Query 015126
Match_columns 413
No_of_seqs 291 out of 1865
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 03:22:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015126.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015126hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4638 Uncharacterized conser 99.9 1.9E-25 4.2E-30 219.8 15.6 285 27-345 23-345 (371)
2 KOG1734 Predicted RING-contain 99.5 9.9E-14 2.1E-18 132.6 7.5 247 127-396 14-283 (328)
3 COG5243 HRD1 HRD ubiquitin lig 99.3 1.7E-12 3.7E-17 128.9 7.6 80 313-393 252-344 (491)
4 KOG4628 Predicted E3 ubiquitin 99.2 3.3E-11 7.2E-16 120.7 9.4 62 350-411 230-295 (348)
5 PF13639 zf-RING_2: Ring finge 99.1 1.7E-11 3.7E-16 87.6 1.3 41 350-390 1-44 (44)
6 KOG0317 Predicted E3 ubiquitin 99.1 5.9E-11 1.3E-15 115.1 3.0 55 346-400 236-290 (293)
7 KOG0802 E3 ubiquitin ligase [P 98.9 8.5E-10 1.8E-14 118.1 6.5 52 345-396 287-343 (543)
8 PHA02929 N1R/p28-like protein; 98.9 7.2E-10 1.6E-14 106.6 5.0 47 348-394 173-227 (238)
9 PLN03208 E3 ubiquitin-protein 98.9 8.3E-10 1.8E-14 102.5 4.3 54 348-401 17-86 (193)
10 PF13920 zf-C3HC4_3: Zinc fing 98.9 7E-10 1.5E-14 81.4 2.5 46 349-394 2-48 (50)
11 PF12678 zf-rbx1: RING-H2 zinc 98.9 1.2E-09 2.5E-14 86.8 2.6 43 348-390 18-73 (73)
12 PF15227 zf-C3HC4_4: zinc fing 98.8 1.5E-09 3.3E-14 77.1 2.6 38 352-389 1-42 (42)
13 PF13923 zf-C3HC4_2: Zinc fing 98.8 1.3E-09 2.9E-14 75.9 2.0 38 352-389 1-39 (39)
14 smart00504 Ubox Modified RING 98.8 2.9E-09 6.3E-14 81.1 3.8 50 350-399 2-51 (63)
15 KOG0823 Predicted E3 ubiquitin 98.8 2.1E-09 4.6E-14 101.6 3.1 58 348-405 46-107 (230)
16 KOG0320 Predicted E3 ubiquitin 98.7 6.9E-09 1.5E-13 94.5 2.2 50 349-398 131-182 (187)
17 cd00162 RING RING-finger (Real 98.7 1.7E-08 3.6E-13 70.5 3.4 43 351-393 1-45 (45)
18 TIGR00599 rad18 DNA repair pro 98.6 2.4E-08 5.3E-13 102.5 3.9 51 347-397 24-74 (397)
19 PHA02926 zinc finger-like prot 98.6 2.5E-08 5.3E-13 94.0 3.0 47 348-394 169-230 (242)
20 PF00097 zf-C3HC4: Zinc finger 98.6 2.4E-08 5.2E-13 69.9 2.1 38 352-389 1-41 (41)
21 smart00184 RING Ring finger. E 98.5 6.9E-08 1.5E-12 65.0 3.1 38 352-389 1-39 (39)
22 COG5540 RING-finger-containing 98.5 5.6E-08 1.2E-12 95.0 3.0 47 349-395 323-373 (374)
23 COG5574 PEX10 RING-finger-cont 98.5 5.9E-08 1.3E-12 93.4 2.2 52 347-398 213-266 (271)
24 KOG2164 Predicted E3 ubiquitin 98.5 9.8E-08 2.1E-12 99.1 3.4 51 349-399 186-241 (513)
25 PF14634 zf-RING_5: zinc-RING 98.4 1.3E-07 2.8E-12 67.7 2.7 41 351-391 1-44 (44)
26 PF04564 U-box: U-box domain; 98.4 1.8E-07 3.9E-12 74.2 2.3 50 349-398 4-54 (73)
27 PF12861 zf-Apc11: Anaphase-pr 98.4 2.5E-07 5.5E-12 75.2 3.1 47 348-394 20-82 (85)
28 KOG0287 Postreplication repair 98.3 1.6E-07 3.5E-12 92.9 1.3 50 350-399 24-73 (442)
29 PF13445 zf-RING_UBOX: RING-ty 98.3 2.4E-07 5.3E-12 66.2 1.5 31 352-383 1-35 (43)
30 KOG0978 E3 ubiquitin ligase in 98.3 4.8E-07 1E-11 98.0 3.4 51 350-400 644-695 (698)
31 COG5432 RAD18 RING-finger-cont 98.2 4.5E-07 9.8E-12 88.2 1.9 47 350-396 26-72 (391)
32 KOG0828 Predicted E3 ubiquitin 98.1 3.7E-06 7.9E-11 87.0 4.6 49 347-395 569-635 (636)
33 KOG4638 Uncharacterized conser 98.1 8.4E-09 1.8E-13 102.8 -14.1 218 148-369 69-309 (371)
34 KOG4265 Predicted E3 ubiquitin 98.0 2.5E-06 5.4E-11 85.5 2.7 48 347-394 288-336 (349)
35 KOG4172 Predicted E3 ubiquitin 98.0 9.7E-07 2.1E-11 65.6 -0.4 47 348-394 6-54 (62)
36 KOG2177 Predicted E3 ubiquitin 97.9 3.7E-06 8E-11 80.0 2.0 45 347-391 11-55 (386)
37 TIGR00570 cdk7 CDK-activating 97.9 7.6E-06 1.7E-10 81.4 3.9 51 349-399 3-59 (309)
38 KOG0824 Predicted E3 ubiquitin 97.8 7.1E-06 1.5E-10 80.5 2.0 48 349-396 7-55 (324)
39 PF14835 zf-RING_6: zf-RING of 97.8 1.1E-05 2.3E-10 62.2 1.6 49 349-399 7-56 (65)
40 COG5194 APC11 Component of SCF 97.8 1.4E-05 3.1E-10 63.8 2.2 29 366-394 53-81 (88)
41 KOG1493 Anaphase-promoting com 97.4 3.9E-05 8.5E-10 60.9 0.5 46 349-394 20-81 (84)
42 KOG4159 Predicted E3 ubiquitin 97.4 7.4E-05 1.6E-09 77.1 2.3 48 347-394 82-129 (398)
43 smart00744 RINGv The RING-vari 97.4 0.00012 2.5E-09 53.8 2.4 40 351-390 1-49 (49)
44 KOG0804 Cytoplasmic Zn-finger 97.3 7.8E-05 1.7E-09 76.7 1.2 43 350-394 176-222 (493)
45 KOG1039 Predicted E3 ubiquitin 97.3 0.00013 2.7E-09 74.1 2.2 47 348-394 160-221 (344)
46 KOG2879 Predicted E3 ubiquitin 97.3 0.00083 1.8E-08 65.5 7.6 51 344-394 234-287 (298)
47 PF11793 FANCL_C: FANCL C-term 97.2 8.7E-05 1.9E-09 58.5 0.4 45 350-394 3-66 (70)
48 KOG0311 Predicted E3 ubiquitin 97.2 4.6E-05 1E-09 76.3 -1.8 48 349-396 43-92 (381)
49 KOG1785 Tyrosine kinase negati 97.2 0.00014 3E-09 73.9 1.5 47 350-396 370-418 (563)
50 COG5219 Uncharacterized conser 97.2 0.00012 2.6E-09 80.7 0.8 45 350-394 1470-1523(1525)
51 KOG0827 Predicted E3 ubiquitin 97.1 0.00019 4E-09 72.8 1.4 44 350-393 5-55 (465)
52 COG5152 Uncharacterized conser 97.1 0.00019 4E-09 66.9 0.9 44 350-393 197-240 (259)
53 KOG1645 RING-finger-containing 97.0 0.00024 5.2E-09 72.4 1.5 50 348-397 3-59 (463)
54 KOG0297 TNF receptor-associate 96.9 0.00049 1.1E-08 71.2 2.1 52 347-398 19-71 (391)
55 KOG4692 Predicted E3 ubiquitin 96.8 0.0014 3.1E-08 65.8 4.7 48 347-394 420-467 (489)
56 KOG1813 Predicted E3 ubiquitin 96.8 0.00043 9.3E-09 68.1 0.9 47 348-394 240-286 (313)
57 KOG1002 Nucleotide excision re 96.7 0.002 4.3E-08 67.7 5.2 50 346-395 533-587 (791)
58 KOG3039 Uncharacterized conser 96.7 0.0014 3E-08 63.1 3.4 61 348-408 220-284 (303)
59 PF11789 zf-Nse: Zinc-finger o 96.6 0.0011 2.3E-08 50.3 1.5 41 348-388 10-53 (57)
60 KOG0825 PHD Zn-finger protein 96.5 0.0006 1.3E-08 74.2 -0.3 48 351-398 125-175 (1134)
61 KOG1571 Predicted E3 ubiquitin 96.4 0.0027 5.9E-08 64.1 3.9 43 349-394 305-347 (355)
62 KOG2930 SCF ubiquitin ligase, 96.4 0.0014 2.9E-08 55.1 1.3 27 366-392 80-106 (114)
63 KOG4275 Predicted E3 ubiquitin 96.2 0.0013 2.9E-08 64.5 0.5 42 349-394 300-342 (350)
64 KOG1941 Acetylcholine receptor 96.2 0.0046 9.9E-08 63.0 3.8 45 347-391 363-413 (518)
65 KOG2660 Locus-specific chromos 95.9 0.0017 3.8E-08 64.8 -0.6 48 349-396 15-63 (331)
66 COG5222 Uncharacterized conser 95.7 0.0043 9.4E-08 61.2 1.5 42 350-391 275-318 (427)
67 KOG1001 Helicase-like transcri 95.6 0.0052 1.1E-07 67.7 1.6 47 350-397 455-503 (674)
68 KOG1814 Predicted E3 ubiquitin 95.5 0.0058 1.3E-07 62.7 1.3 52 340-391 175-237 (445)
69 COG5236 Uncharacterized conser 95.3 0.01 2.3E-07 59.6 2.4 54 339-392 51-106 (493)
70 PHA02862 5L protein; Provision 95.2 0.015 3.3E-07 51.8 2.9 45 349-394 2-53 (156)
71 KOG1428 Inhibitor of type V ad 95.1 0.011 2.4E-07 68.2 2.1 48 347-394 3484-3544(3738)
72 PF14447 Prok-RING_4: Prokaryo 95.1 0.012 2.5E-07 44.2 1.5 46 350-397 8-53 (55)
73 PHA02825 LAP/PHD finger-like p 95.0 0.018 3.8E-07 52.3 2.8 47 346-393 5-58 (162)
74 KOG4739 Uncharacterized protei 94.9 0.0085 1.8E-07 57.6 0.5 44 351-396 5-50 (233)
75 PF04641 Rtf2: Rtf2 RING-finge 94.7 0.028 6.1E-07 55.1 3.7 57 348-405 112-172 (260)
76 KOG2114 Vacuolar assembly/sort 94.6 0.025 5.4E-07 62.7 3.3 39 350-391 841-880 (933)
77 KOG4445 Uncharacterized conser 94.5 0.016 3.4E-07 57.4 1.3 48 349-396 115-188 (368)
78 KOG0826 Predicted E3 ubiquitin 94.1 0.074 1.6E-06 53.3 5.0 48 347-394 298-346 (357)
79 PF10272 Tmpp129: Putative tra 94.1 0.075 1.6E-06 54.4 5.2 52 347-398 269-355 (358)
80 KOG4185 Predicted E3 ubiquitin 94.0 0.031 6.6E-07 55.4 2.3 44 350-393 4-54 (296)
81 PHA03096 p28-like protein; Pro 93.1 0.041 8.9E-07 54.7 1.4 42 350-391 179-231 (284)
82 KOG3970 Predicted E3 ubiquitin 93.1 0.077 1.7E-06 50.7 3.1 47 349-395 50-106 (299)
83 PF10367 Vps39_2: Vacuolar sor 92.8 0.17 3.7E-06 41.9 4.5 31 347-377 76-108 (109)
84 COG5175 MOT2 Transcriptional r 92.3 0.067 1.5E-06 53.8 1.7 51 348-398 13-68 (480)
85 KOG0298 DEAD box-containing he 92.2 0.055 1.2E-06 62.5 1.0 42 350-391 1154-1196(1394)
86 PF07800 DUF1644: Protein of u 92.1 0.14 3E-06 46.6 3.2 33 349-381 2-47 (162)
87 KOG1100 Predicted E3 ubiquitin 91.3 0.087 1.9E-06 50.1 1.1 40 351-394 160-200 (207)
88 PF05883 Baculo_RING: Baculovi 91.3 0.096 2.1E-06 46.4 1.3 42 349-390 26-76 (134)
89 PF14570 zf-RING_4: RING/Ubox 90.6 0.2 4.4E-06 36.7 2.2 42 352-393 1-47 (48)
90 PF03854 zf-P11: P-11 zinc fin 90.5 0.12 2.7E-06 37.6 1.0 43 351-395 4-47 (50)
91 KOG2817 Predicted E3 ubiquitin 90.4 1.1 2.5E-05 46.2 8.2 43 350-392 335-383 (394)
92 PF12906 RINGv: RING-variant d 90.3 0.18 3.8E-06 36.6 1.7 38 352-389 1-47 (47)
93 KOG2932 E3 ubiquitin ligase in 90.1 0.12 2.6E-06 51.6 0.9 42 351-394 92-134 (389)
94 PF05290 Baculo_IE-1: Baculovi 89.9 0.9 2E-05 40.2 6.0 48 350-397 81-135 (140)
95 KOG3800 Predicted E3 ubiquitin 89.4 0.24 5.1E-06 49.1 2.3 48 351-398 2-55 (300)
96 PF08746 zf-RING-like: RING-li 88.8 0.37 8.1E-06 34.3 2.4 38 352-389 1-43 (43)
97 KOG4367 Predicted Zn-finger pr 86.2 0.38 8.2E-06 50.1 1.7 35 348-382 3-37 (699)
98 KOG3899 Uncharacterized conser 86.1 0.29 6.2E-06 48.5 0.7 33 367-399 325-370 (381)
99 KOG4362 Transcriptional regula 85.9 0.2 4.2E-06 55.1 -0.6 49 349-397 21-72 (684)
100 KOG0802 E3 ubiquitin ligase [P 85.5 0.45 9.7E-06 51.5 1.9 58 336-397 466-523 (543)
101 KOG1952 Transcription factor N 85.3 0.43 9.3E-06 53.3 1.6 46 347-392 189-245 (950)
102 KOG3268 Predicted E3 ubiquitin 84.9 0.56 1.2E-05 43.5 1.9 45 351-395 167-229 (234)
103 KOG0309 Conserved WD40 repeat- 82.1 0.75 1.6E-05 50.9 1.8 29 364-392 1045-1074(1081)
104 KOG3002 Zn finger protein [Gen 81.5 0.94 2E-05 45.5 2.2 42 350-394 49-91 (299)
105 KOG0827 Predicted E3 ubiquitin 81.5 0.13 2.8E-06 52.7 -3.9 48 349-396 196-247 (465)
106 COG5183 SSM4 Protein involved 81.4 0.82 1.8E-05 51.0 1.8 52 347-398 10-70 (1175)
107 KOG1940 Zn-finger protein [Gen 81.3 0.89 1.9E-05 45.1 1.9 41 351-391 160-204 (276)
108 KOG0825 PHD Zn-finger protein 79.7 0.89 1.9E-05 50.5 1.4 46 348-393 95-153 (1134)
109 COG5220 TFB3 Cdk activating ki 79.6 0.49 1.1E-05 45.7 -0.5 46 348-393 9-63 (314)
110 PF02891 zf-MIZ: MIZ/SP-RING z 76.5 0.84 1.8E-05 33.6 0.1 42 350-392 3-50 (50)
111 KOG2034 Vacuolar sorting prote 76.0 2 4.3E-05 48.5 2.8 34 347-380 815-850 (911)
112 KOG3053 Uncharacterized conser 75.5 1 2.2E-05 44.0 0.3 46 348-393 19-81 (293)
113 KOG1609 Protein involved in mR 72.3 1.8 3.9E-05 42.7 1.2 46 349-394 78-134 (323)
114 KOG0801 Predicted E3 ubiquitin 71.2 1.3 2.8E-05 40.5 -0.1 28 346-373 174-204 (205)
115 KOG3161 Predicted E3 ubiquitin 70.9 1.8 3.8E-05 47.3 0.9 35 351-387 13-51 (861)
116 KOG3579 Predicted E3 ubiquitin 69.7 2.6 5.7E-05 41.8 1.7 44 350-393 269-327 (352)
117 KOG3039 Uncharacterized conser 68.0 3.2 6.9E-05 40.5 1.8 34 348-381 42-75 (303)
118 KOG1815 Predicted E3 ubiquitin 66.3 4 8.6E-05 43.1 2.4 54 348-401 69-133 (444)
119 KOG3113 Uncharacterized conser 58.7 8.1 0.00018 37.9 2.7 51 348-400 110-164 (293)
120 KOG1812 Predicted E3 ubiquitin 57.6 7.7 0.00017 40.3 2.6 33 349-381 146-182 (384)
121 PF04216 FdhE: Protein involve 53.7 5.4 0.00012 39.6 0.7 53 348-401 171-228 (290)
122 KOG4718 Non-SMC (structural ma 51.9 7.8 0.00017 37.0 1.4 41 350-390 182-223 (235)
123 PF13901 DUF4206: Domain of un 51.4 10 0.00022 35.8 2.1 43 344-391 147-197 (202)
124 KOG0269 WD40 repeat-containing 50.9 14 0.0003 41.4 3.2 42 351-392 781-826 (839)
125 KOG1829 Uncharacterized conser 49.9 5.1 0.00011 43.7 -0.2 39 348-389 510-556 (580)
126 KOG0824 Predicted E3 ubiquitin 49.6 6.2 0.00013 39.6 0.4 48 347-394 103-151 (324)
127 PF07191 zinc-ribbons_6: zinc- 47.8 1.9 4.1E-05 34.1 -2.8 40 350-394 2-41 (70)
128 KOG3842 Adaptor protein Pellin 47.3 15 0.00033 37.1 2.7 46 349-394 341-414 (429)
129 PF04710 Pellino: Pellino; In 43.3 8 0.00017 40.2 0.1 29 363-394 305-339 (416)
130 PF06844 DUF1244: Protein of u 43.3 12 0.00027 29.2 1.0 13 370-382 11-23 (68)
131 KOG1812 Predicted E3 ubiquitin 42.1 13 0.00029 38.6 1.5 42 348-389 305-351 (384)
132 KOG2068 MOT2 transcription fac 41.8 21 0.00046 36.2 2.8 45 350-394 250-298 (327)
133 COG4393 Predicted membrane pro 39.7 1.7E+02 0.0036 30.2 8.6 17 145-161 5-21 (405)
134 PF07975 C1_4: TFIIH C1-like d 38.7 26 0.00057 26.0 2.1 26 365-390 25-50 (51)
135 PF00412 LIM: LIM domain; Int 36.0 16 0.00035 26.5 0.7 38 352-397 1-40 (58)
136 PF10497 zf-4CXXC_R1: Zinc-fin 35.8 30 0.00066 29.4 2.4 24 368-391 37-69 (105)
137 PLN02638 cellulose synthase A 35.6 32 0.00068 40.3 3.2 47 347-394 15-70 (1079)
138 TIGR00622 ssl1 transcription f 35.5 28 0.00061 30.1 2.2 41 350-390 56-110 (112)
139 KOG2066 Vacuolar assembly/sort 34.7 38 0.00083 38.2 3.5 41 348-389 783-830 (846)
140 KOG3842 Adaptor protein Pellin 34.1 21 0.00045 36.2 1.3 32 363-394 318-352 (429)
141 PF01363 FYVE: FYVE zinc finge 33.7 15 0.00033 28.0 0.2 33 348-380 8-44 (69)
142 PF06906 DUF1272: Protein of u 33.6 44 0.00094 25.4 2.6 44 351-396 7-54 (57)
143 KOG2302 T-type voltage-gated C 33.6 7.6E+02 0.016 29.6 13.2 18 222-239 1192-1213(1956)
144 KOG2807 RNA polymerase II tran 31.6 28 0.00062 35.4 1.8 41 350-390 331-374 (378)
145 PF04710 Pellino: Pellino; In 29.8 18 0.00038 37.8 0.0 46 349-394 328-401 (416)
146 COG1675 TFA1 Transcription ini 28.6 1E+02 0.0022 28.7 4.8 36 347-397 111-146 (176)
147 PLN02189 cellulose synthase 27.5 58 0.0013 38.1 3.6 48 347-394 32-87 (1040)
148 KOG2231 Predicted E3 ubiquitin 27.5 48 0.001 37.0 2.8 44 351-394 2-52 (669)
149 PF02318 FYVE_2: FYVE-type zin 27.5 88 0.0019 26.8 4.0 43 348-391 53-102 (118)
150 PRK03564 formate dehydrogenase 27.4 22 0.00049 35.9 0.3 44 348-391 186-234 (309)
151 PF13240 zinc_ribbon_2: zinc-r 27.1 14 0.00031 22.7 -0.7 10 382-391 12-21 (23)
152 PF14446 Prok-RING_1: Prokaryo 26.8 65 0.0014 24.3 2.6 37 348-388 4-44 (54)
153 COG4647 AcxC Acetone carboxyla 26.6 72 0.0016 28.3 3.2 28 347-374 55-82 (165)
154 COG5109 Uncharacterized conser 26.3 53 0.0011 33.4 2.6 42 350-391 337-384 (396)
155 COG3813 Uncharacterized protei 26.2 49 0.0011 26.5 1.9 27 369-397 29-55 (84)
156 TIGR01562 FdhE formate dehydro 25.8 19 0.00042 36.3 -0.5 44 349-392 184-233 (305)
157 smart00132 LIM Zinc-binding do 25.3 57 0.0012 21.1 1.9 35 351-393 1-37 (39)
158 KOG1356 Putative transcription 25.1 29 0.00062 39.4 0.6 47 347-393 227-281 (889)
159 KOG2113 Predicted RNA binding 24.5 55 0.0012 33.3 2.4 42 350-393 344-386 (394)
160 PRK04023 DNA polymerase II lar 24.3 48 0.001 38.6 2.2 46 349-396 626-676 (1121)
161 PF14353 CpXC: CpXC protein 24.3 81 0.0017 27.1 3.2 55 351-405 3-60 (128)
162 KOG1814 Predicted E3 ubiquitin 24.2 1.4E+02 0.0031 31.4 5.4 34 346-379 365-404 (445)
163 PLN02436 cellulose synthase A 23.8 66 0.0014 37.8 3.1 47 348-394 35-89 (1094)
164 PF10146 zf-C4H2: Zinc finger- 23.5 56 0.0012 31.7 2.2 26 371-396 196-221 (230)
165 KOG4185 Predicted E3 ubiquitin 23.4 22 0.00047 35.1 -0.7 44 349-392 207-265 (296)
166 TIGR00373 conserved hypothetic 23.4 1.1E+02 0.0023 27.8 3.9 35 348-397 108-142 (158)
167 PF11044 TMEMspv1-c74-12: Plec 22.8 3.1E+02 0.0066 20.0 5.8 9 283-291 1-9 (49)
168 KOG4451 Uncharacterized conser 22.7 54 0.0012 31.8 1.9 26 371-396 251-276 (286)
169 PRK11595 DNA utilization prote 22.6 77 0.0017 30.2 3.0 38 351-393 7-44 (227)
170 KOG2113 Predicted RNA binding 22.0 32 0.00069 34.9 0.2 45 350-394 137-183 (394)
171 KOG3005 GIY-YIG type nuclease 21.9 37 0.00081 33.6 0.6 45 349-393 182-242 (276)
172 PF07178 TraL: TraL protein; 21.7 2.6E+02 0.0057 22.9 5.6 35 149-183 20-55 (95)
173 PF06750 DiS_P_DiS: Bacterial 20.6 88 0.0019 25.8 2.5 38 349-395 33-70 (92)
174 COG0068 HypF Hydrogenase matur 20.3 66 0.0014 36.1 2.2 46 348-393 100-183 (750)
175 COG3492 Uncharacterized protei 20.0 45 0.00097 27.8 0.6 13 370-382 42-54 (104)
No 1
>KOG4638 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.93 E-value=1.9e-25 Score=219.78 Aligned_cols=285 Identities=22% Similarity=0.239 Sum_probs=198.4
Q ss_pred CCCccceeeccccccccchhhHHhhhhhcccccCCCcccccccccCCccccccccCCCCCCCCceeeEEEecCCCCccCC
Q 015126 27 DNSRSYEVQLPAALNLFRSPLSLLLEYSRVMSTSQESEQDRLTVNADSEARGQTQLPNSALSTGEVSIQIIRQENGEATG 106 (413)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gev~i~i~~~~~~~~~~ 106 (413)
..+++-+++ + +.|+||.|. .+|+|--+.+|.+++ +.|+..+.+.+|..+|||+|||++++++|+++
T Consensus 23 ~~~~~~s~~-a-~rs~Lqhs~---~~~tgss~~~~~Pqp---------~~ht~l~se~~~~~s~ev~~~i~s~sk~~ae~ 88 (371)
T KOG4638|consen 23 HHPFHHSMQ-A-NRSQLQHSG---PPGTGSSEAAPTPQP---------CVHTLLTSEGSCPSSGEVHIQIISISKECAEN 88 (371)
T ss_pred Cchhhhhhh-h-hhhhhccCC---CCCCCccCCCCCCCC---------CccccccccCCCCcCCceeEEEecccccchhh
Confidence 344556663 3 578887777 678877766665543 56677777888999999999999999999997
Q ss_pred CCCCCCCCc---------------cCCCCCcCccCCCCCCCCCCcccchhHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 015126 107 AGEDNEGNA---------------IGEGETVPLAASEGSTSREGSYQSYDIHQFARWVEQVLPFSLLLLVVFVRQHLQGF 171 (413)
Q Consensus 107 ~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~s~~~~e~~~~~~~l~~~lPf~~ill~k~~~qH~~gi 171 (413)
..+.+.+.+ ..+++++-..+...++.+..+.+++|+|++++|.++++||++|+..||++||++||
T Consensus 89 a~~~~lreg~Hs~a~g~~~~r~q~~~~s~~~~~e~~~~~s~~~dnts~~ev~~~~s~~~~~lp~ifll~~~fv~dHl~gi 168 (371)
T KOG4638|consen 89 AMSRNLREGVHSCAHGCSNSRLQGLLGSERRLTEDLAAESGDLDNTSFSEVQYLFSWQQKILPFIFLLPVKFVMDHLTGI 168 (371)
T ss_pred hhhhhhccCcchhcccccchhhhcccCCcchhhhhhhccccccccchHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence 776644444 23334444455555666666669999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhhhhHHHHHhh----------------eeeeeeeeccCCcceeeeccCCCCCCchHHHHHHHHHHHH
Q 015126 172 FVTVWITAVIFKSNDILRKQTALK----------------VIGIYWWFRSDDILYPLLMIPPSTIPPFWHAVFIILVNDT 235 (413)
Q Consensus 172 ~~~i~l~~~~~~~N~~~~~qv~lk----------------v~~vy~~f~~~~l~~~l~~~~p~~~~~~~~~l~~V~v~d~ 235 (413)
+++||++++|+++|+.+|+||+++ ++.++|+|. +..|++|+.+++.+..--
T Consensus 169 ~~~ivl~~V~~~an~slk~qva~~~~~~~~i~~~~~F~~~vv~~~~~fR-------------~~sp~~~~~~~i~~~~~s 235 (371)
T KOG4638|consen 169 FLGIVLLTVFMYANKSLKNQVALLPKIILAIKSKVKFLLVVVVTVWLFR-------------SLSPPDFHGLYIPGDDSS 235 (371)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhheeEeeeeeeEEEEEeeeehHHH-------------hcCCcchhheecccCCcc
Confidence 999999999999999999999986 233444443 122344444443332100
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCcccccccchhHHHHHHHHHHHHcCCchhhhhhhchhhhhHHHHHHHHHHHHHHHHH-
Q 015126 236 MVRQAAMAMKCLLLIYYKNGRGHNFRRQGQILTLVEYALLLYRALLPTPVWYRFFLNKDYGSLFSSLTTGLYLTFKLTT- 314 (413)
Q Consensus 236 ivr~~~i~lK~li~l~~~~~~~~~~~~kg~~~~~~E~~s~l~r~llp~~~W~~y~l~~~~g~i~~~Ll~~lYl~~k~~~- 314 (413)
. |.....+ .+...+.....-.-++ +.-++....+|+++.+.++|+..++...+|.++..+..++++.+++..
T Consensus 236 ~--F~~~~~v----pi~lsstc~s~~~~~~-~~kv~~~l~ly~sl~v~pv~~t~~~~~~~g~l~~~c~~l~rl~l~llp~ 308 (371)
T KOG4638|consen 236 N--FYFLGGV----PIVLSSTCKSFDICGR-VGKVRKALKLYCSLQVYPVRATGQQCTEAGDLCAICQALFRLPLILLPQ 308 (371)
T ss_pred c--eeeeeee----EEEEeeccCCcccccc-hhHHHHHHHHHhhcccCCceeEEeeHhHHHHHHHHHHHHHHhhHHhhHH
Confidence 0 0000000 0011122222222233 567888999999999999999999999999999999999999988654
Q ss_pred HH------HHHHHHHHHHHHHhhhhhhcCCCCchhhh
Q 015126 315 VV------DKVQSLFAAIRALSRKEVHYGSYATTEQV 345 (413)
Q Consensus 315 i~------~~~~~~~~~lr~l~~~~~~~~~~~~~e~~ 345 (413)
.. -+++.+..++..+.++...++.....++.
T Consensus 309 hll~~~~~~~v~~~fesis~fsrk~~~~~~y~l~~~~ 345 (371)
T KOG4638|consen 309 HLLKGHKKLEVEKIFESISVFSRKVGEVYRYSLSVKK 345 (371)
T ss_pred HHHhhCCCceEeehHHHHHHHHHhhhhheeeeeeehh
Confidence 00 11223456677777787777776665544
No 2
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.46 E-value=9.9e-14 Score=132.58 Aligned_cols=247 Identities=16% Similarity=0.171 Sum_probs=136.2
Q ss_pred CCCCCCCCCcc-cchhHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhhhhhHHHHHhheeeeeeeec
Q 015126 127 SEGSTSREGSY-QSYDIHQFARWVEQVLPFSLLLLVVFVRQHLQGFFV-TVWITAVIFKSNDILRKQTALKVIGIYWWFR 204 (413)
Q Consensus 127 ~~~~~~~~~s~-~~~e~~~~~~~l~~~lPf~~ill~k~~~qH~~gi~~-~i~l~~~~~~~N~~~~~qv~lkv~~vy~~f~ 204 (413)
.++++.++.++ .++.-++..|..+|.+--.----..-..|-+.-+++ .++.++++..+.++.+|..++.+++..|++|
T Consensus 14 l~~~~~e~~~~~~~lt~ee~wr~~hq~m~~khrgh~amh~emm~I~~i~lvIaQi~lv~WKkrh~RSy~~~tll~m~~iP 93 (328)
T KOG1734|consen 14 LFFDVQETTSYTGELTEEEMWRPVHQVMIEKHRGHLAMHLEMMAIFSIYLVIAQIFLVVWKKRHKRSYDVCTLLIMLFIP 93 (328)
T ss_pred ccCChhhCCCCcccCCHHhhhhHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHhh
Confidence 44455555444 777777888877766533211111111222222333 5566888888999999999987766655554
Q ss_pred cCCcceeeeccCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcccccccchhHHHHHHHHHHHHc---
Q 015126 205 SDDILYPLLMIPPSTIPPFWHAVFIILVNDTMVRQAAMAMKCLLLIYYKNGRGHNFRRQGQILTLVEYALLLYRALL--- 281 (413)
Q Consensus 205 ~~~l~~~l~~~~p~~~~~~~~~l~~V~v~d~ivr~~~i~lK~li~l~~~~~~~~~~~~kg~~~~~~E~~s~l~r~ll--- 281 (413)
..-..+ ++-+-.+..|.++.. -.+++.+|.+-..+-+.-. |-.-+++.++.-++.+.-.+-
T Consensus 94 lyf~~~----~~w~rfl~~WlmF~~--------~tafi~~ka~rkp~~g~tp----RlVYkwFl~lyklSy~~g~vGyl~ 157 (328)
T KOG1734|consen 94 LYFFLY----MQWYRFLFCWLMFCG--------FTAFITLKALRKPISGDTP----RLVYKWFLFLYKLSYLLGVVGYLA 157 (328)
T ss_pred hhhhhh----HHHHHHHHHHHHHHH--------HHHHHHHHHHhcccCCCCh----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 321100 000011222322222 2235566655443322222 222244444443333322111
Q ss_pred ------CCchhhhhhhchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCchhhhhhcCCcCccc
Q 015126 282 ------PTPVWYRFFLNKDYGSLFSSLTTGLYLTFKLTTVVDKVQSLFAAIRALSRKEVHYGSYATTEQVNAAGDLCAIC 355 (413)
Q Consensus 282 ------p~~~W~~y~l~~~~g~i~~~Ll~~lYl~~k~~~i~~~~~~~~~~lr~l~~~~~~~~~~~~~e~~~~~~~~C~IC 355 (413)
-...-+.|.-....+..++.++.++|...-.+++.+-..+.+++. ..+.++...+....+++.|+||
T Consensus 158 im~~~~g~n~~F~~~~~~~md~gi~~lfyglYyGvlgRdfa~icsd~mAs~-------iGfYs~~glPtkhl~d~vCaVC 230 (328)
T KOG1734|consen 158 IMFAQFGLNFTFFYLKTTYMDFGISFLFYGLYYGVLGRDFAEICSDYMAST-------IGFYSPSGLPTKHLSDSVCAVC 230 (328)
T ss_pred HHHHHhceeeEEeecchhHhhhhHHHHHHHHHHHhhhhHHHHHHHHHHHHH-------hcccCCCCCCCCCCCcchhHhh
Confidence 111111111112223446667788888888888888888776643 3344444444445677899999
Q ss_pred cccccC----------CEeecCCCCcchhhHHHHh--ccCCCCCCCcccccCC
Q 015126 356 QEKMHA----------PILLQCKHLFCEDCVSEWL--ERERTCPLCRALVKPA 396 (413)
Q Consensus 356 le~~~~----------pv~L~CgHiFC~~CI~~Wl--~~~~tCPlCR~~i~~~ 396 (413)
-..+.. .-+|.|+|+||+.||+.|. .++++||.|+..+..+
T Consensus 231 g~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 231 GQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred cchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 977643 2489999999999999995 6788999999887544
No 3
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=1.7e-12 Score=128.88 Aligned_cols=80 Identities=33% Similarity=0.671 Sum_probs=64.7
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhcCCCCchhhhhhcCCcCccccccc-c------------CCEeecCCCCcchhhHHHH
Q 015126 313 TTVVDKVQSLFAAIRALSRKEVHYGSYATTEQVNAAGDLCAICQEKM-H------------APILLQCKHLFCEDCVSEW 379 (413)
Q Consensus 313 ~~i~~~~~~~~~~lr~l~~~~~~~~~~~~~e~~~~~~~~C~ICle~~-~------------~pv~L~CgHiFC~~CI~~W 379 (413)
..++++++.+.+.+|.-+..+. -.+.++.||+...|..|.||++++ . .|++|||||++|..|++.|
T Consensus 252 ~AL~~~i~~~~~~~r~~kdl~~-~~~t~t~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW 330 (491)
T COG5243 252 YALFRRIREHARFRRATKDLNA-MYPTATEEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNW 330 (491)
T ss_pred HHHHHHHHHHHHHHHHhhHHHh-hcchhhhhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHH
Confidence 3566777777777776554433 335678899988899999999995 2 3478999999999999999
Q ss_pred hccCCCCCCCcccc
Q 015126 380 LERERTCPLCRALV 393 (413)
Q Consensus 380 l~~~~tCPlCR~~i 393 (413)
++|+++||+||.++
T Consensus 331 ~ERqQTCPICr~p~ 344 (491)
T COG5243 331 LERQQTCPICRRPV 344 (491)
T ss_pred HHhccCCCcccCcc
Confidence 99999999999984
No 4
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=3.3e-11 Score=120.74 Aligned_cols=62 Identities=35% Similarity=0.734 Sum_probs=50.2
Q ss_pred CcCccccccccCC---EeecCCCCcchhhHHHHhccCCC-CCCCcccccCCCccccCCCCcccccc
Q 015126 350 DLCAICQEKMHAP---ILLQCKHLFCEDCVSEWLERERT-CPLCRALVKPADLRSFGDGSTSLLFQ 411 (413)
Q Consensus 350 ~~C~ICle~~~~p---v~L~CgHiFC~~CI~~Wl~~~~t-CPlCR~~i~~~~~~~~~Dgsts~~~q 411 (413)
+.|+||+|+|.+. +.|||+|.||..||+.|+.+.++ ||+|++.+.........+..|++..|
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~~~~~~e~tp~~~~ 295 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSGSEPVSEDTPLLSQ 295 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCCCCCccCCCccccC
Confidence 5999999999876 47999999999999999988754 99999988766555556665555444
No 5
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.12 E-value=1.7e-11 Score=87.60 Aligned_cols=41 Identities=44% Similarity=1.169 Sum_probs=35.5
Q ss_pred CcCcccccccc---CCEeecCCCCcchhhHHHHhccCCCCCCCc
Q 015126 350 DLCAICQEKMH---APILLQCKHLFCEDCVSEWLERERTCPLCR 390 (413)
Q Consensus 350 ~~C~ICle~~~---~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR 390 (413)
|.|+||++.+. ..+.++|+|.||.+|+.+|++++.+||+||
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 47999999995 346899999999999999999999999997
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=5.9e-11 Score=115.08 Aligned_cols=55 Identities=33% Similarity=0.848 Sum_probs=49.8
Q ss_pred hhcCCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccCCCccc
Q 015126 346 NAAGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKPADLRS 400 (413)
Q Consensus 346 ~~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~~~ 400 (413)
.+.+..|.+|+|...+|..+||||+||+.||.+|...+..||+||..+.+.++..
T Consensus 236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi~ 290 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVIC 290 (293)
T ss_pred CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcceee
Confidence 3455799999999999999999999999999999999999999999998887654
No 7
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=8.5e-10 Score=118.13 Aligned_cols=52 Identities=38% Similarity=1.021 Sum_probs=46.5
Q ss_pred hhhcCCcCccccccccC-----CEeecCCCCcchhhHHHHhccCCCCCCCcccccCC
Q 015126 345 VNAAGDLCAICQEKMHA-----PILLQCKHLFCEDCVSEWLERERTCPLCRALVKPA 396 (413)
Q Consensus 345 ~~~~~~~C~ICle~~~~-----pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~ 396 (413)
....++.|+||+|.+.. +.+++|+|+||..|++.|++++.+||+||..+...
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYDY 343 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhcc
Confidence 55678899999999998 78999999999999999999999999999955433
No 8
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.94 E-value=7.2e-10 Score=106.56 Aligned_cols=47 Identities=40% Similarity=0.991 Sum_probs=41.0
Q ss_pred cCCcCccccccccCC--------EeecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 348 AGDLCAICQEKMHAP--------ILLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 348 ~~~~C~ICle~~~~p--------v~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
.+..|+||++.+.++ +.++|+|.||.+|+.+|+.++.+||+||..+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 457999999987653 45789999999999999999999999999875
No 9
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.92 E-value=8.3e-10 Score=102.47 Aligned_cols=54 Identities=31% Similarity=0.813 Sum_probs=45.7
Q ss_pred cCCcCccccccccCCEeecCCCCcchhhHHHHhcc----------------CCCCCCCcccccCCCcccc
Q 015126 348 AGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLER----------------ERTCPLCRALVKPADLRSF 401 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~----------------~~tCPlCR~~i~~~~~~~~ 401 (413)
.+..|+||++.+.+|+.++|||.||..||..|+.. ...||.||..+...++.+.
T Consensus 17 ~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPi 86 (193)
T PLN03208 17 GDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPI 86 (193)
T ss_pred CccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEe
Confidence 34689999999999999999999999999999742 3479999999977665443
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=98.90 E-value=7e-10 Score=81.44 Aligned_cols=46 Identities=41% Similarity=1.061 Sum_probs=41.3
Q ss_pred CCcCccccccccCCEeecCCCC-cchhhHHHHhccCCCCCCCccccc
Q 015126 349 GDLCAICQEKMHAPILLQCKHL-FCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgHi-FC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
+..|.||++...+.+.+||||. ||..|+.+|+.+...||+||+++.
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 4589999999999999999999 999999999999999999999875
No 11
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.86 E-value=1.2e-09 Score=86.85 Aligned_cols=43 Identities=49% Similarity=1.163 Sum_probs=35.7
Q ss_pred cCCcCccccccccCC-------------EeecCCCCcchhhHHHHhccCCCCCCCc
Q 015126 348 AGDLCAICQEKMHAP-------------ILLQCKHLFCEDCVSEWLERERTCPLCR 390 (413)
Q Consensus 348 ~~~~C~ICle~~~~p-------------v~L~CgHiFC~~CI~~Wl~~~~tCPlCR 390 (413)
.++.|+||++.+.++ ...+|||.||..||.+|++...+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 456799999999322 3468999999999999999999999997
No 12
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.84 E-value=1.5e-09 Score=77.12 Aligned_cols=38 Identities=34% Similarity=0.999 Sum_probs=30.8
Q ss_pred CccccccccCCEeecCCCCcchhhHHHHhccC----CCCCCC
Q 015126 352 CAICQEKMHAPILLQCKHLFCEDCVSEWLERE----RTCPLC 389 (413)
Q Consensus 352 C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~----~tCPlC 389 (413)
|+||++.+.+|+.++|||.||..||.+|++.. ..||.|
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 89999999999999999999999999999753 369987
No 13
>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=98.84 E-value=1.3e-09 Score=75.90 Aligned_cols=38 Identities=37% Similarity=1.255 Sum_probs=34.0
Q ss_pred CccccccccCC-EeecCCCCcchhhHHHHhccCCCCCCC
Q 015126 352 CAICQEKMHAP-ILLQCKHLFCEDCVSEWLERERTCPLC 389 (413)
Q Consensus 352 C~ICle~~~~p-v~L~CgHiFC~~CI~~Wl~~~~tCPlC 389 (413)
|+||++.+.+| +.++|||.||.+|+.+|++.+..||.|
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 689999999999999999988899988
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=98.83 E-value=2.9e-09 Score=81.09 Aligned_cols=50 Identities=26% Similarity=0.468 Sum_probs=45.3
Q ss_pred CcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccCCCcc
Q 015126 350 DLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKPADLR 399 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~~ 399 (413)
..|+||.+.+.+|+.++|||+||.+|+..|+..+.+||.|+..+...++.
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~ 51 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLI 51 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhce
Confidence 46999999999999999999999999999998888999999988665543
No 15
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.81 E-value=2.1e-09 Score=101.60 Aligned_cols=58 Identities=34% Similarity=0.830 Sum_probs=47.9
Q ss_pred cCCcCccccccccCCEeecCCCCcchhhHHHHhcc---CCCCCCCcccccCCCcc-ccCCCC
Q 015126 348 AGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLER---ERTCPLCRALVKPADLR-SFGDGS 405 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~---~~tCPlCR~~i~~~~~~-~~~Dgs 405 (413)
....|.||++.-++|+.+.|||.||+.||-+|++. .+.||.|+..+..+++. .+.-|+
T Consensus 46 ~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~ 107 (230)
T KOG0823|consen 46 GFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGS 107 (230)
T ss_pred CceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCC
Confidence 34699999999999999999999999999999965 45789999999877553 344443
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.69 E-value=6.9e-09 Score=94.49 Aligned_cols=50 Identities=26% Similarity=0.786 Sum_probs=43.8
Q ss_pred CCcCccccccccCCE--eecCCCCcchhhHHHHhccCCCCCCCcccccCCCc
Q 015126 349 GDLCAICQEKMHAPI--LLQCKHLFCEDCVSEWLERERTCPLCRALVKPADL 398 (413)
Q Consensus 349 ~~~C~ICle~~~~pv--~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~ 398 (413)
-..|+||++.+.+.+ .+.|||+||..||+.-++....||+||+.|..+++
T Consensus 131 ~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF 182 (187)
T ss_pred ccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence 358999999987654 58999999999999999999999999998876654
No 17
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.67 E-value=1.7e-08 Score=70.48 Aligned_cols=43 Identities=44% Similarity=1.259 Sum_probs=36.9
Q ss_pred cCccccccccCCEeec-CCCCcchhhHHHHhcc-CCCCCCCcccc
Q 015126 351 LCAICQEKMHAPILLQ-CKHLFCEDCVSEWLER-ERTCPLCRALV 393 (413)
Q Consensus 351 ~C~ICle~~~~pv~L~-CgHiFC~~CI~~Wl~~-~~tCPlCR~~i 393 (413)
.|+||++.+.++..++ |+|.||..|++.|+.. ...||.||..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999997776555 9999999999999987 67899998753
No 18
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.61 E-value=2.4e-08 Score=102.46 Aligned_cols=51 Identities=33% Similarity=0.824 Sum_probs=45.7
Q ss_pred hcCCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccCCC
Q 015126 347 AAGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKPAD 397 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~ 397 (413)
.....|+||.+.+..|+.++|+|.||..|+..|+.....||.||..+....
T Consensus 24 e~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~ 74 (397)
T TIGR00599 24 DTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESK 74 (397)
T ss_pred ccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccccc
Confidence 355699999999999999999999999999999988889999999876543
No 19
>PHA02926 zinc finger-like protein; Provisional
Probab=98.59 E-value=2.5e-08 Score=94.01 Aligned_cols=47 Identities=32% Similarity=0.909 Sum_probs=38.2
Q ss_pred cCCcCccccccccC---------CEeecCCCCcchhhHHHHhccC------CCCCCCccccc
Q 015126 348 AGDLCAICQEKMHA---------PILLQCKHLFCEDCVSEWLERE------RTCPLCRALVK 394 (413)
Q Consensus 348 ~~~~C~ICle~~~~---------pv~L~CgHiFC~~CI~~Wl~~~------~tCPlCR~~i~ 394 (413)
.+.+|+||+|...+ ++..+|+|.||..|+..|...+ ++||+||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 35789999998633 3567999999999999998742 46999999875
No 20
>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=98.58 E-value=2.4e-08 Score=69.90 Aligned_cols=38 Identities=53% Similarity=1.356 Sum_probs=35.0
Q ss_pred CccccccccCCE-eecCCCCcchhhHHHHhc--cCCCCCCC
Q 015126 352 CAICQEKMHAPI-LLQCKHLFCEDCVSEWLE--RERTCPLC 389 (413)
Q Consensus 352 C~ICle~~~~pv-~L~CgHiFC~~CI~~Wl~--~~~tCPlC 389 (413)
|+||++.+.++. .++|+|.||.+|+.+|++ ....||+|
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 899999999999999998 45689988
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=98.53 E-value=6.9e-08 Score=64.96 Aligned_cols=38 Identities=45% Similarity=1.362 Sum_probs=34.8
Q ss_pred CccccccccCCEeecCCCCcchhhHHHHhc-cCCCCCCC
Q 015126 352 CAICQEKMHAPILLQCKHLFCEDCVSEWLE-RERTCPLC 389 (413)
Q Consensus 352 C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~-~~~tCPlC 389 (413)
|+||++....++.++|+|.||..|++.|+. ....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 889999988899999999999999999998 56679987
No 22
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=5.6e-08 Score=94.96 Aligned_cols=47 Identities=38% Similarity=0.912 Sum_probs=40.7
Q ss_pred CCcCccccccccCC---EeecCCCCcchhhHHHHhc-cCCCCCCCcccccC
Q 015126 349 GDLCAICQEKMHAP---ILLQCKHLFCEDCVSEWLE-RERTCPLCRALVKP 395 (413)
Q Consensus 349 ~~~C~ICle~~~~p---v~L~CgHiFC~~CI~~Wl~-~~~tCPlCR~~i~~ 395 (413)
+-+|+||++.+.+. +.+||.|.||..|+..|+. -+..||.||..+++
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 45899999999654 4689999999999999987 57789999998864
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=5.9e-08 Score=93.40 Aligned_cols=52 Identities=38% Similarity=0.869 Sum_probs=45.5
Q ss_pred hcCCcCccccccccCCEeecCCCCcchhhHHH-HhccCCC-CCCCcccccCCCc
Q 015126 347 AAGDLCAICQEKMHAPILLQCKHLFCEDCVSE-WLERERT-CPLCRALVKPADL 398 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~-Wl~~~~t-CPlCR~~i~~~~~ 398 (413)
..+..|+||++....|..++|||+||..||.. |-.++.. ||+||+.+.++++
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 34668999999999999999999999999999 8766654 9999998877665
No 24
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=9.8e-08 Score=99.11 Aligned_cols=51 Identities=31% Similarity=0.824 Sum_probs=45.1
Q ss_pred CCcCccccccccCCEeecCCCCcchhhHHHHhcc-----CCCCCCCcccccCCCcc
Q 015126 349 GDLCAICQEKMHAPILLQCKHLFCEDCVSEWLER-----ERTCPLCRALVKPADLR 399 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~-----~~tCPlCR~~i~~~~~~ 399 (413)
+..|+||++....|+.+.|||+||..||.+++.. ...||+||..|..+++.
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 6799999999999999999999999999998864 35899999999886654
No 25
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.44 E-value=1.3e-07 Score=67.68 Aligned_cols=41 Identities=41% Similarity=1.043 Sum_probs=35.5
Q ss_pred cCccccccc---cCCEeecCCCCcchhhHHHHhccCCCCCCCcc
Q 015126 351 LCAICQEKM---HAPILLQCKHLFCEDCVSEWLERERTCPLCRA 391 (413)
Q Consensus 351 ~C~ICle~~---~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~ 391 (413)
.|.+|.+.+ ..+..++|||+||..|+..+......||+||+
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 489999999 24568999999999999999866779999985
No 26
>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=98.37 E-value=1.8e-07 Score=74.17 Aligned_cols=50 Identities=32% Similarity=0.604 Sum_probs=40.9
Q ss_pred CCcCccccccccCCEeecCCCCcchhhHHHHhcc-CCCCCCCcccccCCCc
Q 015126 349 GDLCAICQEKMHAPILLQCKHLFCEDCVSEWLER-ERTCPLCRALVKPADL 398 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~-~~tCPlCR~~i~~~~~ 398 (413)
...|+||.+.|.+|+.++|||.|+..||..|+.+ ..+||+|+..+...++
T Consensus 4 ~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l 54 (73)
T PF04564_consen 4 EFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDL 54 (73)
T ss_dssp GGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGS
T ss_pred ccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccc
Confidence 4589999999999999999999999999999998 7899999998876554
No 27
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.36 E-value=2.5e-07 Score=75.19 Aligned_cols=47 Identities=34% Similarity=0.916 Sum_probs=38.0
Q ss_pred cCCcCccccccccC------------C-EeecCCCCcchhhHHHHhcc---CCCCCCCccccc
Q 015126 348 AGDLCAICQEKMHA------------P-ILLQCKHLFCEDCVSEWLER---ERTCPLCRALVK 394 (413)
Q Consensus 348 ~~~~C~ICle~~~~------------p-v~L~CgHiFC~~CI~~Wl~~---~~tCPlCR~~i~ 394 (413)
.++.|.||+..|.. | +.-.|+|.||..||..|+.. +.+||+||+...
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 37789999988862 1 23479999999999999975 468999999764
No 28
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.32 E-value=1.6e-07 Score=92.91 Aligned_cols=50 Identities=36% Similarity=0.866 Sum_probs=46.6
Q ss_pred CcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccCCCcc
Q 015126 350 DLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKPADLR 399 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~~ 399 (413)
..|-||.|.|..|+++||+|.||.-||+..+..+..||.|+.++.+.+++
T Consensus 24 LRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 24 LRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLR 73 (442)
T ss_pred HHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhh
Confidence 47999999999999999999999999999999999999999999877654
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.30 E-value=2.4e-07 Score=66.19 Aligned_cols=31 Identities=39% Similarity=1.167 Sum_probs=21.3
Q ss_pred CccccccccC----CEeecCCCCcchhhHHHHhccC
Q 015126 352 CAICQEKMHA----PILLQCKHLFCEDCVSEWLERE 383 (413)
Q Consensus 352 C~ICle~~~~----pv~L~CgHiFC~~CI~~Wl~~~ 383 (413)
|+||.| +.+ |+.|+|||+||++|+..+....
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 877 8999999999999999998753
No 30
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=4.8e-07 Score=97.96 Aligned_cols=51 Identities=33% Similarity=0.896 Sum_probs=46.6
Q ss_pred CcCccccccccCCEeecCCCCcchhhHHHHhc-cCCCCCCCcccccCCCccc
Q 015126 350 DLCAICQEKMHAPILLQCKHLFCEDCVSEWLE-RERTCPLCRALVKPADLRS 400 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~-~~~tCPlCR~~i~~~~~~~ 400 (413)
-.|++|...+++.+.+.|+|+||..|+.+.+. +.+.||.|.+.|...|+++
T Consensus 644 LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 644 LKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR 695 (698)
T ss_pred eeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence 48999999999999999999999999999985 5789999999999888764
No 31
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.22 E-value=4.5e-07 Score=88.21 Aligned_cols=47 Identities=30% Similarity=0.704 Sum_probs=43.6
Q ss_pred CcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccCC
Q 015126 350 DLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKPA 396 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~ 396 (413)
..|-||.+.+..|+.++|||.||.-||++.+..+..||.||......
T Consensus 26 lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 26 LRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred HHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 48999999999999999999999999999999999999999976543
No 32
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.06 E-value=3.7e-06 Score=86.95 Aligned_cols=49 Identities=29% Similarity=0.857 Sum_probs=39.3
Q ss_pred hcCCcCccccccccC-----------------CEeecCCCCcchhhHHHHhc-cCCCCCCCcccccC
Q 015126 347 AAGDLCAICQEKMHA-----------------PILLQCKHLFCEDCVSEWLE-RERTCPLCRALVKP 395 (413)
Q Consensus 347 ~~~~~C~ICle~~~~-----------------pv~L~CgHiFC~~CI~~Wl~-~~~tCPlCR~~i~~ 395 (413)
.....|+||+....- =..+||.|+||..|+.+|++ .+-.||.||+++++
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 345689999987631 13569999999999999999 55599999998864
No 33
>KOG4638 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.06 E-value=8.4e-09 Score=102.76 Aligned_cols=218 Identities=18% Similarity=0.215 Sum_probs=155.1
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHhh------------------e--eeeeeeeccCC
Q 015126 148 WVEQVLPFSLLLLVVFVRQHLQGFFVTVWITAVIFKSNDILRKQTALK------------------V--IGIYWWFRSDD 207 (413)
Q Consensus 148 ~l~~~lPf~~ill~k~~~qH~~gi~~~i~l~~~~~~~N~~~~~qv~lk------------------v--~~vy~~f~~~~ 207 (413)
|...-+|+-++...|-+.+|..+..+-.+ .-.+.++|...|.|..++ . --+.+.|+-.+
T Consensus 69 ~~s~ev~~~i~s~sk~~ae~a~~~~lreg-~Hs~a~g~~~~r~q~~~~s~~~~~e~~~~~s~~~dnts~~ev~~~~s~~~ 147 (371)
T KOG4638|consen 69 PSSGEVHIQIISISKECAENAMSRNLREG-VHSCAHGCSNSRLQGLLGSERRLTEDLAAESGDLDNTSFSEVQYLFSWQQ 147 (371)
T ss_pred CcCCceeEEEecccccchhhhhhhhhccC-cchhcccccchhhhcccCCcchhhhhhhccccccccchHHHHHHHHHHHH
Confidence 55566788999999999999999977777 566778888888887654 1 12455677777
Q ss_pred cceeeeccCCC-CCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcccccccchhHHHHHHHHHHHHcCCchh
Q 015126 208 ILYPLLMIPPS-TIPPFWHAVFIILVNDTMVRQAAMAMKCLLLIYYKNGRGHNFRRQGQILTLVEYALLLYRALLPTPVW 286 (413)
Q Consensus 208 l~~~l~~~~p~-~~~~~~~~l~~V~v~d~ivr~~~i~lK~li~l~~~~~~~~~~~~kg~~~~~~E~~s~l~r~llp~~~W 286 (413)
.+.|++|+-+. +..++...+|.+++.++++..+..++|+.+.+.+++.- .-..++..+..++.+..++|...|+..|
T Consensus 148 ~~lp~ifll~~~fv~dHl~gi~~~ivl~~V~~~an~slk~qva~~~~~~~--~i~~~~~F~~~vv~~~~~fR~~sp~~~~ 225 (371)
T KOG4638|consen 148 KILPFIFLLPVKFVMDHLTGIFLGIVLLTVFMYANKSLKNQVALLPKIIL--AIKSKVKFLLVVVVTVWLFRSLSPPDFH 225 (371)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhee--EeeeeeeEEEEEeeeehHHHhcCCcchh
Confidence 78898887664 56789999999999999999999999999999876421 2245677788899999999999999999
Q ss_pred hhhhhchhhhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCchhhhhhcCCcCccccccccCCEe
Q 015126 287 YRFFLNKDYGSL--FSSLTTGLYLTFKLTTVVDKVQSLFAAIRALSRKEVHYGSYATTEQVNAAGDLCAICQEKMHAPIL 364 (413)
Q Consensus 287 ~~y~l~~~~g~i--~~~Ll~~lYl~~k~~~i~~~~~~~~~~lr~l~~~~~~~~~~~~~e~~~~~~~~C~ICle~~~~pv~ 364 (413)
+.|......+.+ ...+.+.++-.++....-.+.-...+.++..+ .-..++..++-....+.++.|.+|+..+..+..
T Consensus 226 ~~~i~~~~~s~F~~~~~vpi~lsstc~s~~~~~~~~kv~~~l~ly~-sl~v~pv~~t~~~~~~~g~l~~~c~~l~rl~l~ 304 (371)
T KOG4638|consen 226 GLYIPGDDSSNFYFLGGVPIVLSSTCKSFDICGRVGKVRKALKLYC-SLQVYPVRATGQQCTEAGDLCAICQALFRLPLI 304 (371)
T ss_pred heecccCCccceeeeeeeEEEEeeccCCcccccchhHHHHHHHHHh-hcccCCceeEEeeHhHHHHHHHHHHHHHHhhHH
Confidence 988875332211 11111223333343333333333333333322 223566667777888889999999999999888
Q ss_pred ecCCC
Q 015126 365 LQCKH 369 (413)
Q Consensus 365 L~CgH 369 (413)
+-|.|
T Consensus 305 llp~h 309 (371)
T KOG4638|consen 305 LLPQH 309 (371)
T ss_pred hhHHH
Confidence 77755
No 34
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=2.5e-06 Score=85.49 Aligned_cols=48 Identities=29% Similarity=0.877 Sum_probs=43.8
Q ss_pred hcCCcCccccccccCCEeecCCCC-cchhhHHHHhccCCCCCCCccccc
Q 015126 347 AAGDLCAICQEKMHAPILLQCKHL-FCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L~CgHi-FC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
+.+.+|.||+.+.++.+.|||.|. .|..|.+...-+...||+||+.+.
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 456799999999999999999997 799999998878889999999985
No 35
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=9.7e-07 Score=65.56 Aligned_cols=47 Identities=34% Similarity=0.759 Sum_probs=40.8
Q ss_pred cCCcCccccccccCCEeecCCCC-cchhhHHHHhc-cCCCCCCCccccc
Q 015126 348 AGDLCAICQEKMHAPILLQCKHL-FCEDCVSEWLE-RERTCPLCRALVK 394 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~L~CgHi-FC~~CI~~Wl~-~~~tCPlCR~~i~ 394 (413)
.+++|.||.|...+.+...|||+ .|.+|-.+.++ .+..||+||++++
T Consensus 6 ~~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 45899999999999999999998 79999777665 5779999999985
No 36
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=3.7e-06 Score=79.95 Aligned_cols=45 Identities=38% Similarity=0.915 Sum_probs=40.0
Q ss_pred hcCCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcc
Q 015126 347 AAGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRA 391 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~ 391 (413)
.....|+||++.+..|+.++|+|.||..|+..++.....||.||.
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 345689999999999999999999999999999885568999993
No 37
>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=97.92 E-value=7.6e-06 Score=81.35 Aligned_cols=51 Identities=27% Similarity=0.723 Sum_probs=38.5
Q ss_pred CCcCcccccc-ccCCE----eecCCCCcchhhHHHHhcc-CCCCCCCcccccCCCcc
Q 015126 349 GDLCAICQEK-MHAPI----LLQCKHLFCEDCVSEWLER-ERTCPLCRALVKPADLR 399 (413)
Q Consensus 349 ~~~C~ICle~-~~~pv----~L~CgHiFC~~CI~~Wl~~-~~tCPlCR~~i~~~~~~ 399 (413)
+..||+|... +.+|. ..+|||.||..|+...+.. ...||.|+..+...+++
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 4689999985 33332 1279999999999997644 55899999998876543
No 38
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=7.1e-06 Score=80.50 Aligned_cols=48 Identities=29% Similarity=0.710 Sum_probs=42.3
Q ss_pred CCcCccccccccCCEeecCCCCcchhhHHHHhcc-CCCCCCCcccccCC
Q 015126 349 GDLCAICQEKMHAPILLQCKHLFCEDCVSEWLER-ERTCPLCRALVKPA 396 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~-~~tCPlCR~~i~~~ 396 (413)
..+|+||+.....|+.++|+|.||..||+.-... +.+|++||.+|...
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 4589999999999999999999999999988765 45799999998654
No 39
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.77 E-value=1.1e-05 Score=62.21 Aligned_cols=49 Identities=29% Similarity=0.821 Sum_probs=26.4
Q ss_pred CCcCccccccccCCE-eecCCCCcchhhHHHHhccCCCCCCCcccccCCCcc
Q 015126 349 GDLCAICQEKMHAPI-LLQCKHLFCEDCVSEWLERERTCPLCRALVKPADLR 399 (413)
Q Consensus 349 ~~~C~ICle~~~~pv-~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~~ 399 (413)
--.|++|.+.+++|+ ...|.|+||..|+..-+.. .||.|+.+...+|++
T Consensus 7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS--ECPVCHTPAWIQDIQ 56 (65)
T ss_dssp TTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT--B-SSS--B-S-SS--
T ss_pred hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC--CCCCcCChHHHHHHH
Confidence 347999999999998 4689999999999886553 599999988766654
No 40
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.76 E-value=1.4e-05 Score=63.83 Aligned_cols=29 Identities=34% Similarity=0.887 Sum_probs=26.9
Q ss_pred cCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 366 QCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 366 ~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
.|.|.||..||.+|+..+..||++|++..
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 59999999999999999999999998764
No 41
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=3.9e-05 Score=60.88 Aligned_cols=46 Identities=28% Similarity=0.814 Sum_probs=35.1
Q ss_pred CCcCccccccccCC------------E-eecCCCCcchhhHHHHhcc---CCCCCCCccccc
Q 015126 349 GDLCAICQEKMHAP------------I-LLQCKHLFCEDCVSEWLER---ERTCPLCRALVK 394 (413)
Q Consensus 349 ~~~C~ICle~~~~p------------v-~L~CgHiFC~~CI~~Wl~~---~~tCPlCR~~i~ 394 (413)
++.|-||+-.|... . .--|.|.||..||.+|+.. +..||+||+...
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 45888888777532 1 1259999999999999965 458999998764
No 42
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=7.4e-05 Score=77.11 Aligned_cols=48 Identities=31% Similarity=0.850 Sum_probs=44.6
Q ss_pred hcCCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 347 AAGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
..+..|.||...+..|+.+||||.||..|+.+-+.++..||.||..+.
T Consensus 82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred cchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCcccccccc
Confidence 566799999999999999999999999999999998999999999875
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=97.37 E-value=0.00012 Score=53.84 Aligned_cols=40 Identities=25% Similarity=1.033 Sum_probs=31.7
Q ss_pred cCccccc--cccCCEeecCC-----CCcchhhHHHHhcc--CCCCCCCc
Q 015126 351 LCAICQE--KMHAPILLQCK-----HLFCEDCVSEWLER--ERTCPLCR 390 (413)
Q Consensus 351 ~C~ICle--~~~~pv~L~Cg-----HiFC~~CI~~Wl~~--~~tCPlCR 390 (413)
.|.||++ +-.++...||. |.+|..|+.+|+.. +.+||+|+
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 4899997 34455678986 78999999999955 44899995
No 44
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.31 E-value=7.8e-05 Score=76.69 Aligned_cols=43 Identities=30% Similarity=0.903 Sum_probs=36.9
Q ss_pred CcCccccccccCCE----eecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 350 DLCAICQEKMHAPI----LLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 350 ~~C~ICle~~~~pv----~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
.+|+||+|.+...+ ...|.|.||..|+..|.. .+||+||-...
T Consensus 176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred CCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence 48999999998764 568999999999999976 58999998655
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.27 E-value=0.00013 Score=74.05 Aligned_cols=47 Identities=32% Similarity=0.954 Sum_probs=38.7
Q ss_pred cCCcCccccccccCCE--------eecCCCCcchhhHHHHh--cc-----CCCCCCCccccc
Q 015126 348 AGDLCAICQEKMHAPI--------LLQCKHLFCEDCVSEWL--ER-----ERTCPLCRALVK 394 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv--------~L~CgHiFC~~CI~~Wl--~~-----~~tCPlCR~~i~ 394 (413)
.+.+|.||++...+.. ..+|.|.||..|+..|- .+ .+.||.||....
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 4678999999886654 36799999999999997 44 478999998764
No 46
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.26 E-value=0.00083 Score=65.46 Aligned_cols=51 Identities=27% Similarity=0.651 Sum_probs=41.7
Q ss_pred hhhhcCCcCccccccccCCEe-ecCCCCcchhhHHHHhcc--CCCCCCCccccc
Q 015126 344 QVNAAGDLCAICQEKMHAPIL-LQCKHLFCEDCVSEWLER--ERTCPLCRALVK 394 (413)
Q Consensus 344 ~~~~~~~~C~ICle~~~~pv~-L~CgHiFC~~CI~~Wl~~--~~tCPlCR~~i~ 394 (413)
.....+.+|++|.+....|.. .+|+|+||.-|+..-..- ..+||.|..++.
T Consensus 234 s~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 344567799999999999965 569999999999987653 469999988775
No 47
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.22 E-value=8.7e-05 Score=58.51 Aligned_cols=45 Identities=29% Similarity=0.619 Sum_probs=23.1
Q ss_pred CcCcccccccc-C---CE----eecCCCCcchhhHHHHhcc---C--------CCCCCCccccc
Q 015126 350 DLCAICQEKMH-A---PI----LLQCKHLFCEDCVSEWLER---E--------RTCPLCRALVK 394 (413)
Q Consensus 350 ~~C~ICle~~~-~---pv----~L~CgHiFC~~CI~~Wl~~---~--------~tCPlCR~~i~ 394 (413)
..|.||.+... . |. ...|++.||..|+.+|+.. . .+||.|++++.
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 47999998765 2 21 1379999999999999853 1 25999998874
No 48
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.20 E-value=4.6e-05 Score=76.31 Aligned_cols=48 Identities=29% Similarity=0.734 Sum_probs=40.0
Q ss_pred CCcCccccccccCCEee-cCCCCcchhhHHHHhcc-CCCCCCCcccccCC
Q 015126 349 GDLCAICQEKMHAPILL-QCKHLFCEDCVSEWLER-ERTCPLCRALVKPA 396 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L-~CgHiFC~~CI~~Wl~~-~~tCPlCR~~i~~~ 396 (413)
...|+||++.++..... .|.|.||.+||..-+.. ...||.||+.+...
T Consensus 43 ~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 43 QVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 45899999999987654 69999999999877755 66899999987544
No 49
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.19 E-value=0.00014 Score=73.87 Aligned_cols=47 Identities=36% Similarity=0.978 Sum_probs=41.0
Q ss_pred CcCccccccccCCEeecCCCCcchhhHHHHhcc--CCCCCCCcccccCC
Q 015126 350 DLCAICQEKMHAPILLQCKHLFCEDCVSEWLER--ERTCPLCRALVKPA 396 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~--~~tCPlCR~~i~~~ 396 (413)
..|.||-|.-++-..=||||..|..|+..|... ..+||.||..|+-.
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 479999999888888899999999999999854 56999999988643
No 50
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.16 E-value=0.00012 Score=80.75 Aligned_cols=45 Identities=31% Similarity=0.843 Sum_probs=36.8
Q ss_pred CcCcccccccc-------CCEeecCCCCcchhhHHHHhcc--CCCCCCCccccc
Q 015126 350 DLCAICQEKMH-------APILLQCKHLFCEDCVSEWLER--ERTCPLCRALVK 394 (413)
Q Consensus 350 ~~C~ICle~~~-------~pv~L~CgHiFC~~CI~~Wl~~--~~tCPlCR~~i~ 394 (413)
++|+||...+. ..+...|+|-||..|+-.|+.. ..+||+||..++
T Consensus 1470 eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1470 EECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred chhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 58999997664 2345579999999999999975 568999998775
No 51
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.11 E-value=0.00019 Score=72.76 Aligned_cols=44 Identities=30% Similarity=0.860 Sum_probs=32.4
Q ss_pred CcCccccccccCCE----eecCCCCcchhhHHHHhcc---CCCCCCCcccc
Q 015126 350 DLCAICQEKMHAPI----LLQCKHLFCEDCVSEWLER---ERTCPLCRALV 393 (413)
Q Consensus 350 ~~C~ICle~~~~pv----~L~CgHiFC~~CI~~Wl~~---~~tCPlCR~~i 393 (413)
-.|.||-+-..... .-.|||+||..|+..|+.. .++||+||-.+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 37999954443332 2359999999999999975 36899998433
No 52
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.07 E-value=0.00019 Score=66.88 Aligned_cols=44 Identities=27% Similarity=0.787 Sum_probs=40.6
Q ss_pred CcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccc
Q 015126 350 DLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALV 393 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i 393 (413)
..|.||-+++..|+.+.|||.||..|..+-++....|-.|.+..
T Consensus 197 F~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 58999999999999999999999999999998889999997643
No 53
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.00024 Score=72.42 Aligned_cols=50 Identities=34% Similarity=0.914 Sum_probs=40.2
Q ss_pred cCCcCccccccccCC-----EeecCCCCcchhhHHHHhcc--CCCCCCCcccccCCC
Q 015126 348 AGDLCAICQEKMHAP-----ILLQCKHLFCEDCVSEWLER--ERTCPLCRALVKPAD 397 (413)
Q Consensus 348 ~~~~C~ICle~~~~p-----v~L~CgHiFC~~CI~~Wl~~--~~tCPlCR~~i~~~~ 397 (413)
.+..|+||++.+..+ +.+.|||.|-.+|++.|+.+ ...||.|...-...+
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~ 59 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ 59 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence 467999999998766 46899999999999999964 458999976544333
No 54
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.87 E-value=0.00049 Score=71.23 Aligned_cols=52 Identities=33% Similarity=0.799 Sum_probs=46.0
Q ss_pred hcCCcCccccccccCCEe-ecCCCCcchhhHHHHhccCCCCCCCcccccCCCc
Q 015126 347 AAGDLCAICQEKMHAPIL-LQCKHLFCEDCVSEWLERERTCPLCRALVKPADL 398 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~-L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~ 398 (413)
..+..|++|...+.+|+. +.|||.||..|+..|+..+..||.|+..+.....
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 5999999999999999999999999888765543
No 55
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.80 E-value=0.0014 Score=65.77 Aligned_cols=48 Identities=25% Similarity=0.665 Sum_probs=44.3
Q ss_pred hcCCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 347 AAGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
.+++.|+||.....+.+..||+|.-|..||.+.+-..+.|-.|+.++.
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 457899999999999999999999999999999999999999998875
No 56
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.78 E-value=0.00043 Score=68.05 Aligned_cols=47 Identities=26% Similarity=0.660 Sum_probs=42.4
Q ss_pred cCCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 348 AGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
-.+.|-||...+..|+.+.|+|.||..|-..-+++...|++|.+...
T Consensus 240 ~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred CCccccccccccccchhhcCCceeehhhhccccccCCcceecccccc
Confidence 34679999999999999999999999999998998899999977653
No 57
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.72 E-value=0.002 Score=67.70 Aligned_cols=50 Identities=30% Similarity=0.731 Sum_probs=42.0
Q ss_pred hhcCCcCccccccccCCEeecCCCCcchhhHHHHhcc-----CCCCCCCcccccC
Q 015126 346 NAAGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLER-----ERTCPLCRALVKP 395 (413)
Q Consensus 346 ~~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~-----~~tCPlCR~~i~~ 395 (413)
+..+-.|.+|.+.-++++...|.|.||.-|++++... .-+||.|...+..
T Consensus 533 nk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred ccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 3445689999999999999999999999999998753 4589999877653
No 58
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.68 E-value=0.0014 Score=63.09 Aligned_cols=61 Identities=16% Similarity=0.427 Sum_probs=54.1
Q ss_pred cCCcCccccccccCCE----eecCCCCcchhhHHHHhccCCCCCCCcccccCCCccccCCCCccc
Q 015126 348 AGDLCAICQEKMHAPI----LLQCKHLFCEDCVSEWLERERTCPLCRALVKPADLRSFGDGSTSL 408 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv----~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~~~~~Dgsts~ 408 (413)
....|++|.+.+.+.. +-+|||++|.+|+...+.....||+|-.++++.++....-|+|-+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrGGTGf 284 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRGGTGF 284 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeecccccc
Confidence 3468999999998763 569999999999999988889999999999999999999998853
No 59
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.57 E-value=0.0011 Score=50.29 Aligned_cols=41 Identities=22% Similarity=0.660 Sum_probs=29.2
Q ss_pred cCCcCccccccccCCEe-ecCCCCcchhhHHHHhcc--CCCCCC
Q 015126 348 AGDLCAICQEKMHAPIL-LQCKHLFCEDCVSEWLER--ERTCPL 388 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~-L~CgHiFC~~CI~~Wl~~--~~tCPl 388 (413)
.+..|+|.+..+.+|++ ..|+|+|..+.|.+|+.+ ...||.
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 35689999999999987 599999999999999944 447998
No 60
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.50 E-value=0.0006 Score=74.20 Aligned_cols=48 Identities=27% Similarity=0.650 Sum_probs=35.3
Q ss_pred cCccccccccCC---EeecCCCCcchhhHHHHhccCCCCCCCcccccCCCc
Q 015126 351 LCAICQEKMHAP---ILLQCKHLFCEDCVSEWLERERTCPLCRALVKPADL 398 (413)
Q Consensus 351 ~C~ICle~~~~p---v~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~ 398 (413)
.|++|+..+.+. ...+|+|.||..|+..|-....+||+||..+....+
T Consensus 125 ~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeee
Confidence 444554443322 245799999999999999999999999998865443
No 61
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.44 E-value=0.0027 Score=64.11 Aligned_cols=43 Identities=28% Similarity=0.872 Sum_probs=34.3
Q ss_pred CCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 349 GDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
.+.|.||.++.++.+.+||||+.| |..-- +...+||+||+.+.
T Consensus 305 p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 305 PDLCVVCLDEPKSAVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCceEEecCCccceeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 468999999999999999999966 55432 33456999999875
No 62
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=96.41 E-value=0.0014 Score=55.14 Aligned_cols=27 Identities=37% Similarity=0.887 Sum_probs=24.9
Q ss_pred cCCCCcchhhHHHHhccCCCCCCCccc
Q 015126 366 QCKHLFCEDCVSEWLERERTCPLCRAL 392 (413)
Q Consensus 366 ~CgHiFC~~CI~~Wl~~~~tCPlCR~~ 392 (413)
.|.|.||.-||.+|++....||+|.+.
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 599999999999999999999999653
No 63
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.0013 Score=64.53 Aligned_cols=42 Identities=33% Similarity=0.913 Sum_probs=36.5
Q ss_pred CCcCccccccccCCEeecCCCC-cchhhHHHHhccCCCCCCCccccc
Q 015126 349 GDLCAICQEKMHAPILLQCKHL-FCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgHi-FC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
+..|+||++...+.+.|+|||. -|.+|-++. ..||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 5689999999999999999996 699997653 48999999775
No 64
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.17 E-value=0.0046 Score=62.99 Aligned_cols=45 Identities=36% Similarity=0.807 Sum_probs=35.9
Q ss_pred hcCCcCccccccccCC----EeecCCCCcchhhHHHHhcc--CCCCCCCcc
Q 015126 347 AAGDLCAICQEKMHAP----ILLQCKHLFCEDCVSEWLER--ERTCPLCRA 391 (413)
Q Consensus 347 ~~~~~C~ICle~~~~p----v~L~CgHiFC~~CI~~Wl~~--~~tCPlCR~ 391 (413)
+.+..|..|-+.+-.. .-|||.|+||..|+.+.+.+ .++||.||+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3456899999876432 25899999999999999865 458999994
No 65
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.89 E-value=0.0017 Score=64.78 Aligned_cols=48 Identities=25% Similarity=0.791 Sum_probs=42.1
Q ss_pred CCcCccccccccCCE-eecCCCCcchhhHHHHhccCCCCCCCcccccCC
Q 015126 349 GDLCAICQEKMHAPI-LLQCKHLFCEDCVSEWLERERTCPLCRALVKPA 396 (413)
Q Consensus 349 ~~~C~ICle~~~~pv-~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~ 396 (413)
-..|.+|...+.++. ..-|-|.||..||-..+.....||.|...+...
T Consensus 15 ~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 15 HITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 358999999999886 467999999999999999999999998877543
No 66
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.75 E-value=0.0043 Score=61.16 Aligned_cols=42 Identities=29% Similarity=0.846 Sum_probs=36.2
Q ss_pred CcCccccccccCCEee-cCCCCcchhhHHHHh-ccCCCCCCCcc
Q 015126 350 DLCAICQEKMHAPILL-QCKHLFCEDCVSEWL-ERERTCPLCRA 391 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L-~CgHiFC~~CI~~Wl-~~~~tCPlCR~ 391 (413)
..|+.|...+.+|+++ -|+|.||++||..-| +....||.|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 5899999999999988 578999999999876 45678999944
No 67
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.59 E-value=0.0052 Score=67.72 Aligned_cols=47 Identities=30% Similarity=0.890 Sum_probs=39.5
Q ss_pred CcCccccccccCCEeecCCCCcchhhHHHHhcc--CCCCCCCcccccCCC
Q 015126 350 DLCAICQEKMHAPILLQCKHLFCEDCVSEWLER--ERTCPLCRALVKPAD 397 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~--~~tCPlCR~~i~~~~ 397 (413)
..|.+|.+ ...++..+|+|.||.+|+..-++. ...||.||..+....
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 79999999 777889999999999999988765 336999998775443
No 68
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.48 E-value=0.0058 Score=62.70 Aligned_cols=52 Identities=29% Similarity=0.611 Sum_probs=38.7
Q ss_pred CchhhhhhcCCcCccccccccCC---EeecCCCCcchhhHHHHhcc--------CCCCCCCcc
Q 015126 340 ATTEQVNAAGDLCAICQEKMHAP---ILLQCKHLFCEDCVSEWLER--------ERTCPLCRA 391 (413)
Q Consensus 340 ~~~e~~~~~~~~C~ICle~~~~p---v~L~CgHiFC~~CI~~Wl~~--------~~tCPlCR~ 391 (413)
++.++.......|.||.+..... +.+||+|+||..|++.++.. .-.||-|..
T Consensus 175 a~~~~F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 175 ATLEKFVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred HHHHHHHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 34445556677999999987653 47999999999999999853 236876543
No 69
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.30 E-value=0.01 Score=59.63 Aligned_cols=54 Identities=24% Similarity=0.613 Sum_probs=44.2
Q ss_pred CCchhhhhhcCCcCccccccccCCEeecCCCCcchhhHHHH--hccCCCCCCCccc
Q 015126 339 YATTEQVNAAGDLCAICQEKMHAPILLQCKHLFCEDCVSEW--LERERTCPLCRAL 392 (413)
Q Consensus 339 ~~~~e~~~~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~W--l~~~~tCPlCR~~ 392 (413)
.++.++.++++..|.||-+...-...+||+|..|--|-.+. +...+.||+||..
T Consensus 51 tsSaddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 51 TSSADDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred cccccccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 34455666677899999999988889999999999997654 5667899999985
No 70
>PHA02862 5L protein; Provisional
Probab=95.20 E-value=0.015 Score=51.82 Aligned_cols=45 Identities=22% Similarity=0.651 Sum_probs=35.1
Q ss_pred CCcCccccccccCCEeecCCC-----CcchhhHHHHhcc--CCCCCCCccccc
Q 015126 349 GDLCAICQEKMHAPILLQCKH-----LFCEDCVSEWLER--ERTCPLCRALVK 394 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgH-----iFC~~CI~~Wl~~--~~tCPlCR~~i~ 394 (413)
++.|-||++.-.+. .-||.. .-|++|+.+|+.. +..|++|+.+..
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 56899999987554 467764 4799999999964 458999998763
No 71
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.11 E-value=0.011 Score=68.21 Aligned_cols=48 Identities=33% Similarity=0.790 Sum_probs=37.9
Q ss_pred hcCCcCcccccccc---CCEeecCCCCcchhhHHHHhcc----------CCCCCCCccccc
Q 015126 347 AAGDLCAICQEKMH---APILLQCKHLFCEDCVSEWLER----------ERTCPLCRALVK 394 (413)
Q Consensus 347 ~~~~~C~ICle~~~---~pv~L~CgHiFC~~CI~~Wl~~----------~~tCPlCR~~i~ 394 (413)
+.+|.|.||..+-- ..++|.|+|+||..|.++.+++ --.||+|..++.
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 45789999997643 2368999999999999987764 238999988775
No 72
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.05 E-value=0.012 Score=44.22 Aligned_cols=46 Identities=30% Similarity=0.731 Sum_probs=37.4
Q ss_pred CcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccCCC
Q 015126 350 DLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKPAD 397 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~ 397 (413)
..|..|...-...+.++|+|..|..|... .+-+.||.|.+++...+
T Consensus 8 ~~~~~~~~~~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFVGTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEccccccccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 46888888888888999999999999765 34568999999886554
No 73
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=94.99 E-value=0.018 Score=52.27 Aligned_cols=47 Identities=19% Similarity=0.733 Sum_probs=35.7
Q ss_pred hhcCCcCccccccccCCEeecCCC-----CcchhhHHHHhcc--CCCCCCCcccc
Q 015126 346 NAAGDLCAICQEKMHAPILLQCKH-----LFCEDCVSEWLER--ERTCPLCRALV 393 (413)
Q Consensus 346 ~~~~~~C~ICle~~~~pv~L~CgH-----iFC~~CI~~Wl~~--~~tCPlCR~~i 393 (413)
...+..|-||++.... ...||.. .-|.+|+.+|+.. ...|++|+.+.
T Consensus 5 s~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 5 SLMDKCCWICKDEYDV-VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCCCeeEecCCCCCC-ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 3456789999988653 3457765 3499999999965 45899999875
No 74
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.89 E-value=0.0085 Score=57.65 Aligned_cols=44 Identities=32% Similarity=0.827 Sum_probs=30.4
Q ss_pred cCcccccccc-CC-EeecCCCCcchhhHHHHhccCCCCCCCcccccCC
Q 015126 351 LCAICQEKMH-AP-ILLQCKHLFCEDCVSEWLERERTCPLCRALVKPA 396 (413)
Q Consensus 351 ~C~ICle~~~-~p-v~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~ 396 (413)
.|..|...-. .+ .++.|+|+||..|...-. ...||+|++++...
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i 50 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASS--PDVCPLCKKSIRII 50 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhcccCC--ccccccccceeeee
Confidence 3555554333 22 368999999999987533 33899999987543
No 75
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.72 E-value=0.028 Score=55.06 Aligned_cols=57 Identities=18% Similarity=0.483 Sum_probs=44.9
Q ss_pred cCCcCccccccccCC----EeecCCCCcchhhHHHHhccCCCCCCCcccccCCCccccCCCC
Q 015126 348 AGDLCAICQEKMHAP----ILLQCKHLFCEDCVSEWLERERTCPLCRALVKPADLRSFGDGS 405 (413)
Q Consensus 348 ~~~~C~ICle~~~~p----v~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~~~~~Dgs 405 (413)
....|||+...|... ..-+|||+|+++|+++.- ....||.|-.++...|+....+..
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~~ 172 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPPE 172 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCCc
Confidence 346999999999543 245999999999999973 456899999999988877655543
No 76
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.65 E-value=0.025 Score=62.70 Aligned_cols=39 Identities=26% Similarity=0.862 Sum_probs=34.7
Q ss_pred CcCccccccccCCE-eecCCCCcchhhHHHHhccCCCCCCCcc
Q 015126 350 DLCAICQEKMHAPI-LLQCKHLFCEDCVSEWLERERTCPLCRA 391 (413)
Q Consensus 350 ~~C~ICle~~~~pv-~L~CgHiFC~~CI~~Wl~~~~tCPlCR~ 391 (413)
..|..|...+.-|. .-.|||.||..|+. +....||.|+.
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhc---cCcccCCccch
Confidence 48999999999885 68999999999998 66779999987
No 77
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=94.53 E-value=0.016 Score=57.40 Aligned_cols=48 Identities=27% Similarity=0.705 Sum_probs=37.9
Q ss_pred CCcCccccccccCC---EeecCCCCcchhhHHHHhcc-----------------------CCCCCCCcccccCC
Q 015126 349 GDLCAICQEKMHAP---ILLQCKHLFCEDCVSEWLER-----------------------ERTCPLCRALVKPA 396 (413)
Q Consensus 349 ~~~C~ICle~~~~p---v~L~CgHiFC~~CI~~Wl~~-----------------------~~tCPlCR~~i~~~ 396 (413)
+..|.||+--|.+. .+++|-|.||..|+.+++.. +..||+||..+...
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 45799999777654 47899999999999988751 23799999988644
No 78
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.11 E-value=0.074 Score=53.34 Aligned_cols=48 Identities=21% Similarity=0.608 Sum_probs=39.9
Q ss_pred hcCCcCccccccccCCEeec-CCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 347 AAGDLCAICQEKMHAPILLQ-CKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L~-CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
.+...|++|+..-.+|..+. -|-+||..|+...+.....||.-..+..
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 34569999999999886654 5999999999999999999998765543
No 79
>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=94.08 E-value=0.075 Score=54.42 Aligned_cols=52 Identities=23% Similarity=0.627 Sum_probs=35.7
Q ss_pred hcCCcCccccccccCCE----------------------eecCCCCcchhhHHHHhcc-------------CCCCCCCcc
Q 015126 347 AAGDLCAICQEKMHAPI----------------------LLQCKHLFCEDCVSEWLER-------------ERTCPLCRA 391 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv----------------------~L~CgHiFC~~CI~~Wl~~-------------~~tCPlCR~ 391 (413)
++.+.|.-|+....+-+ .--|..+.|.+|+-+|+.. +-+||+||+
T Consensus 269 ~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa 348 (358)
T PF10272_consen 269 QELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRA 348 (358)
T ss_pred cccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcc
Confidence 45568998987543221 1225567899999999842 338999999
Q ss_pred cccCCCc
Q 015126 392 LVKPADL 398 (413)
Q Consensus 392 ~i~~~~~ 398 (413)
.+.-.|+
T Consensus 349 ~FCilDV 355 (358)
T PF10272_consen 349 KFCILDV 355 (358)
T ss_pred cceeeee
Confidence 9876554
No 80
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.04 E-value=0.031 Score=55.38 Aligned_cols=44 Identities=39% Similarity=0.973 Sum_probs=36.5
Q ss_pred CcCcccccccc------CCEeecCCCCcchhhHHHHhccCC-CCCCCcccc
Q 015126 350 DLCAICQEKMH------APILLQCKHLFCEDCVSEWLERER-TCPLCRALV 393 (413)
Q Consensus 350 ~~C~ICle~~~------~pv~L~CgHiFC~~CI~~Wl~~~~-tCPlCR~~i 393 (413)
..|-||-+++. .|+.|.|||.+|..|+...+.... .||.||...
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 47999999885 467889999999999987776543 799999984
No 81
>PHA03096 p28-like protein; Provisional
Probab=93.13 E-value=0.041 Score=54.73 Aligned_cols=42 Identities=36% Similarity=0.690 Sum_probs=30.6
Q ss_pred CcCccccccccCC--------EeecCCCCcchhhHHHHhcc---CCCCCCCcc
Q 015126 350 DLCAICQEKMHAP--------ILLQCKHLFCEDCVSEWLER---ERTCPLCRA 391 (413)
Q Consensus 350 ~~C~ICle~~~~p--------v~L~CgHiFC~~CI~~Wl~~---~~tCPlCR~ 391 (413)
-.|.||++..... ....|.|.||..|+..|... ..+||.||.
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 5799999876532 35589999999999999754 234555543
No 82
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.10 E-value=0.077 Score=50.69 Aligned_cols=47 Identities=28% Similarity=0.641 Sum_probs=37.8
Q ss_pred CCcCccccccccCC--EeecCCCCcchhhHHHHhcc--------CCCCCCCcccccC
Q 015126 349 GDLCAICQEKMHAP--ILLQCKHLFCEDCVSEWLER--------ERTCPLCRALVKP 395 (413)
Q Consensus 349 ~~~C~ICle~~~~p--v~L~CgHiFC~~CI~~Wl~~--------~~tCPlCR~~i~~ 395 (413)
+..|..|...+.+. +.|.|-|.||++|+.+|-.. .-.||-|...|-+
T Consensus 50 ~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 34799999888654 68999999999999999753 2389999887643
No 83
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=92.82 E-value=0.17 Score=41.94 Aligned_cols=31 Identities=16% Similarity=0.682 Sum_probs=26.1
Q ss_pred hcCCcCccccccccCCE--eecCCCCcchhhHH
Q 015126 347 AAGDLCAICQEKMHAPI--LLQCKHLFCEDCVS 377 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv--~L~CgHiFC~~CI~ 377 (413)
..+..|++|...+.+.. ..||||+||..|++
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 34668999999998764 57999999999975
No 84
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.34 E-value=0.067 Score=53.84 Aligned_cols=51 Identities=24% Similarity=0.573 Sum_probs=36.5
Q ss_pred cCCcCccccccccCCE----eecCCCCcchhhHHHHhcc-CCCCCCCcccccCCCc
Q 015126 348 AGDLCAICQEKMHAPI----LLQCKHLFCEDCVSEWLER-ERTCPLCRALVKPADL 398 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv----~L~CgHiFC~~CI~~Wl~~-~~tCPlCR~~i~~~~~ 398 (413)
++|.|+.|+|.+...- -.+||-..|.-|....-+. +..||-||+...++.+
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv 68 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENV 68 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence 4567999999986432 3467777788886654433 5689999998876664
No 85
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.18 E-value=0.055 Score=62.47 Aligned_cols=42 Identities=29% Similarity=0.769 Sum_probs=38.5
Q ss_pred CcCcccccccc-CCEeecCCCCcchhhHHHHhccCCCCCCCcc
Q 015126 350 DLCAICQEKMH-APILLQCKHLFCEDCVSEWLERERTCPLCRA 391 (413)
Q Consensus 350 ~~C~ICle~~~-~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~ 391 (413)
..|.||++.+. ......|||.+|..|...|+..+..||+|..
T Consensus 1154 ~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 48999999998 6668899999999999999999999999974
No 86
>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=92.07 E-value=0.14 Score=46.56 Aligned_cols=33 Identities=27% Similarity=0.659 Sum_probs=25.0
Q ss_pred CCcCccccccccCCEeecC------------CCC-cchhhHHHHhc
Q 015126 349 GDLCAICQEKMHAPILLQC------------KHL-FCEDCVSEWLE 381 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~C------------gHi-FC~~CI~~Wl~ 381 (413)
+-.|+||+|-..+.++|-| +.. -|..|+++.-+
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 4579999999999998865 333 36789988753
No 87
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.31 E-value=0.087 Score=50.12 Aligned_cols=40 Identities=38% Similarity=0.906 Sum_probs=33.0
Q ss_pred cCccccccccCCEeecCCCC-cchhhHHHHhccCCCCCCCccccc
Q 015126 351 LCAICQEKMHAPILLQCKHL-FCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 351 ~C~ICle~~~~pv~L~CgHi-FC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
.|-.|.+.-.....+||.|. +|..|-.. -+.||+|+....
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 49999999888889999996 89999654 456999988654
No 88
>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=91.26 E-value=0.096 Score=46.37 Aligned_cols=42 Identities=24% Similarity=0.657 Sum_probs=30.7
Q ss_pred CCcCccccccccC--CE-eecCC------CCcchhhHHHHhccCCCCCCCc
Q 015126 349 GDLCAICQEKMHA--PI-LLQCK------HLFCEDCVSEWLERERTCPLCR 390 (413)
Q Consensus 349 ~~~C~ICle~~~~--pv-~L~Cg------HiFC~~CI~~Wl~~~~tCPlCR 390 (413)
.-+|.||.+...+ ++ .++|+ |+||.+|+++|-...+.=|.=|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~rDPfnR 76 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERNRDPFNR 76 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhccCCCccc
Confidence 3579999999877 43 46776 8999999999954444445443
No 89
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=90.61 E-value=0.2 Score=36.69 Aligned_cols=42 Identities=29% Similarity=0.767 Sum_probs=21.1
Q ss_pred CccccccccCCE--ee--cCCCCcchhhHHHHhc-cCCCCCCCcccc
Q 015126 352 CAICQEKMHAPI--LL--QCKHLFCEDCVSEWLE-RERTCPLCRALV 393 (413)
Q Consensus 352 C~ICle~~~~pv--~L--~CgHiFC~~CI~~Wl~-~~~tCPlCR~~i 393 (413)
|++|.+++...- .. +|++..|..|....+. ....||-||++.
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 788998884432 23 5788899999988886 467899999863
No 90
>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=90.55 E-value=0.12 Score=37.64 Aligned_cols=43 Identities=28% Similarity=0.720 Sum_probs=26.3
Q ss_pred cCccccccccCCEeecCC-CCcchhhHHHHhccCCCCCCCcccccC
Q 015126 351 LCAICQEKMHAPILLQCK-HLFCEDCVSEWLERERTCPLCRALVKP 395 (413)
Q Consensus 351 ~C~ICle~~~~pv~L~Cg-HiFC~~CI~~Wl~~~~tCPlCR~~i~~ 395 (413)
.|--|+-.. .-...|. |..|..|+...+.+...||+|..+++.
T Consensus 4 nCKsCWf~~--k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCWFAN--KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS-S----SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhhhcC--CCeeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 366666443 3366787 778999999999999999999988863
No 91
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.38 E-value=1.1 Score=46.15 Aligned_cols=43 Identities=23% Similarity=0.658 Sum_probs=33.0
Q ss_pred CcCccccccc---cCCEeecCCCCcchhhHHHHhccC---CCCCCCccc
Q 015126 350 DLCAICQEKM---HAPILLQCKHLFCEDCVSEWLERE---RTCPLCRAL 392 (413)
Q Consensus 350 ~~C~ICle~~---~~pv~L~CgHiFC~~CI~~Wl~~~---~tCPlCR~~ 392 (413)
..|||=.+.- ..|..|.|||+.|.+-+.+.-+.. ..||.|-..
T Consensus 335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 5899866543 356899999999999999887553 479999443
No 92
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=90.31 E-value=0.18 Score=36.62 Aligned_cols=38 Identities=29% Similarity=0.981 Sum_probs=24.7
Q ss_pred CccccccccC--CEeecCCC-----CcchhhHHHHhcc--CCCCCCC
Q 015126 352 CAICQEKMHA--PILLQCKH-----LFCEDCVSEWLER--ERTCPLC 389 (413)
Q Consensus 352 C~ICle~~~~--pv~L~CgH-----iFC~~CI~~Wl~~--~~tCPlC 389 (413)
|-||++...+ +...||+- ..|.+|+.+|+.. +.+|++|
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 6788877553 45678763 5699999999974 5579887
No 93
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.13 E-value=0.12 Score=51.56 Aligned_cols=42 Identities=31% Similarity=0.903 Sum_probs=29.2
Q ss_pred cCcccccccc-CCEeecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 351 LCAICQEKMH-APILLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 351 ~C~ICle~~~-~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
.|.-|--.+. -.+..+|+|+||.+|-. .+..+.||.|-..+.
T Consensus 92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr--~~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 92 FCDRCDFPIAIYGRMIPCKHVFCLECAR--SDSDKICPLCDDRVQ 134 (389)
T ss_pred eecccCCcceeeecccccchhhhhhhhh--cCccccCcCcccHHH
Confidence 5665543322 23578999999999975 355779999966553
No 94
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=89.85 E-value=0.9 Score=40.22 Aligned_cols=48 Identities=25% Similarity=0.641 Sum_probs=38.0
Q ss_pred CcCccccccccCCEeec----CCCCcchhhHHHHhcc---CCCCCCCcccccCCC
Q 015126 350 DLCAICQEKMHAPILLQ----CKHLFCEDCVSEWLER---ERTCPLCRALVKPAD 397 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~----CgHiFC~~CI~~Wl~~---~~tCPlCR~~i~~~~ 397 (413)
.+|.||.|.-.+...|. ||-..|.-|....++. .+.||.|+..++...
T Consensus 81 YeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 81 YECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred eeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 48999999988776553 8888899998776653 668999999887553
No 95
>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=89.40 E-value=0.24 Score=49.09 Aligned_cols=48 Identities=25% Similarity=0.724 Sum_probs=35.9
Q ss_pred cCccccccc-cCCE----eecCCCCcchhhHHHHhccCC-CCCCCcccccCCCc
Q 015126 351 LCAICQEKM-HAPI----LLQCKHLFCEDCVSEWLERER-TCPLCRALVKPADL 398 (413)
Q Consensus 351 ~C~ICle~~-~~pv----~L~CgHiFC~~CI~~Wl~~~~-tCPlCR~~i~~~~~ 398 (413)
.|++|...- .+|- .-+|+|..|+.|+...+.... .||-|...+....+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence 599998653 3331 239999999999999987654 89999887665543
No 96
>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=88.83 E-value=0.37 Score=34.32 Aligned_cols=38 Identities=24% Similarity=0.731 Sum_probs=23.8
Q ss_pred CccccccccCCEeec---CCCCcchhhHHHHhccCC--CCCCC
Q 015126 352 CAICQEKMHAPILLQ---CKHLFCEDCVSEWLERER--TCPLC 389 (413)
Q Consensus 352 C~ICle~~~~pv~L~---CgHiFC~~CI~~Wl~~~~--tCPlC 389 (413)
|.+|.+.......-+ |+-.+|..|+..++...+ .||.|
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 678888887776544 888899999999997654 79987
No 97
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=86.24 E-value=0.38 Score=50.06 Aligned_cols=35 Identities=29% Similarity=0.739 Sum_probs=31.0
Q ss_pred cCCcCccccccccCCEeecCCCCcchhhHHHHhcc
Q 015126 348 AGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLER 382 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~ 382 (413)
++..|+||-.-+.+|++|+|+|..|.-|...-+.+
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 34579999999999999999999999999877654
No 98
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.12 E-value=0.29 Score=48.54 Aligned_cols=33 Identities=27% Similarity=0.779 Sum_probs=25.9
Q ss_pred CCCCcchhhHHHHhcc-------------CCCCCCCcccccCCCcc
Q 015126 367 CKHLFCEDCVSEWLER-------------ERTCPLCRALVKPADLR 399 (413)
Q Consensus 367 CgHiFC~~CI~~Wl~~-------------~~tCPlCR~~i~~~~~~ 399 (413)
|....|.+|+.+|+.. +.+||+||+.+...|+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~ 370 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVH 370 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeee
Confidence 6678899999999742 45899999998766653
No 99
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=85.89 E-value=0.2 Score=55.08 Aligned_cols=49 Identities=31% Similarity=0.762 Sum_probs=40.5
Q ss_pred CCcCccccccccCCEeecCCCCcchhhHHHHhcc---CCCCCCCcccccCCC
Q 015126 349 GDLCAICQEKMHAPILLQCKHLFCEDCVSEWLER---ERTCPLCRALVKPAD 397 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~---~~tCPlCR~~i~~~~ 397 (413)
..+|+||.+.+.+|..+.|.|.||.-|+..-+.. ...||+|+..+....
T Consensus 21 ~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 21 ILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred hccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 3579999999999999999999999998776654 347999998775444
No 100
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.54 E-value=0.45 Score=51.50 Aligned_cols=58 Identities=34% Similarity=0.726 Sum_probs=47.1
Q ss_pred cCCCCchhhhhhcCCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccCCC
Q 015126 336 YGSYATTEQVNAAGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKPAD 397 (413)
Q Consensus 336 ~~~~~~~e~~~~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~ 397 (413)
-...++.++..+..+.|.+|.+.+ ..+..+|. |..|+..|+..+..||+|++....++
T Consensus 466 ~~s~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 466 SLSEATPSQLREPNDVCAICYQEM-SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDD 523 (543)
T ss_pred CCCCCChhhhhcccCcchHHHHHH-Hhcccccc---chhHHHhhhhhccccCCCchhhhccc
Confidence 344556677777888999999999 66677888 78999999999999999998876543
No 101
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=85.30 E-value=0.43 Score=53.31 Aligned_cols=46 Identities=28% Similarity=0.800 Sum_probs=34.0
Q ss_pred hcCCcCccccccccCCE----eecCCCCcchhhHHHHhcc-C------CCCCCCccc
Q 015126 347 AAGDLCAICQEKMHAPI----LLQCKHLFCEDCVSEWLER-E------RTCPLCRAL 392 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv----~L~CgHiFC~~CI~~Wl~~-~------~tCPlCR~~ 392 (413)
....+|.||.+.+.... --.|=|+||..||+.|-.. + =.||.|+..
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 34458999999986442 2358899999999999643 1 169999843
No 102
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.88 E-value=0.56 Score=43.45 Aligned_cols=45 Identities=27% Similarity=0.645 Sum_probs=33.0
Q ss_pred cCccccccccCC-------EeecCCCCcchhhHHHHhcc-----------CCCCCCCcccccC
Q 015126 351 LCAICQEKMHAP-------ILLQCKHLFCEDCVSEWLER-----------ERTCPLCRALVKP 395 (413)
Q Consensus 351 ~C~ICle~~~~p-------v~L~CgHiFC~~CI~~Wl~~-----------~~tCPlCR~~i~~ 395 (413)
.|-||...--+. -...||..||.-|+..|+.. -..||.|..++.-
T Consensus 167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 577887543222 24579999999999999863 2379999888753
No 103
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=82.07 E-value=0.75 Score=50.89 Aligned_cols=29 Identities=28% Similarity=0.723 Sum_probs=24.8
Q ss_pred eecCCCCcchhhHHHHhccCCCCCC-Cccc
Q 015126 364 LLQCKHLFCEDCVSEWLERERTCPL-CRAL 392 (413)
Q Consensus 364 ~L~CgHiFC~~CI~~Wl~~~~tCPl-CR~~ 392 (413)
...|+|+.|.+|.++|+.....||. |.+.
T Consensus 1045 Cg~C~Hv~H~sc~~eWf~~gd~CpsGCGC~ 1074 (1081)
T KOG0309|consen 1045 CGTCGHVGHTSCMMEWFRTGDVCPSGCGCH 1074 (1081)
T ss_pred hccccccccHHHHHHHHhcCCcCCCCCCcC
Confidence 4679999999999999999999997 5443
No 104
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=81.48 E-value=0.94 Score=45.49 Aligned_cols=42 Identities=29% Similarity=0.704 Sum_probs=33.6
Q ss_pred CcCccccccccCCE-eecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 350 DLCAICQEKMHAPI-LLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 350 ~~C~ICle~~~~pv-~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
..|+||.+.+..|+ +-+=||.-|..|-. +....||.||.++.
T Consensus 49 leCPvC~~~l~~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 49 LDCPVCFNPLSPPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred ccCchhhccCcccceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 48999999999886 33447999999975 34567999999886
No 105
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.46 E-value=0.13 Score=52.74 Aligned_cols=48 Identities=25% Similarity=0.546 Sum_probs=40.6
Q ss_pred CCcCccccccccCC----EeecCCCCcchhhHHHHhccCCCCCCCcccccCC
Q 015126 349 GDLCAICQEKMHAP----ILLQCKHLFCEDCVSEWLERERTCPLCRALVKPA 396 (413)
Q Consensus 349 ~~~C~ICle~~~~p----v~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~ 396 (413)
-..|+||.+.+++. ..+.|||.+|.+|+..|+.....||.||..+...
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 35799999887654 3578999999999999999888999999988654
No 106
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=81.43 E-value=0.82 Score=50.95 Aligned_cols=52 Identities=27% Similarity=0.715 Sum_probs=39.0
Q ss_pred hcCCcCccccccc--cCCEeecCCC-----CcchhhHHHHhcc--CCCCCCCcccccCCCc
Q 015126 347 AAGDLCAICQEKM--HAPILLQCKH-----LFCEDCVSEWLER--ERTCPLCRALVKPADL 398 (413)
Q Consensus 347 ~~~~~C~ICle~~--~~pv~L~CgH-----iFC~~CI~~Wl~~--~~tCPlCR~~i~~~~~ 398 (413)
+++..|.||+.+- .+|..-||++ ..|++|+.+|+.. ...|-+|..+++-+++
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeee
Confidence 4457899999764 3455567775 3699999999975 4579999998876654
No 107
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=81.29 E-value=0.89 Score=45.07 Aligned_cols=41 Identities=32% Similarity=0.786 Sum_probs=34.8
Q ss_pred cCcccccccc----CCEeecCCCCcchhhHHHHhccCCCCCCCcc
Q 015126 351 LCAICQEKMH----APILLQCKHLFCEDCVSEWLERERTCPLCRA 391 (413)
Q Consensus 351 ~C~ICle~~~----~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~ 391 (413)
.|+||.+.+. .+..++|||..|..|........-+||+|.+
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 4999998875 3457899999999999888766689999987
No 108
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.68 E-value=0.89 Score=50.52 Aligned_cols=46 Identities=13% Similarity=0.408 Sum_probs=34.9
Q ss_pred cCCcCccccccccCCE----eec---CCCCcchhhHHHHhcc------CCCCCCCcccc
Q 015126 348 AGDLCAICQEKMHAPI----LLQ---CKHLFCEDCVSEWLER------ERTCPLCRALV 393 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv----~L~---CgHiFC~~CI~~Wl~~------~~tCPlCR~~i 393 (413)
..+.|.+|..++..++ .++ |+|.||..||..|.++ ...|++|...+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 3467888888877642 344 9999999999999875 33689997765
No 109
>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=79.61 E-value=0.49 Score=45.75 Aligned_cols=46 Identities=30% Similarity=0.834 Sum_probs=33.6
Q ss_pred cCCcCccccccc-cCC-E---e-ecCCCCcchhhHHHHhccCC-CCC--CCcccc
Q 015126 348 AGDLCAICQEKM-HAP-I---L-LQCKHLFCEDCVSEWLERER-TCP--LCRALV 393 (413)
Q Consensus 348 ~~~~C~ICle~~-~~p-v---~-L~CgHiFC~~CI~~Wl~~~~-tCP--lCR~~i 393 (413)
.+..||+|..+- -+| + . ..|-|..|+.|+.+.+.+.+ .|| -|.+-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 345899999764 344 2 1 24999999999999998754 799 576544
No 110
>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=76.48 E-value=0.84 Score=33.56 Aligned_cols=42 Identities=31% Similarity=0.773 Sum_probs=22.6
Q ss_pred CcCccccccccCCEe-ecCCCCcchhhHHHHhcc---CC--CCCCCccc
Q 015126 350 DLCAICQEKMHAPIL-LQCKHLFCEDCVSEWLER---ER--TCPLCRAL 392 (413)
Q Consensus 350 ~~C~ICle~~~~pv~-L~CgHiFC~~CI~~Wl~~---~~--tCPlCR~~ 392 (413)
..|++....+..|++ ..|.|.-|.+ +..|++. .. .||.|.++
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 369999999999976 5799997765 4456543 22 69999763
No 111
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.04 E-value=2 Score=48.51 Aligned_cols=34 Identities=24% Similarity=0.610 Sum_probs=27.2
Q ss_pred hcCCcCccccccccCC--EeecCCCCcchhhHHHHh
Q 015126 347 AAGDLCAICQEKMHAP--ILLQCKHLFCEDCVSEWL 380 (413)
Q Consensus 347 ~~~~~C~ICle~~~~p--v~L~CgHiFC~~CI~~Wl 380 (413)
+.++.|.+|.-.+... ..-+|||.||.+|+.+-.
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 3467999999876543 467999999999998775
No 112
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.48 E-value=1 Score=44.04 Aligned_cols=46 Identities=24% Similarity=0.691 Sum_probs=33.2
Q ss_pred cCCcCccccccccCCEe----ecCC-----CCcchhhHHHHhccCC--------CCCCCcccc
Q 015126 348 AGDLCAICQEKMHAPIL----LQCK-----HLFCEDCVSEWLERER--------TCPLCRALV 393 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~----L~Cg-----HiFC~~CI~~Wl~~~~--------tCPlCR~~i 393 (413)
.+-.|-||...-++... -||. |--|..|+.+|++.+. .||.|+..-
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 34578999987665432 3554 5589999999996532 699998864
No 113
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=72.32 E-value=1.8 Score=42.70 Aligned_cols=46 Identities=24% Similarity=0.795 Sum_probs=35.1
Q ss_pred CCcCccccccccC----CEeecCCC-----CcchhhHHHHhc--cCCCCCCCccccc
Q 015126 349 GDLCAICQEKMHA----PILLQCKH-----LFCEDCVSEWLE--RERTCPLCRALVK 394 (413)
Q Consensus 349 ~~~C~ICle~~~~----pv~L~CgH-----iFC~~CI~~Wl~--~~~tCPlCR~~i~ 394 (413)
+..|-||+++... +...||.. ..|..|+..|+. ....|..|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 4689999987653 45677763 469999999997 5668999988654
No 114
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.15 E-value=1.3 Score=40.52 Aligned_cols=28 Identities=25% Similarity=0.557 Sum_probs=22.3
Q ss_pred hhcCCcCccccccccCC---EeecCCCCcch
Q 015126 346 NAAGDLCAICQEKMHAP---ILLQCKHLFCE 373 (413)
Q Consensus 346 ~~~~~~C~ICle~~~~p---v~L~CgHiFC~ 373 (413)
..+..+|.||+|++... .+|||-.+||+
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 34556899999999865 37899999885
No 115
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.93 E-value=1.8 Score=47.32 Aligned_cols=35 Identities=40% Similarity=0.975 Sum_probs=28.6
Q ss_pred cCcccccccc----CCEeecCCCCcchhhHHHHhccCCCCC
Q 015126 351 LCAICQEKMH----APILLQCKHLFCEDCVSEWLERERTCP 387 (413)
Q Consensus 351 ~C~ICle~~~----~pv~L~CgHiFC~~CI~~Wl~~~~tCP 387 (413)
.|.||+..+. .|+.+.|||..|..|+..... .+||
T Consensus 13 ~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 13 LCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred hchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 6999977664 578899999999999987654 4788
No 116
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.66 E-value=2.6 Score=41.82 Aligned_cols=44 Identities=32% Similarity=0.805 Sum_probs=35.0
Q ss_pred CcCccccccccCCEeecC----CCCcchhhHHHHhccC-----------CCCCCCcccc
Q 015126 350 DLCAICQEKMHAPILLQC----KHLFCEDCVSEWLERE-----------RTCPLCRALV 393 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~C----gHiFC~~CI~~Wl~~~-----------~tCPlCR~~i 393 (413)
..|.+|+|.+++.....| .|.||..|-++-++++ ..||+....+
T Consensus 269 LcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~v 327 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNV 327 (352)
T ss_pred eeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCcc
Confidence 489999999999887777 4999999999888652 3677765554
No 117
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.04 E-value=3.2 Score=40.51 Aligned_cols=34 Identities=18% Similarity=0.371 Sum_probs=30.6
Q ss_pred cCCcCccccccccCCEeecCCCCcchhhHHHHhc
Q 015126 348 AGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLE 381 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~ 381 (413)
.-+.|..|+....+|+..+=||+||.+||.+.+-
T Consensus 42 ~FdcCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred CcceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 3468999999999999999999999999998863
No 118
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.34 E-value=4 Score=43.11 Aligned_cols=54 Identities=35% Similarity=0.720 Sum_probs=39.8
Q ss_pred cCCcCccccccccC-CEeecCCCCcchhhHHHHhcc------C--CCCCC--CcccccCCCcccc
Q 015126 348 AGDLCAICQEKMHA-PILLQCKHLFCEDCVSEWLER------E--RTCPL--CRALVKPADLRSF 401 (413)
Q Consensus 348 ~~~~C~ICle~~~~-pv~L~CgHiFC~~CI~~Wl~~------~--~tCPl--CR~~i~~~~~~~~ 401 (413)
....|-||.+.... ...+.|+|.||..|+...+.+ . -+||. |++.+...++...
T Consensus 69 ~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~ 133 (444)
T KOG1815|consen 69 GDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKL 133 (444)
T ss_pred ccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeee
Confidence 34689999999885 667899999999999988764 1 24654 7777665555443
No 119
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.71 E-value=8.1 Score=37.88 Aligned_cols=51 Identities=24% Similarity=0.459 Sum_probs=39.2
Q ss_pred cCCcCccccccccCC----EeecCCCCcchhhHHHHhccCCCCCCCcccccCCCccc
Q 015126 348 AGDLCAICQEKMHAP----ILLQCKHLFCEDCVSEWLERERTCPLCRALVKPADLRS 400 (413)
Q Consensus 348 ~~~~C~ICle~~~~p----v~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~~~ 400 (413)
....|+|---+|... ..-+|||+|-+.-+++. ...+|+.|.+.....|+..
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvIv 164 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVIV 164 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeEe
Confidence 345899877777654 35689999999988875 3679999999988777543
No 120
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.57 E-value=7.7 Score=40.33 Aligned_cols=33 Identities=36% Similarity=0.864 Sum_probs=25.1
Q ss_pred CCcCccccccccCC----EeecCCCCcchhhHHHHhc
Q 015126 349 GDLCAICQEKMHAP----ILLQCKHLFCEDCVSEWLE 381 (413)
Q Consensus 349 ~~~C~ICle~~~~p----v~L~CgHiFC~~CI~~Wl~ 381 (413)
...|.||..+.... ....|+|.||.+|+++.++
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 45899999443322 2467999999999998876
No 121
>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=53.70 E-value=5.4 Score=39.61 Aligned_cols=53 Identities=25% Similarity=0.546 Sum_probs=24.6
Q ss_pred cCCcCccccccccCCEeec-----CCCCcchhhHHHHhccCCCCCCCcccccCCCcccc
Q 015126 348 AGDLCAICQEKMHAPILLQ-----CKHLFCEDCVSEWLERERTCPLCRALVKPADLRSF 401 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~L~-----CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~~~~~ 401 (413)
....||+|=....-.+... -.|.+|.-|-.+|-.....||.|-.. ....+..+
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~-~~~~l~~~ 228 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT-DHEKLEYF 228 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT----SS-EEE--
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC-CCcceeeE
Confidence 3469999998755443322 24678999999998777899999654 23344444
No 122
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=51.93 E-value=7.8 Score=37.04 Aligned_cols=41 Identities=24% Similarity=0.679 Sum_probs=34.1
Q ss_pred CcCccccccccCCEe-ecCCCCcchhhHHHHhccCCCCCCCc
Q 015126 350 DLCAICQEKMHAPIL-LQCKHLFCEDCVSEWLERERTCPLCR 390 (413)
Q Consensus 350 ~~C~ICle~~~~pv~-L~CgHiFC~~CI~~Wl~~~~tCPlCR 390 (413)
..|.+|.+.....+. -.|+--+|..|+.+.+++.+.||-|.
T Consensus 182 k~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchh
Confidence 379999998776653 46777799999999999999999994
No 123
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=51.37 E-value=10 Score=35.80 Aligned_cols=43 Identities=28% Similarity=0.779 Sum_probs=30.0
Q ss_pred hhhhcCCcCcccccc-ccCC-------EeecCCCCcchhhHHHHhccCCCCCCCcc
Q 015126 344 QVNAAGDLCAICQEK-MHAP-------ILLQCKHLFCEDCVSEWLERERTCPLCRA 391 (413)
Q Consensus 344 ~~~~~~~~C~ICle~-~~~p-------v~L~CgHiFC~~CI~~Wl~~~~tCPlCR~ 391 (413)
.....|..|.+|.+. .--| .-..|+.+||..|.. +..||.|-+
T Consensus 147 lC~~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 147 LCQQKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred HHHhCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 445678899999863 2111 134799999999975 267999943
No 124
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=50.88 E-value=14 Score=41.43 Aligned_cols=42 Identities=19% Similarity=0.495 Sum_probs=32.3
Q ss_pred cCccccccccCCE--eecCCCCcchhhHHHHhccCCCCCC--Cccc
Q 015126 351 LCAICQEKMHAPI--LLQCKHLFCEDCVSEWLERERTCPL--CRAL 392 (413)
Q Consensus 351 ~C~ICle~~~~pv--~L~CgHiFC~~CI~~Wl~~~~tCPl--CR~~ 392 (413)
.|.+|...+..-. .-.|+|.-|.+|++.|+.....||. |...
T Consensus 781 ~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~ 826 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPHL 826 (839)
T ss_pred CceeecceeeeeEeecccccccccHHHHHHHHhcCCCCccccCCcc
Confidence 6888876655432 2359999999999999999888887 6544
No 125
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=49.95 E-value=5.1 Score=43.74 Aligned_cols=39 Identities=26% Similarity=0.723 Sum_probs=25.5
Q ss_pred cCCcCccccccc------cC--CEeecCCCCcchhhHHHHhccCCCCCCC
Q 015126 348 AGDLCAICQEKM------HA--PILLQCKHLFCEDCVSEWLERERTCPLC 389 (413)
Q Consensus 348 ~~~~C~ICle~~------~~--pv~L~CgHiFC~~CI~~Wl~~~~tCPlC 389 (413)
.+..|.+|...- .. .....|+++||..|+++ ....||.|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 456777885321 01 12467999999999754 34459999
No 126
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.61 E-value=6.2 Score=39.56 Aligned_cols=48 Identities=31% Similarity=0.727 Sum_probs=40.5
Q ss_pred hcCCcCccccccccCCEee-cCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 347 AAGDLCAICQEKMHAPILL-QCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L-~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
..++.|-+|...+..|.+. .|.|-||.-|...|....+.||-|+....
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 3457899999999877654 49999999999999999999999987654
No 127
>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=47.76 E-value=1.9 Score=34.09 Aligned_cols=40 Identities=28% Similarity=0.715 Sum_probs=22.7
Q ss_pred CcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 350 DLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
..|+.|..++.-.- +|..|..|-.. +.....||-|..++.
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 46999998865321 77788888765 455678999988763
No 128
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=47.26 E-value=15 Score=37.09 Aligned_cols=46 Identities=24% Similarity=0.630 Sum_probs=33.2
Q ss_pred CCcCcccccccc--------C---------C--EeecCCCCcchhhHHHHhcc---------CCCCCCCccccc
Q 015126 349 GDLCAICQEKMH--------A---------P--ILLQCKHLFCEDCVSEWLER---------ERTCPLCRALVK 394 (413)
Q Consensus 349 ~~~C~ICle~~~--------~---------p--v~L~CgHiFC~~CI~~Wl~~---------~~tCPlCR~~i~ 394 (413)
+..|++|+..-. + | ...||||+.-++-.+-|-+. +..||.|-..+.
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 458999996431 1 1 24699999888888888653 457999977664
No 129
>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=43.30 E-value=8 Score=40.18 Aligned_cols=29 Identities=41% Similarity=0.954 Sum_probs=0.0
Q ss_pred EeecCCCCcchhhHHHHhc------cCCCCCCCccccc
Q 015126 363 ILLQCKHLFCEDCVSEWLE------RERTCPLCRALVK 394 (413)
Q Consensus 363 v~L~CgHiFC~~CI~~Wl~------~~~tCPlCR~~i~ 394 (413)
+-+.|||++-.. .|-. +.++||+||..-.
T Consensus 305 VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 305 VYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp --------------------------------------
T ss_pred eeccccceeeec---ccccccccccccccCCCccccCC
Confidence 457899986543 5642 2568999998643
No 130
>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=43.27 E-value=12 Score=29.23 Aligned_cols=13 Identities=38% Similarity=1.239 Sum_probs=9.2
Q ss_pred CcchhhHHHHhcc
Q 015126 370 LFCEDCVSEWLER 382 (413)
Q Consensus 370 iFC~~CI~~Wl~~ 382 (413)
.||..|+..|+..
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 131
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.15 E-value=13 Score=38.57 Aligned_cols=42 Identities=24% Similarity=0.656 Sum_probs=31.6
Q ss_pred cCCcCccccccccCC-----EeecCCCCcchhhHHHHhccCCCCCCC
Q 015126 348 AGDLCAICQEKMHAP-----ILLQCKHLFCEDCVSEWLERERTCPLC 389 (413)
Q Consensus 348 ~~~~C~ICle~~~~p-----v~L~CgHiFC~~CI~~Wl~~~~tCPlC 389 (413)
..-.|+.|.-.+... ..-.|||-||..|...|......|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 356899998776432 344599999999999998877777554
No 132
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=41.85 E-value=21 Score=36.22 Aligned_cols=45 Identities=24% Similarity=0.587 Sum_probs=36.2
Q ss_pred CcCccccccccCC----EeecCCCCcchhhHHHHhccCCCCCCCccccc
Q 015126 350 DLCAICQEKMHAP----ILLQCKHLFCEDCVSEWLERERTCPLCRALVK 394 (413)
Q Consensus 350 ~~C~ICle~~~~p----v~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~ 394 (413)
..|+||-+..... .-.+|++.-|..|+..-...+..||.||++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 5899999987433 23468888899999998888999999997654
No 133
>COG4393 Predicted membrane protein [Function unknown]
Probab=39.71 E-value=1.7e+02 Score=30.22 Aligned_cols=17 Identities=41% Similarity=0.843 Sum_probs=13.2
Q ss_pred HHHHHHHHhHHHHHHHH
Q 015126 145 FARWVEQVLPFSLLLLV 161 (413)
Q Consensus 145 ~~~~l~~~lPf~~ill~ 161 (413)
+...++.++|+.+++-.
T Consensus 5 Fvs~Lqs~LP~alLlg~ 21 (405)
T COG4393 5 FVSFLQSVLPLALLLGI 21 (405)
T ss_pred HHHHHHHHHHHHHHHcC
Confidence 35678889999988765
No 134
>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=38.65 E-value=26 Score=26.02 Aligned_cols=26 Identities=38% Similarity=0.795 Sum_probs=14.6
Q ss_pred ecCCCCcchhhHHHHhccCCCCCCCc
Q 015126 365 LQCKHLFCEDCVSEWLERERTCPLCR 390 (413)
Q Consensus 365 L~CgHiFC~~CI~~Wl~~~~tCPlCR 390 (413)
..|++.||.+|=.=.-+.-.+||-|-
T Consensus 25 ~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 25 PKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCCccccCcChhhhccccCCcCCC
Confidence 36899999999533234556899883
No 135
>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=35.97 E-value=16 Score=26.49 Aligned_cols=38 Identities=18% Similarity=0.551 Sum_probs=24.6
Q ss_pred CccccccccCCEe--ecCCCCcchhhHHHHhccCCCCCCCcccccCCC
Q 015126 352 CAICQEKMHAPIL--LQCKHLFCEDCVSEWLERERTCPLCRALVKPAD 397 (413)
Q Consensus 352 C~ICle~~~~pv~--L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~ 397 (413)
|.-|...+..... ..-+..||.+|. +|-.|++.+...+
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf--------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECF--------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTS--------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEEeCCcEEEcccc--------ccCCCCCccCCCe
Confidence 5666666654322 256677887774 6888888876555
No 136
>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=35.80 E-value=30 Score=29.36 Aligned_cols=24 Identities=29% Similarity=0.862 Sum_probs=18.7
Q ss_pred CCCcchhhHHHHhcc---------CCCCCCCcc
Q 015126 368 KHLFCEDCVSEWLER---------ERTCPLCRA 391 (413)
Q Consensus 368 gHiFC~~CI~~Wl~~---------~~tCPlCR~ 391 (413)
.=.||..||..++.. +-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 556999999998753 236999986
No 137
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=35.59 E-value=32 Score=40.31 Aligned_cols=47 Identities=23% Similarity=0.782 Sum_probs=31.9
Q ss_pred hcCCcCccccccccCC----Eeec---CCCCcchhhHHHHh--ccCCCCCCCccccc
Q 015126 347 AAGDLCAICQEKMHAP----ILLQ---CKHLFCEDCVSEWL--ERERTCPLCRALVK 394 (413)
Q Consensus 347 ~~~~~C~ICle~~~~p----v~L~---CgHiFC~~CI~~Wl--~~~~tCPlCR~~i~ 394 (413)
..+..|.||-++.... .... |+---|..|.+ .= +.++.||.|+...+
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhhcCCccCCccCCchh
Confidence 3456999999986432 2334 44447999983 32 23668999998776
No 138
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=35.48 E-value=28 Score=30.07 Aligned_cols=41 Identities=34% Similarity=0.673 Sum_probs=32.5
Q ss_pred CcCccccccccCCE--------------eecCCCCcchhhHHHHhccCCCCCCCc
Q 015126 350 DLCAICQEKMHAPI--------------LLQCKHLFCEDCVSEWLERERTCPLCR 390 (413)
Q Consensus 350 ~~C~ICle~~~~pv--------------~L~CgHiFC~~CI~~Wl~~~~tCPlCR 390 (413)
..|--|+..+.++. -..|++.||.+|=.=+-+.-.+||-|-
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 46999999876531 357999999999877777778999995
No 139
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.65 E-value=38 Score=38.24 Aligned_cols=41 Identities=20% Similarity=0.560 Sum_probs=30.0
Q ss_pred cCCcCcccccccc-------CCEeecCCCCcchhhHHHHhccCCCCCCC
Q 015126 348 AGDLCAICQEKMH-------APILLQCKHLFCEDCVSEWLERERTCPLC 389 (413)
Q Consensus 348 ~~~~C~ICle~~~-------~pv~L~CgHiFC~~CI~~Wl~~~~tCPlC 389 (413)
.++.|.-|.+... .-+.+.|+|+||..|+..-..+.. |-.|
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 3458999987654 235789999999999987665544 6655
No 140
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=34.10 E-value=21 Score=36.22 Aligned_cols=32 Identities=38% Similarity=0.793 Sum_probs=18.5
Q ss_pred EeecCCCC--cchhhHHHHh-ccCCCCCCCccccc
Q 015126 363 ILLQCKHL--FCEDCVSEWL-ERERTCPLCRALVK 394 (413)
Q Consensus 363 v~L~CgHi--FC~~CI~~Wl-~~~~tCPlCR~~i~ 394 (413)
+-|.|||+ +|..=.++=- .+.+.||+||..-+
T Consensus 318 vYl~CGHV~G~H~WG~~e~~g~~~r~CPmC~~~gp 352 (429)
T KOG3842|consen 318 VYLNCGHVHGYHNWGVRENTGQRERECPMCRVVGP 352 (429)
T ss_pred EEEeccccccccccccccccCcccCcCCeeeeecc
Confidence 45899987 5642111111 12568999987543
No 141
>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=33.67 E-value=15 Score=28.05 Aligned_cols=33 Identities=24% Similarity=0.600 Sum_probs=17.2
Q ss_pred cCCcCccccccccCCE----eecCCCCcchhhHHHHh
Q 015126 348 AGDLCAICQEKMHAPI----LLQCKHLFCEDCVSEWL 380 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv----~L~CgHiFC~~CI~~Wl 380 (413)
....|.+|...|.--. --.||++||.+|.....
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 3468999999995422 24699999999986543
No 142
>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=33.64 E-value=44 Score=25.41 Aligned_cols=44 Identities=25% Similarity=0.664 Sum_probs=29.7
Q ss_pred cCccccccccCCE--eecCC--CCcchhhHHHHhccCCCCCCCcccccCC
Q 015126 351 LCAICQEKMHAPI--LLQCK--HLFCEDCVSEWLERERTCPLCRALVKPA 396 (413)
Q Consensus 351 ~C~ICle~~~~pv--~L~Cg--HiFC~~CI~~Wl~~~~tCPlCR~~i~~~ 396 (413)
.|-.|-.++.... ..-|. ..||.+|....+ ...||.|...+...
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 4666666654322 33455 359999999877 46899998877544
No 143
>KOG2302 consensus T-type voltage-gated Ca2+ channel, pore-forming alpha1I subunit [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=33.62 E-value=7.6e+02 Score=29.60 Aligned_cols=18 Identities=33% Similarity=0.451 Sum_probs=9.5
Q ss_pred chHHHHHHHH----HHHHHHHH
Q 015126 222 PFWHAVFIIL----VNDTMVRQ 239 (413)
Q Consensus 222 ~~~~~l~~V~----v~d~ivr~ 239 (413)
++|++|=..+ +.|+++-.
T Consensus 1192 ssWN~LDgflv~vsviDilvs~ 1213 (1956)
T KOG2302|consen 1192 SSWNVLDGFLVAVSVIDILVSQ 1213 (1956)
T ss_pred HHHHhhhHHHHHHHHHHHHHHH
Confidence 5777664444 34554433
No 144
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=31.58 E-value=28 Score=35.40 Aligned_cols=41 Identities=32% Similarity=0.690 Sum_probs=30.5
Q ss_pred CcCccccccccCCE---eecCCCCcchhhHHHHhccCCCCCCCc
Q 015126 350 DLCAICQEKMHAPI---LLQCKHLFCEDCVSEWLERERTCPLCR 390 (413)
Q Consensus 350 ~~C~ICle~~~~pv---~L~CgHiFC~~CI~~Wl~~~~tCPlCR 390 (413)
..|-.|.+.....- .-.|+++||.+|=.-.-+.-..||-|.
T Consensus 331 ~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 331 RFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred cceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 35999977765442 346899999999654446667899995
No 145
>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=29.76 E-value=18 Score=37.76 Aligned_cols=46 Identities=22% Similarity=0.658 Sum_probs=0.0
Q ss_pred CCcCcccccccc-----------------CC--EeecCCCCcchhhHHHHhcc---------CCCCCCCccccc
Q 015126 349 GDLCAICQEKMH-----------------AP--ILLQCKHLFCEDCVSEWLER---------ERTCPLCRALVK 394 (413)
Q Consensus 349 ~~~C~ICle~~~-----------------~p--v~L~CgHiFC~~CI~~Wl~~---------~~tCPlCR~~i~ 394 (413)
.-.|++|+..-. .| ...||||+.-++..+-|-+- +..||.|-..+.
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 458999996421 11 35699999999999999642 357999987775
No 146
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=28.56 E-value=1e+02 Score=28.74 Aligned_cols=36 Identities=28% Similarity=0.431 Sum_probs=21.7
Q ss_pred hcCCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccCCC
Q 015126 347 AAGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKPAD 397 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~ 397 (413)
.....|+.|...+.- .+-+....+||.|...+...+
T Consensus 111 ~~~y~C~~~~~r~sf---------------deA~~~~F~Cp~Cg~~L~~~d 146 (176)
T COG1675 111 NNYYVCPNCHVKYSF---------------DEAMELGFTCPKCGEDLEEYD 146 (176)
T ss_pred CCceeCCCCCCcccH---------------HHHHHhCCCCCCCCchhhhcc
Confidence 345578777765542 223344578999988775443
No 147
>PLN02189 cellulose synthase
Probab=27.53 E-value=58 Score=38.11 Aligned_cols=48 Identities=25% Similarity=0.705 Sum_probs=32.0
Q ss_pred hcCCcCccccccccCC----Eeec---CCCCcchhhHHHHh-ccCCCCCCCccccc
Q 015126 347 AAGDLCAICQEKMHAP----ILLQ---CKHLFCEDCVSEWL-ERERTCPLCRALVK 394 (413)
Q Consensus 347 ~~~~~C~ICle~~~~p----v~L~---CgHiFC~~CI~~Wl-~~~~tCPlCR~~i~ 394 (413)
..+..|.||-++.... .... |+---|..|.+-=- +.++.||.|+...+
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3456999999986422 2344 44447999984222 23568999998876
No 148
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.51 E-value=48 Score=37.00 Aligned_cols=44 Identities=32% Similarity=0.591 Sum_probs=35.8
Q ss_pred cCccccccccCCEeecCCC-CcchhhHHHHhc--c----CCCCCCCccccc
Q 015126 351 LCAICQEKMHAPILLQCKH-LFCEDCVSEWLE--R----ERTCPLCRALVK 394 (413)
Q Consensus 351 ~C~ICle~~~~pv~L~CgH-iFC~~CI~~Wl~--~----~~tCPlCR~~i~ 394 (413)
.|+||-....-...-.|+| .-|..|..+... . ...||.||..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 5999999988888889999 799999988742 2 346799998664
No 149
>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=27.50 E-value=88 Score=26.79 Aligned_cols=43 Identities=26% Similarity=0.668 Sum_probs=25.4
Q ss_pred cCCcCccccccccC-----CEeecCCCCcchhhHHHHhccCC--CCCCCcc
Q 015126 348 AGDLCAICQEKMHA-----PILLQCKHLFCEDCVSEWLERER--TCPLCRA 391 (413)
Q Consensus 348 ~~~~C~ICle~~~~-----pv~L~CgHiFC~~CI~~Wl~~~~--tCPlCR~ 391 (413)
.+..|.+|...+.- ..-..|+|.+|..|-.. ..... .|.+|.+
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 45689999987531 13457999999988643 11122 4777754
No 150
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=27.35 E-value=22 Score=35.92 Aligned_cols=44 Identities=23% Similarity=0.637 Sum_probs=31.3
Q ss_pred cCCcCccccccccCCEe-e--cC--CCCcchhhHHHHhccCCCCCCCcc
Q 015126 348 AGDLCAICQEKMHAPIL-L--QC--KHLFCEDCVSEWLERERTCPLCRA 391 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~-L--~C--gHiFC~~CI~~Wl~~~~tCPlCR~ 391 (413)
....|++|-....-.+. + .= .+..|.-|-.+|-.....||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 45689999987543321 1 12 245788899999888889999975
No 151
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=27.06 E-value=14 Score=22.73 Aligned_cols=10 Identities=30% Similarity=0.913 Sum_probs=4.8
Q ss_pred cCCCCCCCcc
Q 015126 382 RERTCPLCRA 391 (413)
Q Consensus 382 ~~~tCPlCR~ 391 (413)
..+.||.|.+
T Consensus 12 ~~~fC~~CG~ 21 (23)
T PF13240_consen 12 DAKFCPNCGT 21 (23)
T ss_pred cCcchhhhCC
Confidence 3444555544
No 152
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=26.82 E-value=65 Score=24.27 Aligned_cols=37 Identities=24% Similarity=0.582 Sum_probs=26.4
Q ss_pred cCCcCcccccccc--CCE--eecCCCCcchhhHHHHhccCCCCCC
Q 015126 348 AGDLCAICQEKMH--API--LLQCKHLFCEDCVSEWLERERTCPL 388 (413)
Q Consensus 348 ~~~~C~ICle~~~--~pv--~L~CgHiFC~~CI~~Wl~~~~tCPl 388 (413)
.+..|++|-+.+. +.+ -..|+-.+|.+|... ...|-.
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 3458999999994 443 357999999999643 445654
No 153
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.63 E-value=72 Score=28.34 Aligned_cols=28 Identities=32% Similarity=0.506 Sum_probs=21.9
Q ss_pred hcCCcCccccccccCCEeecCCCCcchh
Q 015126 347 AAGDLCAICQEKMHAPILLQCKHLFCED 374 (413)
Q Consensus 347 ~~~~~C~ICle~~~~pv~L~CgHiFC~~ 374 (413)
..++.=-||++.-....+..|||.||..
T Consensus 55 pvg~hlfi~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 55 PVGDHLFICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred ecCCcEEEEecccccEEEEeccccccCh
Confidence 3456667899887777788999999964
No 154
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=26.29 E-value=53 Score=33.41 Aligned_cols=42 Identities=24% Similarity=0.676 Sum_probs=30.4
Q ss_pred CcCcccccc---ccCCEeecCCCCcchhhHHHHhcc---CCCCCCCcc
Q 015126 350 DLCAICQEK---MHAPILLQCKHLFCEDCVSEWLER---ERTCPLCRA 391 (413)
Q Consensus 350 ~~C~ICle~---~~~pv~L~CgHiFC~~CI~~Wl~~---~~tCPlCR~ 391 (413)
..||+--+. ...|+.+.|||+.-.+-++..-+. ...||.|-.
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 478875443 245689999999999988876543 347999943
No 155
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.19 E-value=49 Score=26.46 Aligned_cols=27 Identities=30% Similarity=0.706 Sum_probs=20.5
Q ss_pred CCcchhhHHHHhccCCCCCCCcccccCCC
Q 015126 369 HLFCEDCVSEWLERERTCPLCRALVKPAD 397 (413)
Q Consensus 369 HiFC~~CI~~Wl~~~~tCPlCR~~i~~~~ 397 (413)
|.||.+|....+. ..||.|...+....
T Consensus 29 cTFCadCae~~l~--g~CPnCGGelv~RP 55 (84)
T COG3813 29 CTFCADCAENRLH--GLCPNCGGELVARP 55 (84)
T ss_pred eehhHhHHHHhhc--CcCCCCCchhhcCc
Confidence 7799999987654 58999977665443
No 156
>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=25.82 E-value=19 Score=36.30 Aligned_cols=44 Identities=25% Similarity=0.561 Sum_probs=30.7
Q ss_pred CCcCccccccccCCEee----cCC--CCcchhhHHHHhccCCCCCCCccc
Q 015126 349 GDLCAICQEKMHAPILL----QCK--HLFCEDCVSEWLERERTCPLCRAL 392 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L----~Cg--HiFC~~CI~~Wl~~~~tCPlCR~~ 392 (413)
...|++|-....-.+.. .=| +..|.-|-.+|-.....||.|...
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 34899999875433211 122 457888889998888899999763
No 157
>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=25.25 E-value=57 Score=21.09 Aligned_cols=35 Identities=20% Similarity=0.577 Sum_probs=21.4
Q ss_pred cCccccccccCC--EeecCCCCcchhhHHHHhccCCCCCCCcccc
Q 015126 351 LCAICQEKMHAP--ILLQCKHLFCEDCVSEWLERERTCPLCRALV 393 (413)
Q Consensus 351 ~C~ICle~~~~p--v~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i 393 (413)
.|..|.+.+... ....=+..||.+|. .|..|+.++
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccCC--------CCcccCCcC
Confidence 377787776653 22333566777764 577776655
No 158
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=25.09 E-value=29 Score=39.43 Aligned_cols=47 Identities=19% Similarity=0.545 Sum_probs=34.1
Q ss_pred hcCCcCccccccccC--CEeecCCCCcchhhHHHHhcc------CCCCCCCcccc
Q 015126 347 AAGDLCAICQEKMHA--PILLQCKHLFCEDCVSEWLER------ERTCPLCRALV 393 (413)
Q Consensus 347 ~~~~~C~ICle~~~~--pv~L~CgHiFC~~CI~~Wl~~------~~tCPlCR~~i 393 (413)
.....|-.|.....+ -+...|++.+|.+|++.|.-+ ...|+.||..-
T Consensus 227 g~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C 281 (889)
T KOG1356|consen 227 GIREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKC 281 (889)
T ss_pred CcchhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhc
Confidence 345689999987764 456789999999999999511 22577766544
No 159
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=24.46 E-value=55 Score=33.27 Aligned_cols=42 Identities=10% Similarity=-0.152 Sum_probs=34.4
Q ss_pred CcCccccccccCCEeecCCCC-cchhhHHHHhccCCCCCCCcccc
Q 015126 350 DLCAICQEKMHAPILLQCKHL-FCEDCVSEWLERERTCPLCRALV 393 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgHi-FC~~CI~~Wl~~~~tCPlCR~~i 393 (413)
..|..|-+..-.....+|+|. ||.+|-. +....+||.|....
T Consensus 344 ~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 344 LKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred cccccccCceeeeEeecCCcccChhhhhh--cccCCccccccccc
Confidence 489999998888888899985 9999987 55567999996543
No 160
>PRK04023 DNA polymerase II large subunit; Validated
Probab=24.31 E-value=48 Score=38.60 Aligned_cols=46 Identities=20% Similarity=0.378 Sum_probs=32.3
Q ss_pred CCcCccccccccCCEeecCCC-----CcchhhHHHHhccCCCCCCCcccccCC
Q 015126 349 GDLCAICQEKMHAPILLQCKH-----LFCEDCVSEWLERERTCPLCRALVKPA 396 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgH-----iFC~~CI~~Wl~~~~tCPlCR~~i~~~ 396 (413)
...|+-|-..........||. .||.+| .+......||.|.......
T Consensus 626 ~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 626 RRKCPSCGKETFYRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTPY 676 (1121)
T ss_pred CccCCCCCCcCCcccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCcc
Confidence 458999988865555566884 599999 3334446799998876544
No 161
>PF14353 CpXC: CpXC protein
Probab=24.28 E-value=81 Score=27.13 Aligned_cols=55 Identities=15% Similarity=0.215 Sum_probs=28.9
Q ss_pred cCccccccccCCEeecCCCCcchhhHHHHhcc---CCCCCCCcccccCCCccccCCCC
Q 015126 351 LCAICQEKMHAPILLQCKHLFCEDCVSEWLER---ERTCPLCRALVKPADLRSFGDGS 405 (413)
Q Consensus 351 ~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~---~~tCPlCR~~i~~~~~~~~~Dgs 405 (413)
.|+-|...+...+-..-.-.--.+=....+.. .-+||.|...+.-..--.+.|..
T Consensus 3 tCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~lY~D~~ 60 (128)
T PF14353_consen 3 TCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLLYHDPE 60 (128)
T ss_pred CCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEEEEcCC
Confidence 68888887765543222222223333333332 33899998877544333334433
No 162
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.15 E-value=1.4e+02 Score=31.38 Aligned_cols=34 Identities=18% Similarity=0.467 Sum_probs=23.2
Q ss_pred hhcCCcCccccccccCC------EeecCCCCcchhhHHHH
Q 015126 346 NAAGDLCAICQEKMHAP------ILLQCKHLFCEDCVSEW 379 (413)
Q Consensus 346 ~~~~~~C~ICle~~~~p------v~L~CgHiFC~~CI~~W 379 (413)
....-.||-|....... ..+.|+|.||.-|-...
T Consensus 365 ~~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l 404 (445)
T KOG1814|consen 365 ESNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELL 404 (445)
T ss_pred HhcCCCCCcccceeecCCCccceeeccccccceeehhhhc
Confidence 34456899998776543 35678888887776554
No 163
>PLN02436 cellulose synthase A
Probab=23.84 E-value=66 Score=37.80 Aligned_cols=47 Identities=26% Similarity=0.702 Sum_probs=31.6
Q ss_pred cCCcCccccccccCC----EeecC---CCCcchhhHHHHh-ccCCCCCCCccccc
Q 015126 348 AGDLCAICQEKMHAP----ILLQC---KHLFCEDCVSEWL-ERERTCPLCRALVK 394 (413)
Q Consensus 348 ~~~~C~ICle~~~~p----v~L~C---gHiFC~~CI~~Wl-~~~~tCPlCR~~i~ 394 (413)
.+..|.||-++.-.. ....| +---|..|.+-=. +.++.||.|++..+
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 456999999987432 23444 4447999984222 23568999998776
No 164
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=23.52 E-value=56 Score=31.69 Aligned_cols=26 Identities=27% Similarity=0.737 Sum_probs=21.3
Q ss_pred cchhhHHHHhccCCCCCCCcccccCC
Q 015126 371 FCEDCVSEWLERERTCPLCRALVKPA 396 (413)
Q Consensus 371 FC~~CI~~Wl~~~~tCPlCR~~i~~~ 396 (413)
-|..|-...-.....||+|++.-...
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSr 221 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSR 221 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccC
Confidence 58999988888888999998876544
No 165
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.42 E-value=22 Score=35.10 Aligned_cols=44 Identities=32% Similarity=0.813 Sum_probs=34.2
Q ss_pred CCcCcccccccc------CCEeec--------CCCCcchhhHHHHhccC-CCCCCCccc
Q 015126 349 GDLCAICQEKMH------APILLQ--------CKHLFCEDCVSEWLERE-RTCPLCRAL 392 (413)
Q Consensus 349 ~~~C~ICle~~~------~pv~L~--------CgHiFC~~CI~~Wl~~~-~tCPlCR~~ 392 (413)
...|.||...+. .|..+. |+|..|..|+..-+.+. ..||.||..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 357999988776 234556 99999999999987654 589999864
No 166
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=23.40 E-value=1.1e+02 Score=27.77 Aligned_cols=35 Identities=26% Similarity=0.368 Sum_probs=21.4
Q ss_pred cCCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccCCC
Q 015126 348 AGDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKPAD 397 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~~~ 397 (413)
....|+.|...+.. ..-+.....||.|...+...|
T Consensus 108 ~~Y~Cp~c~~r~tf---------------~eA~~~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 108 MFFICPNMCVRFTF---------------NEAMELNFTCPRCGAMLDYLD 142 (158)
T ss_pred CeEECCCCCcEeeH---------------HHHHHcCCcCCCCCCEeeecc
Confidence 34578877755442 122234678999988875433
No 167
>PF11044 TMEMspv1-c74-12: Plectrovirus spv1-c74 ORF 12 transmembrane protein; InterPro: IPR022743 This is a group of proteins expressed by Plectroviruses. The Plectroviruses are single-stranded DNA viruses belonging to the Inoviridae. This entry represents putative transmembrane proteins of unknown function.
Probab=22.82 E-value=3.1e+02 Score=19.96 Aligned_cols=9 Identities=22% Similarity=0.807 Sum_probs=4.5
Q ss_pred Cchhhhhhh
Q 015126 283 TPVWYRFFL 291 (413)
Q Consensus 283 ~~~W~~y~l 291 (413)
+|.|+...+
T Consensus 1 mp~wlt~iF 9 (49)
T PF11044_consen 1 MPTWLTTIF 9 (49)
T ss_pred CchHHHHHH
Confidence 356665433
No 168
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=22.74 E-value=54 Score=31.83 Aligned_cols=26 Identities=27% Similarity=0.709 Sum_probs=20.8
Q ss_pred cchhhHHHHhccCCCCCCCcccccCC
Q 015126 371 FCEDCVSEWLERERTCPLCRALVKPA 396 (413)
Q Consensus 371 FC~~CI~~Wl~~~~tCPlCR~~i~~~ 396 (413)
-|..|....-.....||+|+..-...
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSr 276 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSR 276 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccC
Confidence 58888888877888999998866544
No 169
>PRK11595 DNA utilization protein GntX; Provisional
Probab=22.61 E-value=77 Score=30.18 Aligned_cols=38 Identities=21% Similarity=0.542 Sum_probs=20.3
Q ss_pred cCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccc
Q 015126 351 LCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALV 393 (413)
Q Consensus 351 ~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i 393 (413)
.|.+|...+... ....|..|...+-.....||.|..+.
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhCCcccCcCccCCCcC
Confidence 577777654321 12356677665532234577776543
No 170
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=22.04 E-value=32 Score=34.89 Aligned_cols=45 Identities=16% Similarity=0.271 Sum_probs=33.7
Q ss_pred CcCccccccccCCEeecCCC-CcchhhHHHH-hccCCCCCCCccccc
Q 015126 350 DLCAICQEKMHAPILLQCKH-LFCEDCVSEW-LERERTCPLCRALVK 394 (413)
Q Consensus 350 ~~C~ICle~~~~pv~L~CgH-iFC~~CI~~W-l~~~~tCPlCR~~i~ 394 (413)
-.|.+|.+.-.-....+|+| +||..|...- .++.+.|++|..-+.
T Consensus 137 i~~iqq~tnt~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~~ 183 (394)
T KOG2113|consen 137 IKRIQQFTNTYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAVT 183 (394)
T ss_pred cchheecccceEeeeccCCCceEEEecCCcchhhhccccchhhhhhh
Confidence 46888887765555678998 6999997665 567778999966544
No 171
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=21.86 E-value=37 Score=33.61 Aligned_cols=45 Identities=24% Similarity=0.579 Sum_probs=31.7
Q ss_pred CCcCccccccccCC--Ee-----ecCCCCcchhhHHHHhcc---------CCCCCCCcccc
Q 015126 349 GDLCAICQEKMHAP--IL-----LQCKHLFCEDCVSEWLER---------ERTCPLCRALV 393 (413)
Q Consensus 349 ~~~C~ICle~~~~p--v~-----L~CgHiFC~~CI~~Wl~~---------~~tCPlCR~~i 393 (413)
+..|-+|.+.+.+. .. ..|.-++|..|+..-+.. +..||.|++..
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 45899999888432 22 347778999999984422 45899998743
No 172
>PF07178 TraL: TraL protein; InterPro: IPR009838 This entry represents bacterial TraL proteins. TraL is a predicted peripheral membrane protein involved in bacterial sex pilus assembly []. TraL is part of the type IV secretion system for conjugative plasmid transfer []. The exact function of TraL is unknown.; GO: 0000746 conjugation, 0019867 outer membrane
Probab=21.74 E-value=2.6e+02 Score=22.95 Aligned_cols=35 Identities=17% Similarity=0.332 Sum_probs=24.4
Q ss_pred HHHHhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHh
Q 015126 149 VEQVLPFSLLLLVVFVRQH-LQGFFVTVWITAVIFK 183 (413)
Q Consensus 149 l~~~lPf~~ill~k~~~qH-~~gi~~~i~l~~~~~~ 183 (413)
+.+.+|+++.+.+.++.+| +.|+++++++...+-+
T Consensus 20 ~De~~~~~~~~~~gi~~~~~~~g~i~g~~~~~~~~k 55 (95)
T PF07178_consen 20 MDEFIPALILFVIGILSGHFLIGLILGIVLWWGYRK 55 (95)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 4567899999999999998 3555555555544443
No 173
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=20.58 E-value=88 Score=25.84 Aligned_cols=38 Identities=21% Similarity=0.432 Sum_probs=30.0
Q ss_pred CCcCccccccccCCEeecCCCCcchhhHHHHhccCCCCCCCcccccC
Q 015126 349 GDLCAICQEKMHAPILLQCKHLFCEDCVSEWLERERTCPLCRALVKP 395 (413)
Q Consensus 349 ~~~C~ICle~~~~pv~L~CgHiFC~~CI~~Wl~~~~tCPlCR~~i~~ 395 (413)
...|+-|...+.-....| +-.|+-.+..|..|++++..
T Consensus 33 rS~C~~C~~~L~~~~lIP---------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLIP---------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCcCcCCCCcCcccccch---------HHHHHHhCCCCcccCCCCCh
Confidence 457999998887655555 66788888999999998864
No 174
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=20.28 E-value=66 Score=36.13 Aligned_cols=46 Identities=24% Similarity=0.601 Sum_probs=30.8
Q ss_pred cCCcCccccccccCCE----------eecCCCC--------------------cchhhHHHHhcc--------CCCCCCC
Q 015126 348 AGDLCAICQEKMHAPI----------LLQCKHL--------------------FCEDCVSEWLER--------ERTCPLC 389 (413)
Q Consensus 348 ~~~~C~ICle~~~~pv----------~L~CgHi--------------------FC~~CI~~Wl~~--------~~tCPlC 389 (413)
+-..|.-|++++.+|. .+.||.. .|..|-+++-+. ...||.|
T Consensus 100 D~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~C 179 (750)
T COG0068 100 DAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPKC 179 (750)
T ss_pred chhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCccc
Confidence 3458999999987652 3456543 389999888542 2269999
Q ss_pred cccc
Q 015126 390 RALV 393 (413)
Q Consensus 390 R~~i 393 (413)
.-.+
T Consensus 180 GP~~ 183 (750)
T COG0068 180 GPHL 183 (750)
T ss_pred CCCe
Confidence 5443
No 175
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.05 E-value=45 Score=27.82 Aligned_cols=13 Identities=38% Similarity=1.232 Sum_probs=11.1
Q ss_pred CcchhhHHHHhcc
Q 015126 370 LFCEDCVSEWLER 382 (413)
Q Consensus 370 iFC~~CI~~Wl~~ 382 (413)
.||..|+..|+..
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999864
Done!