-----------------------QHTCPTCRALVVPPENGA 340 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~---~lpC~H~Fh~~Cl~~wl~~-----------------------~~~CP~Cr~~i~~~~~~~ 340 (408)
..+|.||+-.+.+.. +++|-|.||..|+.+++.. ...||+||..|...++.-
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~sl 192 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENSL 192 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccccce
Confidence 457999998886653 5799999999999877632 225999999997655443
No 69
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.26 E-value=0.0032 Score=54.12 Aligned_cols=49 Identities=24% Similarity=0.699 Sum_probs=36.5
Q ss_pred cCCCCccccccccccCCeEEeec--c---cccHhhHHHHHhc--CCCCccccCcccC
Q 015350 286 DASDSTCIICREEMTTAKKLICG--H---LFHVHCLRSWLER--QHTCPTCRALVVP 335 (408)
Q Consensus 286 ~~~~~~C~IC~~~~~~~~~lpC~--H---~Fh~~Cl~~wl~~--~~~CP~Cr~~i~~ 335 (408)
...+..|-||.++-. +..-||+ . .-|.+|+++|+.. ...||.|+.+..-
T Consensus 5 s~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 5 SLMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 345778999999864 3345765 3 4699999999965 4569999987753
No 70
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.19 E-value=0.0024 Score=44.82 Aligned_cols=46 Identities=30% Similarity=0.637 Sum_probs=37.7
Q ss_pred CCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccCC
Q 015350 289 DSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
...|..|...-.....+||||.-|..|..- ++-+.||.|.+++...
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFD 52 (55)
T ss_pred ceeEEEccccccccccccccceeeccccCh--hhccCCCCCCCcccCC
Confidence 457888888888888999999999999765 5567899998887543
No 71
>PHA02862 5L protein; Provisional
Probab=96.16 E-value=0.0032 Score=53.09 Aligned_cols=45 Identities=22% Similarity=0.775 Sum_probs=35.0
Q ss_pred CCccccccccccCCeEEeec-----ccccHhhHHHHHhc--CCCCccccCccc
Q 015350 289 DSTCIICREEMTTAKKLICG-----HLFHVHCLRSWLER--QHTCPTCRALVV 334 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~-----H~Fh~~Cl~~wl~~--~~~CP~Cr~~i~ 334 (408)
++.|-||.++-++. .-||+ ..-|++|+.+|+.. +..||.|+.+..
T Consensus 2 ~diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 46899999986544 46775 35899999999964 457999998874
No 72
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.02 E-value=0.0036 Score=69.40 Aligned_cols=48 Identities=38% Similarity=0.859 Sum_probs=38.1
Q ss_pred CCCCcccccccccc---CCeEEeecccccHhhHHHHHhcC----------CCCccccCccc
Q 015350 287 ASDSTCIICREEMT---TAKKLICGHLFHVHCLRSWLERQ----------HTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~---~~~~lpC~H~Fh~~Cl~~wl~~~----------~~CP~Cr~~i~ 334 (408)
..|+.|.||..+-- ++.+|.|+|+||..|.+..+++. -+||+|+.++.
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 45789999987653 34678999999999999877662 25999998874
No 73
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.80 E-value=0.0035 Score=43.02 Aligned_cols=42 Identities=31% Similarity=0.706 Sum_probs=21.5
Q ss_pred cccccccccCCe--EE--eecccccHhhHHHHHh-cCCCCccccCcc
Q 015350 292 CIICREEMTTAK--KL--ICGHLFHVHCLRSWLE-RQHTCPTCRALV 333 (408)
Q Consensus 292 C~IC~~~~~~~~--~l--pC~H~Fh~~Cl~~wl~-~~~~CP~Cr~~i 333 (408)
|++|.+++.... .. +||+..|..|...-++ .+..||-||++-
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 789999984432 34 4899999999999886 477899999863
No 74
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.058 Score=51.69 Aligned_cols=47 Identities=19% Similarity=0.429 Sum_probs=39.9
Q ss_pred CCCCccccccccccCCeEEe-ecccccHhhHHHHHhcCCCCccccCcc
Q 015350 287 ASDSTCIICREEMTTAKKLI-CGHLFHVHCLRSWLERQHTCPTCRALV 333 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lp-C~H~Fh~~Cl~~wl~~~~~CP~Cr~~i 333 (408)
.....|++|+..-.+|..+. -|-+||..|+.+.+...+.||+=..+.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 45678999999999988875 599999999999999999999865543
No 75
>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=95.43 E-value=0.011 Score=47.92 Aligned_cols=31 Identities=23% Similarity=0.777 Sum_probs=25.6
Q ss_pred CCCCccccccccccCCeE--EeecccccHhhHH
Q 015350 287 ASDSTCIICREEMTTAKK--LICGHLFHVHCLR 317 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~--lpC~H~Fh~~Cl~ 317 (408)
.++..|++|...+..... .||||.+|..|.+
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 446789999999987644 4999999999975
No 76
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.42 E-value=0.0061 Score=53.06 Aligned_cols=48 Identities=29% Similarity=0.713 Sum_probs=33.7
Q ss_pred CccccccccccCC-------eEEeecccccHhhHHHHHhc----C-------CCCccccCcccCCC
Q 015350 290 STCIICREEMTTA-------KKLICGHLFHVHCLRSWLER----Q-------HTCPTCRALVVPPE 337 (408)
Q Consensus 290 ~~C~IC~~~~~~~-------~~lpC~H~Fh~~Cl~~wl~~----~-------~~CP~Cr~~i~~~~ 337 (408)
..|.||...--++ .-..||.-||.-|+..||.. . ..||.|..++..+.
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 4577776543222 23479999999999999964 1 24999998886543
No 77
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=95.32 E-value=0.025 Score=55.91 Aligned_cols=35 Identities=23% Similarity=0.455 Sum_probs=30.8
Q ss_pred CCCccccccccccCCeEEeecccccHhhHHHHHhc
Q 015350 288 SDSTCIICREEMTTAKKLICGHLFHVHCLRSWLER 322 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~ 322 (408)
++..|+||..-+++|..|||+|..|..|.+.-+.+
T Consensus 3 eelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 3 EELKCPVCGSFYREPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred ccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence 46789999999999999999999999999865543
No 78
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.87 E-value=0.031 Score=52.98 Aligned_cols=42 Identities=29% Similarity=0.710 Sum_probs=30.1
Q ss_pred Ccccccccccc-CCeEEeecccccHhhHHHHHhcCCCCccccCcc
Q 015350 290 STCIICREEMT-TAKKLICGHLFHVHCLRSWLERQHTCPTCRALV 333 (408)
Q Consensus 290 ~~C~IC~~~~~-~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i 333 (408)
..|.-|--.+. -++.+||+|+||.+|.+. +..+.||.|-..+
T Consensus 91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYGRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred EeecccCCcceeeecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 34666654433 245679999999999865 5567899997665
No 79
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.86 E-value=0.014 Score=55.82 Aligned_cols=49 Identities=24% Similarity=0.543 Sum_probs=36.6
Q ss_pred CCCCccccccccccCCeE----EeecccccHhhHHHHHhc-CCCCccccCcccC
Q 015350 287 ASDSTCIICREEMTTAKK----LICGHLFHVHCLRSWLER-QHTCPTCRALVVP 335 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~----lpC~H~Fh~~Cl~~wl~~-~~~CP~Cr~~i~~ 335 (408)
.+++.|+.|+|+++...+ -|||-..|.-|....-+. +..||-||+...+
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 345679999999987654 378888888887664433 6689999987654
No 80
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.83 E-value=0.0096 Score=58.55 Aligned_cols=45 Identities=33% Similarity=0.608 Sum_probs=33.7
Q ss_pred CCCCccccccccccC---CeEEeecccccHhhHHHHHhc--------CCCCccccC
Q 015350 287 ASDSTCIICREEMTT---AKKLICGHLFHVHCLRSWLER--------QHTCPTCRA 331 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~---~~~lpC~H~Fh~~Cl~~wl~~--------~~~CP~Cr~ 331 (408)
.....|.||+++... -+.+||+|.||..|++.+... .-.||-|..
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 456789999998654 256899999999999998743 224876654
No 81
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.59 E-value=0.024 Score=52.00 Aligned_cols=50 Identities=16% Similarity=0.382 Sum_probs=41.6
Q ss_pred CCCccccccccccCCeE---E-eecccccHhhHHHHHhcCCCCccccCcccCCC
Q 015350 288 SDSTCIICREEMTTAKK---L-ICGHLFHVHCLRSWLERQHTCPTCRALVVPPE 337 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~---l-pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~~ 337 (408)
....|++|.+.+.+... | ||||+++.+|..+.+.....||+|-.++.+.+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 35679999999987533 3 89999999999998888889999988886543
No 82
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.45 E-value=0.026 Score=59.41 Aligned_cols=60 Identities=33% Similarity=0.798 Sum_probs=49.7
Q ss_pred cCCCCCCcccccCCCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccCCCC
Q 015350 275 DRFPDASPEELDASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVPPEN 338 (408)
Q Consensus 275 ~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~~~ 338 (408)
...+.++.++..+..+.|.+|.+++ ..+..+|. |..|+++|+..+..||+|++.+...+.
T Consensus 465 ~~~s~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 465 NSLSEATPSQLREPNDVCAICYQEM-SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred CCCCCCChhhhhcccCcchHHHHHH-Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 4456667777778889999999999 66777898 899999999999999999988865443
No 83
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.44 E-value=0.025 Score=38.87 Aligned_cols=38 Identities=29% Similarity=0.780 Sum_probs=25.7
Q ss_pred cccccccccCCe--EEeec-----ccccHhhHHHHHhc--CCCCccc
Q 015350 292 CIICREEMTTAK--KLICG-----HLFHVHCLRSWLER--QHTCPTC 329 (408)
Q Consensus 292 C~IC~~~~~~~~--~lpC~-----H~Fh~~Cl~~wl~~--~~~CP~C 329 (408)
|-||++.-.+.. ..||+ ..-|.+|+.+|+.. +.+|+.|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 678988766544 45764 25899999999964 5679987
No 84
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=94.02 E-value=0.069 Score=52.67 Aligned_cols=50 Identities=26% Similarity=0.673 Sum_probs=33.5
Q ss_pred cCCCCccccccccccCCeEE-----------------e-----ecccccHhhHHHHHhc-------------CCCCcccc
Q 015350 286 DASDSTCIICREEMTTAKKL-----------------I-----CGHLFHVHCLRSWLER-------------QHTCPTCR 330 (408)
Q Consensus 286 ~~~~~~C~IC~~~~~~~~~l-----------------p-----C~H~Fh~~Cl~~wl~~-------------~~~CP~Cr 330 (408)
.++.+.|.-|+..-.+.+.. + |....|.+|+-+|+.. +.+||+||
T Consensus 268 ~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCR 347 (358)
T PF10272_consen 268 GQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCR 347 (358)
T ss_pred ccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCc
Confidence 34567899998764322111 2 5567899999998843 33699999
Q ss_pred CcccC
Q 015350 331 ALVVP 335 (408)
Q Consensus 331 ~~i~~ 335 (408)
+...-
T Consensus 348 a~FCi 352 (358)
T PF10272_consen 348 AKFCI 352 (358)
T ss_pred cccee
Confidence 98653
No 85
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.98 E-value=0.032 Score=54.00 Aligned_cols=44 Identities=32% Similarity=0.774 Sum_probs=36.0
Q ss_pred CccccccccccC------CeEEeecccccHhhHHHHHhc-CCCCccccCcc
Q 015350 290 STCIICREEMTT------AKKLICGHLFHVHCLRSWLER-QHTCPTCRALV 333 (408)
Q Consensus 290 ~~C~IC~~~~~~------~~~lpC~H~Fh~~Cl~~wl~~-~~~CP~Cr~~i 333 (408)
..|.||-+++.. |+.+.|||.+|..|+.+-+.. ...||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 579999999864 566789999999999876654 34699999985
No 86
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.72 E-value=0.025 Score=60.58 Aligned_cols=46 Identities=30% Similarity=0.722 Sum_probs=38.5
Q ss_pred CccccccccccCCeEEeecccccHhhHHHHHhc--CCCCccccCcccCC
Q 015350 290 STCIICREEMTTAKKLICGHLFHVHCLRSWLER--QHTCPTCRALVVPP 336 (408)
Q Consensus 290 ~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~--~~~CP~Cr~~i~~~ 336 (408)
..|.+|.+ ...+..++|+|.||..|+..-++. ...||.||..+...
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence 78999999 777888999999999999986654 33699999888643
No 87
>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=93.59 E-value=0.076 Score=45.76 Aligned_cols=32 Identities=38% Similarity=0.701 Sum_probs=25.0
Q ss_pred CCccccccccccCCeEEe------------ecc-cccHhhHHHHH
Q 015350 289 DSTCIICREEMTTAKKLI------------CGH-LFHVHCLRSWL 320 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lp------------C~H-~Fh~~Cl~~wl 320 (408)
+-.|+||+|.-.+++.|- |+. .-|..|+++.-
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence 568999999999988875 443 25889998865
No 88
>PHA03096 p28-like protein; Provisional
Probab=93.42 E-value=0.035 Score=53.16 Aligned_cols=42 Identities=29% Similarity=0.636 Sum_probs=29.5
Q ss_pred CccccccccccCCe-------EE-eecccccHhhHHHHHhc---CCCCccccC
Q 015350 290 STCIICREEMTTAK-------KL-ICGHLFHVHCLRSWLER---QHTCPTCRA 331 (408)
Q Consensus 290 ~~C~IC~~~~~~~~-------~l-pC~H~Fh~~Cl~~wl~~---~~~CP~Cr~ 331 (408)
..|.||+|...... .| .|.|.||..|++.|... ..+||.||.
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 57999999764321 23 59999999999999854 234555543
No 89
>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=93.37 E-value=0.046 Score=45.92 Aligned_cols=35 Identities=20% Similarity=0.596 Sum_probs=27.5
Q ss_pred CCccccccccccC--CeE-Eeec------ccccHhhHHHHHhcC
Q 015350 289 DSTCIICREEMTT--AKK-LICG------HLFHVHCLRSWLERQ 323 (408)
Q Consensus 289 ~~~C~IC~~~~~~--~~~-lpC~------H~Fh~~Cl~~wl~~~ 323 (408)
.-+|.||++...+ ++. ++|| |.||.+|+++|-..+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 4579999999977 443 5776 889999999995433
No 90
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=93.35 E-value=0.036 Score=51.10 Aligned_cols=42 Identities=24% Similarity=0.570 Sum_probs=28.4
Q ss_pred ccccccccc-CC-eEEeecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 292 CIICREEMT-TA-KKLICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 292 C~IC~~~~~-~~-~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
|.-|..--. ++ -.+.|+|+||..|... .....||+|++++..
T Consensus 6 Cn~C~~~~~~~~f~LTaC~HvfC~~C~k~--~~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 6 CNKCFRFPSQDPFFLTACRHVFCEPCLKA--SSPDVCPLCKKSIRI 49 (233)
T ss_pred eccccccCCCCceeeeechhhhhhhhccc--CCccccccccceeee
Confidence 555544322 22 2358999999999865 233489999999754
No 91
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.14 E-value=0.084 Score=50.21 Aligned_cols=49 Identities=20% Similarity=0.476 Sum_probs=38.2
Q ss_pred CCCCccccccccccCCeE----EeecccccHhhHHHHHhcCCCCccccCcccCC
Q 015350 287 ASDSTCIICREEMTTAKK----LICGHLFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~----lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
.....|||...++..... -||||+|...++++-- ....||.|-.+....
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEE 163 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccC
Confidence 456789999999954322 2999999999999863 356799999988644
No 92
>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=92.86 E-value=0.087 Score=35.45 Aligned_cols=38 Identities=26% Similarity=0.857 Sum_probs=23.4
Q ss_pred cccccccccCCeEEe---ecccccHhhHHHHHhcCC--CCccc
Q 015350 292 CIICREEMTTAKKLI---CGHLFHVHCLRSWLERQH--TCPTC 329 (408)
Q Consensus 292 C~IC~~~~~~~~~lp---C~H~Fh~~Cl~~wl~~~~--~CP~C 329 (408)
|.+|.+....+..=+ |+=.+|..|++.++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 678888877776644 888899999999886644 69988
No 93
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.77 E-value=0.074 Score=56.46 Aligned_cols=48 Identities=27% Similarity=0.615 Sum_probs=36.0
Q ss_pred CCCCccccccccccCCeE--Eeecc-----cccHhhHHHHHhc--CCCCccccCccc
Q 015350 287 ASDSTCIICREEMTTAKK--LICGH-----LFHVHCLRSWLER--QHTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~--lpC~H-----~Fh~~Cl~~wl~~--~~~CP~Cr~~i~ 334 (408)
+++..|-||+.+-.+... -||+. ..|++|+.+|++- ...|-.|+.+..
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 345789999987654444 38764 3899999999975 446999998774
No 94
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=92.75 E-value=0.052 Score=51.46 Aligned_cols=41 Identities=37% Similarity=0.844 Sum_probs=35.3
Q ss_pred cccccccccc----CCeEEeecccccHhhHHHHHhcCCCCccccC
Q 015350 291 TCIICREEMT----TAKKLICGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 291 ~C~IC~~~~~----~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
.|+||.+.+. .+..++|||.-|..|.+.....+-+||+|.+
T Consensus 160 ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 4999998764 4567899999999999998877799999988
No 95
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=92.67 E-value=0.051 Score=58.05 Aligned_cols=46 Identities=28% Similarity=0.930 Sum_probs=35.1
Q ss_pred CCCCccccccccccCCeEE----eecccccHhhHHHHHhc-------CCCCccccCc
Q 015350 287 ASDSTCIICREEMTTAKKL----ICGHLFHVHCLRSWLER-------QHTCPTCRAL 332 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~l----pC~H~Fh~~Cl~~wl~~-------~~~CP~Cr~~ 332 (408)
...-+|.||.+.+.....+ .|-|+||..||++|-.+ .-.||.|+..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 4556899999998764432 48899999999999854 2259999843
No 96
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.66 E-value=0.089 Score=56.68 Aligned_cols=34 Identities=26% Similarity=0.620 Sum_probs=26.6
Q ss_pred CCCCccccccccccCC--eEEeecccccHhhHHHHH
Q 015350 287 ASDSTCIICREEMTTA--KKLICGHLFHVHCLRSWL 320 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~--~~lpC~H~Fh~~Cl~~wl 320 (408)
+.++.|.+|...+... ..-||||.||.+|+.+-.
T Consensus 815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcCcceeeeccchHHHHHHHHHH
Confidence 4577899998877543 345999999999997753
No 97
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.16 E-value=0.088 Score=58.82 Aligned_cols=46 Identities=26% Similarity=0.627 Sum_probs=40.6
Q ss_pred CCCcccccccccc-CCeEEeecccccHhhHHHHHhcCCCCccccCcc
Q 015350 288 SDSTCIICREEMT-TAKKLICGHLFHVHCLRSWLERQHTCPTCRALV 333 (408)
Q Consensus 288 ~~~~C~IC~~~~~-~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i 333 (408)
....|.||.+.+. .+....|||.+|..|...|+..+..||.|+...
T Consensus 1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhhhh
Confidence 4568999999998 667789999999999999999999999998543
No 98
>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=92.04 E-value=0.084 Score=35.81 Aligned_cols=43 Identities=26% Similarity=0.630 Sum_probs=26.3
Q ss_pred ccccccccccCCeEEeec-ccccHhhHHHHHhcCCCCccccCcccC
Q 015350 291 TCIICREEMTTAKKLICG-HLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 291 ~C~IC~~~~~~~~~lpC~-H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
-|.-|+-. +...+.|. |..|..|+...+.++..||+|..+++.
T Consensus 4 nCKsCWf~--~k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCWFA--NKGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS-S----SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhhhc--CCCeeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 35556633 34456786 899999999999999999999998864
No 99
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.90 E-value=0.072 Score=48.75 Aligned_cols=40 Identities=35% Similarity=0.645 Sum_probs=31.6
Q ss_pred ccccccccccCCeEEeeccc-ccHhhHHHHHhcCCCCccccCccc
Q 015350 291 TCIICREEMTTAKKLICGHL-FHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 291 ~C~IC~~~~~~~~~lpC~H~-Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
.|-.|.+.-.....+||.|. +|..|-.. -..||+|+....
T Consensus 160 ~Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 160 SCRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred cceecCcCCceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 39999988777677899995 99999643 457999987664
No 100
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.20 E-value=0.091 Score=48.64 Aligned_cols=47 Identities=23% Similarity=0.669 Sum_probs=34.7
Q ss_pred CCCCccccccccccCCeE----Eeec-----ccccHhhHHHHHhcC--------CCCccccCcc
Q 015350 287 ASDSTCIICREEMTTAKK----LICG-----HLFHVHCLRSWLERQ--------HTCPTCRALV 333 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~----lpC~-----H~Fh~~Cl~~wl~~~--------~~CP~Cr~~i 333 (408)
+.+..|-||...=++... -||. |--|..|+..|...+ .+||.|+.+-
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 446689999987666543 2664 669999999999542 2599999765
No 101
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.28 E-value=0.025 Score=55.22 Aligned_cols=46 Identities=28% Similarity=0.698 Sum_probs=39.6
Q ss_pred CCccccccccccCC----eEEeecccccHhhHHHHHhcCCCCccccCccc
Q 015350 289 DSTCIICREEMTTA----KKLICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 289 ~~~C~IC~~~~~~~----~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
...|+||.+.++.. ..+.|||..|..|+.+|+.....||.||+++.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 45799999887653 45689999999999999999889999999885
No 102
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=89.74 E-value=1.1 Score=37.46 Aligned_cols=48 Identities=25% Similarity=0.562 Sum_probs=38.0
Q ss_pred CCccccccccccCCeEE-e---ecccccHhhHHH-HHh--cCCCCccccCcccCC
Q 015350 289 DSTCIICREEMTTAKKL-I---CGHLFHVHCLRS-WLE--RQHTCPTCRALVVPP 336 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~l-p---C~H~Fh~~Cl~~-wl~--~~~~CP~Cr~~i~~~ 336 (408)
--+|.||.|.-.+...| | ||-..|.-|--. |-- -.+.||.|+.+....
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 35799999998888777 3 999999999876 653 367899999887643
No 103
>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=89.39 E-value=0.24 Score=46.79 Aligned_cols=43 Identities=23% Similarity=0.663 Sum_probs=32.1
Q ss_pred cccccccc-ccCCe-E---EeecccccHhhHHHHHhc-CCCCccccCcc
Q 015350 291 TCIICREE-MTTAK-K---LICGHLFHVHCLRSWLER-QHTCPTCRALV 333 (408)
Q Consensus 291 ~C~IC~~~-~~~~~-~---lpC~H~Fh~~Cl~~wl~~-~~~CP~Cr~~i 333 (408)
.|++|..+ +..|. + -||+|..|.+|.+..... ...||-|...+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 59999754 33332 2 289999999999998765 45799997665
No 104
>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=89.09 E-value=0.21 Score=45.76 Aligned_cols=45 Identities=24% Similarity=0.635 Sum_probs=33.0
Q ss_pred CCCCccccccccc-cCC-eEE---e-ecccccHhhHHHHHhcC-CCCc--cccC
Q 015350 287 ASDSTCIICREEM-TTA-KKL---I-CGHLFHVHCLRSWLERQ-HTCP--TCRA 331 (408)
Q Consensus 287 ~~~~~C~IC~~~~-~~~-~~l---p-C~H~Fh~~Cl~~wl~~~-~~CP--~Cr~ 331 (408)
..+..||+|..+- -.| .++ | |-|..|.+|.++.+... ..|| -|.+
T Consensus 8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 3466899997653 344 232 5 99999999999988764 4699 6753
No 105
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=88.23 E-value=0.29 Score=47.28 Aligned_cols=44 Identities=27% Similarity=0.635 Sum_probs=35.5
Q ss_pred CCCCccccccccccCCeEEee--cccccHhhHHHHHhcCCCCccccCccc
Q 015350 287 ASDSTCIICREEMTTAKKLIC--GHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC--~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
.+-.+||||.+.+..|. ..| ||.-|..|=. +....||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~Pi-~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPI-FQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCcccc-eecCCCcEehhhhhh---hhcccCCccccccc
Confidence 34578999999998884 355 7999999965 35678999999986
No 106
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.73 E-value=0.93 Score=43.22 Aligned_cols=49 Identities=29% Similarity=0.688 Sum_probs=41.8
Q ss_pred CCCCccccccccccCCeEE-eecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 287 ASDSTCIICREEMTTAKKL-ICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~l-pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
..++.|-||...+..|.+. .|.|.|+..|.+.|......||.||....+
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 4567899999998877665 499999999999999999999999977654
No 107
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.66 E-value=0.25 Score=51.44 Aligned_cols=39 Identities=28% Similarity=0.646 Sum_probs=29.9
Q ss_pred Ccccccccccc----CCeEEeecccccHhhHHHHHhcCCCCccccC
Q 015350 290 STCIICREEMT----TAKKLICGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 290 ~~C~IC~~~~~----~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
..|.||+..+- .|+.+.|||.-|..|+..- .+.+|| |+.
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 46999988774 5677889999999999763 356788 543
No 108
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.92 E-value=0.41 Score=41.28 Aligned_cols=28 Identities=25% Similarity=0.739 Sum_probs=22.7
Q ss_pred cCCCCccccccccccCCe---EEeecccccH
Q 015350 286 DASDSTCIICREEMTTAK---KLICGHLFHV 313 (408)
Q Consensus 286 ~~~~~~C~IC~~~~~~~~---~lpC~H~Fh~ 313 (408)
.....+|.||+|+++.+. +|||--++|+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 355678999999998765 4799988886
No 109
>PRK12495 hypothetical protein; Provisional
Probab=84.59 E-value=3.3 Score=37.85 Aligned_cols=58 Identities=21% Similarity=0.422 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhhhhhhccCCCCCCcccccCCCCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccC
Q 015350 256 FRIRVADYVRYRKITSNMNDRFPDASPEELDASDSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
++.+..+-...|+..++|.+.+-.... .....|..|-..+- -+.....||.|...+..
T Consensus 13 LREKye~d~~~R~~~~~ma~lL~~gat----msa~hC~~CG~PIp------------------a~pG~~~Cp~CQ~~~~~ 70 (226)
T PRK12495 13 LREKYEQDEQKREATERMSELLLQGAT----MTNAHCDECGDPIF------------------RHDGQEFCPTCQQPVTE 70 (226)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHhhcc----cchhhcccccCccc------------------CCCCeeECCCCCCcccc
Confidence 334444444455555555443333221 23457988877654 01233459999877654
No 110
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=83.18 E-value=0.62 Score=49.45 Aligned_cols=24 Identities=33% Similarity=0.981 Sum_probs=21.8
Q ss_pred EeecccccHhhHHHHHhcCCCCcc
Q 015350 305 LICGHLFHVHCLRSWLERQHTCPT 328 (408)
Q Consensus 305 lpC~H~Fh~~Cl~~wl~~~~~CP~ 328 (408)
..|+|+-|.+|.++|.+....||.
T Consensus 1046 g~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhcCCcCCC
Confidence 369999999999999999999985
No 111
>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=83.18 E-value=0.98 Score=31.39 Aligned_cols=42 Identities=26% Similarity=0.534 Sum_probs=21.4
Q ss_pred CccccccccccCCeEE-eecccccHhhHHHHHhc-----CCCCccccCc
Q 015350 290 STCIICREEMTTAKKL-ICGHLFHVHCLRSWLER-----QHTCPTCRAL 332 (408)
Q Consensus 290 ~~C~IC~~~~~~~~~l-pC~H~Fh~~Cl~~wl~~-----~~~CP~Cr~~ 332 (408)
..|++....++.|.+- .|.|.-|.+ +..|++. .-.||.|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4699999999988775 699985433 3455543 2259999764
No 112
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.08 E-value=0.99 Score=44.65 Aligned_cols=44 Identities=27% Similarity=0.566 Sum_probs=33.7
Q ss_pred CCCCccccccccc---cCCeEEeecccccHhhHHHHHhcC---CCCcccc
Q 015350 287 ASDSTCIICREEM---TTAKKLICGHLFHVHCLRSWLERQ---HTCPTCR 330 (408)
Q Consensus 287 ~~~~~C~IC~~~~---~~~~~lpC~H~Fh~~Cl~~wl~~~---~~CP~Cr 330 (408)
.+-..|||=.+.- .+|.++.|||+-+.+-+.+.-... ..||.|=
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 3467899976643 467899999999999998865443 3699993
No 113
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=82.75 E-value=0.69 Score=44.93 Aligned_cols=48 Identities=27% Similarity=0.673 Sum_probs=36.1
Q ss_pred CCccccccccccCC----eEEeec-----ccccHhhHHHHHh--cCCCCccccCcccCC
Q 015350 289 DSTCIICREEMTTA----KKLICG-----HLFHVHCLRSWLE--RQHTCPTCRALVVPP 336 (408)
Q Consensus 289 ~~~C~IC~~~~~~~----~~lpC~-----H~Fh~~Cl~~wl~--~~~~CP~Cr~~i~~~ 336 (408)
+..|-||.++.... ...||. +..|..|+..|.. .+..|..|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 46899999977543 456764 4579999999997 566799998766543
No 114
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=82.36 E-value=0.38 Score=50.98 Aligned_cols=47 Identities=28% Similarity=0.632 Sum_probs=39.3
Q ss_pred CCccccccccccCCeEEeecccccHhhHHHHHhc---CCCCccccCcccC
Q 015350 289 DSTCIICREEMTTAKKLICGHLFHVHCLRSWLER---QHTCPTCRALVVP 335 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~---~~~CP~Cr~~i~~ 335 (408)
..+|+||.+.+.++..+.|-|.||..|+..-+.. ...||+|+..+..
T Consensus 21 ~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 5689999999999989999999999999875544 3469999977753
No 115
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=82.07 E-value=1.8 Score=41.93 Aligned_cols=45 Identities=24% Similarity=0.620 Sum_probs=35.8
Q ss_pred CccccccccccCCe--E--EeecccccHhhHHHHHhcCCCCccccCccc
Q 015350 290 STCIICREEMTTAK--K--LICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 290 ~~C~IC~~~~~~~~--~--lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
..|+||.+...... . .||+|.-|..|+..-...+.+||.||++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 68999999874432 2 368999999999888888899999995543
No 116
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.90 E-value=0.81 Score=43.29 Aligned_cols=30 Identities=30% Similarity=0.617 Sum_probs=23.4
Q ss_pred ecccccHhhHHHHHhc-------------CCCCccccCcccCC
Q 015350 307 CGHLFHVHCLRSWLER-------------QHTCPTCRALVVPP 336 (408)
Q Consensus 307 C~H~Fh~~Cl~~wl~~-------------~~~CP~Cr~~i~~~ 336 (408)
|....|.+|+-+|+.. +.+||+||+...-.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 6778999999888732 45799999987643
No 117
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=79.88 E-value=1.2 Score=47.44 Aligned_cols=38 Identities=26% Similarity=0.656 Sum_probs=28.7
Q ss_pred ccccccccccCCeEE--eecccccHhhHHHHHhcCCCCcc
Q 015350 291 TCIICREEMTTAKKL--ICGHLFHVHCLRSWLERQHTCPT 328 (408)
Q Consensus 291 ~C~IC~~~~~~~~~l--pC~H~Fh~~Cl~~wl~~~~~CP~ 328 (408)
.|.+|......-..- -|||.-|.+|+++|+..+..||.
T Consensus 781 ~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred CceeecceeeeeEeecccccccccHHHHHHHHhcCCCCcc
Confidence 466666554433222 49999999999999999988887
No 118
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=77.52 E-value=1.3 Score=47.48 Aligned_cols=47 Identities=17% Similarity=0.196 Sum_probs=35.0
Q ss_pred CCCccccccccccCCe----EEe---ecccccHhhHHHHHhc------CCCCccccCccc
Q 015350 288 SDSTCIICREEMTTAK----KLI---CGHLFHVHCLRSWLER------QHTCPTCRALVV 334 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~----~lp---C~H~Fh~~Cl~~wl~~------~~~CP~Cr~~i~ 334 (408)
..+.|.+|.-++..++ ..| |+|.+|..||..|.++ +-.|+.|..-+.
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 3567888888777632 345 9999999999999966 335888876663
No 119
>PLN02400 cellulose synthase
Probab=74.67 E-value=5.1 Score=45.00 Aligned_cols=47 Identities=17% Similarity=0.511 Sum_probs=32.6
Q ss_pred CCCccccccccccCC---e-EEee---cccccHhhHHH-HHhcCCCCccccCccc
Q 015350 288 SDSTCIICREEMTTA---K-KLIC---GHLFHVHCLRS-WLERQHTCPTCRALVV 334 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~---~-~lpC---~H~Fh~~Cl~~-wl~~~~~CP~Cr~~i~ 334 (408)
....|-||-|+.... . -..| +---|+.|..- .-+.++.||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 456899999997532 2 2344 44589999832 2344788999998775
No 120
>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=72.97 E-value=1.2 Score=43.12 Aligned_cols=45 Identities=18% Similarity=0.280 Sum_probs=23.0
Q ss_pred CCCCccccccccccCCeEEe-----ecccccHhhHHHHHhcCCCCccccC
Q 015350 287 ASDSTCIICREEMTTAKKLI-----CGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lp-----C~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
.....||+|-..-.-..... -.|.+|.-|-.+|-.....||.|-.
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 34578999988654332221 2567888999999988889999943
No 121
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=72.77 E-value=1.4 Score=46.35 Aligned_cols=41 Identities=29% Similarity=0.780 Sum_probs=26.0
Q ss_pred CCCCcccccccc-----ccC---CeEEeecccccHhhHHHHHhcCCCCcccc
Q 015350 287 ASDSTCIICREE-----MTT---AKKLICGHLFHVHCLRSWLERQHTCPTCR 330 (408)
Q Consensus 287 ~~~~~C~IC~~~-----~~~---~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr 330 (408)
..+..|.+|... ++. -+...|++.||..|++. .+..||.|-
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 346778888321 111 11235999999999865 344599993
No 122
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.11 E-value=2.5 Score=39.96 Aligned_cols=35 Identities=23% Similarity=0.620 Sum_probs=30.2
Q ss_pred CCCccccccccccCCeEEee----cccccHhhHHHHHhc
Q 015350 288 SDSTCIICREEMTTAKKLIC----GHLFHVHCLRSWLER 322 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC----~H~Fh~~Cl~~wl~~ 322 (408)
....|-+|.|.+++.-.+.| .|.||..|-++-+++
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 34779999999999988888 599999999997765
No 123
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=71.23 E-value=1.9 Score=39.02 Aligned_cols=43 Identities=23% Similarity=0.684 Sum_probs=34.9
Q ss_pred CCccccccccccCCeE-EeecccccHhhHHHHHhcCCCCccccC
Q 015350 289 DSTCIICREEMTTAKK-LICGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~-lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
-..|.+|.+-.-.+.. =.|+-.+|.+|+...+++.+.||.|..
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchhc
Confidence 3579999987665544 367778999999999999999999943
No 124
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.21 E-value=1.7 Score=43.74 Aligned_cols=35 Identities=34% Similarity=0.650 Sum_probs=26.1
Q ss_pred CCCccccccccccCC-e---EEeecccccHhhHHHHHhc
Q 015350 288 SDSTCIICREEMTTA-K---KLICGHLFHVHCLRSWLER 322 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~-~---~lpC~H~Fh~~Cl~~wl~~ 322 (408)
....|.||..+...+ . ...|+|.||..|.++..+.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 356899999544433 2 3469999999999988764
No 125
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=70.62 E-value=3.4 Score=39.66 Aligned_cols=49 Identities=20% Similarity=0.539 Sum_probs=34.0
Q ss_pred CCCCcccccccccc-----------------CCe--EEeecccccHhhHHHHHhc---------CCCCccccCcccC
Q 015350 287 ASDSTCIICREEMT-----------------TAK--KLICGHLFHVHCLRSWLER---------QHTCPTCRALVVP 335 (408)
Q Consensus 287 ~~~~~C~IC~~~~~-----------------~~~--~lpC~H~Fh~~Cl~~wl~~---------~~~CP~Cr~~i~~ 335 (408)
..+.+|++|+..-. .|. ..||||.--++=.+-|-+. +..||.|-..+..
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 34678999997531 111 2389999777777778754 4569999877653
No 126
>PLN02189 cellulose synthase
Probab=69.97 E-value=5.7 Score=44.45 Aligned_cols=47 Identities=23% Similarity=0.550 Sum_probs=33.1
Q ss_pred CCCccccccccccCC----eEEe---ecccccHhhHHH-HHhcCCCCccccCccc
Q 015350 288 SDSTCIICREEMTTA----KKLI---CGHLFHVHCLRS-WLERQHTCPTCRALVV 334 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~----~~lp---C~H~Fh~~Cl~~-wl~~~~~CP~Cr~~i~ 334 (408)
....|.||.|+.... .... |+---|+.|..- .-+.++.||.|+....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 456899999997532 2234 555589999843 2345788999998775
No 127
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.24 E-value=4.8 Score=37.50 Aligned_cols=48 Identities=21% Similarity=0.411 Sum_probs=36.7
Q ss_pred CCCCccccccccccCCeE----EeecccccHhhHHHHHhcCCCCccccCcccCC
Q 015350 287 ASDSTCIICREEMTTAKK----LICGHLFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~----lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
.....|+|-.-+|...-+ -+|||+|-.+-+++. ...+|++|.+.....
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 345679998888766533 389999999998873 367899999887644
No 128
>PLN02436 cellulose synthase A
Probab=67.87 E-value=6.7 Score=44.02 Aligned_cols=47 Identities=26% Similarity=0.578 Sum_probs=32.8
Q ss_pred CCCccccccccccC---Ce-EEe---ecccccHhhHHH-HHhcCCCCccccCccc
Q 015350 288 SDSTCIICREEMTT---AK-KLI---CGHLFHVHCLRS-WLERQHTCPTCRALVV 334 (408)
Q Consensus 288 ~~~~C~IC~~~~~~---~~-~lp---C~H~Fh~~Cl~~-wl~~~~~CP~Cr~~i~ 334 (408)
....|-||-|+... +. -.. |+---|+.|..- .-+.++.||.|+....
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 45689999999743 22 234 555599999843 2244788999998775
No 129
>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=66.38 E-value=0.69 Score=34.41 Aligned_cols=40 Identities=25% Similarity=0.647 Sum_probs=22.8
Q ss_pred CccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCccc
Q 015350 290 STCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 290 ~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
..|+.|..+++... +|..|..|-.. +.....||-|.+++.
T Consensus 2 ~~CP~C~~~L~~~~----~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG----GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET----TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC----CEEECcccccc-ceecccCCCcccHHH
Confidence 47999998875433 67778888765 344567999998874
No 130
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=65.70 E-value=7.5 Score=29.48 Aligned_cols=47 Identities=19% Similarity=0.510 Sum_probs=19.2
Q ss_pred CCCccccccccccC---Ce-EE---eecccccHhhHHH-HHhcCCCCccccCccc
Q 015350 288 SDSTCIICREEMTT---AK-KL---ICGHLFHVHCLRS-WLERQHTCPTCRALVV 334 (408)
Q Consensus 288 ~~~~C~IC~~~~~~---~~-~l---pC~H~Fh~~Cl~~-wl~~~~~CP~Cr~~i~ 334 (408)
....|-||-|+... +. .. .|+---|+.|..- .-+.++.||.|+.+..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 46689999998742 22 22 3666689999854 3355788999997664
No 131
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=64.76 E-value=9.4 Score=42.99 Aligned_cols=47 Identities=17% Similarity=0.524 Sum_probs=32.9
Q ss_pred CCCccccccccccCC---e-EEeec---ccccHhhHHH-HHhcCCCCccccCccc
Q 015350 288 SDSTCIICREEMTTA---K-KLICG---HLFHVHCLRS-WLERQHTCPTCRALVV 334 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~---~-~lpC~---H~Fh~~Cl~~-wl~~~~~CP~Cr~~i~ 334 (408)
....|-||-|+.... . -..|+ ---|+.|..- .-+.++.||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 456899999997532 2 23454 4599999843 2355788999998775
No 132
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=63.81 E-value=2.7 Score=24.95 Aligned_cols=10 Identities=40% Similarity=0.816 Sum_probs=5.0
Q ss_pred cccccccccc
Q 015350 291 TCIICREEMT 300 (408)
Q Consensus 291 ~C~IC~~~~~ 300 (408)
.|+-|.....
T Consensus 2 ~CP~C~~~V~ 11 (26)
T PF10571_consen 2 TCPECGAEVP 11 (26)
T ss_pred cCCCCcCCch
Confidence 3555555543
No 133
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.09 E-value=4.9 Score=37.32 Aligned_cols=33 Identities=12% Similarity=0.180 Sum_probs=30.0
Q ss_pred CCCccccccccccCCeEEeecccccHhhHHHHH
Q 015350 288 SDSTCIICREEMTTAKKLICGHLFHVHCLRSWL 320 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl 320 (408)
.-+.|+.|+....+|+..|=||+|+++||.+.+
T Consensus 42 ~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred CcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence 356899999999999999999999999998865
No 134
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=62.07 E-value=13 Score=26.41 Aligned_cols=45 Identities=24% Similarity=0.685 Sum_probs=32.4
Q ss_pred CccccccccccCCe--EEeecc--cccHhhHHHHHhcCCCCccccCcccCC
Q 015350 290 STCIICREEMTTAK--KLICGH--LFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 290 ~~C~IC~~~~~~~~--~lpC~H--~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
..|--|-.++.... ..-|.+ .||.+|....+ +..||.|...+...
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 35777777765433 445776 59999998866 57899998887643
No 135
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.09 E-value=3.3 Score=44.55 Aligned_cols=43 Identities=26% Similarity=0.527 Sum_probs=31.3
Q ss_pred CCCCcccccccccc-------CCeEEeecccccHhhHHHHHhcCCCCcccc
Q 015350 287 ASDSTCIICREEMT-------TAKKLICGHLFHVHCLRSWLERQHTCPTCR 330 (408)
Q Consensus 287 ~~~~~C~IC~~~~~-------~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr 330 (408)
..+..|.-|.+... .-+.+.|||.||..|+..-..+++ |-.|.
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 34558999998764 234578999999999987666554 65553
No 136
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=60.95 E-value=2.8 Score=41.66 Aligned_cols=46 Identities=24% Similarity=0.572 Sum_probs=0.0
Q ss_pred CCcccccccccc-----------------CCe--EEeecccccHhhHHHHHhc---------CCCCccccCccc
Q 015350 289 DSTCIICREEMT-----------------TAK--KLICGHLFHVHCLRSWLER---------QHTCPTCRALVV 334 (408)
Q Consensus 289 ~~~C~IC~~~~~-----------------~~~--~lpC~H~Fh~~Cl~~wl~~---------~~~CP~Cr~~i~ 334 (408)
...|++|+..-. .|. ..||||.--.+..+-|-+. +..||.|-.++.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp --------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 668999997521 121 2489999888899889754 346999988875
No 137
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=60.39 E-value=5.3 Score=36.41 Aligned_cols=40 Identities=28% Similarity=0.814 Sum_probs=27.4
Q ss_pred CCCCcccccccc-----ccCCeEE---eecccccHhhHHHHHhcCCCCccccC
Q 015350 287 ASDSTCIICREE-----MTTAKKL---ICGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 287 ~~~~~C~IC~~~-----~~~~~~l---pC~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
..+..|.+|.++ ++..... .|+-.||..|..+ ..||.|.+
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 346789999864 1221222 5899999999762 67999943
No 138
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.67 E-value=5.3 Score=41.08 Aligned_cols=36 Identities=33% Similarity=0.601 Sum_probs=30.2
Q ss_pred CCCCccccccccccC-CeEEeecccccHhhHHHHHhc
Q 015350 287 ASDSTCIICREEMTT-AKKLICGHLFHVHCLRSWLER 322 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~-~~~lpC~H~Fh~~Cl~~wl~~ 322 (408)
.....|.||.+.... ...+.|||.||..|....+.+
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhh
Confidence 446789999999885 556799999999999998855
No 139
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=54.88 E-value=12 Score=26.43 Aligned_cols=37 Identities=19% Similarity=0.583 Sum_probs=26.2
Q ss_pred CCCcccccccccc--CCeEE--eecccccHhhHHHHHhcCCCCcc
Q 015350 288 SDSTCIICREEMT--TAKKL--ICGHLFHVHCLRSWLERQHTCPT 328 (408)
Q Consensus 288 ~~~~C~IC~~~~~--~~~~l--pC~H~Fh~~Cl~~wl~~~~~CP~ 328 (408)
....|++|-+.+. +.... .||-.+|++|... ...|-.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~ 44 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCIN 44 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEe
Confidence 3567999999995 33332 4999999999754 445654
No 140
>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=54.13 E-value=8.2 Score=26.97 Aligned_cols=37 Identities=19% Similarity=0.603 Sum_probs=26.3
Q ss_pred cccccccccCCeEE--eecccccHhhHHHHHhcCCCCccccCcccCC
Q 015350 292 CIICREEMTTAKKL--ICGHLFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 292 C~IC~~~~~~~~~l--pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
|.-|.+.+...... .-+..||..|. +|-.|++++.+.
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEEeCCcEEEcccc--------ccCCCCCccCCC
Confidence 66777777655444 67788888884 788888877543
No 141
>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=50.73 E-value=11 Score=23.52 Aligned_cols=36 Identities=22% Similarity=0.613 Sum_probs=24.6
Q ss_pred ccccccccccCC-eEE-eecccccHhhHHHHHhcCCCCccccCccc
Q 015350 291 TCIICREEMTTA-KKL-ICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 291 ~C~IC~~~~~~~-~~l-pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
.|..|.+.+... ..+ .=+..||..|. .|..|+.++.
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCC--------CCcccCCcCc
Confidence 377888877664 333 34678888884 6888877653
No 142
>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 KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.43 E-value=8.1 Score=38.93 Aligned_cols=45 Identities=22% Similarity=0.499 Sum_probs=32.9
Q ss_pred CCCCccccccccccCC-----eEEeecccccHhhHHHHHhcCCCCccccC
Q 015350 287 ASDSTCIICREEMTTA-----KKLICGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~-----~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
..-..|+.|.-.++.. ..-.|||.||..|..+|...+..|..|-.
T Consensus 304 ~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~r 353 (384)
T KOG1812|consen 304 KRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECCR 353 (384)
T ss_pred HhcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCccc
Confidence 3456799998765432 12259999999999999988887866633
No 144
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=50.08 E-value=7.7 Score=36.57 Aligned_cols=45 Identities=27% Similarity=0.709 Sum_probs=31.6
Q ss_pred CCccccccccccCCe--EE-----eecccccHhhHHHHHhc---------CCCCccccCcc
Q 015350 289 DSTCIICREEMTTAK--KL-----ICGHLFHVHCLRSWLER---------QHTCPTCRALV 333 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~--~l-----pC~H~Fh~~Cl~~wl~~---------~~~CP~Cr~~i 333 (408)
..+|.+|.+++.+.. .+ .|+-.+|..|+-.-+.. ...||.|++.+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 358999999994432 22 27778999999884322 33599998754
No 145
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=49.65 E-value=8.1 Score=37.59 Aligned_cols=45 Identities=16% Similarity=0.388 Sum_probs=31.4
Q ss_pred CCCCccccccccccCCeE-E--e--ecccccHhhHHHHHhcCCCCccccC
Q 015350 287 ASDSTCIICREEMTTAKK-L--I--CGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~-l--p--C~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
.....|++|-..-..... . . =.|..|.-|-.+|-.....||.|-.
T Consensus 185 ~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 185 EQRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred cCCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 346789999886432211 1 1 2356777898899988999999964
No 146
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=49.14 E-value=21 Score=40.14 Aligned_cols=47 Identities=23% Similarity=0.565 Sum_probs=32.8
Q ss_pred CCCccccccccccCC---e-EEee---cccccHhhHHH-HHhcCCCCccccCccc
Q 015350 288 SDSTCIICREEMTTA---K-KLIC---GHLFHVHCLRS-WLERQHTCPTCRALVV 334 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~---~-~lpC---~H~Fh~~Cl~~-wl~~~~~CP~Cr~~i~ 334 (408)
....|-||-|+.... . -..| +---|+.|..- .-+.++.||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 467899999987532 1 2344 45599999843 2245788999998775
No 147
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.96 E-value=26 Score=29.51 Aligned_cols=43 Identities=33% Similarity=0.705 Sum_probs=24.1
Q ss_pred CCCCcccccccc-ccCCeEEeecc-------cccHhhHHHHHhc-CC---CCccccCcc
Q 015350 287 ASDSTCIICREE-MTTAKKLICGH-------LFHVHCLRSWLER-QH---TCPTCRALV 333 (408)
Q Consensus 287 ~~~~~C~IC~~~-~~~~~~lpC~H-------~Fh~~Cl~~wl~~-~~---~CP~Cr~~i 333 (408)
..+..|.||... |.++ ||| .||.+|--+--.+ ++ .|..|+...
T Consensus 63 ~ddatC~IC~KTKFADG----~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADG----CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred CcCcchhhhhhcccccc----cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 456789999864 3333 555 4555554332211 22 388887654
No 148
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=47.07 E-value=36 Score=33.17 Aligned_cols=34 Identities=32% Similarity=0.554 Sum_probs=20.0
Q ss_pred EEeeccc-ccHhhHHHHHh---cCCCCccccCcccCCCC
Q 015350 304 KLICGHL-FHVHCLRSWLE---RQHTCPTCRALVVPPEN 338 (408)
Q Consensus 304 ~lpC~H~-Fh~~Cl~~wl~---~~~~CP~Cr~~i~~~~~ 338 (408)
.|-|+|. -|..|... -+ ....||.|+.-.+++..
T Consensus 220 ALIC~~C~~HNGla~~-ee~~yi~F~C~~Cn~LN~~~k~ 257 (328)
T KOG2846|consen 220 ALICSQCHHHNGLARK-EEYEYITFRCPHCNALNPAKKS 257 (328)
T ss_pred hhcchhhccccCcCCh-hhcCceEEECccccccCCCcCC
Confidence 3558775 35566654 11 13459999876655544
No 149
>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=46.45 E-value=7.8 Score=37.65 Aligned_cols=44 Identities=18% Similarity=0.342 Sum_probs=30.2
Q ss_pred CCCccccccccccCCeEE----e--ecccccHhhHHHHHhcCCCCccccC
Q 015350 288 SDSTCIICREEMTTAKKL----I--CGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~l----p--C~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
....|++|-..-...... . =.|..|.-|-.+|-.....||.|..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 355899998864322111 1 2255677788899988899999965
No 150
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=44.31 E-value=16 Score=35.52 Aligned_cols=42 Identities=26% Similarity=0.699 Sum_probs=29.9
Q ss_pred CCccccccccccCCeEE---eecccccHhhHHHHHhcCCCCcccc
Q 015350 289 DSTCIICREEMTTAKKL---ICGHLFHVHCLRSWLERQHTCPTCR 330 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~l---pC~H~Fh~~Cl~~wl~~~~~CP~Cr 330 (408)
...|-.|.++......- .|+|.||.+|-.=--++-..||-|.
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 44599997776554333 5899999999544335566899996
No 151
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=41.64 E-value=15 Score=26.97 Aligned_cols=13 Identities=31% Similarity=0.792 Sum_probs=9.1
Q ss_pred cccHhhHHHHHhc
Q 015350 310 LFHVHCLRSWLER 322 (408)
Q Consensus 310 ~Fh~~Cl~~wl~~ 322 (408)
.||+.|+.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999853
No 152
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=41.42 E-value=8.8 Score=38.24 Aligned_cols=26 Identities=46% Similarity=1.065 Sum_probs=0.0
Q ss_pred EeecccccHhhHHHHHh------cCCCCccccCcc
Q 015350 305 LICGHLFHVHCLRSWLE------RQHTCPTCRALV 333 (408)
Q Consensus 305 lpC~H~Fh~~Cl~~wl~------~~~~CP~Cr~~i 333 (408)
+.|||++-.. .|-. +..+||+||..=
T Consensus 307 l~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 307 LNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp -----------------------------------
T ss_pred ccccceeeec---ccccccccccccccCCCccccC
Confidence 5699974432 4542 245799998753
No 153
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=41.37 E-value=18 Score=25.26 Aligned_cols=25 Identities=32% Similarity=0.720 Sum_probs=13.6
Q ss_pred eecccccHhhHHHHHhcCCCCcccc
Q 015350 306 ICGHLFHVHCLRSWLERQHTCPTCR 330 (408)
Q Consensus 306 pC~H~Fh~~Cl~~wl~~~~~CP~Cr 330 (408)
.|++.||.+|=.=-=+.-.+||-|.
T Consensus 26 ~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCccccCcChhhhccccCCcCCC
Confidence 4889999999432224456899884
No 154
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=40.28 E-value=30 Score=28.06 Aligned_cols=44 Identities=32% Similarity=0.689 Sum_probs=27.3
Q ss_pred CCccccccccccCCe--------EEee---cccccHhhHHHHHhc---------CCCCccccCc
Q 015350 289 DSTCIICREEMTTAK--------KLIC---GHLFHVHCLRSWLER---------QHTCPTCRAL 332 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~--------~lpC---~H~Fh~~Cl~~wl~~---------~~~CP~Cr~~ 332 (408)
+..|-.|+..-.+.+ .-.| .=.||..||..+... +-.||.||.-
T Consensus 7 g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 7 GKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred CCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 456777766432221 1234 556999999887643 2359999873
No 155
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=38.10 E-value=24 Score=34.06 Aligned_cols=42 Identities=26% Similarity=0.507 Sum_probs=29.9
Q ss_pred CCCccccccccc---cCCeEEeecccccHhhHHHHHhc---CCCCccc
Q 015350 288 SDSTCIICREEM---TTAKKLICGHLFHVHCLRSWLER---QHTCPTC 329 (408)
Q Consensus 288 ~~~~C~IC~~~~---~~~~~lpC~H~Fh~~Cl~~wl~~---~~~CP~C 329 (408)
.-..||+--+.- ..|..+.|||+.-.+-++.--+. ...||.|
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 456788755433 45788999999999888774332 2359999
No 156
>PLN02248 cellulose synthase-like protein
Probab=34.52 E-value=50 Score=37.60 Aligned_cols=30 Identities=20% Similarity=0.503 Sum_probs=25.8
Q ss_pred ecccccHhhHHHHHhcCCCCccccCcccCC
Q 015350 307 CGHLFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 307 C~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
|++..|++|...-+.....||-|+.+....
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 179 (1135)
T PLN02248 150 CGFKICRDCYIDAVKSGGICPGCKEPYKVT 179 (1135)
T ss_pred ccchhHHhHhhhhhhcCCCCCCCccccccc
Confidence 778899999999888888999999887543
No 157
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=34.25 E-value=13 Score=27.23 Aligned_cols=33 Identities=21% Similarity=0.631 Sum_probs=17.0
Q ss_pred CCCccccccccccCCeE-E---eecccccHhhHHHHH
Q 015350 288 SDSTCIICREEMTTAKK-L---ICGHLFHVHCLRSWL 320 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~-l---pC~H~Fh~~Cl~~wl 320 (408)
+...|.+|...|.--.. - .||++||.+|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 35689999999964322 2 599999999986543
No 158
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=33.27 E-value=13 Score=30.67 Aligned_cols=43 Identities=16% Similarity=0.459 Sum_probs=25.4
Q ss_pred CCCccccccccccC---CeE--EeecccccHhhHHHHHhcCC--CCccccC
Q 015350 288 SDSTCIICREEMTT---AKK--LICGHLFHVHCLRSWLERQH--TCPTCRA 331 (408)
Q Consensus 288 ~~~~C~IC~~~~~~---~~~--lpC~H~Fh~~Cl~~wl~~~~--~CP~Cr~ 331 (408)
++..|.+|...+.- ... ..|+|..|.+|-.. ..... .|.+|++
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 45689999987632 222 25899999999643 11112 3888864
No 159
>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=32.88 E-value=31 Score=21.45 Aligned_cols=10 Identities=40% Similarity=1.012 Sum_probs=6.7
Q ss_pred cCCCCccccC
Q 015350 322 RQHTCPTCRA 331 (408)
Q Consensus 322 ~~~~CP~Cr~ 331 (408)
....||.|..
T Consensus 16 ~~~~CP~Cg~ 25 (33)
T cd00350 16 APWVCPVCGA 25 (33)
T ss_pred CCCcCcCCCC
Confidence 3457888865
No 160
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=32.16 E-value=26 Score=33.80 Aligned_cols=43 Identities=9% Similarity=-0.177 Sum_probs=34.1
Q ss_pred CCCccccccccccCCeEEeeccc-ccHhhHHHHHhcCCCCccccCc
Q 015350 288 SDSTCIICREEMTTAKKLICGHL-FHVHCLRSWLERQHTCPTCRAL 332 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lpC~H~-Fh~~Cl~~wl~~~~~CP~Cr~~ 332 (408)
....|-.|-+..-...-.+|+|. ||.+|.. +.-..+||+|...
T Consensus 342 s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred hhcccccccCceeeeEeecCCcccChhhhhh--cccCCcccccccc
Confidence 35679999888777677799995 9999987 5667899999653
No 161
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=32.01 E-value=11 Score=25.01 Aligned_cols=25 Identities=36% Similarity=0.659 Sum_probs=14.5
Q ss_pred eecccccHhhHHHHHhcCCCCccccC
Q 015350 306 ICGHLFHVHCLRSWLERQHTCPTCRA 331 (408)
Q Consensus 306 pC~H~Fh~~Cl~~wl~~~~~CP~Cr~ 331 (408)
.|||.|-...-..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 47777654432211 23457999977
No 162
>KOG2302 consensus T-type voltage-gated Ca2+ channel, pore-forming alpha1I subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=31.73 E-value=8.5e+02 Score=28.07 Aligned_cols=19 Identities=16% Similarity=0.153 Sum_probs=10.7
Q ss_pred HHHHhhhcccccccccchh
Q 015350 193 YVFYVSDMLMEGQWERKAV 211 (408)
Q Consensus 193 y~~~~~d~~~~~~we~k~~ 211 (408)
++..++|-.....|+..+.
T Consensus 1336 Wv~ImyDgldavavdqqPI 1354 (1956)
T KOG2302|consen 1336 WVNIMYDGLDAVAVDQQPI 1354 (1956)
T ss_pred hhhhhccchhhceeeeecc
Confidence 4445566665566665554
No 163
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=31.63 E-value=5.4e+02 Score=25.78 Aligned_cols=10 Identities=50% Similarity=1.085 Sum_probs=6.6
Q ss_pred CCcccccccc
Q 015350 289 DSTCIICREE 298 (408)
Q Consensus 289 ~~~C~IC~~~ 298 (408)
...||||+..
T Consensus 334 qQTCPICr~p 343 (491)
T COG5243 334 QQTCPICRRP 343 (491)
T ss_pred ccCCCcccCc
Confidence 4567777765
No 164
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=31.40 E-value=15 Score=29.97 Aligned_cols=23 Identities=17% Similarity=0.320 Sum_probs=16.7
Q ss_pred HHHhcCCCCccccCcccCCCCCC
Q 015350 318 SWLERQHTCPTCRALVVPPENGA 340 (408)
Q Consensus 318 ~wl~~~~~CP~Cr~~i~~~~~~~ 340 (408)
..+.+.+.|+.|++++.-+++..
T Consensus 80 KmLGr~D~CM~C~~pLTLd~~le 102 (114)
T PF11023_consen 80 KMLGRVDACMHCKEPLTLDPSLE 102 (114)
T ss_pred hhhchhhccCcCCCcCccCchhh
Confidence 34666778999999997665443
No 165
>PRK04023 DNA polymerase II large subunit; Validated
Probab=31.31 E-value=21 Score=39.89 Aligned_cols=48 Identities=19% Similarity=0.355 Sum_probs=31.9
Q ss_pred CCCCccccccccccCCeEEeecc-----cccHhhHHHHHhcCCCCccccCcccCC
Q 015350 287 ASDSTCIICREEMTTAKKLICGH-----LFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~~~lpC~H-----~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
.....|+-|-........-.||. .||.+|- +......||.|..+..+.
T Consensus 624 Vg~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG--~~~~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 624 IGRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCG--IEVEEDECEKCGREPTPY 676 (1121)
T ss_pred ccCccCCCCCCcCCcccCCCCCCCCCcceeCcccc--CcCCCCcCCCCCCCCCcc
Confidence 34567999988753333334884 5999993 334456799998877644
No 166
>PLN02195 cellulose synthase A
Probab=30.14 E-value=46 Score=37.34 Aligned_cols=48 Identities=21% Similarity=0.401 Sum_probs=33.3
Q ss_pred CCCCccccccccccCC---e-EE---eecccccHhhHHHH-HhcCCCCccccCccc
Q 015350 287 ASDSTCIICREEMTTA---K-KL---ICGHLFHVHCLRSW-LERQHTCPTCRALVV 334 (408)
Q Consensus 287 ~~~~~C~IC~~~~~~~---~-~l---pC~H~Fh~~Cl~~w-l~~~~~CP~Cr~~i~ 334 (408)
.....|.||-|+.... . -. .|+---|+.|..-= -+.++.||.|+....
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 3456899999987432 1 22 46666999998431 244788999998876
No 167
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=29.74 E-value=33 Score=35.24 Aligned_cols=42 Identities=26% Similarity=0.632 Sum_probs=29.2
Q ss_pred CCccccccccccCCeEEe---ecccccHhhHHHHHhc----C----CCCcccc
Q 015350 289 DSTCIICREEMTTAKKLI---CGHLFHVHCLRSWLER----Q----HTCPTCR 330 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lp---C~H~Fh~~Cl~~wl~~----~----~~CP~Cr 330 (408)
.-.|.||...-+.-..+. |+-.+|..|+.+=|-+ + -.|.-|-
T Consensus 544 ~ysCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 544 NYSCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred ceeeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 356999987765554454 6656999999886644 1 1499993
No 168
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=29.58 E-value=18 Score=25.22 Aligned_cols=10 Identities=30% Similarity=0.793 Sum_probs=4.5
Q ss_pred CCccccCccc
Q 015350 325 TCPTCRALVV 334 (408)
Q Consensus 325 ~CP~Cr~~i~ 334 (408)
.||+|.+++.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 6888877764
No 169
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.14 E-value=40 Score=36.26 Aligned_cols=50 Identities=28% Similarity=0.556 Sum_probs=37.4
Q ss_pred ccccccccccCCeEEeecc-cccHhhHHHHHh--c----CCCCccccCcccCCCCCC
Q 015350 291 TCIICREEMTTAKKLICGH-LFHVHCLRSWLE--R----QHTCPTCRALVVPPENGA 340 (408)
Q Consensus 291 ~C~IC~~~~~~~~~lpC~H-~Fh~~Cl~~wl~--~----~~~CP~Cr~~i~~~~~~~ 340 (408)
.|+||-...+-...=.||| .-|..|..+... . ...||.||.++.....+.
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s~~~ 58 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKSNGD 58 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCcccccceeeecccc
Confidence 5999998877777778999 799999987542 2 345899999876544433
No 170
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.89 E-value=42 Score=27.52 Aligned_cols=41 Identities=27% Similarity=0.597 Sum_probs=31.2
Q ss_pred CccccccccccCCe--------------EEeecccccHhhHHHHHhcCCCCcccc
Q 015350 290 STCIICREEMTTAK--------------KLICGHLFHVHCLRSWLERQHTCPTCR 330 (408)
Q Consensus 290 ~~C~IC~~~~~~~~--------------~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr 330 (408)
..|--|...+.++. --.|++.||.+|=.=+-+.-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 46999998876431 125999999999766667777899995
No 171
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=28.67 E-value=22 Score=24.11 Aligned_cols=41 Identities=22% Similarity=0.660 Sum_probs=27.9
Q ss_pred ccccccccccCCeEEe---ecccccHhhHHHHHh------cCCCCccccC
Q 015350 291 TCIICREEMTTAKKLI---CGHLFHVHCLRSWLE------RQHTCPTCRA 331 (408)
Q Consensus 291 ~C~IC~~~~~~~~~lp---C~H~Fh~~Cl~~wl~------~~~~CP~Cr~ 331 (408)
.|.||.+.-.....+. |+..||..|+..=.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3889988655556665 667899999876332 1346888853
No 172
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=28.24 E-value=31 Score=24.88 Aligned_cols=16 Identities=31% Similarity=0.818 Sum_probs=12.1
Q ss_pred cCCCCccccCcccCCC
Q 015350 322 RQHTCPTCRALVVPPE 337 (408)
Q Consensus 322 ~~~~CP~Cr~~i~~~~ 337 (408)
.++.||.|..++++++
T Consensus 2 ~HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDE 17 (59)
T ss_pred CCCcCCcCCCcCCcch
Confidence 4678999988887543
No 173
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=28.21 E-value=30 Score=33.44 Aligned_cols=24 Identities=46% Similarity=1.226 Sum_probs=15.9
Q ss_pred EEeeccc--ccHhhHHHHHhc------CCCCccccCc
Q 015350 304 KLICGHL--FHVHCLRSWLER------QHTCPTCRAL 332 (408)
Q Consensus 304 ~lpC~H~--Fh~~Cl~~wl~~------~~~CP~Cr~~ 332 (408)
-+.|||+ +| .|=.+ ...||+||..
T Consensus 319 Yl~CGHV~G~H-----~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 319 YLNCGHVHGYH-----NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred EEecccccccc-----ccccccccCcccCcCCeeeee
Confidence 3689986 55 45422 4469999864
No 174
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.14 E-value=46 Score=24.90 Aligned_cols=43 Identities=26% Similarity=0.672 Sum_probs=28.2
Q ss_pred cccccccccC--CeEEee--cccccHhhHHHHHhcCCCCccccCcccCC
Q 015350 292 CIICREEMTT--AKKLIC--GHLFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 292 C~IC~~~~~~--~~~lpC--~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
|--|-.++.. ...+-| .|.||..|...-+ +..||.|-.++...
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l--~g~CPnCGGelv~R 54 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRL--HGLCPNCGGELVAR 54 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhh--cCcCCCCCchhhcC
Confidence 5555555432 223445 4789999998754 46799998877643
No 175
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.05 E-value=8.4 Score=37.13 Aligned_cols=46 Identities=24% Similarity=0.461 Sum_probs=35.0
Q ss_pred CCCccccccccccC------CeEEe--------ecccccHhhHHHHHhc-CCCCccccCcc
Q 015350 288 SDSTCIICREEMTT------AKKLI--------CGHLFHVHCLRSWLER-QHTCPTCRALV 333 (408)
Q Consensus 288 ~~~~C~IC~~~~~~------~~~lp--------C~H~Fh~~Cl~~wl~~-~~~CP~Cr~~i 333 (408)
.+..|.||...+.. |..+. |||.-|..|+..-+.+ ...||.||...
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~~ 266 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWSH 266 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCccccee
Confidence 35679999887762 33445 9999999999997754 35899998753
No 176
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=26.78 E-value=50 Score=26.48 Aligned_cols=27 Identities=22% Similarity=0.471 Sum_probs=17.2
Q ss_pred EEeecccccHhhHHHHHhcCCCCccccCccc
Q 015350 304 KLICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 304 ~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
.+.|||.|-.. +.-+ -+-||.|-....
T Consensus 5 CtrCG~vf~~g--~~~i--l~GCp~CG~nkF 31 (112)
T COG3364 5 CTRCGEVFDDG--SEEI--LSGCPKCGCNKF 31 (112)
T ss_pred ecccccccccc--cHHH--HccCccccchhe
Confidence 46799998765 2211 246999966543
No 177
>TIGR02367 PylS pyrrolysyl-tRNA synthetase. PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, such as trimethylamine methyltransferase.
Probab=26.49 E-value=96 Score=31.84 Aligned_cols=15 Identities=27% Similarity=0.638 Sum_probs=10.5
Q ss_pred HHHhc---CCCCccccCc
Q 015350 318 SWLER---QHTCPTCRAL 332 (408)
Q Consensus 318 ~wl~~---~~~CP~Cr~~ 332 (408)
+||.. .+.||.||-+
T Consensus 57 r~~r~~~~~~~c~~c~~~ 74 (453)
T TIGR02367 57 RAFRHHKYRKTCKRCRVS 74 (453)
T ss_pred HHHhhccccccCCCCCCC
Confidence 58755 3579999843
No 178
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=26.20 E-value=35 Score=35.90 Aligned_cols=31 Identities=35% Similarity=0.746 Sum_probs=23.0
Q ss_pred CCccccccccccC-------------CeEEeecccccHhhHHHH
Q 015350 289 DSTCIICREEMTT-------------AKKLICGHLFHVHCLRSW 319 (408)
Q Consensus 289 ~~~C~IC~~~~~~-------------~~~lpC~H~Fh~~Cl~~w 319 (408)
...|+||.|.|+. ++.+.=|-+||..|+..-
T Consensus 513 ~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 513 QASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 4579999998853 333445889999999763
No 179
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=25.91 E-value=35 Score=24.57 Aligned_cols=15 Identities=27% Similarity=0.791 Sum_probs=11.1
Q ss_pred cCCCCccccCcccCC
Q 015350 322 RQHTCPTCRALVVPP 336 (408)
Q Consensus 322 ~~~~CP~Cr~~i~~~ 336 (408)
..+.||+|..+....
T Consensus 38 ~~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 38 EEPVCPLCKSPMVSG 52 (59)
T ss_pred CCccCCCcCCccccc
Confidence 357899999887543
No 180
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=25.57 E-value=73 Score=25.54 Aligned_cols=29 Identities=28% Similarity=0.628 Sum_probs=21.7
Q ss_pred CCCccccccccccCCeEEe-----ecccccHhhHHH
Q 015350 288 SDSTCIICREEMTTAKKLI-----CGHLFHVHCLRS 318 (408)
Q Consensus 288 ~~~~C~IC~~~~~~~~~lp-----C~H~Fh~~Cl~~ 318 (408)
....|.||... .+..++ |...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 36789999988 455554 556899999865
No 181
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.39 E-value=85 Score=32.18 Aligned_cols=15 Identities=27% Similarity=0.647 Sum_probs=9.0
Q ss_pred CCCCccccc-cccccC
Q 015350 287 ASDSTCIIC-REEMTT 301 (408)
Q Consensus 287 ~~~~~C~IC-~~~~~~ 301 (408)
.++..|++| .+.+.+
T Consensus 217 ~e~~~c~~~~~~~~~~ 232 (448)
T KOG0314|consen 217 PEGLQCPLCGKEVMLD 232 (448)
T ss_pred CccccCceecchhhHH
Confidence 456778888 444433
No 182
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=25.35 E-value=1.1e+02 Score=26.12 Aligned_cols=10 Identities=30% Similarity=0.836 Sum_probs=5.1
Q ss_pred CCCccccCcc
Q 015350 324 HTCPTCRALV 333 (408)
Q Consensus 324 ~~CP~Cr~~i 333 (408)
-.||.|+.+.
T Consensus 18 YKCpkC~vPY 27 (157)
T KOG2857|consen 18 YKCPKCSVPY 27 (157)
T ss_pred ccCCCCCCcc
Confidence 3455555544
No 183
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=25.24 E-value=14 Score=29.53 Aligned_cols=46 Identities=26% Similarity=0.728 Sum_probs=15.1
Q ss_pred Ccccccccccc--CCeEEee--cccccHhhHHHHHhc----CCCCccccCcccCC
Q 015350 290 STCIICREEMT--TAKKLIC--GHLFHVHCLRSWLER----QHTCPTCRALVVPP 336 (408)
Q Consensus 290 ~~C~IC~~~~~--~~~~lpC--~H~Fh~~Cl~~wl~~----~~~CP~Cr~~i~~~ 336 (408)
+.|++|.+.+. +.....| ||.| .+|-...+.- -+.||.|.......
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~l~~ 68 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRALDP 68 (99)
T ss_dssp --------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EEE-G
T ss_pred ccccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEEecC
Confidence 68999998763 4455666 6876 4565554422 24699998776543
No 184
>PRK11595 DNA utilization protein GntX; Provisional
Probab=24.95 E-value=61 Score=29.92 Aligned_cols=39 Identities=21% Similarity=0.475 Sum_probs=19.9
Q ss_pred CccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcc
Q 015350 290 STCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALV 333 (408)
Q Consensus 290 ~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i 333 (408)
..|.+|.+.+... .+..|..|...+-.....||.|..+.
T Consensus 6 ~~C~~C~~~~~~~-----~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 6 GLCWLCRMPLALS-----HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred CcCccCCCccCCC-----CCcccHHHHhhCCcccCcCccCCCcC
Confidence 3577777654322 12356666655422234566665543
No 185
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=24.72 E-value=40 Score=23.54 Aligned_cols=22 Identities=32% Similarity=0.792 Sum_probs=11.5
Q ss_pred ecccccHhhHHHHHhcCCCCccc
Q 015350 307 CGHLFHVHCLRSWLERQHTCPTC 329 (408)
Q Consensus 307 C~H~Fh~~Cl~~wl~~~~~CP~C 329 (408)
|||.+-..=- .-......||.|
T Consensus 34 Cgh~w~~~v~-~R~~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKASVN-DRTRRGKGCPYC 55 (55)
T ss_pred CCCeeEccHh-hhccCCCCCCCC
Confidence 5665433222 112456679988
No 186
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=24.71 E-value=28 Score=30.04 Aligned_cols=24 Identities=38% Similarity=0.767 Sum_probs=17.7
Q ss_pred ccHhhHHHHHhcC----CCCccccCccc
Q 015350 311 FHVHCLRSWLERQ----HTCPTCRALVV 334 (408)
Q Consensus 311 Fh~~Cl~~wl~~~----~~CP~Cr~~i~ 334 (408)
||..|+++=|..- -.||.|+..-.
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~ 29 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKS 29 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCC
Confidence 7899998877543 35999986543
No 187
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=24.70 E-value=80 Score=34.22 Aligned_cols=25 Identities=28% Similarity=0.701 Sum_probs=16.6
Q ss_pred eecccccHhhHHHHHhcCCCCccccCccc
Q 015350 306 ICGHLFHVHCLRSWLERQHTCPTCRALVV 334 (408)
Q Consensus 306 pC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~ 334 (408)
.|+|.-|..=| .+.+.||+|...+.
T Consensus 1161 ~CkH~a~~~EI----s~y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1161 RCKHRAHQHEI----SKYNCCPLCHSMES 1185 (1189)
T ss_pred ccccccccccc----cccccCccccChhh
Confidence 48887665443 34678999977653
No 188
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=24.46 E-value=46 Score=28.26 Aligned_cols=13 Identities=31% Similarity=0.838 Sum_probs=10.4
Q ss_pred CCCCccccCcccC
Q 015350 323 QHTCPTCRALVVP 335 (408)
Q Consensus 323 ~~~CP~Cr~~i~~ 335 (408)
.-.||.||+.++.
T Consensus 9 ei~CPhCRQ~ipA 21 (163)
T TIGR02652 9 EIRCPHCRQNIPA 21 (163)
T ss_pred cCcCchhhcccch
Confidence 4579999998864
No 189
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=24.30 E-value=92 Score=26.08 Aligned_cols=26 Identities=23% Similarity=0.448 Sum_probs=18.6
Q ss_pred CCccccccccccCCeEEeecccccHh
Q 015350 289 DSTCIICREEMTTAKKLICGHLFHVH 314 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H~Fh~~ 314 (408)
++.=-||.+.-+...+-.|||.||..
T Consensus 57 g~hlfi~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 57 GDHLFICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred CCcEEEEecccccEEEEeccccccCh
Confidence 44556788776665566899999864
No 190
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=24.17 E-value=56 Score=28.24 Aligned_cols=22 Identities=32% Similarity=0.872 Sum_probs=14.6
Q ss_pred ecccccHhhHHHHHhc-----------CCCCccccCcc
Q 015350 307 CGHLFHVHCLRSWLER-----------QHTCPTCRALV 333 (408)
Q Consensus 307 C~H~Fh~~Cl~~wl~~-----------~~~CP~Cr~~i 333 (408)
|||.| ..|+.. .-+||.|-..-
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~ 42 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTE 42 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCe
Confidence 56877 468754 23699996544
No 191
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=24.06 E-value=60 Score=29.94 Aligned_cols=25 Identities=20% Similarity=0.488 Sum_probs=17.0
Q ss_pred ccHhhHHHHHhcCCCCccccCcccC
Q 015350 311 FHVHCLRSWLERQHTCPTCRALVVP 335 (408)
Q Consensus 311 Fh~~Cl~~wl~~~~~CP~Cr~~i~~ 335 (408)
-|.+|-.+.-...+.||+|+..-.+
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRS 275 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRS 275 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhcccc
Confidence 4566766655566789999875543
No 192
>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=23.89 E-value=88 Score=24.61 Aligned_cols=39 Identities=21% Similarity=0.624 Sum_probs=29.1
Q ss_pred CCccccccccccCCeEEeecccccHhhHHHHHhcCCCCccccCcccCC
Q 015350 289 DSTCIICREEMTTAKKLICGHLFHVHCLRSWLERQHTCPTCRALVVPP 336 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~ 336 (408)
...|-||......+ ||.||..|-. +...|.+|-..+.+.
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAY----kkGiCamCGKki~dt 82 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAY----KKGICAMCGKKILDT 82 (90)
T ss_pred CccccccccccccC-----CCccChhhhc----ccCcccccCCeeccc
Confidence 45799998776553 6779999963 467899998888543
No 193
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=23.38 E-value=51 Score=27.98 Aligned_cols=13 Identities=31% Similarity=0.887 Sum_probs=10.3
Q ss_pred CCCCccccCcccC
Q 015350 323 QHTCPTCRALVVP 335 (408)
Q Consensus 323 ~~~CP~Cr~~i~~ 335 (408)
.-.||.||+.++.
T Consensus 6 ei~CPhCRq~ipA 18 (161)
T PF09654_consen 6 EIQCPHCRQTIPA 18 (161)
T ss_pred cCcCchhhcccch
Confidence 3479999998864
No 194
>PF13261 DUF4052: Protein of unknown function (DUF4052)
Probab=23.32 E-value=2.1e+02 Score=25.49 Aligned_cols=56 Identities=11% Similarity=0.283 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHhcccchhhhhhhccCCchHHHHHHHHHHHHHHHHHHHHHHhc
Q 015350 11 SFMATLAVVYHAFNSRRQFYPSMVYLSTSKISLVLLMNMGLVIMCILWQLIKKVFL 66 (408)
Q Consensus 11 s~~~~~~~v~~a~~~~~~fy~~~v~l~~s~~~~~il~N~~~~~~~~~~~~~~~~~f 66 (408)
|.+.....|.++|.-..+-++.+|.......-..+-.-+.+.+--.+.-.+|-++.
T Consensus 51 SIaI~~FIVvS~F~IQ~D~F~laVSFGvTRlQffIGsvCyI~LQsa~FSflQvl~L 106 (217)
T PF13261_consen 51 SIAIIFFIVVSVFIIQDDLFRLAVSFGVTRLQFFIGSVCYIILQSAFFSFLQVLFL 106 (217)
T ss_pred ceeEeeeehhhhhhhhhhhhhhhhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444556667777777888888888776665555444444443444444554443
No 195
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.09 E-value=31 Score=35.42 Aligned_cols=21 Identities=19% Similarity=0.325 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHhhhhhcccc
Q 015350 109 TLLLIKALHWLAQKRVEYIET 129 (408)
Q Consensus 109 ~l~~lk~fh~l~~dR~e~l~~ 129 (408)
...++.-++|.....++-+..
T Consensus 30 ~~~ll~~~~W~~~kl~~~~~~ 50 (444)
T KOG1815|consen 30 ARILLAHFCWNVEKLLEEWVE 50 (444)
T ss_pred HHHHHHhcCcchHHHHHHHHh
Confidence 344566788887766664443
No 196
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=22.91 E-value=4.8e+02 Score=28.61 Aligned_cols=12 Identities=25% Similarity=0.606 Sum_probs=8.7
Q ss_pred HHHHHhhhhhcc
Q 015350 116 LHWLAQKRVEYI 127 (408)
Q Consensus 116 fh~l~~dR~e~l 127 (408)
.-.+..-|+|||
T Consensus 43 ~d~~~~~r~e~~ 54 (697)
T PF09726_consen 43 ADFMLEFRFEYL 54 (697)
T ss_pred HHHHhhhHHHHH
Confidence 456777788877
No 197
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PRK02935 hypothetical protein; Provisional
Probab=21.67 E-value=46 Score=26.87 Aligned_cols=22 Identities=18% Similarity=0.309 Sum_probs=15.6
Q ss_pred HHHhcCCCCccccCcccCCCCC
Q 015350 318 SWLERQHTCPTCRALVVPPENG 339 (408)
Q Consensus 318 ~wl~~~~~CP~Cr~~i~~~~~~ 339 (408)
+.+.+...|+.|++++.-+++.
T Consensus 81 KmLGrvD~CM~C~~PLTLd~~l 102 (110)
T PRK02935 81 KMLGRVDACMHCNQPLTLDRSL 102 (110)
T ss_pred hhccceeecCcCCCcCCcCccc
Confidence 3456667899999998765443
No 199
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=21.61 E-value=31 Score=33.38 Aligned_cols=46 Identities=20% Similarity=0.251 Sum_probs=33.8
Q ss_pred CCccccccccccCCeEEeecc-cccHhhHHHH-HhcCCCCccccCccc
Q 015350 289 DSTCIICREEMTTAKKLICGH-LFHVHCLRSW-LERQHTCPTCRALVV 334 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lpC~H-~Fh~~Cl~~w-l~~~~~CP~Cr~~i~ 334 (408)
.-.|.+|.+.-......+|+| +||..|..+- .++...||+|..-..
T Consensus 136 ti~~iqq~tnt~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~~ 183 (394)
T KOG2113|consen 136 TIKRIQQFTNTYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAVT 183 (394)
T ss_pred ccchheecccceEeeeccCCCceEEEecCCcchhhhccccchhhhhhh
Confidence 446888887655555668999 5999997664 566777999976543
No 200
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=20.89 E-value=97 Score=36.67 Aligned_cols=45 Identities=36% Similarity=0.788 Sum_probs=35.0
Q ss_pred CCccccccccccCCeEEe---ecccccHhhHHHHHhcC----CCCccccCcc
Q 015350 289 DSTCIICREEMTTAKKLI---CGHLFHVHCLRSWLERQ----HTCPTCRALV 333 (408)
Q Consensus 289 ~~~C~IC~~~~~~~~~lp---C~H~Fh~~Cl~~wl~~~----~~CP~Cr~~i 333 (408)
...|.+|+..-..-..++ |.-.+|..|+++-+... -.||-||..-
T Consensus 1108 ~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1108 NALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 457999999877766665 55679999999987653 3599998766
No 201
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=20.39 E-value=85 Score=31.89 Aligned_cols=49 Identities=16% Similarity=0.207 Sum_probs=41.4
Q ss_pred ccccccccccCCeEEe-ecccccHhhHHHHHhcCCCCccccCcccCCCCC
Q 015350 291 TCIICREEMTTAKKLI-CGHLFHVHCLRSWLERQHTCPTCRALVVPPENG 339 (408)
Q Consensus 291 ~C~IC~~~~~~~~~lp-C~H~Fh~~Cl~~wl~~~~~CP~Cr~~i~~~~~~ 339 (408)
.|+|--|.-++|+.-| -||+|-++-|.+.+..+.+||+=.+++...+-.
T Consensus 2 ~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eelV 51 (506)
T KOG0289|consen 2 VCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEELV 51 (506)
T ss_pred eecccCCCCCCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHee
Confidence 5888888888887765 799999999999999999999999888655433
No 202
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=20.39 E-value=55 Score=22.67 Aligned_cols=30 Identities=27% Similarity=0.706 Sum_probs=21.2
Q ss_pred CccccccccccCCeE----EeecccccHhhHHHH
Q 015350 290 STCIICREEMTTAKK----LICGHLFHVHCLRSW 319 (408)
Q Consensus 290 ~~C~IC~~~~~~~~~----lpC~H~Fh~~Cl~~w 319 (408)
..|.+|...|..-.. -.||++||..|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 468889877754321 269999999997653
Done!