Query psy14787
Match_columns 81
No_of_seqs 132 out of 1397
Neff 9.2
Searched_HMMs 46136
Date Fri Aug 16 20:50:28 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14787.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14787hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 9E-17 2E-21 76.8 0.8 44 17-66 1-44 (44)
2 COG5243 HRD1 HRD ubiquitin lig 99.5 1.4E-14 3E-19 94.5 5.1 66 10-75 281-350 (491)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 1.7E-14 3.7E-19 75.7 1.6 55 12-66 15-73 (73)
4 KOG4628|consensus 99.4 8.3E-14 1.8E-18 90.5 2.2 51 18-74 231-282 (348)
5 PHA02929 N1R/p28-like protein; 99.4 3.1E-13 6.7E-18 84.4 4.0 61 15-76 173-233 (238)
6 PF12861 zf-Apc11: Anaphase-pr 99.3 7.9E-13 1.7E-17 70.6 3.0 59 14-72 19-84 (85)
7 PF13920 zf-C3HC4_3: Zinc fing 99.3 1E-12 2.2E-17 64.2 2.0 48 15-71 1-49 (50)
8 PLN03208 E3 ubiquitin-protein 99.2 5.7E-12 1.2E-16 76.3 3.4 53 14-75 16-84 (193)
9 PHA02926 zinc finger-like prot 99.2 7.7E-12 1.7E-16 77.0 4.0 63 14-76 168-236 (242)
10 PF13923 zf-C3HC4_2: Zinc fing 99.2 5.2E-12 1.1E-16 58.7 1.9 39 19-65 1-39 (39)
11 PF15227 zf-C3HC4_4: zinc fing 99.2 6.5E-12 1.4E-16 59.3 2.2 38 19-65 1-42 (42)
12 COG5540 RING-finger-containing 99.2 7.5E-12 1.6E-16 80.0 2.2 50 16-71 323-373 (374)
13 KOG0320|consensus 99.2 1.4E-11 3E-16 73.5 2.3 54 14-74 129-182 (187)
14 KOG0802|consensus 99.2 1.6E-11 3.5E-16 84.3 2.7 55 12-70 287-341 (543)
15 cd00162 RING RING-finger (Real 99.1 4.9E-11 1.1E-15 56.1 2.7 44 18-69 1-45 (45)
16 KOG0317|consensus 99.1 4.3E-11 9.3E-16 75.9 3.1 49 15-72 238-286 (293)
17 smart00504 Ubox Modified RING 99.1 1.6E-10 3.5E-15 58.5 3.5 47 17-72 2-48 (63)
18 COG5194 APC11 Component of SCF 99.0 1.3E-10 2.9E-15 61.0 2.5 59 15-73 19-84 (88)
19 PF00097 zf-C3HC4: Zinc finger 99.0 1.1E-10 2.3E-15 54.7 2.0 39 19-65 1-41 (41)
20 PF14634 zf-RING_5: zinc-RING 99.0 1.9E-10 4.1E-15 54.8 2.6 44 18-67 1-44 (44)
21 TIGR00599 rad18 DNA repair pro 99.0 2.3E-10 5E-15 76.0 3.9 50 14-72 24-73 (397)
22 KOG1493|consensus 99.0 6.6E-11 1.4E-15 61.7 1.0 62 11-72 15-83 (84)
23 KOG0823|consensus 99.0 2.2E-10 4.8E-15 70.8 2.6 53 16-77 47-102 (230)
24 smart00184 RING Ring finger. E 99.0 5E-10 1.1E-14 50.9 2.7 38 19-65 1-39 (39)
25 KOG0287|consensus 98.9 7E-10 1.5E-14 72.1 1.0 50 16-74 23-72 (442)
26 KOG1734|consensus 98.8 5E-10 1.1E-14 70.8 -0.5 70 3-72 211-283 (328)
27 KOG2930|consensus 98.8 1.5E-09 3.3E-14 59.6 0.8 59 14-72 44-110 (114)
28 COG5574 PEX10 RING-finger-cont 98.7 7E-09 1.5E-13 65.3 2.2 49 15-72 214-264 (271)
29 KOG2164|consensus 98.7 1.4E-08 3E-13 68.8 3.3 48 16-72 186-238 (513)
30 COG5432 RAD18 RING-finger-cont 98.7 1.2E-08 2.6E-13 65.4 1.9 48 16-72 25-72 (391)
31 PF11793 FANCL_C: FANCL C-term 98.6 5.6E-09 1.2E-13 54.3 -0.1 54 16-72 2-68 (70)
32 PF04564 U-box: U-box domain; 98.6 2.4E-08 5.2E-13 52.2 2.3 50 15-73 3-53 (73)
33 PF13445 zf-RING_UBOX: RING-ty 98.6 1.8E-08 3.9E-13 47.7 1.6 35 19-59 1-35 (43)
34 COG5219 Uncharacterized conser 98.6 1.8E-08 3.9E-13 72.6 2.1 63 7-71 1460-1524(1525)
35 KOG0828|consensus 98.6 2.1E-08 4.6E-13 68.0 2.2 58 14-71 569-635 (636)
36 TIGR00570 cdk7 CDK-activating 98.6 7.5E-08 1.6E-12 62.2 4.2 55 15-73 2-57 (309)
37 KOG2177|consensus 98.5 1.2E-07 2.6E-12 59.4 2.5 47 11-66 8-54 (386)
38 KOG0297|consensus 98.4 1.1E-07 2.5E-12 63.4 1.7 64 1-73 6-70 (391)
39 smart00744 RINGv The RING-vari 98.3 4.8E-07 1E-11 43.9 2.2 42 18-66 1-49 (49)
40 PF14835 zf-RING_6: zf-RING of 98.3 8E-08 1.7E-12 48.8 -0.5 50 13-72 4-53 (65)
41 KOG1039|consensus 98.3 5.1E-07 1.1E-11 59.3 2.7 61 15-76 160-227 (344)
42 KOG4265|consensus 98.3 4.6E-07 9.9E-12 59.3 2.0 50 16-74 290-340 (349)
43 KOG0804|consensus 98.2 5.8E-07 1.3E-11 60.4 1.4 50 14-70 173-222 (493)
44 KOG0824|consensus 98.1 1.8E-06 4E-11 55.5 1.9 50 16-74 7-57 (324)
45 KOG0978|consensus 98.1 1.7E-06 3.7E-11 61.0 1.5 54 14-76 641-695 (698)
46 KOG4172|consensus 98.0 1.9E-06 4.2E-11 42.4 0.5 48 16-72 7-56 (62)
47 KOG0311|consensus 97.9 2E-06 4.4E-11 56.4 -0.9 54 11-72 38-92 (381)
48 KOG0827|consensus 97.9 1E-05 2.2E-10 53.9 2.2 49 16-69 4-55 (465)
49 KOG4159|consensus 97.8 1.6E-05 3.4E-10 53.4 2.3 49 14-71 82-130 (398)
50 KOG2879|consensus 97.7 4.7E-05 1E-09 48.7 3.2 56 14-77 237-294 (298)
51 KOG3970|consensus 97.6 6.9E-05 1.5E-09 46.9 3.1 61 5-72 32-107 (299)
52 KOG0825|consensus 97.6 1.6E-05 3.4E-10 57.0 0.3 49 18-72 125-173 (1134)
53 KOG1941|consensus 97.6 2.5E-05 5.4E-10 52.2 0.8 47 16-67 365-413 (518)
54 KOG2660|consensus 97.5 2.8E-05 6.1E-10 50.7 0.7 52 13-72 12-63 (331)
55 KOG1785|consensus 97.5 5E-05 1.1E-09 51.0 1.4 45 18-71 371-417 (563)
56 PF11789 zf-Nse: Zinc-finger o 97.5 9.9E-05 2.2E-09 36.8 2.0 42 15-64 10-53 (57)
57 PF14570 zf-RING_4: RING/Ubox 97.4 0.00018 3.9E-09 34.7 2.7 44 19-69 1-47 (48)
58 KOG1645|consensus 97.4 7.6E-05 1.7E-09 50.0 1.8 50 16-69 4-55 (463)
59 KOG1002|consensus 97.4 5.4E-05 1.2E-09 52.5 0.7 58 12-78 532-594 (791)
60 COG5152 Uncharacterized conser 97.3 0.0001 2.3E-09 45.3 1.2 44 17-69 197-240 (259)
61 KOG1428|consensus 97.3 9.7E-05 2.1E-09 56.4 1.2 59 16-80 3486-3554(3738)
62 PF13639 zf-RING_2: Ring finge 97.2 0.0001 2.2E-09 34.6 0.5 23 1-23 22-44 (44)
63 KOG1813|consensus 97.2 0.00015 3.2E-09 46.8 1.1 46 16-70 241-286 (313)
64 KOG4445|consensus 97.2 8.9E-05 1.9E-09 48.1 0.1 53 16-74 115-190 (368)
65 KOG1952|consensus 97.1 0.00043 9.3E-09 50.1 2.7 56 10-70 185-247 (950)
66 PF10367 Vps39_2: Vacuolar sor 97.0 0.00015 3.4E-09 39.8 -0.2 33 14-53 76-108 (109)
67 PF08746 zf-RING-like: RING-li 96.9 0.00061 1.3E-08 32.1 1.5 24 42-65 18-43 (43)
68 PHA02825 LAP/PHD finger-like p 96.8 0.002 4.4E-08 38.3 3.2 49 14-72 6-61 (162)
69 PHA02862 5L protein; Provision 96.6 0.0025 5.5E-08 37.4 2.9 47 16-72 2-55 (156)
70 KOG4692|consensus 96.6 0.0018 3.9E-08 43.1 2.6 49 14-71 420-468 (489)
71 COG5236 Uncharacterized conser 96.6 0.0018 3.9E-08 43.1 2.4 49 15-72 60-110 (493)
72 PF04641 Rtf2: Rtf2 RING-finge 96.5 0.0021 4.6E-08 41.0 2.4 53 14-72 111-163 (260)
73 KOG4185|consensus 96.5 0.0031 6.6E-08 40.6 3.1 50 17-69 4-54 (296)
74 COG5175 MOT2 Transcriptional r 96.5 0.0023 5.1E-08 42.4 2.4 54 14-72 12-66 (480)
75 KOG1814|consensus 96.5 0.0018 3.8E-08 43.7 1.8 44 8-57 176-219 (445)
76 KOG1940|consensus 96.5 0.0026 5.6E-08 41.0 2.5 46 17-67 159-204 (276)
77 PF12906 RINGv: RING-variant d 96.4 0.0026 5.6E-08 30.4 1.6 40 19-65 1-47 (47)
78 KOG3268|consensus 96.3 0.005 1.1E-07 37.5 2.9 35 40-74 187-232 (234)
79 COG5222 Uncharacterized conser 96.2 0.0035 7.5E-08 41.0 2.1 42 17-67 275-318 (427)
80 KOG3039|consensus 96.2 0.0072 1.6E-07 38.5 3.3 54 14-72 219-272 (303)
81 PF12861 zf-Apc11: Anaphase-pr 96.1 0.0031 6.8E-08 33.9 1.3 27 1-27 53-82 (85)
82 PF14447 Prok-RING_4: Prokaryo 96.1 0.0037 8E-08 30.9 1.4 34 37-72 19-52 (55)
83 PF05883 Baculo_RING: Baculovi 96.1 0.0045 9.7E-08 35.9 1.9 41 12-58 22-68 (134)
84 PHA02929 N1R/p28-like protein; 96.1 0.0038 8.2E-08 39.5 1.7 27 2-28 202-228 (238)
85 PHA03096 p28-like protein; Pro 96.0 0.0046 9.9E-08 40.1 2.0 41 17-58 179-219 (284)
86 KOG2817|consensus 96.0 0.0073 1.6E-07 40.6 3.0 54 14-73 332-388 (394)
87 PF05290 Baculo_IE-1: Baculovi 96.0 0.0063 1.4E-07 35.3 2.3 51 16-74 80-136 (140)
88 KOG0826|consensus 96.0 0.0032 6.9E-08 41.4 1.2 59 14-80 298-356 (357)
89 KOG2114|consensus 95.8 0.0042 9.2E-08 45.2 1.2 43 17-70 841-883 (933)
90 PF03854 zf-P11: P-11 zinc fin 95.6 0.0055 1.2E-07 29.4 0.8 33 40-72 15-48 (50)
91 cd00162 RING RING-finger (Real 95.5 0.0093 2E-07 27.0 1.4 25 1-25 19-44 (45)
92 KOG4275|consensus 95.5 0.0018 3.9E-08 42.1 -1.5 42 16-70 300-342 (350)
93 smart00744 RINGv The RING-vari 95.4 0.0064 1.4E-07 29.3 0.7 23 1-23 25-49 (49)
94 KOG0801|consensus 95.4 0.0046 1E-07 37.1 0.1 28 16-49 177-204 (205)
95 KOG1571|consensus 95.2 0.01 2.3E-07 39.4 1.4 47 14-72 303-349 (355)
96 PF10272 Tmpp129: Putative tra 95.1 0.015 3.2E-07 38.9 1.9 28 43-70 311-351 (358)
97 KOG3800|consensus 94.8 0.027 6E-07 36.5 2.4 52 18-73 2-54 (300)
98 PF13923 zf-C3HC4_2: Zinc fing 94.7 0.019 4.2E-07 26.0 1.2 21 2-22 19-39 (39)
99 KOG4739|consensus 94.6 0.012 2.6E-07 37.1 0.5 36 36-73 16-51 (233)
100 KOG4628|consensus 94.5 0.015 3.2E-07 38.7 0.8 27 2-28 252-279 (348)
101 KOG2932|consensus 94.5 0.018 3.8E-07 37.9 1.1 31 38-70 104-134 (389)
102 PF13920 zf-C3HC4_3: Zinc fing 94.5 0.03 6.4E-07 26.8 1.7 26 2-27 22-48 (50)
103 COG5194 APC11 Component of SCF 94.4 0.022 4.8E-07 30.3 1.2 26 2-27 56-81 (88)
104 KOG2930|consensus 94.4 0.019 4E-07 32.0 0.9 25 2-26 83-107 (114)
105 KOG2034|consensus 94.4 0.019 4.2E-07 42.1 1.1 36 14-56 815-850 (911)
106 KOG4367|consensus 94.4 0.022 4.7E-07 39.2 1.3 35 14-57 2-36 (699)
107 COG5243 HRD1 HRD ubiquitin lig 94.1 0.027 5.8E-07 38.0 1.3 25 2-26 320-344 (491)
108 KOG4362|consensus 94.1 0.015 3.3E-07 41.6 0.2 60 3-71 8-70 (684)
109 smart00504 Ubox Modified RING 94.0 0.037 8E-07 27.4 1.4 27 2-28 21-47 (63)
110 KOG0309|consensus 93.7 0.051 1.1E-06 39.7 2.2 39 19-64 1031-1069(1081)
111 KOG1812|consensus 93.4 0.035 7.6E-07 37.4 0.9 55 16-75 146-208 (384)
112 PF07800 DUF1644: Protein of u 93.4 0.076 1.7E-06 31.7 2.2 12 15-26 1-12 (162)
113 KOG4718|consensus 93.1 0.073 1.6E-06 33.3 1.9 49 17-73 182-230 (235)
114 KOG1493|consensus 92.9 0.046 9.9E-07 28.8 0.7 26 2-27 53-81 (84)
115 COG5220 TFB3 Cdk activating ki 92.8 0.032 7E-07 35.6 0.1 54 14-71 8-65 (314)
116 KOG0802|consensus 92.7 0.045 9.7E-07 38.4 0.7 27 1-27 315-341 (543)
117 KOG3002|consensus 92.4 0.087 1.9E-06 34.5 1.7 43 15-70 47-91 (299)
118 COG5183 SSM4 Protein involved 92.3 0.2 4.4E-06 37.1 3.4 53 14-73 10-69 (1175)
119 COG5540 RING-finger-containing 91.7 0.11 2.4E-06 34.2 1.5 26 2-27 346-372 (374)
120 KOG1001|consensus 91.6 0.077 1.7E-06 38.3 0.8 46 17-72 455-502 (674)
121 PF14446 Prok-RING_1: Prokaryo 91.0 0.19 4.2E-06 24.7 1.7 34 16-54 5-38 (54)
122 KOG3053|consensus 90.4 0.16 3.5E-06 32.7 1.3 52 16-72 20-84 (293)
123 PF04564 U-box: U-box domain; 90.1 0.26 5.6E-06 25.4 1.8 27 2-28 24-51 (73)
124 KOG1100|consensus 90.0 0.18 3.9E-06 31.4 1.3 40 19-71 161-201 (207)
125 KOG0317|consensus 89.9 0.19 4.1E-06 32.7 1.3 27 2-28 259-285 (293)
126 KOG0827|consensus 89.5 0.014 3E-07 39.4 -4.1 51 17-72 197-247 (465)
127 PHA02926 zinc finger-like prot 88.9 0.22 4.8E-06 31.5 1.1 27 2-28 199-231 (242)
128 KOG0298|consensus 88.6 0.22 4.8E-06 38.3 1.1 47 14-68 1151-1197(1394)
129 PF13901 DUF4206: Domain of un 88.4 0.45 9.7E-06 29.4 2.2 46 16-67 152-197 (202)
130 KOG3899|consensus 88.3 0.28 6.1E-06 32.3 1.3 28 43-70 325-365 (381)
131 PF02891 zf-MIZ: MIZ/SP-RING z 86.8 0.5 1.1E-05 22.7 1.5 42 17-67 3-49 (50)
132 PF14569 zf-UDP: Zinc-binding 85.4 2.6 5.5E-05 22.4 3.7 55 16-72 9-64 (80)
133 COG5109 Uncharacterized conser 84.9 0.9 2E-05 30.3 2.3 33 35-67 349-384 (396)
134 PLN03208 E3 ubiquitin-protein 84.9 0.59 1.3E-05 28.9 1.4 28 1-28 37-80 (193)
135 KOG0825|consensus 84.0 0.49 1.1E-05 35.1 0.9 28 1-28 145-172 (1134)
136 COG5432 RAD18 RING-finger-cont 83.9 0.68 1.5E-05 30.6 1.4 27 2-28 45-71 (391)
137 KOG0828|consensus 83.4 0.58 1.3E-05 32.9 1.0 25 2-26 608-633 (636)
138 KOG3113|consensus 81.3 1.5 3.2E-05 28.4 2.2 33 39-73 129-161 (293)
139 KOG1609|consensus 80.3 1.7 3.6E-05 28.0 2.3 52 16-72 78-136 (323)
140 KOG0269|consensus 80.1 1.7 3.8E-05 32.0 2.4 24 41-64 797-820 (839)
141 PF00628 PHD: PHD-finger; Int 79.7 0.54 1.2E-05 22.2 -0.1 32 18-55 1-32 (51)
142 KOG0320|consensus 79.7 1 2.2E-05 27.5 1.1 26 2-27 153-178 (187)
143 KOG1815|consensus 79.3 1.4 3E-05 30.3 1.8 35 16-58 70-104 (444)
144 PF07975 C1_4: TFIIH C1-like d 79.2 0.99 2.1E-05 22.0 0.7 48 19-66 2-50 (51)
145 KOG1829|consensus 77.7 0.98 2.1E-05 32.3 0.6 27 40-69 534-560 (580)
146 TIGR00599 rad18 DNA repair pro 77.5 1.7 3.7E-05 29.7 1.7 28 1-28 45-72 (397)
147 PF10571 UPF0547: Uncharacteri 76.6 2 4.4E-05 17.8 1.3 9 18-26 2-10 (26)
148 PF04423 Rad50_zn_hook: Rad50 76.5 0.95 2.1E-05 21.9 0.2 14 60-73 21-34 (54)
149 KOG3579|consensus 76.4 1.7 3.7E-05 28.6 1.4 37 14-59 266-306 (352)
150 smart00249 PHD PHD zinc finger 76.1 1.3 2.8E-05 19.9 0.7 14 41-54 18-31 (47)
151 PF13719 zinc_ribbon_5: zinc-r 75.9 1.1 2.4E-05 20.1 0.3 11 18-28 4-14 (37)
152 KOG3161|consensus 75.8 1.5 3.3E-05 31.9 1.2 41 16-63 11-51 (861)
153 PF07191 zinc-ribbons_6: zinc- 75.8 0.25 5.4E-06 25.6 -2.0 42 17-72 2-43 (70)
154 KOG3005|consensus 73.6 2.2 4.8E-05 27.7 1.4 51 17-69 183-242 (276)
155 PF13717 zinc_ribbon_4: zinc-r 71.5 1.7 3.8E-05 19.3 0.4 30 18-47 4-35 (36)
156 KOG1812|consensus 71.4 2.2 4.7E-05 29.0 1.1 46 16-65 306-351 (384)
157 COG5219 Uncharacterized conser 71.0 2.7 5.8E-05 32.3 1.5 25 2-26 1496-1522(1525)
158 KOG2066|consensus 70.3 1.4 2.9E-05 32.7 -0.1 47 16-65 784-830 (846)
159 KOG2807|consensus 70.3 3.3 7.2E-05 27.8 1.7 45 16-66 330-374 (378)
160 PLN02189 cellulose synthase 69.0 5.6 0.00012 30.5 2.7 53 16-70 34-87 (1040)
161 KOG3842|consensus 68.4 6.3 0.00014 26.5 2.6 70 2-71 326-415 (429)
162 PLN02436 cellulose synthase A 67.1 6.4 0.00014 30.4 2.7 52 17-70 37-89 (1094)
163 PF05605 zf-Di19: Drought indu 66.8 2.7 5.9E-05 20.2 0.6 11 60-70 32-42 (54)
164 PF13771 zf-HC5HC2H: PHD-like 66.3 5.4 0.00012 20.9 1.8 45 4-54 22-68 (90)
165 PF04710 Pellino: Pellino; In 66.1 2 4.2E-05 29.5 0.0 31 37-70 303-339 (416)
166 PF00412 LIM: LIM domain; Int 64.8 1.5 3.2E-05 21.0 -0.6 23 42-72 17-39 (58)
167 PF06844 DUF1244: Protein of u 64.4 4.8 0.0001 20.7 1.2 12 46-57 11-22 (68)
168 TIGR00622 ssl1 transcription f 64.2 11 0.00024 21.4 2.8 50 17-66 56-110 (112)
169 KOG2231|consensus 63.5 9.5 0.00021 28.0 3.0 46 18-72 2-54 (669)
170 KOG3799|consensus 62.7 2.2 4.7E-05 25.1 -0.2 12 14-25 63-74 (169)
171 KOG2660|consensus 62.6 2.5 5.5E-05 28.2 0.0 28 1-28 35-62 (331)
172 smart00109 C1 Protein kinase C 62.0 7.5 0.00016 17.6 1.7 36 14-54 9-44 (49)
173 PLN02915 cellulose synthase A 62.0 6.9 0.00015 30.1 2.1 53 16-70 15-68 (1044)
174 smart00064 FYVE Protein presen 61.6 7.1 0.00015 19.4 1.6 41 11-56 3-45 (68)
175 KOG2068|consensus 61.0 12 0.00027 25.0 3.0 52 16-72 249-300 (327)
176 cd04718 BAH_plant_2 BAH, or Br 60.2 3.2 6.9E-05 24.6 0.2 24 47-70 2-29 (148)
177 KOG2114|consensus 58.9 4.2 9.1E-05 30.5 0.6 24 1-27 860-883 (933)
178 cd00065 FYVE FYVE domain; Zinc 58.8 10 0.00022 18.0 1.9 35 17-56 3-37 (57)
179 PF13832 zf-HC5HC2H_2: PHD-zin 58.0 9.8 0.00021 20.8 1.9 34 16-55 55-88 (110)
180 PF07649 C1_3: C1-like domain; 57.5 4 8.7E-05 17.1 0.2 29 18-52 2-30 (30)
181 KOG1245|consensus 57.0 4.2 9.2E-05 32.2 0.4 60 4-69 1096-1159(1404)
182 smart00132 LIM Zinc-binding do 56.3 4.4 9.5E-05 17.3 0.2 18 44-69 20-37 (39)
183 PF01363 FYVE: FYVE zinc finge 56.2 3.2 6.9E-05 20.8 -0.3 35 16-55 9-43 (69)
184 PF10146 zf-C4H2: Zinc finger- 56.0 12 0.00025 23.8 2.2 28 47-74 196-223 (230)
185 PF14311 DUF4379: Domain of un 56.0 9.3 0.0002 18.4 1.4 23 42-65 33-55 (55)
186 PF14169 YdjO: Cold-inducible 55.6 7.3 0.00016 19.5 1.0 14 59-72 39-52 (59)
187 KOG4451|consensus 55.5 11 0.00023 24.3 1.9 27 47-73 251-277 (286)
188 PLN02638 cellulose synthase A 54.1 15 0.00032 28.6 2.7 52 16-70 17-70 (1079)
189 TIGR00570 cdk7 CDK-activating 50.7 13 0.00028 24.8 1.8 27 2-28 28-55 (309)
190 cd00350 rubredoxin_like Rubred 50.4 10 0.00023 16.3 1.0 10 59-68 17-26 (33)
191 PLN02195 cellulose synthase A 50.0 18 0.00038 27.9 2.6 52 16-70 6-59 (977)
192 PF06906 DUF1272: Protein of u 49.4 24 0.00051 17.5 2.2 45 18-71 7-53 (57)
193 smart00734 ZnF_Rad18 Rad18-lik 48.8 4.2 9E-05 16.8 -0.4 11 61-71 3-13 (26)
194 COG5627 MMS21 DNA repair prote 48.7 12 0.00027 24.1 1.4 41 16-64 189-231 (275)
195 PF10497 zf-4CXXC_R1: Zinc-fin 47.8 17 0.00036 20.2 1.7 26 44-69 37-71 (105)
196 PLN02400 cellulose synthase 47.7 14 0.00031 28.6 1.8 52 16-70 36-89 (1085)
197 smart00647 IBR In Between Ring 46.5 8.5 0.00018 18.6 0.4 37 18-55 20-58 (64)
198 KOG3039|consensus 46.5 21 0.00046 23.3 2.2 35 14-57 41-75 (303)
199 PF00130 C1_1: Phorbol esters/ 46.5 7.8 0.00017 18.2 0.3 37 14-54 9-45 (53)
200 PF09237 GAGA: GAGA factor; I 44.9 6.5 0.00014 19.2 -0.1 12 61-72 26-37 (54)
201 PF03119 DNA_ligase_ZBD: NAD-d 44.7 11 0.00024 15.8 0.6 12 61-72 1-12 (28)
202 KOG0978|consensus 43.9 12 0.00027 27.6 1.0 28 1-28 662-690 (698)
203 PF09723 Zn-ribbon_8: Zinc rib 43.9 6.3 0.00014 18.0 -0.3 8 60-67 27-34 (42)
204 PF02318 FYVE_2: FYVE-type zin 43.8 12 0.00026 21.0 0.8 48 15-67 53-102 (118)
205 PF10122 Mu-like_Com: Mu-like 42.9 18 0.00039 17.6 1.2 20 61-80 26-45 (51)
206 KOG0287|consensus 42.5 16 0.00034 24.9 1.3 27 2-28 43-69 (442)
207 PF06677 Auto_anti-p27: Sjogre 42.3 21 0.00047 16.4 1.4 20 52-71 10-29 (41)
208 PRK11088 rrmA 23S rRNA methylt 42.0 15 0.00032 23.4 1.1 12 17-28 3-14 (272)
209 PF09538 FYDLN_acid: Protein o 41.8 19 0.00041 20.2 1.4 12 61-72 28-39 (108)
210 PRK11827 hypothetical protein; 41.5 14 0.0003 18.5 0.7 14 60-73 9-22 (60)
211 KOG2071|consensus 38.8 12 0.00027 26.9 0.4 41 16-56 513-557 (579)
212 PF05715 zf-piccolo: Piccolo Z 38.8 22 0.00047 17.9 1.1 11 60-70 3-13 (61)
213 PF14353 CpXC: CpXC protein 38.0 44 0.00096 18.8 2.6 12 61-72 40-51 (128)
214 PRK11595 DNA utilization prote 36.2 41 0.00088 21.0 2.4 23 47-69 22-44 (227)
215 PF04690 YABBY: YABBY protein; 35.8 14 0.00029 22.5 0.2 28 18-45 14-41 (170)
216 COG5183 SSM4 Protein involved 35.4 21 0.00045 27.2 1.1 26 3-28 40-67 (1175)
217 COG3492 Uncharacterized protei 35.2 22 0.00047 19.5 0.9 12 46-57 42-53 (104)
218 PF12773 DZR: Double zinc ribb 35.0 45 0.00098 15.3 2.0 10 60-69 30-39 (50)
219 COG2835 Uncharacterized conser 34.8 19 0.00041 18.1 0.6 14 61-74 10-23 (60)
220 PF01485 IBR: IBR domain; Int 34.6 6.9 0.00015 18.8 -1.0 38 17-55 19-58 (64)
221 TIGR02300 FYDLN_acid conserved 34.4 32 0.00069 20.0 1.5 13 60-72 27-39 (129)
222 TIGR02098 MJ0042_CXXC MJ0042 f 33.6 21 0.00045 15.6 0.6 11 18-28 4-14 (38)
223 COG5151 SSL1 RNA polymerase II 33.4 43 0.00094 22.7 2.2 52 16-67 362-418 (421)
224 KOG2979|consensus 33.0 35 0.00076 22.2 1.7 28 38-65 190-219 (262)
225 KOG2113|consensus 32.7 29 0.00062 23.5 1.3 30 38-69 356-386 (394)
226 PF07227 DUF1423: Protein of u 32.5 22 0.00048 24.9 0.8 14 42-55 151-164 (446)
227 PF13453 zf-TFIIB: Transcripti 32.1 24 0.00052 15.8 0.7 11 61-71 1-11 (41)
228 PRK00398 rpoP DNA-directed RNA 31.1 28 0.00061 16.0 0.9 16 60-75 22-37 (46)
229 PF13894 zf-C2H2_4: C2H2-type 30.9 23 0.00051 13.0 0.5 11 61-71 2-12 (24)
230 PF06750 DiS_P_DiS: Bacterial 30.2 49 0.0011 17.8 1.8 20 52-71 51-70 (92)
231 COG3813 Uncharacterized protei 30.0 47 0.001 17.4 1.6 26 44-71 28-53 (84)
232 PF09889 DUF2116: Uncharacteri 29.7 36 0.00079 17.0 1.1 14 59-72 3-16 (59)
233 PF03884 DUF329: Domain of unk 29.6 24 0.00053 17.5 0.5 11 61-71 4-14 (57)
234 PF01396 zf-C4_Topoisom: Topoi 29.5 34 0.00074 15.3 1.0 13 61-73 3-15 (39)
235 KOG1842|consensus 29.3 16 0.00036 25.6 -0.2 43 8-55 170-214 (505)
236 PRK00418 DNA gyrase inhibitor; 28.9 38 0.00083 17.1 1.1 11 60-70 7-17 (62)
237 PLN02248 cellulose synthase-li 28.7 82 0.0018 24.9 3.2 29 43-71 150-178 (1135)
238 PF09943 DUF2175: Uncharacteri 28.7 40 0.00087 18.8 1.3 33 17-56 3-35 (101)
239 PF04216 FdhE: Protein involve 28.5 9.2 0.0002 24.8 -1.4 49 16-68 172-220 (290)
240 PF13913 zf-C2HC_2: zinc-finge 28.5 25 0.00054 14.1 0.4 11 61-71 4-14 (25)
241 PF09986 DUF2225: Uncharacteri 28.2 26 0.00057 21.8 0.6 16 59-74 5-20 (214)
242 KOG1074|consensus 27.5 20 0.00042 27.3 -0.1 20 9-28 598-617 (958)
243 KOG4021|consensus 26.9 37 0.00081 21.3 1.1 22 49-70 97-119 (239)
244 PF10013 DUF2256: Uncharacteri 26.7 40 0.00086 15.7 0.9 12 59-70 8-19 (42)
245 COG1675 TFA1 Transcription ini 25.8 53 0.0012 20.1 1.6 24 52-75 125-148 (176)
246 PRK04023 DNA polymerase II lar 25.7 62 0.0013 25.4 2.1 46 16-72 626-676 (1121)
247 KOG0956|consensus 25.3 45 0.00098 25.0 1.4 51 16-70 117-182 (900)
248 COG4847 Uncharacterized protei 25.1 60 0.0013 18.0 1.5 35 16-57 6-40 (103)
249 KOG1818|consensus 24.3 24 0.00053 25.8 -0.1 46 5-56 155-200 (634)
250 PF05810 NinF: NinF protein; 24.2 67 0.0015 15.9 1.5 11 47-57 34-44 (58)
251 PF05191 ADK_lid: Adenylate ki 24.0 29 0.00063 15.4 0.2 27 42-70 6-32 (36)
252 cd00029 C1 Protein kinase C co 23.9 44 0.00096 15.0 0.8 36 15-54 10-45 (50)
253 KOG4443|consensus 23.8 45 0.00097 24.7 1.1 27 41-67 39-70 (694)
254 PF15616 TerY-C: TerY-C metal 23.5 24 0.00052 20.6 -0.2 49 11-74 72-120 (131)
255 KOG2462|consensus 23.2 33 0.00072 22.5 0.4 30 41-70 186-226 (279)
256 KOG2789|consensus 23.1 57 0.0012 22.8 1.4 53 17-76 75-151 (482)
257 PF02132 RecR: RecR protein; 22.5 25 0.00054 15.9 -0.2 8 16-23 29-36 (41)
258 PF06827 zf-FPG_IleRS: Zinc fi 21.9 52 0.0011 13.5 0.8 11 61-71 3-13 (30)
259 KOG3993|consensus 21.9 12 0.00025 26.2 -1.9 40 15-69 266-305 (500)
260 PF00096 zf-C2H2: Zinc finger, 21.6 31 0.00067 12.9 0.0 11 61-71 2-12 (23)
261 TIGR00373 conserved hypothetic 21.6 44 0.00095 19.8 0.7 19 57-75 126-144 (158)
262 cd00729 rubredoxin_SM Rubredox 21.4 47 0.001 14.4 0.6 9 60-68 19-27 (34)
263 PF06170 DUF983: Protein of un 21.4 39 0.00084 18.1 0.4 21 55-75 4-24 (86)
264 KOG1729|consensus 21.1 20 0.00043 23.7 -1.0 36 18-59 216-251 (288)
265 PF03107 C1_2: C1 domain; Int 21.1 36 0.00078 14.2 0.2 11 18-28 2-12 (30)
266 KOG4218|consensus 20.8 81 0.0018 21.8 1.8 12 16-27 15-26 (475)
267 COG4647 AcxC Acetone carboxyla 20.5 38 0.00083 19.9 0.2 17 38-55 70-86 (165)
268 PRK00420 hypothetical protein; 20.4 1.2E+02 0.0027 17.1 2.3 10 61-70 42-51 (112)
269 PRK01343 zinc-binding protein; 20.4 1.3E+02 0.0028 14.9 2.1 37 16-61 9-45 (57)
270 COG3809 Uncharacterized protei 20.2 45 0.00097 17.8 0.4 11 61-71 23-33 (88)
271 PF06676 DUF1178: Protein of u 20.1 37 0.0008 20.2 0.1 9 61-69 34-42 (148)
No 1
>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=99.62 E-value=9e-17 Score=76.78 Aligned_cols=44 Identities=43% Similarity=1.149 Sum_probs=38.0
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICR 66 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr 66 (81)
+.|+||++.+.. ...+..++|+|.||..||.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~------~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFED------GEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHT------TSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcC------CCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 369999999976 56677889999999999999999889999996
No 2
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.53 E-value=1.4e-14 Score=94.50 Aligned_cols=66 Identities=30% Similarity=0.720 Sum_probs=50.8
Q ss_pred HhhhcCCcccccccccc-ccccccC---cCCCCcccCCCCcccHhhHHHHHhCCCCCCCCcccccccccc
Q psy14787 10 DQWLSSNKRCPICRVDI-ETHLNKD---LLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETHLNK 75 (81)
Q Consensus 10 ~~~~~~~~~C~iC~~~~-~~~~~~~---~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~~~ 75 (81)
++.-.+|..|.|||+.+ ..+.... ....+.++||||.+|.+|++.|++++++||.||.++-.+..+
T Consensus 281 eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~~ 350 (491)
T COG5243 281 EQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQSS 350 (491)
T ss_pred hhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccCC
Confidence 34457788999999984 3322111 134578999999999999999999999999999997655544
No 3
>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=99.47 E-value=1.7e-14 Score=75.67 Aligned_cols=55 Identities=38% Similarity=0.915 Sum_probs=39.0
Q ss_pred hhcCCccccccccccccccccCc----CCCCcccCCCCcccHhhHHHHHhCCCCCCCCc
Q psy14787 12 WLSSNKRCPICRVDIETHLNKDL----LQPTWRLPCMHLFHVECVDQWLSSNKRCPICR 66 (81)
Q Consensus 12 ~~~~~~~C~iC~~~~~~~~~~~~----~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr 66 (81)
|-..++.|+||++.+........ ...+...+|||.||..||.+|+..+.+||+||
T Consensus 15 ~~~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 15 WDIADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp ESSCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred ecCcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 33446679999999954321111 12234457999999999999999999999997
No 4
>KOG4628|consensus
Probab=99.41 E-value=8.3e-14 Score=90.53 Aligned_cols=51 Identities=43% Similarity=0.966 Sum_probs=45.0
Q ss_pred cccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCC-CCCCCccccccccc
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNK-RCPICRVDIETHLN 74 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~-~CP~Cr~~~~~~~~ 74 (81)
.|+||+++|.. ++..+.|||+|.||..||..|+...+ .||+|+..+.....
T Consensus 231 ~CaIClEdY~~------GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 231 TCAICLEDYEK------GDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred eEEEeeccccc------CCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 89999999988 88899999999999999999997665 49999998765543
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.40 E-value=3.1e-13 Score=84.39 Aligned_cols=61 Identities=25% Similarity=0.615 Sum_probs=44.6
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETHLNKD 76 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~ 76 (81)
.+..|+||++.+.... ..........+|+|.||..||.+|+..+.+||+||..+.....+.
T Consensus 173 ~~~eC~ICle~~~~~~-~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~~~r 233 (238)
T PHA02929 173 KDKECAICMEKVYDKE-IKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIKSR 233 (238)
T ss_pred CCCCCccCCcccccCc-cccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEeeee
Confidence 4678999999875411 000011345679999999999999999999999999887655443
No 6
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.34 E-value=7.9e-13 Score=70.58 Aligned_cols=59 Identities=29% Similarity=0.666 Sum_probs=43.2
Q ss_pred cCCccccccccccccccccC--cCC--CCcccCCCCcccHhhHHHHHhC---CCCCCCCccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKD--LLQ--PTWRLPCMHLFHVECVDQWLSS---NKRCPICRVDIETH 72 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~--~~~--~~~~~~C~h~fh~~Ci~~~~~~---~~~CP~Cr~~~~~~ 72 (81)
.+++.|+||+..|+...+.- +++ ......|+|.||..||.+|+++ ++.||+||+++..+
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 45889999999998543322 122 1233459999999999999975 35699999988653
No 7
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.31 E-value=1e-12 Score=64.21 Aligned_cols=48 Identities=44% Similarity=0.955 Sum_probs=39.4
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCc-ccHhhHHHHHhCCCCCCCCcccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHL-FHVECVDQWLSSNKRCPICRVDIET 71 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~-fh~~Ci~~~~~~~~~CP~Cr~~~~~ 71 (81)
++..|.||++.... +..++|||. |+..|+.+|+.....||+||+++..
T Consensus 1 ~~~~C~iC~~~~~~---------~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 1 EDEECPICFENPRD---------VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp -HSB-TTTSSSBSS---------EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred CcCCCccCCccCCc---------eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 35689999987644 778899999 9999999999988999999998753
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.25 E-value=5.7e-12 Score=76.34 Aligned_cols=53 Identities=25% Similarity=0.652 Sum_probs=41.9
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC----------------CCCCCCCcccccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS----------------NKRCPICRVDIETHLNK 75 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~----------------~~~CP~Cr~~~~~~~~~ 75 (81)
.++..|+||++.+.. +..++|||.||..||..|+.. ...||+|+..+......
T Consensus 16 ~~~~~CpICld~~~d---------PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 16 GGDFDCNICLDQVRD---------PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred CCccCCccCCCcCCC---------cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 356789999998755 677889999999999999742 23699999998754433
No 9
>PHA02926 zinc finger-like protein; Provisional
Probab=99.25 E-value=7.7e-12 Score=77.02 Aligned_cols=63 Identities=24% Similarity=0.526 Sum_probs=43.9
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC------CCCCCCccccccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN------KRCPICRVDIETHLNKD 76 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~------~~CP~Cr~~~~~~~~~~ 76 (81)
+.+..|+||++.+...............+|+|.||..||..|.... ..||+||..+.....++
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSr 236 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSK 236 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccc
Confidence 4578899999976432111112234556799999999999998643 35999999887655443
No 10
>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=99.22 E-value=5.2e-12 Score=58.72 Aligned_cols=39 Identities=41% Similarity=1.118 Sum_probs=31.7
Q ss_pred ccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCC
Q psy14787 19 CPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPIC 65 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~C 65 (81)
|+||++.+.. ....++|||.|+..|+.+|++.+..||.|
T Consensus 1 C~iC~~~~~~--------~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--------PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--------EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--------cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 7899988754 23678999999999999999988889987
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.22 E-value=6.5e-12 Score=59.35 Aligned_cols=38 Identities=34% Similarity=0.809 Sum_probs=29.4
Q ss_pred ccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC----CCCCCC
Q psy14787 19 CPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN----KRCPIC 65 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~----~~CP~C 65 (81)
|+||++.|.. ++.++|||+|+..||.+|.+.. ..||.|
T Consensus 1 CpiC~~~~~~---------Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---------PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---------EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---------ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999977 8899999999999999998653 259887
No 12
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=7.5e-12 Score=80.03 Aligned_cols=50 Identities=40% Similarity=0.915 Sum_probs=43.3
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh-CCCCCCCCcccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS-SNKRCPICRVDIET 71 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~-~~~~CP~Cr~~~~~ 71 (81)
+-+|+|||+.+-. .+..+.+||.|.||..|+..|+. -+..||+||..++.
T Consensus 323 GveCaICms~fiK------~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIK------NDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcc------cceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 4579999999965 66788999999999999999996 67789999998763
No 13
>KOG0320|consensus
Probab=99.17 E-value=1.4e-11 Score=73.54 Aligned_cols=54 Identities=26% Similarity=0.658 Sum_probs=44.1
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETHLN 74 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 74 (81)
.+...|+||++.+.. ..+....|||+||..||...+.....||+|+..++.+..
T Consensus 129 ~~~~~CPiCl~~~se-------k~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSE-------KVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF 182 (187)
T ss_pred ccccCCCceecchhh-------ccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence 345679999999876 223557799999999999999999999999988776544
No 14
>KOG0802|consensus
Probab=99.16 E-value=1.6e-11 Score=84.27 Aligned_cols=55 Identities=33% Similarity=0.782 Sum_probs=44.9
Q ss_pred hhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccc
Q psy14787 12 WLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIE 70 (81)
Q Consensus 12 ~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~ 70 (81)
....+..|+||++.+....+ ..+.+++|+|.||..|+..|+++.++||.||..+.
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~----~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHN----ITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hhhcCCeeeeechhhccccc----cccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 44557889999999865211 33678999999999999999999999999999443
No 15
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.13 E-value=4.9e-11 Score=56.05 Aligned_cols=44 Identities=45% Similarity=1.158 Sum_probs=34.6
Q ss_pred cccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC-CCCCCCCcccc
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS-NKRCPICRVDI 69 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~-~~~CP~Cr~~~ 69 (81)
.|+||++.+.. .....+|+|.||..|+..|+.. ...||.|+..+
T Consensus 1 ~C~iC~~~~~~--------~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--------PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--------ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 48999988732 2344559999999999999987 66799998753
No 16
>KOG0317|consensus
Probab=99.12 E-value=4.3e-11 Score=75.89 Aligned_cols=49 Identities=27% Similarity=0.814 Sum_probs=42.6
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
....|.+|++..+. +..+||||.||-.||..|......||+||..+...
T Consensus 238 a~~kC~LCLe~~~~---------pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 238 ATRKCSLCLENRSN---------PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred CCCceEEEecCCCC---------CCcCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 35679999988655 88999999999999999999888999999987654
No 17
>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=99.08 E-value=1.6e-10 Score=58.53 Aligned_cols=47 Identities=19% Similarity=0.385 Sum_probs=41.0
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
..|+||.+.+.. ++.++|||+|+..||.+|+..+..||.|+..+...
T Consensus 2 ~~Cpi~~~~~~~---------Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKD---------PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCC---------CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 469999999866 67889999999999999998888899999887543
No 18
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.05 E-value=1.3e-10 Score=61.04 Aligned_cols=59 Identities=25% Similarity=0.412 Sum_probs=42.0
Q ss_pred CCccccccccccccccccCc------CCCCcc-cCCCCcccHhhHHHHHhCCCCCCCCcccccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDL------LQPTWR-LPCMHLFHVECVDQWLSSNKRCPICRVDIETHL 73 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~------~~~~~~-~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~ 73 (81)
.-+.|+||+..+......-. .+.+.. ..|+|.||..||.+|+..+..||++++.+....
T Consensus 19 ~id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 19 PIDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred ccchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 34679999887755332211 112222 239999999999999999999999999886543
No 19
>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=99.05 E-value=1.1e-10 Score=54.66 Aligned_cols=39 Identities=41% Similarity=1.091 Sum_probs=31.8
Q ss_pred ccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh--CCCCCCCC
Q psy14787 19 CPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS--SNKRCPIC 65 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~--~~~~CP~C 65 (81)
|+||++.+... ...++|||.|+..|+.+|++ ....||+|
T Consensus 1 C~iC~~~~~~~--------~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--------VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--------EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--------CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 78999987651 23788999999999999998 34469987
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.04 E-value=1.9e-10 Score=54.76 Aligned_cols=44 Identities=27% Similarity=0.674 Sum_probs=36.0
Q ss_pred cccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCcc
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRV 67 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~ 67 (81)
.|++|.+.+.. ...+..++|||+|+..|+..+......||+|++
T Consensus 1 ~C~~C~~~~~~------~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSE------ERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccC------CCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 48999998843 345778899999999999998855667999974
No 21
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.04 E-value=2.3e-10 Score=76.00 Aligned_cols=50 Identities=28% Similarity=0.698 Sum_probs=42.9
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
.....|+||.+.+.. ++.++|+|.||..||..|+.....||+|+..+...
T Consensus 24 e~~l~C~IC~d~~~~---------PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 24 DTSLRCHICKDFFDV---------PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred ccccCCCcCchhhhC---------ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 446789999998866 66789999999999999998878899999987643
No 22
>KOG1493|consensus
Probab=99.03 E-value=6.6e-11 Score=61.67 Aligned_cols=62 Identities=26% Similarity=0.680 Sum_probs=44.6
Q ss_pred hhhcCCccccccccccccccccCc--C-CCCccc-CCCCcccHhhHHHHHhCC---CCCCCCccccccc
Q psy14787 11 QWLSSNKRCPICRVDIETHLNKDL--L-QPTWRL-PCMHLFHVECVDQWLSSN---KRCPICRVDIETH 72 (81)
Q Consensus 11 ~~~~~~~~C~iC~~~~~~~~~~~~--~-~~~~~~-~C~h~fh~~Ci~~~~~~~---~~CP~Cr~~~~~~ 72 (81)
.|...+..|.||+-.|+...+.-. + +.+..+ .|.|.||..||.+|+... ..||+||+.+...
T Consensus 15 tW~~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 15 TWDAPDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred EEcCCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 456677899999999976444332 1 122222 499999999999999543 4599999988643
No 23
>KOG0823|consensus
Probab=99.01 E-value=2.2e-10 Score=70.81 Aligned_cols=53 Identities=30% Similarity=0.633 Sum_probs=42.0
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC---CCCCCCcccccccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN---KRCPICRVDIETHLNKDL 77 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~---~~CP~Cr~~~~~~~~~~~ 77 (81)
..+|.||++.-+. ++...|||.||--||.+|+... +.||+|+..+......++
T Consensus 47 ~FdCNICLd~akd---------PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPl 102 (230)
T KOG0823|consen 47 FFDCNICLDLAKD---------PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPL 102 (230)
T ss_pred ceeeeeeccccCC---------CEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEee
Confidence 4579999887544 7788899999999999999654 349999998876654443
No 24
>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=98.98 E-value=5e-10 Score=50.87 Aligned_cols=38 Identities=45% Similarity=1.177 Sum_probs=31.0
Q ss_pred ccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh-CCCCCCCC
Q psy14787 19 CPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS-SNKRCPIC 65 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~-~~~~CP~C 65 (81)
|+||++.... +..++|+|.||..|+..|+. ....||.|
T Consensus 1 C~iC~~~~~~---------~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKD---------PVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCC---------cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 6788877433 67788999999999999997 55569987
No 25
>KOG0287|consensus
Probab=98.85 E-value=7e-10 Score=72.13 Aligned_cols=50 Identities=30% Similarity=0.603 Sum_probs=44.3
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETHLN 74 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 74 (81)
-+.|.||.+.|.. ++..||+|.||..||..++..+..||.|...++...-
T Consensus 23 lLRC~IC~eyf~i---------p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 23 LLRCGICFEYFNI---------PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL 72 (442)
T ss_pred HHHHhHHHHHhcC---------ceeccccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence 4679999999977 8888999999999999999999999999998876543
No 26
>KOG1734|consensus
Probab=98.82 E-value=5e-10 Score=70.82 Aligned_cols=70 Identities=21% Similarity=0.689 Sum_probs=50.4
Q ss_pred ccchhhHHhhhcCCccccccccccccccccC-cCCCCcccCCCCcccHhhHHHHHh--CCCCCCCCccccccc
Q psy14787 3 LFHVECVDQWLSSNKRCPICRVDIETHLNKD-LLQPTWRLPCMHLFHVECVDQWLS--SNKRCPICRVDIETH 72 (81)
Q Consensus 3 ~~~~~~~~~~~~~~~~C~iC~~~~~~~~~~~-~~~~~~~~~C~h~fh~~Ci~~~~~--~~~~CP~Cr~~~~~~ 72 (81)
+|..+.++..-.++..|++|.+.+......+ ..+....+.|+|+||..||..|-- .+++||.|+..+...
T Consensus 211 fYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 211 FYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred ccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 4455555554556788999999887643211 123467789999999999999964 456799999887644
No 27
>KOG2930|consensus
Probab=98.79 E-value=1.5e-09 Score=59.62 Aligned_cols=59 Identities=25% Similarity=0.502 Sum_probs=41.0
Q ss_pred cCCccccccccccccccccC-------cCCCCccc-CCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKD-------LLQPTWRL-PCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~-------~~~~~~~~-~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
...+.|+||+.-+......- ..+..+.. -|+|.||..||.+|++..+.||++.+.+...
T Consensus 44 i~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~q 110 (114)
T KOG2930|consen 44 IVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQ 110 (114)
T ss_pred eeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEe
Confidence 44567999988664322111 11212222 3999999999999999999999999887643
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.72 E-value=7e-09 Score=65.32 Aligned_cols=49 Identities=29% Similarity=0.758 Sum_probs=40.6
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHH-HHhCCCC-CCCCccccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQ-WLSSNKR-CPICRVDIETH 72 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~-~~~~~~~-CP~Cr~~~~~~ 72 (81)
.+..|+||++..+. +..++|||+||..||.. |-..+.. ||+||+....+
T Consensus 214 ~d~kC~lC~e~~~~---------ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 214 ADYKCFLCLEEPEV---------PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred cccceeeeecccCC---------cccccccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 37789999998655 88899999999999999 8766655 99999876543
No 29
>KOG2164|consensus
Probab=98.70 E-value=1.4e-08 Score=68.81 Aligned_cols=48 Identities=33% Similarity=0.719 Sum_probs=39.4
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC-----CCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN-----KRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~-----~~CP~Cr~~~~~~ 72 (81)
+..||||++.... +.++.|||+||..||.+++..+ ..||+|+..+...
T Consensus 186 ~~~CPICL~~~~~---------p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---------PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCc---------ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 7789999987544 6677799999999999998654 3599999988763
No 30
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.65 E-value=1.2e-08 Score=65.42 Aligned_cols=48 Identities=31% Similarity=0.663 Sum_probs=42.2
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
-+.|-||...+.. +...+|||.||..||.+.+..+..||+||......
T Consensus 25 ~lrC~IC~~~i~i---------p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~es 72 (391)
T COG5432 25 MLRCRICDCRISI---------PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCES 72 (391)
T ss_pred HHHhhhhhheeec---------ceecccccchhHHHHHHHhcCCCCCccccccHHhh
Confidence 3569999999876 77889999999999999999999999999876544
No 31
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.63 E-value=5.6e-09 Score=54.28 Aligned_cols=54 Identities=24% Similarity=0.556 Sum_probs=24.3
Q ss_pred CccccccccccccccccCcCCCCcc--cCCCCcccHhhHHHHHhC---C--------CCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWR--LPCMHLFHVECVDQWLSS---N--------KRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~--~~C~h~fh~~Ci~~~~~~---~--------~~CP~Cr~~~~~~ 72 (81)
+..|+||+..+... +. ...... ..|+..||..||.+|+.. . +.||.|+.++..+
T Consensus 2 ~~~C~IC~~~~~~~--~~-~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDD--GE-IPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT--------B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCC--CC-cCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 45799999876520 00 011111 359999999999999853 1 2499999988654
No 32
>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=98.62 E-value=2.4e-08 Score=52.23 Aligned_cols=50 Identities=20% Similarity=0.387 Sum_probs=39.0
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC-CCCCCCCcccccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS-NKRCPICRVDIETHL 73 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~-~~~CP~Cr~~~~~~~ 73 (81)
+...|+|+.+.|.. ++.+++||+|...+|.+|+.. +..||.++..+....
T Consensus 3 ~~f~CpIt~~lM~d---------PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 3 DEFLCPITGELMRD---------PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGGB-TTTSSB-SS---------EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred cccCCcCcCcHhhC---------ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 46789999999877 888999999999999999988 778999998887643
No 33
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.62 E-value=1.8e-08 Score=47.69 Aligned_cols=35 Identities=34% Similarity=0.859 Sum_probs=21.3
Q ss_pred ccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC
Q psy14787 19 CPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN 59 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~ 59 (81)
|+||.+ +... ...++.++|||+|+.+|+.++.+.+
T Consensus 1 CpIc~e-~~~~-----~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTE-----ENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TT-----SS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCC-----CCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 6431 3446789999999999999998743
No 34
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.61 E-value=1.8e-08 Score=72.59 Aligned_cols=63 Identities=27% Similarity=0.688 Sum_probs=45.1
Q ss_pred hhHHhhhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC--CCCCCCcccccc
Q psy14787 7 ECVDQWLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN--KRCPICRVDIET 71 (81)
Q Consensus 7 ~~~~~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~--~~CP~Cr~~~~~ 71 (81)
+.|...+++..+|+||...+...... ........|.|.||..|+..|++++ ++||+||..++.
T Consensus 1460 kNi~~~fsG~eECaICYsvL~~vdr~--lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1460 KNIDEKFSGHEECAICYSVLDMVDRS--LPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hhhhhhcCCcchhhHHHHHHHHHhcc--CCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 44556678889999999887631110 1122344599999999999999764 469999987653
No 35
>KOG0828|consensus
Probab=98.61 E-value=2.1e-08 Score=67.96 Aligned_cols=58 Identities=29% Similarity=0.718 Sum_probs=41.6
Q ss_pred cCCccccccccccccccccCc--------CCCCcccCCCCcccHhhHHHHHhCCC-CCCCCcccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDL--------LQPTWRLPCMHLFHVECVDQWLSSNK-RCPICRVDIET 71 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~--------~~~~~~~~C~h~fh~~Ci~~~~~~~~-~CP~Cr~~~~~ 71 (81)
.....|+|||..++--..+.. ..-.+..||.|.||..|+.+|...-+ .||+||.++..
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 445679999998754211111 11245679999999999999998544 79999998753
No 36
>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=98.59 E-value=7.5e-08 Score=62.23 Aligned_cols=55 Identities=20% Similarity=0.437 Sum_probs=38.0
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC-CCCCCCcccccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN-KRCPICRVDIETHL 73 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~-~~CP~Cr~~~~~~~ 73 (81)
++..||+|......+ +.......+|||.||..|+...+..+ ..||.|+..+....
T Consensus 2 d~~~CP~Ck~~~y~n----p~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRN----PSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccC----cccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 457899999843220 01112233799999999999977544 46999999887654
No 37
>KOG2177|consensus
Probab=98.45 E-value=1.2e-07 Score=59.42 Aligned_cols=47 Identities=32% Similarity=0.704 Sum_probs=39.9
Q ss_pred hhhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCc
Q psy14787 11 QWLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICR 66 (81)
Q Consensus 11 ~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr 66 (81)
..+.+...|+||++.|.. +..++|+|.|+..|+..+......||.||
T Consensus 8 ~~~~~~~~C~iC~~~~~~---------p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 8 EVLQEELTCPICLEYFRE---------PVLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred hhccccccChhhHHHhhc---------CccccccchHhHHHHHHhcCCCcCCcccC
Confidence 445667889999999977 57889999999999999988445699999
No 38
>KOG0297|consensus
Probab=98.41 E-value=1.1e-07 Score=63.38 Aligned_cols=64 Identities=27% Similarity=0.579 Sum_probs=53.7
Q ss_pred CcccchhhHHhhhcCCccccccccccccccccCcCCCCcc-cCCCCcccHhhHHHHHhCCCCCCCCcccccccc
Q psy14787 1 MHLFHVECVDQWLSSNKRCPICRVDIETHLNKDLLQPTWR-LPCMHLFHVECVDQWLSSNKRCPICRVDIETHL 73 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~-~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~ 73 (81)
++.|+.+...+.+.+++.|++|+..+.. +.. ..|||.||..|+..|+.....||.|+..+....
T Consensus 6 ~~~~~~~~~~~~~~~~l~C~~C~~vl~~---------p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 6 TMGFDLKHLGRPLDENLLCPICMSVLRD---------PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred cccccccccCCCCcccccCccccccccC---------CCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 4678888888888889999999999866 444 589999999999999998889999988776543
No 39
>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=98.32 E-value=4.8e-07 Score=43.93 Aligned_cols=42 Identities=31% Similarity=0.835 Sum_probs=29.7
Q ss_pred cccccccccccccccCcCCCCcccCCC-----CcccHhhHHHHHhCC--CCCCCCc
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCM-----HLFHVECVDQWLSSN--KRCPICR 66 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~-----h~fh~~Ci~~~~~~~--~~CP~Cr 66 (81)
.|-||++.. . ...+...||. +.+|..|+.+|+..+ ..||+|+
T Consensus 1 ~CrIC~~~~-~------~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEG-D------EGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCC-C------CCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 378998722 2 2335567774 679999999999554 4799984
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.31 E-value=8e-08 Score=48.79 Aligned_cols=50 Identities=26% Similarity=0.627 Sum_probs=24.9
Q ss_pred hcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 13 LSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 13 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
+.+-..|++|.+.+.. ++....|.|+|+..|+.+-+. ..||+|+.+-...
T Consensus 4 le~lLrCs~C~~~l~~--------pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~q 53 (65)
T PF14835_consen 4 LEELLRCSICFDILKE--------PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQ 53 (65)
T ss_dssp HHHTTS-SSS-S--SS---------B---SSS--B-TTTGGGGTT--TB-SSS--B-S-S
T ss_pred HHHhcCCcHHHHHhcC--------CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHH
Confidence 3445679999998865 234567999999999987544 3499998876433
No 41
>KOG1039|consensus
Probab=98.29 E-value=5.1e-07 Score=59.33 Aligned_cols=61 Identities=28% Similarity=0.551 Sum_probs=42.7
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh--C-----CCCCCCCccccccccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS--S-----NKRCPICRVDIETHLNKD 76 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~--~-----~~~CP~Cr~~~~~~~~~~ 76 (81)
.+..|.||++.+.... ..........+|.|.|+..||..|.. + .+.||.||..........
T Consensus 160 ~~k~CGICme~i~ek~-~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~ 227 (344)
T KOG1039|consen 160 SEKECGICMETINEKA-ASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSS 227 (344)
T ss_pred ccccceehhhhccccc-hhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccc
Confidence 3778999999875522 11111223456999999999999983 3 356999999877666554
No 42
>KOG4265|consensus
Probab=98.27 E-value=4.6e-07 Score=59.27 Aligned_cols=50 Identities=38% Similarity=0.749 Sum_probs=42.1
Q ss_pred CccccccccccccccccCcCCCCcccCCCCc-ccHhhHHHHHhCCCCCCCCccccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHL-FHVECVDQWLSSNKRCPICRVDIETHLN 74 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~-fh~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 74 (81)
..+|.||+....+ +..+||+|. .|..|........+.||+||..+.....
T Consensus 290 gkeCVIClse~rd---------t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll~ 340 (349)
T KOG4265|consen 290 GKECVICLSESRD---------TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEELLE 340 (349)
T ss_pred CCeeEEEecCCcc---------eEEecchhhehhHhHHHHHHHhhcCCCccccchHhhhe
Confidence 5679999988654 889999997 8999999887777889999999876544
No 43
>KOG0804|consensus
Probab=98.20 E-value=5.8e-07 Score=60.39 Aligned_cols=50 Identities=26% Similarity=0.773 Sum_probs=38.1
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIE 70 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~ 70 (81)
.+-.+||+|++.++.. ........|.|.||-.|+..|. ..+||+||....
T Consensus 173 tELPTCpVCLERMD~s-----~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSS-----TTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCcc-----ccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 4456799999999762 2223445699999999999994 467999988765
No 44
>KOG0824|consensus
Probab=98.08 E-value=1.8e-06 Score=55.55 Aligned_cols=50 Identities=28% Similarity=0.661 Sum_probs=40.8
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCC-CCCCccccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKR-CPICRVDIETHLN 74 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~-CP~Cr~~~~~~~~ 74 (81)
...|+||+... ..+..++|+|.|+..||..-..+... |++||.++.....
T Consensus 7 ~~eC~IC~nt~---------n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~ 57 (324)
T KOG0824|consen 7 KKECLICYNTG---------NCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID 57 (324)
T ss_pred CCcceeeeccC---------CcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence 45799998874 34789999999999999887766654 9999999986654
No 45
>KOG0978|consensus
Probab=98.06 E-value=1.7e-06 Score=61.03 Aligned_cols=54 Identities=20% Similarity=0.530 Sum_probs=42.2
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh-CCCCCCCCccccccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS-SNKRCPICRVDIETHLNKD 76 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~-~~~~CP~Cr~~~~~~~~~~ 76 (81)
.+-..|+.|-..... .+...|+|.||..|+..... +...||.|...+..+....
T Consensus 641 K~~LkCs~Cn~R~Kd---------~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 641 KELLKCSVCNTRWKD---------AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR 695 (698)
T ss_pred HhceeCCCccCchhh---------HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence 446679999866544 66778999999999999885 5667999999987665443
No 46
>KOG4172|consensus
Probab=97.99 E-value=1.9e-06 Score=42.40 Aligned_cols=48 Identities=25% Similarity=0.519 Sum_probs=35.0
Q ss_pred CccccccccccccccccCcCCCCcccCCCCc-ccHhhHHHHHh-CCCCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHL-FHVECVDQWLS-SNKRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~-fh~~Ci~~~~~-~~~~CP~Cr~~~~~~ 72 (81)
+.+|.||++.-.+ .+...|||. .+..|-.+.+. .+..||+||+++...
T Consensus 7 ~dECTICye~pvd---------sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dv 56 (62)
T KOG4172|consen 7 SDECTICYEHPVD---------SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDV 56 (62)
T ss_pred ccceeeeccCcch---------HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHH
Confidence 4689999875322 345569997 77888776655 567899999988644
No 47
>KOG0311|consensus
Probab=97.86 E-value=2e-06 Score=56.40 Aligned_cols=54 Identities=28% Similarity=0.631 Sum_probs=40.5
Q ss_pred hhhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC-CCCCCCCccccccc
Q psy14787 11 QWLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS-NKRCPICRVDIETH 72 (81)
Q Consensus 11 ~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~-~~~CP~Cr~~~~~~ 72 (81)
..+..+..|+||++.+.. ......|.|.||..||..-+.. ++.||.||+.+...
T Consensus 38 ~~~~~~v~c~icl~llk~--------tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 38 AMFDIQVICPICLSLLKK--------TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred HHhhhhhccHHHHHHHHh--------hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 344557789999998865 1333459999999999887755 45799999877544
No 48
>KOG0827|consensus
Probab=97.85 E-value=1e-05 Score=53.88 Aligned_cols=49 Identities=31% Similarity=0.805 Sum_probs=32.3
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC---CCCCCCcccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN---KRCPICRVDI 69 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~---~~CP~Cr~~~ 69 (81)
...|.|| .++.++. .+......|||+||..|+.+|+... ..||.|+..+
T Consensus 4 ~A~C~Ic-~d~~p~~----~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 4 MAECHIC-IDGRPND----HELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred cceeeEe-ccCCccc----cccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 3469999 4443321 1111223499999999999999753 4699998443
No 49
>KOG4159|consensus
Probab=97.78 E-value=1.6e-05 Score=53.35 Aligned_cols=49 Identities=31% Similarity=0.724 Sum_probs=41.9
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCcccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIET 71 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~ 71 (81)
..+..|.||...+.. ++.++|||.|+..||.+-+.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~---------pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---------PVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCC---------CccccccccccHHHHHHHhccCCCCccccccccc
Confidence 446789999888766 7788999999999999988877789999998874
No 50
>KOG2879|consensus
Probab=97.68 E-value=4.7e-05 Score=48.68 Aligned_cols=56 Identities=21% Similarity=0.511 Sum_probs=39.4
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC--CCCCCCCcccccccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS--NKRCPICRVDIETHLNKDL 77 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~--~~~CP~Cr~~~~~~~~~~~ 77 (81)
..+.+|++|.+.-.. +-...+|+|+||..|+..-+.. ..+||.|.........+.+
T Consensus 237 t~~~~C~~Cg~~Pti--------P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq~sgv 294 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTI--------PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQASGV 294 (298)
T ss_pred cCCceeeccCCCCCC--------CeeeccccceeehhhhhhhhcchhhcccCccCCCCcchhhccC
Confidence 346789999886322 2234459999999999887643 3679999988775444433
No 51
>KOG3970|consensus
Probab=97.61 E-value=6.9e-05 Score=46.91 Aligned_cols=61 Identities=33% Similarity=0.815 Sum_probs=44.9
Q ss_pred chhhHH----hhhcCC---ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC--------CCCCCCCcccc
Q psy14787 5 HVECVD----QWLSSN---KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS--------NKRCPICRVDI 69 (81)
Q Consensus 5 ~~~~~~----~~~~~~---~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~--------~~~CP~Cr~~~ 69 (81)
|.+||. +|+.+. ..|.+|...+.. ++ ..++-|-|.||-+|+..|... +..||.|..++
T Consensus 32 HpkCiVQSYLqWL~DsDY~pNC~LC~t~La~------gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 32 HPKCIVQSYLQWLQDSDYNPNCRLCNTPLAS------GD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CchhhHHHHHHHHhhcCCCCCCceeCCcccc------Cc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 556664 566553 359999888866 44 567789999999999999754 34699998877
Q ss_pred ccc
Q psy14787 70 ETH 72 (81)
Q Consensus 70 ~~~ 72 (81)
...
T Consensus 105 FPp 107 (299)
T KOG3970|consen 105 FPP 107 (299)
T ss_pred CCC
Confidence 543
No 52
>KOG0825|consensus
Probab=97.60 E-value=1.6e-05 Score=57.03 Aligned_cols=49 Identities=24% Similarity=0.527 Sum_probs=37.0
Q ss_pred cccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
.|++|+..+.. .......+|+|.||..|+..|-....+||+||..+...
T Consensus 125 ~CP~Ci~s~~D------qL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 125 QCPNCLKSCND------QLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhHHHHHHHH------HhhccccccccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 46666665543 23334556999999999999999999999999877543
No 53
>KOG1941|consensus
Probab=97.57 E-value=2.5e-05 Score=52.23 Aligned_cols=47 Identities=34% Similarity=0.807 Sum_probs=37.0
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC--CCCCCCcc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN--KRCPICRV 67 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~--~~CP~Cr~ 67 (81)
+..|..|.+.+.- +.+....+||.|+||..|+...+.++ .+||-||.
T Consensus 365 ~L~Cg~CGe~~Gl-----k~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGL-----KNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcC-----CcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 5679999988743 13456678999999999999998654 46999984
No 54
>KOG2660|consensus
Probab=97.53 E-value=2.8e-05 Score=50.66 Aligned_cols=52 Identities=27% Similarity=0.632 Sum_probs=41.7
Q ss_pred hcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 13 LSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 13 ~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
+.....|.+|..+|-. +....-|-|.||..||..++.....||.|...+...
T Consensus 12 ~n~~itC~LC~GYliD--------ATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLID--------ATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred cccceehhhccceeec--------chhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 3456689999998844 334445999999999999999999999998877544
No 55
>KOG1785|consensus
Probab=97.48 E-value=5e-05 Score=51.00 Aligned_cols=45 Identities=33% Similarity=0.826 Sum_probs=35.9
Q ss_pred cccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC--CCCCCCCcccccc
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS--NKRCPICRVDIET 71 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~--~~~CP~Cr~~~~~ 71 (81)
.|-||.+.= ..+..-||||..|..|+..|... ++.||.||..+.-
T Consensus 371 LCKICaend---------KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 371 LCKICAEND---------KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHhhccC---------CCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 488997753 33667789999999999999843 5679999998753
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.45 E-value=9.9e-05 Score=36.83 Aligned_cols=42 Identities=31% Similarity=0.602 Sum_probs=26.8
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCC--CCCC
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNK--RCPI 64 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~--~CP~ 64 (81)
....|||.+..|..+ +....|+|+|-...|.+|+.+++ .||+
T Consensus 10 ~~~~CPiT~~~~~~P--------V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--------VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--------EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--------cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 356799999988662 34457999999999999994433 4998
No 57
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.44 E-value=0.00018 Score=34.68 Aligned_cols=44 Identities=25% Similarity=0.574 Sum_probs=21.3
Q ss_pred ccccccccccccccCcCCCCccc--CCCCcccHhhHHHHHh-CCCCCCCCcccc
Q psy14787 19 CPICRVDIETHLNKDLLQPTWRL--PCMHLFHVECVDQWLS-SNKRCPICRVDI 69 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~~~~~~~~--~C~h~fh~~Ci~~~~~-~~~~CP~Cr~~~ 69 (81)
|++|.+.++. ...... +|+..++..|..+.+. .++.||.||.+.
T Consensus 1 cp~C~e~~d~-------~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDE-------TDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--C-------CCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCccccccc-------CCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 6889888843 112233 4889999999998886 467899999864
No 58
>KOG1645|consensus
Probab=97.44 E-value=7.6e-05 Score=50.05 Aligned_cols=50 Identities=32% Similarity=0.778 Sum_probs=36.5
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC--CCCCCCCcccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS--NKRCPICRVDI 69 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~--~~~CP~Cr~~~ 69 (81)
...|+||++.+..+. ......+.|||.|...||+.|+.. ...||.|...-
T Consensus 4 g~tcpiclds~~~~g----~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAG----NHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred cccCceeeeeeeecC----ceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 467999999886521 223445679999999999999952 23599997653
No 59
>KOG1002|consensus
Probab=97.38 E-value=5.4e-05 Score=52.45 Aligned_cols=58 Identities=24% Similarity=0.588 Sum_probs=43.3
Q ss_pred hhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC-----CCCCCCCccccccccccccC
Q psy14787 12 WLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS-----NKRCPICRVDIETHLNKDLL 78 (81)
Q Consensus 12 ~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~-----~~~CP~Cr~~~~~~~~~~~~ 78 (81)
...+...|.+|.+.-+. +....|.|.||..|+..+... +-+||.|...+....+.+.+
T Consensus 532 enk~~~~C~lc~d~aed---------~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~al 594 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAED---------YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPAL 594 (791)
T ss_pred cccCceeecccCChhhh---------hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhh
Confidence 33556679999887544 778889999999999888643 34699998888766554433
No 60
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.31 E-value=0.0001 Score=45.32 Aligned_cols=44 Identities=25% Similarity=0.499 Sum_probs=37.6
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCcccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDI 69 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~ 69 (81)
..|.||.+++.. ++...|||.||..|..+-.+.+..|-+|....
T Consensus 197 F~C~iCKkdy~s---------pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYES---------PVVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccc---------hhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 469999999876 77888999999999988888888899997653
No 61
>KOG1428|consensus
Probab=97.30 E-value=9.7e-05 Score=56.41 Aligned_cols=59 Identities=36% Similarity=0.798 Sum_probs=41.1
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCC----------CCCCCccccccccccccCCC
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNK----------RCPICRVDIETHLNKDLLQP 80 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~----------~CP~Cr~~~~~~~~~~~~~~ 80 (81)
++.|-||..+--. ......+.|+|.||..|..+-+++.. +||+|..++.-..-.++++|
T Consensus 3486 DDmCmICFTE~L~------AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~LkDLldP 3554 (3738)
T KOG1428|consen 3486 DDMCMICFTEALS------AAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLKDLLDP 3554 (3738)
T ss_pred CceEEEEehhhhC------CCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHHHHHHH
Confidence 5679899764322 23456788999999999988776532 59999988765544444433
No 62
>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=97.23 E-value=0.0001 Score=34.60 Aligned_cols=23 Identities=48% Similarity=1.349 Sum_probs=19.9
Q ss_pred CcccchhhHHhhhcCCccccccc
Q psy14787 1 MHLFHVECVDQWLSSNKRCPICR 23 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~C~iC~ 23 (81)
-|.||.+++.+|+.....||+|+
T Consensus 22 ~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 22 GHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp SEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCeeCHHHHHHHHHhCCcCCccC
Confidence 38999999999999889999984
No 63
>KOG1813|consensus
Probab=97.19 E-value=0.00015 Score=46.85 Aligned_cols=46 Identities=22% Similarity=0.437 Sum_probs=39.5
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIE 70 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~ 70 (81)
...|-||.+++.. +++..|+|.||..|...-++.+..|.+|.....
T Consensus 241 Pf~c~icr~~f~~---------pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYR---------PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred Ccccccccccccc---------chhhcCCceeehhhhccccccCCcceecccccc
Confidence 3459999999876 778899999999999988888889999987654
No 64
>KOG4445|consensus
Probab=97.19 E-value=8.9e-05 Score=48.09 Aligned_cols=53 Identities=28% Similarity=0.662 Sum_probs=40.7
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC-----------------------CCCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS-----------------------NKRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~-----------------------~~~CP~Cr~~~~~~ 72 (81)
...|.||+.-|.. .....+++|.|.||..|+.+++.. .-.||+||..+...
T Consensus 115 ~gqCvICLygfa~------~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 115 NGQCVICLYGFAS------SPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCceEEEEEeecC------CCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 4579999988866 455677889999999999988632 01499999988765
Q ss_pred cc
Q psy14787 73 LN 74 (81)
Q Consensus 73 ~~ 74 (81)
..
T Consensus 189 ~~ 190 (368)
T KOG4445|consen 189 EN 190 (368)
T ss_pred cc
Confidence 44
No 65
>KOG1952|consensus
Probab=97.09 E-value=0.00043 Score=50.12 Aligned_cols=56 Identities=29% Similarity=0.656 Sum_probs=38.4
Q ss_pred HhhhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC-------CCCCCCCccccc
Q psy14787 10 DQWLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS-------NKRCPICRVDIE 70 (81)
Q Consensus 10 ~~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~-------~~~CP~Cr~~~~ 70 (81)
.....+..+|.||.+.+... ........|-|+||..||..|..+ ...||.|.....
T Consensus 185 ~~l~~~~yeCmIC~e~I~~t-----~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 185 EQLSNRKYECMICTERIKRT-----APVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred HHHhcCceEEEEeeeecccc-----CCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 34445677899999988651 111223348999999999999743 235999985443
No 66
>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=96.99 E-value=0.00015 Score=39.81 Aligned_cols=33 Identities=21% Similarity=0.690 Sum_probs=26.2
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHH
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVD 53 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~ 53 (81)
.++..|++|...+.. ......||||.||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-------~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-------SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-------ceEEEeCCCeEEeccccc
Confidence 456779999998854 335677999999999975
No 67
>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=96.90 E-value=0.00061 Score=32.06 Aligned_cols=24 Identities=25% Similarity=0.866 Sum_probs=15.6
Q ss_pred CCCCcccHhhHHHHHhCCC--CCCCC
Q psy14787 42 PCMHLFHVECVDQWLSSNK--RCPIC 65 (81)
Q Consensus 42 ~C~h~fh~~Ci~~~~~~~~--~CP~C 65 (81)
.|+-.+|..|+..++.... .||.|
T Consensus 18 ~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 18 DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 4888899999999997655 69987
No 68
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.75 E-value=0.002 Score=38.29 Aligned_cols=49 Identities=27% Similarity=0.703 Sum_probs=34.3
Q ss_pred cCCccccccccccccccccCcCCCCcccCC--CC---cccHhhHHHHHhCCC--CCCCCccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPC--MH---LFHVECVDQWLSSNK--RCPICRVDIETH 72 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C--~h---~fh~~Ci~~~~~~~~--~CP~Cr~~~~~~ 72 (81)
..+..|-||.+.-.. ...|| .. ..|.+|+++|+..++ .|+.|+......
T Consensus 6 ~~~~~CRIC~~~~~~----------~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYDV----------VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCCC----------ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 446789999876321 12354 33 469999999996544 599999887654
No 69
>PHA02862 5L protein; Provisional
Probab=96.62 E-value=0.0025 Score=37.40 Aligned_cols=47 Identities=21% Similarity=0.645 Sum_probs=32.3
Q ss_pred CccccccccccccccccCcCCCCcccCCC-----CcccHhhHHHHHhCC--CCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCM-----HLFHVECVDQWLSSN--KRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~-----h~fh~~Ci~~~~~~~--~~CP~Cr~~~~~~ 72 (81)
+..|-||.+.-+. ..-||. ...|..|+++|+..+ ..|+.|+.+....
T Consensus 2 ~diCWIC~~~~~e----------~~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDE----------RNNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCC----------CcccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 3568899876322 124443 358999999999654 3599999887543
No 70
>KOG4692|consensus
Probab=96.62 E-value=0.0018 Score=43.14 Aligned_cols=49 Identities=31% Similarity=0.610 Sum_probs=40.0
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCcccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIET 71 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~ 71 (81)
+++..|+||... ....+..||+|.-|..||.+.+.+.+.|=.|+..+..
T Consensus 420 sEd~lCpICyA~---------pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAG---------PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecc---------cchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 557789999653 2335667899999999999999999999999987764
No 71
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.60 E-value=0.0018 Score=43.10 Aligned_cols=49 Identities=31% Similarity=0.635 Sum_probs=38.0
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHH--hCCCCCCCCccccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWL--SSNKRCPICRVDIETH 72 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~--~~~~~CP~Cr~~~~~~ 72 (81)
+...|.||.+.+.- ..++||+|..|-.|..+.. ...+.|++||..+...
T Consensus 60 en~~C~ICA~~~TY---------s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V 110 (493)
T COG5236 60 ENMNCQICAGSTTY---------SARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAV 110 (493)
T ss_pred ccceeEEecCCceE---------EEeccCCchHHHHHHHHHHHHHhccCCCccccccceE
Confidence 34569999887654 5688999999988987663 5677899999987654
No 72
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.52 E-value=0.0021 Score=40.97 Aligned_cols=53 Identities=17% Similarity=0.480 Sum_probs=39.6
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
.....|||....|... ...+...+|||+|-..++.... ....||+|..++...
T Consensus 111 ~~~~~CPvt~~~~~~~-----~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGK-----HKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEE 163 (260)
T ss_pred CceeECCCCCcccCCc-----eeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccC
Confidence 4456799998888431 2335567899999999999874 356799999998744
No 73
>KOG4185|consensus
Probab=96.51 E-value=0.0031 Score=40.63 Aligned_cols=50 Identities=28% Similarity=0.606 Sum_probs=39.7
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCC-CCCCCcccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNK-RCPICRVDI 69 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~-~CP~Cr~~~ 69 (81)
..|-||-++|+.. .....+..+.|||.++..|+...+.... .||.||...
T Consensus 4 ~~c~~c~~~~s~~---~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSE---DGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCcccccc---CcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 5699999998762 3345677888999999999998876554 599999985
No 74
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.48 E-value=0.0023 Score=42.44 Aligned_cols=54 Identities=22% Similarity=0.543 Sum_probs=37.2
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC-CCCCCCCccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS-NKRCPICRVDIETH 72 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~-~~~CP~Cr~~~~~~ 72 (81)
.+++.|++|++.++.. ..-..--+||...|.-|.....+. ++.||.||+.....
T Consensus 12 deed~cplcie~mdit-----dknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 12 DEEDYCPLCIEPMDIT-----DKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred cccccCcccccccccc-----cCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 3455699999998752 111223468999999898776543 56799999876543
No 75
>KOG1814|consensus
Probab=96.46 E-value=0.0018 Score=43.71 Aligned_cols=44 Identities=23% Similarity=0.512 Sum_probs=34.3
Q ss_pred hHHhhhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh
Q psy14787 8 CVDQWLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS 57 (81)
Q Consensus 8 ~~~~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~ 57 (81)
.+......-..|.||++.... ......+||+|+||..|+..++.
T Consensus 176 ~~~~F~~slf~C~ICf~e~~G------~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 176 TLEKFVNSLFDCCICFEEQMG------QHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred HHHHHHhhcccceeeehhhcC------cceeeecccchHHHHHHHHHHHH
Confidence 344555667789999987643 35677889999999999999974
No 76
>KOG1940|consensus
Probab=96.45 E-value=0.0026 Score=41.00 Aligned_cols=46 Identities=28% Similarity=0.709 Sum_probs=36.9
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCcc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRV 67 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~ 67 (81)
..||||.+.+... ...+..++|||..|..|+......+-.||+|..
T Consensus 159 ~ncPic~e~l~~s-----~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLS-----FEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccc-----cccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3489998877542 345677889999999999998877788999987
No 77
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.35 E-value=0.0026 Score=30.42 Aligned_cols=40 Identities=33% Similarity=0.885 Sum_probs=23.2
Q ss_pred ccccccccccccccCcCCCCcccCC--CC---cccHhhHHHHHhC--CCCCCCC
Q psy14787 19 CPICRVDIETHLNKDLLQPTWRLPC--MH---LFHVECVDQWLSS--NKRCPIC 65 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~~~~~~~~~C--~h---~fh~~Ci~~~~~~--~~~CP~C 65 (81)
|-||++.-+. .. +...|| .- ..|..|+.+|+.. ...|++|
T Consensus 1 CrIC~~~~~~------~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEE------DE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SS------SS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCC------CC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 5577766443 11 344554 33 6899999999963 4458876
No 78
>KOG3268|consensus
Probab=96.29 E-value=0.005 Score=37.50 Aligned_cols=35 Identities=29% Similarity=0.797 Sum_probs=27.4
Q ss_pred ccCCCCcccHhhHHHHHhC-----C------CCCCCCccccccccc
Q psy14787 40 RLPCMHLFHVECVDQWLSS-----N------KRCPICRVDIETHLN 74 (81)
Q Consensus 40 ~~~C~h~fh~~Ci~~~~~~-----~------~~CP~Cr~~~~~~~~ 74 (81)
...||..||.-|+..|++. + +.||.|..++..+.+
T Consensus 187 N~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS 232 (234)
T KOG3268|consen 187 NIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS 232 (234)
T ss_pred ccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
Confidence 3569999999999999853 1 259999998876544
No 79
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.23 E-value=0.0035 Score=41.02 Aligned_cols=42 Identities=33% Similarity=0.845 Sum_probs=33.5
Q ss_pred ccccccccccccccccCcCCCCcccC-CCCcccHhhHHHHH-hCCCCCCCCcc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLP-CMHLFHVECVDQWL-SSNKRCPICRV 67 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~-C~h~fh~~Ci~~~~-~~~~~CP~Cr~ 67 (81)
+.|+.|...+.. +...+ |+|.|+..||...+ .....||.|..
T Consensus 275 LkCplc~~Llrn---------p~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---------PMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---------cccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 679999888755 44554 89999999999776 56778999965
No 80
>KOG3039|consensus
Probab=96.19 E-value=0.0072 Score=38.53 Aligned_cols=54 Identities=19% Similarity=0.347 Sum_probs=42.7
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
+....|++|.+.+.+. ....+.-+|||+|...|...+......||+|..++...
T Consensus 219 s~ryiCpvtrd~LtNt-----~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdr 272 (303)
T KOG3039|consen 219 SKRYICPVTRDTLTNT-----TPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDR 272 (303)
T ss_pred ccceecccchhhhcCc-----cceEEeccCCcEeeHHHHHHhccccccccCCCCcCccc
Confidence 3467799999998762 22234457999999999999998888999998887654
No 81
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=96.12 E-value=0.0031 Score=33.86 Aligned_cols=27 Identities=41% Similarity=1.070 Sum_probs=22.9
Q ss_pred CcccchhhHHhhhcC---Cccccccccccc
Q psy14787 1 MHLFHVECVDQWLSS---NKRCPICRVDIE 27 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~---~~~C~iC~~~~~ 27 (81)
.|.||..||.+|+.. ...||+|+..++
T Consensus 53 ~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 53 SHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred ccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 389999999999975 468999998765
No 82
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.11 E-value=0.0037 Score=30.87 Aligned_cols=34 Identities=29% Similarity=0.556 Sum_probs=25.8
Q ss_pred CCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 37 PTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 37 ~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
....++|+|..+..|..-+ +-+.||.|.+++...
T Consensus 19 ~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 19 KGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFD 52 (55)
T ss_pred ccccccccceeeccccChh--hccCCCCCCCcccCC
Confidence 3568899999999887543 445699999887643
No 83
>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=96.08 E-value=0.0045 Score=35.90 Aligned_cols=41 Identities=20% Similarity=0.490 Sum_probs=29.0
Q ss_pred hhcCCccccccccccccccccCcCCCCcccCCC------CcccHhhHHHHHhC
Q psy14787 12 WLSSNKRCPICRVDIETHLNKDLLQPTWRLPCM------HLFHVECVDQWLSS 58 (81)
Q Consensus 12 ~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~------h~fh~~Ci~~~~~~ 58 (81)
|-....+|.||.+.+.. ..+++.++|+ +.||..|+.+|...
T Consensus 22 w~~~~~EC~IC~~~I~~------~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 22 WPRCTVECQICFDRIDN------NDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred ccccCeeehhhhhhhhc------CCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 33446789999998865 3445555554 56999999999533
No 84
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.05 E-value=0.0038 Score=39.51 Aligned_cols=27 Identities=37% Similarity=1.096 Sum_probs=24.5
Q ss_pred cccchhhHHhhhcCCcccccccccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPICRVDIET 28 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC~~~~~~ 28 (81)
|.|+.+|+.+|+.....||+|+..+..
T Consensus 202 H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 202 HVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 899999999999999999999987753
No 85
>PHA03096 p28-like protein; Provisional
Probab=96.04 E-value=0.0046 Score=40.09 Aligned_cols=41 Identities=22% Similarity=0.392 Sum_probs=27.9
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS 58 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~ 58 (81)
..|.||++...... .....-.....|.|.|+..|+..|...
T Consensus 179 k~c~ic~e~~~~k~-~~~~~fgil~~c~h~fc~~ci~~wr~~ 219 (284)
T PHA03096 179 KICGICLENIKAKY-IIKKYYGILSEIKHEFNIFCIKIWMTE 219 (284)
T ss_pred hhcccchhhhhhhc-cccccccccccCCcHHHHHHHHHHHHh
Confidence 67999999765421 111222234459999999999999754
No 86
>KOG2817|consensus
Probab=96.03 E-value=0.0073 Score=40.56 Aligned_cols=54 Identities=20% Similarity=0.447 Sum_probs=39.5
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCC---CCCCCcccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNK---RCPICRVDIETHL 73 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~---~CP~Cr~~~~~~~ 73 (81)
-.-..|||=.+.-.. ..+|+.+.|||+...+.+.+...++. .||.|-.......
T Consensus 332 HSvF~CPVlKeqtsd------eNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~ 388 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSD------ENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASD 388 (394)
T ss_pred cceeecccchhhccC------CCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHh
Confidence 344568877665544 45689999999999999999876654 5999966544333
No 87
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.02 E-value=0.0063 Score=35.27 Aligned_cols=51 Identities=18% Similarity=0.453 Sum_probs=35.5
Q ss_pred CccccccccccccccccCcCCCCcccC---CCCcccHhhHHHHHhCC---CCCCCCccccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLP---CMHLFHVECVDQWLSSN---KRCPICRVDIETHLN 74 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~---C~h~fh~~Ci~~~~~~~---~~CP~Cr~~~~~~~~ 74 (81)
-.+|.||.+...+ .-..-| ||-..+..|-...++.. ..||+|++.+.....
T Consensus 80 lYeCnIC~etS~e--------e~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~~ 136 (140)
T PF05290_consen 80 LYECNICKETSAE--------ERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSSS 136 (140)
T ss_pred ceeccCcccccch--------hhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccccc
Confidence 3579999987543 111112 99999999887766543 469999998876544
No 88
>KOG0826|consensus
Probab=96.01 E-value=0.0032 Score=41.42 Aligned_cols=59 Identities=17% Similarity=0.358 Sum_probs=41.3
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccccccccCCC
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETHLNKDLLQP 80 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 80 (81)
.+...|++|.....+ +.+..--|-+||..|+..+..+.+.||+=..+.....-..++++
T Consensus 298 ~~~~~CpvClk~r~N--------ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~rl~~~ 356 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQN--------PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIRLFNK 356 (357)
T ss_pred CccccChhHHhccCC--------CceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHHHHhcC
Confidence 345679999887644 12333469999999999999999999997666554444444443
No 89
>KOG2114|consensus
Probab=95.79 E-value=0.0042 Score=45.23 Aligned_cols=43 Identities=23% Similarity=0.797 Sum_probs=32.8
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIE 70 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~ 70 (81)
..|..|...++. +.+...|||.||.+|+. .....||.|+....
T Consensus 841 skCs~C~~~Ldl--------P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 841 SKCSACEGTLDL--------PFVHFLCGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeecccCCcccc--------ceeeeecccHHHHHhhc---cCcccCCccchhhh
Confidence 479999888754 24556799999999998 34567999987443
No 90
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.62 E-value=0.0055 Score=29.37 Aligned_cols=33 Identities=33% Similarity=0.797 Sum_probs=22.7
Q ss_pred ccCCC-CcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 40 RLPCM-HLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 40 ~~~C~-h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
...|. |-.+..|+...+.++..||+|..+++..
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 34464 8899999999999999999999988764
No 91
>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=95.51 E-value=0.0093 Score=27.02 Aligned_cols=25 Identities=44% Similarity=1.176 Sum_probs=20.9
Q ss_pred CcccchhhHHhhhcC-Cccccccccc
Q psy14787 1 MHLFHVECVDQWLSS-NKRCPICRVD 25 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~-~~~C~iC~~~ 25 (81)
.|.|+..++.+|+.. ...|++|...
T Consensus 19 ~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 19 GHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 389999999999986 6779999764
No 92
>KOG4275|consensus
Probab=95.46 E-value=0.0018 Score=42.06 Aligned_cols=42 Identities=31% Similarity=0.640 Sum_probs=30.8
Q ss_pred CccccccccccccccccCcCCCCcccCCCCc-ccHhhHHHHHhCCCCCCCCccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHL-FHVECVDQWLSSNKRCPICRVDIE 70 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~-fh~~Ci~~~~~~~~~CP~Cr~~~~ 70 (81)
+..|.||++.- ..-..|.|||. -|..|-.+. +.||+||+.+.
T Consensus 300 ~~LC~ICmDaP---------~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAP---------RDCVFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCC---------cceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 56799998873 33678899996 566676543 47999998764
No 93
>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=95.39 E-value=0.0064 Score=29.30 Aligned_cols=23 Identities=39% Similarity=1.204 Sum_probs=18.7
Q ss_pred CcccchhhHHhhhcC--Cccccccc
Q psy14787 1 MHLFHVECVDQWLSS--NKRCPICR 23 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~--~~~C~iC~ 23 (81)
|+++|..|+.+|+.. ...|+||.
T Consensus 25 ~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 25 LKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred hhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 578999999999954 44799884
No 94
>KOG0801|consensus
Probab=95.36 E-value=0.0046 Score=37.08 Aligned_cols=28 Identities=36% Similarity=0.795 Sum_probs=24.5
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccH
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHV 49 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~ 49 (81)
..+|.||+|+++. ++...++||-.+||.
T Consensus 177 kGECvICLEdL~~------GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 177 KGECVICLEDLEA------GDTIARLPCLCIYHK 204 (205)
T ss_pred CCcEEEEhhhccC------CCceeccceEEEeec
Confidence 4579999999988 888899999999885
No 95
>KOG1571|consensus
Probab=95.20 E-value=0.01 Score=39.38 Aligned_cols=47 Identities=23% Similarity=0.534 Sum_probs=32.5
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
.....|.||.+.... ...++|||.-+ |..-. +.-..||+||..+...
T Consensus 303 ~~p~lcVVcl~e~~~---------~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~~~ 349 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---------AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIRLV 349 (355)
T ss_pred CCCCceEEecCCccc---------eeeecCCcEEE--chHHH-hhCCCCchhHHHHHHH
Confidence 345679999887544 67889999865 44332 2234599999987654
No 96
>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=95.11 E-value=0.015 Score=38.90 Aligned_cols=28 Identities=32% Similarity=1.042 Sum_probs=22.6
Q ss_pred CCCcccHhhHHHHHhCCC-------------CCCCCccccc
Q psy14787 43 CMHLFHVECVDQWLSSNK-------------RCPICRVDIE 70 (81)
Q Consensus 43 C~h~fh~~Ci~~~~~~~~-------------~CP~Cr~~~~ 70 (81)
|....|.+|+.+|+...+ .||.||+.+-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 778899999999995432 4999999764
No 97
>KOG3800|consensus
Probab=94.77 E-value=0.027 Score=36.54 Aligned_cols=52 Identities=27% Similarity=0.476 Sum_probs=35.3
Q ss_pred cccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCC-CCCCCcccccccc
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNK-RCPICRVDIETHL 73 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~-~CP~Cr~~~~~~~ 73 (81)
.|++|....--+ +....+.-+|+|..|..|..+.+..+. .||.|...+....
T Consensus 2 ~Cp~CKt~~Y~n----p~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLN----PDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNN 54 (300)
T ss_pred CCcccccceecC----ccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcc
Confidence 488887643220 011122337999999999999997665 6999988776543
No 98
>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=94.72 E-value=0.019 Score=26.00 Aligned_cols=21 Identities=43% Similarity=1.241 Sum_probs=18.2
Q ss_pred cccchhhHHhhhcCCcccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPIC 22 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC 22 (81)
|.|..+++.+++.....||+|
T Consensus 19 H~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 19 HSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp EEEEHHHHHHHHHCTSB-TTT
T ss_pred CchhHHHHHHHHHCcCCCcCC
Confidence 889999999999888889887
No 99
>KOG4739|consensus
Probab=94.60 E-value=0.012 Score=37.11 Aligned_cols=36 Identities=28% Similarity=0.672 Sum_probs=26.1
Q ss_pred CCCcccCCCCcccHhhHHHHHhCCCCCCCCcccccccc
Q psy14787 36 QPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETHL 73 (81)
Q Consensus 36 ~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~ 73 (81)
.....+.|+|+||..|...- ....||+|+..+....
T Consensus 16 ~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 16 DPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIRIIQ 51 (233)
T ss_pred CceeeeechhhhhhhhcccC--Cccccccccceeeeee
Confidence 33456779999999997642 2337999999876443
No 100
>KOG4628|consensus
Probab=94.54 E-value=0.015 Score=38.74 Aligned_cols=27 Identities=52% Similarity=1.309 Sum_probs=23.3
Q ss_pred cccchhhHHhhhcCCc-ccccccccccc
Q psy14787 2 HLFHVECVDQWLSSNK-RCPICRVDIET 28 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~-~C~iC~~~~~~ 28 (81)
|.||..||..|+.+.. .||+|..+...
T Consensus 252 H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 252 HKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred CchhhccchhhHhhcCccCCCCCCcCCC
Confidence 8999999999998874 59999987644
No 101
>KOG2932|consensus
Probab=94.53 E-value=0.018 Score=37.93 Aligned_cols=31 Identities=35% Similarity=0.934 Sum_probs=23.7
Q ss_pred CcccCCCCcccHhhHHHHHhCCCCCCCCccccc
Q psy14787 38 TWRLPCMHLFHVECVDQWLSSNKRCPICRVDIE 70 (81)
Q Consensus 38 ~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~ 70 (81)
-+..+|.|+||.+|... ...+.||.|...+.
T Consensus 104 GRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 104 GRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred ecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 35678999999999753 44668999976654
No 102
>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=94.52 E-value=0.03 Score=26.76 Aligned_cols=26 Identities=54% Similarity=1.124 Sum_probs=22.4
Q ss_pred cc-cchhhHHhhhcCCccccccccccc
Q psy14787 2 HL-FHVECVDQWLSSNKRCPICRVDIE 27 (81)
Q Consensus 2 ~~-~~~~~~~~~~~~~~~C~iC~~~~~ 27 (81)
|. |-.+++.+++.....||+|+..++
T Consensus 22 H~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 22 HLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp EEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred ChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 77 889999999999999999998764
No 103
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=94.44 E-value=0.022 Score=30.27 Aligned_cols=26 Identities=35% Similarity=0.829 Sum_probs=23.7
Q ss_pred cccchhhHHhhhcCCccccccccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPICRVDIE 27 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC~~~~~ 27 (81)
|.||-.||.+|+.....||.+...+.
T Consensus 56 HaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 56 HAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred hHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 89999999999999999999987764
No 104
>KOG2930|consensus
Probab=94.40 E-value=0.019 Score=31.97 Aligned_cols=25 Identities=32% Similarity=0.959 Sum_probs=23.0
Q ss_pred cccchhhHHhhhcCCcccccccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPICRVDI 26 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC~~~~ 26 (81)
|+||-.||.+|+.....||++..+.
T Consensus 83 HaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 83 HAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred hHHHHHHHHHHHhhcCcCCCcCcce
Confidence 8999999999999999999997764
No 105
>KOG2034|consensus
Probab=94.35 E-value=0.019 Score=42.09 Aligned_cols=36 Identities=25% Similarity=0.687 Sum_probs=28.3
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHH
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWL 56 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~ 56 (81)
..+..|.+|...+.. .+-...+|||.||..|+.+-.
T Consensus 815 ep~d~C~~C~~~ll~-------~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLI-------KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhc-------CcceeeeccchHHHHHHHHHH
Confidence 457789999988754 335677899999999998764
No 106
>KOG4367|consensus
Probab=94.35 E-value=0.022 Score=39.23 Aligned_cols=35 Identities=26% Similarity=0.588 Sum_probs=29.9
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS 57 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~ 57 (81)
++++.|+||..-+.. ++.++|+|.+|..|...-+.
T Consensus 2 eeelkc~vc~~f~~e---------piil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE---------PIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccC---------ceEeecccHHHHHHHHhhcc
Confidence 567889999998876 88999999999999887653
No 107
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=94.11 E-value=0.027 Score=38.01 Aligned_cols=25 Identities=40% Similarity=1.244 Sum_probs=23.5
Q ss_pred cccchhhHHhhhcCCcccccccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPICRVDI 26 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC~~~~ 26 (81)
|.+|-+|+..|++.+..||||+..+
T Consensus 320 HilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 320 HILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred ceeeHHHHHHHHHhccCCCcccCcc
Confidence 8899999999999999999999874
No 108
>KOG4362|consensus
Probab=94.08 E-value=0.015 Score=41.60 Aligned_cols=60 Identities=30% Similarity=0.620 Sum_probs=46.8
Q ss_pred ccchhhHHhhhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCC---CCCCCcccccc
Q psy14787 3 LFHVECVDQWLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNK---RCPICRVDIET 71 (81)
Q Consensus 3 ~~~~~~~~~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~---~CP~Cr~~~~~ 71 (81)
.+.+.+|...+.-...|+||...+.. +..+.|.|.|+..|+..-+...+ .||+|+..+..
T Consensus 8 ~~~~~~vi~~~~k~lEc~ic~~~~~~---------p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 8 VREVAQVINAMQKILECPICLEHVKE---------PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred HHHHHhHHHHHhhhccCCceeEEeec---------cchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 35566777888889999999998766 56788999999999987765443 59999866543
No 109
>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=93.98 E-value=0.037 Score=27.38 Aligned_cols=27 Identities=15% Similarity=0.445 Sum_probs=23.5
Q ss_pred cccchhhHHhhhcCCcccccccccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPICRVDIET 28 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC~~~~~~ 28 (81)
|.|+.+++.+|+.....||+|.+.+..
T Consensus 21 ~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 21 QTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred CEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 789999999999888899999887743
No 110
>KOG0309|consensus
Probab=93.73 E-value=0.051 Score=39.71 Aligned_cols=39 Identities=26% Similarity=0.761 Sum_probs=29.4
Q ss_pred ccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCC
Q psy14787 19 CPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPI 64 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~ 64 (81)
|.||.-.+. +.......|+|+.|..|...|+..+-.||.
T Consensus 1031 C~~C~l~V~-------gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHLAVR-------GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeEeeEee-------ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 666654432 233456679999999999999999988885
No 111
>KOG1812|consensus
Probab=93.42 E-value=0.035 Score=37.44 Aligned_cols=55 Identities=27% Similarity=0.524 Sum_probs=33.7
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC------CCCCC--Ccccccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN------KRCPI--CRVDIETHLNK 75 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~------~~CP~--Cr~~~~~~~~~ 75 (81)
...|.||....... ........|+|.|+..|+.+.+... ..||. |...+......
T Consensus 146 ~~~C~iC~~e~~~~-----~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~ 208 (384)
T KOG1812|consen 146 KEECGICFVEDPEA-----EDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCR 208 (384)
T ss_pred cccCccCccccccH-----hhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHh
Confidence 45799999443220 1112245699999999999998643 24764 55555544333
No 112
>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=93.39 E-value=0.076 Score=31.71 Aligned_cols=12 Identities=33% Similarity=0.814 Sum_probs=9.3
Q ss_pred CCcccccccccc
Q psy14787 15 SNKRCPICRVDI 26 (81)
Q Consensus 15 ~~~~C~iC~~~~ 26 (81)
++..|+|||+.-
T Consensus 1 ed~~CpICme~P 12 (162)
T PF07800_consen 1 EDVTCPICMEHP 12 (162)
T ss_pred CCccCceeccCC
Confidence 456899999864
No 113
>KOG4718|consensus
Probab=93.07 E-value=0.073 Score=33.28 Aligned_cols=49 Identities=20% Similarity=0.485 Sum_probs=37.1
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCcccccccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETHL 73 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~ 73 (81)
..|.+|...+-. ....-.|+-.+|..|+..++++...||.|.--|+...
T Consensus 182 k~Cn~Ch~LvIq--------g~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~h~I 230 (235)
T KOG4718|consen 182 KNCNLCHCLVIQ--------GIRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWTHPI 230 (235)
T ss_pred HHHhHhHHHhhe--------eeccCcccchhhhHHHHHHhcccCcCCchhcccCccc
Confidence 369999886532 2345567778999999999999889999976665443
No 114
>KOG1493|consensus
Probab=92.92 E-value=0.046 Score=28.84 Aligned_cols=26 Identities=42% Similarity=1.140 Sum_probs=21.6
Q ss_pred cccchhhHHhhhc---CCccccccccccc
Q psy14787 2 HLFHVECVDQWLS---SNKRCPICRVDIE 27 (81)
Q Consensus 2 ~~~~~~~~~~~~~---~~~~C~iC~~~~~ 27 (81)
|.||..||.+|+. .+..||.|+..+.
T Consensus 53 h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 53 HAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred HHHHHHHHHHHhcCccccccCCcchheeE
Confidence 8899999999993 4567999988764
No 115
>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=92.81 E-value=0.032 Score=35.56 Aligned_cols=54 Identities=28% Similarity=0.597 Sum_probs=36.4
Q ss_pred cCCccccccccccccccccCcCCCCcccC-CCCcccHhhHHHHHhCCC-CCC--CCcccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLP-CMHLFHVECVDQWLSSNK-RCP--ICRVDIET 71 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~-C~h~fh~~Ci~~~~~~~~-~CP--~Cr~~~~~ 71 (81)
..+..||+|..+---+ +......-| |-|..|.+|+.+-+.++. .|| .|...+..
T Consensus 8 ~~d~~CPvCksDrYLn----Pdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK 65 (314)
T COG5220 8 MEDRRCPVCKSDRYLN----PDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRK 65 (314)
T ss_pred hhcccCCccccccccC----CCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHH
Confidence 3466899998754220 011111223 999999999999998877 499 78776653
No 116
>KOG0802|consensus
Probab=92.70 E-value=0.045 Score=38.36 Aligned_cols=27 Identities=33% Similarity=0.973 Sum_probs=24.3
Q ss_pred CcccchhhHHhhhcCCccccccccccc
Q psy14787 1 MHLFHVECVDQWLSSNKRCPICRVDIE 27 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~C~iC~~~~~ 27 (81)
.|.||..|+.+|++.+..||+|+..+.
T Consensus 315 ~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 315 GHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred ccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 599999999999999999999998543
No 117
>KOG3002|consensus
Probab=92.45 E-value=0.087 Score=34.51 Aligned_cols=43 Identities=28% Similarity=0.705 Sum_probs=31.3
Q ss_pred CCccccccccccccccccCcCCCCcccCC--CCcccHhhHHHHHhCCCCCCCCccccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPC--MHLFHVECVDQWLSSNKRCPICRVDIE 70 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C--~h~fh~~Ci~~~~~~~~~CP~Cr~~~~ 70 (81)
+-.+||+|.+.+.+ + ...| ||..|..|-. +....||.|+.++.
T Consensus 47 ~lleCPvC~~~l~~---------P-i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSP---------P-IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCcc---------c-ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 34679999998865 2 3345 6777777764 34677999999887
No 118
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.25 E-value=0.2 Score=37.10 Aligned_cols=53 Identities=25% Similarity=0.638 Sum_probs=37.1
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCc-----ccHhhHHHHHhCCC--CCCCCcccccccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHL-----FHVECVDQWLSSNK--RCPICRVDIETHL 73 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~-----fh~~Ci~~~~~~~~--~CP~Cr~~~~~~~ 73 (81)
.++..|-||+..=. .+.+..-||+.. .|.+|+.+|+..++ .|-+|..++..+.
T Consensus 10 ~d~~~CRICr~e~~-------~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDI-------RDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCC-------CCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 45577999987532 233445566543 89999999997654 5999998887553
No 119
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.71 E-value=0.11 Score=34.23 Aligned_cols=26 Identities=54% Similarity=1.318 Sum_probs=22.3
Q ss_pred cccchhhHHhhhcC-Cccccccccccc
Q psy14787 2 HLFHVECVDQWLSS-NKRCPICRVDIE 27 (81)
Q Consensus 2 ~~~~~~~~~~~~~~-~~~C~iC~~~~~ 27 (81)
|-||+.|+++|+.+ ...||+|...+.
T Consensus 346 H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 346 HRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred ceechhHHHHHHhhhcccCCccCCCCC
Confidence 88999999999984 568999987763
No 120
>KOG1001|consensus
Probab=91.56 E-value=0.077 Score=38.27 Aligned_cols=46 Identities=28% Similarity=0.714 Sum_probs=35.6
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC--CCCCCCccccccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN--KRCPICRVDIETH 72 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~--~~CP~Cr~~~~~~ 72 (81)
..|.+|.+ .+. ....+|+|.|+..|+...+... ..||.|+..+...
T Consensus 455 ~~c~ic~~-~~~---------~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD-LDS---------FFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc-ccc---------ceeecccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence 78999988 333 6677899999999998887543 3599999877543
No 121
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=91.02 E-value=0.19 Score=24.74 Aligned_cols=34 Identities=18% Similarity=0.482 Sum_probs=25.5
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHH
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQ 54 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~ 54 (81)
...|++|.+.|... .+.++...|+-.+|+.|...
T Consensus 5 ~~~C~~Cg~~~~~~-----dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDG-----DDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCC-----CCEEECCCCCCcccHHHHhh
Confidence 45799999998641 34455666999999999764
No 122
>KOG3053|consensus
Probab=90.41 E-value=0.16 Score=32.69 Aligned_cols=52 Identities=25% Similarity=0.730 Sum_probs=32.3
Q ss_pred CccccccccccccccccCcCCCCcccCC-----CCcccHhhHHHHHhCCC--------CCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPC-----MHLFHVECVDQWLSSNK--------RCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C-----~h~fh~~Ci~~~~~~~~--------~CP~Cr~~~~~~ 72 (81)
+..|=||..--+++ +.....-|| .+..|..|+.+|+..+. .||-|++.....
T Consensus 20 eR~CWiCF~TdeDn-----~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv 84 (293)
T KOG3053|consen 20 ERCCWICFATDEDN-----RLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV 84 (293)
T ss_pred ceeEEEEeccCccc-----chhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence 45688997643331 111123344 35699999999985321 499998876533
No 123
>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=90.11 E-value=0.26 Score=25.44 Aligned_cols=27 Identities=19% Similarity=0.546 Sum_probs=21.0
Q ss_pred cccchhhHHhhhcC-Ccccccccccccc
Q psy14787 2 HLFHVECVDQWLSS-NKRCPICRVDIET 28 (81)
Q Consensus 2 ~~~~~~~~~~~~~~-~~~C~iC~~~~~~ 28 (81)
|.|++.+|.+|+.. ...||++...+..
T Consensus 24 ~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 24 HTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp EEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred CEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 68999999999998 8899999777654
No 124
>KOG1100|consensus
Probab=89.96 E-value=0.18 Score=31.37 Aligned_cols=40 Identities=33% Similarity=0.690 Sum_probs=27.7
Q ss_pred ccccccccccccccCcCCCCcccCCCCc-ccHhhHHHHHhCCCCCCCCcccccc
Q psy14787 19 CPICRVDIETHLNKDLLQPTWRLPCMHL-FHVECVDQWLSSNKRCPICRVDIET 71 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~~~~~~~~~C~h~-fh~~Ci~~~~~~~~~CP~Cr~~~~~ 71 (81)
|-.|.+. ...+..+||.|. +|..|-.. -..||+|+.....
T Consensus 161 Cr~C~~~---------~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---------EATVLLLPCRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---------CceEEeecccceEeccccccc----CccCCCCcChhhc
Confidence 7777655 334778899986 77777543 3459999876543
No 125
>KOG0317|consensus
Probab=89.85 E-value=0.19 Score=32.73 Aligned_cols=27 Identities=33% Similarity=0.984 Sum_probs=25.2
Q ss_pred cccchhhHHhhhcCCcccccccccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPICRVDIET 28 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC~~~~~~ 28 (81)
|.|.-.||-+|..+...||.|++.+.+
T Consensus 259 HiFCWsCI~~w~~ek~eCPlCR~~~~p 285 (293)
T KOG0317|consen 259 HIFCWSCILEWCSEKAECPLCREKFQP 285 (293)
T ss_pred chHHHHHHHHHHccccCCCcccccCCC
Confidence 889999999999999999999998865
No 126
>KOG0827|consensus
Probab=89.48 E-value=0.014 Score=39.45 Aligned_cols=51 Identities=20% Similarity=0.578 Sum_probs=38.7
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
..|.||.+.+.... +....+.|||.+|..++..|+.....||.|+..+...
T Consensus 197 ~sl~I~~~slK~~y-----~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 197 GSLSICFESLKQNY-----DKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred hhhHhhHHHHHHHH-----HHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 45888888776521 1123456999999999999998888899999887654
No 127
>PHA02926 zinc finger-like protein; Provisional
Probab=88.92 E-value=0.22 Score=31.48 Aligned_cols=27 Identities=33% Similarity=1.085 Sum_probs=22.1
Q ss_pred cccchhhHHhhhcCC------cccccccccccc
Q psy14787 2 HLFHVECVDQWLSSN------KRCPICRVDIET 28 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~------~~C~iC~~~~~~ 28 (81)
|.|...|+.+|.... ..||+|+..+..
T Consensus 199 HsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 199 HIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred chHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 899999999999642 349999988753
No 128
>KOG0298|consensus
Probab=88.62 E-value=0.22 Score=38.30 Aligned_cols=47 Identities=30% Similarity=0.576 Sum_probs=37.6
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccc
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVD 68 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~ 68 (81)
.+...|.||.+.+.. ......|||-++..|...|+..+..||.|+..
T Consensus 1151 ~~~~~c~ic~dil~~--------~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRN--------QGGIAGCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred hcccchHHHHHHHHh--------cCCeeeechhHhhhHHHHHHHHhccCcchhhh
Confidence 445579999988763 13355699999999999999999999999754
No 129
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=88.37 E-value=0.45 Score=29.39 Aligned_cols=46 Identities=26% Similarity=0.582 Sum_probs=26.3
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCcc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRV 67 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~ 67 (81)
+..|-+|.+. +...+=..........|+..||..|.. +..||.|..
T Consensus 152 GfiCe~C~~~-~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSD-DIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCC-CCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 4557777643 111111111223344699999999976 266999954
No 130
>KOG3899|consensus
Probab=88.30 E-value=0.28 Score=32.27 Aligned_cols=28 Identities=29% Similarity=0.742 Sum_probs=21.8
Q ss_pred CCCcccHhhHHHHHhCC-------------CCCCCCccccc
Q psy14787 43 CMHLFHVECVDQWLSSN-------------KRCPICRVDIE 70 (81)
Q Consensus 43 C~h~fh~~Ci~~~~~~~-------------~~CP~Cr~~~~ 70 (81)
|....|.+|+.+|+... -+||.||+.+-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 67788999999998432 25999998764
No 131
>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=86.84 E-value=0.5 Score=22.71 Aligned_cols=42 Identities=31% Similarity=0.692 Sum_probs=15.9
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHH---h--CCCCCCCCcc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWL---S--SNKRCPICRV 67 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~---~--~~~~CP~Cr~ 67 (81)
+.|+|-...+.. .++...|.|.-+.+- ..|+ . ....||+|.+
T Consensus 3 L~CPls~~~i~~--------P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRI--------PVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SS--------EEEETT--SS--EEH-HHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEEe--------CccCCcCcccceECH-HHHHHHhhccCCeECcCCcC
Confidence 457777766644 123345998744332 2233 2 2236999975
No 132
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=85.42 E-value=2.6 Score=22.37 Aligned_cols=55 Identities=22% Similarity=0.430 Sum_probs=19.4
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC-CCCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS-NKRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~-~~~CP~Cr~~~~~~ 72 (81)
...|.||.+.+....++.. .+...-|+--.+..|..-=.+. .+.||.|+....-.
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~--FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEV--FVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRH 64 (80)
T ss_dssp S-B-SSS--B--B-SSSSB----S-SSS-----HHHHHHHHHTS-SB-TTT--B----
T ss_pred CcccccccCccccCCCCCE--EEEEcccCCccchhHHHHHhhcCcccccccCCCcccc
Confidence 4579999998765332221 1223347777888888644433 45699999877543
No 133
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=84.93 E-value=0.9 Score=30.29 Aligned_cols=33 Identities=24% Similarity=0.520 Sum_probs=25.7
Q ss_pred CCCCcccCCCCcccHhhHHHHHhCCC---CCCCCcc
Q psy14787 35 LQPTWRLPCMHLFHVECVDQWLSSNK---RCPICRV 67 (81)
Q Consensus 35 ~~~~~~~~C~h~fh~~Ci~~~~~~~~---~CP~Cr~ 67 (81)
..+|+.+.|||+.-...+.+..+++. .||.|-.
T Consensus 349 ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 349 ENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred cCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 34578889999999999988766553 5999944
No 134
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=84.87 E-value=0.59 Score=28.86 Aligned_cols=28 Identities=32% Similarity=0.967 Sum_probs=22.3
Q ss_pred CcccchhhHHhhhc----------------CCcccccccccccc
Q psy14787 1 MHLFHVECVDQWLS----------------SNKRCPICRVDIET 28 (81)
Q Consensus 1 ~~~~~~~~~~~~~~----------------~~~~C~iC~~~~~~ 28 (81)
-|.|...|+.+|+. ....||+|...+..
T Consensus 37 GH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 37 GHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 38999999999873 23579999998854
No 135
>KOG0825|consensus
Probab=83.98 E-value=0.49 Score=35.10 Aligned_cols=28 Identities=32% Similarity=0.763 Sum_probs=25.5
Q ss_pred CcccchhhHHhhhcCCcccccccccccc
Q psy14787 1 MHLFHVECVDQWLSSNKRCPICRVDIET 28 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~C~iC~~~~~~ 28 (81)
.|||+..||..|..-...|+||+..|..
T Consensus 145 ~H~FC~~Ci~sWsR~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 145 AHYFCEECVGSWSRCAQTCPVDRGEFGE 172 (1134)
T ss_pred ccccHHHHhhhhhhhcccCchhhhhhhe
Confidence 4999999999999999999999998854
No 136
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=83.90 E-value=0.68 Score=30.55 Aligned_cols=27 Identities=33% Similarity=0.740 Sum_probs=24.7
Q ss_pred cccchhhHHhhhcCCcccccccccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPICRVDIET 28 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC~~~~~~ 28 (81)
|.|..-||..++..+..||+|++++..
T Consensus 45 HtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 45 HTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred cchhHHHHHHHhcCCCCCccccccHHh
Confidence 889999999999999999999988744
No 137
>KOG0828|consensus
Probab=83.40 E-value=0.58 Score=32.92 Aligned_cols=25 Identities=40% Similarity=1.144 Sum_probs=21.7
Q ss_pred cccchhhHHhhhc-CCcccccccccc
Q psy14787 2 HLFHVECVDQWLS-SNKRCPICRVDI 26 (81)
Q Consensus 2 ~~~~~~~~~~~~~-~~~~C~iC~~~~ 26 (81)
|.||+.|+.+|+. -...|+.|+..+
T Consensus 608 HifH~~CL~~WMd~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 608 HIFHRQCLLQWMDTYKLICPVCRCPL 633 (636)
T ss_pred HHHHHHHHHHHHhhhcccCCccCCCC
Confidence 7899999999998 456899998765
No 138
>KOG3113|consensus
Probab=81.33 E-value=1.5 Score=28.40 Aligned_cols=33 Identities=12% Similarity=0.226 Sum_probs=25.2
Q ss_pred cccCCCCcccHhhHHHHHhCCCCCCCCcccccccc
Q psy14787 39 WRLPCMHLFHVECVDQWLSSNKRCPICRVDIETHL 73 (81)
Q Consensus 39 ~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~ 73 (81)
...+|||+|-..-+.+.. ...|++|...+....
T Consensus 129 ~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 129 ALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDD 161 (293)
T ss_pred EEeccceeccHHHHHHhh--hccccccCCcccccC
Confidence 345799999998887753 567999998876543
No 139
>KOG1609|consensus
Probab=80.29 E-value=1.7 Score=27.98 Aligned_cols=52 Identities=27% Similarity=0.576 Sum_probs=33.3
Q ss_pred CccccccccccccccccCcCCCCcccCCCC-----cccHhhHHHHHhC--CCCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMH-----LFHVECVDQWLSS--NKRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h-----~fh~~Ci~~~~~~--~~~CP~Cr~~~~~~ 72 (81)
+..|-||......... .....||.. ..|..|+..|+.. ...|..|.......
T Consensus 78 ~~~cRIc~~~~~~~~~-----~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNG-----LLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccc-----cccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 3569999886643110 033445432 3799999999974 44699997765433
No 140
>KOG0269|consensus
Probab=80.05 E-value=1.7 Score=32.04 Aligned_cols=24 Identities=21% Similarity=0.385 Sum_probs=20.6
Q ss_pred cCCCCcccHhhHHHHHhCCCCCCC
Q psy14787 41 LPCMHLFHVECVDQWLSSNKRCPI 64 (81)
Q Consensus 41 ~~C~h~fh~~Ci~~~~~~~~~CP~ 64 (81)
-.|+|.-|..++..|+.....||.
T Consensus 797 ~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 797 QVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred ccccccccHHHHHHHHhcCCCCcc
Confidence 359999999999999988777765
No 141
>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=79.68 E-value=0.54 Score=22.18 Aligned_cols=32 Identities=25% Similarity=0.480 Sum_probs=19.4
Q ss_pred cccccccccccccccCcCCCCcccCCCCcccHhhHHHH
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQW 55 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~ 55 (81)
.|.||.+.-.. ...+.--.|+..||..|+..-
T Consensus 1 ~C~vC~~~~~~------~~~i~C~~C~~~~H~~C~~~~ 32 (51)
T PF00628_consen 1 YCPVCGQSDDD------GDMIQCDSCNRWYHQECVGPP 32 (51)
T ss_dssp EBTTTTSSCTT------SSEEEBSTTSCEEETTTSTSS
T ss_pred eCcCCCCcCCC------CCeEEcCCCChhhCcccCCCC
Confidence 37788773222 222233358999999998654
No 142
>KOG0320|consensus
Probab=79.66 E-value=1 Score=27.55 Aligned_cols=26 Identities=35% Similarity=0.935 Sum_probs=23.3
Q ss_pred cccchhhHHhhhcCCccccccccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPICRVDIE 27 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC~~~~~ 27 (81)
|.|..+||.+.+.....||+|...+.
T Consensus 153 HvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 153 HVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred hhHHHHHHHHHHHhCCCCCCcccccc
Confidence 88999999999999999999987553
No 143
>KOG1815|consensus
Probab=79.34 E-value=1.4 Score=30.30 Aligned_cols=35 Identities=26% Similarity=0.538 Sum_probs=27.0
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS 58 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~ 58 (81)
...|.||.+.+.. ....+.|+|.|+..|+..++.+
T Consensus 70 ~~~c~ic~~~~~~--------~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 70 DVQCGICVESYDG--------EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred cccCCcccCCCcc--------hhhhcCCCcHHHHHHHHHHhhh
Confidence 3679999887631 2556789999999999998754
No 144
>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=79.16 E-value=0.99 Score=21.96 Aligned_cols=48 Identities=19% Similarity=0.342 Sum_probs=19.7
Q ss_pred ccccccccccccccCc-CCCCcccCCCCcccHhhHHHHHhCCCCCCCCc
Q psy14787 19 CPICRVDIETHLNKDL-LQPTWRLPCMHLFHVECVDQWLSSNKRCPICR 66 (81)
Q Consensus 19 C~iC~~~~~~~~~~~~-~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr 66 (81)
|.-|+..|........ ........|++.|+.+|=.--=+.-..||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 5556666654111100 01123345999999999542223334699884
No 145
>KOG1829|consensus
Probab=77.71 E-value=0.98 Score=32.29 Aligned_cols=27 Identities=26% Similarity=0.749 Sum_probs=19.4
Q ss_pred ccCCCCcccHhhHHHHHhCCCCCCCCcccc
Q psy14787 40 RLPCMHLFHVECVDQWLSSNKRCPICRVDI 69 (81)
Q Consensus 40 ~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~ 69 (81)
...|+++||..|+.+ .+..||.|-...
T Consensus 534 C~~C~avfH~~C~~r---~s~~CPrC~R~q 560 (580)
T KOG1829|consen 534 CSTCLAVFHKKCLRR---KSPCCPRCERRQ 560 (580)
T ss_pred HHHHHHHHHHHHHhc---cCCCCCchHHHH
Confidence 345999999999765 334499995543
No 146
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=77.51 E-value=1.7 Score=29.74 Aligned_cols=28 Identities=32% Similarity=0.816 Sum_probs=24.3
Q ss_pred CcccchhhHHhhhcCCcccccccccccc
Q psy14787 1 MHLFHVECVDQWLSSNKRCPICRVDIET 28 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~C~iC~~~~~~ 28 (81)
.|.|...|+..++.....||+|...+..
T Consensus 45 gH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 45 SHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred CCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 4899999999999888889999987743
No 147
>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=76.63 E-value=2 Score=17.81 Aligned_cols=9 Identities=33% Similarity=1.206 Sum_probs=4.8
Q ss_pred ccccccccc
Q psy14787 18 RCPICRVDI 26 (81)
Q Consensus 18 ~C~iC~~~~ 26 (81)
.||-|...+
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 356665544
No 148
>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=76.52 E-value=0.95 Score=21.89 Aligned_cols=14 Identities=21% Similarity=0.722 Sum_probs=7.3
Q ss_pred CCCCCCcccccccc
Q psy14787 60 KRCPICRVDIETHL 73 (81)
Q Consensus 60 ~~CP~Cr~~~~~~~ 73 (81)
..||+|.+++....
T Consensus 21 ~~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 21 GCCPLCGRPLDEEH 34 (54)
T ss_dssp EE-TTT--EE-HHH
T ss_pred CcCCCCCCCCCHHH
Confidence 37999999887543
No 149
>KOG3579|consensus
Probab=76.43 E-value=1.7 Score=28.62 Aligned_cols=37 Identities=24% Similarity=0.547 Sum_probs=26.7
Q ss_pred cCCccccccccccccccccCcCCCCcccCC----CCcccHhhHHHHHhCC
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPC----MHLFHVECVDQWLSSN 59 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C----~h~fh~~Ci~~~~~~~ 59 (81)
...+.|.+|.+.+++ .....| .|.||.-|-.+..+.+
T Consensus 266 ~apLcCTLC~ERLED---------THFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 266 SAPLCCTLCHERLED---------THFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CCceeehhhhhhhcc---------CceeecCCCcccceecccCHHHHHhh
Confidence 345789999999987 323333 6889999988877553
No 150
>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 PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=75.88 E-value=1.1 Score=20.09 Aligned_cols=11 Identities=27% Similarity=0.914 Sum_probs=7.7
Q ss_pred ccccccccccc
Q psy14787 18 RCPICRVDIET 28 (81)
Q Consensus 18 ~C~iC~~~~~~ 28 (81)
.||-|...|..
T Consensus 4 ~CP~C~~~f~v 14 (37)
T PF13719_consen 4 TCPNCQTRFRV 14 (37)
T ss_pred ECCCCCceEEc
Confidence 57777777755
No 152
>KOG3161|consensus
Probab=75.81 E-value=1.5 Score=31.95 Aligned_cols=41 Identities=27% Similarity=0.432 Sum_probs=29.1
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCC
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCP 63 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP 63 (81)
-..|.||...|... ...++.+.|||..|..|+.... +.+||
T Consensus 11 ~l~c~ic~n~f~~~-----~~~Pvsl~cghtic~~c~~~ly--n~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQ-----RLEPVSLQCGHTICGHCVQLLY--NASCP 51 (861)
T ss_pred HhhchHHHHHHHHH-----hcCcccccccchHHHHHHHhHh--hccCC
Confidence 35699997766431 3446677899999999998754 34566
No 153
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=75.78 E-value=0.25 Score=25.63 Aligned_cols=42 Identities=24% Similarity=0.592 Sum_probs=20.5
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
..||.|...++. . =++.++..|-..+ .....||.|..++...
T Consensus 2 ~~CP~C~~~L~~-----------~--~~~~~C~~C~~~~-~~~a~CPdC~~~Le~L 43 (70)
T PF07191_consen 2 NTCPKCQQELEW-----------Q--GGHYHCEACQKDY-KKEAFCPDCGQPLEVL 43 (70)
T ss_dssp -B-SSS-SBEEE-----------E--TTEEEETTT--EE-EEEEE-TTT-SB-EEE
T ss_pred CcCCCCCCccEE-----------e--CCEEECccccccc-eecccCCCcccHHHHH
Confidence 468999888754 1 1555666666543 2334589988877643
No 154
>KOG3005|consensus
Probab=73.58 E-value=2.2 Score=27.70 Aligned_cols=51 Identities=22% Similarity=0.401 Sum_probs=31.1
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC---------CCCCCCCcccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS---------NKRCPICRVDI 69 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~---------~~~CP~Cr~~~ 69 (81)
..|-+|.+.+...... ...-....|+..+|..|+...+.. +..||.|++.+
T Consensus 183 ~~celc~~ei~e~~~~--~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWS--RATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccce--eccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 4688998888431100 000111238889999999884322 34699998754
No 155
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=71.47 E-value=1.7 Score=19.35 Aligned_cols=30 Identities=27% Similarity=0.460 Sum_probs=15.2
Q ss_pred cccccccccccccccCcC--CCCcccCCCCcc
Q psy14787 18 RCPICRVDIETHLNKDLL--QPTWRLPCMHLF 47 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~--~~~~~~~C~h~f 47 (81)
.|+-|...+..+.+..+. ..+....|+|.|
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 577787777653332221 122333466665
No 156
>KOG1812|consensus
Probab=71.42 E-value=2.2 Score=29.00 Aligned_cols=46 Identities=28% Similarity=0.569 Sum_probs=29.9
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCC
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPIC 65 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~C 65 (81)
-..|+.|.-.++.. .+---+.-.|||.|+..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~----~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELS----EGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeec----CCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 34699998776431 01111222389999999999998777766544
No 157
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=70.99 E-value=2.7 Score=32.26 Aligned_cols=25 Identities=40% Similarity=1.178 Sum_probs=20.6
Q ss_pred cccchhhHHhhhcC--Ccccccccccc
Q psy14787 2 HLFHVECVDQWLSS--NKRCPICRVDI 26 (81)
Q Consensus 2 ~~~~~~~~~~~~~~--~~~C~iC~~~~ 26 (81)
|.||..|+-+|+.. ...||.|+..+
T Consensus 1496 nKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1496 NKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred hhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 78999999999944 56799998664
No 158
>KOG2066|consensus
Probab=70.31 E-value=1.4 Score=32.68 Aligned_cols=47 Identities=23% Similarity=0.422 Sum_probs=30.3
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCC
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPIC 65 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~C 65 (81)
+..|..|.+..... ++.......+.|+|+||..|+..-..++. |-.|
T Consensus 784 e~rc~~c~~~~l~~--~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPS--GAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhhccccccc--CcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 55688888765431 11124456677999999999977654444 5444
No 159
>KOG2807|consensus
Probab=70.29 E-value=3.3 Score=27.80 Aligned_cols=45 Identities=20% Similarity=0.435 Sum_probs=29.2
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICR 66 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr 66 (81)
...|-.|.+.... ......-.|.+.||.+|-.-.-..-..||.|.
T Consensus 330 ~~~Cf~C~~~~~~------~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 330 SRFCFACQGELLS------SGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CcceeeeccccCC------CCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 3448888555443 34455566999999999654333345699996
No 160
>PLN02189 cellulose synthase
Probab=68.95 E-value=5.6 Score=30.54 Aligned_cols=53 Identities=21% Similarity=0.454 Sum_probs=33.5
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh-CCCCCCCCccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS-SNKRCPICRVDIE 70 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~-~~~~CP~Cr~~~~ 70 (81)
...|.||.+.+...++++.- +..--|+--.|..|.+-=.+ .++.||.|++...
T Consensus 34 ~~~C~iCgd~vg~~~~g~~f--vaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLF--VACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEE--EeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 34799999998653332211 22233777788889843222 3456999998876
No 161
>KOG3842|consensus
Probab=68.37 E-value=6.3 Score=26.50 Aligned_cols=70 Identities=23% Similarity=0.398 Sum_probs=38.3
Q ss_pred cccchhhHHhhh-cCCcccccccccccc--cccc--------CcCCCCcccCCCCcccHhhHHHHHhC---------CCC
Q psy14787 2 HLFHVECVDQWL-SSNKRCPICRVDIET--HLNK--------DLLQPTWRLPCMHLFHVECVDQWLSS---------NKR 61 (81)
Q Consensus 2 ~~~~~~~~~~~~-~~~~~C~iC~~~~~~--~~~~--------~~~~~~~~~~C~h~fh~~Ci~~~~~~---------~~~ 61 (81)
|+||.=...+-. .....||+|+..-.. .--+ .....-...||||+--.+-..-|.+. ...
T Consensus 326 ~G~H~WG~~e~~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~ 405 (429)
T KOG3842|consen 326 HGYHNWGVRENTGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAA 405 (429)
T ss_pred ccccccccccccCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCcccccccc
Confidence 445544333332 335679999875321 0000 00111133579998888788777643 125
Q ss_pred CCCCcccccc
Q psy14787 62 CPICRVDIET 71 (81)
Q Consensus 62 CP~Cr~~~~~ 71 (81)
||.|-..+..
T Consensus 406 CPFC~~~L~g 415 (429)
T KOG3842|consen 406 CPFCATQLAG 415 (429)
T ss_pred Ccchhhhhcc
Confidence 9999777643
No 162
>PLN02436 cellulose synthase A
Probab=67.09 E-value=6.4 Score=30.38 Aligned_cols=52 Identities=21% Similarity=0.482 Sum_probs=33.0
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh-CCCCCCCCccccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS-SNKRCPICRVDIE 70 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~-~~~~CP~Cr~~~~ 70 (81)
..|.||.+.+....+++.- +..--|+--.|..|.+-=.+ .++.||.|++...
T Consensus 37 ~iCqICGD~Vg~t~dGe~F--VACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPF--VACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEE--EeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4799999988653322211 22233777788899843232 2456999998876
No 163
>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=66.82 E-value=2.7 Score=20.22 Aligned_cols=11 Identities=36% Similarity=0.981 Sum_probs=7.8
Q ss_pred CCCCCCccccc
Q psy14787 60 KRCPICRVDIE 70 (81)
Q Consensus 60 ~~CP~Cr~~~~ 70 (81)
..||+|...+.
T Consensus 32 v~CPiC~~~~~ 42 (54)
T PF05605_consen 32 VVCPICSSRVT 42 (54)
T ss_pred ccCCCchhhhh
Confidence 35999987544
No 164
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=66.26 E-value=5.4 Score=20.95 Aligned_cols=45 Identities=24% Similarity=0.496 Sum_probs=26.4
Q ss_pred cchhhHHhhh--cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHH
Q psy14787 4 FHVECVDQWL--SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQ 54 (81)
Q Consensus 4 ~~~~~~~~~~--~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~ 54 (81)
+..+.|.+.. .....|.+|...... ...-....|...||..|...
T Consensus 22 ~~i~~v~~~~~~~~~~~C~~C~~~~Ga------~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 22 FSIEDVEKEIKRRRKLKCSICKKKGGA------CIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred ccHHhHHHHHHHHhCCCCcCCCCCCCe------EEEEeCCCCCcEEChHHHcc
Confidence 3444554333 345689999865221 11112335899999999865
No 165
>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=66.06 E-value=2 Score=29.47 Aligned_cols=31 Identities=29% Similarity=0.642 Sum_probs=0.0
Q ss_pred CCcccCCCCcccHhhHHHHHhC------CCCCCCCccccc
Q psy14787 37 PTWRLPCMHLFHVECVDQWLSS------NKRCPICRVDIE 70 (81)
Q Consensus 37 ~~~~~~C~h~fh~~Ci~~~~~~------~~~CP~Cr~~~~ 70 (81)
..+.+.|||++.. ..|... ...||+|+..-.
T Consensus 303 P~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 303 PWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp ----------------------------------------
T ss_pred ceeeccccceeee---cccccccccccccccCCCccccCC
Confidence 3456779998653 356421 346999987543
No 166
>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=64.78 E-value=1.5 Score=21.02 Aligned_cols=23 Identities=22% Similarity=0.644 Sum_probs=14.8
Q ss_pred CCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 42 PCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 42 ~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
.-+..||..|+ .|-.|+..+...
T Consensus 17 ~~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 17 AMGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp ETTEEEETTTS--------BETTTTCBTTTS
T ss_pred eCCcEEEcccc--------ccCCCCCccCCC
Confidence 35667777774 377777766544
No 167
>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=64.37 E-value=4.8 Score=20.67 Aligned_cols=12 Identities=25% Similarity=0.819 Sum_probs=8.4
Q ss_pred cccHhhHHHHHh
Q psy14787 46 LFHVECVDQWLS 57 (81)
Q Consensus 46 ~fh~~Ci~~~~~ 57 (81)
-||..|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 389999999974
No 168
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=64.19 E-value=11 Score=21.36 Aligned_cols=50 Identities=20% Similarity=0.279 Sum_probs=32.0
Q ss_pred ccccccccccccccccCc-----CCCCcccCCCCcccHhhHHHHHhCCCCCCCCc
Q psy14787 17 KRCPICRVDIETHLNKDL-----LQPTWRLPCMHLFHVECVDQWLSSNKRCPICR 66 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~-----~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr 66 (81)
..|..|+..|........ ........|++.|+.+|-.-+-+.-..||.|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 459999998854211000 11223456999999999776655556799985
No 169
>KOG2231|consensus
Probab=63.54 E-value=9.5 Score=27.99 Aligned_cols=46 Identities=30% Similarity=0.663 Sum_probs=33.1
Q ss_pred cccccccccccccccCcCCCCcccCCCC-cccHhhHHHHHh--C----CCCCCCCccccccc
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMH-LFHVECVDQWLS--S----NKRCPICRVDIETH 72 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h-~fh~~Ci~~~~~--~----~~~CP~Cr~~~~~~ 72 (81)
.|+||-...+. ...-.||| ..+..|..+... . ...||+|+..+...
T Consensus 2 ~c~ic~~s~~~---------~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~ 54 (669)
T KOG2231|consen 2 SCAICAFSPDF---------VGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETK 54 (669)
T ss_pred CcceeecCccc---------cccccccccccchhhhhhhhhhcccccccccCcccccceeee
Confidence 48888776543 66777999 799999988753 2 23489999876544
No 170
>KOG3799|consensus
Probab=62.75 E-value=2.2 Score=25.11 Aligned_cols=12 Identities=25% Similarity=0.744 Sum_probs=9.2
Q ss_pred cCCccccccccc
Q psy14787 14 SSNKRCPICRVD 25 (81)
Q Consensus 14 ~~~~~C~iC~~~ 25 (81)
.++..|.||+..
T Consensus 63 ~ddatC~IC~KT 74 (169)
T KOG3799|consen 63 GDDATCGICHKT 74 (169)
T ss_pred CcCcchhhhhhc
Confidence 557789999863
No 171
>KOG2660|consensus
Probab=62.63 E-value=2.5 Score=28.18 Aligned_cols=28 Identities=32% Similarity=0.834 Sum_probs=24.7
Q ss_pred CcccchhhHHhhhcCCcccccccccccc
Q psy14787 1 MHLFHVECVDQWLSSNKRCPICRVDIET 28 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~C~iC~~~~~~ 28 (81)
||.|...||.+++.....||.|-..+..
T Consensus 35 LHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 35 LHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred HHHHHHHHHHHHHHHhccCCccceeccC
Confidence 6999999999999999999999877644
No 172
>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=62.01 E-value=7.5 Score=17.57 Aligned_cols=36 Identities=22% Similarity=0.412 Sum_probs=24.0
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHH
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQ 54 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~ 54 (81)
.....|.+|.+.+... ........|+-..|..|...
T Consensus 9 ~~~~~C~~C~~~i~~~-----~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 9 KKPTKCCVCRKSIWGS-----FQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCCCccccccccCcC-----CCCcCCCCCCchHHHHHHhh
Confidence 3456799999887541 01334455888899999875
No 173
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=61.96 E-value=6.9 Score=30.10 Aligned_cols=53 Identities=19% Similarity=0.385 Sum_probs=33.8
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh-CCCCCCCCccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS-SNKRCPICRVDIE 70 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~-~~~~CP~Cr~~~~ 70 (81)
...|.||.+.+....+++.- +..--|+--.|..|.+-=.+ .++.||.|++...
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~F--VAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPF--VACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEE--EEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 45799999988664333321 22333777788889832222 3456999998876
No 174
>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 KOG2068|consensus
Probab=61.05 E-value=12 Score=25.02 Aligned_cols=52 Identities=27% Similarity=0.544 Sum_probs=33.8
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
...|+||.+.+... .....-.+|++..+..|+..-......||.||.+....
T Consensus 249 ~~s~p~~~~~~~~~-----d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 249 PPSCPICYEDLDLT-----DSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCCccccc-----ccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 35689998876331 11112234777777777777777778899999766544
No 176
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=60.18 E-value=3.2 Score=24.65 Aligned_cols=24 Identities=33% Similarity=0.722 Sum_probs=14.0
Q ss_pred ccHhhHHHHHhCC----CCCCCCccccc
Q psy14787 47 FHVECVDQWLSSN----KRCPICRVDIE 70 (81)
Q Consensus 47 fh~~Ci~~~~~~~----~~CP~Cr~~~~ 70 (81)
||..|+.+=+..- ..||.|...-.
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~ 29 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKS 29 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCC
Confidence 5667766554332 24888865443
No 177
>KOG2114|consensus
Probab=58.88 E-value=4.2 Score=30.54 Aligned_cols=24 Identities=25% Similarity=0.854 Sum_probs=19.7
Q ss_pred CcccchhhHHhhhcCCccccccccccc
Q psy14787 1 MHLFHVECVDQWLSSNKRCPICRVDIE 27 (81)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~C~iC~~~~~ 27 (81)
+|+||+.|+. .....||-|+-++.
T Consensus 860 gHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 860 GHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred ccHHHHHhhc---cCcccCCccchhhh
Confidence 6999999999 55678999987553
No 178
>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=58.78 E-value=10 Score=18.03 Aligned_cols=35 Identities=14% Similarity=0.326 Sum_probs=22.7
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHH
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWL 56 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~ 56 (81)
..|.+|...|... ........||.+|+..|.....
T Consensus 3 ~~C~~C~~~F~~~-----~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLT-----RRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCC-----ccccccCcCcCCcChHHcCCee
Confidence 4688888777541 1112234599999999987654
No 179
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=57.96 E-value=9.8 Score=20.79 Aligned_cols=34 Identities=21% Similarity=0.390 Sum_probs=21.0
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHH
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQW 55 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~ 55 (81)
...|.||...... ...-....|...||..|....
T Consensus 55 ~~~C~iC~~~~G~------~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSGGA------CIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCCce------eEEcCCCCCCcCCCHHHHHHC
Confidence 5679999876321 000112238889999998763
No 180
>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=57.53 E-value=4 Score=17.15 Aligned_cols=29 Identities=28% Similarity=0.402 Sum_probs=8.2
Q ss_pred cccccccccccccccCcCCCCcccCCCCcccHhhH
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECV 52 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci 52 (81)
.|.+|.+.... .....-..|.-.+|..|+
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 36667665432 122333457777777764
No 181
>KOG1245|consensus
Probab=57.02 E-value=4.2 Score=32.17 Aligned_cols=60 Identities=27% Similarity=0.421 Sum_probs=38.9
Q ss_pred cchhhHHhhhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC----CCCCCCcccc
Q psy14787 4 FHVECVDQWLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN----KRCPICRVDI 69 (81)
Q Consensus 4 ~~~~~~~~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~----~~CP~Cr~~~ 69 (81)
|+.....+-......|.+|...... ..-.....|...||..|+..-+... ..||.|+..-
T Consensus 1096 l~~~i~w~~s~~~~~c~~cr~k~~~------~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1096 LEAEIKWDRSAVNALCKVCRRKKQD------EKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred HHHHHhhccccchhhhhhhhhcccc------hhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3333344444456679999876544 2223334588889999999887543 4699998765
No 182
>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=56.29 E-value=4.4 Score=17.31 Aligned_cols=18 Identities=28% Similarity=0.838 Sum_probs=11.7
Q ss_pred CCcccHhhHHHHHhCCCCCCCCcccc
Q psy14787 44 MHLFHVECVDQWLSSNKRCPICRVDI 69 (81)
Q Consensus 44 ~h~fh~~Ci~~~~~~~~~CP~Cr~~~ 69 (81)
+..||..|. .|..|+..+
T Consensus 20 ~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 20 GKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccccCC--------CCcccCCcC
Confidence 566777764 377776654
No 183
>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=56.16 E-value=3.2 Score=20.79 Aligned_cols=35 Identities=17% Similarity=0.333 Sum_probs=15.3
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHH
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQW 55 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~ 55 (81)
...|.+|...|... ...-..-.||++|+..|....
T Consensus 9 ~~~C~~C~~~F~~~-----~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 9 ASNCMICGKKFSLF-----RRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp -SB-TTT--B-BSS-----S-EEE-TTT--EEECCCS-EE
T ss_pred CCcCcCcCCcCCCc-----eeeEccCCCCCEECCchhCCE
Confidence 56799999988530 000112349999998887644
No 184
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=56.00 E-value=12 Score=23.84 Aligned_cols=28 Identities=18% Similarity=0.424 Sum_probs=19.6
Q ss_pred ccHhhHHHHHhCCCCCCCCccccccccc
Q psy14787 47 FHVECVDQWLSSNKRCPICRVDIETHLN 74 (81)
Q Consensus 47 fh~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 74 (81)
-|..|.+.-=.+...||+|++.-.+...
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrnp 223 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRNP 223 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCCC
Confidence 3566776655667789999887665543
No 185
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=55.97 E-value=9.3 Score=18.35 Aligned_cols=23 Identities=30% Similarity=0.736 Sum_probs=12.7
Q ss_pred CCCCcccHhhHHHHHhCCCCCCCC
Q psy14787 42 PCMHLFHVECVDQWLSSNKRCPIC 65 (81)
Q Consensus 42 ~C~h~fh~~Ci~~~~~~~~~CP~C 65 (81)
.|||.|-.. +.........||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-HhhhccCCCCCCCC
Confidence 377766443 33323445568887
No 186
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=55.57 E-value=7.3 Score=19.53 Aligned_cols=14 Identities=21% Similarity=0.795 Sum_probs=10.5
Q ss_pred CCCCCCCccccccc
Q psy14787 59 NKRCPICRVDIETH 72 (81)
Q Consensus 59 ~~~CP~Cr~~~~~~ 72 (81)
...||+|..++...
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 35799999887643
No 187
>KOG4451|consensus
Probab=55.51 E-value=11 Score=24.26 Aligned_cols=27 Identities=19% Similarity=0.519 Sum_probs=19.1
Q ss_pred ccHhhHHHHHhCCCCCCCCcccccccc
Q psy14787 47 FHVECVDQWLSSNKRCPICRVDIETHL 73 (81)
Q Consensus 47 fh~~Ci~~~~~~~~~CP~Cr~~~~~~~ 73 (81)
.|..|..+.-.+...||+|+..-.+..
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSrN 277 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSRN 277 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccCC
Confidence 456677766667788999988765443
No 188
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=54.11 E-value=15 Score=28.56 Aligned_cols=52 Identities=17% Similarity=0.503 Sum_probs=33.2
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHH--hCCCCCCCCccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWL--SSNKRCPICRVDIE 70 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~--~~~~~CP~Cr~~~~ 70 (81)
...|.||.+.+....+++.- +..--|+--.|..|.+ +- +.++.||-|++...
T Consensus 17 ~qiCqICGD~vg~~~~Ge~F--VAC~eC~FPVCrpCYE-YEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPF--VACDVCAFPVCRPCYE-YERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEE--EEeccCCCccccchhh-hhhhcCCccCCccCCchh
Confidence 34799999988653332211 2223367678888983 43 23456999998876
No 189
>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=50.68 E-value=13 Score=24.78 Aligned_cols=27 Identities=26% Similarity=0.655 Sum_probs=21.3
Q ss_pred cccchhhHHhhh-cCCcccccccccccc
Q psy14787 2 HLFHVECVDQWL-SSNKRCPICRVDIET 28 (81)
Q Consensus 2 ~~~~~~~~~~~~-~~~~~C~iC~~~~~~ 28 (81)
|.|...||...+ .+...||.|...+..
T Consensus 28 H~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 28 HTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 888999999865 445689999887754
No 190
>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=50.41 E-value=10 Score=16.30 Aligned_cols=10 Identities=30% Similarity=0.856 Sum_probs=6.8
Q ss_pred CCCCCCCccc
Q psy14787 59 NKRCPICRVD 68 (81)
Q Consensus 59 ~~~CP~Cr~~ 68 (81)
...||.|...
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 3469999664
No 191
>PLN02195 cellulose synthase A
Probab=49.95 E-value=18 Score=27.87 Aligned_cols=52 Identities=15% Similarity=0.355 Sum_probs=34.0
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh--CCCCCCCCccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS--SNKRCPICRVDIE 70 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~--~~~~CP~Cr~~~~ 70 (81)
...|.||.+.+....+++.- +..--|+--.|..|.+ +-. .++.||.|++...
T Consensus 6 ~~~c~~cgd~~~~~~~g~~f--vaC~eC~~pvCrpCye-yer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAF--VACHECSYPLCKACLE-YEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeE--EEeccCCCccccchhh-hhhhcCCccCCccCCccc
Confidence 45799999988654333211 2233477778889983 432 2456999998877
No 192
>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=49.43 E-value=24 Score=17.54 Aligned_cols=45 Identities=24% Similarity=0.605 Sum_probs=28.6
Q ss_pred cccccccccccccccCcCCCCcccCCC--CcccHhhHHHHHhCCCCCCCCcccccc
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCM--HLFHVECVDQWLSSNKRCPICRVDIET 71 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~--h~fh~~Ci~~~~~~~~~CP~Cr~~~~~ 71 (81)
.|-.|-.++.. +.....-|. ..|+..|....+ ...||-|...+..
T Consensus 7 nCE~C~~dLp~-------~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPP-------DSPEAYICSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCC-------CCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 46667666654 111122254 469999998865 5779999877643
No 193
>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=48.79 E-value=4.2 Score=16.75 Aligned_cols=11 Identities=27% Similarity=1.065 Sum_probs=8.2
Q ss_pred CCCCCcccccc
Q psy14787 61 RCPICRVDIET 71 (81)
Q Consensus 61 ~CP~Cr~~~~~ 71 (81)
.||+|...+..
T Consensus 3 ~CPiC~~~v~~ 13 (26)
T smart00734 3 QCPVCFREVPE 13 (26)
T ss_pred cCCCCcCcccH
Confidence 59999877643
No 194
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=48.72 E-value=12 Score=24.07 Aligned_cols=41 Identities=24% Similarity=0.404 Sum_probs=27.0
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCC--CCCC
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNK--RCPI 64 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~--~CP~ 64 (81)
+..|+|-...... ......|+|.|-.+-|...++..- .||.
T Consensus 189 ~nrCpitl~p~~~--------pils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFY--------PILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchh--------HHHHhhhcccccHHHHHHHhcCCceeecch
Confidence 4568875544322 133456999999999999987443 4774
No 195
>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=47.80 E-value=17 Score=20.22 Aligned_cols=26 Identities=27% Similarity=0.477 Sum_probs=19.0
Q ss_pred CCcccHhhHHHHHhC---------CCCCCCCcccc
Q psy14787 44 MHLFHVECVDQWLSS---------NKRCPICRVDI 69 (81)
Q Consensus 44 ~h~fh~~Ci~~~~~~---------~~~CP~Cr~~~ 69 (81)
.-.|+..||...... ...||.||..-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 778999999887642 23599997643
No 196
>PLN02400 cellulose synthase
Probab=47.72 E-value=14 Score=28.63 Aligned_cols=52 Identities=19% Similarity=0.485 Sum_probs=32.8
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHH--hCCCCCCCCccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWL--SSNKRCPICRVDIE 70 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~--~~~~~CP~Cr~~~~ 70 (81)
...|.||.+++....+++.- +..--|+--.|..|.+ +- ..++.||-|++...
T Consensus 36 gqiCqICGD~VG~t~dGe~F--VAC~eCaFPVCRpCYE-YERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVF--VACNECAFPVCRPCYE-YERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CceeeecccccCcCCCCCEE--EEEccCCCccccchhh-eecccCCccCcccCCccc
Confidence 34799999998654332211 2233366668888873 42 22456999998876
No 197
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=46.54 E-value=8.5 Score=18.57 Aligned_cols=37 Identities=22% Similarity=0.407 Sum_probs=21.2
Q ss_pred ccc--ccccccccccccCcCCCCcccCCCCcccHhhHHHH
Q psy14787 18 RCP--ICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQW 55 (81)
Q Consensus 18 ~C~--iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~ 55 (81)
.|| -|...+.... ......+....|++.|+..|...|
T Consensus 20 ~CP~~~C~~~~~~~~-~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 20 WCPAPDCSAAIIVTE-EEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCCCCcceEEecC-CCCCCeeECCCCCCeECCCCCCcC
Confidence 488 7866554421 001112223358999998888776
No 198
>KOG3039|consensus
Probab=46.49 E-value=21 Score=23.27 Aligned_cols=35 Identities=14% Similarity=0.158 Sum_probs=27.5
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS 57 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~ 57 (81)
.+-.-|.+|+..... ++..+=|+.|...||.+++.
T Consensus 41 K~FdcCsLtLqPc~d---------Pvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRD---------PVITPDGYLFDREAILEYIL 75 (303)
T ss_pred CCcceeeeecccccC---------CccCCCCeeeeHHHHHHHHH
Confidence 444568888887654 77888899999999998864
No 199
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=46.45 E-value=7.8 Score=18.21 Aligned_cols=37 Identities=22% Similarity=0.202 Sum_probs=22.3
Q ss_pred cCCccccccccccccccccCcCCCCcccCCCCcccHhhHHH
Q psy14787 14 SSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQ 54 (81)
Q Consensus 14 ~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~ 54 (81)
.....|.+|.+.+.. .......-..|+-.+|.+|+..
T Consensus 9 ~~~~~C~~C~~~i~g----~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 9 SKPTYCDVCGKFIWG----LGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp SSTEB-TTSSSBECS----SSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCCCcccCcccCC----CCCCeEEECCCCChHhhhhhhh
Confidence 456679999888721 0122334456899999999754
No 200
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=44.88 E-value=6.5 Score=19.22 Aligned_cols=12 Identities=42% Similarity=0.966 Sum_probs=6.8
Q ss_pred CCCCCccccccc
Q psy14787 61 RCPICRVDIETH 72 (81)
Q Consensus 61 ~CP~Cr~~~~~~ 72 (81)
+||+|...+...
T Consensus 26 tCP~C~a~~~~s 37 (54)
T PF09237_consen 26 TCPICGAVIRQS 37 (54)
T ss_dssp E-TTT--EESSH
T ss_pred CCCcchhhccch
Confidence 599999887654
No 201
>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=44.71 E-value=11 Score=15.77 Aligned_cols=12 Identities=25% Similarity=0.919 Sum_probs=5.8
Q ss_pred CCCCCccccccc
Q psy14787 61 RCPICRVDIETH 72 (81)
Q Consensus 61 ~CP~Cr~~~~~~ 72 (81)
.||.|...+...
T Consensus 1 ~CP~C~s~l~~~ 12 (28)
T PF03119_consen 1 TCPVCGSKLVRE 12 (28)
T ss_dssp B-TTT--BEEE-
T ss_pred CcCCCCCEeEcC
Confidence 389998887633
No 202
>KOG0978|consensus
Probab=43.87 E-value=12 Score=27.58 Aligned_cols=28 Identities=29% Similarity=0.746 Sum_probs=23.1
Q ss_pred CcccchhhHHhhh-cCCcccccccccccc
Q psy14787 1 MHLFHVECVDQWL-SSNKRCPICRVDIET 28 (81)
Q Consensus 1 ~~~~~~~~~~~~~-~~~~~C~iC~~~~~~ 28 (81)
+|.|..+||.... .-+..||.|-..|.+
T Consensus 662 ~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 662 GHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred chHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 6999999998655 557789999998865
No 203
>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=43.86 E-value=6.3 Score=18.03 Aligned_cols=8 Identities=38% Similarity=0.970 Sum_probs=6.1
Q ss_pred CCCCCCcc
Q psy14787 60 KRCPICRV 67 (81)
Q Consensus 60 ~~CP~Cr~ 67 (81)
..||.|+.
T Consensus 27 ~~CP~Cg~ 34 (42)
T PF09723_consen 27 VPCPECGS 34 (42)
T ss_pred CcCCCCCC
Confidence 35999977
No 204
>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=43.79 E-value=12 Score=20.98 Aligned_cols=48 Identities=15% Similarity=0.352 Sum_probs=26.9
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCC--CCCCCcc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNK--RCPICRV 67 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~--~CP~Cr~ 67 (81)
++..|.+|...|.... ........|++.+|..|-.. ..... .|.+|..
T Consensus 53 ~~~~C~~C~~~fg~l~----~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLF----NRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTS----TTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccC----CCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 4568999998774310 12234456899999888654 11112 3777754
No 205
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=42.93 E-value=18 Score=17.59 Aligned_cols=20 Identities=20% Similarity=0.516 Sum_probs=12.7
Q ss_pred CCCCCccccccccccccCCC
Q psy14787 61 RCPICRVDIETHLNKDLLQP 80 (81)
Q Consensus 61 ~CP~Cr~~~~~~~~~~~~~~ 80 (81)
.||.|+..-.....+...+|
T Consensus 26 KCpRC~tiN~~~a~~~~~~p 45 (51)
T PF10122_consen 26 KCPRCKTINHVRATSPEPEP 45 (51)
T ss_pred ECCCCCccceEeccCCCCCc
Confidence 59999876655555544444
No 206
>KOG0287|consensus
Probab=42.55 E-value=16 Score=24.93 Aligned_cols=27 Identities=33% Similarity=0.816 Sum_probs=24.0
Q ss_pred cccchhhHHhhhcCCcccccccccccc
Q psy14787 2 HLFHVECVDQWLSSNKRCPICRVDIET 28 (81)
Q Consensus 2 ~~~~~~~~~~~~~~~~~C~iC~~~~~~ 28 (81)
|.|..-||..++.....||.|.-.+..
T Consensus 43 HtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 43 HTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred chHHHHHHHHHhccCCCCCceecccch
Confidence 889999999999999999999877644
No 207
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=42.34 E-value=21 Score=16.38 Aligned_cols=20 Identities=20% Similarity=0.680 Sum_probs=13.2
Q ss_pred HHHHHhCCCCCCCCcccccc
Q psy14787 52 VDQWLSSNKRCPICRVDIET 71 (81)
Q Consensus 52 i~~~~~~~~~CP~Cr~~~~~ 71 (81)
++-|.--+..||.|..++..
T Consensus 10 L~G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 10 LQGWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HHhHhHhcCccCCCCCeeEE
Confidence 44455556679999777654
No 208
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=42.05 E-value=15 Score=23.39 Aligned_cols=12 Identities=25% Similarity=0.905 Sum_probs=9.7
Q ss_pred cccccccccccc
Q psy14787 17 KRCPICRVDIET 28 (81)
Q Consensus 17 ~~C~iC~~~~~~ 28 (81)
..||+|...+..
T Consensus 3 ~~CP~C~~~l~~ 14 (272)
T PRK11088 3 YQCPLCHQPLTL 14 (272)
T ss_pred ccCCCCCcchhc
Confidence 469999998854
No 209
>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=41.76 E-value=19 Score=20.17 Aligned_cols=12 Identities=25% Similarity=0.811 Sum_probs=9.7
Q ss_pred CCCCCccccccc
Q psy14787 61 RCPICRVDIETH 72 (81)
Q Consensus 61 ~CP~Cr~~~~~~ 72 (81)
.||.|...+...
T Consensus 28 vCP~CG~~~~~~ 39 (108)
T PF09538_consen 28 VCPKCGTEFPPE 39 (108)
T ss_pred cCCCCCCccCcc
Confidence 499999888755
No 210
>PRK11827 hypothetical protein; Provisional
Probab=41.54 E-value=14 Score=18.54 Aligned_cols=14 Identities=21% Similarity=0.589 Sum_probs=10.4
Q ss_pred CCCCCCcccccccc
Q psy14787 60 KRCPICRVDIETHL 73 (81)
Q Consensus 60 ~~CP~Cr~~~~~~~ 73 (81)
-.||.|+..+....
T Consensus 9 LaCP~ckg~L~~~~ 22 (60)
T PRK11827 9 IACPVCNGKLWYNQ 22 (60)
T ss_pred eECCCCCCcCeEcC
Confidence 35999999887543
No 211
>KOG2071|consensus
Probab=38.83 E-value=12 Score=26.92 Aligned_cols=41 Identities=22% Similarity=0.502 Sum_probs=24.8
Q ss_pred CccccccccccccccccCcC----CCCcccCCCCcccHhhHHHHH
Q psy14787 16 NKRCPICRVDIETHLNKDLL----QPTWRLPCMHLFHVECVDQWL 56 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~----~~~~~~~C~h~fh~~Ci~~~~ 56 (81)
...|+||.+.|+.-...... ...+.+-=|..||..|+..-.
T Consensus 513 ~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 513 QASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 45699999999763222211 011222248889999987643
No 212
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=38.77 E-value=22 Score=17.90 Aligned_cols=11 Identities=27% Similarity=1.141 Sum_probs=8.1
Q ss_pred CCCCCCccccc
Q psy14787 60 KRCPICRVDIE 70 (81)
Q Consensus 60 ~~CP~Cr~~~~ 70 (81)
..||+|+..+.
T Consensus 3 ~~CPlCkt~~n 13 (61)
T PF05715_consen 3 SLCPLCKTTLN 13 (61)
T ss_pred ccCCcccchhh
Confidence 46888888763
No 213
>PF14353 CpXC: CpXC protein
Probab=37.97 E-value=44 Score=18.77 Aligned_cols=12 Identities=25% Similarity=0.739 Sum_probs=8.6
Q ss_pred CCCCCccccccc
Q psy14787 61 RCPICRVDIETH 72 (81)
Q Consensus 61 ~CP~Cr~~~~~~ 72 (81)
+||.|.......
T Consensus 40 ~CP~Cg~~~~~~ 51 (128)
T PF14353_consen 40 TCPSCGHKFRLE 51 (128)
T ss_pred ECCCCCCceecC
Confidence 599998876543
No 214
>PRK11595 DNA utilization protein GntX; Provisional
Probab=36.19 E-value=41 Score=21.00 Aligned_cols=23 Identities=17% Similarity=0.436 Sum_probs=12.6
Q ss_pred ccHhhHHHHHhCCCCCCCCcccc
Q psy14787 47 FHVECVDQWLSSNKRCPICRVDI 69 (81)
Q Consensus 47 fh~~Ci~~~~~~~~~CP~Cr~~~ 69 (81)
+|..|...+......|+.|..++
T Consensus 22 lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 22 ICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred ccHHHHhhCCcccCcCccCCCcC
Confidence 56666655532234577776543
No 215
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=35.79 E-value=14 Score=22.52 Aligned_cols=28 Identities=21% Similarity=0.426 Sum_probs=18.9
Q ss_pred cccccccccccccccCcCCCCcccCCCC
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMH 45 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h 45 (81)
.|..|-..+...++.......+...|||
T Consensus 14 hCnFC~TiLaVsVP~ssL~~~VTVRCGH 41 (170)
T PF04690_consen 14 HCNFCNTILAVSVPCSSLLKTVTVRCGH 41 (170)
T ss_pred EcCCcCeEEEEecchhhhhhhhceeccC
Confidence 4777877777766555555566667777
No 216
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=35.38 E-value=21 Score=27.24 Aligned_cols=26 Identities=35% Similarity=0.940 Sum_probs=21.7
Q ss_pred ccchhhHHhhh--cCCcccccccccccc
Q psy14787 3 LFHVECVDQWL--SSNKRCPICRVDIET 28 (81)
Q Consensus 3 ~~~~~~~~~~~--~~~~~C~iC~~~~~~ 28 (81)
|.|++|+-+|+ +.+..|-||.-.++-
T Consensus 40 YiH~eCL~eW~~~s~~~kCdiChy~~~F 67 (1175)
T COG5183 40 YIHRECLMEWMECSGTKKCDICHYEYKF 67 (1175)
T ss_pred HHHHHHHHHHHhcCCCcceeeecceeee
Confidence 67999999999 456779999988764
No 217
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.17 E-value=22 Score=19.51 Aligned_cols=12 Identities=25% Similarity=0.797 Sum_probs=10.2
Q ss_pred cccHhhHHHHHh
Q psy14787 46 LFHVECVDQWLS 57 (81)
Q Consensus 46 ~fh~~Ci~~~~~ 57 (81)
-||..|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 389999999974
No 218
>PF12773 DZR: Double zinc ribbon
Probab=34.97 E-value=45 Score=15.33 Aligned_cols=10 Identities=40% Similarity=0.919 Sum_probs=6.0
Q ss_pred CCCCCCcccc
Q psy14787 60 KRCPICRVDI 69 (81)
Q Consensus 60 ~~CP~Cr~~~ 69 (81)
..||.|...+
T Consensus 30 ~~C~~Cg~~~ 39 (50)
T PF12773_consen 30 KICPNCGAEN 39 (50)
T ss_pred CCCcCCcCCC
Confidence 3477776654
No 219
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=34.80 E-value=19 Score=18.10 Aligned_cols=14 Identities=21% Similarity=0.698 Sum_probs=9.9
Q ss_pred CCCCCccccccccc
Q psy14787 61 RCPICRVDIETHLN 74 (81)
Q Consensus 61 ~CP~Cr~~~~~~~~ 74 (81)
.||.|+.++.....
T Consensus 10 aCP~~kg~L~~~~~ 23 (60)
T COG2835 10 ACPVCKGPLVYDEE 23 (60)
T ss_pred eccCcCCcceEecc
Confidence 49999888765443
No 220
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=34.56 E-value=6.9 Score=18.85 Aligned_cols=38 Identities=24% Similarity=0.444 Sum_probs=17.0
Q ss_pred ccccc--cccccccccccCcCCCCcccCCCCcccHhhHHHH
Q psy14787 17 KRCPI--CRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQW 55 (81)
Q Consensus 17 ~~C~i--C~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~ 55 (81)
..|+- |...+......... .+....|++.|+..|...|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~-~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSP-IVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS---CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCC-eeECCCCCCcCccccCccc
Confidence 35876 87766542111100 1233348888888887665
No 221
>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=34.42 E-value=32 Score=20.01 Aligned_cols=13 Identities=8% Similarity=0.082 Sum_probs=9.8
Q ss_pred CCCCCCccccccc
Q psy14787 60 KRCPICRVDIETH 72 (81)
Q Consensus 60 ~~CP~Cr~~~~~~ 72 (81)
..||.|...+...
T Consensus 27 ~vcP~cg~~~~~~ 39 (129)
T TIGR02300 27 AVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCCccCcc
Confidence 3599998887654
No 222
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=33.59 E-value=21 Score=15.58 Aligned_cols=11 Identities=27% Similarity=1.026 Sum_probs=6.0
Q ss_pred ccccccccccc
Q psy14787 18 RCPICRVDIET 28 (81)
Q Consensus 18 ~C~iC~~~~~~ 28 (81)
.|+-|...+..
T Consensus 4 ~CP~C~~~~~v 14 (38)
T TIGR02098 4 QCPNCKTSFRV 14 (38)
T ss_pred ECCCCCCEEEe
Confidence 46666665543
No 223
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=33.37 E-value=43 Score=22.66 Aligned_cols=52 Identities=13% Similarity=0.209 Sum_probs=30.3
Q ss_pred CccccccccccccccccCcCC-----CCcccCCCCcccHhhHHHHHhCCCCCCCCcc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQ-----PTWRLPCMHLFHVECVDQWLSSNKRCPICRV 67 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~-----~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~ 67 (81)
...|-.|+..|.........+ ....-.|...||.+|-.-.-..-..|+.|..
T Consensus 362 s~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~ 418 (421)
T COG5151 362 STHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred CccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 345889998876533222222 1222348888999986543333345888853
No 224
>KOG2979|consensus
Probab=33.01 E-value=35 Score=22.23 Aligned_cols=28 Identities=25% Similarity=0.562 Sum_probs=20.8
Q ss_pred CcccCCCCcccHhhHHHHHhCC--CCCCCC
Q psy14787 38 TWRLPCMHLFHVECVDQWLSSN--KRCPIC 65 (81)
Q Consensus 38 ~~~~~C~h~fh~~Ci~~~~~~~--~~CP~C 65 (81)
.....|||+|=.+-+...+... -.||+-
T Consensus 190 viSkkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 190 VISKKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred hhhcCcCcchhhhhHHHHhccCceeecccc
Confidence 3445699999999999987653 348873
No 225
>KOG2113|consensus
Probab=32.72 E-value=29 Score=23.47 Aligned_cols=30 Identities=10% Similarity=-0.122 Sum_probs=21.0
Q ss_pred CcccCCCCc-ccHhhHHHHHhCCCCCCCCcccc
Q psy14787 38 TWRLPCMHL-FHVECVDQWLSSNKRCPICRVDI 69 (81)
Q Consensus 38 ~~~~~C~h~-fh~~Ci~~~~~~~~~CP~Cr~~~ 69 (81)
....+|+|. |+..|.. +.....||.|....
T Consensus 356 t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 356 TIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred eEeecCCcccChhhhhh--cccCCccccccccc
Confidence 345579875 7777776 45566799997654
No 226
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=32.53 E-value=22 Score=24.88 Aligned_cols=14 Identities=29% Similarity=0.703 Sum_probs=11.8
Q ss_pred CCCCcccHhhHHHH
Q psy14787 42 PCMHLFHVECVDQW 55 (81)
Q Consensus 42 ~C~h~fh~~Ci~~~ 55 (81)
.|||.-|..|..+-
T Consensus 151 ~CgH~cH~dCALr~ 164 (446)
T PF07227_consen 151 VCGHWCHLDCALRH 164 (446)
T ss_pred CCCceehhhhhccc
Confidence 49999999998664
No 227
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=32.14 E-value=24 Score=15.83 Aligned_cols=11 Identities=36% Similarity=1.183 Sum_probs=7.4
Q ss_pred CCCCCcccccc
Q psy14787 61 RCPICRVDIET 71 (81)
Q Consensus 61 ~CP~Cr~~~~~ 71 (81)
.||.|+..+..
T Consensus 1 ~CP~C~~~l~~ 11 (41)
T PF13453_consen 1 KCPRCGTELEP 11 (41)
T ss_pred CcCCCCcccce
Confidence 38888776553
No 228
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=31.11 E-value=28 Score=15.98 Aligned_cols=16 Identities=31% Similarity=0.563 Sum_probs=10.3
Q ss_pred CCCCCCcccccccccc
Q psy14787 60 KRCPICRVDIETHLNK 75 (81)
Q Consensus 60 ~~CP~Cr~~~~~~~~~ 75 (81)
..||.|...+......
T Consensus 22 ~~Cp~CG~~~~~~~~~ 37 (46)
T PRK00398 22 VRCPYCGYRILFKERP 37 (46)
T ss_pred eECCCCCCeEEEccCC
Confidence 3589888877654433
No 229
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=30.87 E-value=23 Score=12.95 Aligned_cols=11 Identities=36% Similarity=1.114 Sum_probs=5.8
Q ss_pred CCCCCcccccc
Q psy14787 61 RCPICRVDIET 71 (81)
Q Consensus 61 ~CP~Cr~~~~~ 71 (81)
.|+.|...+..
T Consensus 2 ~C~~C~~~~~~ 12 (24)
T PF13894_consen 2 QCPICGKSFRS 12 (24)
T ss_dssp E-SSTS-EESS
T ss_pred CCcCCCCcCCc
Confidence 37888776654
No 230
>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=30.16 E-value=49 Score=17.81 Aligned_cols=20 Identities=25% Similarity=0.509 Sum_probs=15.8
Q ss_pred HHHHHhCCCCCCCCcccccc
Q psy14787 52 VDQWLSSNKRCPICRVDIET 71 (81)
Q Consensus 52 i~~~~~~~~~CP~Cr~~~~~ 71 (81)
+..|+..++.|..|++++..
T Consensus 51 i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 51 ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred HHHHHHhCCCCcccCCCCCh
Confidence 55677788899999988753
No 231
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.02 E-value=47 Score=17.43 Aligned_cols=26 Identities=23% Similarity=0.602 Sum_probs=19.6
Q ss_pred CCcccHhhHHHHHhCCCCCCCCcccccc
Q psy14787 44 MHLFHVECVDQWLSSNKRCPICRVDIET 71 (81)
Q Consensus 44 ~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~ 71 (81)
.+.|+..|...-+ ...||-|...+..
T Consensus 28 EcTFCadCae~~l--~g~CPnCGGelv~ 53 (84)
T COG3813 28 ECTFCADCAENRL--HGLCPNCGGELVA 53 (84)
T ss_pred eeehhHhHHHHhh--cCcCCCCCchhhc
Confidence 4789999998643 5679999876643
No 232
>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=29.73 E-value=36 Score=16.96 Aligned_cols=14 Identities=36% Similarity=0.935 Sum_probs=8.7
Q ss_pred CCCCCCCccccccc
Q psy14787 59 NKRCPICRVDIETH 72 (81)
Q Consensus 59 ~~~CP~Cr~~~~~~ 72 (81)
.+.||.|..++..+
T Consensus 3 HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 3 HKHCPVCGKPIPPD 16 (59)
T ss_pred CCcCCcCCCcCCcc
Confidence 34577777766543
No 233
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=29.60 E-value=24 Score=17.48 Aligned_cols=11 Identities=45% Similarity=1.123 Sum_probs=4.9
Q ss_pred CCCCCcccccc
Q psy14787 61 RCPICRVDIET 71 (81)
Q Consensus 61 ~CP~Cr~~~~~ 71 (81)
.||.|++.+..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 48888777654
No 234
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=29.48 E-value=34 Score=15.31 Aligned_cols=13 Identities=23% Similarity=0.621 Sum_probs=8.3
Q ss_pred CCCCCcccccccc
Q psy14787 61 RCPICRVDIETHL 73 (81)
Q Consensus 61 ~CP~Cr~~~~~~~ 73 (81)
.||.|...+....
T Consensus 3 ~CP~Cg~~lv~r~ 15 (39)
T PF01396_consen 3 KCPKCGGPLVLRR 15 (39)
T ss_pred CCCCCCceeEEEE
Confidence 5788876665443
No 235
>KOG1842|consensus
Probab=29.26 E-value=16 Score=25.64 Aligned_cols=43 Identities=19% Similarity=0.377 Sum_probs=25.7
Q ss_pred hHHhhhcC--CccccccccccccccccCcCCCCcccCCCCcccHhhHHHH
Q psy14787 8 CVDQWLSS--NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQW 55 (81)
Q Consensus 8 ~~~~~~~~--~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~ 55 (81)
.|.-|+.+ ...||+|.+.|.-. ...--.--||.+.|.+|....
T Consensus 170 svVpW~DDs~V~~CP~Ca~~F~l~-----rRrHHCRLCG~VmC~~C~k~i 214 (505)
T KOG1842|consen 170 SVVPWLDDSSVQFCPECANSFGLT-----RRRHHCRLCGRVMCRDCSKFI 214 (505)
T ss_pred ccccccCCCcccccccccchhhhH-----HHhhhhhhcchHHHHHHHHhc
Confidence 34456644 45699999988540 000001129999999997643
No 236
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=28.88 E-value=38 Score=17.11 Aligned_cols=11 Identities=36% Similarity=0.966 Sum_probs=7.7
Q ss_pred CCCCCCccccc
Q psy14787 60 KRCPICRVDIE 70 (81)
Q Consensus 60 ~~CP~Cr~~~~ 70 (81)
..||.|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 35888887754
No 237
>PLN02248 cellulose synthase-like protein
Probab=28.71 E-value=82 Score=24.95 Aligned_cols=29 Identities=21% Similarity=0.435 Sum_probs=24.9
Q ss_pred CCCcccHhhHHHHHhCCCCCCCCcccccc
Q psy14787 43 CMHLFHVECVDQWLSSNKRCPICRVDIET 71 (81)
Q Consensus 43 C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~ 71 (81)
|+...|.+|...-+..+..||-|+.+...
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 150 CGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred ccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 67788999999988888899999988753
No 238
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=28.66 E-value=40 Score=18.77 Aligned_cols=33 Identities=24% Similarity=0.329 Sum_probs=21.8
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHH
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWL 56 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~ 56 (81)
..|.||.+.+-. +. .....-+-..|..|+..-.
T Consensus 3 WkC~iCg~~I~~------gq-lFTF~~kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYE------GQ-LFTFTKKGPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeee------cc-eEEEecCCcEeHHHHHHHH
Confidence 469999987754 23 2333344678999998754
No 239
>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=28.54 E-value=9.2 Score=24.80 Aligned_cols=49 Identities=18% Similarity=0.375 Sum_probs=19.3
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVD 68 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~ 68 (81)
...||+|...-....-..... . .=.+.+|..|-..|......||.|...
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~---~-G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGER---E-GKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEEEE----------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcCceEEEecCCC---C-ccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 467999987532211000000 0 114567778889998777789999664
No 240
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=28.47 E-value=25 Score=14.10 Aligned_cols=11 Identities=36% Similarity=1.005 Sum_probs=7.7
Q ss_pred CCCCCcccccc
Q psy14787 61 RCPICRVDIET 71 (81)
Q Consensus 61 ~CP~Cr~~~~~ 71 (81)
.||.|...+..
T Consensus 4 ~C~~CgR~F~~ 14 (25)
T PF13913_consen 4 PCPICGRKFNP 14 (25)
T ss_pred cCCCCCCEECH
Confidence 48888777643
No 241
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=28.18 E-value=26 Score=21.83 Aligned_cols=16 Identities=25% Similarity=0.692 Sum_probs=11.5
Q ss_pred CCCCCCCccccccccc
Q psy14787 59 NKRCPICRVDIETHLN 74 (81)
Q Consensus 59 ~~~CP~Cr~~~~~~~~ 74 (81)
.-+||+|...+.....
T Consensus 5 ~~~CPvC~~~F~~~~v 20 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKV 20 (214)
T ss_pred ceECCCCCCeeeeeEE
Confidence 4469999988876533
No 242
>KOG1074|consensus
Probab=27.48 E-value=20 Score=27.29 Aligned_cols=20 Identities=15% Similarity=0.333 Sum_probs=14.2
Q ss_pred HHhhhcCCcccccccccccc
Q psy14787 9 VDQWLSSNKRCPICRVDIET 28 (81)
Q Consensus 9 ~~~~~~~~~~C~iC~~~~~~ 28 (81)
+++...+...|.||+.+++-
T Consensus 598 ~~~~~TdPNqCiiC~rVlSC 617 (958)
T KOG1074|consen 598 SENKRTDPNQCIICLRVLSC 617 (958)
T ss_pred cccccCCccceeeeeecccc
Confidence 34455667789999998853
No 243
>KOG4021|consensus
Probab=26.89 E-value=37 Score=21.32 Aligned_cols=22 Identities=27% Similarity=0.601 Sum_probs=13.8
Q ss_pred HhhHHHHHh-CCCCCCCCccccc
Q psy14787 49 VECVDQWLS-SNKRCPICRVDIE 70 (81)
Q Consensus 49 ~~Ci~~~~~-~~~~CP~Cr~~~~ 70 (81)
..||.+-.. .++.||+||-...
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL 119 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYL 119 (239)
T ss_pred hHHHhhcCeecCCCCCccccceE
Confidence 356665432 3556999987654
No 244
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=26.71 E-value=40 Score=15.70 Aligned_cols=12 Identities=33% Similarity=0.905 Sum_probs=8.6
Q ss_pred CCCCCCCccccc
Q psy14787 59 NKRCPICRVDIE 70 (81)
Q Consensus 59 ~~~CP~Cr~~~~ 70 (81)
.+.||+|..++.
T Consensus 8 ~K~C~~C~rpf~ 19 (42)
T PF10013_consen 8 SKICPVCGRPFT 19 (42)
T ss_pred CCcCcccCCcch
Confidence 356999987764
No 245
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=25.84 E-value=53 Score=20.10 Aligned_cols=24 Identities=25% Similarity=0.447 Sum_probs=16.7
Q ss_pred HHHHHhCCCCCCCCcccccccccc
Q psy14787 52 VDQWLSSNKRCPICRVDIETHLNK 75 (81)
Q Consensus 52 i~~~~~~~~~CP~Cr~~~~~~~~~ 75 (81)
.......+++||.|...+.....+
T Consensus 125 fdeA~~~~F~Cp~Cg~~L~~~d~s 148 (176)
T COG1675 125 FDEAMELGFTCPKCGEDLEEYDSS 148 (176)
T ss_pred HHHHHHhCCCCCCCCchhhhccch
Confidence 334445568899999988765544
No 246
>PRK04023 DNA polymerase II large subunit; Validated
Probab=25.73 E-value=62 Score=25.39 Aligned_cols=46 Identities=15% Similarity=0.275 Sum_probs=26.9
Q ss_pred CccccccccccccccccCcCCCCcccCCCC-----cccHhhHHHHHhCCCCCCCCccccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMH-----LFHVECVDQWLSSNKRCPICRVDIETH 72 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h-----~fh~~Ci~~~~~~~~~CP~Cr~~~~~~ 72 (81)
...|+-|...... .....||. .||..|-. ......||.|.......
T Consensus 626 ~RfCpsCG~~t~~---------frCP~CG~~Te~i~fCP~CG~--~~~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 626 RRKCPSCGKETFY---------RRCPFCGTHTEPVYRCPRCGI--EVEEDECEKCGREPTPY 676 (1121)
T ss_pred CccCCCCCCcCCc---------ccCCCCCCCCCcceeCccccC--cCCCCcCCCCCCCCCcc
Confidence 4568888665321 23344764 37778832 23345699998876544
No 247
>KOG0956|consensus
Probab=25.30 E-value=45 Score=25.04 Aligned_cols=51 Identities=25% Similarity=0.502 Sum_probs=29.9
Q ss_pred CccccccccccccccccCcCCCCccc-----CCCCcccHhhHHHHH---h-------CCCCCCCCccccc
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRL-----PCMHLFHVECVDQWL---S-------SNKRCPICRVDIE 70 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~-----~C~h~fh~~Ci~~~~---~-------~~~~CP~Cr~~~~ 70 (81)
...|.||.|.=.+.+. ..-..+ .|+..||..|.+..- + +-+-|-.|+.-+.
T Consensus 117 nKtCYIC~E~GrpnkA----~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hfs 182 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKA----AKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFS 182 (900)
T ss_pred cceeeeecccCCcccc----ccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHHH
Confidence 4569999886433211 111222 378889999998752 1 1134888876554
No 248
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.07 E-value=60 Score=17.97 Aligned_cols=35 Identities=20% Similarity=0.189 Sum_probs=23.5
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHh
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLS 57 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~ 57 (81)
...|.+|.+.+.. +..-.-.+ ....|.+|+.+-..
T Consensus 6 ewkC~VCg~~iie------GqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIE------GQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeee------ccEEEEee-CCcchHHHHHHHHh
Confidence 3569999888765 44333344 56689999977543
No 249
>KOG1818|consensus
Probab=24.32 E-value=24 Score=25.84 Aligned_cols=46 Identities=22% Similarity=0.502 Sum_probs=29.1
Q ss_pred chhhHHhhhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHH
Q psy14787 5 HVECVDQWLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWL 56 (81)
Q Consensus 5 ~~~~~~~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~ 56 (81)
+.+.-.+|.. ...|-.|...|... ...--...||.+||..|...-+
T Consensus 155 ~~~~~pdW~D-~~~C~rCr~~F~~~-----~rkHHCr~CG~vFC~qcss~s~ 200 (634)
T KOG1818|consen 155 DAETAPDWID-SEECLRCRVKFGLT-----NRKHHCRNCGQVFCGQCSSKSL 200 (634)
T ss_pred cccCCccccc-ccccceeeeeeeec-----cccccccccchhhccCcccccc
Confidence 3344445554 35799999888641 1112345599999999987654
No 250
>PF05810 NinF: NinF protein; InterPro: IPR008712 This family consists of several bacteriophage NinF proteins as well as related sequences from Escherichia coli.
Probab=24.20 E-value=67 Score=15.93 Aligned_cols=11 Identities=36% Similarity=0.927 Sum_probs=8.6
Q ss_pred ccHhhHHHHHh
Q psy14787 47 FHVECVDQWLS 57 (81)
Q Consensus 47 fh~~Ci~~~~~ 57 (81)
.|..|+..|+.
T Consensus 34 ~Ce~C~~E~l~ 44 (58)
T PF05810_consen 34 VCEECCAEWLV 44 (58)
T ss_pred HHHHHHHHHHh
Confidence 46789999875
No 251
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=23.98 E-value=29 Score=15.38 Aligned_cols=27 Identities=19% Similarity=0.500 Sum_probs=14.8
Q ss_pred CCCCcccHhhHHHHHhCCCCCCCCccccc
Q psy14787 42 PCMHLFHVECVDQWLSSNKRCPICRVDIE 70 (81)
Q Consensus 42 ~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~ 70 (81)
.||.+||..-... .....|..|...+.
T Consensus 6 ~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 6 KCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp TTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred CCCCccccccCCC--CCCCccCCCCCeeE
Confidence 4777777532221 23345888876554
No 252
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=23.93 E-value=44 Score=15.01 Aligned_cols=36 Identities=25% Similarity=0.362 Sum_probs=21.6
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHH
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQ 54 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~ 54 (81)
....|.+|.+.+... .........|+-..|..|...
T Consensus 10 ~~~~C~~C~~~i~~~----~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 10 KPTFCDVCRKSIWGL----FKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCCChhhcchhhhcc----ccceeEcCCCCCchhhhhhcc
Confidence 355688888876431 012223345788888888754
No 253
>KOG4443|consensus
Probab=23.84 E-value=45 Score=24.70 Aligned_cols=27 Identities=41% Similarity=0.956 Sum_probs=20.4
Q ss_pred cCCCCcccHhhHHHHHhC-----CCCCCCCcc
Q psy14787 41 LPCMHLFHVECVDQWLSS-----NKRCPICRV 67 (81)
Q Consensus 41 ~~C~h~fh~~Ci~~~~~~-----~~~CP~Cr~ 67 (81)
-.|+-.||..|+..|+.. ...||-|+.
T Consensus 39 ~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 39 SDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 348899999999999743 345887764
No 254
>PF15616 TerY-C: TerY-C metal binding domain
Probab=23.48 E-value=24 Score=20.56 Aligned_cols=49 Identities=22% Similarity=0.378 Sum_probs=29.6
Q ss_pred hhhcCCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCccccccccc
Q psy14787 11 QWLSSNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDIETHLN 74 (81)
Q Consensus 11 ~~~~~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~~~~~~ 74 (81)
+.+.+...||-|...+.- +.-.|+.++|. .. ....+||-|.........
T Consensus 72 seL~g~PgCP~CGn~~~f----------a~C~CGkl~Ci---~g--~~~~~CPwCg~~g~~~~~ 120 (131)
T PF15616_consen 72 SELIGAPGCPHCGNQYAF----------AVCGCGKLFCI---DG--EGEVTCPWCGNEGSFGAG 120 (131)
T ss_pred HHhcCCCCCCCCcChhcE----------EEecCCCEEEe---CC--CCCEECCCCCCeeeeccc
Confidence 444555678888765422 23368887763 21 223569999887765544
No 255
>KOG2462|consensus
Probab=23.24 E-value=33 Score=22.53 Aligned_cols=30 Identities=27% Similarity=0.586 Sum_probs=16.9
Q ss_pred cCCCCcccHhhH-HHHHhCC----------CCCCCCccccc
Q psy14787 41 LPCMHLFHVECV-DQWLSSN----------KRCPICRVDIE 70 (81)
Q Consensus 41 ~~C~h~fh~~Ci-~~~~~~~----------~~CP~Cr~~~~ 70 (81)
++|...+|.+-. ..|+.++ ..||.|.+.+-
T Consensus 186 l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFA 226 (279)
T KOG2462|consen 186 LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFA 226 (279)
T ss_pred CCcccccccccccchHHhhcccccccCCCCccCCcccchhc
Confidence 455554544433 4676442 24888877654
No 256
>KOG2789|consensus
Probab=23.12 E-value=57 Score=22.83 Aligned_cols=53 Identities=19% Similarity=0.344 Sum_probs=31.4
Q ss_pred ccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhC---------------------C---CCCCCCccccccc
Q psy14787 17 KRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSS---------------------N---KRCPICRVDIETH 72 (81)
Q Consensus 17 ~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~---------------------~---~~CP~Cr~~~~~~ 72 (81)
..|+||+-.+.... -...-|...+|..|+.++..- . -.||.|...+...
T Consensus 75 ~ecpicflyyps~~-------n~~rcC~~~Ic~ecf~~~~~~~~~~pt~~a~v~~~~~f~~~s~p~~~~cp~c~t~~~~v 147 (482)
T KOG2789|consen 75 TECPICFLYYPSAK-------NLVRCCSETICGECFAPFGCYSFEKPTYDATVVKNLIFKRKSAPFYTPCPDCDTSWTRV 147 (482)
T ss_pred ccCceeeeeccccc-------chhhhhccchhhhheecccCCCcccCccccccccccccccccccccccCCccCCcccce
Confidence 47999987763311 111226777777777665321 0 1499998887755
Q ss_pred cccc
Q psy14787 73 LNKD 76 (81)
Q Consensus 73 ~~~~ 76 (81)
....
T Consensus 148 ey~~ 151 (482)
T KOG2789|consen 148 EYIK 151 (482)
T ss_pred eeec
Confidence 5443
No 257
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=22.48 E-value=25 Score=15.91 Aligned_cols=8 Identities=38% Similarity=1.115 Sum_probs=3.0
Q ss_pred Cccccccc
Q psy14787 16 NKRCPICR 23 (81)
Q Consensus 16 ~~~C~iC~ 23 (81)
...|.||.
T Consensus 29 ~~~C~IC~ 36 (41)
T PF02132_consen 29 EDPCEICS 36 (41)
T ss_dssp SSS-HHHH
T ss_pred CCcCcCCC
Confidence 33444443
No 258
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=21.93 E-value=52 Score=13.51 Aligned_cols=11 Identities=45% Similarity=0.966 Sum_probs=4.7
Q ss_pred CCCCCcccccc
Q psy14787 61 RCPICRVDIET 71 (81)
Q Consensus 61 ~CP~Cr~~~~~ 71 (81)
.||.|...+..
T Consensus 3 ~C~rC~~~~~~ 13 (30)
T PF06827_consen 3 KCPRCWNYIED 13 (30)
T ss_dssp B-TTT--BBEE
T ss_pred cCccCCCcceE
Confidence 47777666543
No 259
>KOG3993|consensus
Probab=21.87 E-value=12 Score=26.21 Aligned_cols=40 Identities=25% Similarity=0.565 Sum_probs=22.5
Q ss_pred CCccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCCCCCCcccc
Q psy14787 15 SNKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKRCPICRVDI 69 (81)
Q Consensus 15 ~~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~CP~Cr~~~ 69 (81)
++..|.+|.+.+++ ......-.|..+.|. ...||.|.+.+
T Consensus 266 GdyiCqLCK~kYeD------~F~LAQHrC~RIV~v---------EYrCPEC~KVF 305 (500)
T KOG3993|consen 266 GDYICQLCKEKYED------AFALAQHRCPRIVHV---------EYRCPECDKVF 305 (500)
T ss_pred HHHHHHHHHHhhhh------HHHHhhccCCeeEEe---------eecCCcccccc
Confidence 35668888777765 222222236555543 23588886655
No 260
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=21.62 E-value=31 Score=12.87 Aligned_cols=11 Identities=36% Similarity=1.144 Sum_probs=7.1
Q ss_pred CCCCCcccccc
Q psy14787 61 RCPICRVDIET 71 (81)
Q Consensus 61 ~CP~Cr~~~~~ 71 (81)
.|+.|...+..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 37788766543
No 261
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=21.58 E-value=44 Score=19.83 Aligned_cols=19 Identities=26% Similarity=0.427 Sum_probs=13.7
Q ss_pred hCCCCCCCCcccccccccc
Q psy14787 57 SSNKRCPICRVDIETHLNK 75 (81)
Q Consensus 57 ~~~~~CP~Cr~~~~~~~~~ 75 (81)
..+..||.|...+.....+
T Consensus 126 ~~~F~Cp~Cg~~L~~~dn~ 144 (158)
T TIGR00373 126 ELNFTCPRCGAMLDYLDNS 144 (158)
T ss_pred HcCCcCCCCCCEeeeccCH
Confidence 3577899999988655443
No 262
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=21.43 E-value=47 Score=14.38 Aligned_cols=9 Identities=44% Similarity=1.365 Sum_probs=6.7
Q ss_pred CCCCCCccc
Q psy14787 60 KRCPICRVD 68 (81)
Q Consensus 60 ~~CP~Cr~~ 68 (81)
..||+|...
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 369999764
No 263
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=21.37 E-value=39 Score=18.10 Aligned_cols=21 Identities=29% Similarity=0.656 Sum_probs=14.5
Q ss_pred HHhCCCCCCCCcccccccccc
Q psy14787 55 WLSSNKRCPICRVDIETHLNK 75 (81)
Q Consensus 55 ~~~~~~~CP~Cr~~~~~~~~~ 75 (81)
+++....|+.|..++....+.
T Consensus 4 ~Lk~~~~C~~CG~d~~~~~ad 24 (86)
T PF06170_consen 4 YLKVAPRCPHCGLDYSHARAD 24 (86)
T ss_pred cccCCCcccccCCccccCCcC
Confidence 455667899998887655443
No 264
>KOG1729|consensus
Probab=21.13 E-value=20 Score=23.66 Aligned_cols=36 Identities=28% Similarity=0.596 Sum_probs=23.7
Q ss_pred cccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCC
Q psy14787 18 RCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSN 59 (81)
Q Consensus 18 ~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~ 59 (81)
.|.+|++.+.. +.......|...++..|+..|+...
T Consensus 216 vC~~CF~el~~------~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 216 VCDICFEELEK------GARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ecHHHHHHHhc------ccccchhhccccccccccccccccc
Confidence 68899888864 2222333344588888988887543
No 265
>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=21.06 E-value=36 Score=14.17 Aligned_cols=11 Identities=36% Similarity=0.987 Sum_probs=6.9
Q ss_pred ccccccccccc
Q psy14787 18 RCPICRVDIET 28 (81)
Q Consensus 18 ~C~iC~~~~~~ 28 (81)
.|.+|.+.+..
T Consensus 2 ~C~~C~~~~~~ 12 (30)
T PF03107_consen 2 WCDVCRRKIDG 12 (30)
T ss_pred CCCCCCCCcCC
Confidence 47777766543
No 266
>KOG4218|consensus
Probab=20.83 E-value=81 Score=21.75 Aligned_cols=12 Identities=25% Similarity=0.916 Sum_probs=9.4
Q ss_pred Cccccccccccc
Q psy14787 16 NKRCPICRVDIE 27 (81)
Q Consensus 16 ~~~C~iC~~~~~ 27 (81)
+..||+|.+.++
T Consensus 15 ~ElCPVCGDkVS 26 (475)
T KOG4218|consen 15 GELCPVCGDKVS 26 (475)
T ss_pred ccccccccCccc
Confidence 557999988765
No 267
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.51 E-value=38 Score=19.86 Aligned_cols=17 Identities=29% Similarity=0.557 Sum_probs=11.1
Q ss_pred CcccCCCCcccHhhHHHH
Q psy14787 38 TWRLPCMHLFHVECVDQW 55 (81)
Q Consensus 38 ~~~~~C~h~fh~~Ci~~~ 55 (81)
+.+-.|||+|+.. -..|
T Consensus 70 v~rcecghsf~d~-r~nw 86 (165)
T COG4647 70 VIRCECGHSFGDY-RENW 86 (165)
T ss_pred EEEEeccccccCh-hhCc
Confidence 5556699999863 3344
No 268
>PRK00420 hypothetical protein; Validated
Probab=20.43 E-value=1.2e+02 Score=17.13 Aligned_cols=10 Identities=20% Similarity=0.331 Sum_probs=6.7
Q ss_pred CCCCCccccc
Q psy14787 61 RCPICRVDIE 70 (81)
Q Consensus 61 ~CP~Cr~~~~ 70 (81)
.||.|...+.
T Consensus 42 ~Cp~Cg~~~~ 51 (112)
T PRK00420 42 VCPVHGKVYI 51 (112)
T ss_pred ECCCCCCeee
Confidence 4888877554
No 269
>PRK01343 zinc-binding protein; Provisional
Probab=20.41 E-value=1.3e+02 Score=14.92 Aligned_cols=37 Identities=19% Similarity=0.321 Sum_probs=19.9
Q ss_pred CccccccccccccccccCcCCCCcccCCCCcccHhhHHHHHhCCCC
Q psy14787 16 NKRCPICRVDIETHLNKDLLQPTWRLPCMHLFHVECVDQWLSSNKR 61 (81)
Q Consensus 16 ~~~C~iC~~~~~~~~~~~~~~~~~~~~C~h~fh~~Ci~~~~~~~~~ 61 (81)
...|+||...+.. ..+.-|+..--.-=+.+|+.....
T Consensus 9 ~~~CP~C~k~~~~---------~~rPFCS~RC~~iDLg~W~~e~Y~ 45 (57)
T PRK01343 9 TRPCPECGKPSTR---------EAYPFCSERCRDIDLNRWLSGSYV 45 (57)
T ss_pred CCcCCCCCCcCcC---------CCCcccCHHHhhhhHHHHhCCCcc
Confidence 4569999987643 222224432222236678765544
No 270
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.20 E-value=45 Score=17.82 Aligned_cols=11 Identities=36% Similarity=0.616 Sum_probs=8.7
Q ss_pred CCCCCcccccc
Q psy14787 61 RCPICRVDIET 71 (81)
Q Consensus 61 ~CP~Cr~~~~~ 71 (81)
.||.||..|..
T Consensus 23 ~CPrCrGVWLD 33 (88)
T COG3809 23 YCPRCRGVWLD 33 (88)
T ss_pred eCCccccEeec
Confidence 49999988764
No 271
>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=20.14 E-value=37 Score=20.19 Aligned_cols=9 Identities=33% Similarity=1.065 Sum_probs=6.7
Q ss_pred CCCCCcccc
Q psy14787 61 RCPICRVDI 69 (81)
Q Consensus 61 ~CP~Cr~~~ 69 (81)
+||+|...-
T Consensus 34 ~CP~Cgs~~ 42 (148)
T PF06676_consen 34 SCPVCGSTE 42 (148)
T ss_pred cCCCCCCCe
Confidence 599997643
Done!