Query 030902
Match_columns 169
No_of_seqs 153 out of 1621
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 06:18:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030902.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030902hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 2E-18 4.2E-23 142.4 4.6 76 61-140 205-280 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 2E-15 4.3E-20 89.8 2.0 44 89-134 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.4 2.9E-13 6.3E-18 107.3 5.0 75 62-138 149-227 (238)
4 COG5540 RING-finger-containing 99.4 4.1E-13 8.8E-18 108.1 3.6 53 86-139 321-373 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 99.3 9.4E-13 2E-17 86.6 3.6 46 87-134 18-73 (73)
6 COG5243 HRD1 HRD ubiquitin lig 99.3 1.2E-11 2.5E-16 102.2 7.2 68 66-139 269-346 (491)
7 PLN03208 E3 ubiquitin-protein 99.1 2.5E-11 5.5E-16 92.9 1.8 60 86-149 16-90 (193)
8 KOG0823 Predicted E3 ubiquitin 99.1 2E-11 4.4E-16 95.1 0.8 66 85-154 44-111 (230)
9 KOG0317 Predicted E3 ubiquitin 99.1 8.3E-11 1.8E-15 94.3 3.1 51 86-141 237-287 (293)
10 PF12861 zf-Apc11: Anaphase-pr 99.1 1.3E-10 2.8E-15 77.8 3.3 52 87-139 20-83 (85)
11 PHA02926 zinc finger-like prot 99.0 8.3E-11 1.8E-15 91.4 2.2 54 85-138 167-230 (242)
12 cd00162 RING RING-finger (Real 99.0 3E-10 6.5E-15 66.4 3.7 45 90-137 1-45 (45)
13 KOG0320 Predicted E3 ubiquitin 98.9 5.7E-10 1.2E-14 83.9 3.6 57 83-142 126-182 (187)
14 PF13920 zf-C3HC4_3: Zinc fing 98.9 5.7E-10 1.2E-14 67.9 2.5 46 88-138 2-48 (50)
15 PF13923 zf-C3HC4_2: Zinc fing 98.9 1.1E-09 2.4E-14 63.2 3.0 39 91-133 1-39 (39)
16 KOG0802 E3 ubiquitin ligase [P 98.9 3.8E-10 8.2E-15 99.6 1.0 62 86-149 289-352 (543)
17 PF15227 zf-C3HC4_4: zinc fing 98.8 2.1E-09 4.6E-14 63.1 2.5 39 91-133 1-42 (42)
18 PF00097 zf-C3HC4: Zinc finger 98.8 3.9E-09 8.4E-14 61.4 2.1 40 91-133 1-41 (41)
19 PF14634 zf-RING_5: zinc-RING 98.7 9.6E-09 2.1E-13 60.8 3.3 44 90-135 1-44 (44)
20 smart00184 RING Ring finger. E 98.7 1.1E-08 2.3E-13 57.6 3.1 39 91-133 1-39 (39)
21 KOG0828 Predicted E3 ubiquitin 98.7 3.3E-08 7.2E-13 84.5 6.6 52 88-139 571-635 (636)
22 smart00504 Ubox Modified RING 98.7 1.4E-08 3.1E-13 64.2 3.4 51 89-144 2-52 (63)
23 KOG3970 Predicted E3 ubiquitin 98.7 3.6E-08 7.8E-13 76.9 5.2 74 86-161 48-137 (299)
24 COG5194 APC11 Component of SCF 98.6 2.6E-08 5.7E-13 65.4 2.7 48 89-138 21-81 (88)
25 TIGR00599 rad18 DNA repair pro 98.6 1.9E-08 4.1E-13 85.2 2.1 48 87-139 25-72 (397)
26 COG5574 PEX10 RING-finger-cont 98.5 7.1E-08 1.5E-12 76.8 2.7 51 86-141 213-265 (271)
27 KOG1734 Predicted RING-contain 98.4 7.1E-08 1.5E-12 77.0 0.4 52 86-138 222-281 (328)
28 KOG1493 Anaphase-promoting com 98.4 4.6E-08 1E-12 63.7 -0.7 53 86-138 18-81 (84)
29 TIGR00570 cdk7 CDK-activating 98.4 3.2E-07 6.9E-12 75.2 3.5 53 88-141 3-57 (309)
30 KOG2930 SCF ubiquitin ligase, 98.3 2.5E-07 5.5E-12 63.6 2.3 50 86-137 44-107 (114)
31 COG5219 Uncharacterized conser 98.3 2.5E-07 5.4E-12 84.4 2.0 53 86-138 1467-1523(1525)
32 KOG0287 Postreplication repair 98.3 3E-07 6.6E-12 75.6 2.1 51 89-144 24-74 (442)
33 PF13445 zf-RING_UBOX: RING-ty 98.3 4.9E-07 1.1E-11 53.3 2.1 39 91-131 1-43 (43)
34 smart00744 RINGv The RING-vari 98.3 8.4E-07 1.8E-11 53.7 3.2 43 90-134 1-49 (49)
35 KOG2164 Predicted E3 ubiquitin 98.2 5.2E-07 1.1E-11 77.6 2.5 51 88-142 186-240 (513)
36 PF04564 U-box: U-box domain; 98.2 7.3E-07 1.6E-11 58.4 1.8 53 88-144 4-56 (73)
37 PF11793 FANCL_C: FANCL C-term 98.1 5.5E-07 1.2E-11 58.6 0.0 51 88-138 2-66 (70)
38 COG5432 RAD18 RING-finger-cont 98.0 2E-06 4.4E-11 69.5 1.7 46 89-139 26-71 (391)
39 KOG0804 Cytoplasmic Zn-finger 98.0 1.5E-06 3.3E-11 73.7 1.0 48 88-139 175-223 (493)
40 KOG2177 Predicted E3 ubiquitin 98.0 3.7E-06 8E-11 66.9 1.9 45 86-135 11-55 (386)
41 KOG0827 Predicted E3 ubiquitin 97.9 4.1E-06 8.9E-11 70.1 2.0 50 89-138 5-56 (465)
42 KOG1039 Predicted E3 ubiquitin 97.9 6.1E-06 1.3E-10 68.9 2.3 52 86-137 159-220 (344)
43 PF14835 zf-RING_6: zf-RING of 97.9 5E-06 1.1E-10 52.7 1.0 49 90-144 9-57 (65)
44 KOG1645 RING-finger-containing 97.7 3.4E-05 7.4E-10 65.0 4.2 63 88-151 4-69 (463)
45 KOG4172 Predicted E3 ubiquitin 97.7 7.4E-06 1.6E-10 50.1 0.2 46 88-137 7-53 (62)
46 KOG0824 Predicted E3 ubiquitin 97.7 2.1E-05 4.5E-10 63.9 2.4 50 88-141 7-56 (324)
47 KOG0311 Predicted E3 ubiquitin 97.7 6.4E-06 1.4E-10 68.2 -1.1 50 87-139 42-91 (381)
48 KOG4265 Predicted E3 ubiquitin 97.7 3E-05 6.5E-10 64.3 2.8 47 87-138 289-336 (349)
49 KOG4445 Uncharacterized conser 97.5 3E-05 6.6E-10 63.0 1.2 54 85-139 112-187 (368)
50 KOG0978 E3 ubiquitin ligase in 97.5 4E-05 8.6E-10 68.9 1.3 49 90-142 645-693 (698)
51 KOG0825 PHD Zn-finger protein 97.4 1.8E-05 3.9E-10 71.3 -1.6 48 90-139 125-172 (1134)
52 KOG4159 Predicted E3 ubiquitin 97.2 0.00022 4.7E-09 60.8 2.8 50 86-140 82-131 (398)
53 KOG1785 Tyrosine kinase negati 97.1 0.00019 4.1E-09 60.6 1.4 50 86-139 367-417 (563)
54 KOG0801 Predicted E3 ubiquitin 97.0 0.00022 4.7E-09 53.3 0.6 30 86-116 175-204 (205)
55 KOG0297 TNF receptor-associate 97.0 0.00049 1.1E-08 58.8 2.6 53 86-142 19-71 (391)
56 PF11789 zf-Nse: Zinc-finger o 97.0 0.00035 7.5E-09 43.6 1.3 43 87-132 10-53 (57)
57 KOG1940 Zn-finger protein [Gen 97.0 0.00085 1.8E-08 54.5 3.7 78 85-164 155-232 (276)
58 KOG1941 Acetylcholine receptor 96.9 0.00035 7.6E-09 58.9 1.1 46 88-134 365-412 (518)
59 PF14570 zf-RING_4: RING/Ubox 96.8 0.00089 1.9E-08 40.2 2.1 46 91-137 1-47 (48)
60 KOG1952 Transcription factor N 96.8 0.00065 1.4E-08 62.0 2.1 50 86-135 189-244 (950)
61 KOG1814 Predicted E3 ubiquitin 96.7 0.0021 4.5E-08 54.6 4.4 67 86-153 182-257 (445)
62 PHA02825 LAP/PHD finger-like p 96.7 0.0016 3.4E-08 48.6 3.2 49 86-139 6-60 (162)
63 PHA02862 5L protein; Provision 96.6 0.0011 2.5E-08 48.6 2.0 49 88-141 2-56 (156)
64 PF12906 RINGv: RING-variant d 96.6 0.0019 4.1E-08 38.6 2.3 41 91-133 1-47 (47)
65 KOG1428 Inhibitor of type V ad 96.5 0.0021 4.4E-08 62.0 3.5 66 72-139 3471-3545(3738)
66 KOG2879 Predicted E3 ubiquitin 96.5 0.0027 5.9E-08 51.2 3.7 52 85-139 236-288 (298)
67 KOG3039 Uncharacterized conser 96.4 0.0028 6E-08 50.5 3.2 57 86-143 219-275 (303)
68 KOG1002 Nucleotide excision re 96.4 0.0018 3.9E-08 56.6 2.0 50 86-139 534-587 (791)
69 PF05883 Baculo_RING: Baculovi 96.4 0.0014 3.1E-08 47.6 1.2 35 88-123 26-66 (134)
70 COG5152 Uncharacterized conser 96.3 0.0016 3.6E-08 50.2 1.2 44 89-137 197-240 (259)
71 PHA03096 p28-like protein; Pro 96.2 0.0024 5.3E-08 52.2 1.9 47 89-135 179-231 (284)
72 PF10367 Vps39_2: Vacuolar sor 96.2 0.0017 3.6E-08 44.9 0.8 33 86-120 76-108 (109)
73 COG5175 MOT2 Transcriptional r 96.0 0.0039 8.5E-08 51.8 2.1 56 85-140 11-66 (480)
74 KOG0826 Predicted E3 ubiquitin 96.0 0.017 3.6E-07 47.8 5.6 58 84-145 296-353 (357)
75 KOG2660 Locus-specific chromos 96.0 0.0017 3.7E-08 53.6 -0.2 48 87-138 14-61 (331)
76 KOG4692 Predicted E3 ubiquitin 95.9 0.0042 9.1E-08 51.9 1.6 62 85-151 419-480 (489)
77 KOG1571 Predicted E3 ubiquitin 95.7 0.0057 1.2E-07 51.1 1.8 47 83-137 300-346 (355)
78 PF04641 Rtf2: Rtf2 RING-finge 95.7 0.014 2.9E-07 47.2 3.8 53 85-139 110-162 (260)
79 KOG1813 Predicted E3 ubiquitin 95.6 0.0043 9.3E-08 50.6 0.6 45 89-138 242-286 (313)
80 KOG0827 Predicted E3 ubiquitin 95.4 0.0018 4E-08 54.5 -1.9 60 88-149 196-256 (465)
81 COG5222 Uncharacterized conser 95.4 0.0092 2E-07 48.9 2.1 44 89-135 275-318 (427)
82 KOG2114 Vacuolar assembly/sort 95.3 0.011 2.5E-07 54.2 2.5 42 89-137 841-882 (933)
83 KOG4185 Predicted E3 ubiquitin 95.2 0.021 4.5E-07 46.7 3.6 48 89-137 4-54 (296)
84 PF10272 Tmpp129: Putative tra 94.8 0.031 6.8E-07 47.1 3.5 28 112-139 313-352 (358)
85 PF08746 zf-RING-like: RING-li 94.8 0.019 4E-07 33.6 1.5 42 91-133 1-43 (43)
86 PF14447 Prok-RING_4: Prokaryo 94.7 0.019 4.1E-07 35.3 1.5 44 90-140 9-52 (55)
87 KOG4739 Uncharacterized protei 94.6 0.016 3.5E-07 46.0 1.3 44 90-138 5-48 (233)
88 KOG3268 Predicted E3 ubiquitin 94.5 0.034 7.3E-07 42.4 2.7 50 89-138 166-228 (234)
89 PF14446 Prok-RING_1: Prokaryo 94.4 0.049 1.1E-06 33.4 2.8 35 87-121 4-38 (54)
90 KOG3800 Predicted E3 ubiquitin 94.1 0.048 1E-06 44.5 3.0 49 90-138 2-51 (300)
91 COG5236 Uncharacterized conser 94.0 0.056 1.2E-06 45.3 3.2 52 83-138 56-108 (493)
92 KOG3053 Uncharacterized conser 93.4 0.037 8.1E-07 44.4 1.3 52 86-137 18-81 (293)
93 PF07800 DUF1644: Protein of u 93.2 0.09 1.9E-06 39.3 3.0 58 88-145 2-98 (162)
94 KOG4275 Predicted E3 ubiquitin 92.7 0.02 4.3E-07 46.8 -1.2 41 88-137 300-341 (350)
95 PF03854 zf-P11: P-11 zinc fin 92.4 0.042 9.2E-07 32.7 0.2 44 90-140 4-48 (50)
96 KOG1001 Helicase-like transcri 91.7 0.048 1E-06 49.8 -0.2 51 89-144 455-506 (674)
97 COG5220 TFB3 Cdk activating ki 91.3 0.088 1.9E-06 42.0 1.0 47 88-134 10-60 (314)
98 KOG0309 Conserved WD40 repeat- 90.2 0.19 4.2E-06 46.1 2.2 40 90-132 1030-1069(1081)
99 KOG0298 DEAD box-containing he 90.1 0.11 2.4E-06 50.0 0.6 45 87-135 1152-1196(1394)
100 KOG2034 Vacuolar sorting prote 90.0 0.17 3.7E-06 47.0 1.7 36 86-123 815-850 (911)
101 KOG3161 Predicted E3 ubiquitin 89.1 0.17 3.6E-06 45.7 1.0 42 90-135 13-54 (861)
102 KOG2932 E3 ubiquitin ligase in 88.3 0.2 4.3E-06 41.4 0.8 42 90-137 92-133 (389)
103 KOG1812 Predicted E3 ubiquitin 87.7 0.26 5.5E-06 42.2 1.2 38 87-125 145-183 (384)
104 KOG1100 Predicted E3 ubiquitin 87.6 0.26 5.6E-06 38.6 1.1 39 91-138 161-200 (207)
105 KOG1609 Protein involved in mR 86.5 0.51 1.1E-05 38.4 2.3 52 88-139 78-135 (323)
106 KOG3899 Uncharacterized conser 86.1 0.43 9.4E-06 39.2 1.6 30 110-139 325-366 (381)
107 PF07975 C1_4: TFIIH C1-like d 85.9 0.9 1.9E-05 27.6 2.6 43 91-134 2-50 (51)
108 COG5183 SSM4 Protein involved 85.7 0.47 1E-05 44.0 1.8 51 87-139 11-67 (1175)
109 KOG3002 Zn finger protein [Gen 85.7 0.66 1.4E-05 38.4 2.5 45 87-138 47-91 (299)
110 KOG2817 Predicted E3 ubiquitin 85.7 0.67 1.5E-05 39.5 2.6 46 88-134 334-381 (394)
111 TIGR00622 ssl1 transcription f 85.6 1.3 2.9E-05 31.3 3.6 47 88-135 55-111 (112)
112 smart00249 PHD PHD zinc finger 85.5 0.33 7E-06 27.6 0.5 30 91-121 2-31 (47)
113 PF06906 DUF1272: Protein of u 84.0 1.3 2.9E-05 27.3 2.7 45 90-139 7-53 (57)
114 KOG1829 Uncharacterized conser 83.7 0.4 8.7E-06 43.0 0.4 41 88-133 511-556 (580)
115 PF14569 zf-UDP: Zinc-binding 82.7 1.7 3.7E-05 28.7 3.0 52 87-138 8-62 (80)
116 KOG3579 Predicted E3 ubiquitin 82.4 0.91 2E-05 37.2 2.0 34 88-125 268-305 (352)
117 KOG3113 Uncharacterized conser 82.4 1.4 3E-05 35.5 3.0 50 87-139 110-159 (293)
118 KOG4718 Non-SMC (structural ma 81.4 1 2.2E-05 35.4 1.8 46 88-137 181-226 (235)
119 KOG4362 Transcriptional regula 81.2 0.4 8.7E-06 43.6 -0.5 52 89-144 22-75 (684)
120 PF05290 Baculo_IE-1: Baculovi 81.0 1.7 3.6E-05 31.7 2.7 53 87-139 79-133 (140)
121 KOG0269 WD40 repeat-containing 80.3 1.5 3.2E-05 40.4 2.8 41 89-132 780-820 (839)
122 PF02891 zf-MIZ: MIZ/SP-RING z 79.4 1.8 3.9E-05 25.9 2.1 43 90-136 4-50 (50)
123 KOG2807 RNA polymerase II tran 77.4 4 8.8E-05 34.1 4.2 62 72-135 314-375 (378)
124 KOG0802 E3 ubiquitin ligase [P 76.5 0.73 1.6E-05 41.1 -0.3 48 86-142 477-524 (543)
125 PF13901 DUF4206: Domain of un 76.2 1.8 4E-05 33.6 1.9 41 88-135 152-197 (202)
126 PF01363 FYVE: FYVE zinc finge 76.0 1.4 3E-05 27.8 1.0 38 86-123 7-44 (69)
127 PF00628 PHD: PHD-finger; Int 74.1 1.9 4.2E-05 25.3 1.2 44 90-134 1-49 (51)
128 COG3813 Uncharacterized protei 73.4 3 6.5E-05 27.1 2.0 45 90-139 7-53 (84)
129 PLN02189 cellulose synthase 71.2 4.6 0.0001 38.7 3.5 52 87-138 33-87 (1040)
130 KOG0825 PHD Zn-finger protein 71.0 3 6.5E-05 38.8 2.2 54 86-139 94-155 (1134)
131 KOG3005 GIY-YIG type nuclease 70.7 3 6.5E-05 33.9 1.9 57 88-144 182-249 (276)
132 PF10083 DUF2321: Uncharacteri 68.8 3.1 6.6E-05 31.1 1.5 24 112-139 28-51 (158)
133 PF09889 DUF2116: Uncharacteri 68.4 5.9 0.00013 24.7 2.5 26 127-152 3-29 (59)
134 PLN02915 cellulose synthase A 67.7 7.3 0.00016 37.4 4.0 53 86-138 13-68 (1044)
135 PF13719 zinc_ribbon_5: zinc-r 67.6 3.5 7.6E-05 23.0 1.3 13 90-102 4-16 (37)
136 PLN02436 cellulose synthase A 66.6 6.5 0.00014 37.9 3.5 52 87-138 35-89 (1094)
137 PF13717 zinc_ribbon_4: zinc-r 66.4 4.5 9.7E-05 22.5 1.5 13 90-102 4-16 (36)
138 PLN02195 cellulose synthase A 65.6 8.7 0.00019 36.7 4.1 53 86-138 4-59 (977)
139 PF10571 UPF0547: Uncharacteri 65.4 3.4 7.3E-05 21.4 0.8 7 91-97 3-9 (26)
140 KOG3842 Adaptor protein Pellin 63.7 7.3 0.00016 32.6 2.9 53 86-138 339-414 (429)
141 PF07649 C1_3: C1-like domain; 63.3 6.4 0.00014 20.7 1.7 29 90-119 2-30 (30)
142 smart00064 FYVE Protein presen 62.5 6.1 0.00013 24.7 1.8 37 88-124 10-46 (68)
143 KOG1815 Predicted E3 ubiquitin 62.3 5.2 0.00011 34.8 1.9 37 86-125 68-104 (444)
144 KOG0824 Predicted E3 ubiquitin 62.3 2.3 4.9E-05 35.2 -0.3 69 86-158 103-175 (324)
145 KOG2066 Vacuolar assembly/sort 61.7 3.5 7.5E-05 38.3 0.8 45 86-133 782-830 (846)
146 PLN02638 cellulose synthase A 61.6 9.6 0.00021 36.8 3.6 51 88-138 17-70 (1079)
147 smart00132 LIM Zinc-binding do 61.6 9.7 0.00021 20.3 2.4 37 90-137 1-37 (39)
148 PF00412 LIM: LIM domain; Int 59.7 8.1 0.00017 23.0 2.0 39 91-140 1-39 (58)
149 cd00065 FYVE FYVE domain; Zinc 58.9 6.8 0.00015 23.4 1.5 36 89-124 3-38 (57)
150 KOG1812 Predicted E3 ubiquitin 58.9 5.8 0.00013 34.0 1.6 44 88-133 306-351 (384)
151 COG5109 Uncharacterized conser 55.6 8.7 0.00019 32.1 2.0 45 88-133 336-382 (396)
152 PF04423 Rad50_zn_hook: Rad50 53.2 2.6 5.6E-05 25.5 -1.1 15 128-142 21-35 (54)
153 KOG4367 Predicted Zn-finger pr 52.2 8.2 0.00018 33.7 1.4 34 88-125 4-37 (699)
154 PLN02400 cellulose synthase 52.2 12 0.00025 36.3 2.6 52 87-138 35-89 (1085)
155 PF07191 zinc-ribbons_6: zinc- 52.1 4.9 0.00011 26.0 0.1 38 90-137 3-40 (70)
156 KOG2068 MOT2 transcription fac 49.3 14 0.0003 31.0 2.3 51 89-140 250-300 (327)
157 PF06844 DUF1244: Protein of u 48.9 11 0.00024 24.1 1.3 13 113-125 11-23 (68)
158 KOG3993 Transcription factor ( 48.1 3.5 7.5E-05 35.7 -1.4 54 86-153 265-319 (500)
159 cd00350 rubredoxin_like Rubred 47.1 13 0.00029 20.0 1.3 21 109-136 6-26 (33)
160 PF10497 zf-4CXXC_R1: Zinc-fin 46.6 29 0.00062 24.1 3.3 25 111-135 37-69 (105)
161 PF06676 DUF1178: Protein of u 45.6 7.1 0.00015 29.0 0.1 26 109-139 9-44 (148)
162 PRK04023 DNA polymerase II lar 45.4 42 0.00092 32.5 5.0 48 86-140 624-676 (1121)
163 PF13832 zf-HC5HC2H_2: PHD-zin 44.3 15 0.00033 25.1 1.6 32 88-121 55-87 (110)
164 COG4068 Uncharacterized protei 43.9 16 0.00035 22.8 1.4 17 126-142 7-23 (64)
165 KOG2041 WD40 repeat protein [G 42.3 18 0.00038 33.9 2.0 47 86-137 1129-1184(1189)
166 COG1545 Predicted nucleic-acid 42.1 14 0.00029 27.1 1.1 21 108-137 33-53 (140)
167 PF13120 DUF3974: Domain of un 42.0 29 0.00063 23.9 2.6 29 15-43 6-34 (126)
168 PF03107 C1_2: C1 domain; Int 42.0 15 0.00033 19.3 1.0 28 90-118 2-29 (30)
169 PF14311 DUF4379: Domain of un 39.6 21 0.00046 21.4 1.5 23 109-133 33-55 (55)
170 smart00734 ZnF_Rad18 Rad18-lik 38.4 26 0.00056 17.9 1.5 10 129-138 3-12 (26)
171 PF09538 FYDLN_acid: Protein o 38.1 19 0.00041 25.2 1.3 27 108-140 13-39 (108)
172 COG4357 Zinc finger domain con 37.7 37 0.0008 23.4 2.6 29 110-140 65-93 (105)
173 KOG4185 Predicted E3 ubiquitin 37.6 6 0.00013 32.2 -1.6 48 88-136 207-265 (296)
174 KOG1729 FYVE finger containing 35.4 8.8 0.00019 31.6 -0.9 42 88-130 214-255 (288)
175 COG4306 Uncharacterized protei 35.2 27 0.00058 25.4 1.6 8 130-137 71-78 (160)
176 PF04710 Pellino: Pellino; In 34.0 13 0.00029 31.9 0.0 52 87-138 327-401 (416)
177 PF07282 OrfB_Zn_ribbon: Putat 33.9 40 0.00087 20.9 2.2 31 87-117 27-59 (69)
178 PF13771 zf-HC5HC2H: PHD-like 33.5 26 0.00056 22.9 1.3 32 88-121 36-68 (90)
179 PF06750 DiS_P_DiS: Bacterial 33.3 40 0.00087 22.7 2.2 44 88-145 33-76 (92)
180 KOG3039 Uncharacterized conser 32.9 33 0.00072 27.8 2.0 34 88-125 43-76 (303)
181 PF04216 FdhE: Protein involve 32.6 5.7 0.00012 32.5 -2.4 48 89-137 173-221 (290)
182 smart00647 IBR In Between Ring 32.5 14 0.0003 22.3 -0.1 20 103-122 39-58 (64)
183 PF14169 YdjO: Cold-inducible 32.0 29 0.00062 21.7 1.2 13 127-139 39-51 (59)
184 PRK09174 F0F1 ATP synthase sub 31.8 85 0.0018 24.4 4.2 27 2-29 43-69 (204)
185 KOG4323 Polycomb-like PHD Zn-f 31.3 29 0.00062 30.6 1.6 49 88-136 168-224 (464)
186 COG5151 SSL1 RNA polymerase II 30.7 82 0.0018 26.5 4.0 63 72-135 346-418 (421)
187 smart00109 C1 Protein kinase C 30.5 40 0.00086 18.9 1.7 34 88-121 11-44 (49)
188 PF09723 Zn-ribbon_8: Zinc rib 30.4 12 0.00025 21.4 -0.7 25 109-135 10-34 (42)
189 COG1592 Rubrerythrin [Energy p 30.3 41 0.00088 25.5 2.0 25 104-136 134-158 (166)
190 PF06937 EURL: EURL protein; 30.3 73 0.0016 26.1 3.6 45 89-133 31-76 (285)
191 COG4847 Uncharacterized protei 30.3 48 0.001 22.8 2.2 35 88-124 6-40 (103)
192 smart00531 TFIIE Transcription 29.8 41 0.0009 24.5 2.0 14 127-140 123-136 (147)
193 PRK11088 rrmA 23S rRNA methylt 28.8 36 0.00078 27.2 1.7 27 89-116 3-29 (272)
194 PF13913 zf-C2HC_2: zinc-finge 28.8 32 0.0007 17.3 0.9 15 129-143 4-18 (25)
195 COG3364 Zn-ribbon containing p 28.4 30 0.00065 24.1 1.0 24 109-137 7-30 (112)
196 TIGR02300 FYDLN_acid conserved 28.0 40 0.00087 24.4 1.6 29 106-140 11-39 (129)
197 KOG0956 PHD finger protein AF1 27.8 38 0.00081 31.5 1.7 51 86-137 115-181 (900)
198 KOG3726 Uncharacterized conser 27.3 36 0.00077 31.4 1.5 42 88-133 654-695 (717)
199 KOG2071 mRNA cleavage and poly 26.9 30 0.00066 31.2 1.0 35 87-123 512-557 (579)
200 KOG2979 Protein involved in DN 26.4 40 0.00087 27.3 1.5 42 89-133 177-219 (262)
201 PRK06266 transcription initiat 26.1 1.3E+02 0.0027 22.9 4.2 15 127-141 136-150 (178)
202 COG3492 Uncharacterized protei 26.0 39 0.00085 23.0 1.2 13 113-125 42-54 (104)
203 PF13240 zinc_ribbon_2: zinc-r 25.9 43 0.00092 16.5 1.0 11 130-140 2-12 (23)
204 KOG1245 Chromatin remodeling c 25.7 28 0.0006 34.9 0.6 51 86-137 1106-1159(1404)
205 KOG3816 Cell differentiation r 25.4 41 0.0009 29.1 1.5 35 86-124 86-120 (526)
206 PF05605 zf-Di19: Drought indu 25.3 59 0.0013 19.3 1.8 7 130-136 34-40 (54)
207 PRK01343 zinc-binding protein; 24.9 46 0.001 20.6 1.2 12 127-138 9-20 (57)
208 KOG1815 Predicted E3 ubiquitin 24.8 40 0.00087 29.3 1.3 38 88-126 226-268 (444)
209 PF13878 zf-C2H2_3: zinc-finge 24.8 1E+02 0.0022 17.4 2.6 22 127-148 13-34 (41)
210 KOG4021 Mitochondrial ribosoma 24.5 36 0.00078 26.6 0.8 23 115-137 96-118 (239)
211 PF05502 Dynactin_p62: Dynacti 24.4 41 0.00088 29.8 1.3 17 86-102 24-40 (483)
212 PF09943 DUF2175: Uncharacteri 24.4 69 0.0015 22.2 2.2 34 89-124 3-36 (101)
213 PHA02909 hypothetical protein; 24.2 1.8E+02 0.004 17.9 3.9 25 3-27 23-47 (72)
214 PF11023 DUF2614: Protein of u 23.1 1.1E+02 0.0023 21.7 2.9 13 127-139 85-97 (114)
215 PF10717 ODV-E18: Occlusion-de 23.1 1.8E+02 0.0039 19.5 3.8 21 7-27 18-38 (85)
216 PF13248 zf-ribbon_3: zinc-rib 22.7 59 0.0013 16.3 1.2 7 129-135 18-24 (26)
217 KOG4443 Putative transcription 22.4 45 0.00098 30.6 1.2 27 109-135 40-70 (694)
218 PRK00418 DNA gyrase inhibitor; 22.4 45 0.00097 21.0 0.8 11 128-138 7-17 (62)
219 PRK05978 hypothetical protein; 22.3 48 0.001 24.6 1.2 22 112-139 43-64 (148)
220 TIGR01562 FdhE formate dehydro 22.0 22 0.00048 29.5 -0.7 47 88-136 184-233 (305)
221 PF02318 FYVE_2: FYVE-type zin 21.6 55 0.0012 22.9 1.3 45 87-134 53-101 (118)
222 PRK03564 formate dehydrogenase 21.5 42 0.00092 28.0 0.8 47 87-135 186-234 (309)
223 PF03119 DNA_ligase_ZBD: NAD-d 21.3 31 0.00068 17.9 -0.0 10 129-138 1-10 (28)
224 PF15446 zf-PHD-like: PHD/FYVE 20.7 51 0.0011 25.1 1.0 30 91-121 2-34 (175)
225 PF12773 DZR: Double zinc ribb 20.7 53 0.0012 18.9 0.9 12 127-138 29-40 (50)
226 PRK11827 hypothetical protein; 20.5 37 0.00081 21.2 0.2 18 121-139 3-20 (60)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.73 E-value=2e-18 Score=142.36 Aligned_cols=76 Identities=34% Similarity=0.882 Sum_probs=63.2
Q ss_pred CCCCHHHHHhhCCCcccccccccCCCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 61 APVSARLIREILPVIKFQDLEMVNGDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 61 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
..+.++.+++ +|...|.+.....+. +.|+||+|+|+.+++++.| ||+|.||..||+.|+.+.+..||+||..+...
T Consensus 205 ~r~~k~~l~~-~p~~~f~~~~~~~~~--~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 205 NRLIKRLLKK-LPVRTFTKGDDEDAT--DTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD 280 (348)
T ss_pred hhhHHHHHhh-CCcEEeccccccCCC--ceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence 4456666655 899999888743332 6999999999999999999 89999999999999998556699999987653
No 2
>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=99.54 E-value=2e-15 Score=89.81 Aligned_cols=44 Identities=45% Similarity=1.275 Sum_probs=39.4
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccC
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCR 134 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr 134 (169)
++|+||++++..++.+..+ +|+|.||.+|+.+|++. +.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHh-CCcCCccC
Confidence 4799999999998899999 79999999999999997 77999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.40 E-value=2.9e-13 Score=107.26 Aligned_cols=75 Identities=29% Similarity=0.727 Sum_probs=54.0
Q ss_pred CCCHHHHHhhCCCcccccccccCCCccccccccccccccCc----eeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 62 PVSARLIREILPVIKFQDLEMVNGDPPENCAVCLYEFEGGE----EIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 62 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
+.++..+ +.+|.+..+-......+.+.+|+||++.+..+. .+..+++|+|.||..||.+|+.. +.+||+||.++
T Consensus 149 ~~~~~~i-~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~ 226 (238)
T PHA02929 149 KNYKKFL-KTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPF 226 (238)
T ss_pred chhHHHH-HhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEe
Confidence 3344444 447877655433223345679999999987543 23456689999999999999986 88999999876
Q ss_pred C
Q 030902 138 V 138 (169)
Q Consensus 138 ~ 138 (169)
.
T Consensus 227 ~ 227 (238)
T PHA02929 227 I 227 (238)
T ss_pred e
Confidence 4
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=4.1e-13 Score=108.12 Aligned_cols=53 Identities=38% Similarity=0.928 Sum_probs=47.9
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
....+|+|||++|..+++++.+ ||.|.||..|+++|+...+..||+||.++++
T Consensus 321 ~~GveCaICms~fiK~d~~~vl-PC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEe-ccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3446999999999999999999 8999999999999998547789999999986
No 5
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.33 E-value=9.4e-13 Score=86.59 Aligned_cols=46 Identities=43% Similarity=1.092 Sum_probs=35.3
Q ss_pred cccccccccccccc----------CceeeEcCCCCCcchHhhHHHHHhcCCCCCCccC
Q 030902 87 PPENCAVCLYEFEG----------GEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCR 134 (169)
Q Consensus 87 ~~~~C~ICl~~~~~----------~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr 134 (169)
.++.|+||++.+.. +..+.. ++|+|.||..||.+|++. +.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~-~~C~H~FH~~Ci~~Wl~~-~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVW-GPCGHIFHFHCISQWLKQ-NNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEE-ETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEe-cccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence 35579999999932 223333 489999999999999987 77999997
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=1.2e-11 Score=102.23 Aligned_cols=68 Identities=31% Similarity=0.807 Sum_probs=50.9
Q ss_pred HHHHhhCCCcccccccccCCCccccccccccc-cccC---------ceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 66 RLIREILPVIKFQDLEMVNGDPPENCAVCLYE-FEGG---------EEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 66 ~~i~~~l~~~~~~~~~~~~~~~~~~C~ICl~~-~~~~---------~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
+++.+.+|+.+.++.. .+|..|.|||++ ++.+ .+-.+| +|||.+|.+|+..|+.+ +++||+||.
T Consensus 269 kdl~~~~~t~t~eql~----n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ER-qQTCPICr~ 342 (491)
T COG5243 269 KDLNAMYPTATEEQLT----NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLER-QQTCPICRR 342 (491)
T ss_pred hHHHhhcchhhhhhhc----CCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHh-ccCCCcccC
Confidence 3445557776665553 456689999999 4443 133456 89999999999999997 899999999
Q ss_pred CCCC
Q 030902 136 PFVP 139 (169)
Q Consensus 136 ~~~~ 139 (169)
++.-
T Consensus 343 p~if 346 (491)
T COG5243 343 PVIF 346 (491)
T ss_pred cccc
Confidence 9643
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.11 E-value=2.5e-11 Score=92.91 Aligned_cols=60 Identities=18% Similarity=0.580 Sum_probs=46.4
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhc---------------CCCCCCccCCCCCCChHHHHHHHH
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH---------------DQKTCPLCRTPFVPDEMQEEFNQR 149 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~---------------~~~~CP~Cr~~~~~~~~~~~~~~~ 149 (169)
.++.+|+||++.++.+..+ +|||.||+.||..|+.. ++..||+||..+...++...+.+-
T Consensus 16 ~~~~~CpICld~~~dPVvT----~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg 90 (193)
T PLN03208 16 GGDFDCNICLDQVRDPVVT----LCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRG 90 (193)
T ss_pred CCccCCccCCCcCCCcEEc----CCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccC
Confidence 4567999999998766433 89999999999999852 134799999999877666554443
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=2e-11 Score=95.13 Aligned_cols=66 Identities=23% Similarity=0.514 Sum_probs=50.5
Q ss_pred CCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcC--CCCCCccCCCCCCChHHHHHHHHHHHhc
Q 030902 85 GDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHD--QKTCPLCRTPFVPDEMQEEFNQRLWAAS 154 (169)
Q Consensus 85 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~~~~~~~~~~~~~~~~ 154 (169)
+....+|.|||+.-+++ |.. .|||.||+.||.+|++.. .+.||+|+..+..++++..|.+-....+
T Consensus 44 ~~~~FdCNICLd~akdP--VvT--lCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~ 111 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP--VVT--LCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSKKPS 111 (230)
T ss_pred CCCceeeeeeccccCCC--EEe--ecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCCCCC
Confidence 46677999999996555 433 599999999999999763 3459999999988887776655444333
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=8.3e-11 Score=94.33 Aligned_cols=51 Identities=31% Similarity=0.855 Sum_probs=44.9
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCCh
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDE 141 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 141 (169)
..+..|.+|||..+++..+ ||||+||+.||..|... +..||+||....+..
T Consensus 237 ~a~~kC~LCLe~~~~pSaT----pCGHiFCWsCI~~w~~e-k~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSAT----PCGHIFCWSCILEWCSE-KAECPLCREKFQPSK 287 (293)
T ss_pred CCCCceEEEecCCCCCCcC----cCcchHHHHHHHHHHcc-ccCCCcccccCCCcc
Confidence 4456899999999998888 99999999999999986 778999999987654
No 10
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.05 E-value=1.3e-10 Score=77.76 Aligned_cols=52 Identities=31% Similarity=0.928 Sum_probs=39.9
Q ss_pred cccccccccccccc--------Cc--eeeEcCCCCCcchHhhHHHHHhcC--CCCCCccCCCCCC
Q 030902 87 PPENCAVCLYEFEG--------GE--EIRWLRNCKHIFHRACLDPWMDHD--QKTCPLCRTPFVP 139 (169)
Q Consensus 87 ~~~~C~ICl~~~~~--------~~--~~~~l~~C~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~ 139 (169)
.++.|.||+..|+. ++ .+. ...|+|.||..||.+|+... +..||+||.+...
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv-~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLV-WGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCcee-eccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 47799999999973 22 222 33899999999999999852 5679999997643
No 11
>PHA02926 zinc finger-like protein; Provisional
Probab=99.04 E-value=8.3e-11 Score=91.40 Aligned_cols=54 Identities=28% Similarity=0.727 Sum_probs=41.5
Q ss_pred CCcccccccccccccc-----CceeeEcCCCCCcchHhhHHHHHhcC-----CCCCCccCCCCC
Q 030902 85 GDPPENCAVCLYEFEG-----GEEIRWLRNCKHIFHRACLDPWMDHD-----QKTCPLCRTPFV 138 (169)
Q Consensus 85 ~~~~~~C~ICl~~~~~-----~~~~~~l~~C~H~fh~~Ci~~wl~~~-----~~~CP~Cr~~~~ 138 (169)
.+.+.+|+||+|..-. +..-..|++|+|.||..||..|...+ ..+||+||..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 3556799999998633 22356778999999999999999752 235999998763
No 12
>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=99.02 E-value=3e-10 Score=66.37 Aligned_cols=45 Identities=47% Similarity=1.212 Sum_probs=35.7
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
.|+||++.+.. .+... +|+|.||..|+..|+..+...||.|+..+
T Consensus 1 ~C~iC~~~~~~--~~~~~-~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--PVVLL-PCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--ceEec-CCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 58999999833 33333 79999999999999986566899998753
No 13
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=5.7e-10 Score=83.87 Aligned_cols=57 Identities=19% Similarity=0.606 Sum_probs=45.4
Q ss_pred cCCCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChH
Q 030902 83 VNGDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEM 142 (169)
Q Consensus 83 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 142 (169)
..+.+...|+|||+.+.+...+ -+.|||+||+.||..-+.. ...||+|+..+..+.+
T Consensus 126 ~~~~~~~~CPiCl~~~sek~~v--sTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 126 LRKEGTYKCPICLDSVSEKVPV--STKCGHVFCSQCIKDALKN-TNKCPTCRKKITHKQF 182 (187)
T ss_pred cccccccCCCceecchhhcccc--ccccchhHHHHHHHHHHHh-CCCCCCcccccchhhh
Confidence 3445567899999999876543 2389999999999999986 7799999987765543
No 14
>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=98.93 E-value=5.7e-10 Score=67.91 Aligned_cols=46 Identities=30% Similarity=0.875 Sum_probs=37.0
Q ss_pred cccccccccccccCceeeEcCCCCCc-chHhhHHHHHhcCCCCCCccCCCCC
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHI-FHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
+..|.||++...+ +..+ +|||. |+..|+.+|+.. ...||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~-pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLL-PCGHLCFCEECAERLLKR-KKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEE-TTCEEEEEHHHHHHHHHT-TSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEe-CCCChHHHHHHhHHhccc-CCCCCcCChhhc
Confidence 4689999998554 4444 89999 999999999985 889999999874
No 15
>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=98.91 E-value=1.1e-09 Score=63.22 Aligned_cols=39 Identities=28% Similarity=0.945 Sum_probs=31.8
Q ss_pred ccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCcc
Q 030902 91 CAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLC 133 (169)
Q Consensus 91 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~C 133 (169)
|+||++.+.++ +..+ +|||.|+..|+.+|++. +..||+|
T Consensus 1 C~iC~~~~~~~--~~~~-~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--VVVT-PCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--EEEC-TTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCc--CEEC-CCCCchhHHHHHHHHHC-cCCCcCC
Confidence 88999998773 3344 99999999999999997 7899998
No 16
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=3.8e-10 Score=99.58 Aligned_cols=62 Identities=35% Similarity=0.758 Sum_probs=48.3
Q ss_pred CccccccccccccccCce--eeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHHHHHHH
Q 030902 86 DPPENCAVCLYEFEGGEE--IRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQEEFNQR 149 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~--~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~ 149 (169)
..+..|+||+|.+..+.. ...+ +|+|.||..|+.+|+++ +++||+||..+...........+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er-~qtCP~CR~~~~~~~~~~~~~~~ 352 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFER-QQTCPTCRTVLYDYVLWQIAALQ 352 (543)
T ss_pred hcCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHH-hCcCCcchhhhhccccccccCCc
Confidence 446789999999988644 5566 89999999999999997 89999999966554443333333
No 17
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.83 E-value=2.1e-09 Score=63.11 Aligned_cols=39 Identities=33% Similarity=0.853 Sum_probs=30.3
Q ss_pred ccccccccccCceeeEcCCCCCcchHhhHHHHHhcCC---CCCCcc
Q 030902 91 CAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQ---KTCPLC 133 (169)
Q Consensus 91 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~---~~CP~C 133 (169)
|+||++.|.++..+ +|||.|+..||.+|....+ ..||.|
T Consensus 1 CpiC~~~~~~Pv~l----~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL----PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc----CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999998776 9999999999999997633 359987
No 18
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.77 E-value=3.9e-09 Score=61.37 Aligned_cols=40 Identities=43% Similarity=1.053 Sum_probs=33.6
Q ss_pred ccccccccccCceeeEcCCCCCcchHhhHHHHHh-cCCCCCCcc
Q 030902 91 CAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMD-HDQKTCPLC 133 (169)
Q Consensus 91 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~~CP~C 133 (169)
|+||++.+..+. ..+ +|+|.|+..|+.+|+. .+...||.|
T Consensus 1 C~iC~~~~~~~~--~~~-~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILL-PCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EET-TTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEe-cCCCcchHHHHHHHHHhcCCccCCcC
Confidence 889999987765 344 9999999999999998 446679988
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.74 E-value=9.6e-09 Score=60.84 Aligned_cols=44 Identities=30% Similarity=0.831 Sum_probs=35.6
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
.|.||.+++.+......+ +|||.|+..|+..+.. ....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~-~CgH~~C~~C~~~~~~-~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLT-SCGHIFCEKCLKKLKG-KSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEc-ccCCHHHHHHHHhhcC-CCCCCcCCCC
Confidence 489999999555455555 9999999999999883 3668999974
No 20
>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=98.72 E-value=1.1e-08 Score=57.63 Aligned_cols=39 Identities=38% Similarity=1.098 Sum_probs=31.3
Q ss_pred ccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCcc
Q 030902 91 CAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLC 133 (169)
Q Consensus 91 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~C 133 (169)
|+||++... ....+ +|+|.||..|++.|+...+..||.|
T Consensus 1 C~iC~~~~~---~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789998833 34445 8999999999999998546679987
No 21
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=3.3e-08 Score=84.50 Aligned_cols=52 Identities=38% Similarity=0.933 Sum_probs=40.9
Q ss_pred ccccccccccccc-----Cc--------eeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 88 PENCAVCLYEFEG-----GE--------EIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 88 ~~~C~ICl~~~~~-----~~--------~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
..+|+|||.++.- +. .-.+++||.|+||..|+.+|....+-.||+||.++++
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4589999999742 11 1135679999999999999998546689999999875
No 22
>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=98.70 E-value=1.4e-08 Score=64.17 Aligned_cols=51 Identities=14% Similarity=0.361 Sum_probs=42.7
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHH
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQE 144 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~ 144 (169)
..|+||.+.+.++... +|||+|+..||.+|+.. +.+||.|+.++...++..
T Consensus 2 ~~Cpi~~~~~~~Pv~~----~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~l~~ 52 (63)
T smart00504 2 FLCPISLEVMKDPVIL----PSGQTYERRAIEKWLLS-HGTDPVTGQPLTHEDLIP 52 (63)
T ss_pred cCCcCCCCcCCCCEEC----CCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhhcee
Confidence 3699999999887433 89999999999999986 779999999886655544
No 23
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=3.6e-08 Score=76.87 Aligned_cols=74 Identities=28% Similarity=0.677 Sum_probs=59.9
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhc-------CCCCCCccCCCCCC---------ChHHHHHHHH
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH-------DQKTCPLCRTPFVP---------DEMQEEFNQR 149 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-------~~~~CP~Cr~~~~~---------~~~~~~~~~~ 149 (169)
+.+..|..|-..+..++.++.. |-|.||++|+++|..+ ....||.|..++.+ +.+.+...+.
T Consensus 48 DY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L~qv 125 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQLKQV 125 (299)
T ss_pred CCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHHHhh
Confidence 4566899999999999887655 9999999999999865 23569999888865 4567789999
Q ss_pred HHHhcCCCchhc
Q 030902 150 LWAASGVDDLFS 161 (169)
Q Consensus 150 ~~~~~~~~~~~~ 161 (169)
+|+|+++-....
T Consensus 126 NWaRagLGLpll 137 (299)
T KOG3970|consen 126 NWARAGLGLPLL 137 (299)
T ss_pred hHHhhccCCccc
Confidence 999998755443
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.61 E-value=2.6e-08 Score=65.35 Aligned_cols=48 Identities=35% Similarity=0.931 Sum_probs=36.0
Q ss_pred ccccccccccc-----------cCc--eeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 89 ENCAVCLYEFE-----------GGE--EIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 89 ~~C~ICl~~~~-----------~~~--~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
+.|+||+..+- +++ .+..- -|.|.||.+||.+|+.. +..||++|....
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG-~CnHaFH~HCI~rWL~T-k~~CPld~q~w~ 81 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWG-VCNHAFHDHCIYRWLDT-KGVCPLDRQTWV 81 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEE-ecchHHHHHHHHHHHhh-CCCCCCCCceeE
Confidence 57778777653 222 22222 69999999999999997 889999998764
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.59 E-value=1.9e-08 Score=85.23 Aligned_cols=48 Identities=27% Similarity=0.611 Sum_probs=40.6
Q ss_pred ccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
....|+||++.|..+... +|+|.||..||..|+.. ...||+|+..+..
T Consensus 25 ~~l~C~IC~d~~~~Pvit----pCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 25 TSLRCHICKDFFDVPVLT----SCSHTFCSLCIRRCLSN-QPKCPLCRAEDQE 72 (397)
T ss_pred cccCCCcCchhhhCccCC----CCCCchhHHHHHHHHhC-CCCCCCCCCcccc
Confidence 345999999999877533 99999999999999986 6689999998754
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=7.1e-08 Score=76.76 Aligned_cols=51 Identities=33% Similarity=0.693 Sum_probs=42.3
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHH-HHhcCCCC-CCccCCCCCCCh
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDP-WMDHDQKT-CPLCRTPFVPDE 141 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~-wl~~~~~~-CP~Cr~~~~~~~ 141 (169)
..+..|.||++..+.+... +|||+||+.||-. |-.+ +.. ||+||+...++.
T Consensus 213 ~~d~kC~lC~e~~~~ps~t----~CgHlFC~~Cl~~~~t~~-k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCT----PCGHLFCLSCLLISWTKK-KYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCcccc----cccchhhHHHHHHHHHhh-ccccCchhhhhccchh
Confidence 4477899999998777666 8999999999999 8776 444 999999886654
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=7.1e-08 Score=77.01 Aligned_cols=52 Identities=29% Similarity=0.671 Sum_probs=42.4
Q ss_pred CccccccccccccccCc-------eeeEcCCCCCcchHhhHHHHHhcC-CCCCCccCCCCC
Q 030902 86 DPPENCAVCLYEFEGGE-------EIRWLRNCKHIFHRACLDPWMDHD-QKTCPLCRTPFV 138 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~-------~~~~l~~C~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~ 138 (169)
.++..|+||-..+.... ++..| .|+|+||..||+.|-..+ +++||-|+..+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 45669999998886554 67788 899999999999998653 678999987663
No 28
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=4.6e-08 Score=63.70 Aligned_cols=53 Identities=34% Similarity=0.948 Sum_probs=38.0
Q ss_pred Ccccccccccccccc--------Ccee-eEcCCCCCcchHhhHHHHHhc--CCCCCCccCCCCC
Q 030902 86 DPPENCAVCLYEFEG--------GEEI-RWLRNCKHIFHRACLDPWMDH--DQKTCPLCRTPFV 138 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~--------~~~~-~~l~~C~H~fh~~Ci~~wl~~--~~~~CP~Cr~~~~ 138 (169)
..++.|-||+-.|.. +|.. ..+..|.|.||..||.+|+.. ++..||+||..+.
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 345589999988863 2211 123369999999999999965 2456999998653
No 29
>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=98.35 E-value=3.2e-07 Score=75.20 Aligned_cols=53 Identities=21% Similarity=0.571 Sum_probs=39.6
Q ss_pred cccccccccc-cccCc-eeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCCh
Q 030902 88 PENCAVCLYE-FEGGE-EIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDE 141 (169)
Q Consensus 88 ~~~C~ICl~~-~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 141 (169)
+..|++|..+ +-+++ .+.+- +|||.||..|++..+..+...||.|+..+...+
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4589999996 33443 33333 799999999999977655678999998876544
No 30
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=2.5e-07 Score=63.63 Aligned_cols=50 Identities=28% Similarity=0.747 Sum_probs=37.4
Q ss_pred Cccccccccccccc--------------cCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 86 DPPENCAVCLYEFE--------------GGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 86 ~~~~~C~ICl~~~~--------------~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
-.-+.|+||+.-+- ++-.+..- -|.|.||..||.+|++. ++.||+|....
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG-~CNHaFH~hCisrWlkt-r~vCPLdn~eW 107 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWG-VCNHAFHFHCISRWLKT-RNVCPLDNKEW 107 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEee-ecchHHHHHHHHHHHhh-cCcCCCcCcce
Confidence 34568999987651 11233334 79999999999999997 88999997654
No 31
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.31 E-value=2.5e-07 Score=84.41 Aligned_cols=53 Identities=30% Similarity=0.768 Sum_probs=40.9
Q ss_pred CccccccccccccccCc---eeeEcCCCCCcchHhhHHHHHhcC-CCCCCccCCCCC
Q 030902 86 DPPENCAVCLYEFEGGE---EIRWLRNCKHIFHRACLDPWMDHD-QKTCPLCRTPFV 138 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~---~~~~l~~C~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~ 138 (169)
++.++|+||...+..-+ .-.+.+.|.|.||..|+.+|+... ..+||+||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 67789999998876211 223445799999999999999763 567999998764
No 32
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.30 E-value=3e-07 Score=75.58 Aligned_cols=51 Identities=20% Similarity=0.600 Sum_probs=43.4
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHH
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQE 144 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~ 144 (169)
-.|.||.|.|..+..+ ||+|.||.-||+..|.. +..||.|+.++.+..+..
T Consensus 24 LRC~IC~eyf~ip~it----pCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~Lr~ 74 (442)
T KOG0287|consen 24 LRCGICFEYFNIPMIT----PCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESDLRN 74 (442)
T ss_pred HHHhHHHHHhcCceec----cccchHHHHHHHHHhcc-CCCCCceecccchhhhhh
Confidence 3899999999777555 99999999999999986 889999999887655444
No 33
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.27 E-value=4.9e-07 Score=53.25 Aligned_cols=39 Identities=31% Similarity=0.751 Sum_probs=21.9
Q ss_pred ccccccccccCcee-eEcCCCCCcchHhhHHHHHhcC---CCCCC
Q 030902 91 CAVCLYEFEGGEEI-RWLRNCKHIFHRACLDPWMDHD---QKTCP 131 (169)
Q Consensus 91 C~ICl~~~~~~~~~-~~l~~C~H~fh~~Ci~~wl~~~---~~~CP 131 (169)
|+||.| |..++.. ..| +|||+|+.+|+.+++..+ ...||
T Consensus 1 CpIc~e-~~~~~n~P~~L-~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVL-PCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE--SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEE-eCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 7654433 456 799999999999999853 33476
No 34
>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=98.27 E-value=8.4e-07 Score=53.75 Aligned_cols=43 Identities=30% Similarity=0.855 Sum_probs=31.5
Q ss_pred cccccccccccCceeeEcCCCC-----CcchHhhHHHHHhcC-CCCCCccC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCK-----HIFHRACLDPWMDHD-QKTCPLCR 134 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~~-~~~CP~Cr 134 (169)
.|.||++...++ ..... ||. |.+|..|+.+|+... +.+||+|+
T Consensus 1 ~CrIC~~~~~~~-~~l~~-PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEG-DPLVS-PCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCC-CeeEe-ccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 489999833333 33455 786 889999999999753 44799995
No 35
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=5.2e-07 Score=77.64 Aligned_cols=51 Identities=25% Similarity=0.656 Sum_probs=39.1
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhcC----CCCCCccCCCCCCChH
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHD----QKTCPLCRTPFVPDEM 142 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~----~~~CP~Cr~~~~~~~~ 142 (169)
+..|+||++....+... .|||+||..||-+.+... ...||+||..+-.+++
T Consensus 186 ~~~CPICL~~~~~p~~t----~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl 240 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRT----NCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL 240 (513)
T ss_pred CCcCCcccCCCCccccc----ccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence 77999999985544333 799999999998777553 3469999998866443
No 36
>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=98.19 E-value=7.3e-07 Score=58.41 Aligned_cols=53 Identities=15% Similarity=0.388 Sum_probs=40.7
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHH
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQE 144 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~ 144 (169)
...|+|+.+-|.++..+ ++||.|.+.+|..|+..++.+||.|+.++...++..
T Consensus 4 ~f~CpIt~~lM~dPVi~----~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~p 56 (73)
T PF04564_consen 4 EFLCPITGELMRDPVIL----PSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIP 56 (73)
T ss_dssp GGB-TTTSSB-SSEEEE----TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE
T ss_pred ccCCcCcCcHhhCceeC----CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceE
Confidence 45899999999998766 899999999999999876778999999887655543
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.11 E-value=5.5e-07 Score=58.60 Aligned_cols=51 Identities=25% Similarity=0.606 Sum_probs=23.9
Q ss_pred cccccccccccccCce--eeEc--CCCCCcchHhhHHHHHhc---CC-------CCCCccCCCCC
Q 030902 88 PENCAVCLYEFEGGEE--IRWL--RNCKHIFHRACLDPWMDH---DQ-------KTCPLCRTPFV 138 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~--~~~l--~~C~H~fh~~Ci~~wl~~---~~-------~~CP~Cr~~~~ 138 (169)
+.+|.||++.+..++. .... ..|+..||..|+.+|+.. .+ ..||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 3589999998762222 2222 379999999999999964 11 24999998763
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.03 E-value=2e-06 Score=69.50 Aligned_cols=46 Identities=26% Similarity=0.590 Sum_probs=39.7
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
..|.||.+.+..+... +|||.||.-||...|.. +..||+||.+...
T Consensus 26 lrC~IC~~~i~ip~~T----tCgHtFCslCIR~hL~~-qp~CP~Cr~~~~e 71 (391)
T COG5432 26 LRCRICDCRISIPCET----TCGHTFCSLCIRRHLGT-QPFCPVCREDPCE 71 (391)
T ss_pred HHhhhhhheeecceec----ccccchhHHHHHHHhcC-CCCCccccccHHh
Confidence 4899999998776655 99999999999999985 8899999987643
No 39
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.03 E-value=1.5e-06 Score=73.70 Aligned_cols=48 Identities=35% Similarity=0.841 Sum_probs=37.9
Q ss_pred cccccccccccccCce-eeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 88 PENCAVCLYEFEGGEE-IRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~-~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
-..|+||||.+..... ++.. .|.|.||..|+..|- ..+||+||.-..+
T Consensus 175 LPTCpVCLERMD~s~~gi~t~-~c~Hsfh~~cl~~w~---~~scpvcR~~q~p 223 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTI-LCNHSFHCSCLMKWW---DSSCPVCRYCQSP 223 (493)
T ss_pred CCCcchhHhhcCccccceeee-ecccccchHHHhhcc---cCcChhhhhhcCc
Confidence 4589999999976542 2333 799999999999995 4499999987763
No 40
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=3.7e-06 Score=66.93 Aligned_cols=45 Identities=36% Similarity=0.769 Sum_probs=38.1
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
.+...|+||++.|..+ ..+ +|+|.||..|+..+.. ....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l-~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLL-PCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---ccc-cccchHhHHHHHHhcC-CCcCCcccCC
Confidence 3455899999999998 444 8999999999999987 4678999993
No 41
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=4.1e-06 Score=70.07 Aligned_cols=50 Identities=30% Similarity=0.878 Sum_probs=37.0
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCC--CCCCccCCCCC
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQ--KTCPLCRTPFV 138 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~~CP~Cr~~~~ 138 (169)
..|.||-+-+-....+.....|||+||..|+.+|+.... .+||+|+-.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 489999444444556666645999999999999998743 47999984443
No 42
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=6.1e-06 Score=68.87 Aligned_cols=52 Identities=31% Similarity=0.832 Sum_probs=40.6
Q ss_pred CccccccccccccccCc----eeeEcCCCCCcchHhhHHHHHhcCC------CCCCccCCCC
Q 030902 86 DPPENCAVCLYEFEGGE----EIRWLRNCKHIFHRACLDPWMDHDQ------KTCPLCRTPF 137 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~----~~~~l~~C~H~fh~~Ci~~wl~~~~------~~CP~Cr~~~ 137 (169)
..+..|.||++..-... ..+++++|.|.||..||+.|-...+ ..||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 44679999999975443 2456679999999999999995533 5699998854
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.86 E-value=5e-06 Score=52.70 Aligned_cols=49 Identities=27% Similarity=0.735 Sum_probs=24.3
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHH
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQE 144 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~ 144 (169)
.|++|.+-++++..+ +.|+|.|+..|+..-+. ..||+|+.+....+++-
T Consensus 9 rCs~C~~~l~~pv~l---~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~qD~~~ 57 (65)
T PF14835_consen 9 RCSICFDILKEPVCL---GGCEHIFCSSCIRDCIG---SECPVCHTPAWIQDIQI 57 (65)
T ss_dssp S-SSS-S--SS-B------SSS--B-TTTGGGGTT---TB-SSS--B-S-SS---
T ss_pred CCcHHHHHhcCCcee---ccCccHHHHHHhHHhcC---CCCCCcCChHHHHHHHh
Confidence 799999998877443 38999999999988543 36999998876666543
No 44
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=3.4e-05 Score=65.03 Aligned_cols=63 Identities=27% Similarity=0.773 Sum_probs=44.5
Q ss_pred ccccccccccccc-Cc-eeeEcCCCCCcchHhhHHHHHhcC-CCCCCccCCCCCCChHHHHHHHHHH
Q 030902 88 PENCAVCLYEFEG-GE-EIRWLRNCKHIFHRACLDPWMDHD-QKTCPLCRTPFVPDEMQEEFNQRLW 151 (169)
Q Consensus 88 ~~~C~ICl~~~~~-~~-~~~~l~~C~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~~~~~~~~~~~~ 151 (169)
...|+||++.+.. ++ .+..+ .|||.|-..||++|+.+. ...||.|...-....+..++..+.+
T Consensus 4 g~tcpiclds~~~~g~hr~vsl-~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~alR~q 69 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSL-QCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEYALRVQ 69 (463)
T ss_pred cccCceeeeeeeecCceEEeee-cccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHHHHHHH
Confidence 4589999999874 33 44455 999999999999999531 3459999776555555554444433
No 45
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=7.4e-06 Score=50.12 Aligned_cols=46 Identities=24% Similarity=0.586 Sum_probs=34.3
Q ss_pred cccccccccccccCceeeEcCCCCCc-chHhhHHHHHhcCCCCCCccCCCC
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHI-FHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
+++|.||+|.-.+.... -|||. .+-+|..+..+..+..||+||+++
T Consensus 7 ~dECTICye~pvdsVlY----tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLY----TCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcchHHHH----HcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 46999999974443222 69994 788887766654588999999986
No 46
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=2.1e-05 Score=63.93 Aligned_cols=50 Identities=28% Similarity=0.588 Sum_probs=41.4
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCCh
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDE 141 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 141 (169)
..+|+||+.+..-+.. + .|+|.||.-||..-...++.+|++||.++...-
T Consensus 7 ~~eC~IC~nt~n~Pv~---l-~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVN---L-YCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccCCcCcc---c-cccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 4589999999766633 3 899999999999877776778999999997643
No 47
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=6.4e-06 Score=68.16 Aligned_cols=50 Identities=24% Similarity=0.556 Sum_probs=42.0
Q ss_pred ccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
.+..|+|||+-++....+. .|.|.||..||..-+..+...||.||..+..
T Consensus 42 ~~v~c~icl~llk~tmttk---eClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMTTK---ECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhccHHHHHHHHhhcccH---HHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 3558999999987765443 8999999999999998878899999987753
No 48
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=3e-05 Score=64.33 Aligned_cols=47 Identities=28% Similarity=0.750 Sum_probs=37.3
Q ss_pred ccccccccccccccCceeeEcCCCCCc-chHhhHHHHHhcCCCCCCccCCCCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHI-FHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
...+|.|||.+-.+ +..| ||.|. .|..|.+...-+ +..||+||.++.
T Consensus 289 ~gkeCVIClse~rd---t~vL-PCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSESRD---TVVL-PCRHLCLCSGCAKSLRYQ-TNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecCCcc---eEEe-cchhhehhHhHHHHHHHh-hcCCCccccchH
Confidence 35689999998544 4455 99995 999999987654 778999999873
No 49
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.54 E-value=3e-05 Score=63.03 Aligned_cols=54 Identities=30% Similarity=0.774 Sum_probs=43.1
Q ss_pred CCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhc----------------------CCCCCCccCCCCCC
Q 030902 85 GDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH----------------------DQKTCPLCRTPFVP 139 (169)
Q Consensus 85 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----------------------~~~~CP~Cr~~~~~ 139 (169)
......|.|||--|..++..... .|.|.||..|+.+.++. -+..||+||.++..
T Consensus 112 n~p~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCCCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 35567999999999999877777 89999999999877633 02349999988754
No 50
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=4e-05 Score=68.93 Aligned_cols=49 Identities=24% Similarity=0.753 Sum_probs=39.5
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChH
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEM 142 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 142 (169)
.|++|-...++-..+ .|+|+||..|+..-+..++..||.|...+-+.++
T Consensus 645 kCs~Cn~R~Kd~vI~----kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 645 KCSVCNTRWKDAVIT----KCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred eCCCccCchhhHHHH----hcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence 799998665443333 7999999999999998778889999998866554
No 51
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.42 E-value=1.8e-05 Score=71.33 Aligned_cols=48 Identities=27% Similarity=0.550 Sum_probs=36.8
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
.|++|+..+..+...... +|+|.||..|+..|-.. .++||+||..+-.
T Consensus 125 ~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRC-AQTCPVDRGEFGE 172 (1134)
T ss_pred hhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhh-cccCchhhhhhhe
Confidence 466666666554444444 89999999999999986 8899999987643
No 52
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.00022 Score=60.82 Aligned_cols=50 Identities=32% Similarity=0.631 Sum_probs=43.0
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
..+.+|.||..-+.++... +|||.|+..|+.+-+.+ ...||.||..+...
T Consensus 82 ~sef~c~vc~~~l~~pv~t----pcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e~ 131 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVT----PCGHSFCLECLDRSLDQ-ETECPLCRDELVEL 131 (398)
T ss_pred cchhhhhhhHhhcCCCccc----cccccccHHHHHHHhcc-CCCCcccccccccc
Confidence 5567999999999888776 99999999999997774 67799999999753
No 53
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.12 E-value=0.00019 Score=60.61 Aligned_cols=50 Identities=30% Similarity=0.800 Sum_probs=38.9
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcC-CCCCCccCCCCCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHD-QKTCPLCRTPFVP 139 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~ 139 (169)
+.-..|.||-|. +..+.+- ||||..|..|+..|-... .++||.||..+..
T Consensus 367 sTFeLCKICaen---dKdvkIE-PCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 367 STFELCKICAEN---DKDVKIE-PCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred chHHHHHHhhcc---CCCcccc-cccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 445679999775 3345555 899999999999998553 6789999987754
No 54
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.01 E-value=0.00022 Score=53.33 Aligned_cols=30 Identities=37% Similarity=0.886 Sum_probs=27.1
Q ss_pred CccccccccccccccCceeeEcCCCCCcchH
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHR 116 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~ 116 (169)
....+|.||||+++.++.+.+| ||-.+||+
T Consensus 175 ddkGECvICLEdL~~GdtIARL-PCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARL-PCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceecc-ceEEEeec
Confidence 4456999999999999999999 89999996
No 55
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.97 E-value=0.00049 Score=58.78 Aligned_cols=53 Identities=25% Similarity=0.607 Sum_probs=43.9
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChH
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEM 142 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 142 (169)
..+..|++|+..+..+... . .|||.||..|+..|+.. +..||.|+..+...+.
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEE 71 (391)
T ss_pred cccccCccccccccCCCCC--C-CCCCcccccccchhhcc-CcCCcccccccchhhc
Confidence 4456899999999888763 2 89999999999999997 8899999887754433
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.97 E-value=0.00035 Score=43.57 Aligned_cols=43 Identities=23% Similarity=0.617 Sum_probs=27.9
Q ss_pred ccccccccccccccCceeeEcCCCCCcchHhhHHHHHhc-CCCCCCc
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH-DQKTCPL 132 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~~CP~ 132 (169)
-...|+|.+..|+++ ++.. .|+|.|-+..|.+|+.. +...||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 345899999998876 4444 89999999999999943 2445998
No 57
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.96 E-value=0.00085 Score=54.49 Aligned_cols=78 Identities=18% Similarity=0.258 Sum_probs=59.6
Q ss_pred CCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHHHHHHHHHHhcCCCchhcccC
Q 030902 85 GDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQEEFNQRLWAASGVDDLFSEYS 164 (169)
Q Consensus 85 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 164 (169)
......|+||.+.+-.........+|||..|..|....... ..+||+|.+ +.+........+..-+++++++.+++..
T Consensus 155 ~~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~-~y~CP~C~~-~~d~~~~~~~~d~~l~~~~~p~~y~~~~ 232 (276)
T KOG1940|consen 155 RSSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE-GYTCPICSK-PGDMSHYFRKLDKELAGSPMPEEYKNKT 232 (276)
T ss_pred hcccCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc-CCCCCcccc-hHHHHHHHHHHHHHHhcCCCCchhhchh
Confidence 34455699999997655544433399999999999999886 499999988 7677777777777778888887766653
No 58
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.90 E-value=0.00035 Score=58.87 Aligned_cols=46 Identities=33% Similarity=0.813 Sum_probs=36.5
Q ss_pred cccccccccccc-cCceeeEcCCCCCcchHhhHHHHHhcC-CCCCCccC
Q 030902 88 PENCAVCLYEFE-GGEEIRWLRNCKHIFHRACLDPWMDHD-QKTCPLCR 134 (169)
Q Consensus 88 ~~~C~ICl~~~~-~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~~CP~Cr 134 (169)
.-.|..|-|.+. .++.+.-| ||.|+||..|+...+.++ ..+||.||
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqAL-pCsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQAL-PCSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred hhhhhhhhhhhcCCccccccc-chhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 347999988875 34456666 899999999999998653 45799998
No 59
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.81 E-value=0.00089 Score=40.16 Aligned_cols=46 Identities=24% Similarity=0.683 Sum_probs=22.8
Q ss_pred ccccccccccCc-eeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 91 CAVCLYEFEGGE-EIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 91 C~ICl~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
|++|.+++...+ ...-. +|++..+..|...-+......||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 788999984433 44434 78899999998887764467899999864
No 60
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.81 E-value=0.00065 Score=62.01 Aligned_cols=50 Identities=22% Similarity=0.718 Sum_probs=41.5
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCC------CCCCccCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQ------KTCPLCRT 135 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~------~~CP~Cr~ 135 (169)
....+|.||.+.+.....+-....|-|+||..||..|..... -.||.|+.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 556799999999998888877778889999999999996522 24999984
No 61
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.74 E-value=0.0021 Score=54.57 Aligned_cols=67 Identities=25% Similarity=0.634 Sum_probs=49.4
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhc----C---CCCCCc--cCCCCCCChHHHHHHHHHHHh
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH----D---QKTCPL--CRTPFVPDEMQEEFNQRLWAA 153 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----~---~~~CP~--Cr~~~~~~~~~~~~~~~~~~~ 153 (169)
.....|.||.++.....-...+ ||+|+||+.|+...+.. + .-.||- |....++..+.+.......+|
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~ar 257 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFAR 257 (445)
T ss_pred hhcccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHH
Confidence 3456899999998777778788 89999999999988854 1 234754 455566666666666666665
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.72 E-value=0.0016 Score=48.58 Aligned_cols=49 Identities=27% Similarity=0.776 Sum_probs=35.1
Q ss_pred CccccccccccccccCceeeEcCCCCC-----cchHhhHHHHHhcC-CCCCCccCCCCCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKH-----IFHRACLDPWMDHD-QKTCPLCRTPFVP 139 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H-----~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~ 139 (169)
..+..|-||.++-. +... ||.. ..|.+|+.+|+..+ ...|++|+.++.-
T Consensus 6 ~~~~~CRIC~~~~~--~~~~---PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 6 LMDKCCWICKDEYD--VVTN---YCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCeeEecCCCCC--CccC---CcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 44568999998843 2222 5553 56999999999763 4469999887643
No 63
>PHA02862 5L protein; Provisional
Probab=96.63 E-value=0.0011 Score=48.55 Aligned_cols=49 Identities=22% Similarity=0.652 Sum_probs=35.8
Q ss_pred cccccccccccccCceeeEcCCCC-----CcchHhhHHHHHhcC-CCCCCccCCCCCCCh
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCK-----HIFHRACLDPWMDHD-QKTCPLCRTPFVPDE 141 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~~ 141 (169)
++.|-||+++-++ .+. ||. ...|.+|+.+|+... +..|++|+.++.-+.
T Consensus 2 ~diCWIC~~~~~e--~~~---PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVCDE--RNN---FCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcCCC--Ccc---cccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 3589999998433 333 555 579999999999763 446999999875433
No 64
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.57 E-value=0.0019 Score=38.59 Aligned_cols=41 Identities=32% Similarity=0.919 Sum_probs=26.9
Q ss_pred ccccccccccCceeeEcCCCC--C---cchHhhHHHHHhc-CCCCCCcc
Q 030902 91 CAVCLYEFEGGEEIRWLRNCK--H---IFHRACLDPWMDH-DQKTCPLC 133 (169)
Q Consensus 91 C~ICl~~~~~~~~~~~l~~C~--H---~fh~~Ci~~wl~~-~~~~CP~C 133 (169)
|-||+++-.....+ .. ||. - ..|..|+.+|+.. ++.+|++|
T Consensus 1 CrIC~~~~~~~~~l-i~-pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPL-IS-PCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-E-E--SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCce-ec-ccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 77999987665522 22 555 3 7899999999975 34569887
No 65
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.55 E-value=0.0021 Score=62.02 Aligned_cols=66 Identities=24% Similarity=0.581 Sum_probs=48.4
Q ss_pred CCCcccccccccCCCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcC---------CCCCCccCCCCCC
Q 030902 72 LPVIKFQDLEMVNGDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHD---------QKTCPLCRTPFVP 139 (169)
Q Consensus 72 l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~---------~~~CP~Cr~~~~~ 139 (169)
+|-...++.... .+.++.|.||..+--.......| .|+|.||..|.+.-+.++ -..||+|+.++..
T Consensus 3471 LPCl~Cdks~tk-QD~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3471 LPCLHCDKSATK-QDADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccccccChhhhh-cccCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 565554444432 25577999999887666677778 899999999998777652 1359999998865
No 66
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.54 E-value=0.0027 Score=51.21 Aligned_cols=52 Identities=31% Similarity=0.549 Sum_probs=39.7
Q ss_pred CCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcC-CCCCCccCCCCCC
Q 030902 85 GDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHD-QKTCPLCRTPFVP 139 (169)
Q Consensus 85 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~ 139 (169)
...+.+|++|-+.-..+.... +|+|+||-.|+..-..-. ..+||.|..+..+
T Consensus 236 ~t~~~~C~~Cg~~PtiP~~~~---~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIPHVIG---KCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred ccCCceeeccCCCCCCCeeec---cccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 356779999999866665552 699999999998765431 3589999887754
No 67
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.44 E-value=0.0028 Score=50.52 Aligned_cols=57 Identities=14% Similarity=0.297 Sum_probs=49.7
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHH
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQ 143 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~ 143 (169)
+....|+||.+.+.+......|.+|||+|...|.++.+.. -..||+|..++.+.++.
T Consensus 219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdrdiI 275 (303)
T KOG3039|consen 219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDRDII 275 (303)
T ss_pred ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCcccceE
Confidence 3567899999999999988899999999999999999875 67899999988876654
No 68
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.39 E-value=0.0018 Score=56.64 Aligned_cols=50 Identities=26% Similarity=0.637 Sum_probs=38.6
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhc----CCCCCCccCCCCCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH----DQKTCPLCRTPFVP 139 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----~~~~CP~Cr~~~~~ 139 (169)
.+..+|.+|.+.-+..... .|.|.||+-|+.+++.. .+.+||+|-..+.-
T Consensus 534 k~~~~C~lc~d~aed~i~s----~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIES----SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred cCceeecccCChhhhhHhh----hhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 3456899999986665555 89999999999877743 35689999877643
No 69
>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=96.39 E-value=0.0014 Score=47.59 Aligned_cols=35 Identities=14% Similarity=0.588 Sum_probs=28.0
Q ss_pred cccccccccccccCceeeEcCCCC------CcchHhhHHHHH
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCK------HIFHRACLDPWM 123 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~------H~fh~~Ci~~wl 123 (169)
..+|+||++.+.+.+-+..+ .|+ |.||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~v-t~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYV-TDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEE-ecCCeehHHHHHHHHHHHHHH
Confidence 45999999999884555555 455 899999999994
No 70
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.31 E-value=0.0016 Score=50.24 Aligned_cols=44 Identities=20% Similarity=0.488 Sum_probs=37.5
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
..|.||-++|+.+... .|||.||..|...-.+. ...|-+|.+..
T Consensus 197 F~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~k-g~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQK-GDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccchhhh----hcchhHHHHHHHHHhcc-CCcceecchhh
Confidence 3899999999998777 89999999999887764 66899997654
No 71
>PHA03096 p28-like protein; Provisional
Probab=96.23 E-value=0.0024 Score=52.22 Aligned_cols=47 Identities=28% Similarity=0.559 Sum_probs=35.1
Q ss_pred ccccccccccccC----ceeeEcCCCCCcchHhhHHHHHhcC--CCCCCccCC
Q 030902 89 ENCAVCLYEFEGG----EEIRWLRNCKHIFHRACLDPWMDHD--QKTCPLCRT 135 (169)
Q Consensus 89 ~~C~ICl~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~~--~~~CP~Cr~ 135 (169)
..|.||++..... ..-..|+.|.|.|+..|+..|.... ...||.||.
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 5899999997643 3455778999999999999999653 234555544
No 72
>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=96.22 E-value=0.0017 Score=44.85 Aligned_cols=33 Identities=21% Similarity=0.590 Sum_probs=26.4
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHH
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLD 120 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~ 120 (169)
.++..|++|...+.++ ..... ||||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~~-~f~~~-p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNS-VFVVF-PCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCc-eEEEe-CCCeEEeccccc
Confidence 3456899999999774 55566 899999999975
No 73
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.01 E-value=0.0039 Score=51.85 Aligned_cols=56 Identities=16% Similarity=0.437 Sum_probs=38.1
Q ss_pred CCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 85 GDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 85 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
+++++.|+.|+|++...++--.--+||-..|.-|...--+.-+..||.||....+.
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 44555699999999876643322289987777776554433355899999876553
No 74
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.99 E-value=0.017 Score=47.85 Aligned_cols=58 Identities=19% Similarity=0.343 Sum_probs=43.7
Q ss_pred CCCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHHH
Q 030902 84 NGDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQEE 145 (169)
Q Consensus 84 ~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~ 145 (169)
.......|++|+....++..+. --|-+||..|+...+.. ++.||+=..+..-.++...
T Consensus 296 l~~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~-~~~CPVT~~p~~v~~l~rl 353 (357)
T KOG0826|consen 296 LPPDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVN-YGHCPVTGYPASVDHLIRL 353 (357)
T ss_pred CCCccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHh-cCCCCccCCcchHHHHHHH
Confidence 3345568999999998887663 34899999999999985 8899987666554444443
No 75
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.97 E-value=0.0017 Score=53.57 Aligned_cols=48 Identities=25% Similarity=0.653 Sum_probs=39.9
Q ss_pred ccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
....|.+|-..|.+...+. -|-|.||+.||...+.. ...||.|...+-
T Consensus 14 ~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~-~~~CP~C~i~ih 61 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEE-SKYCPTCDIVIH 61 (331)
T ss_pred cceehhhccceeecchhHH---HHHHHHHHHHHHHHHHH-hccCCccceecc
Confidence 4558999999987765553 79999999999999997 889999977553
No 76
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.85 E-value=0.0042 Score=51.91 Aligned_cols=62 Identities=16% Similarity=0.332 Sum_probs=45.3
Q ss_pred CCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHHHHHHHHH
Q 030902 85 GDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQEEFNQRLW 151 (169)
Q Consensus 85 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~ 151 (169)
++++..|+||...-.+.. ..||+|.-|..||.+.+.+ .+.|=.|+..+.+..+......+.|
T Consensus 419 ~sEd~lCpICyA~pi~Av----f~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~~~~ld~~~~~~~d 480 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPINAV----FAPCSHRSCYGCITQHLMN-CKRCFFCKTTVIDVILDKEEEEEED 480 (489)
T ss_pred CcccccCcceecccchhh----ccCCCCchHHHHHHHHHhc-CCeeeEecceeeehhcccccccccc
Confidence 367789999987633332 2399999999999999986 8899999998876544443333333
No 77
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.0057 Score=51.10 Aligned_cols=47 Identities=28% Similarity=0.554 Sum_probs=34.4
Q ss_pred cCCCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 83 VNGDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 83 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
..++..+.|.||+++.++-..+ +|||.-+ |..--.+ ...||+||..+
T Consensus 300 ~~~~~p~lcVVcl~e~~~~~fv----pcGh~cc--ct~cs~~--l~~CPvCR~rI 346 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDEPKSAVFV----PCGHVCC--CTLCSKH--LPQCPVCRQRI 346 (355)
T ss_pred cccCCCCceEEecCCccceeee----cCCcEEE--chHHHhh--CCCCchhHHHH
Confidence 3445667999999998886666 9999866 6554332 34599999876
No 78
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.65 E-value=0.014 Score=47.23 Aligned_cols=53 Identities=30% Similarity=0.646 Sum_probs=43.0
Q ss_pred CCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 85 GDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 85 ~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
......|+|...+|........+.+|||+|-..++.+.- ....||+|..++..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTE 162 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCcccc
Confidence 355678999999997777777777999999999999973 25579999888654
No 79
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.57 E-value=0.0043 Score=50.58 Aligned_cols=45 Identities=20% Similarity=0.394 Sum_probs=38.4
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
..|-||...|..+... .|+|.||..|...-++. ...|++|.....
T Consensus 242 f~c~icr~~f~~pVvt----~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVT----KCGHYFCEVCALKPYQK-GEKCYVCSQQTH 286 (313)
T ss_pred ccccccccccccchhh----cCCceeehhhhcccccc-CCcceecccccc
Confidence 4699999999998777 89999999999887764 678999977664
No 80
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.44 E-value=0.0018 Score=54.52 Aligned_cols=60 Identities=20% Similarity=0.546 Sum_probs=48.5
Q ss_pred cccccccccccccC-ceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHHHHHHH
Q 030902 88 PENCAVCLYEFEGG-EEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQEEFNQR 149 (169)
Q Consensus 88 ~~~C~ICl~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~ 149 (169)
...|+||-+.++.. +++..+ .|||.+|..|+.+|+.. ...||.|++.++...+..+.+..
T Consensus 196 v~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~~~~e~k~A~~ 256 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLAT-KRKLPSCRRELPKNGFEEKLAFF 256 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHH-HHHhHHHHhhhhhhhHHHHHHHH
Confidence 45899999999876 556566 89999999999999987 77899999999876665554333
No 81
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.42 E-value=0.0092 Score=48.90 Aligned_cols=44 Identities=20% Similarity=0.544 Sum_probs=36.0
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
-.|+.|..-+.++.+. +-|+|.||..||..-|......||+|..
T Consensus 275 LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCccc
Confidence 4799999988887665 3799999999999877655778999944
No 82
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.33 E-value=0.011 Score=54.18 Aligned_cols=42 Identities=24% Similarity=0.656 Sum_probs=33.4
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
..|..|-..++-+..- . .|||.||.+|.+. +...||.|+...
T Consensus 841 skCs~C~~~LdlP~Vh--F-~CgHsyHqhC~e~----~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVH--F-LCGHSYHQHCLED----KEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccceee--e-ecccHHHHHhhcc----CcccCCccchhh
Confidence 5899999998877432 3 6999999999982 466899998744
No 83
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.23 E-value=0.021 Score=46.66 Aligned_cols=48 Identities=25% Similarity=0.739 Sum_probs=39.3
Q ss_pred ccccccccccccCc--ee-eEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 89 ENCAVCLYEFEGGE--EI-RWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 89 ~~C~ICl~~~~~~~--~~-~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
..|-||-++|+..+ .+ +.| .|||.++..|+...+......||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 47999999998653 33 344 89999999999999887666799999984
No 84
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=94.77 E-value=0.031 Score=47.13 Aligned_cols=28 Identities=25% Similarity=0.803 Sum_probs=21.8
Q ss_pred CcchHhhHHHHHhcC------------CCCCCccCCCCCC
Q 030902 112 HIFHRACLDPWMDHD------------QKTCPLCRTPFVP 139 (169)
Q Consensus 112 H~fh~~Ci~~wl~~~------------~~~CP~Cr~~~~~ 139 (169)
-.+|.+|+.+|+..+ +-.||+||+.++-
T Consensus 313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 467899999999652 3459999998864
No 85
>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=94.76 E-value=0.019 Score=33.64 Aligned_cols=42 Identities=24% Similarity=0.690 Sum_probs=22.1
Q ss_pred ccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCC-CCCcc
Q 030902 91 CAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQK-TCPLC 133 (169)
Q Consensus 91 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~-~CP~C 133 (169)
|.+|.+-.-.+..-..- .|+-.+|..|+..++..... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 56676665555443222 58889999999999976333 59987
No 86
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=94.69 E-value=0.019 Score=35.32 Aligned_cols=44 Identities=32% Similarity=0.688 Sum_probs=29.8
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
.|-.|...-..+ ..+ +|+|..+..|...+- -+.||.|..++...
T Consensus 9 ~~~~~~~~~~~~---~~~-pCgH~I~~~~f~~~r---YngCPfC~~~~~~~ 52 (55)
T PF14447_consen 9 PCVFCGFVGTKG---TVL-PCGHLICDNCFPGER---YNGCPFCGTPFEFD 52 (55)
T ss_pred eEEEcccccccc---ccc-cccceeeccccChhh---ccCCCCCCCcccCC
Confidence 455554442222 233 999999999987752 44799999988654
No 87
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=94.62 E-value=0.016 Score=45.99 Aligned_cols=44 Identities=25% Similarity=0.682 Sum_probs=31.5
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
.|..|...-. ++..... .|+|+||..|...-. ...||+|+.++-
T Consensus 5 hCn~C~~~~~-~~~f~LT-aC~HvfC~~C~k~~~---~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLT-ACRHVFCEPCLKASS---PDVCPLCKKSIR 48 (233)
T ss_pred EeccccccCC-CCceeee-echhhhhhhhcccCC---ccccccccceee
Confidence 4777755544 6666666 999999999976521 238999998764
No 88
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.48 E-value=0.034 Score=42.41 Aligned_cols=50 Identities=26% Similarity=0.653 Sum_probs=32.0
Q ss_pred cccccccccccc---CceeeEcCCCCCcchHhhHHHHHhc----CC------CCCCccCCCCC
Q 030902 89 ENCAVCLYEFEG---GEEIRWLRNCKHIFHRACLDPWMDH----DQ------KTCPLCRTPFV 138 (169)
Q Consensus 89 ~~C~ICl~~~~~---~~~~~~l~~C~H~fh~~Ci~~wl~~----~~------~~CP~Cr~~~~ 138 (169)
..|-||...--. ++.+..-.+|+.-||.-|+..|+.. ++ ..||.|..++-
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 356666543221 2222222289999999999999954 11 34999988764
No 89
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.38 E-value=0.049 Score=33.43 Aligned_cols=35 Identities=29% Similarity=0.674 Sum_probs=30.0
Q ss_pred ccccccccccccccCceeeEcCCCCCcchHhhHHH
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDP 121 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~ 121 (169)
....|.+|-+.|.+++.+...+.|+-.+|++|.+.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 34589999999998888888889999999999544
No 90
>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=94.09 E-value=0.048 Score=44.45 Aligned_cols=49 Identities=18% Similarity=0.451 Sum_probs=39.1
Q ss_pred ccccccccc-ccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 90 NCAVCLYEF-EGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 90 ~C~ICl~~~-~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
.|++|..+. -+++......+|+|..|.+|.+..+..+...||-|...+-
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 588888763 4555555555999999999999999988888999977654
No 91
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.97 E-value=0.056 Score=45.28 Aligned_cols=52 Identities=29% Similarity=0.439 Sum_probs=36.3
Q ss_pred cCCCccccccccccccccCceeeEcCCCCCcchHhhHHHHHh-cCCCCCCccCCCCC
Q 030902 83 VNGDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMD-HDQKTCPLCRTPFV 138 (169)
Q Consensus 83 ~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~~CP~Cr~~~~ 138 (169)
..+.++..|.||-+.+.- +..+ ||+|..|-.|.-+.-. ..+..||+||....
T Consensus 56 dtDEen~~C~ICA~~~TY---s~~~-PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 56 DTDEENMNCQICAGSTTY---SARY-PCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccceeEEecCCceE---EEec-cCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 345567789999887432 3334 9999999999765432 24678999998653
No 92
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.42 E-value=0.037 Score=44.40 Aligned_cols=52 Identities=29% Similarity=0.842 Sum_probs=35.3
Q ss_pred CccccccccccccccCceeeEcCCCC-----CcchHhhHHHHHhcCC-------CCCCccCCCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCK-----HIFHRACLDPWMDHDQ-------KTCPLCRTPF 137 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~~~-------~~CP~Cr~~~ 137 (169)
..+..|-||.+.=++.......-||. |..|..|+..|+..++ ..||.|+...
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 34568999998855443221122453 8999999999996522 2499998865
No 93
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=93.25 E-value=0.09 Score=39.31 Aligned_cols=58 Identities=22% Similarity=0.491 Sum_probs=37.5
Q ss_pred cccccccccccccCceeeEc---CC-----CCC-cchHhhHHHHHhc------------------------------CCC
Q 030902 88 PENCAVCLYEFEGGEEIRWL---RN-----CKH-IFHRACLDPWMDH------------------------------DQK 128 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l---~~-----C~H-~fh~~Ci~~wl~~------------------------------~~~ 128 (169)
+..|+||||--.+...+.-. .+ |+. .-|..|+++.-+. .+-
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 81 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL 81 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence 56899999985554322110 01 342 4588899987643 023
Q ss_pred CCCccCCCCCCChHHHH
Q 030902 129 TCPLCRTPFVPDEMQEE 145 (169)
Q Consensus 129 ~CP~Cr~~~~~~~~~~~ 145 (169)
.||+||..+..+..++.
T Consensus 82 ~CPLCRG~V~GWtvve~ 98 (162)
T PF07800_consen 82 ACPLCRGEVKGWTVVEP 98 (162)
T ss_pred cCccccCceeceEEchH
Confidence 59999999988776664
No 94
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.75 E-value=0.02 Score=46.79 Aligned_cols=41 Identities=27% Similarity=0.724 Sum_probs=29.3
Q ss_pred cccccccccccccCceeeEcCCCCCc-chHhhHHHHHhcCCCCCCccCCCC
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHI-FHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
+..|+||++. +.....| +|||. -|..|... -+.||+||..+
T Consensus 300 ~~LC~ICmDa---P~DCvfL-eCGHmVtCt~CGkr-----m~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDA---PRDCVFL-ECGHMVTCTKCGKR-----MNECPICRQYI 341 (350)
T ss_pred HHHHHHHhcC---CcceEEe-ecCcEEeehhhccc-----cccCchHHHHH
Confidence 5679999986 4455667 89994 55666443 34899999765
No 95
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=92.36 E-value=0.042 Score=32.73 Aligned_cols=44 Identities=27% Similarity=0.779 Sum_probs=24.5
Q ss_pred cccccccccccCceeeEcCCCC-CcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCK-HIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~-H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
.|.-|.-. +...+ .|. |..+..|+...+.. ...||+|..++|.+
T Consensus 4 nCKsCWf~--~k~Li----~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 4 NCKSCWFA--NKGLI----KCSDHYLCLNCLTLMLSR-SDRCPICGKPLPTK 48 (50)
T ss_dssp ---SS-S----SSEE----E-SS-EEEHHHHHHT-SS-SSEETTTTEE----
T ss_pred cChhhhhc--CCCee----eecchhHHHHHHHHHhcc-ccCCCcccCcCccc
Confidence 45555533 34445 677 99999999999875 66899999988753
No 96
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.69 E-value=0.048 Score=49.76 Aligned_cols=51 Identities=24% Similarity=0.580 Sum_probs=37.2
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCC-CCCccCCCCCCChHHH
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQK-TCPLCRTPFVPDEMQE 144 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~-~CP~Cr~~~~~~~~~~ 144 (169)
..|.+|++ .... ... +|+|.|+..|+..-+...+. .||.||..+..+.+.+
T Consensus 455 ~~c~ic~~-~~~~---~it-~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD-LDSF---FIT-RCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc-cccc---eee-cccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 68999999 2222 222 79999999999988765433 4999998876655544
No 97
>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=91.33 E-value=0.088 Score=42.01 Aligned_cols=47 Identities=23% Similarity=0.544 Sum_probs=36.1
Q ss_pred ccccccccccc-ccCc-eeeEcCCCCCcchHhhHHHHHhcCCCCCC--ccC
Q 030902 88 PENCAVCLYEF-EGGE-EIRWLRNCKHIFHRACLDPWMDHDQKTCP--LCR 134 (169)
Q Consensus 88 ~~~C~ICl~~~-~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP--~Cr 134 (169)
+..|+||..+- -+++ ++.+-|.|-|..|.+|.++-+..+...|| -|.
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 45899999884 3444 44444449999999999999998788899 664
No 98
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.18 E-value=0.19 Score=46.06 Aligned_cols=40 Identities=28% Similarity=0.816 Sum_probs=27.6
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCc
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPL 132 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~ 132 (169)
.|+||.-.+.....+. ..|+|+.|.+|...|+.. ...||.
T Consensus 1030 ~C~~C~l~V~gss~~C--g~C~Hv~H~sc~~eWf~~-gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGSSNFC--GTCGHVGHTSCMMEWFRT-GDVCPS 1069 (1081)
T ss_pred eeeeEeeEeeccchhh--ccccccccHHHHHHHHhc-CCcCCC
Confidence 4666655443333322 269999999999999987 657874
No 99
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=90.14 E-value=0.11 Score=50.02 Aligned_cols=45 Identities=24% Similarity=0.627 Sum_probs=37.1
Q ss_pred ccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
....|.||++.+.+...+. .|||.++..|...|+.+ +..||+|+.
T Consensus 1152 ~~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~-~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYA-SSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHH-hccCcchhh
Confidence 3448999999998443332 79999999999999997 889999974
No 100
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.00 E-value=0.17 Score=47.00 Aligned_cols=36 Identities=28% Similarity=0.582 Sum_probs=27.8
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHH
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWM 123 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 123 (169)
.+++.|.+|.-.+.... -... +|||.||++|+.+-.
T Consensus 815 ep~d~C~~C~~~ll~~p-F~vf-~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKP-FYVF-PCGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcCc-ceee-eccchHHHHHHHHHH
Confidence 55679999998876553 2233 899999999998765
No 101
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.10 E-value=0.17 Score=45.65 Aligned_cols=42 Identities=21% Similarity=0.479 Sum_probs=31.4
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
.|.||+..|......-....|||..|..|...... .+|| |+.
T Consensus 13 ~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn---~scp-~~~ 54 (861)
T KOG3161|consen 13 LCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN---ASCP-TKR 54 (861)
T ss_pred hchHHHHHHHHHhcCcccccccchHHHHHHHhHhh---ccCC-CCc
Confidence 79999888865543333338999999999988654 4899 644
No 102
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=88.30 E-value=0.2 Score=41.44 Aligned_cols=42 Identities=31% Similarity=0.678 Sum_probs=26.4
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
-|--|--.+ ...=|.+ +|+|+||.+|...- .-+.||.|-.++
T Consensus 92 fCd~Cd~PI--~IYGRmI-PCkHvFCl~CAr~~---~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPI--AIYGRMI-PCKHVFCLECARSD---SDKICPLCDDRV 133 (389)
T ss_pred eecccCCcc--eeeeccc-ccchhhhhhhhhcC---ccccCcCcccHH
Confidence 455553332 2223344 99999999997652 244799996554
No 103
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.67 E-value=0.26 Score=42.16 Aligned_cols=38 Identities=26% Similarity=0.714 Sum_probs=28.4
Q ss_pred ccccccccc-cccccCceeeEcCCCCCcchHhhHHHHHhc
Q 030902 87 PPENCAVCL-YEFEGGEEIRWLRNCKHIFHRACLDPWMDH 125 (169)
Q Consensus 87 ~~~~C~ICl-~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~ 125 (169)
....|.||. +........... .|+|.|+.+|..+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 456899999 554443444444 89999999999988864
No 104
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.63 E-value=0.26 Score=38.60 Aligned_cols=39 Identities=28% Similarity=0.797 Sum_probs=28.1
Q ss_pred ccccccccccCceeeEcCCCCCc-chHhhHHHHHhcCCCCCCccCCCCC
Q 030902 91 CAVCLYEFEGGEEIRWLRNCKHI-FHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 91 C~ICl~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
|..|.+. +..|..+ ||.|. +|..|-.. -..||+|+....
T Consensus 161 Cr~C~~~---~~~Vlll-PCrHl~lC~~C~~~-----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLL-PCRHLCLCGICDES-----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEee-cccceEeccccccc-----CccCCCCcChhh
Confidence 8788665 5567777 89984 77888554 336999987653
No 105
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=86.49 E-value=0.51 Score=38.44 Aligned_cols=52 Identities=27% Similarity=0.706 Sum_probs=35.2
Q ss_pred cccccccccccccCceeeEcCCCC-----CcchHhhHHHHHhcC-CCCCCccCCCCCC
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCK-----HIFHRACLDPWMDHD-QKTCPLCRTPFVP 139 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~ 139 (169)
...|.||+++...........+|. +..|..|+..|+... ...|.+|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 468999999865443111122565 467999999999742 4469999875543
No 106
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.10 E-value=0.43 Score=39.19 Aligned_cols=30 Identities=30% Similarity=0.790 Sum_probs=23.1
Q ss_pred CCCcchHhhHHHHHhc------------CCCCCCccCCCCCC
Q 030902 110 CKHIFHRACLDPWMDH------------DQKTCPLCRTPFVP 139 (169)
Q Consensus 110 C~H~fh~~Ci~~wl~~------------~~~~CP~Cr~~~~~ 139 (169)
|.-.+|.+|+.+|+.. ++-+||+||+.++-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 4467889999999854 23569999998764
No 107
>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=85.94 E-value=0.9 Score=27.56 Aligned_cols=43 Identities=26% Similarity=0.572 Sum_probs=22.4
Q ss_pred ccccccccccC------ceeeEcCCCCCcchHhhHHHHHhcCCCCCCccC
Q 030902 91 CAVCLYEFEGG------EEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCR 134 (169)
Q Consensus 91 C~ICl~~~~~~------~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr 134 (169)
|.-|+..|..+ ......+.|++.|+.+|=. .+...-.+||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~-fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDV-FIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHH-TTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcCh-hhhccccCCcCCC
Confidence 56677777664 2456667999999999943 2322234699884
No 108
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.74 E-value=0.47 Score=44.00 Aligned_cols=51 Identities=27% Similarity=0.666 Sum_probs=36.7
Q ss_pred ccccccccccccccCceeeEcCCCC-----CcchHhhHHHHHhcC-CCCCCccCCCCCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCK-----HIFHRACLDPWMDHD-QKTCPLCRTPFVP 139 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~ 139 (169)
++..|.||+.+=..++.+-. ||+ ...|.+|+-+|+.-+ ...|-+|..++.-
T Consensus 11 d~~~CRICr~e~~~d~pLfh--PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F 67 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLFH--PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF 67 (1175)
T ss_pred cchhceeecCCCCCCCcCcc--cccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence 34689999988655554432 455 368999999999753 3459999887644
No 109
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=85.73 E-value=0.66 Score=38.38 Aligned_cols=45 Identities=22% Similarity=0.459 Sum_probs=33.4
Q ss_pred ccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
.--+|+||.+.+..+..-. +=||.-|..|-.+ ....||.||.++.
T Consensus 47 ~lleCPvC~~~l~~Pi~QC---~nGHlaCssC~~~----~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIFQC---DNGHLACSSCRTK----VSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCcccceec---CCCcEehhhhhhh----hcccCCccccccc
Confidence 3458999999998875331 3358998888654 2558999999886
No 110
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.73 E-value=0.67 Score=39.45 Aligned_cols=46 Identities=20% Similarity=0.368 Sum_probs=37.0
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCC--CCCCccC
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQ--KTCPLCR 134 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~~CP~Cr 134 (169)
-..|+|=.+.-.++..-..| .|||+..++-+++..+.+. ..||-|=
T Consensus 334 vF~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred eeecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 34899988777666666677 8999999999999988765 4699993
No 111
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=85.55 E-value=1.3 Score=31.28 Aligned_cols=47 Identities=21% Similarity=0.328 Sum_probs=33.2
Q ss_pred cccccccccccccC----------ceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 88 PENCAVCLYEFEGG----------EEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 88 ~~~C~ICl~~~~~~----------~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
...|.-|+..|..+ ......+.|++.|+.+|-..+-.. -.+||-|..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~-Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES-LHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh-ccCCcCCCC
Confidence 45799999988643 122345689999999997665543 457999953
No 112
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the 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=84.03 E-value=1.3 Score=27.26 Aligned_cols=45 Identities=22% Similarity=0.640 Sum_probs=31.8
Q ss_pred cccccccccccCceeeEcCCCC--CcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCK--HIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~--H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
.|--|-.++..+..-..+ |+ ..|+.+|.+..+.. .||.|...+..
T Consensus 7 nCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l~~---~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI--CSFECTFCADCAETMLNG---VCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceE--EeEeCcccHHHHHHHhcC---cCcCCCCcccc
Confidence 677777887765522222 44 57999999998743 99999877654
No 114
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=83.68 E-value=0.4 Score=42.97 Aligned_cols=41 Identities=32% Similarity=0.772 Sum_probs=28.0
Q ss_pred cccccccccc-----cccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCcc
Q 030902 88 PENCAVCLYE-----FEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLC 133 (169)
Q Consensus 88 ~~~C~ICl~~-----~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~C 133 (169)
...|.+|... |+ .+.++....|+++||..|... ....||.|
T Consensus 511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r----~s~~CPrC 556 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR----KSPCCPRC 556 (580)
T ss_pred eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc----cCCCCCch
Confidence 4578888433 33 345555558999999999765 34459999
No 115
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=82.73 E-value=1.7 Score=28.67 Aligned_cols=52 Identities=21% Similarity=0.503 Sum_probs=22.4
Q ss_pred ccccccccccccc---cCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 87 PPENCAVCLYEFE---GGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 87 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
....|.||-+++. +++...-...|+--.++.|.+-=.+.+.+.||.|+.+..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 3458999999874 333322222566778999988666666889999987653
No 116
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.44 E-value=0.91 Score=37.20 Aligned_cols=34 Identities=24% Similarity=0.551 Sum_probs=29.5
Q ss_pred cccccccccccccCceeeEcCCCC----CcchHhhHHHHHhc
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCK----HIFHRACLDPWMDH 125 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~----H~fh~~Ci~~wl~~ 125 (169)
.-.|.+|.|.+++..-| +|- |.||..|-++-+++
T Consensus 268 pLcCTLC~ERLEDTHFV----QCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFV----QCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred ceeehhhhhhhccCcee----ecCCCcccceecccCHHHHHh
Confidence 35899999999998888 675 99999999988876
No 117
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.43 E-value=1.4 Score=35.52 Aligned_cols=50 Identities=22% Similarity=0.421 Sum_probs=38.6
Q ss_pred ccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
....|+|---+|...-....+.+|||+|-...+.+- +..+|++|.+.+..
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei---kas~C~~C~a~y~~ 159 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI---KASVCHVCGAAYQE 159 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh---hhccccccCCcccc
Confidence 345799987777776666677799999988887774 35589999987754
No 118
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=81.42 E-value=1 Score=35.40 Aligned_cols=46 Identities=24% Similarity=0.723 Sum_probs=35.7
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
-..|.+|.+-.-.+.. ...|+=.+|..|+...++. ...||.|..-+
T Consensus 181 lk~Cn~Ch~LvIqg~r---Cg~c~i~~h~~c~qty~q~-~~~cphc~d~w 226 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIR---CGSCNIQYHRGCIQTYLQR-RDICPHCGDLW 226 (235)
T ss_pred HHHHhHhHHHhheeec---cCcccchhhhHHHHHHhcc-cCcCCchhccc
Confidence 3489999988655532 3378888999999999986 77899995544
No 119
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=81.16 E-value=0.4 Score=43.63 Aligned_cols=52 Identities=27% Similarity=0.735 Sum_probs=39.6
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcC--CCCCCccCCCCCCChHHH
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHD--QKTCPLCRTPFVPDEMQE 144 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~~~~~~ 144 (169)
.+|.||.+.+..+..+ .|.|.|+..|+..-+... ...||+|++.+...+..+
T Consensus 22 lEc~ic~~~~~~p~~~----kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~E 75 (684)
T KOG4362|consen 22 LECPICLEHVKEPSLL----KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLRE 75 (684)
T ss_pred ccCCceeEEeeccchh----hhhHHHHhhhhhceeeccCccccchhhhhhhhhhhccc
Confidence 4899999999887444 899999999998666442 346999998776555444
No 120
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=80.99 E-value=1.7 Score=31.73 Aligned_cols=53 Identities=21% Similarity=0.419 Sum_probs=35.1
Q ss_pred ccccccccccccccCceeeEcCCCCCcchHhhHH-HHHhc-CCCCCCccCCCCCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLD-PWMDH-DQKTCPLCRTPFVP 139 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~-~wl~~-~~~~CP~Cr~~~~~ 139 (169)
.-.+|.||.|.-.++.-+..-.-||-..|-.|-. -|-.- -+..||+|+.++..
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 5679999999854433222222489888888765 44432 24579999988754
No 121
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=80.28 E-value=1.5 Score=40.41 Aligned_cols=41 Identities=24% Similarity=0.548 Sum_probs=29.4
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCc
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPL 132 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~ 132 (169)
..|.+|.-.+..- .+. ...|+|.-|..|+.+|+.. ...||.
T Consensus 780 ~~CtVC~~vi~G~-~~~-c~~C~H~gH~sh~~sw~~~-~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRGV-DVW-CQVCGHGGHDSHLKSWFFK-ASPCAK 820 (839)
T ss_pred cCceeecceeeee-Eee-cccccccccHHHHHHHHhc-CCCCcc
Confidence 3688886654332 222 3379999999999999985 667765
No 122
>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=79.43 E-value=1.8 Score=25.94 Aligned_cols=43 Identities=26% Similarity=0.670 Sum_probs=18.2
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhc----CCCCCCccCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH----DQKTCPLCRTP 136 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----~~~~CP~Cr~~ 136 (169)
.|++....+..+ ++.. .|.|.-+.+ ++.|+.. +.-.||+|.++
T Consensus 4 ~CPls~~~i~~P--~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRIP--VRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SSE--EEET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEeC--ccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 578877777654 5555 899974322 2344432 23469999763
No 123
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=77.38 E-value=4 Score=34.13 Aligned_cols=62 Identities=21% Similarity=0.455 Sum_probs=41.7
Q ss_pred CCCcccccccccCCCccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 72 LPVIKFQDLEMVNGDPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 72 l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
.|...+.+...........|-.|.++.......+-- .|.+.||.+|-.- +...-..||-|..
T Consensus 314 ~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~-iHesLh~CpgCeh 375 (378)
T KOG2807|consen 314 FPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVF-IHESLHNCPGCEH 375 (378)
T ss_pred cCCcchhhccccccCCCcceeeeccccCCCCcEEch-hccceeeccchHH-HHhhhhcCCCcCC
Confidence 566666666544444556799998887666555444 8999999999543 3222346999964
No 124
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.52 E-value=0.73 Score=41.08 Aligned_cols=48 Identities=38% Similarity=0.913 Sum_probs=36.7
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChH
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEM 142 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 142 (169)
...+.|.+|..+. ..+.. +|. |..|...|+.. +..||.|+..+..++.
T Consensus 477 ~~~~~~~~~~~~~----~~~~~-~~~---~~~~l~~~~~~-~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARIT-PCS---HALCLRKWLYV-QEVCPLCHTYMKEDDF 524 (543)
T ss_pred cccCcchHHHHHH----Hhccc-ccc---chhHHHhhhhh-ccccCCCchhhhcccc
Confidence 4567999999998 22223 677 99999999986 7799999887765443
No 125
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=76.16 E-value=1.8 Score=33.60 Aligned_cols=41 Identities=29% Similarity=0.780 Sum_probs=28.9
Q ss_pred cccccccccc-----cccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 88 PENCAVCLYE-----FEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 88 ~~~C~ICl~~-----~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
...|-+|.++ |+. +.+...+.|+-+||..|..+ ..||.|..
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~------~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK------KSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC------CCCCCcHh
Confidence 4578888754 223 35566669999999999652 47999943
No 126
>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=76.01 E-value=1.4 Score=27.81 Aligned_cols=38 Identities=21% Similarity=0.454 Sum_probs=20.2
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHH
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWM 123 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 123 (169)
.+...|.+|...|.--..-.....||++|+..|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34568999999996554444555899999999976544
No 127
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=74.09 E-value=1.9 Score=25.34 Aligned_cols=44 Identities=27% Similarity=0.673 Sum_probs=28.2
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhc-----CCCCCCccC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH-----DQKTCPLCR 134 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----~~~~CP~Cr 134 (169)
.|.||...-..+ .+..-..|+..||..|+..-... ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~-~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDG-DMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTS-SEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCC-CeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 378898844444 44444489999999998643321 134588774
No 128
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.44 E-value=3 Score=27.14 Aligned_cols=45 Identities=22% Similarity=0.572 Sum_probs=28.9
Q ss_pred cccccccccccCceeeEcCCCC--CcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCK--HIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~--H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
.|--|-.++-.+..-..+ |. |.|+.+|.+.-+. ..||.|...+..
T Consensus 7 nCECCDrDLpp~s~dA~I--CtfEcTFCadCae~~l~---g~CPnCGGelv~ 53 (84)
T COG3813 7 NCECCDRDLPPDSTDARI--CTFECTFCADCAENRLH---GLCPNCGGELVA 53 (84)
T ss_pred CCcccCCCCCCCCCceeE--EEEeeehhHhHHHHhhc---CcCCCCCchhhc
Confidence 344455665443322222 44 7899999998764 489999776654
No 129
>PLN02189 cellulose synthase
Probab=71.23 E-value=4.6 Score=38.73 Aligned_cols=52 Identities=21% Similarity=0.495 Sum_probs=37.1
Q ss_pred ccccccccccccc---cCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 87 PPENCAVCLYEFE---GGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 87 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
....|.||-+++. +++.-.-..-|+--.|+.|.+-=.+.+++.||.|+.+..
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3458999999975 344444333577779999987555556788999988765
No 130
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=71.00 E-value=3 Score=38.85 Aligned_cols=54 Identities=15% Similarity=0.195 Sum_probs=36.6
Q ss_pred CccccccccccccccCce---eeEcCCCCCcchHhhHHHHHhc-----CCCCCCccCCCCCC
Q 030902 86 DPPENCAVCLYEFEGGEE---IRWLRNCKHIFHRACLDPWMDH-----DQKTCPLCRTPFVP 139 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~---~~~l~~C~H~fh~~Ci~~wl~~-----~~~~CP~Cr~~~~~ 139 (169)
.+.+.|.+|..++..++. ...+..|+|.||..||..|..+ .+-.|+.|.+-+..
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS 155 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence 445678888888877332 2222259999999999999976 23347888665543
No 131
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=70.71 E-value=3 Score=33.90 Aligned_cols=57 Identities=19% Similarity=0.404 Sum_probs=37.6
Q ss_pred cccccccccccccCceeeEc---CCCCCcchHhhHHHHHhc-C-------CCCCCccCCCCCCChHHH
Q 030902 88 PENCAVCLYEFEGGEEIRWL---RNCKHIFHRACLDPWMDH-D-------QKTCPLCRTPFVPDEMQE 144 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l---~~C~H~fh~~Ci~~wl~~-~-------~~~CP~Cr~~~~~~~~~~ 144 (169)
..+|.+|.+++.+.+..+.. +.|+-.+|..|+..-+.. . ...||.|+..+.-.+++.
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w~~lv~ 249 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSWTTLVD 249 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeHHHHHH
Confidence 46999999999544433322 357789999999984432 1 246999988654334433
No 132
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=68.78 E-value=3.1 Score=31.11 Aligned_cols=24 Identities=29% Similarity=0.625 Sum_probs=13.9
Q ss_pred CcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 112 HIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 112 H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
+.||..|..+-+. .||.|..++..
T Consensus 28 ~~fC~kCG~~tI~----~Cp~C~~~IrG 51 (158)
T PF10083_consen 28 EKFCSKCGAKTIT----SCPNCSTPIRG 51 (158)
T ss_pred HHHHHHhhHHHHH----HCcCCCCCCCC
Confidence 4566666666443 46666665543
No 133
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=68.44 E-value=5.9 Score=24.74 Aligned_cols=26 Identities=31% Similarity=0.701 Sum_probs=15.8
Q ss_pred CCCCCccCCCCCCCh-HHHHHHHHHHH
Q 030902 127 QKTCPLCRTPFVPDE-MQEEFNQRLWA 152 (169)
Q Consensus 127 ~~~CP~Cr~~~~~~~-~~~~~~~~~~~ 152 (169)
|..||+|..+++++. .-++..+..|.
T Consensus 3 HkHC~~CG~~Ip~~~~fCS~~C~~~~~ 29 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDESFCSPKCREEYR 29 (59)
T ss_pred CCcCCcCCCcCCcchhhhCHHHHHHHH
Confidence 668999998887642 22234444443
No 134
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=67.65 E-value=7.3 Score=37.43 Aligned_cols=53 Identities=21% Similarity=0.468 Sum_probs=37.0
Q ss_pred Cccccccccccccc---cCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 86 DPPENCAVCLYEFE---GGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 86 ~~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
.....|.||-+++. +++.-.-..-|+--.|+.|.+-=.+.+++.||.|+.+..
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 34568999999874 344333233577679999987555556788999988765
No 135
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=67.60 E-value=3.5 Score=23.00 Aligned_cols=13 Identities=23% Similarity=0.608 Sum_probs=8.1
Q ss_pred cccccccccccCc
Q 030902 90 NCAVCLYEFEGGE 102 (169)
Q Consensus 90 ~C~ICl~~~~~~~ 102 (169)
.|+-|...|.-++
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 5777777765433
No 136
>PLN02436 cellulose synthase A
Probab=66.62 E-value=6.5 Score=37.88 Aligned_cols=52 Identities=25% Similarity=0.576 Sum_probs=37.0
Q ss_pred ccccccccccccc---cCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 87 PPENCAVCLYEFE---GGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 87 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
....|.||-+++. +++.-.-..-|+--.|+.|.+-=.+.+++.||.|+.+..
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 3458999999963 444444333577779999987555556788999988765
No 137
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=66.41 E-value=4.5 Score=22.48 Aligned_cols=13 Identities=23% Similarity=0.667 Sum_probs=8.3
Q ss_pred cccccccccccCc
Q 030902 90 NCAVCLYEFEGGE 102 (169)
Q Consensus 90 ~C~ICl~~~~~~~ 102 (169)
+|+=|...|..++
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5777777776443
No 138
>PLN02195 cellulose synthase A
Probab=65.62 E-value=8.7 Score=36.68 Aligned_cols=53 Identities=26% Similarity=0.510 Sum_probs=37.2
Q ss_pred Cccccccccccccc---cCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 86 DPPENCAVCLYEFE---GGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 86 ~~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
+....|.||-+++. +++.-.-..-|+--.|+.|.+-=.+.+++.||.|+.+..
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 34558999998764 333333333677779999987544446788999998886
No 139
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=65.39 E-value=3.4 Score=21.38 Aligned_cols=7 Identities=43% Similarity=0.876 Sum_probs=3.2
Q ss_pred ccccccc
Q 030902 91 CAVCLYE 97 (169)
Q Consensus 91 C~ICl~~ 97 (169)
|+-|...
T Consensus 3 CP~C~~~ 9 (26)
T PF10571_consen 3 CPECGAE 9 (26)
T ss_pred CCCCcCC
Confidence 4444444
No 140
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=63.65 E-value=7.3 Score=32.60 Aligned_cols=53 Identities=19% Similarity=0.532 Sum_probs=34.4
Q ss_pred Cccccccccccccc---------------cCceeeEcCCCCCcchHhhHHHHHhcC--------CCCCCccCCCCC
Q 030902 86 DPPENCAVCLYEFE---------------GGEEIRWLRNCKHIFHRACLDPWMDHD--------QKTCPLCRTPFV 138 (169)
Q Consensus 86 ~~~~~C~ICl~~~~---------------~~~~~~~l~~C~H~fh~~Ci~~wl~~~--------~~~CP~Cr~~~~ 138 (169)
..+.+|++|+..=. .+...--..||||+--..-..-|.+.. +..||.|-..+.
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 44678999998621 111222334899988777888887541 345999976653
No 141
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=63.28 E-value=6.4 Score=20.66 Aligned_cols=29 Identities=21% Similarity=0.517 Sum_probs=11.0
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhH
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACL 119 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci 119 (169)
.|.+|.+.... ........|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 57888888766 345555588888898885
No 142
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.31 E-value=5.2 Score=34.79 Aligned_cols=37 Identities=27% Similarity=0.700 Sum_probs=29.8
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhc
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH 125 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~ 125 (169)
.....|-||.+.+.. ....+ .|+|.|+..|+...+..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~-~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGL-GCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhc-CCCcHHHHHHHHHHhhh
Confidence 445689999999866 44445 89999999999998865
No 144
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.26 E-value=2.3 Score=35.16 Aligned_cols=69 Identities=22% Similarity=0.465 Sum_probs=51.0
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCC----ChHHHHHHHHHHHhcCCCc
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVP----DEMQEEFNQRLWAASGVDD 158 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~----~~~~~~~~~~~~~~~~~~~ 158 (169)
.....|-+|...+.-+.... +|.|.|+..|-..|... ...||.|+....+ ..+.-++++.++++++-.+
T Consensus 103 ~~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~-~~~~~d~~~~~~pv~aG~p~~~d~~q~nq~peg~a~ 175 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAM-GNDCPDCRGKISPVLAGMPIRYDLDQHNQCPEGYAD 175 (324)
T ss_pred CCccceeeeeeeEEeccccc---CceeeeeecCCchhhhh-hhccchhhcCcCceeccCceeecccccccCCCCcCC
Confidence 45668999999887665553 69999999999999986 6789988765433 3344466777777777654
No 145
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.73 E-value=3.5 Score=38.27 Aligned_cols=45 Identities=20% Similarity=0.460 Sum_probs=31.8
Q ss_pred Ccccccccccccccc----CceeeEcCCCCCcchHhhHHHHHhcCCCCCCcc
Q 030902 86 DPPENCAVCLYEFEG----GEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLC 133 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~----~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~C 133 (169)
..+..|.-|.+.... -+.+..+ .|+|.||..|+..-..+++ |-.|
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~-~c~h~yhk~c~~~~~~~~~--~~~~ 830 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVF-HCGHMYHKECLMMESLRNA--CNIE 830 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEE-EccchhhhcccccHHHhcc--cChh
Confidence 334589999988652 2466677 8999999999986655422 6555
No 146
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=61.64 E-value=9.6 Score=36.79 Aligned_cols=51 Identities=22% Similarity=0.504 Sum_probs=35.4
Q ss_pred cccccccccccc---cCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 88 PENCAVCLYEFE---GGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 88 ~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
...|.||-+++. +++.-.-..-|+--.|+.|-+-=.+.+++.||.|+.+..
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 448999999874 344333233566669999987444446788999988765
No 147
>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=61.60 E-value=9.7 Score=20.30 Aligned_cols=37 Identities=30% Similarity=0.706 Sum_probs=22.4
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
.|..|.+.+...+.... .=+..||..| ..|..|+.++
T Consensus 1 ~C~~C~~~i~~~~~~~~--~~~~~~H~~C---------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLR--ALGKVWHPEC---------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEE--eCCccccccC---------CCCcccCCcC
Confidence 37778888766533322 2356788755 3677776655
No 148
>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=59.75 E-value=8.1 Score=23.00 Aligned_cols=39 Identities=26% Similarity=0.529 Sum_probs=23.7
Q ss_pred ccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 91 CAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 91 C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
|+.|.+.+..+..+.. .-+..||..| ..|-.|+.++...
T Consensus 1 C~~C~~~I~~~~~~~~--~~~~~~H~~C---------f~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK--AMGKFWHPEC---------FKCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEE--ETTEEEETTT---------SBETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEE--eCCcEEEccc---------cccCCCCCccCCC
Confidence 5667777765554422 2556777644 3677777776544
No 149
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=58.94 E-value=6.8 Score=23.45 Aligned_cols=36 Identities=25% Similarity=0.455 Sum_probs=25.6
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHh
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMD 124 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 124 (169)
..|.+|...|.....-.....||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 478899888865443334447999999999776544
No 150
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.90 E-value=5.8 Score=33.97 Aligned_cols=44 Identities=27% Similarity=0.591 Sum_probs=31.4
Q ss_pred cccccccccccc--cCceeeEcCCCCCcchHhhHHHHHhcCCCCCCcc
Q 030902 88 PENCAVCLYEFE--GGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLC 133 (169)
Q Consensus 88 ~~~C~ICl~~~~--~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~C 133 (169)
-..|+.|.-.++ .|-.-... .|+|.|+..|...|... +..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~C-rC~~~fcy~C~~~~~~~-~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTC-RCGHQFCYMCGGDWKTH-NGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEe-eccccchhhcCcchhhC-CccccCc
Confidence 347888887764 33444555 59999999999999875 5556544
No 151
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=55.57 E-value=8.7 Score=32.11 Aligned_cols=45 Identities=20% Similarity=0.352 Sum_probs=32.6
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCC--CCCCcc
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQ--KTCPLC 133 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~~CP~C 133 (169)
-..|++=-|.-..+..-..+ .|||+.-...++...+.+. ..||.|
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml-~CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 336 LFICPVLKELCTDENPPVML-ECGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred eeeccccHhhhcccCCCeee-eccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 34788765555444455566 8999999999999877643 349999
No 152
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=53.18 E-value=2.6 Score=25.48 Aligned_cols=15 Identities=33% Similarity=0.875 Sum_probs=7.7
Q ss_pred CCCCccCCCCCCChH
Q 030902 128 KTCPLCRTPFVPDEM 142 (169)
Q Consensus 128 ~~CP~Cr~~~~~~~~ 142 (169)
..||+|.+++.+...
T Consensus 21 ~~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 21 GCCPLCGRPLDEEHR 35 (54)
T ss_dssp EE-TTT--EE-HHHH
T ss_pred CcCCCCCCCCCHHHH
Confidence 379999998865443
No 153
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=52.22 E-value=8.2 Score=33.70 Aligned_cols=34 Identities=21% Similarity=0.407 Sum_probs=28.1
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhc
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH 125 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~ 125 (169)
+-.|+||..-|+++..+ +|+|..|..|...-+.+
T Consensus 4 elkc~vc~~f~~epiil----~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 4 ELKCPVCGSFYREPIIL----PCSHNLCQACARNILVQ 37 (699)
T ss_pred cccCceehhhccCceEe----ecccHHHHHHHHhhccc
Confidence 44799999999888665 89999999998876643
No 154
>PLN02400 cellulose synthase
Probab=52.22 E-value=12 Score=36.26 Aligned_cols=52 Identities=19% Similarity=0.477 Sum_probs=35.2
Q ss_pred ccccccccccccc---cCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCC
Q 030902 87 PPENCAVCLYEFE---GGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFV 138 (169)
Q Consensus 87 ~~~~C~ICl~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 138 (169)
....|.||-+++. +++.-.-..-|+--.|+.|-+-=.+.+++.||.|+.+..
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3458999999974 343333223566668999986433335788999988765
No 155
>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=52.10 E-value=4.9 Score=25.97 Aligned_cols=38 Identities=29% Similarity=0.676 Sum_probs=17.5
Q ss_pred cccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
.|+.|..+++... +|.++..|-... .. ...||.|..++
T Consensus 3 ~CP~C~~~L~~~~--------~~~~C~~C~~~~-~~-~a~CPdC~~~L 40 (70)
T PF07191_consen 3 TCPKCQQELEWQG--------GHYHCEACQKDY-KK-EAFCPDCGQPL 40 (70)
T ss_dssp B-SSS-SBEEEET--------TEEEETTT--EE-EE-EEE-TTT-SB-
T ss_pred cCCCCCCccEEeC--------CEEECccccccc-ee-cccCCCcccHH
Confidence 6888888865443 333444443332 11 44689887766
No 156
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=49.34 E-value=14 Score=30.97 Aligned_cols=51 Identities=20% Similarity=0.494 Sum_probs=34.7
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
..|+||-++....+....--+|++..|..|...-.. ++.+||.||.+....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~-~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISD-GDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccc-cCCCCCccCCccccC
Confidence 589999998744432222126777777777776655 478899999776543
No 157
>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=48.92 E-value=11 Score=24.06 Aligned_cols=13 Identities=38% Similarity=0.899 Sum_probs=9.3
Q ss_pred cchHhhHHHHHhc
Q 030902 113 IFHRACLDPWMDH 125 (169)
Q Consensus 113 ~fh~~Ci~~wl~~ 125 (169)
-||+.|+.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999964
No 158
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=48.05 E-value=3.5 Score=35.70 Aligned_cols=54 Identities=24% Similarity=0.570 Sum_probs=38.4
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC-CCChHHHHHHHHHHHh
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF-VPDEMQEEFNQRLWAA 153 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~-~~~~~~~~~~~~~~~~ 153 (169)
-++..|..|.+.|++.-.+..- .|..+.|. ...||-|-+.+ ++.++.+ .+.||.
T Consensus 265 iGdyiCqLCK~kYeD~F~LAQH-rC~RIV~v----------EYrCPEC~KVFsCPANLAS---HRRWHK 319 (500)
T KOG3993|consen 265 IGDYICQLCKEKYEDAFALAQH-RCPRIVHV----------EYRCPECDKVFSCPANLAS---HRRWHK 319 (500)
T ss_pred HHHHHHHHHHHhhhhHHHHhhc-cCCeeEEe----------eecCCcccccccCchhhhh---hhcccC
Confidence 3467899999999988777766 78877663 66899997666 4556544 345543
No 159
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=47.08 E-value=13 Score=19.99 Aligned_cols=21 Identities=29% Similarity=0.748 Sum_probs=12.5
Q ss_pred CCCCcchHhhHHHHHhcCCCCCCccCCC
Q 030902 109 NCKHIFHRACLDPWMDHDQKTCPLCRTP 136 (169)
Q Consensus 109 ~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~ 136 (169)
.|||++-..- ....||+|.++
T Consensus 6 ~CGy~y~~~~-------~~~~CP~Cg~~ 26 (33)
T cd00350 6 VCGYIYDGEE-------APWVCPVCGAP 26 (33)
T ss_pred CCCCEECCCc-------CCCcCcCCCCc
Confidence 4666654321 24579999763
No 160
>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=46.60 E-value=29 Score=24.11 Aligned_cols=25 Identities=28% Similarity=0.615 Sum_probs=18.4
Q ss_pred CCcchHhhHHHHHhc--------CCCCCCccCC
Q 030902 111 KHIFHRACLDPWMDH--------DQKTCPLCRT 135 (169)
Q Consensus 111 ~H~fh~~Ci~~wl~~--------~~~~CP~Cr~ 135 (169)
.-.|+..|+..+... .+-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999887743 2235999976
No 161
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=45.62 E-value=7.1 Score=28.99 Aligned_cols=26 Identities=27% Similarity=0.717 Sum_probs=17.0
Q ss_pred CCCCcchHhhHHHHHhc----------CCCCCCccCCCCCC
Q 030902 109 NCKHIFHRACLDPWMDH----------DQKTCPLCRTPFVP 139 (169)
Q Consensus 109 ~C~H~fh~~Ci~~wl~~----------~~~~CP~Cr~~~~~ 139 (169)
.++|.| +.|+.. +..+||+|...-..
T Consensus 9 ~~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~V~ 44 (148)
T PF06676_consen 9 ENGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTEVS 44 (148)
T ss_pred CCCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCeEe
Confidence 355777 668854 34679999775443
No 162
>PRK04023 DNA polymerase II large subunit; Validated
Probab=45.36 E-value=42 Score=32.48 Aligned_cols=48 Identities=19% Similarity=0.230 Sum_probs=31.4
Q ss_pred CccccccccccccccCceeeEcCCCCC-----cchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKH-----IFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H-----~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
.....|+-|-... ....++.||. .||..|-.. . +...||.|.....+.
T Consensus 624 Vg~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~CG~~--~-~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 624 IGRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRCGIE--V-EEDECEKCGREPTPY 676 (1121)
T ss_pred ccCccCCCCCCcC----CcccCCCCCCCCCcceeCccccCc--C-CCCcCCCCCCCCCcc
Confidence 4455788887763 2345556873 589999333 2 245799998877653
No 163
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=44.26 E-value=15 Score=25.14 Aligned_cols=32 Identities=28% Similarity=0.669 Sum_probs=22.2
Q ss_pred cccccccccccccCceeeEc-CCCCCcchHhhHHH
Q 030902 88 PENCAVCLYEFEGGEEIRWL-RNCKHIFHRACLDP 121 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l-~~C~H~fh~~Ci~~ 121 (169)
...|.||... .|..+.-- +.|...||..|...
T Consensus 55 ~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 4589999988 44333222 14888999999865
No 164
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=43.94 E-value=16 Score=22.77 Aligned_cols=17 Identities=29% Similarity=0.772 Sum_probs=13.6
Q ss_pred CCCCCCccCCCCCCChH
Q 030902 126 DQKTCPLCRTPFVPDEM 142 (169)
Q Consensus 126 ~~~~CP~Cr~~~~~~~~ 142 (169)
.|..|++|.+.+++++.
T Consensus 7 PH~HC~VCg~aIp~de~ 23 (64)
T COG4068 7 PHRHCVVCGKAIPPDEQ 23 (64)
T ss_pred CCccccccCCcCCCccc
Confidence 36789999999987653
No 165
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=42.31 E-value=18 Score=33.86 Aligned_cols=47 Identities=23% Similarity=0.446 Sum_probs=30.0
Q ss_pred Ccccccccccccccc---------CceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 86 DPPENCAVCLYEFEG---------GEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~---------~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
..+..|+-|...|-. ....-..+.|.|.-|.+=|.. ...||+|.+..
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~-----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK-----YNCCPLCHSME 1184 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc-----cccCccccChh
Confidence 445567777777631 123345568899888765443 55799997754
No 166
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=42.13 E-value=14 Score=27.06 Aligned_cols=21 Identities=19% Similarity=0.738 Sum_probs=16.9
Q ss_pred CCCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 108 RNCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 108 ~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
..|||+|+. .+..||.|.++.
T Consensus 33 ~~CG~v~~P---------Pr~~Cp~C~~~~ 53 (140)
T COG1545 33 KKCGRVYFP---------PRAYCPKCGSET 53 (140)
T ss_pred CCCCeEEcC---------CcccCCCCCCCC
Confidence 389999976 577899998874
No 167
>PF13120 DUF3974: Domain of unknown function (DUF3974)
Probab=42.02 E-value=29 Score=23.90 Aligned_cols=29 Identities=24% Similarity=0.371 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCcc
Q 030902 15 FFVHTLSFLGFIRNIIICLFRYLGLSDFL 43 (169)
Q Consensus 15 ~~~~~l~~l~~l~~i~~~~l~~~~~~~~~ 43 (169)
.++.+++.+..+.+.+..++.+.|...+.
T Consensus 6 ~vl~l~g~llligftivvl~vyfgrk~yl 34 (126)
T PF13120_consen 6 MVLLLIGTLLLIGFTIVVLLVYFGRKFYL 34 (126)
T ss_pred HHHHHHHHHHHHHHHHHhhhheecceeee
Confidence 45556666666777778888888988777
No 168
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=41.96 E-value=15 Score=19.25 Aligned_cols=28 Identities=25% Similarity=0.532 Sum_probs=18.3
Q ss_pred cccccccccccCceeeEcCCCCCcchHhh
Q 030902 90 NCAVCLYEFEGGEEIRWLRNCKHIFHRAC 118 (169)
Q Consensus 90 ~C~ICl~~~~~~~~~~~l~~C~H~fh~~C 118 (169)
.|.+|.++..... ......|.-.+|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 5888877765554 444446776777766
No 169
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=39.61 E-value=21 Score=21.41 Aligned_cols=23 Identities=30% Similarity=0.690 Sum_probs=12.6
Q ss_pred CCCCcchHhhHHHHHhcCCCCCCcc
Q 030902 109 NCKHIFHRACLDPWMDHDQKTCPLC 133 (169)
Q Consensus 109 ~C~H~fh~~Ci~~wl~~~~~~CP~C 133 (169)
.|||.|-..=-++- . +...||.|
T Consensus 33 ~Cgh~w~~~v~~R~-~-~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDRT-R-RGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhhc-c-CCCCCCCC
Confidence 56676644322222 2 36679988
No 170
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=38.39 E-value=26 Score=17.88 Aligned_cols=10 Identities=30% Similarity=0.893 Sum_probs=7.7
Q ss_pred CCCccCCCCC
Q 030902 129 TCPLCRTPFV 138 (169)
Q Consensus 129 ~CP~Cr~~~~ 138 (169)
.||+|...+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 6999977763
No 171
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=38.14 E-value=19 Score=25.22 Aligned_cols=27 Identities=33% Similarity=0.802 Sum_probs=15.7
Q ss_pred CCCCCcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 108 RNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 108 ~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
+.||-.|.. |.+...+||.|...+...
T Consensus 13 p~CG~kFYD------Lnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 13 PSCGAKFYD------LNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCcchhcc------CCCCCccCCCCCCccCcc
Confidence 356655533 222344699998877655
No 172
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=37.72 E-value=37 Score=23.39 Aligned_cols=29 Identities=24% Similarity=0.542 Sum_probs=18.9
Q ss_pred CCCcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 110 CKHIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 110 C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
||+--|.--+.+... -..||.|++++.+.
T Consensus 65 CGvC~~~LT~~EY~~--~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEYGM--CGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHHhh--cCCCCCcCCCCCcc
Confidence 666555555555543 34699999998763
No 173
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.58 E-value=6 Score=32.19 Aligned_cols=48 Identities=19% Similarity=0.467 Sum_probs=35.8
Q ss_pred cccccccccccccC--cee-eEcCC--------CCCcchHhhHHHHHhcCCCCCCccCCC
Q 030902 88 PENCAVCLYEFEGG--EEI-RWLRN--------CKHIFHRACLDPWMDHDQKTCPLCRTP 136 (169)
Q Consensus 88 ~~~C~ICl~~~~~~--~~~-~~l~~--------C~H~fh~~Ci~~wl~~~~~~CP~Cr~~ 136 (169)
...|.||...+... ..+ +.+ . |+|..+..|++.-+.+....||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl-~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVL-SLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHH-HHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 46799999999832 222 233 4 999999999999876544679999864
No 174
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=35.37 E-value=8.8 Score=31.62 Aligned_cols=42 Identities=21% Similarity=0.536 Sum_probs=30.4
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCC
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTC 130 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~C 130 (169)
..+|.+|.++++.+...... .|--+||..|+-.|+......+
T Consensus 214 ~rvC~~CF~el~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 255 (288)
T KOG1729|consen 214 IRVCDICFEELEKGARGDRE-DSLPVFHGKCYPNWLTTGAAST 255 (288)
T ss_pred ceecHHHHHHHhcccccchh-hccccccccccccccccccccc
Confidence 34899999999864444444 5666999999999997643333
No 175
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.18 E-value=27 Score=25.35 Aligned_cols=8 Identities=38% Similarity=1.061 Sum_probs=3.9
Q ss_pred CCccCCCC
Q 030902 130 CPLCRTPF 137 (169)
Q Consensus 130 CP~Cr~~~ 137 (169)
|..|.+++
T Consensus 71 chncgs~f 78 (160)
T COG4306 71 CHNCGSRF 78 (160)
T ss_pred hhcCCCCC
Confidence 55554444
No 176
>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=34.04 E-value=13 Score=31.88 Aligned_cols=52 Identities=21% Similarity=0.535 Sum_probs=0.0
Q ss_pred ccccccccccccc---------c------CceeeEcCCCCCcchHhhHHHHHhcC--------CCCCCccCCCCC
Q 030902 87 PPENCAVCLYEFE---------G------GEEIRWLRNCKHIFHRACLDPWMDHD--------QKTCPLCRTPFV 138 (169)
Q Consensus 87 ~~~~C~ICl~~~~---------~------~~~~~~l~~C~H~fh~~Ci~~wl~~~--------~~~CP~Cr~~~~ 138 (169)
....|++|+..-. . +...-...||||+--.....-|.+.. +..||-|-.++.
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 3668999997621 0 11111223899988888888887541 246999988775
No 177
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=33.89 E-value=40 Score=20.94 Aligned_cols=31 Identities=16% Similarity=0.288 Sum_probs=16.8
Q ss_pred cccccccccccccc--CceeeEcCCCCCcchHh
Q 030902 87 PPENCAVCLYEFEG--GEEIRWLRNCKHIFHRA 117 (169)
Q Consensus 87 ~~~~C~ICl~~~~~--~~~~~~l~~C~H~fh~~ 117 (169)
....|+.|-...+. .......+.||+.+|.+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRD 59 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcH
Confidence 34578877766555 33333443455555544
No 178
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=33.50 E-value=26 Score=22.92 Aligned_cols=32 Identities=25% Similarity=0.505 Sum_probs=21.5
Q ss_pred cccccccccccccCceee-EcCCCCCcchHhhHHH
Q 030902 88 PENCAVCLYEFEGGEEIR-WLRNCKHIFHRACLDP 121 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~-~l~~C~H~fh~~Ci~~ 121 (169)
...|.+|.... |..+. ..+.|...||..|...
T Consensus 36 ~~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 45899998762 33332 2237888999999754
No 179
>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=33.33 E-value=40 Score=22.74 Aligned_cols=44 Identities=18% Similarity=0.322 Sum_probs=32.4
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCChHHHH
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPDEMQEE 145 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~ 145 (169)
...|.-|...+.--+.+- +-.|+.. +..|..|+++++.....-+
T Consensus 33 rS~C~~C~~~L~~~~lIP-------------i~S~l~l-rGrCr~C~~~I~~~y~l~E 76 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLIP-------------ILSYLLL-RGRCRYCGAPIPPRYPLIE 76 (92)
T ss_pred CCcCcCCCCcCcccccch-------------HHHHHHh-CCCCcccCCCCChHHHHHH
Confidence 347888888877666663 4578876 7899999999987654443
No 180
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.92 E-value=33 Score=27.81 Aligned_cols=34 Identities=12% Similarity=0.137 Sum_probs=28.7
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhc
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDH 125 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~ 125 (169)
-+.|+.||..+.++... +=||+|++.||-+.+..
T Consensus 43 FdcCsLtLqPc~dPvit----~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 43 FDCCSLTLQPCRDPVIT----PDGYLFDREAILEYILA 76 (303)
T ss_pred cceeeeecccccCCccC----CCCeeeeHHHHHHHHHH
Confidence 45899999999888665 88999999999887743
No 181
>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=32.61 E-value=5.7 Score=32.45 Aligned_cols=48 Identities=19% Similarity=0.236 Sum_probs=19.4
Q ss_pred ccccccccccccCceeeEcC-CCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 89 ENCAVCLYEFEGGEEIRWLR-NCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~-~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
..|+||-..-.-......-. +=.|.+|.-|-..|--. ...||.|...-
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~-R~~Cp~Cg~~~ 221 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFV-RIKCPYCGNTD 221 (290)
T ss_dssp SS-TTT---EEEEEEE------EEEEEETTT--EEE---TTS-TTT---S
T ss_pred CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeec-CCCCcCCCCCC
Confidence 58999977632211110000 11355777788888764 77899996653
No 182
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=32.46 E-value=14 Score=22.33 Aligned_cols=20 Identities=25% Similarity=0.502 Sum_probs=14.9
Q ss_pred eeeEcCCCCCcchHhhHHHH
Q 030902 103 EIRWLRNCKHIFHRACLDPW 122 (169)
Q Consensus 103 ~~~~l~~C~H~fh~~Ci~~w 122 (169)
.....+.|++.|+..|...|
T Consensus 39 ~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 39 NRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CeeECCCCCCeECCCCCCcC
Confidence 34444468999999998887
No 183
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=31.99 E-value=29 Score=21.67 Aligned_cols=13 Identities=46% Similarity=1.354 Sum_probs=10.1
Q ss_pred CCCCCccCCCCCC
Q 030902 127 QKTCPLCRTPFVP 139 (169)
Q Consensus 127 ~~~CP~Cr~~~~~ 139 (169)
...||+|.++...
T Consensus 39 ~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 39 EPVCPLCKSPMVS 51 (59)
T ss_pred CccCCCcCCcccc
Confidence 4679999987754
No 184
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=31.83 E-value=85 Score=24.38 Aligned_cols=27 Identities=11% Similarity=0.212 Sum_probs=12.4
Q ss_pred CCCccccccccCHHHHHHHHHHHHHHHH
Q 030902 2 GFPVGYTEVFLPKFFVHTLSFLGFIRNI 29 (169)
Q Consensus 2 g~p~~~~~~~lp~~~~~~l~~l~~l~~i 29 (169)
||| .+....+|--+++.++.+.++.++
T Consensus 43 ~~p-~~~~~~~~~~l~w~~I~FliL~~l 69 (204)
T PRK09174 43 VFP-PFDSTHYASQLLWLAITFGLFYLF 69 (204)
T ss_pred CCC-CCcchhccHHHHHHHHHHHHHHHH
Confidence 466 354444554444444444433333
No 185
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=31.32 E-value=29 Score=30.55 Aligned_cols=49 Identities=24% Similarity=0.648 Sum_probs=30.6
Q ss_pred cccccccccccc-cCceeeEcCCCCCcchHhhHHHHHhc----C---CCCCCccCCC
Q 030902 88 PENCAVCLYEFE-GGEEIRWLRNCKHIFHRACLDPWMDH----D---QKTCPLCRTP 136 (169)
Q Consensus 88 ~~~C~ICl~~~~-~~~~~~~l~~C~H~fh~~Ci~~wl~~----~---~~~CP~Cr~~ 136 (169)
+..|.+|..-.. ....+...-.|...||..|......- . ..-|=+|...
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 446999995543 34455555578889999997554321 1 1238888553
No 186
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=30.72 E-value=82 Score=26.48 Aligned_cols=63 Identities=19% Similarity=0.259 Sum_probs=37.2
Q ss_pred CCCcccccccccCCCccccccccccccccCc----------eeeEcCCCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 72 LPVIKFQDLEMVNGDPPENCAVCLYEFEGGE----------EIRWLRNCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 72 l~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~----------~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
+|...+...........+.|-+|+..|-.+. .-.....|+..||.+|-..--.. -..|+-|..
T Consensus 346 ~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~-Lh~C~gCe~ 418 (421)
T COG5151 346 YPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHET-LHFCIGCEL 418 (421)
T ss_pred ccCcccccccCCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHH-HhhCCCCcC
Confidence 4666665555444455668999999874321 11223357888888885432221 235888854
No 187
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=30.48 E-value=40 Score=18.89 Aligned_cols=34 Identities=26% Similarity=0.486 Sum_probs=23.2
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHH
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDP 121 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~ 121 (169)
...|.+|.+.+...........|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 4479999998865321222336778899999876
No 188
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=30.37 E-value=12 Score=21.41 Aligned_cols=25 Identities=28% Similarity=0.603 Sum_probs=13.5
Q ss_pred CCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 109 NCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 109 ~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
.|||.|-..--.. ......||.|..
T Consensus 10 ~Cg~~fe~~~~~~--~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSIS--EDDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcC--CCCCCcCCCCCC
Confidence 5777664432111 112456999987
No 189
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=30.32 E-value=41 Score=25.47 Aligned_cols=25 Identities=20% Similarity=0.573 Sum_probs=14.8
Q ss_pred eeEcCCCCCcchHhhHHHHHhcCCCCCCccCCC
Q 030902 104 IRWLRNCKHIFHRACLDPWMDHDQKTCPLCRTP 136 (169)
Q Consensus 104 ~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~ 136 (169)
+.+.+-|||.+-. .....||+|.++
T Consensus 134 ~~vC~vCGy~~~g--------e~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEG--------EAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccC--------CCCCcCCCCCCh
Confidence 4445567775421 125579999764
No 190
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=30.31 E-value=73 Score=26.07 Aligned_cols=45 Identities=22% Similarity=0.374 Sum_probs=26.6
Q ss_pred ccccccccccccCceeeEcCCCCC-cchHhhHHHHHhcCCCCCCcc
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKH-IFHRACLDPWMDHDQKTCPLC 133 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl~~~~~~CP~C 133 (169)
.-|.||.|--..+..-..|..=.- .-|++|.++|=...++.||.-
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~prs 76 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPRS 76 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCcc
Confidence 357777766444332211111111 468999999976668899943
No 191
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.30 E-value=48 Score=22.76 Aligned_cols=35 Identities=23% Similarity=0.350 Sum_probs=27.9
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHh
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMD 124 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 124 (169)
...|.||-+.+..+...... + .-..|.+|+..=..
T Consensus 6 ewkC~VCg~~iieGqkFTF~-~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFT-K-KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEe-e-CCcchHHHHHHHHh
Confidence 45899999999999877666 5 56689999887544
No 192
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=29.78 E-value=41 Score=24.54 Aligned_cols=14 Identities=36% Similarity=0.721 Sum_probs=11.0
Q ss_pred CCCCCccCCCCCCC
Q 030902 127 QKTCPLCRTPFVPD 140 (169)
Q Consensus 127 ~~~CP~Cr~~~~~~ 140 (169)
...||.|...+...
T Consensus 123 ~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 123 TFTCPRCGEELEED 136 (147)
T ss_pred cEECCCCCCEEEEc
Confidence 47899999988654
No 193
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=28.83 E-value=36 Score=27.22 Aligned_cols=27 Identities=19% Similarity=0.252 Sum_probs=19.3
Q ss_pred ccccccccccccCceeeEcCCCCCcchH
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHR 116 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~ 116 (169)
-.|++|.+.+......... ..+|.|-.
T Consensus 3 ~~CP~C~~~l~~~~~~~~C-~~~h~fd~ 29 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWIC-PQNHQFDC 29 (272)
T ss_pred ccCCCCCcchhcCCCEEEc-CCCCCCcc
Confidence 3799999999765555555 55788843
No 194
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=28.76 E-value=32 Score=17.26 Aligned_cols=15 Identities=40% Similarity=1.192 Sum_probs=9.3
Q ss_pred CCCccCCCCCCChHH
Q 030902 129 TCPLCRTPFVPDEMQ 143 (169)
Q Consensus 129 ~CP~Cr~~~~~~~~~ 143 (169)
.||.|...+.++.+.
T Consensus 4 ~C~~CgR~F~~~~l~ 18 (25)
T PF13913_consen 4 PCPICGRKFNPDRLE 18 (25)
T ss_pred cCCCCCCEECHHHHH
Confidence 578887766554443
No 195
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=28.36 E-value=30 Score=24.09 Aligned_cols=24 Identities=21% Similarity=0.522 Sum_probs=15.7
Q ss_pred CCCCcchHhhHHHHHhcCCCCCCccCCCC
Q 030902 109 NCKHIFHRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 109 ~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
.|||+|-.. +.-+.+ .||.|....
T Consensus 7 rCG~vf~~g--~~~il~---GCp~CG~nk 30 (112)
T COG3364 7 RCGEVFDDG--SEEILS---GCPKCGCNK 30 (112)
T ss_pred ccccccccc--cHHHHc---cCccccchh
Confidence 799999764 333333 799995543
No 196
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=28.05 E-value=40 Score=24.38 Aligned_cols=29 Identities=17% Similarity=0.304 Sum_probs=16.7
Q ss_pred EcCCCCCcchHhhHHHHHhcCCCCCCccCCCCCCC
Q 030902 106 WLRNCKHIFHRACLDPWMDHDQKTCPLCRTPFVPD 140 (169)
Q Consensus 106 ~l~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 140 (169)
..+.||..|.. |.+....||.|...++..
T Consensus 11 ~Cp~cg~kFYD------Lnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 11 ICPNTGSKFYD------LNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred cCCCcCccccc------cCCCCccCCCcCCccCcc
Confidence 33466665543 222345688888776554
No 197
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=27.79 E-value=38 Score=31.46 Aligned_cols=51 Identities=24% Similarity=0.390 Sum_probs=31.2
Q ss_pred CccccccccccccccCc-eee------EcCCCCCcchHhhHHHHHhc---------CCCCCCccCCCC
Q 030902 86 DPPENCAVCLYEFEGGE-EIR------WLRNCKHIFHRACLDPWMDH---------DQKTCPLCRTPF 137 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~-~~~------~l~~C~H~fh~~Ci~~wl~~---------~~~~CP~Cr~~~ 137 (169)
.....|-||.|.=.+.+ .+. .- .|...||.+|....-.- +.+.|-.|+..+
T Consensus 115 RfnKtCYIC~E~GrpnkA~~GACMtCNKs-~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hf 181 (900)
T KOG0956|consen 115 RFNKTCYICNEEGRPNKAAKGACMTCNKS-GCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHF 181 (900)
T ss_pred hhcceeeeecccCCccccccccceecccc-cchhhhhhhHhhhhccceeccccccccceechhHHHHH
Confidence 44568999999844322 111 22 68889999997653211 234588886543
No 198
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.33 E-value=36 Score=31.39 Aligned_cols=42 Identities=17% Similarity=0.345 Sum_probs=27.9
Q ss_pred cccccccccccccCceeeEcCCCCCcchHhhHHHHHhcCCCCCCcc
Q 030902 88 PENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHDQKTCPLC 133 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~~CP~C 133 (169)
...|-+|...=.....+.....|+-.||.+|.+. - .+.||+|
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~---~-~~~~~vC 695 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVACSLD---Y-ASISEVC 695 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhhhhh---h-hccCccc
Confidence 3478888776442333333338999999998544 3 5579999
No 199
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=26.90 E-value=30 Score=31.22 Aligned_cols=35 Identities=29% Similarity=0.662 Sum_probs=23.5
Q ss_pred cccccccccccccc-----------CceeeEcCCCCCcchHhhHHHHH
Q 030902 87 PPENCAVCLYEFEG-----------GEEIRWLRNCKHIFHRACLDPWM 123 (169)
Q Consensus 87 ~~~~C~ICl~~~~~-----------~~~~~~l~~C~H~fh~~Ci~~wl 123 (169)
....|+||.|+|+. .+.| .+ .=|-+||..|+..-.
T Consensus 512 ~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV-~l-e~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 512 RQASCPICQEKFEVVFDQEEDLWMYKDAV-YL-EFGRIFHSKCLSEKR 557 (579)
T ss_pred cccCCcccccccceeecchhhheeeccee-ee-ccCceeeccccchHH
Confidence 34589999999863 1122 22 247899999987644
No 200
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=26.43 E-value=40 Score=27.32 Aligned_cols=42 Identities=12% Similarity=0.310 Sum_probs=30.3
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHhcC-CCCCCcc
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHD-QKTCPLC 133 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-~~~CP~C 133 (169)
..|+|=...+.++..-+ .|+|+|-++-|...+... .-.||+=
T Consensus 177 ~rdPis~~~I~nPviSk---kC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 177 NRDPISKKPIVNPVISK---KCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred ccCchhhhhhhchhhhc---CcCcchhhhhHHHHhccCceeecccc
Confidence 46888777777764433 899999999999988641 2248763
No 201
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=26.14 E-value=1.3e+02 Score=22.89 Aligned_cols=15 Identities=20% Similarity=0.456 Sum_probs=12.4
Q ss_pred CCCCCccCCCCCCCh
Q 030902 127 QKTCPLCRTPFVPDE 141 (169)
Q Consensus 127 ~~~CP~Cr~~~~~~~ 141 (169)
...||.|...+...+
T Consensus 136 ~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 136 GFRCPQCGEMLEEYD 150 (178)
T ss_pred CCcCCCCCCCCeecc
Confidence 789999999987644
No 202
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.96 E-value=39 Score=23.01 Aligned_cols=13 Identities=38% Similarity=0.892 Sum_probs=11.3
Q ss_pred cchHhhHHHHHhc
Q 030902 113 IFHRACLDPWMDH 125 (169)
Q Consensus 113 ~fh~~Ci~~wl~~ 125 (169)
-||+.|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999964
No 203
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=25.88 E-value=43 Score=16.55 Aligned_cols=11 Identities=36% Similarity=0.902 Sum_probs=8.4
Q ss_pred CCccCCCCCCC
Q 030902 130 CPLCRTPFVPD 140 (169)
Q Consensus 130 CP~Cr~~~~~~ 140 (169)
||.|.+.+.+.
T Consensus 2 Cp~CG~~~~~~ 12 (23)
T PF13240_consen 2 CPNCGAEIEDD 12 (23)
T ss_pred CcccCCCCCCc
Confidence 88898887654
No 204
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=25.71 E-value=28 Score=34.92 Aligned_cols=51 Identities=25% Similarity=0.476 Sum_probs=38.8
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHhcC---CCCCCccCCCC
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMDHD---QKTCPLCRTPF 137 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~---~~~CP~Cr~~~ 137 (169)
.....|.+|+........+... .|.-.||.-|++.-+..- .-.||-||..-
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 4556899999998776666555 788899999999887652 23599997754
No 205
>KOG3816 consensus Cell differentiation regulator of the Headcase family [Signal transduction mechanisms]
Probab=25.44 E-value=41 Score=29.06 Aligned_cols=35 Identities=20% Similarity=0.511 Sum_probs=26.3
Q ss_pred CccccccccccccccCceeeEcCCCCCcchHhhHHHHHh
Q 030902 86 DPPENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMD 124 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 124 (169)
.....=.||.-.+-+.+.. +|+...|..|.+.|=.
T Consensus 86 ~~~~t~~~C~~VvCNNE~C----~~~~~MH~qCF~~WEs 120 (526)
T KOG3816|consen 86 APCATPLICSFVVCNNEHC----PCSTWMHLQCFYEWES 120 (526)
T ss_pred ccccChhhceEEeecCCCC----ChhhHHHHHHHHHHHH
Confidence 3333445666677777777 8999999999999963
No 206
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=25.33 E-value=59 Score=19.29 Aligned_cols=7 Identities=43% Similarity=1.606 Sum_probs=5.6
Q ss_pred CCccCCC
Q 030902 130 CPLCRTP 136 (169)
Q Consensus 130 CP~Cr~~ 136 (169)
||+|...
T Consensus 34 CPiC~~~ 40 (54)
T PF05605_consen 34 CPICSSR 40 (54)
T ss_pred CCCchhh
Confidence 9999764
No 207
>PRK01343 zinc-binding protein; Provisional
Probab=24.90 E-value=46 Score=20.60 Aligned_cols=12 Identities=33% Similarity=0.958 Sum_probs=9.4
Q ss_pred CCCCCccCCCCC
Q 030902 127 QKTCPLCRTPFV 138 (169)
Q Consensus 127 ~~~CP~Cr~~~~ 138 (169)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 457999998764
No 208
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.76 E-value=40 Score=29.30 Aligned_cols=38 Identities=29% Similarity=0.585 Sum_probs=27.7
Q ss_pred cccccccccccccCce-----eeEcCCCCCcchHhhHHHHHhcC
Q 030902 88 PENCAVCLYEFEGGEE-----IRWLRNCKHIFHRACLDPWMDHD 126 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~-----~~~l~~C~H~fh~~Ci~~wl~~~ 126 (169)
...|+.|....+.... .... +|.|.||+.|+..|-..+
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~-~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSA-SCKHEFCWVCLASLSDHG 268 (444)
T ss_pred CccCCCcccchhccCCccccccccC-CcCCeeceeeeccccccc
Confidence 3459999998876541 1122 599999999999998753
No 209
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=24.76 E-value=1e+02 Score=17.42 Aligned_cols=22 Identities=27% Similarity=0.611 Sum_probs=13.7
Q ss_pred CCCCCccCCCCCCChHHHHHHH
Q 030902 127 QKTCPLCRTPFVPDEMQEEFNQ 148 (169)
Q Consensus 127 ~~~CP~Cr~~~~~~~~~~~~~~ 148 (169)
..+||.|.-...+.........
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~~~H 34 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDEKLH 34 (41)
T ss_pred CcCCCCCCCEECCCCHHHHHHH
Confidence 4579999877766554443333
No 210
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=24.45 E-value=36 Score=26.57 Aligned_cols=23 Identities=22% Similarity=0.701 Sum_probs=15.0
Q ss_pred hHhhHHHHHhcCCCCCCccCCCC
Q 030902 115 HRACLDPWMDHDQKTCPLCRTPF 137 (169)
Q Consensus 115 h~~Ci~~wl~~~~~~CP~Cr~~~ 137 (169)
-+.||++--..-..-||+||...
T Consensus 96 RktCIrkn~~~~gnpCPICRDey 118 (239)
T KOG4021|consen 96 RKTCIRKNGRFLGNPCPICRDEY 118 (239)
T ss_pred hhHHHhhcCeecCCCCCccccce
Confidence 35788874332234699999865
No 211
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=24.44 E-value=41 Score=29.77 Aligned_cols=17 Identities=29% Similarity=0.581 Sum_probs=11.4
Q ss_pred CccccccccccccccCc
Q 030902 86 DPPENCAVCLYEFEGGE 102 (169)
Q Consensus 86 ~~~~~C~ICl~~~~~~~ 102 (169)
-....|+-||+++...+
T Consensus 24 i~~~yCp~CL~~~p~~e 40 (483)
T PF05502_consen 24 IDSYYCPNCLFEVPSSE 40 (483)
T ss_pred cceeECccccccCChhh
Confidence 34557888888875443
No 212
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=24.37 E-value=69 Score=22.21 Aligned_cols=34 Identities=15% Similarity=0.318 Sum_probs=26.8
Q ss_pred ccccccccccccCceeeEcCCCCCcchHhhHHHHHh
Q 030902 89 ENCAVCLYEFEGGEEIRWLRNCKHIFHRACLDPWMD 124 (169)
Q Consensus 89 ~~C~ICl~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 124 (169)
..|.||-+++..|..-..... -..|.+|+..=..
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 479999999988877766633 5689999987654
No 213
>PHA02909 hypothetical protein; Provisional
Probab=24.23 E-value=1.8e+02 Score=17.93 Aligned_cols=25 Identities=24% Similarity=0.148 Sum_probs=15.2
Q ss_pred CCccccccccCHHHHHHHHHHHHHH
Q 030902 3 FPVGYTEVFLPKFFVHTLSFLGFIR 27 (169)
Q Consensus 3 ~p~~~~~~~lp~~~~~~l~~l~~l~ 27 (169)
.-+.|.+..++.++..+++.+.+++
T Consensus 23 kkvyytentfcimvsfilfviifls 47 (72)
T PHA02909 23 KKVYYTENTFCIMVSFILFVIIFLS 47 (72)
T ss_pred eEEEEeccchhHHHHHHHHHHHHHH
Confidence 3445667777777766666555444
No 214
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=23.13 E-value=1.1e+02 Score=21.72 Aligned_cols=13 Identities=23% Similarity=0.723 Sum_probs=10.3
Q ss_pred CCCCCccCCCCCC
Q 030902 127 QKTCPLCRTPFVP 139 (169)
Q Consensus 127 ~~~CP~Cr~~~~~ 139 (169)
...|+.|+.++.-
T Consensus 85 ~D~CM~C~~pLTL 97 (114)
T PF11023_consen 85 VDACMHCKEPLTL 97 (114)
T ss_pred hhccCcCCCcCcc
Confidence 4579999999853
No 215
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=23.06 E-value=1.8e+02 Score=19.46 Aligned_cols=21 Identities=19% Similarity=0.135 Sum_probs=13.6
Q ss_pred ccccccCHHHHHHHHHHHHHH
Q 030902 7 YTEVFLPKFFVHTLSFLGFIR 27 (169)
Q Consensus 7 ~~~~~lp~~~~~~l~~l~~l~ 27 (169)
+-..+-|..+..+++.++++.
T Consensus 18 ~~~~l~pn~lMtILivLVIIi 38 (85)
T PF10717_consen 18 NLNGLNPNTLMTILIVLVIII 38 (85)
T ss_pred cccccChhHHHHHHHHHHHHH
Confidence 445567777777777665444
No 216
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=22.73 E-value=59 Score=16.34 Aligned_cols=7 Identities=43% Similarity=1.189 Sum_probs=3.4
Q ss_pred CCCccCC
Q 030902 129 TCPLCRT 135 (169)
Q Consensus 129 ~CP~Cr~ 135 (169)
-||.|.+
T Consensus 18 fC~~CG~ 24 (26)
T PF13248_consen 18 FCPNCGA 24 (26)
T ss_pred cChhhCC
Confidence 3555544
No 217
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=22.37 E-value=45 Score=30.62 Aligned_cols=27 Identities=33% Similarity=1.011 Sum_probs=20.7
Q ss_pred CCCCcchHhhHHHHHhcC----CCCCCccCC
Q 030902 109 NCKHIFHRACLDPWMDHD----QKTCPLCRT 135 (169)
Q Consensus 109 ~C~H~fh~~Ci~~wl~~~----~~~CP~Cr~ 135 (169)
.|+-.+|..|...|++.. ...||-||.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 688999999999999652 234877754
No 218
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=22.36 E-value=45 Score=21.01 Aligned_cols=11 Identities=36% Similarity=0.999 Sum_probs=8.8
Q ss_pred CCCCccCCCCC
Q 030902 128 KTCPLCRTPFV 138 (169)
Q Consensus 128 ~~CP~Cr~~~~ 138 (169)
..||+|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 47999999863
No 219
>PRK05978 hypothetical protein; Provisional
Probab=22.27 E-value=48 Score=24.57 Aligned_cols=22 Identities=18% Similarity=0.637 Sum_probs=15.5
Q ss_pred CcchHhhHHHHHhcCCCCCCccCCCCCC
Q 030902 112 HIFHRACLDPWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 112 H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 139 (169)
+.|+ .+++. +..||.|...+..
T Consensus 43 ~LF~-----g~Lkv-~~~C~~CG~~~~~ 64 (148)
T PRK05978 43 KLFR-----AFLKP-VDHCAACGEDFTH 64 (148)
T ss_pred cccc-----ccccc-CCCccccCCcccc
Confidence 5664 46665 7789999877643
No 220
>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=21.99 E-value=22 Score=29.52 Aligned_cols=47 Identities=15% Similarity=0.306 Sum_probs=26.5
Q ss_pred cccccccccccccCceeeEc---CCCCCcchHhhHHHHHhcCCCCCCccCCC
Q 030902 88 PENCAVCLYEFEGGEEIRWL---RNCKHIFHRACLDPWMDHDQKTCPLCRTP 136 (169)
Q Consensus 88 ~~~C~ICl~~~~~~~~~~~l---~~C~H~fh~~Ci~~wl~~~~~~CP~Cr~~ 136 (169)
...|+||-..-.... ++.. .+=.+.+|.-|-..|--. ...||.|...
T Consensus 184 ~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~-R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYV-RVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCccccc-CccCCCCCCC
Confidence 348999977632111 1100 011244556677788664 7789999763
No 221
>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=21.62 E-value=55 Score=22.93 Aligned_cols=45 Identities=24% Similarity=0.484 Sum_probs=26.3
Q ss_pred cccccccccccccc--CceeeEcCCCCCcchHhhHHHHHhcCCC--CCCccC
Q 030902 87 PPENCAVCLYEFEG--GEEIRWLRNCKHIFHRACLDPWMDHDQK--TCPLCR 134 (169)
Q Consensus 87 ~~~~C~ICl~~~~~--~~~~~~l~~C~H~fh~~Ci~~wl~~~~~--~CP~Cr 134 (169)
++..|.+|...|.- +.. .....|+|.+|..|-.. ..+.. .|-+|.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~-~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRG-RVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQ 101 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTC-EEETTTTEEEETTSEEE--TSSSCCEEEHHHH
T ss_pred CCcchhhhCCcccccCCCC-CcCCcCCccccCccCCc--CCCCCCEEChhhH
Confidence 45689999998642 223 33348999999998655 11122 377774
No 222
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=21.53 E-value=42 Score=27.95 Aligned_cols=47 Identities=15% Similarity=0.318 Sum_probs=27.0
Q ss_pred ccccccccccccccCceeeEcC--CCCCcchHhhHHHHHhcCCCCCCccCC
Q 030902 87 PPENCAVCLYEFEGGEEIRWLR--NCKHIFHRACLDPWMDHDQKTCPLCRT 135 (169)
Q Consensus 87 ~~~~C~ICl~~~~~~~~~~~l~--~C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 135 (169)
....|+||-..-... .++.-. +=.+.+|.-|-..|--. +..||.|..
T Consensus 186 ~~~~CPvCGs~P~~s-~v~~~~~~G~RyL~CslC~teW~~~-R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS-VVQIGTTQGLRYLHCNLCESEWHVV-RVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh-eeeccCCCCceEEEcCCCCCccccc-CccCCCCCC
Confidence 346899997763211 010000 11244566677788764 778999965
No 223
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=21.30 E-value=31 Score=17.93 Aligned_cols=10 Identities=50% Similarity=1.338 Sum_probs=5.4
Q ss_pred CCCccCCCCC
Q 030902 129 TCPLCRTPFV 138 (169)
Q Consensus 129 ~CP~Cr~~~~ 138 (169)
.||.|.+.+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4999988775
No 224
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=20.74 E-value=51 Score=25.08 Aligned_cols=30 Identities=30% Similarity=0.735 Sum_probs=19.3
Q ss_pred ccccc---cccccCceeeEcCCCCCcchHhhHHH
Q 030902 91 CAVCL---YEFEGGEEIRWLRNCKHIFHRACLDP 121 (169)
Q Consensus 91 C~ICl---~~~~~~~~~~~l~~C~H~fh~~Ci~~ 121 (169)
|..|. .+...+..|.-. +|+-.||+.||..
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQ-GCs~sYHk~CLG~ 34 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQ-GCSSSYHKACLGP 34 (175)
T ss_pred cccccCCCCCccCCCeEEcC-ccChHHHhhhcCC
Confidence 55663 444555555555 7888888888754
No 225
>PF12773 DZR: Double zinc ribbon
Probab=20.69 E-value=53 Score=18.95 Aligned_cols=12 Identities=33% Similarity=0.719 Sum_probs=7.7
Q ss_pred CCCCCccCCCCC
Q 030902 127 QKTCPLCRTPFV 138 (169)
Q Consensus 127 ~~~CP~Cr~~~~ 138 (169)
...||.|.+.+.
T Consensus 29 ~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 29 KKICPNCGAENP 40 (50)
T ss_pred CCCCcCCcCCCc
Confidence 345888877654
No 226
>PRK11827 hypothetical protein; Provisional
Probab=20.45 E-value=37 Score=21.21 Aligned_cols=18 Identities=17% Similarity=0.379 Sum_probs=11.7
Q ss_pred HHHhcCCCCCCccCCCCCC
Q 030902 121 PWMDHDQKTCPLCRTPFVP 139 (169)
Q Consensus 121 ~wl~~~~~~CP~Cr~~~~~ 139 (169)
.|+.. --.||.|+.++..
T Consensus 3 ~~LLe-ILaCP~ckg~L~~ 20 (60)
T PRK11827 3 HRLLE-IIACPVCNGKLWY 20 (60)
T ss_pred hHHHh-heECCCCCCcCeE
Confidence 34443 5578888887753
Done!