Query psy11807
Match_columns 88
No_of_seqs 173 out of 1035
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 19:31:15 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11807.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11807hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1734|consensus 100.0 2.6E-32 5.6E-37 209.8 2.1 84 5-88 245-328 (328)
2 PF13639 zf-RING_2: Ring finge 99.4 2.6E-14 5.7E-19 81.2 -0.3 34 2-37 11-44 (44)
3 PF12678 zf-rbx1: RING-H2 zinc 99.2 3.5E-12 7.5E-17 80.2 2.6 31 5-37 43-73 (73)
4 PF12861 zf-Apc11: Anaphase-pr 99.2 7.9E-12 1.7E-16 81.9 3.0 38 6-43 46-84 (85)
5 KOG4628|consensus 99.2 1.1E-11 2.4E-16 97.8 3.3 42 2-44 240-281 (348)
6 COG5243 HRD1 HRD ubiquitin lig 99.1 3E-11 6.5E-16 97.2 2.7 37 4-42 310-346 (491)
7 PHA02929 N1R/p28-like protein; 98.9 5.6E-10 1.2E-14 84.3 2.9 32 8-41 196-227 (238)
8 cd00162 RING RING-finger (Real 98.9 1.5E-09 3.2E-14 58.9 3.4 35 5-40 11-45 (45)
9 COG5540 RING-finger-containing 98.9 1.5E-09 3.2E-14 85.6 3.1 39 3-42 335-373 (374)
10 smart00184 RING Ring finger. E 98.8 3.1E-09 6.8E-14 55.7 2.9 34 2-36 6-39 (39)
11 COG5194 APC11 Component of SCF 98.8 1.9E-09 4.2E-14 70.6 2.3 37 6-44 48-84 (88)
12 KOG0317|consensus 98.8 2.7E-09 5.9E-14 82.7 2.5 43 1-45 246-288 (293)
13 PF13920 zf-C3HC4_3: Zinc fing 98.8 3.6E-09 7.8E-14 61.4 2.1 38 2-41 10-48 (50)
14 KOG0802|consensus 98.8 1.9E-09 4.1E-14 88.0 1.2 32 7-40 309-340 (543)
15 KOG1493|consensus 98.7 1.4E-09 3E-14 70.8 -0.3 37 7-43 46-83 (84)
16 PLN03208 E3 ubiquitin-protein 98.7 2.2E-08 4.7E-13 74.0 3.7 39 5-43 29-81 (193)
17 PF13923 zf-C3HC4_2: Zinc fing 98.6 2.4E-08 5.2E-13 55.4 1.7 29 6-36 11-39 (39)
18 smart00504 Ubox Modified RING 98.6 4.3E-08 9.4E-13 58.1 2.7 40 7-48 14-53 (63)
19 PF00097 zf-C3HC4: Zinc finger 98.6 4.9E-08 1.1E-12 54.0 2.5 30 7-36 12-41 (41)
20 PF14634 zf-RING_5: zinc-RING 98.5 1.3E-07 2.8E-12 53.9 2.7 34 3-38 11-44 (44)
21 PF15227 zf-C3HC4_4: zinc fing 98.4 2.1E-07 4.6E-12 53.0 2.7 32 5-36 9-42 (42)
22 smart00744 RINGv The RING-vari 98.4 2.8E-07 6.1E-12 54.2 2.7 35 3-37 10-49 (49)
23 KOG2930|consensus 98.4 1.6E-07 3.4E-12 64.2 1.8 36 7-44 76-111 (114)
24 KOG0320|consensus 98.2 5.2E-07 1.1E-11 66.4 1.7 37 8-46 147-183 (187)
25 KOG0823|consensus 98.2 9.5E-07 2.1E-11 66.8 3.1 42 2-43 55-97 (230)
26 TIGR00599 rad18 DNA repair pro 98.2 9.6E-07 2.1E-11 71.0 2.9 40 7-48 39-78 (397)
27 PHA02926 zinc finger-like prot 98.1 1.3E-06 2.8E-11 66.4 2.2 34 8-41 193-230 (242)
28 PF11793 FANCL_C: FANCL C-term 98.0 1.2E-06 2.7E-11 54.7 -0.1 33 11-43 27-68 (70)
29 KOG0828|consensus 98.0 2.5E-06 5.5E-11 71.0 1.0 34 7-41 601-634 (636)
30 PF04564 U-box: U-box domain; 97.9 7.8E-06 1.7E-10 50.9 2.9 42 6-48 16-57 (73)
31 COG5574 PEX10 RING-finger-cont 97.9 6.7E-06 1.5E-10 63.5 2.1 44 1-45 222-266 (271)
32 TIGR00570 cdk7 CDK-activating 97.9 1.3E-05 2.8E-10 62.9 3.7 70 11-81 25-113 (309)
33 KOG1941|consensus 97.8 5.5E-06 1.2E-10 67.6 0.9 37 3-39 378-414 (518)
34 PF13445 zf-RING_UBOX: RING-ty 97.8 1.6E-05 3.6E-10 45.8 2.2 32 3-34 10-43 (43)
35 KOG0827|consensus 97.7 1.3E-05 2.7E-10 65.2 1.8 39 3-41 16-56 (465)
36 COG5219 Uncharacterized conser 97.7 1.5E-05 3.3E-10 70.6 2.2 31 11-41 1493-1523(1525)
37 KOG1645|consensus 97.7 2.1E-05 4.6E-10 64.1 1.9 45 1-45 16-60 (463)
38 COG5432 RAD18 RING-finger-cont 97.5 5.9E-05 1.3E-09 59.8 2.4 36 7-44 38-73 (391)
39 KOG0287|consensus 97.4 8.5E-05 1.9E-09 59.8 2.0 39 8-48 37-75 (442)
40 KOG0804|consensus 97.4 8.3E-05 1.8E-09 61.2 1.9 32 6-41 191-222 (493)
41 KOG2164|consensus 97.3 0.00017 3.7E-09 59.8 2.7 47 7-53 199-248 (513)
42 PHA02862 5L protein; Provision 97.0 0.00039 8.5E-09 50.0 2.0 33 14-46 26-58 (156)
43 KOG1785|consensus 96.9 0.00041 8.8E-09 57.1 1.7 40 2-41 377-416 (563)
44 PHA02825 LAP/PHD finger-like p 96.8 0.001 2.2E-08 48.3 3.0 33 15-47 33-65 (162)
45 PF14835 zf-RING_6: zf-RING of 96.8 0.00027 5.9E-09 44.4 0.0 40 5-48 19-58 (65)
46 KOG0824|consensus 96.8 0.00047 1E-08 54.4 1.2 37 6-43 19-55 (324)
47 KOG0825|consensus 96.8 0.00054 1.2E-08 60.0 1.5 33 7-41 139-171 (1134)
48 KOG0978|consensus 96.7 0.00063 1.4E-08 58.3 1.3 37 8-45 657-693 (698)
49 KOG2177|consensus 96.7 0.00082 1.8E-08 46.6 1.6 29 8-38 27-55 (386)
50 PF11789 zf-Nse: Zinc-finger o 96.6 0.00079 1.7E-08 40.7 0.8 31 5-35 23-53 (57)
51 PF12906 RINGv: RING-variant d 96.1 0.002 4.3E-08 37.4 0.4 29 8-36 14-47 (47)
52 PF14447 Prok-RING_4: Prokaryo 96.0 0.0034 7.4E-08 38.3 1.2 38 4-45 17-54 (55)
53 KOG0311|consensus 95.8 0.0021 4.5E-08 51.7 -0.2 34 10-44 60-93 (381)
54 KOG4739|consensus 95.7 0.0048 1E-07 47.0 1.3 41 4-48 15-55 (233)
55 KOG4159|consensus 95.7 0.0076 1.7E-07 48.8 2.4 34 6-41 96-129 (398)
56 KOG1039|consensus 95.5 0.0069 1.5E-07 48.2 1.5 32 10-41 185-221 (344)
57 KOG3268|consensus 95.5 0.0086 1.9E-07 44.9 1.9 35 9-43 187-230 (234)
58 KOG1428|consensus 95.4 0.012 2.6E-07 55.3 2.8 37 5-41 3500-3544(3738)
59 KOG0297|consensus 95.3 0.008 1.7E-07 48.0 1.4 34 10-45 38-71 (391)
60 KOG2114|consensus 95.1 0.0099 2.2E-07 52.3 1.3 30 6-40 853-882 (933)
61 KOG4265|consensus 95.0 0.015 3.3E-07 46.5 2.2 40 1-42 297-337 (349)
62 KOG0827|consensus 94.8 0.0028 6E-08 51.8 -2.6 37 5-43 211-247 (465)
63 KOG4172|consensus 93.3 0.025 5.5E-07 35.0 0.1 32 9-41 22-54 (62)
64 KOG4185|consensus 93.2 0.069 1.5E-06 40.1 2.4 38 3-41 18-55 (296)
65 KOG3970|consensus 93.1 0.07 1.5E-06 41.4 2.2 36 6-41 64-105 (299)
66 KOG4445|consensus 93.0 0.028 6E-07 44.9 0.0 41 3-43 127-188 (368)
67 PF04641 Rtf2: Rtf2 RING-finge 92.7 0.12 2.5E-06 39.0 3.0 48 1-51 123-172 (260)
68 KOG1002|consensus 92.3 0.047 1E-06 46.7 0.5 39 4-42 546-587 (791)
69 COG5183 SSM4 Protein involved 92.0 0.18 4E-06 44.9 3.7 72 15-86 40-121 (1175)
70 KOG1571|consensus 90.4 0.11 2.4E-06 41.8 0.7 37 2-43 313-349 (355)
71 PF08746 zf-RING-like: RING-li 90.1 0.15 3.2E-06 29.1 0.9 26 11-36 18-43 (43)
72 KOG2660|consensus 89.7 0.087 1.9E-06 42.0 -0.3 32 10-43 32-63 (331)
73 KOG2879|consensus 89.0 0.25 5.5E-06 38.9 1.8 35 9-43 255-289 (298)
74 KOG1952|consensus 88.9 0.18 4E-06 44.7 1.1 28 11-38 212-244 (950)
75 KOG2932|consensus 88.6 0.19 4.2E-06 40.4 0.9 31 8-42 105-135 (389)
76 KOG2034|consensus 88.5 0.21 4.6E-06 44.3 1.2 20 6-25 831-850 (911)
77 COG5222 Uncharacterized conser 88.2 0.3 6.6E-06 39.3 1.8 29 9-38 290-318 (427)
78 PHA03096 p28-like protein; Pro 87.4 0.32 7E-06 37.8 1.5 30 11-40 203-233 (284)
79 PF10272 Tmpp129: Putative tra 86.9 0.35 7.5E-06 38.9 1.4 34 11-44 305-354 (358)
80 KOG2817|consensus 86.9 0.58 1.3E-05 38.2 2.7 42 2-44 345-388 (394)
81 KOG1940|consensus 85.8 0.62 1.3E-05 36.3 2.3 34 3-38 171-204 (276)
82 KOG1814|consensus 85.4 0.46 1E-05 39.2 1.5 35 5-39 198-238 (445)
83 COG5152 Uncharacterized conser 84.9 0.38 8.3E-06 36.7 0.7 33 6-40 208-240 (259)
84 KOG1001|consensus 84.8 0.34 7.3E-06 41.6 0.5 44 4-47 463-506 (674)
85 KOG0309|consensus 84.5 0.6 1.3E-05 41.6 1.8 27 7-35 1043-1069(1081)
86 KOG3053|consensus 84.3 0.4 8.7E-06 37.6 0.6 28 14-42 49-83 (293)
87 KOG1829|consensus 84.0 0.3 6.5E-06 41.5 -0.2 30 6-40 531-560 (580)
88 PF05883 Baculo_RING: Baculovi 83.8 0.5 1.1E-05 33.4 0.9 22 4-25 39-66 (134)
89 COG5236 Uncharacterized conser 83.7 0.83 1.8E-05 37.5 2.2 38 7-44 74-111 (493)
90 KOG1609|consensus 82.5 0.69 1.5E-05 34.2 1.3 36 8-43 96-136 (323)
91 KOG3113|consensus 81.7 1.2 2.7E-05 34.9 2.4 41 1-45 121-162 (293)
92 KOG4275|consensus 80.9 0.44 9.6E-06 38.0 -0.3 35 1-41 307-342 (350)
93 KOG3899|consensus 80.9 0.85 1.8E-05 36.6 1.3 33 12-44 325-368 (381)
94 KOG1813|consensus 80.0 0.63 1.4E-05 36.9 0.3 34 6-41 253-286 (313)
95 KOG1100|consensus 79.8 0.72 1.6E-05 34.2 0.5 33 4-42 168-201 (207)
96 PF04710 Pellino: Pellino; In 78.5 0.66 1.4E-05 38.1 0.0 32 6-40 303-338 (416)
97 KOG3039|consensus 77.7 2.6 5.6E-05 33.2 3.0 40 4-45 234-274 (303)
98 PF14570 zf-RING_4: RING/Ubox 74.3 3.4 7.3E-05 24.4 2.3 33 7-40 15-47 (48)
99 PF02130 UPF0054: Uncharacteri 72.0 3.4 7.5E-05 28.6 2.2 24 65-88 99-123 (145)
100 TIGR00043 metalloprotein, YbeY 70.7 4.1 8.8E-05 27.2 2.3 25 64-88 63-88 (110)
101 KOG0269|consensus 69.6 3.4 7.4E-05 36.6 2.2 27 11-39 798-826 (839)
102 PF13901 DUF4206: Domain of un 69.6 3 6.6E-05 30.4 1.6 27 6-39 172-198 (202)
103 PF07800 DUF1644: Protein of u 68.8 3.7 8E-05 29.9 1.9 12 30-41 80-91 (162)
104 KOG2066|consensus 68.8 1.7 3.6E-05 38.5 0.1 22 5-26 802-823 (846)
105 PF10571 UPF0547: Uncharacteri 66.9 3 6.4E-05 21.5 0.8 12 32-43 2-13 (26)
106 COG0319 Predicted metal-depend 65.4 5.7 0.00012 28.3 2.3 19 70-88 105-123 (153)
107 KOG3842|consensus 64.8 2.6 5.6E-05 34.3 0.4 31 4-39 314-350 (429)
108 PRK00016 metal-binding heat sh 63.8 6 0.00013 28.0 2.2 23 66-88 105-128 (159)
109 cd00350 rubredoxin_like Rubred 63.2 3.7 8E-05 21.8 0.8 22 10-39 5-26 (33)
110 smart00734 ZnF_Rad18 Rad18-lik 62.9 3.1 6.6E-05 21.3 0.4 13 32-44 3-15 (26)
111 PF04423 Rad50_zn_hook: Rad50 62.1 2.4 5.2E-05 24.6 -0.1 15 30-44 20-34 (54)
112 PF09986 DUF2225: Uncharacteri 61.5 3.9 8.3E-05 30.1 0.8 21 28-48 3-23 (214)
113 COG5109 Uncharacterized conser 55.8 10 0.00022 30.9 2.3 37 4-40 349-386 (396)
114 PF02891 zf-MIZ: MIZ/SP-RING z 53.1 12 0.00026 21.6 1.9 31 6-39 15-50 (50)
115 KOG0802|consensus 51.2 10 0.00022 31.5 1.7 30 10-44 494-523 (543)
116 PF03854 zf-P11: P-11 zinc fin 49.8 6.6 0.00014 23.5 0.4 31 10-42 16-47 (50)
117 PF05605 zf-Di19: Drought indu 49.1 7 0.00015 22.5 0.4 15 31-45 3-17 (54)
118 PRK13963 unkown domain/putativ 48.7 15 0.00033 28.5 2.3 19 70-88 212-230 (258)
119 KOG3800|consensus 48.3 12 0.00026 29.7 1.7 32 11-43 22-53 (300)
120 PF14311 DUF4379: Domain of un 45.7 13 0.00029 21.4 1.3 23 11-36 33-55 (55)
121 KOG4718|consensus 45.2 16 0.00035 28.0 1.9 28 9-38 197-224 (235)
122 PF05290 Baculo_IE-1: Baculovi 44.7 22 0.00048 25.4 2.4 33 12-44 102-135 (140)
123 PF09889 DUF2116: Uncharacteri 44.3 14 0.00031 22.5 1.3 17 29-45 2-18 (59)
124 KOG3161|consensus 43.7 14 0.0003 32.7 1.5 29 6-39 27-55 (861)
125 PRK00418 DNA gyrase inhibitor; 43.5 11 0.00025 23.3 0.7 13 30-42 6-18 (62)
126 PRK01343 zinc-binding protein; 42.6 15 0.00032 22.4 1.1 12 30-41 9-20 (57)
127 COG2835 Uncharacterized conser 41.7 11 0.00024 23.3 0.5 14 31-44 9-22 (60)
128 COG1545 Predicted nucleic-acid 40.7 14 0.00031 25.5 1.0 22 10-41 33-54 (140)
129 PF03884 DUF329: Domain of unk 39.9 8.5 0.00018 23.4 -0.2 13 31-43 3-15 (57)
130 KOG0298|consensus 39.8 12 0.00025 35.2 0.5 28 10-39 1170-1197(1394)
131 PF05715 zf-piccolo: Piccolo Z 38.8 16 0.00034 22.7 0.8 13 30-42 2-14 (61)
132 COG4357 Zinc finger domain con 37.3 23 0.0005 24.1 1.5 31 10-43 63-93 (105)
133 PF09538 FYDLN_acid: Protein o 37.1 24 0.00053 23.7 1.6 24 20-43 15-39 (108)
134 TIGR02183 GRXA Glutaredoxin, G 37.0 11 0.00024 23.3 -0.0 12 30-41 7-18 (86)
135 PF12088 DUF3565: Protein of u 35.9 25 0.00054 21.8 1.4 18 2-19 7-24 (61)
136 smart00249 PHD PHD zinc finger 35.4 13 0.00028 19.3 0.1 13 11-23 19-31 (47)
137 PF09237 GAGA: GAGA factor; I 34.2 12 0.00025 22.8 -0.3 14 30-43 24-37 (54)
138 PLN02887 hydrolase family prot 33.7 34 0.00074 29.0 2.3 23 66-88 222-245 (580)
139 PHA03050 glutaredoxin; Provisi 33.2 12 0.00026 24.6 -0.3 11 30-40 20-30 (108)
140 KOG4556|consensus 33.1 32 0.00069 25.8 1.8 29 57-87 20-48 (205)
141 PF14169 YdjO: Cold-inducible 33.0 23 0.00049 21.8 0.9 14 28-41 37-50 (59)
142 PRK11827 hypothetical protein; 32.9 22 0.00048 21.8 0.8 13 31-43 9-21 (60)
143 COG0695 GrxC Glutaredoxin and 32.7 13 0.00029 23.0 -0.2 10 30-39 8-17 (80)
144 PF11023 DUF2614: Protein of u 32.3 21 0.00046 24.6 0.8 17 27-43 82-98 (114)
145 PF06844 DUF1244: Protein of u 32.2 28 0.0006 22.1 1.2 12 15-26 11-22 (68)
146 TIGR02194 GlrX_NrdH Glutaredox 31.4 13 0.00027 22.0 -0.4 11 30-40 6-16 (72)
147 PF14353 CpXC: CpXC protein 30.9 21 0.00046 23.6 0.6 12 32-43 3-14 (128)
148 PRK13240 pbsY photosystem II p 30.7 38 0.00082 19.3 1.5 21 65-85 4-24 (40)
149 TIGR01367 pyrE_Therm orotate p 30.2 22 0.00048 25.5 0.6 15 30-44 169-183 (187)
150 smart00647 IBR In Between Ring 29.2 23 0.00049 20.1 0.4 14 11-24 45-58 (64)
151 PF06298 PsbY: Photosystem II 29.1 47 0.001 18.6 1.6 21 65-85 4-24 (36)
152 CHL00196 psbY photosystem II p 29.0 47 0.001 18.6 1.6 23 62-85 2-24 (36)
153 cd03029 GRX_hybridPRX5 Glutare 28.3 16 0.00034 21.4 -0.4 11 30-40 8-18 (72)
154 cd04718 BAH_plant_2 BAH, or Br 27.2 22 0.00048 25.4 0.2 32 16-47 2-35 (148)
155 TIGR02300 FYDLN_acid conserved 25.7 58 0.0013 22.9 2.0 13 28-40 7-19 (129)
156 PF13913 zf-C2HC_2: zinc-finge 25.5 26 0.00057 17.4 0.2 15 31-45 3-17 (25)
157 PRK11200 grxA glutaredoxin 1; 25.4 21 0.00044 21.7 -0.3 13 30-42 8-20 (85)
158 KOG1812|consensus 24.6 33 0.00073 27.5 0.7 22 5-26 161-182 (384)
159 TIGR01295 PedC_BrcD bacterioci 24.6 25 0.00053 23.3 -0.0 11 30-40 32-42 (122)
160 PRK11088 rrmA 23S rRNA methylt 24.5 34 0.00074 25.2 0.7 10 32-41 4-13 (272)
161 COG5595 Zn-ribbon-containing, 24.3 39 0.00085 25.9 1.0 21 27-47 215-235 (256)
162 TIGR02189 GlrX-like_plant Glut 24.2 21 0.00045 22.9 -0.4 11 30-40 15-25 (99)
163 PF13453 zf-TFIIB: Transcripti 24.2 38 0.00081 18.4 0.7 13 32-44 1-13 (41)
164 PF00462 Glutaredoxin: Glutare 24.1 17 0.00038 20.4 -0.7 11 30-40 6-16 (60)
165 COG5175 MOT2 Transcriptional r 24.0 44 0.00096 27.7 1.3 37 7-44 31-67 (480)
166 PF03119 DNA_ligase_ZBD: NAD-d 23.9 31 0.00068 17.8 0.3 11 32-42 1-11 (28)
167 PF13395 HNH_4: HNH endonuclea 23.8 37 0.00081 19.5 0.7 15 33-47 1-15 (54)
168 PF10367 Vps39_2: Vacuolar sor 23.6 54 0.0012 20.3 1.4 18 28-45 76-93 (109)
169 KOG4692|consensus 23.5 51 0.0011 27.4 1.6 32 8-41 436-467 (489)
170 cd02066 GRX_family Glutaredoxi 23.4 22 0.00047 19.6 -0.4 11 30-40 7-17 (72)
171 COG3357 Predicted transcriptio 23.4 44 0.00094 22.5 1.0 24 11-40 63-86 (97)
172 PF04376 ATE_N: Arginine-tRNA- 22.8 68 0.0015 20.1 1.8 35 28-62 5-41 (80)
173 KOG4443|consensus 22.8 53 0.0012 28.9 1.6 29 11-39 40-71 (694)
174 PF06750 DiS_P_DiS: Bacterial 22.6 60 0.0013 20.9 1.5 21 21-43 51-71 (92)
175 PF13717 zinc_ribbon_4: zinc-r 22.6 49 0.0011 17.8 0.9 6 11-16 30-35 (36)
176 PF08209 Sgf11: Sgf11 (transcr 22.4 27 0.00059 18.9 -0.1 15 31-45 5-19 (33)
177 COG4647 AcxC Acetone carboxyla 22.2 51 0.0011 23.8 1.2 17 2-18 65-81 (165)
178 TIGR01206 lysW lysine biosynth 21.8 44 0.00096 19.9 0.7 14 31-44 3-16 (54)
179 cd02977 ArsC_family Arsenate R 21.8 25 0.00053 22.3 -0.4 11 30-40 6-16 (105)
180 TIGR02652 conserved hypothetic 21.6 42 0.0009 24.4 0.7 16 28-43 7-22 (163)
181 PF14255 Cys_rich_CPXG: Cystei 21.5 41 0.00089 19.9 0.5 12 32-43 2-13 (52)
182 PF00096 zf-C2H2: Zinc finger, 21.4 23 0.0005 16.3 -0.5 12 32-43 2-13 (23)
183 cd03027 GRX_DEP Glutaredoxin ( 21.3 28 0.00061 20.4 -0.2 12 30-41 8-19 (73)
184 PF09654 DUF2396: Protein of u 21.2 43 0.00094 24.3 0.7 16 28-43 4-19 (161)
185 PRK10638 glutaredoxin 3; Provi 21.1 28 0.0006 21.0 -0.3 13 30-42 9-21 (83)
186 PF13894 zf-C2H2_4: C2H2-type 21.1 35 0.00076 15.2 0.1 12 32-43 2-13 (24)
187 PF05182 Fip1: Fip1 motif; In 20.9 65 0.0014 18.7 1.3 28 39-69 2-29 (45)
188 TIGR02181 GRX_bact Glutaredoxi 20.7 28 0.0006 20.5 -0.3 12 30-41 6-17 (79)
189 PRK00398 rpoP DNA-directed RNA 20.5 39 0.00083 18.8 0.3 14 30-43 21-34 (46)
190 PF13248 zf-ribbon_3: zinc-rib 20.2 62 0.0013 16.1 1.0 12 31-42 3-14 (26)
No 1
>KOG1734|consensus
Probab=99.97 E-value=2.6e-32 Score=209.82 Aligned_cols=84 Identities=74% Similarity=1.439 Sum_probs=82.1
Q ss_pred CceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccccccccccCCCCCcchhhchhhhhccccchhHHHHHHHHHhhhh
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFVNLWEKPHVFYGQLLDWLRWLVAWQPVILALIQGVNYM 84 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~~p~~~~~~~~~~~ld~~r~~~~w~p~~~~~~~~~~~~ 84 (88)
|++.+|.|+|+||+.||+.|..++||+|||+|+++||++++.+||||+++++|++++||+||+|.|+|+++.|||||++.
T Consensus 245 enty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnpWekph~~yg~LldwlRylVawqpvi~~iVqgin~~ 324 (328)
T KOG1734|consen 245 ENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNPWEKPHVWYGQLLDWLRYLVAWQPVIITIVQGINYY 324 (328)
T ss_pred hhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCC
Q psy11807 85 LDLK 88 (88)
Q Consensus 85 ~~~~ 88 (88)
+||+
T Consensus 325 lgle 328 (328)
T KOG1734|consen 325 LGLE 328 (328)
T ss_pred hccC
Confidence 9996
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.41 E-value=2.6e-14 Score=81.18 Aligned_cols=34 Identities=29% Similarity=0.766 Sum_probs=28.9
Q ss_pred CCCCceeecCCCCcCcHhhHHHHHhcCCCCCCcccc
Q psy11807 2 DNDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCK 37 (88)
Q Consensus 2 ~~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR 37 (88)
+.++.+..++|||.||.+||.+|++. +.+||+||
T Consensus 11 ~~~~~~~~l~C~H~fh~~Ci~~~~~~--~~~CP~CR 44 (44)
T PF13639_consen 11 EDGEKVVKLPCGHVFHRSCIKEWLKR--NNSCPVCR 44 (44)
T ss_dssp HTTSCEEEETTSEEEEHHHHHHHHHH--SSB-TTTH
T ss_pred cCCCeEEEccCCCeeCHHHHHHHHHh--CCcCCccC
Confidence 34788999999999999999999964 57999998
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=99.25 E-value=3.5e-12 Score=80.22 Aligned_cols=31 Identities=32% Similarity=0.739 Sum_probs=24.9
Q ss_pred CceeecCCCCcCcHhhHHHHHhcCCCCCCcccc
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCK 37 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR 37 (88)
-.+..++|||.||.+||.+||+ .+.+||+||
T Consensus 43 ~~i~~~~C~H~FH~~Ci~~Wl~--~~~~CP~CR 73 (73)
T PF12678_consen 43 CPIVWGPCGHIFHFHCISQWLK--QNNTCPLCR 73 (73)
T ss_dssp S-EEEETTSEEEEHHHHHHHHT--TSSB-TTSS
T ss_pred cceEecccCCCEEHHHHHHHHh--cCCcCCCCC
Confidence 3456679999999999999994 466999998
No 4
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.21 E-value=7.9e-12 Score=81.92 Aligned_cols=38 Identities=29% Similarity=0.601 Sum_probs=32.2
Q ss_pred ceeecCCCCcCcHhhHHHHHhc-CCCCCCcccccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIV-GKKQICPYCKEKVDLK 43 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~-~~~~tCP~CR~~v~~~ 43 (88)
.+....|+|.||.+||.+|+.. +.+++||+||+++..+
T Consensus 46 plv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 46 PLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred ceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 5666789999999999999975 3478999999998765
No 5
>KOG4628|consensus
Probab=99.19 E-value=1.1e-11 Score=97.83 Aligned_cols=42 Identities=24% Similarity=0.520 Sum_probs=35.8
Q ss_pred CCCCceeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccc
Q psy11807 2 DNDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKL 44 (88)
Q Consensus 2 ~~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~ 44 (88)
+.+|+++.|||+|.||..||+.||.. .+.+||+||+++....
T Consensus 240 ~~GdklRiLPC~H~FH~~CIDpWL~~-~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 240 EKGDKLRILPCSHKFHVNCIDPWLTQ-TRTFCPVCKRDIRTDS 281 (348)
T ss_pred ccCCeeeEecCCCchhhccchhhHhh-cCccCCCCCCcCCCCC
Confidence 56899999999999999999999964 4568999999875443
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=3e-11 Score=97.20 Aligned_cols=37 Identities=30% Similarity=0.791 Sum_probs=32.6
Q ss_pred CCceeecCCCCcCcHhhHHHHHhcCCCCCCccccccccc
Q psy11807 4 DIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDL 42 (88)
Q Consensus 4 ~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~ 42 (88)
+.+..+|||||+||-+|++.|+ ++++|||+||.++..
T Consensus 310 ~~~pKrLpCGHilHl~CLknW~--ERqQTCPICr~p~if 346 (491)
T COG5243 310 DMTPKRLPCGHILHLHCLKNWL--ERQQTCPICRRPVIF 346 (491)
T ss_pred cCCcccccccceeeHHHHHHHH--HhccCCCcccCcccc
Confidence 4567899999999999999998 578999999999643
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.93 E-value=5.6e-10 Score=84.28 Aligned_cols=32 Identities=28% Similarity=0.625 Sum_probs=27.7
Q ss_pred eecCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 8 CKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 8 ~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
..++|||.||.+||.+|+. .+++||+||+++.
T Consensus 196 vl~~C~H~FC~~CI~~Wl~--~~~tCPlCR~~~~ 227 (238)
T PHA02929 196 ILSNCNHVFCIECIDIWKK--EKNTCPVCRTPFI 227 (238)
T ss_pred ecCCCCCcccHHHHHHHHh--cCCCCCCCCCEee
Confidence 3458999999999999984 5789999999875
No 8
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.91 E-value=1.5e-09 Score=58.93 Aligned_cols=35 Identities=26% Similarity=0.603 Sum_probs=27.8
Q ss_pred CceeecCCCCcCcHhhHHHHHhcCCCCCCccccccc
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKV 40 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v 40 (88)
+....++|||.||..|+++|+.. .+..||.||+.+
T Consensus 11 ~~~~~~~C~H~~c~~C~~~~~~~-~~~~Cp~C~~~~ 45 (45)
T cd00162 11 EPVVLLPCGHVFCRSCIDKWLKS-GKNTCPLCRTPI 45 (45)
T ss_pred CceEecCCCChhcHHHHHHHHHh-CcCCCCCCCCcC
Confidence 34455569999999999999963 467899999864
No 9
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=1.5e-09 Score=85.59 Aligned_cols=39 Identities=23% Similarity=0.537 Sum_probs=34.0
Q ss_pred CCCceeecCCCCcCcHhhHHHHHhcCCCCCCccccccccc
Q psy11807 3 NDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDL 42 (88)
Q Consensus 3 ~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~ 42 (88)
.+++.+.|||.|.||..||++|+. +-+..||+||.++.+
T Consensus 335 K~d~~~vlPC~H~FH~~Cv~kW~~-~y~~~CPvCrt~iPP 373 (374)
T COG5540 335 KNDRLRVLPCDHRFHVGCVDKWLL-GYSNKCPVCRTAIPP 373 (374)
T ss_pred ccceEEEeccCceechhHHHHHHh-hhcccCCccCCCCCC
Confidence 356799999999999999999995 567899999998754
No 10
>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=98.83 E-value=3.1e-09 Score=55.74 Aligned_cols=34 Identities=26% Similarity=0.568 Sum_probs=28.5
Q ss_pred CCCCceeecCCCCcCcHhhHHHHHhcCCCCCCccc
Q psy11807 2 DNDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYC 36 (88)
Q Consensus 2 ~~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~C 36 (88)
+..+....++|||.||..|+++|+. ..+.+||.|
T Consensus 6 ~~~~~~~~~~C~H~~c~~C~~~~~~-~~~~~CP~C 39 (39)
T smart00184 6 EELKDPVVLPCGHTFCRSCIRKWLK-SGNNTCPIC 39 (39)
T ss_pred cCCCCcEEecCCChHHHHHHHHHHH-hCcCCCCCC
Confidence 3456788899999999999999996 456789987
No 11
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.82 E-value=1.9e-09 Score=70.63 Aligned_cols=37 Identities=27% Similarity=0.512 Sum_probs=31.1
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKL 44 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~ 44 (88)
++....|+|.||.+||.+||. .++.||++|+++...+
T Consensus 48 ~v~wG~CnHaFH~HCI~rWL~--Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 48 PVVWGVCNHAFHDHCIYRWLD--TKGVCPLDRQTWVLAD 84 (88)
T ss_pred eEEEEecchHHHHHHHHHHHh--hCCCCCCCCceeEEec
Confidence 355668999999999999994 4789999999987654
No 12
>KOG0317|consensus
Probab=98.79 E-value=2.7e-09 Score=82.75 Aligned_cols=43 Identities=35% Similarity=0.715 Sum_probs=36.4
Q ss_pred CCCCCceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccccccc
Q psy11807 1 MDNDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLM 45 (88)
Q Consensus 1 m~~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~ 45 (88)
|++-+....+||||+|.-.||.+|+ +.+..||.||+++..+++
T Consensus 246 Le~~~~pSaTpCGHiFCWsCI~~w~--~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 246 LENRSNPSATPCGHIFCWSCILEWC--SEKAECPLCREKFQPSKV 288 (293)
T ss_pred ecCCCCCCcCcCcchHHHHHHHHHH--ccccCCCcccccCCCcce
Confidence 4556667788999999999999998 567899999999887654
No 13
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.77 E-value=3.6e-09 Score=61.41 Aligned_cols=38 Identities=24% Similarity=0.523 Sum_probs=32.1
Q ss_pred CCCCceeecCCCCc-CcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 2 DNDIMTCKTYCIFI-FHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 2 ~~~e~~~~L~C~H~-FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
++...+..+||||. |...|+.+|+. .+.+||+||++++
T Consensus 10 ~~~~~~~~~pCgH~~~C~~C~~~~~~--~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 10 ENPRDVVLLPCGHLCFCEECAERLLK--RKKKCPICRQPIE 48 (50)
T ss_dssp SSBSSEEEETTCEEEEEHHHHHHHHH--TTSBBTTTTBB-S
T ss_pred ccCCceEEeCCCChHHHHHHhHHhcc--cCCCCCcCChhhc
Confidence 45567888899999 99999999985 5679999999875
No 14
>KOG0802|consensus
Probab=98.77 E-value=1.9e-09 Score=88.01 Aligned_cols=32 Identities=34% Similarity=0.908 Sum_probs=29.1
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKV 40 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v 40 (88)
..+|+|||+||.+|+++|++ ++++||+||..+
T Consensus 309 ~~rL~C~Hifh~~CL~~W~e--r~qtCP~CR~~~ 340 (543)
T KOG0802|consen 309 PKRLPCGHIFHDSCLRSWFE--RQQTCPTCRTVL 340 (543)
T ss_pred cceeecccchHHHHHHHHHH--HhCcCCcchhhh
Confidence 78999999999999999995 589999999954
No 15
>KOG1493|consensus
Probab=98.75 E-value=1.4e-09 Score=70.82 Aligned_cols=37 Identities=30% Similarity=0.777 Sum_probs=30.0
Q ss_pred eeecCCCCcCcHhhHHHHHhc-CCCCCCcccccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIV-GKKQICPYCKEKVDLK 43 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~-~~~~tCP~CR~~v~~~ 43 (88)
+....|.|.||.+||.+|+.. +.+..||+||+.+..+
T Consensus 46 Lv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 46 LVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred cHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 334479999999999999954 4568999999987654
No 16
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.66 E-value=2.2e-08 Score=73.96 Aligned_cols=39 Identities=28% Similarity=0.545 Sum_probs=30.9
Q ss_pred CceeecCCCCcCcHhhHHHHHhcC--------------CCCCCcccccccccc
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIVG--------------KKQICPYCKEKVDLK 43 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~~--------------~~~tCP~CR~~v~~~ 43 (88)
+..+.++|||.|+..||.+|+..+ ++..||+||+++...
T Consensus 29 ~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 29 RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 455678999999999999998531 246899999998543
No 17
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.59 E-value=2.4e-08 Score=55.41 Aligned_cols=29 Identities=28% Similarity=0.511 Sum_probs=24.2
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYC 36 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~C 36 (88)
.+..++|||.|..+||.+|++. +.+||+|
T Consensus 11 ~~~~~~CGH~fC~~C~~~~~~~--~~~CP~C 39 (39)
T PF13923_consen 11 PVVVTPCGHSFCKECIEKYLEK--NPKCPVC 39 (39)
T ss_dssp EEEECTTSEEEEHHHHHHHHHC--TSB-TTT
T ss_pred cCEECCCCCchhHHHHHHHHHC--cCCCcCC
Confidence 3478899999999999999964 5799998
No 18
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.57 E-value=4.3e-08 Score=58.05 Aligned_cols=40 Identities=10% Similarity=0.100 Sum_probs=33.7
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFVN 48 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~~ 48 (88)
...++|||+|-.+||.+|+.. +.+||.|++++..+++..+
T Consensus 14 Pv~~~~G~v~~~~~i~~~~~~--~~~cP~~~~~~~~~~l~~~ 53 (63)
T smart00504 14 PVILPSGQTYERRAIEKWLLS--HGTDPVTGQPLTHEDLIPN 53 (63)
T ss_pred CEECCCCCEEeHHHHHHHHHH--CCCCCCCcCCCChhhceeC
Confidence 567899999999999999953 6799999999877766554
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=98.56 E-value=4.9e-08 Score=54.00 Aligned_cols=30 Identities=27% Similarity=0.569 Sum_probs=26.2
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYC 36 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~C 36 (88)
...++|||.|+..||++|++.+....||.|
T Consensus 12 ~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 12 VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 348899999999999999975667889998
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.47 E-value=1.3e-07 Score=53.87 Aligned_cols=34 Identities=32% Similarity=0.640 Sum_probs=29.5
Q ss_pred CCCceeecCCCCcCcHhhHHHHHhcCCCCCCccccc
Q psy11807 3 NDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKE 38 (88)
Q Consensus 3 ~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~ 38 (88)
+++....++|||+|...|+.+.. ++...||+||+
T Consensus 11 ~~~~~~l~~CgH~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 11 EERRPRLTSCGHIFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CCCCeEEcccCCHHHHHHHHhhc--CCCCCCcCCCC
Confidence 45678889999999999999996 56789999996
No 21
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.41 E-value=2.1e-07 Score=53.04 Aligned_cols=32 Identities=19% Similarity=0.293 Sum_probs=23.4
Q ss_pred CceeecCCCCcCcHhhHHHHHhcCCC--CCCccc
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIVGKK--QICPYC 36 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~~~~--~tCP~C 36 (88)
++.++|+|||.|-..||.+|.+.... ..||.|
T Consensus 9 ~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 9 KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 56789999999999999999964333 379988
No 22
>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=98.38 E-value=2.8e-07 Score=54.24 Aligned_cols=35 Identities=20% Similarity=0.475 Sum_probs=29.3
Q ss_pred CCCceeecCCC-----CcCcHhhHHHHHhcCCCCCCcccc
Q psy11807 3 NDIMTCKTYCI-----FIFHEFCIRGWCIVGKKQICPYCK 37 (88)
Q Consensus 3 ~~e~~~~L~C~-----H~FH~~CI~~Wl~~~~~~tCP~CR 37 (88)
.++.....||. |.+|..|+++|+..+++.+||+|+
T Consensus 10 ~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 10 DEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 45566678986 999999999999777678999995
No 23
>KOG2930|consensus
Probab=98.37 E-value=1.6e-07 Score=64.16 Aligned_cols=36 Identities=22% Similarity=0.538 Sum_probs=30.6
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKL 44 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~ 44 (88)
+....|+|.||.+||.+||+ .++.||+|.+++..++
T Consensus 76 VaWG~CNHaFH~hCisrWlk--tr~vCPLdn~eW~~qr 111 (114)
T KOG2930|consen 76 VAWGVCNHAFHFHCISRWLK--TRNVCPLDNKEWVFQR 111 (114)
T ss_pred EEeeecchHHHHHHHHHHHh--hcCcCCCcCcceeEee
Confidence 45568999999999999995 4689999999987664
No 24
>KOG0320|consensus
Probab=98.22 E-value=5.2e-07 Score=66.38 Aligned_cols=37 Identities=27% Similarity=0.582 Sum_probs=31.6
Q ss_pred eecCCCCcCcHhhHHHHHhcCCCCCCccccccccccccc
Q psy11807 8 CKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMF 46 (88)
Q Consensus 8 ~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~ 46 (88)
....|||+|.+.||++=++ +...||+||++++.+++.
T Consensus 147 vsTkCGHvFC~~Cik~alk--~~~~CP~C~kkIt~k~~~ 183 (187)
T KOG0320|consen 147 VSTKCGHVFCSQCIKDALK--NTNKCPTCRKKITHKQFH 183 (187)
T ss_pred cccccchhHHHHHHHHHHH--hCCCCCCcccccchhhhe
Confidence 5579999999999999985 457899999999887653
No 25
>KOG0823|consensus
Probab=98.22 E-value=9.5e-07 Score=66.83 Aligned_cols=42 Identities=26% Similarity=0.525 Sum_probs=34.2
Q ss_pred CCCCceeecCCCCcCcHhhHHHHHhc-CCCCCCcccccccccc
Q psy11807 2 DNDIMTCKTYCIFIFHEFCIRGWCIV-GKKQICPYCKEKVDLK 43 (88)
Q Consensus 2 ~~~e~~~~L~C~H~FH~~CI~~Wl~~-~~~~tCP~CR~~v~~~ 43 (88)
|-.+..+...|||.|.--||-+||.. ..++.||+||..|..+
T Consensus 55 d~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 55 DLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred cccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 34456677799999999999999965 4567889999998654
No 26
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.20 E-value=9.6e-07 Score=70.98 Aligned_cols=40 Identities=25% Similarity=0.505 Sum_probs=31.8
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFVN 48 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~~ 48 (88)
...++|||.|+..||.+|+. ....||.||+.+....+..|
T Consensus 39 PvitpCgH~FCs~CI~~~l~--~~~~CP~Cr~~~~~~~Lr~N 78 (397)
T TIGR00599 39 PVLTSCSHTFCSLCIRRCLS--NQPKCPLCRAEDQESKLRSN 78 (397)
T ss_pred ccCCCCCCchhHHHHHHHHh--CCCCCCCCCCccccccCccc
Confidence 45689999999999999984 35689999999876554433
No 27
>PHA02926 zinc finger-like protein; Provisional
Probab=98.13 E-value=1.3e-06 Score=66.40 Aligned_cols=34 Identities=26% Similarity=0.603 Sum_probs=26.5
Q ss_pred eecCCCCcCcHhhHHHHHhcC----CCCCCcccccccc
Q psy11807 8 CKTYCIFIFHEFCIRGWCIVG----KKQICPYCKEKVD 41 (88)
Q Consensus 8 ~~L~C~H~FH~~CI~~Wl~~~----~~~tCP~CR~~v~ 41 (88)
...+|+|.|+..||++|-... ...+||+||+...
T Consensus 193 IL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 193 LLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred ccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 344899999999999998521 1356999999765
No 28
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.99 E-value=1.2e-06 Score=54.71 Aligned_cols=33 Identities=27% Similarity=0.784 Sum_probs=19.5
Q ss_pred CCCCcCcHhhHHHHHhc---CC------CCCCcccccccccc
Q psy11807 11 YCIFIFHEFCIRGWCIV---GK------KQICPYCKEKVDLK 43 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~---~~------~~tCP~CR~~v~~~ 43 (88)
.|+..||..|+.+||.. ++ ..+||.|++++..+
T Consensus 27 ~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 27 SCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp T----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred ccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 69999999999999953 11 13699999998654
No 29
>KOG0828|consensus
Probab=97.96 E-value=2.5e-06 Score=70.98 Aligned_cols=34 Identities=35% Similarity=0.698 Sum_probs=28.5
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
-...||.|+||..|+++|+. ..|-.||.||.++.
T Consensus 601 Ym~tPC~HifH~~CL~~WMd-~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 601 YMLTPCHHIFHRQCLLQWMD-TYKLICPVCRCPLP 634 (636)
T ss_pred ccccchHHHHHHHHHHHHHh-hhcccCCccCCCCC
Confidence 34569999999999999985 35679999999865
No 30
>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=97.95 E-value=7.8e-06 Score=50.93 Aligned_cols=42 Identities=10% Similarity=0.112 Sum_probs=32.4
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFVN 48 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~~ 48 (88)
..+.+++||+|=..||.+|+. ....+||.|++++..+++..|
T Consensus 16 dPVi~~~G~tyer~~I~~~l~-~~~~~~P~t~~~l~~~~l~pn 57 (73)
T PF04564_consen 16 DPVILPSGHTYERSAIERWLE-QNGGTDPFTRQPLSESDLIPN 57 (73)
T ss_dssp SEEEETTSEEEEHHHHHHHHC-TTSSB-TTT-SB-SGGGSEE-
T ss_pred CceeCCcCCEEcHHHHHHHHH-cCCCCCCCCCCcCCcccceEC
Confidence 467789999999999999995 347899999999988877665
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=6.7e-06 Score=63.45 Aligned_cols=44 Identities=27% Similarity=0.535 Sum_probs=35.7
Q ss_pred CCCCCceeecCCCCcCcHhhHHH-HHhcCCCCCCcccccccccccc
Q psy11807 1 MDNDIMTCKTYCIFIFHEFCIRG-WCIVGKKQICPYCKEKVDLKLM 45 (88)
Q Consensus 1 m~~~e~~~~L~C~H~FH~~CI~~-Wl~~~~~~tCP~CR~~v~~~~~ 45 (88)
|+.-+....++|||+|.-.||.. |-. .+-..||.||+.+.++.+
T Consensus 222 ~e~~~~ps~t~CgHlFC~~Cl~~~~t~-~k~~~CplCRak~~pk~v 266 (271)
T COG5574 222 LEEPEVPSCTPCGHLFCLSCLLISWTK-KKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ecccCCcccccccchhhHHHHHHHHHh-hccccCchhhhhccchhh
Confidence 35566778889999999999999 974 445569999999987764
No 32
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.88 E-value=1.3e-05 Score=62.86 Aligned_cols=70 Identities=16% Similarity=0.356 Sum_probs=52.1
Q ss_pred CCCCcCcHhhHHHHHhcCCCCCCccccccccccc----ccccC---------------CCCCcchhhchhhhhccccchh
Q psy11807 11 YCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKL----MFVNL---------------WEKPHVFYGQLLDWLRWLVAWQ 71 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~----~~~~p---------------~~~~~~~~~~~ld~~r~~~~w~ 71 (88)
+|||.|...||+.-+. .....||.|++.+..++ ++.++ +.+++-.|..+.+.=-|+=.-.
T Consensus 25 ~CGH~~C~sCv~~l~~-~~~~~CP~C~~~lrk~~fr~q~F~D~~vekEV~iRkrv~~i~Nk~e~dF~~l~~yNdYLE~vE 103 (309)
T TIGR00570 25 VCGHTLCESCVDLLFV-RGSGSCPECDTPLRKNNFRVQLFEDPTVEKEVDIRKRVLKIYNKREEDFPSLREYNDYLEEVE 103 (309)
T ss_pred CCCCcccHHHHHHHhc-CCCCCCCCCCCccchhhccccccccHHHHHHHHHHHHHHHHHccchhccCCHHHHHHHHHHHH
Confidence 7999999999999764 34568999999887665 23332 4567777777777777777777
Q ss_pred HHHHHHHHHh
Q psy11807 72 PVILALIQGV 81 (88)
Q Consensus 72 p~~~~~~~~~ 81 (88)
.++|-++++|
T Consensus 104 dii~nL~~~~ 113 (309)
T TIGR00570 104 DIVYNLTNNI 113 (309)
T ss_pred HHHHHhhcCC
Confidence 7777777765
No 33
>KOG1941|consensus
Probab=97.83 E-value=5.5e-06 Score=67.58 Aligned_cols=37 Identities=22% Similarity=0.430 Sum_probs=32.7
Q ss_pred CCCceeecCCCCcCcHhhHHHHHhcCCCCCCcccccc
Q psy11807 3 NDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEK 39 (88)
Q Consensus 3 ~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~ 39 (88)
.+|+.-.|||.|+||..|+.+-|+.+...+||.||+-
T Consensus 378 k~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 378 KNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred CcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 4678889999999999999999987778899999943
No 34
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.79 E-value=1.6e-05 Score=45.81 Aligned_cols=32 Identities=16% Similarity=0.340 Sum_probs=20.1
Q ss_pred CCCceeecCCCCcCcHhhHHHHHhcC--CCCCCc
Q psy11807 3 NDIMTCKTYCIFIFHEFCIRGWCIVG--KKQICP 34 (88)
Q Consensus 3 ~~e~~~~L~C~H~FH~~CI~~Wl~~~--~~~tCP 34 (88)
.+.....|+|||+|-++||+++...+ ..-.||
T Consensus 10 ~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 10 EENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp TSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 34457889999999999999999643 344676
No 35
>KOG0827|consensus
Probab=97.75 E-value=1.3e-05 Score=65.21 Aligned_cols=39 Identities=31% Similarity=0.609 Sum_probs=29.0
Q ss_pred CCCceeec-CCCCcCcHhhHHHHHhcCCC-CCCcccccccc
Q psy11807 3 NDIMTCKT-YCIFIFHEFCIRGWCIVGKK-QICPYCKEKVD 41 (88)
Q Consensus 3 ~~e~~~~L-~C~H~FH~~CI~~Wl~~~~~-~tCP~CR~~v~ 41 (88)
+++++-.. .|||+||..|+..|++-... .+||+||-.+.
T Consensus 16 ~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 16 NDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred cccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 34455555 49999999999999975433 58999995443
No 36
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.73 E-value=1.5e-05 Score=70.57 Aligned_cols=31 Identities=26% Similarity=0.784 Sum_probs=28.2
Q ss_pred CCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 11 YCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
.|.|-||..|+-+|++.+.+++||.||.++.
T Consensus 1493 TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1493 TCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 5999999999999999888999999997654
No 37
>KOG1645|consensus
Probab=97.66 E-value=2.1e-05 Score=64.07 Aligned_cols=45 Identities=22% Similarity=0.464 Sum_probs=37.0
Q ss_pred CCCCCceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccccccc
Q psy11807 1 MDNDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLM 45 (88)
Q Consensus 1 m~~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~ 45 (88)
|.++.++..|.|||.|-++||++||....+..||.|..+...+.+
T Consensus 16 ~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i 60 (463)
T KOG1645|consen 16 TAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQI 60 (463)
T ss_pred ecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHH
Confidence 467888999999999999999999964456799999987654433
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.51 E-value=5.9e-05 Score=59.83 Aligned_cols=36 Identities=33% Similarity=0.740 Sum_probs=30.0
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKL 44 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~ 44 (88)
....+|||.|..-||++-| +.+..||.||++..-..
T Consensus 38 p~~TtCgHtFCslCIR~hL--~~qp~CP~Cr~~~~esr 73 (391)
T COG5432 38 PCETTCGHTFCSLCIRRHL--GTQPFCPVCREDPCESR 73 (391)
T ss_pred ceecccccchhHHHHHHHh--cCCCCCccccccHHhhh
Confidence 3456899999999999998 67899999999864443
No 39
>KOG0287|consensus
Probab=97.39 E-value=8.5e-05 Score=59.84 Aligned_cols=39 Identities=31% Similarity=0.479 Sum_probs=31.8
Q ss_pred eecCCCCcCcHhhHHHHHhcCCCCCCccccccccccccccc
Q psy11807 8 CKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFVN 48 (88)
Q Consensus 8 ~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~~ 48 (88)
...||||.|..-||+..| +.+..||.|+..+.-..+..|
T Consensus 37 ~itpCsHtfCSlCIR~~L--~~~p~CP~C~~~~~Es~Lr~n 75 (442)
T KOG0287|consen 37 MITPCSHTFCSLCIRKFL--SYKPQCPTCCVTVTESDLRNN 75 (442)
T ss_pred eeccccchHHHHHHHHHh--ccCCCCCceecccchhhhhhh
Confidence 445899999999999998 568999999998865555443
No 40
>KOG0804|consensus
Probab=97.38 E-value=8.3e-05 Score=61.15 Aligned_cols=32 Identities=25% Similarity=0.596 Sum_probs=27.2
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
.+.+..|.|.||..|+.+|- ..+||+||---.
T Consensus 191 gi~t~~c~Hsfh~~cl~~w~----~~scpvcR~~q~ 222 (493)
T KOG0804|consen 191 GILTILCNHSFHCSCLMKWW----DSSCPVCRYCQS 222 (493)
T ss_pred ceeeeecccccchHHHhhcc----cCcChhhhhhcC
Confidence 46788999999999999994 568999997644
No 41
>KOG2164|consensus
Probab=97.28 E-value=0.00017 Score=59.79 Aligned_cols=47 Identities=26% Similarity=0.465 Sum_probs=37.0
Q ss_pred eeecCCCCcCcHhhHHHHHhcC---CCCCCcccccccccccccccCCCCC
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVG---KKQICPYCKEKVDLKLMFVNLWEKP 53 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~---~~~tCP~CR~~v~~~~~~~~p~~~~ 53 (88)
.....|||+|.-.||.+.+..+ .-..||+||..|.++++..-+|+..
T Consensus 199 p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~ 248 (513)
T KOG2164|consen 199 PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDD 248 (513)
T ss_pred ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccc
Confidence 3445699999999999987544 3458999999999988877777653
No 42
>PHA02862 5L protein; Provisional
Probab=97.02 E-value=0.00039 Score=50.00 Aligned_cols=33 Identities=30% Similarity=0.644 Sum_probs=28.5
Q ss_pred CcCcHhhHHHHHhcCCCCCCccccccccccccc
Q psy11807 14 FIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMF 46 (88)
Q Consensus 14 H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~ 46 (88)
-.-|++|+.+|+..+++.+||.|+.+...+...
T Consensus 26 K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~y 58 (156)
T PHA02862 26 KVVHIKCMQLWINYSKKKECNLCKTKYNIKKTY 58 (156)
T ss_pred hhHHHHHHHHHHhcCCCcCccCCCCeEEEEEcc
Confidence 458999999999888999999999998766544
No 43
>KOG1785|consensus
Probab=96.93 E-value=0.00041 Score=57.11 Aligned_cols=40 Identities=23% Similarity=0.577 Sum_probs=33.6
Q ss_pred CCCCceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 2 DNDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 2 ~~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
+++..+..=||||.....|+..|-..+..++||.||.++.
T Consensus 377 endKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 377 ENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred ccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 5666777779999999999999975444789999998874
No 44
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.85 E-value=0.001 Score=48.26 Aligned_cols=33 Identities=24% Similarity=0.637 Sum_probs=28.1
Q ss_pred cCcHhhHHHHHhcCCCCCCcccccccccccccc
Q psy11807 15 IFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFV 47 (88)
Q Consensus 15 ~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~ 47 (88)
.-|.+|+++|+..+++.+||.|+++...+...+
T Consensus 33 ~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~~~k 65 (162)
T PHA02825 33 IVHKECLEEWINTSKNKSCKICNGPYNIKKNYK 65 (162)
T ss_pred HHHHHHHHHHHhcCCCCcccccCCeEEEEEecC
Confidence 459999999998888899999999988775444
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.84 E-value=0.00027 Score=44.40 Aligned_cols=40 Identities=30% Similarity=0.573 Sum_probs=19.1
Q ss_pred CceeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccccccc
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFVN 48 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~~ 48 (88)
+.+....|.|+|.+.||.+=+ + ..||+|+.+.-.+++..|
T Consensus 19 ~pv~l~~CeH~fCs~Ci~~~~--~--~~CPvC~~Paw~qD~~~N 58 (65)
T PF14835_consen 19 EPVCLGGCEHIFCSSCIRDCI--G--SECPVCHTPAWIQDIQIN 58 (65)
T ss_dssp S-B---SSS--B-TTTGGGGT--T--TB-SSS--B-S-SS----
T ss_pred CCceeccCccHHHHHHhHHhc--C--CCCCCcCChHHHHHHHhh
Confidence 445567999999999999865 3 359999999877776554
No 46
>KOG0824|consensus
Probab=96.83 E-value=0.00047 Score=54.40 Aligned_cols=37 Identities=27% Similarity=0.639 Sum_probs=31.4
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLK 43 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~ 43 (88)
....|+|+|.|...||+.=.. ..+.+||+||.+++..
T Consensus 19 ~Pv~l~C~HkFCyiCiKGsy~-ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 19 CPVNLYCFHKFCYICIKGSYK-NDKKTCAVCRFPIDST 55 (324)
T ss_pred cCccccccchhhhhhhcchhh-cCCCCCceecCCCCcc
Confidence 347899999999999999774 5678999999999754
No 47
>KOG0825|consensus
Probab=96.80 E-value=0.00054 Score=60.03 Aligned_cols=33 Identities=21% Similarity=0.487 Sum_probs=27.5
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
...-+|+|.||.+||..|-.. -+|||+||..+.
T Consensus 139 ~~~k~c~H~FC~~Ci~sWsR~--aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 139 ESEKHTAHYFCEECVGSWSRC--AQTCPVDRGEFG 171 (1134)
T ss_pred ccccccccccHHHHhhhhhhh--cccCchhhhhhh
Confidence 345689999999999999753 579999998764
No 48
>KOG0978|consensus
Probab=96.73 E-value=0.00063 Score=58.33 Aligned_cols=37 Identities=22% Similarity=0.476 Sum_probs=31.2
Q ss_pred eecCCCCcCcHhhHHHHHhcCCCCCCcccccccccccc
Q psy11807 8 CKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLM 45 (88)
Q Consensus 8 ~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~ 45 (88)
+...|||+|...||++=+. .+...||.|-+.+.+.++
T Consensus 657 vI~kC~H~FC~~Cvq~r~e-tRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 657 VITKCGHVFCEECVQTRYE-TRQRKCPKCNAAFGANDV 693 (698)
T ss_pred HHHhcchHHHHHHHHHHHH-HhcCCCCCCCCCCCcccc
Confidence 4458999999999999997 477899999998876653
No 49
>KOG2177|consensus
Probab=96.71 E-value=0.00082 Score=46.55 Aligned_cols=29 Identities=21% Similarity=0.393 Sum_probs=25.5
Q ss_pred eecCCCCcCcHhhHHHHHhcCCCCCCccccc
Q psy11807 8 CKTYCIFIFHEFCIRGWCIVGKKQICPYCKE 38 (88)
Q Consensus 8 ~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~ 38 (88)
..|+|||.|...||..+.. ....||.||.
T Consensus 27 ~~l~C~H~~c~~C~~~~~~--~~~~Cp~cr~ 55 (386)
T KOG2177|consen 27 VLLPCGHNFCRACLTRSWE--GPLSCPVCRP 55 (386)
T ss_pred ccccccchHhHHHHHHhcC--CCcCCcccCC
Confidence 7789999999999999985 4578999993
No 50
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.60 E-value=0.00079 Score=40.73 Aligned_cols=31 Identities=16% Similarity=0.185 Sum_probs=22.9
Q ss_pred CceeecCCCCcCcHhhHHHHHhcCCCCCCcc
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIVGKKQICPY 35 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~ 35 (88)
++++...|||+|=++.|.+++..++...||+
T Consensus 23 ~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 23 DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 5667789999999999999995566788998
No 51
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.05 E-value=0.002 Score=37.42 Aligned_cols=29 Identities=21% Similarity=0.545 Sum_probs=20.7
Q ss_pred eecCCC-----CcCcHhhHHHHHhcCCCCCCccc
Q psy11807 8 CKTYCI-----FIFHEFCIRGWCIVGKKQICPYC 36 (88)
Q Consensus 8 ~~L~C~-----H~FH~~CI~~Wl~~~~~~tCP~C 36 (88)
...||+ -.-|.+|+++|+..+++.+|++|
T Consensus 14 li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 14 LISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred eecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 445665 36799999999987677889988
No 52
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.99 E-value=0.0034 Score=38.30 Aligned_cols=38 Identities=16% Similarity=0.378 Sum_probs=31.0
Q ss_pred CCceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccccccc
Q psy11807 4 DIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLM 45 (88)
Q Consensus 4 ~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~ 45 (88)
+.+-..++|||.--..|-..+ +-+.||.|-++++..++
T Consensus 17 ~~~~~~~pCgH~I~~~~f~~~----rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 17 GTKGTVLPCGHLICDNCFPGE----RYNGCPFCGTPFEFDDP 54 (55)
T ss_pred ccccccccccceeeccccChh----hccCCCCCCCcccCCCC
Confidence 455678899999999998876 56789999999987653
No 53
>KOG0311|consensus
Probab=95.83 E-value=0.0021 Score=51.73 Aligned_cols=34 Identities=26% Similarity=0.427 Sum_probs=29.3
Q ss_pred cCCCCcCcHhhHHHHHhcCCCCCCccccccccccc
Q psy11807 10 TYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKL 44 (88)
Q Consensus 10 L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~ 44 (88)
-.|+|-|..+||..=+. ..+++||.||+...++.
T Consensus 60 keClhrfc~~ci~~a~r-~gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 60 KECLHRFCFDCIWKALR-SGNNECPTCRKKLVSKR 93 (381)
T ss_pred HHHHHHHHHHHHHHHHH-hcCCCCchHHhhccccc
Confidence 46999999999999986 45789999999987764
No 54
>KOG4739|consensus
Probab=95.72 E-value=0.0048 Score=46.96 Aligned_cols=41 Identities=22% Similarity=0.495 Sum_probs=32.4
Q ss_pred CCceeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccccccc
Q psy11807 4 DIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFVN 48 (88)
Q Consensus 4 ~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~~ 48 (88)
.+....+.|+|+|...|...= ....||+||+.+...++..+
T Consensus 15 ~~~f~LTaC~HvfC~~C~k~~----~~~~C~lCkk~ir~i~l~~s 55 (233)
T KOG4739|consen 15 QDPFFLTACRHVFCEPCLKAS----SPDVCPLCKKSIRIIQLNRS 55 (233)
T ss_pred CCceeeeechhhhhhhhcccC----Cccccccccceeeeeecccc
Confidence 456677899999999998763 33489999999877776555
No 55
>KOG4159|consensus
Probab=95.67 E-value=0.0076 Score=48.76 Aligned_cols=34 Identities=21% Similarity=0.431 Sum_probs=28.8
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
+..++||||.|...||.+=+ +++..||.||..+.
T Consensus 96 ~pv~tpcghs~c~~Cl~r~l--d~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 96 PPVVTPCGHSFCLECLDRSL--DQETECPLCRDELV 129 (398)
T ss_pred CCccccccccccHHHHHHHh--ccCCCCcccccccc
Confidence 45677999999999999944 67889999998875
No 56
>KOG1039|consensus
Probab=95.49 E-value=0.0069 Score=48.19 Aligned_cols=32 Identities=28% Similarity=0.731 Sum_probs=25.6
Q ss_pred cCCCCcCcHhhHHHHHhcCC-----CCCCcccccccc
Q psy11807 10 TYCIFIFHEFCIRGWCIVGK-----KQICPYCKEKVD 41 (88)
Q Consensus 10 L~C~H~FH~~CI~~Wl~~~~-----~~tCP~CR~~v~ 41 (88)
.+|.|.|...||+.|=...+ ...||.||....
T Consensus 185 pnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 185 PNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred CCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 46999999999999963333 378999998754
No 57
>KOG3268|consensus
Probab=95.47 E-value=0.0086 Score=44.92 Aligned_cols=35 Identities=31% Similarity=0.838 Sum_probs=27.8
Q ss_pred ecCCCCcCcHhhHHHHHhc---CCC------CCCcccccccccc
Q psy11807 9 KTYCIFIFHEFCIRGWCIV---GKK------QICPYCKEKVDLK 43 (88)
Q Consensus 9 ~L~C~H~FH~~CI~~Wl~~---~~~------~tCP~CR~~v~~~ 43 (88)
...||-.||.-|+..||.. +++ ..||+|.+++..+
T Consensus 187 N~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 187 NIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred ccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 3579999999999999942 222 4699999998765
No 58
>KOG1428|consensus
Probab=95.40 E-value=0.012 Score=55.25 Aligned_cols=37 Identities=32% Similarity=0.550 Sum_probs=28.4
Q ss_pred CceeecCCCCcCcHhhHHHHHhc---C-----CCCCCcccccccc
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIV---G-----KKQICPYCKEKVD 41 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~---~-----~~~tCP~CR~~v~ 41 (88)
.+.++|.|+|+||.+|.++=|+. + +--+||+|+++++
T Consensus 3500 AP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3500 APAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred CcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 45688999999999999865531 1 1247999999985
No 59
>KOG0297|consensus
Probab=95.34 E-value=0.008 Score=47.97 Aligned_cols=34 Identities=24% Similarity=0.417 Sum_probs=29.1
Q ss_pred cCCCCcCcHhhHHHHHhcCCCCCCcccccccccccc
Q psy11807 10 TYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLM 45 (88)
Q Consensus 10 L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~ 45 (88)
..|||.|...|+..|+. .++.||.||......+.
T Consensus 38 ~~cgh~fC~~C~~~~~~--~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 38 TTCGHRFCAGCLLESLS--NHQKCPVCRQELTQAEE 71 (391)
T ss_pred CCCCCcccccccchhhc--cCcCCcccccccchhhc
Confidence 69999999999999995 37899999988766543
No 60
>KOG2114|consensus
Probab=95.05 E-value=0.0099 Score=52.29 Aligned_cols=30 Identities=23% Similarity=0.650 Sum_probs=24.0
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKV 40 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v 40 (88)
+.+...|||.||.+|+. .+...||.|+.+.
T Consensus 853 P~VhF~CgHsyHqhC~e-----~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 853 PFVHFLCGHSYHQHCLE-----DKEDKCPKCLPEL 882 (933)
T ss_pred ceeeeecccHHHHHhhc-----cCcccCCccchhh
Confidence 45667899999999999 2456799999844
No 61
>KOG4265|consensus
Probab=95.04 E-value=0.015 Score=46.49 Aligned_cols=40 Identities=15% Similarity=0.387 Sum_probs=30.9
Q ss_pred CCCCCceeecCCCCc-CcHhhHHHHHhcCCCCCCccccccccc
Q psy11807 1 MDNDIMTCKTYCIFI-FHEFCIRGWCIVGKKQICPYCKEKVDL 42 (88)
Q Consensus 1 m~~~e~~~~L~C~H~-FH~~CI~~Wl~~~~~~tCP~CR~~v~~ 42 (88)
|++......|||.|. ....|-+.-- -..+.||+||+++..
T Consensus 297 lse~rdt~vLPCRHLCLCs~Ca~~Lr--~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 297 LSESRDTVVLPCRHLCLCSGCAKSLR--YQTNNCPICRQPIEE 337 (349)
T ss_pred ecCCcceEEecchhhehhHhHHHHHH--HhhcCCCccccchHh
Confidence 455567788999997 8999988764 234679999999853
No 62
>KOG0827|consensus
Probab=94.77 E-value=0.0028 Score=51.84 Aligned_cols=37 Identities=19% Similarity=0.383 Sum_probs=31.1
Q ss_pred CceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccccc
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLK 43 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~ 43 (88)
+++..+.|||.+|.+||.+||.. +..||.||..++..
T Consensus 211 ~k~~~~~~g~~~~~~kL~k~L~~--~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 211 DKISAIVCGHIYHHGKLSKWLAT--KRKLPSCRRELPKN 247 (465)
T ss_pred HHHHHHhhcccchhhHHHHHHHH--HHHhHHHHhhhhhh
Confidence 45667899999999999999953 67899999988654
No 63
>KOG4172|consensus
Probab=93.32 E-value=0.025 Score=35.00 Aligned_cols=32 Identities=16% Similarity=0.309 Sum_probs=23.1
Q ss_pred ecCCCCc-CcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 9 KTYCIFI-FHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 9 ~L~C~H~-FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
.-.|||. ..-+|-.+-++ ..+.+||+||+++.
T Consensus 22 lYtCGHMCmCy~Cg~rl~~-~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 22 LYTCGHMCMCYACGLRLKK-ALHGCCPICRAPIK 54 (62)
T ss_pred HHHcchHHhHHHHHHHHHH-ccCCcCcchhhHHH
Confidence 3469997 56677655443 46789999999863
No 64
>KOG4185|consensus
Probab=93.24 E-value=0.069 Score=40.12 Aligned_cols=38 Identities=18% Similarity=0.478 Sum_probs=31.5
Q ss_pred CCCceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 3 NDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 3 ~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
++.-++.|.|||.+-..|+..=+. +....||.||+..+
T Consensus 18 ~~~~p~~l~c~h~~c~~c~~~l~~-~~~i~cpfcR~~~~ 55 (296)
T KOG4185|consen 18 GDHIPRVLKCGHTICQNCASKLLG-NSRILCPFCRETTE 55 (296)
T ss_pred cccCCcccccCceehHhHHHHHhc-CceeeccCCCCccc
Confidence 456678899999999999988774 55678999999853
No 65
>KOG3970|consensus
Probab=93.07 E-value=0.07 Score=41.39 Aligned_cols=36 Identities=22% Similarity=0.491 Sum_probs=28.6
Q ss_pred ceeecCCCCcCcHhhHHHHHhc------CCCCCCcccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIV------GKKQICPYCKEKVD 41 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~------~~~~tCP~CR~~v~ 41 (88)
...+|.|=|.||-.|+.+|-.. -.--+||.|.+++-
T Consensus 64 dt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 64 DTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred cceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 4578899999999999999742 12347999999873
No 66
>KOG4445|consensus
Probab=93.03 E-value=0.028 Score=44.91 Aligned_cols=41 Identities=20% Similarity=0.509 Sum_probs=30.9
Q ss_pred CCCceeecCCCCcCcHhhHHHHHh------------------c---CCCCCCcccccccccc
Q psy11807 3 NDIMTCKTYCIFIFHEFCIRGWCI------------------V---GKKQICPYCKEKVDLK 43 (88)
Q Consensus 3 ~~e~~~~L~C~H~FH~~CI~~Wl~------------------~---~~~~tCP~CR~~v~~~ 43 (88)
.++...+.+|-|.||..|+.+.|. . .-+..||+||..+...
T Consensus 127 ~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 127 SSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 456678889999999999988771 0 1134699999998543
No 67
>PF04641 Rtf2: Rtf2 RING-finger
Probab=92.72 E-value=0.12 Score=38.97 Aligned_cols=48 Identities=19% Similarity=0.281 Sum_probs=34.6
Q ss_pred CCCCCceeec-CCCCcCcHhhHHHHHhcCCCCCCcccccccccccccc-cCCC
Q psy11807 1 MDNDIMTCKT-YCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFV-NLWE 51 (88)
Q Consensus 1 m~~~e~~~~L-~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~-~p~~ 51 (88)
|++..+.+-| +|||+|=+.+|++= .+...||+|-+++...++.. ||-+
T Consensus 123 ~~~~~~fv~l~~cG~V~s~~alke~---k~~~~Cp~c~~~f~~~DiI~Lnp~~ 172 (260)
T PF04641_consen 123 FNGKHKFVYLRPCGCVFSEKALKEL---KKSKKCPVCGKPFTEEDIIPLNPPE 172 (260)
T ss_pred cCCceeEEEEcCCCCEeeHHHHHhh---cccccccccCCccccCCEEEecCCc
Confidence 3344455555 99999999999996 23567999999998666543 4433
No 68
>KOG1002|consensus
Probab=92.31 E-value=0.047 Score=46.68 Aligned_cols=39 Identities=18% Similarity=0.480 Sum_probs=30.5
Q ss_pred CCceeecCCCCcCcHhhHHHHHhc---CCCCCCccccccccc
Q psy11807 4 DIMTCKTYCIFIFHEFCIRGWCIV---GKKQICPYCKEKVDL 42 (88)
Q Consensus 4 ~e~~~~L~C~H~FH~~CI~~Wl~~---~~~~tCP~CR~~v~~ 42 (88)
.+......|.|.|...||.+.... +.+-+||.|-..+..
T Consensus 546 aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 546 AEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred hhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 345566789999999999888742 556899999987643
No 69
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.05 E-value=0.18 Score=44.95 Aligned_cols=72 Identities=18% Similarity=0.341 Sum_probs=47.2
Q ss_pred cCcHhhHHHHHhcCCCCCCccccccccccccccc--CCCCCcc-hhhch----hhhhcccc---chhHHHHHHHHHhhhh
Q psy11807 15 IFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFVN--LWEKPHV-FYGQL----LDWLRWLV---AWQPVILALIQGVNYM 84 (88)
Q Consensus 15 ~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~~--p~~~~~~-~~~~~----ld~~r~~~---~w~p~~~~~~~~~~~~ 84 (88)
.-|++|+.+|+.-+++..|-+|..+.+.+++.++ |..-+.. +-+.. ....|-+. .|-.....+.-+|.|+
T Consensus 40 YiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e~mP~~IPfsiL~rk~a~t~~~~trvllT~~~w~VL~~v~~~~Vwn~ 119 (1175)
T COG5183 40 YIHRECLMEWMECSGTKKCDICHYEYKFKDIYKEDMPQIIPFSILIRKVADTGWKATRVLLTIGLWCVLQMVKWMGVWNM 119 (1175)
T ss_pred HHHHHHHHHHHhcCCCcceeeecceeeeeeecccCCCcccceehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3799999999988888999999999999888664 3221111 11111 11233332 3666666677778887
Q ss_pred cc
Q psy11807 85 LD 86 (88)
Q Consensus 85 ~~ 86 (88)
+|
T Consensus 120 ~G 121 (1175)
T COG5183 120 FG 121 (1175)
T ss_pred hc
Confidence 77
No 70
>KOG1571|consensus
Probab=90.41 E-value=0.11 Score=41.81 Aligned_cols=37 Identities=19% Similarity=0.397 Sum_probs=26.9
Q ss_pred CCCCceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccccc
Q psy11807 2 DNDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLK 43 (88)
Q Consensus 2 ~~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~ 43 (88)
++..+..-+||||+=. |..-= .+..+||+||+.+...
T Consensus 313 ~e~~~~~fvpcGh~cc--ct~cs---~~l~~CPvCR~rI~~~ 349 (355)
T KOG1571|consen 313 DEPKSAVFVPCGHVCC--CTLCS---KHLPQCPVCRQRIRLV 349 (355)
T ss_pred CCccceeeecCCcEEE--chHHH---hhCCCCchhHHHHHHH
Confidence 3455678899999944 66655 3456799999988653
No 71
>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=90.10 E-value=0.15 Score=29.08 Aligned_cols=26 Identities=23% Similarity=0.636 Sum_probs=15.7
Q ss_pred CCCCcCcHhhHHHHHhcCCCCCCccc
Q psy11807 11 YCIFIFHEFCIRGWCIVGKKQICPYC 36 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~~~~~tCP~C 36 (88)
.|+=.+|..|++..+...++..||.|
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 46667999999999864444479988
No 72
>KOG2660|consensus
Probab=89.66 E-value=0.087 Score=42.00 Aligned_cols=32 Identities=25% Similarity=0.574 Sum_probs=26.7
Q ss_pred cCCCCcCcHhhHHHHHhcCCCCCCcccccccccc
Q psy11807 10 TYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLK 43 (88)
Q Consensus 10 L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~ 43 (88)
.-|=|.|...||.+-|.. ..+||+|...+.-.
T Consensus 32 ~eCLHTFCkSCivk~l~~--~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 32 TECLHTFCKSCIVKYLEE--SKYCPTCDIVIHKT 63 (331)
T ss_pred HHHHHHHHHHHHHHHHHH--hccCCccceeccCc
Confidence 358999999999999953 78999999887543
No 73
>KOG2879|consensus
Probab=88.95 E-value=0.25 Score=38.85 Aligned_cols=35 Identities=26% Similarity=0.501 Sum_probs=28.5
Q ss_pred ecCCCCcCcHhhHHHHHhcCCCCCCcccccccccc
Q psy11807 9 KTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLK 43 (88)
Q Consensus 9 ~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~ 43 (88)
..+|||+|.--||..=+.....-+||.|-+++.+-
T Consensus 255 ~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 255 IGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred eccccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence 34699999999999877545567999999998743
No 74
>KOG1952|consensus
Probab=88.93 E-value=0.18 Score=44.69 Aligned_cols=28 Identities=36% Similarity=0.918 Sum_probs=21.4
Q ss_pred CCCCcCcHhhHHHHHhcCCC-----CCCccccc
Q psy11807 11 YCIFIFHEFCIRGWCIVGKK-----QICPYCKE 38 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~~~~-----~tCP~CR~ 38 (88)
.|=|+||..||++|-....+ =.||.|+.
T Consensus 212 sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 212 SCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred hhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 36799999999999864222 25999993
No 75
>KOG2932|consensus
Probab=88.62 E-value=0.19 Score=40.40 Aligned_cols=31 Identities=29% Similarity=0.639 Sum_probs=24.8
Q ss_pred eecCCCCcCcHhhHHHHHhcCCCCCCccccccccc
Q psy11807 8 CKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDL 42 (88)
Q Consensus 8 ~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~ 42 (88)
+..+|.|+|..+|-+.= ..+.||.|-.+|..
T Consensus 105 RmIPCkHvFCl~CAr~~----~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 105 RMIPCKHVFCLECARSD----SDKICPLCDDRVQR 135 (389)
T ss_pred cccccchhhhhhhhhcC----ccccCcCcccHHHH
Confidence 45799999999998753 34689999998853
No 76
>KOG2034|consensus
Probab=88.46 E-value=0.21 Score=44.27 Aligned_cols=20 Identities=20% Similarity=0.213 Sum_probs=16.7
Q ss_pred ceeecCCCCcCcHhhHHHHH
Q psy11807 6 MTCKTYCIFIFHEFCIRGWC 25 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl 25 (88)
+-...+|||.||.+||.+=.
T Consensus 831 pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 831 PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cceeeeccchHHHHHHHHHH
Confidence 44567999999999998865
No 77
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.23 E-value=0.3 Score=39.35 Aligned_cols=29 Identities=24% Similarity=0.544 Sum_probs=24.0
Q ss_pred ecCCCCcCcHhhHHHHHhcCCCCCCccccc
Q psy11807 9 KTYCIFIFHEFCIRGWCIVGKKQICPYCKE 38 (88)
Q Consensus 9 ~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~ 38 (88)
+-.|||.|.++||..=|. .....||.|-.
T Consensus 290 T~cC~~~fc~eci~~al~-dsDf~CpnC~r 318 (427)
T COG5222 290 TPCCGHTFCDECIGTALL-DSDFKCPNCSR 318 (427)
T ss_pred CccccchHHHHHHhhhhh-hccccCCCccc
Confidence 346999999999999985 45678999965
No 78
>PHA03096 p28-like protein; Provisional
Probab=87.45 E-value=0.32 Score=37.79 Aligned_cols=30 Identities=23% Similarity=0.279 Sum_probs=22.2
Q ss_pred CCCCcCcHhhHHHHHhc-CCCCCCccccccc
Q psy11807 11 YCIFIFHEFCIRGWCIV-GKKQICPYCKEKV 40 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~-~~~~tCP~CR~~v 40 (88)
.|.|.|...||+.|-.. ..+.+||.||.--
T Consensus 203 ~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~ 233 (284)
T PHA03096 203 EIKHEFNIFCIKIWMTESLYKETEPENRRLN 233 (284)
T ss_pred cCCcHHHHHHHHHHHHhhhhcccCccccchh
Confidence 69999999999999742 1245677777543
No 79
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=86.92 E-value=0.35 Score=38.87 Aligned_cols=34 Identities=24% Similarity=0.468 Sum_probs=24.1
Q ss_pred CCCCc-----CcHhhHHHHHhc-----------CCCCCCccccccccccc
Q psy11807 11 YCIFI-----FHEFCIRGWCIV-----------GKKQICPYCKEKVDLKL 44 (88)
Q Consensus 11 ~C~H~-----FH~~CI~~Wl~~-----------~~~~tCP~CR~~v~~~~ 44 (88)
+|.-. ...+|+-+|+.. +.+-+||+||++.-..+
T Consensus 305 ~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 305 PCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred CCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 45555 467999999842 23569999999875443
No 80
>KOG2817|consensus
Probab=86.87 E-value=0.58 Score=38.17 Aligned_cols=42 Identities=12% Similarity=0.197 Sum_probs=31.5
Q ss_pred CCCCceeecCCCCcCcHhhHHHHHhcCCC--CCCccccccccccc
Q psy11807 2 DNDIMTCKTYCIFIFHEFCIRGWCIVGKK--QICPYCKEKVDLKL 44 (88)
Q Consensus 2 ~~~e~~~~L~C~H~FH~~CI~~Wl~~~~~--~tCP~CR~~v~~~~ 44 (88)
+.+.++..|.|||+--.+=|.+=-. +.. -.||+|=.+....+
T Consensus 345 sdeNPPm~L~CGHVISkdAlnrLS~-ng~~sfKCPYCP~e~~~~~ 388 (394)
T KOG2817|consen 345 SDENPPMMLICGHVISKDALNRLSK-NGSQSFKCPYCPVEQLASD 388 (394)
T ss_pred cCCCCCeeeeccceecHHHHHHHhh-CCCeeeeCCCCCcccCHHh
Confidence 3566789999999999999998643 222 46999987765543
No 81
>KOG1940|consensus
Probab=85.77 E-value=0.62 Score=36.30 Aligned_cols=34 Identities=18% Similarity=0.304 Sum_probs=28.1
Q ss_pred CCCceeecCCCCcCcHhhHHHHHhcCCCCCCccccc
Q psy11807 3 NDIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKE 38 (88)
Q Consensus 3 ~~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~ 38 (88)
..+.+..++|||.-|..|.++=.. +. -+||+|.+
T Consensus 171 s~~~~~~~~CgH~~h~~cf~e~~~-~~-y~CP~C~~ 204 (276)
T KOG1940|consen 171 SFEDAGVLKCGHYMHSRCFEEMIC-EG-YTCPICSK 204 (276)
T ss_pred ccccCCccCcccchHHHHHHHHhc-cC-CCCCcccc
Confidence 345677899999999999988864 33 89999999
No 82
>KOG1814|consensus
Probab=85.41 E-value=0.46 Score=39.21 Aligned_cols=35 Identities=17% Similarity=0.254 Sum_probs=27.9
Q ss_pred CceeecCCCCcCcHhhHHHHHhc------CCCCCCcccccc
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCIV------GKKQICPYCKEK 39 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~~------~~~~tCP~CR~~ 39 (88)
+....|||+|+|...|++..+.+ .+.-.||-+.-+
T Consensus 198 ~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 198 HCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred ceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 67889999999999999999843 234578877644
No 83
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=84.91 E-value=0.38 Score=36.74 Aligned_cols=33 Identities=21% Similarity=0.329 Sum_probs=26.9
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKV 40 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v 40 (88)
..+...|||.|...|..+=+ .+-.+|-+|-+..
T Consensus 208 spvvt~CGH~FC~~Cai~~y--~kg~~C~~Cgk~t 240 (259)
T COG5152 208 SPVVTECGHSFCSLCAIRKY--QKGDECGVCGKAT 240 (259)
T ss_pred chhhhhcchhHHHHHHHHHh--ccCCcceecchhh
Confidence 45567899999999998887 4567999998764
No 84
>KOG1001|consensus
Probab=84.85 E-value=0.34 Score=41.65 Aligned_cols=44 Identities=18% Similarity=0.259 Sum_probs=35.4
Q ss_pred CCceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccccccccc
Q psy11807 4 DIMTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLMFV 47 (88)
Q Consensus 4 ~e~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~~~ 47 (88)
-+.....+|||.|..+|+..=+.......||.||..++.+.+.+
T Consensus 463 ~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 463 LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 34566779999999999999886666667999999988776655
No 85
>KOG0309|consensus
Probab=84.51 E-value=0.6 Score=41.55 Aligned_cols=27 Identities=22% Similarity=0.549 Sum_probs=21.9
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCcc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPY 35 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~ 35 (88)
..-+.|||+-|..|..+|+.. ...||.
T Consensus 1043 ~~Cg~C~Hv~H~sc~~eWf~~--gd~Cps 1069 (1081)
T KOG0309|consen 1043 NFCGTCGHVGHTSCMMEWFRT--GDVCPS 1069 (1081)
T ss_pred hhhccccccccHHHHHHHHhc--CCcCCC
Confidence 345689999999999999964 357885
No 86
>KOG3053|consensus
Probab=84.29 E-value=0.4 Score=37.59 Aligned_cols=28 Identities=25% Similarity=0.606 Sum_probs=21.5
Q ss_pred CcCcHhhHHHHHhcCC-------CCCCccccccccc
Q psy11807 14 FIFHEFCIRGWCIVGK-------KQICPYCKEKVDL 42 (88)
Q Consensus 14 H~FH~~CI~~Wl~~~~-------~~tCP~CR~~v~~ 42 (88)
|--|..|+.+|.. +| .-+||.|+.+...
T Consensus 49 KWVHqsCL~rWiD-EK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 49 KWVHQSCLSRWID-EKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred HHHHHHHHHHHHh-HHhcCCCCceeechhhcchhee
Confidence 7789999999984 22 2379999988643
No 87
>KOG1829|consensus
Probab=83.96 E-value=0.3 Score=41.50 Aligned_cols=30 Identities=27% Similarity=0.719 Sum_probs=22.2
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKV 40 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v 40 (88)
..+-..||++||..|.++= +.-||.|-..-
T Consensus 531 ~~rC~~C~avfH~~C~~r~-----s~~CPrC~R~q 560 (580)
T KOG1829|consen 531 TRRCSTCLAVFHKKCLRRK-----SPCCPRCERRQ 560 (580)
T ss_pred ceeHHHHHHHHHHHHHhcc-----CCCCCchHHHH
Confidence 3455689999999998763 34499996543
No 88
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=83.80 E-value=0.5 Score=33.37 Aligned_cols=22 Identities=14% Similarity=0.078 Sum_probs=18.1
Q ss_pred CCceeecCCC------CcCcHhhHHHHH
Q psy11807 4 DIMTCKTYCI------FIFHEFCIRGWC 25 (88)
Q Consensus 4 ~e~~~~L~C~------H~FH~~CI~~Wl 25 (88)
++.++.++|| |.||.+|+++|-
T Consensus 39 ~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 39 NDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 3567777887 889999999993
No 89
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=83.67 E-value=0.83 Score=37.53 Aligned_cols=38 Identities=13% Similarity=0.329 Sum_probs=29.1
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKL 44 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~ 44 (88)
...+||+|.-...|-.+-=..-++..||.||.+.+.--
T Consensus 74 s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~ 111 (493)
T COG5236 74 SARYPCGHQICHACAVRLRALYMQKGCPLCRTETEAVV 111 (493)
T ss_pred EEeccCCchHHHHHHHHHHHHHhccCCCccccccceEE
Confidence 45789999999999876543345678999999886543
No 90
>KOG1609|consensus
Probab=82.50 E-value=0.69 Score=34.22 Aligned_cols=36 Identities=19% Similarity=0.400 Sum_probs=28.1
Q ss_pred eecCCC-----CcCcHhhHHHHHhcCCCCCCcccccccccc
Q psy11807 8 CKTYCI-----FIFHEFCIRGWCIVGKKQICPYCKEKVDLK 43 (88)
Q Consensus 8 ~~L~C~-----H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~ 43 (88)
...||. ...|..|++.|+....+.+|..|.......
T Consensus 96 l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 96 LISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred cccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 344654 557999999999766788999999876554
No 91
>KOG3113|consensus
Probab=81.74 E-value=1.2 Score=34.90 Aligned_cols=41 Identities=20% Similarity=0.428 Sum_probs=30.2
Q ss_pred CCCCCceeec-CCCCcCcHhhHHHHHhcCCCCCCcccccccccccc
Q psy11807 1 MDNDIMTCKT-YCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLM 45 (88)
Q Consensus 1 m~~~e~~~~L-~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~ 45 (88)
|++--+...| +|||+|-+.=+++- +..+|++|-+.++..+.
T Consensus 121 Mng~~~F~~l~~CGcV~SerAlKei----kas~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 121 MNGKYRFCALRCCGCVFSERALKEI----KASVCHVCGAAYQEDDV 162 (293)
T ss_pred ecceEEEEEEeccceeccHHHHHHh----hhccccccCCcccccCe
Confidence 3444444445 89999999988885 45789999999876654
No 92
>KOG4275|consensus
Probab=80.93 E-value=0.44 Score=38.04 Aligned_cols=35 Identities=20% Similarity=0.356 Sum_probs=23.9
Q ss_pred CCCCCceeecCCCCcC-cHhhHHHHHhcCCCCCCcccccccc
Q psy11807 1 MDNDIMTCKTYCIFIF-HEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 1 m~~~e~~~~L~C~H~F-H~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
|+.--...-|+|||.- .-+|-++ -+.||+||+.+.
T Consensus 307 mDaP~DCvfLeCGHmVtCt~CGkr------m~eCPICRqyi~ 342 (350)
T KOG4275|consen 307 MDAPRDCVFLECGHMVTCTKCGKR------MNECPICRQYIV 342 (350)
T ss_pred hcCCcceEEeecCcEEeehhhccc------cccCchHHHHHH
Confidence 4445566789999973 4455433 358999999763
No 93
>KOG3899|consensus
Probab=80.92 E-value=0.85 Score=36.62 Aligned_cols=33 Identities=18% Similarity=0.471 Sum_probs=24.0
Q ss_pred CCCcCcHhhHHHHHhc-----------CCCCCCccccccccccc
Q psy11807 12 CIFIFHEFCIRGWCIV-----------GKKQICPYCKEKVDLKL 44 (88)
Q Consensus 12 C~H~FH~~CI~~Wl~~-----------~~~~tCP~CR~~v~~~~ 44 (88)
|.-....+|+.+|+.- ..+-+||+||++.-..+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 4445678999999841 23579999999986654
No 94
>KOG1813|consensus
Probab=80.03 E-value=0.63 Score=36.94 Aligned_cols=34 Identities=24% Similarity=0.372 Sum_probs=27.6
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
+.+...|||.|.+.|-..=+ .+...|++|-+...
T Consensus 253 ~pVvt~c~h~fc~~ca~~~~--qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 253 RPVVTKCGHYFCEVCALKPY--QKGEKCYVCSQQTH 286 (313)
T ss_pred cchhhcCCceeehhhhcccc--ccCCcceecccccc
Confidence 34567899999999998887 45578999998764
No 95
>KOG1100|consensus
Probab=79.82 E-value=0.72 Score=34.19 Aligned_cols=33 Identities=18% Similarity=0.468 Sum_probs=23.5
Q ss_pred CCceeecCCCCc-CcHhhHHHHHhcCCCCCCccccccccc
Q psy11807 4 DIMTCKTYCIFI-FHEFCIRGWCIVGKKQICPYCKEKVDL 42 (88)
Q Consensus 4 ~e~~~~L~C~H~-FH~~CI~~Wl~~~~~~tCP~CR~~v~~ 42 (88)
+..+..|||.|. +...|=.. ..+||+|+.....
T Consensus 168 ~~~VlllPCrHl~lC~~C~~~------~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 168 EATVLLLPCRHLCLCGICDES------LRICPICRSPKTS 201 (207)
T ss_pred CceEEeecccceEeccccccc------CccCCCCcChhhc
Confidence 345677899986 66777554 3579999987543
No 96
>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=78.49 E-value=0.66 Score=38.08 Aligned_cols=32 Identities=16% Similarity=0.365 Sum_probs=0.0
Q ss_pred ceeecCCCCcCcHhhHHHHHhc----CCCCCCccccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIV----GKKQICPYCKEKV 40 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~----~~~~tCP~CR~~v 40 (88)
.-+-|.|||++-.+ .|-.. .+..+||+||+.=
T Consensus 303 P~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 303 PWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp ---------------------------------------
T ss_pred ceeeccccceeeec---ccccccccccccccCCCccccC
Confidence 44668999985443 57421 1256899999763
No 97
>KOG3039|consensus
Probab=77.68 E-value=2.6 Score=33.16 Aligned_cols=40 Identities=8% Similarity=0.060 Sum_probs=31.4
Q ss_pred CCceeec-CCCCcCcHhhHHHHHhcCCCCCCcccccccccccc
Q psy11807 4 DIMTCKT-YCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKLM 45 (88)
Q Consensus 4 ~e~~~~L-~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~~ 45 (88)
.-+...| +|||+|-.+|.++-. .+...||+|-++..-+++
T Consensus 234 t~~ca~Lr~sg~Vv~~ecvEkli--r~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 234 TTPCAVLRPSGHVVTKECVEKLI--RKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred ccceEEeccCCcEeeHHHHHHhc--cccccccCCCCcCcccce
Confidence 3344455 899999999999986 466799999998866554
No 98
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=74.33 E-value=3.4 Score=24.39 Aligned_cols=33 Identities=24% Similarity=0.470 Sum_probs=16.1
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKV 40 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v 40 (88)
..-=+||+..-..|-.+=+. +....||-||++.
T Consensus 15 ~~PC~Cgf~IC~~C~~~i~~-~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 15 FYPCECGFQICRFCYHDILE-NEGGRCPGCREPY 47 (48)
T ss_dssp --SSTTS----HHHHHHHTT-SS-SB-TTT--B-
T ss_pred cccCcCCCcHHHHHHHHHHh-ccCCCCCCCCCCC
Confidence 33447899988888777653 3468999999864
No 99
>PF02130 UPF0054: Uncharacterized protein family UPF0054; InterPro: IPR002036 These, as yet, uncharacterised proteins are of 17 to 21 kDa. They contain a conserved region with three histidines at the C terminus. The protein family is represented by a single member sequence only in nearly every bacterium. The crystal structure of the protein from the hyperthermophilic bacteria Aquifex aeolicus has been determined. The overall fold consists of one central alpha-helix surrounded by a four-stranded beta-sheet and four other alpha-helices. Structure-based homology analysis reveals a good resemblance to the metal-dependent proteinases such as collagenases and gelatinases. However, experimental tests for collagenase and gelatinase-type function show no detectable activity under standard assay conditions [].; GO: 0046872 metal ion binding; PDB: 1TVI_A 1OZ9_A 1XM5_A 1XAX_A.
Probab=71.98 E-value=3.4 Score=28.63 Aligned_cols=24 Identities=13% Similarity=0.177 Sum_probs=18.2
Q ss_pred ccccc-hhHHHHHHHHHhhhhccCC
Q psy11807 65 RWLVA-WQPVILALIQGVNYMLDLK 88 (88)
Q Consensus 65 r~~~~-w~p~~~~~~~~~~~~~~~~ 88 (88)
.+..+ +.-+.+.++||+.|++|++
T Consensus 99 e~~~~~~~el~~l~vHG~LHLlGyD 123 (145)
T PF02130_consen 99 EYGHSFEEELARLLVHGLLHLLGYD 123 (145)
T ss_dssp HCTS-HHHHHHHHHHHHHHHHTT-S
T ss_pred HccCChHHHHhHHHHHHHHHHcCCC
Confidence 44555 6678899999999999986
No 100
>TIGR00043 metalloprotein, YbeY/UPF0054 family. This minimally protein family is represented by a single member sequence only in nearly every bacterium. Crystallography demonstrates metal-binding activity, possibly to nickel. It is a predicted to be a metallohydrolase, and somewhat more weakly to be a metalloproteinase.
Probab=70.72 E-value=4.1 Score=27.23 Aligned_cols=25 Identities=8% Similarity=0.073 Sum_probs=20.1
Q ss_pred hccccc-hhHHHHHHHHHhhhhccCC
Q psy11807 64 LRWLVA-WQPVILALIQGVNYMLDLK 88 (88)
Q Consensus 64 ~r~~~~-w~p~~~~~~~~~~~~~~~~ 88 (88)
.++..+ +.-+...++||+.|++|++
T Consensus 63 ~~~~~~~~~e~~~l~iHG~LHLlGyD 88 (110)
T TIGR00043 63 KEYGHSLERELAHLTVHGLLHLLGYD 88 (110)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHcCCC
Confidence 345555 6778899999999999986
No 101
>KOG0269|consensus
Probab=69.62 E-value=3.4 Score=36.58 Aligned_cols=27 Identities=22% Similarity=0.498 Sum_probs=21.6
Q ss_pred CCCCcCcHhhHHHHHhcCCCCCCcc--cccc
Q psy11807 11 YCIFIFHEFCIRGWCIVGKKQICPY--CKEK 39 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~~~~~tCP~--CR~~ 39 (88)
.|||.=|.+|++.|+. +..-||. |-..
T Consensus 798 ~C~H~gH~sh~~sw~~--~~s~ca~~~C~~~ 826 (839)
T KOG0269|consen 798 VCGHGGHDSHLKSWFF--KASPCAKSICPHL 826 (839)
T ss_pred cccccccHHHHHHHHh--cCCCCccccCCcc
Confidence 5999999999999994 5567877 6544
No 102
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=69.60 E-value=3 Score=30.41 Aligned_cols=27 Identities=30% Similarity=0.747 Sum_probs=20.1
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCcccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEK 39 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~ 39 (88)
-.+=-.|+-+||..|..+ ..||.|...
T Consensus 172 ~~~C~~C~~v~H~~C~~~-------~~CpkC~R~ 198 (202)
T PF13901_consen 172 TVRCPKCKSVFHKSCFRK-------KSCPKCARR 198 (202)
T ss_pred eeeCCcCccccchhhcCC-------CCCCCcHhH
Confidence 344457999999999762 469999753
No 103
>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=68.84 E-value=3.7 Score=29.93 Aligned_cols=12 Identities=33% Similarity=1.010 Sum_probs=9.7
Q ss_pred CCCCcccccccc
Q psy11807 30 KQICPYCKEKVD 41 (88)
Q Consensus 30 ~~tCP~CR~~v~ 41 (88)
+-.||+||.+|.
T Consensus 80 ~L~CPLCRG~V~ 91 (162)
T PF07800_consen 80 ELACPLCRGEVK 91 (162)
T ss_pred cccCccccCcee
Confidence 457999999884
No 104
>KOG2066|consensus
Probab=68.82 E-value=1.7 Score=38.51 Aligned_cols=22 Identities=14% Similarity=0.217 Sum_probs=18.6
Q ss_pred CceeecCCCCcCcHhhHHHHHh
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCI 26 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~ 26 (88)
+.+..+.|||.||+.|+..=..
T Consensus 802 ~~~~v~~c~h~yhk~c~~~~~~ 823 (846)
T KOG2066|consen 802 DSVVVFHCGHMYHKECLMMESL 823 (846)
T ss_pred ceeeEEEccchhhhcccccHHH
Confidence 4577889999999999988763
No 105
>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=66.89 E-value=3 Score=21.51 Aligned_cols=12 Identities=33% Similarity=0.761 Sum_probs=9.4
Q ss_pred CCcccccccccc
Q psy11807 32 ICPYCKEKVDLK 43 (88)
Q Consensus 32 tCP~CR~~v~~~ 43 (88)
+||.|++.|...
T Consensus 2 ~CP~C~~~V~~~ 13 (26)
T PF10571_consen 2 TCPECGAEVPES 13 (26)
T ss_pred cCCCCcCCchhh
Confidence 699999988554
No 106
>COG0319 Predicted metal-dependent hydrolase [General function prediction only]
Probab=65.40 E-value=5.7 Score=28.29 Aligned_cols=19 Identities=16% Similarity=0.184 Sum_probs=17.1
Q ss_pred hhHHHHHHHHHhhhhccCC
Q psy11807 70 WQPVILALIQGVNYMLDLK 88 (88)
Q Consensus 70 w~p~~~~~~~~~~~~~~~~ 88 (88)
+.-+....+||+.|++|||
T Consensus 105 ~~e~~~l~vHG~LHLlGYD 123 (153)
T COG0319 105 ERELAHLTIHGILHLLGYD 123 (153)
T ss_pred HHHHHHHHHHHHHHHccCC
Confidence 6678889999999999996
No 107
>KOG3842|consensus
Probab=64.77 E-value=2.6 Score=34.33 Aligned_cols=31 Identities=19% Similarity=0.585 Sum_probs=21.1
Q ss_pred CCceeecCCCCc--CcHhhHHHHHhc----CCCCCCcccccc
Q psy11807 4 DIMTCKTYCIFI--FHEFCIRGWCIV----GKKQICPYCKEK 39 (88)
Q Consensus 4 ~e~~~~L~C~H~--FH~~CI~~Wl~~----~~~~tCP~CR~~ 39 (88)
...-.-|.|||+ +|. |=.. .+...||+||..
T Consensus 314 ~QP~vYl~CGHV~G~H~-----WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 314 KQPWVYLNCGHVHGYHN-----WGVRENTGQRERECPMCRVV 350 (429)
T ss_pred cCCeEEEeccccccccc-----cccccccCcccCcCCeeeee
Confidence 345677899987 664 6421 235689999975
No 108
>PRK00016 metal-binding heat shock protein; Provisional
Probab=63.82 E-value=6 Score=27.99 Aligned_cols=23 Identities=9% Similarity=0.024 Sum_probs=18.9
Q ss_pred cccc-hhHHHHHHHHHhhhhccCC
Q psy11807 66 WLVA-WQPVILALIQGVNYMLDLK 88 (88)
Q Consensus 66 ~~~~-w~p~~~~~~~~~~~~~~~~ 88 (88)
+..+ +.-+.+.++||+.|++||+
T Consensus 105 ~~~s~~~e~~~l~iHG~LHLlGYD 128 (159)
T PRK00016 105 QGHSLERELAHLTVHGILHLLGYD 128 (159)
T ss_pred cCCCHHHHHHHHHHHhhHHhcCCC
Confidence 3344 6788899999999999986
No 109
>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=63.17 E-value=3.7 Score=21.79 Aligned_cols=22 Identities=23% Similarity=0.608 Sum_probs=15.1
Q ss_pred cCCCCcCcHhhHHHHHhcCCCCCCcccccc
Q psy11807 10 TYCIFIFHEFCIRGWCIVGKKQICPYCKEK 39 (88)
Q Consensus 10 L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~ 39 (88)
..|||++-..- ....||.|..+
T Consensus 5 ~~CGy~y~~~~--------~~~~CP~Cg~~ 26 (33)
T cd00350 5 PVCGYIYDGEE--------APWVCPVCGAP 26 (33)
T ss_pred CCCCCEECCCc--------CCCcCcCCCCc
Confidence 35888876654 33479999864
No 110
>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=62.87 E-value=3.1 Score=21.28 Aligned_cols=13 Identities=38% Similarity=0.784 Sum_probs=10.0
Q ss_pred CCccccccccccc
Q psy11807 32 ICPYCKEKVDLKL 44 (88)
Q Consensus 32 tCP~CR~~v~~~~ 44 (88)
.||+|.+.+....
T Consensus 3 ~CPiC~~~v~~~~ 15 (26)
T smart00734 3 QCPVCFREVPENL 15 (26)
T ss_pred cCCCCcCcccHHH
Confidence 6999999985443
No 111
>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=62.14 E-value=2.4 Score=24.61 Aligned_cols=15 Identities=33% Similarity=0.742 Sum_probs=8.0
Q ss_pred CCCCccccccccccc
Q psy11807 30 KQICPYCKEKVDLKL 44 (88)
Q Consensus 30 ~~tCP~CR~~v~~~~ 44 (88)
+..||+|..+++...
T Consensus 20 ~~~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 20 KGCCPLCGRPLDEEH 34 (54)
T ss_dssp SEE-TTT--EE-HHH
T ss_pred CCcCCCCCCCCCHHH
Confidence 348999999987543
No 112
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=61.48 E-value=3.9 Score=30.13 Aligned_cols=21 Identities=29% Similarity=0.525 Sum_probs=16.2
Q ss_pred CCCCCCccccccccccccccc
Q psy11807 28 GKKQICPYCKEKVDLKLMFVN 48 (88)
Q Consensus 28 ~~~~tCP~CR~~v~~~~~~~~ 48 (88)
.++-+||+|.+.+..+.+.+.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~ 23 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSG 23 (214)
T ss_pred CCceECCCCCCeeeeeEEEcC
Confidence 467899999999987765543
No 113
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=55.76 E-value=10 Score=30.90 Aligned_cols=37 Identities=19% Similarity=0.310 Sum_probs=25.8
Q ss_pred CCceeecCCCCcCcHhhHHHHHhcC-CCCCCccccccc
Q psy11807 4 DIMTCKTYCIFIFHEFCIRGWCIVG-KKQICPYCKEKV 40 (88)
Q Consensus 4 ~e~~~~L~C~H~FH~~CI~~Wl~~~-~~~tCP~CR~~v 40 (88)
+..+..|.|||+--.+=++.--+.+ ..-.||+|-..-
T Consensus 349 ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~ 386 (396)
T COG5109 349 ENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS 386 (396)
T ss_pred cCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence 4567889999999999888753211 123699997643
No 114
>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=53.09 E-value=12 Score=21.61 Aligned_cols=31 Identities=19% Similarity=0.474 Sum_probs=11.9
Q ss_pred ceeecCCCCcCcHhh--HHHHHhc---CCCCCCcccccc
Q psy11807 6 MTCKTYCIFIFHEFC--IRGWCIV---GKKQICPYCKEK 39 (88)
Q Consensus 6 ~~~~L~C~H~FH~~C--I~~Wl~~---~~~~tCP~CR~~ 39 (88)
.++.-.|.|. +| ++.||.. .+.=.||+|.++
T Consensus 15 P~Rg~~C~H~---~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 15 PVRGKNCKHL---QCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp EEEETT--SS-----EEHHHHHHHHHHS---B-TTT---
T ss_pred CccCCcCccc---ceECHHHHHHHhhccCCeECcCCcCc
Confidence 3455568776 34 3456543 233469999874
No 115
>KOG0802|consensus
Probab=51.21 E-value=10 Score=31.46 Aligned_cols=30 Identities=30% Similarity=0.848 Sum_probs=24.2
Q ss_pred cCCCCcCcHhhHHHHHhcCCCCCCccccccccccc
Q psy11807 10 TYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKL 44 (88)
Q Consensus 10 L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~ 44 (88)
.+|. |..|.++|+. .+..||.|++.....+
T Consensus 494 ~~~~---~~~~l~~~~~--~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 494 TPCS---HALCLRKWLY--VQEVCPLCHTYMKEDD 523 (543)
T ss_pred cccc---chhHHHhhhh--hccccCCCchhhhccc
Confidence 4666 9999999984 5689999999876554
No 116
>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=49.82 E-value=6.6 Score=23.50 Aligned_cols=31 Identities=16% Similarity=0.421 Sum_probs=21.1
Q ss_pred cCCC-CcCcHhhHHHHHhcCCCCCCccccccccc
Q psy11807 10 TYCI-FIFHEFCIRGWCIVGKKQICPYCKEKVDL 42 (88)
Q Consensus 10 L~C~-H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~ 42 (88)
..|+ |.....|+..=| ++...||+|.+++..
T Consensus 16 i~C~dHYLCl~CLt~ml--~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 16 IKCSDHYLCLNCLTLML--SRSDRCPICGKPLPT 47 (50)
T ss_dssp EE-SS-EEEHHHHHHT---SSSSEETTTTEE---
T ss_pred eeecchhHHHHHHHHHh--ccccCCCcccCcCcc
Confidence 3576 888999999887 567899999998654
No 117
>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=49.14 E-value=7 Score=22.53 Aligned_cols=15 Identities=27% Similarity=0.729 Sum_probs=11.3
Q ss_pred CCCcccccccccccc
Q psy11807 31 QICPYCKEKVDLKLM 45 (88)
Q Consensus 31 ~tCP~CR~~v~~~~~ 45 (88)
-+||+|.+.++..++
T Consensus 3 f~CP~C~~~~~~~~L 17 (54)
T PF05605_consen 3 FTCPYCGKGFSESSL 17 (54)
T ss_pred cCCCCCCCccCHHHH
Confidence 479999997765544
No 118
>PRK13963 unkown domain/putative metalloprotease fusion protein; Provisional
Probab=48.65 E-value=15 Score=28.49 Aligned_cols=19 Identities=11% Similarity=-0.041 Sum_probs=16.5
Q ss_pred hhHHHHHHHHHhhhhccCC
Q psy11807 70 WQPVILALIQGVNYMLDLK 88 (88)
Q Consensus 70 w~p~~~~~~~~~~~~~~~~ 88 (88)
+.-..+.++||+.|++||+
T Consensus 212 ~~El~~LlIHGlLHLLGYD 230 (258)
T PRK13963 212 EAHYAHLLVHGALHAQGYD 230 (258)
T ss_pred HHHHHHHHHHHHHHHcCCC
Confidence 4567788999999999986
No 119
>KOG3800|consensus
Probab=48.32 E-value=12 Score=29.69 Aligned_cols=32 Identities=19% Similarity=0.344 Sum_probs=26.5
Q ss_pred CCCCcCcHhhHHHHHhcCCCCCCcccccccccc
Q psy11807 11 YCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLK 43 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~ 43 (88)
+|||.-.++|+++=+.. ....||-|-...-..
T Consensus 22 ~C~H~lCEsCvd~iF~~-g~~~CpeC~~iLRk~ 53 (300)
T KOG3800|consen 22 ECGHRLCESCVDRIFSL-GPAQCPECMVILRKN 53 (300)
T ss_pred cccchHHHHHHHHHHhc-CCCCCCcccchhhhc
Confidence 89999999999999864 457999998766433
No 120
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=45.65 E-value=13 Score=21.39 Aligned_cols=23 Identities=22% Similarity=0.593 Sum_probs=11.8
Q ss_pred CCCCcCcHhhHHHHHhcCCCCCCccc
Q psy11807 11 YCIFIFHEFCIRGWCIVGKKQICPYC 36 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~~~~~tCP~C 36 (88)
.|||.|-.. |..-. .+...||.|
T Consensus 33 ~Cgh~w~~~-v~~R~--~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRT--RRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-Hhhhc--cCCCCCCCC
Confidence 366665543 22221 345678877
No 121
>KOG4718|consensus
Probab=45.20 E-value=16 Score=28.00 Aligned_cols=28 Identities=29% Similarity=0.787 Sum_probs=22.9
Q ss_pred ecCCCCcCcHhhHHHHHhcCCCCCCccccc
Q psy11807 9 KTYCIFIFHEFCIRGWCIVGKKQICPYCKE 38 (88)
Q Consensus 9 ~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~ 38 (88)
-..||=.+|..|+++-+ ++...||-|..
T Consensus 197 Cg~c~i~~h~~c~qty~--q~~~~cphc~d 224 (235)
T KOG4718|consen 197 CGSCNIQYHRGCIQTYL--QRRDICPHCGD 224 (235)
T ss_pred cCcccchhhhHHHHHHh--cccCcCCchhc
Confidence 34677889999999998 45789999954
No 122
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=44.65 E-value=22 Score=25.38 Aligned_cols=33 Identities=21% Similarity=0.565 Sum_probs=22.7
Q ss_pred CCCcCcHhh-HHHHHhcCCCCCCccccccccccc
Q psy11807 12 CIFIFHEFC-IRGWCIVGKKQICPYCKEKVDLKL 44 (88)
Q Consensus 12 C~H~FH~~C-I~~Wl~~~~~~tCP~CR~~v~~~~ 44 (88)
||-.-...| ..-|---+-...||.|+.+...+.
T Consensus 102 CgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 102 CGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred cchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 665555554 456754466789999999987654
No 123
>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=44.33 E-value=14 Score=22.51 Aligned_cols=17 Identities=18% Similarity=0.485 Sum_probs=13.3
Q ss_pred CCCCCcccccccccccc
Q psy11807 29 KKQICPYCKEKVDLKLM 45 (88)
Q Consensus 29 ~~~tCP~CR~~v~~~~~ 45 (88)
++..||.|-++++.++.
T Consensus 2 ~HkHC~~CG~~Ip~~~~ 18 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDES 18 (59)
T ss_pred CCCcCCcCCCcCCcchh
Confidence 45689999999987654
No 124
>KOG3161|consensus
Probab=43.73 E-value=14 Score=32.72 Aligned_cols=29 Identities=17% Similarity=0.372 Sum_probs=23.2
Q ss_pred ceeecCCCCcCcHhhHHHHHhcCCCCCCcccccc
Q psy11807 6 MTCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEK 39 (88)
Q Consensus 6 ~~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~ 39 (88)
..+.|.|||+-..+|++.=+ +.+|| |+.+
T Consensus 27 ~Pvsl~cghtic~~c~~~ly----n~scp-~~~D 55 (861)
T KOG3161|consen 27 EPVSLQCGHTICGHCVQLLY----NASCP-TKRD 55 (861)
T ss_pred CcccccccchHHHHHHHhHh----hccCC-CCcc
Confidence 35678999999999999876 57899 5544
No 125
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=43.50 E-value=11 Score=23.30 Aligned_cols=13 Identities=31% Similarity=0.754 Sum_probs=10.5
Q ss_pred CCCCccccccccc
Q psy11807 30 KQICPYCKEKVDL 42 (88)
Q Consensus 30 ~~tCP~CR~~v~~ 42 (88)
...||+|++++..
T Consensus 6 ~v~CP~C~k~~~w 18 (62)
T PRK00418 6 TVNCPTCGKPVEW 18 (62)
T ss_pred cccCCCCCCcccc
Confidence 3579999999764
No 126
>PRK01343 zinc-binding protein; Provisional
Probab=42.61 E-value=15 Score=22.42 Aligned_cols=12 Identities=25% Similarity=0.706 Sum_probs=9.9
Q ss_pred CCCCcccccccc
Q psy11807 30 KQICPYCKEKVD 41 (88)
Q Consensus 30 ~~tCP~CR~~v~ 41 (88)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 467999999875
No 127
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=41.68 E-value=11 Score=23.29 Aligned_cols=14 Identities=29% Similarity=0.607 Sum_probs=10.5
Q ss_pred CCCccccccccccc
Q psy11807 31 QICPYCKEKVDLKL 44 (88)
Q Consensus 31 ~tCP~CR~~v~~~~ 44 (88)
-.||.||.++...+
T Consensus 9 LaCP~~kg~L~~~~ 22 (60)
T COG2835 9 LACPVCKGPLVYDE 22 (60)
T ss_pred eeccCcCCcceEec
Confidence 36999999975544
No 128
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=40.69 E-value=14 Score=25.51 Aligned_cols=22 Identities=18% Similarity=0.638 Sum_probs=17.3
Q ss_pred cCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 10 TYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 10 L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
-.|||+|+- .+..||.|..+.+
T Consensus 33 ~~CG~v~~P----------Pr~~Cp~C~~~~~ 54 (140)
T COG1545 33 KKCGRVYFP----------PRAYCPKCGSETE 54 (140)
T ss_pred CCCCeEEcC----------CcccCCCCCCCCc
Confidence 468999873 5678999999853
No 129
>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=39.91 E-value=8.5 Score=23.38 Aligned_cols=13 Identities=31% Similarity=0.802 Sum_probs=7.0
Q ss_pred CCCcccccccccc
Q psy11807 31 QICPYCKEKVDLK 43 (88)
Q Consensus 31 ~tCP~CR~~v~~~ 43 (88)
..||.|++++...
T Consensus 3 v~CP~C~k~~~~~ 15 (57)
T PF03884_consen 3 VKCPICGKPVEWS 15 (57)
T ss_dssp EE-TTT--EEE-S
T ss_pred ccCCCCCCeeccc
Confidence 4699999998764
No 130
>KOG0298|consensus
Probab=39.84 E-value=12 Score=35.17 Aligned_cols=28 Identities=25% Similarity=0.405 Sum_probs=24.0
Q ss_pred cCCCCcCcHhhHHHHHhcCCCCCCcccccc
Q psy11807 10 TYCIFIFHEFCIRGWCIVGKKQICPYCKEK 39 (88)
Q Consensus 10 L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~ 39 (88)
..|||.+-..|+..|+. .+..||+|+..
T Consensus 1170 ~~cgh~~c~~c~~~~l~--~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1170 AGCGHEPCCRCDELWLY--ASSRCPICKSI 1197 (1394)
T ss_pred eeechhHhhhHHHHHHH--HhccCcchhhh
Confidence 47999999999999994 56789999943
No 131
>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=38.78 E-value=16 Score=22.72 Aligned_cols=13 Identities=38% Similarity=1.173 Sum_probs=10.2
Q ss_pred CCCCccccccccc
Q psy11807 30 KQICPYCKEKVDL 42 (88)
Q Consensus 30 ~~tCP~CR~~v~~ 42 (88)
+..||+|+.....
T Consensus 2 k~~CPlCkt~~n~ 14 (61)
T PF05715_consen 2 KSLCPLCKTTLNV 14 (61)
T ss_pred CccCCcccchhhc
Confidence 5789999988643
No 132
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=37.32 E-value=23 Score=24.08 Aligned_cols=31 Identities=16% Similarity=0.371 Sum_probs=22.5
Q ss_pred cCCCCcCcHhhHHHHHhcCCCCCCcccccccccc
Q psy11807 10 TYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLK 43 (88)
Q Consensus 10 L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~ 43 (88)
.-||+.-|.-=+.+... -..||.|+.++++.
T Consensus 63 iiCGvC~~~LT~~EY~~---~~~Cp~C~spFNp~ 93 (105)
T COG4357 63 IICGVCRKLLTRAEYGM---CGSCPYCQSPFNPG 93 (105)
T ss_pred EEhhhhhhhhhHHHHhh---cCCCCCcCCCCCcc
Confidence 45888888877777753 35699999887653
No 133
>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=37.12 E-value=24 Score=23.70 Aligned_cols=24 Identities=25% Similarity=0.571 Sum_probs=11.8
Q ss_pred hHHHHHhcCCCCC-Ccccccccccc
Q psy11807 20 CIRGWCIVGKKQI-CPYCKEKVDLK 43 (88)
Q Consensus 20 CI~~Wl~~~~~~t-CP~CR~~v~~~ 43 (88)
|=.+.+-++|... ||+|-+.+.+.
T Consensus 15 CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 15 CGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CcchhccCCCCCccCCCCCCccCcc
Confidence 3344444444333 66666655544
No 134
>TIGR02183 GRXA Glutaredoxin, GrxA family. This model includes the E. coli glyutaredoxin GrxA which appears to have primary responsibility for the reduction of ribonucleotide reductase.
Probab=36.95 E-value=11 Score=23.29 Aligned_cols=12 Identities=33% Similarity=0.941 Sum_probs=9.2
Q ss_pred CCCCcccccccc
Q psy11807 30 KQICPYCKEKVD 41 (88)
Q Consensus 30 ~~tCP~CR~~v~ 41 (88)
+.+||.|++-..
T Consensus 7 ~~~Cp~C~~ak~ 18 (86)
T TIGR02183 7 RPGCPYCVRAKQ 18 (86)
T ss_pred CCCCccHHHHHH
Confidence 578999996543
No 135
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=35.91 E-value=25 Score=21.84 Aligned_cols=18 Identities=11% Similarity=0.069 Sum_probs=13.1
Q ss_pred CCCCceeecCCCCcCcHh
Q psy11807 2 DNDIMTCKTYCIFIFHEF 19 (88)
Q Consensus 2 ~~~e~~~~L~C~H~FH~~ 19 (88)
++++=+..|.|||.=|..
T Consensus 7 ee~hWVA~L~CGH~QHvR 24 (61)
T PF12088_consen 7 EEGHWVAELSCGHTQHVR 24 (61)
T ss_pred ccCCEEEEeccccccccc
Confidence 345568899999987753
No 136
>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 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=34.17 E-value=12 Score=22.77 Aligned_cols=14 Identities=21% Similarity=0.643 Sum_probs=7.5
Q ss_pred CCCCcccccccccc
Q psy11807 30 KQICPYCKEKVDLK 43 (88)
Q Consensus 30 ~~tCP~CR~~v~~~ 43 (88)
-.+||.|...+...
T Consensus 24 PatCP~C~a~~~~s 37 (54)
T PF09237_consen 24 PATCPICGAVIRQS 37 (54)
T ss_dssp -EE-TTT--EESSH
T ss_pred CCCCCcchhhccch
Confidence 46899999887543
No 138
>PLN02887 hydrolase family protein
Probab=33.73 E-value=34 Score=29.03 Aligned_cols=23 Identities=9% Similarity=0.195 Sum_probs=18.8
Q ss_pred cccc-hhHHHHHHHHHhhhhccCC
Q psy11807 66 WLVA-WQPVILALIQGVNYMLDLK 88 (88)
Q Consensus 66 ~~~~-w~p~~~~~~~~~~~~~~~~ 88 (88)
+..+ +.-+.+.++||+.|++|++
T Consensus 222 ~~~s~~~el~~l~vHG~LHLlGyD 245 (580)
T PLN02887 222 RGHTLLDEIRILVVHGLLHLLGFD 245 (580)
T ss_pred hCCCHHHHHHHHHHHHHHHhcCCC
Confidence 4444 6678889999999999986
No 139
>PHA03050 glutaredoxin; Provisional
Probab=33.21 E-value=12 Score=24.62 Aligned_cols=11 Identities=36% Similarity=1.232 Sum_probs=8.7
Q ss_pred CCCCccccccc
Q psy11807 30 KQICPYCKEKV 40 (88)
Q Consensus 30 ~~tCP~CR~~v 40 (88)
+.+||+|++.-
T Consensus 20 ~~~CPyC~~ak 30 (108)
T PHA03050 20 KFTCPFCRNAL 30 (108)
T ss_pred CCCChHHHHHH
Confidence 57899999654
No 140
>KOG4556|consensus
Probab=33.10 E-value=32 Score=25.84 Aligned_cols=29 Identities=24% Similarity=0.580 Sum_probs=23.9
Q ss_pred hhchhhhhccccchhHHHHHHHHHhhhhccC
Q psy11807 57 YGQLLDWLRWLVAWQPVILALIQGVNYMLDL 87 (88)
Q Consensus 57 ~~~~ld~~r~~~~w~p~~~~~~~~~~~~~~~ 87 (88)
-+...|.++ .-|-|+.+-++|.|+-++||
T Consensus 20 ~RqvFDflG--yqWapilanFvhIiivIlGL 48 (205)
T KOG4556|consen 20 ERQVFDFLG--YQWAPILANFVHIIIVILGL 48 (205)
T ss_pred HHHHHHHhh--hhhHHHHHHHHHHHHHHHHh
Confidence 345578884 57999999999999988886
No 141
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=33.01 E-value=23 Score=21.76 Aligned_cols=14 Identities=29% Similarity=0.871 Sum_probs=10.9
Q ss_pred CCCCCCcccccccc
Q psy11807 28 GKKQICPYCKEKVD 41 (88)
Q Consensus 28 ~~~~tCP~CR~~v~ 41 (88)
+...+||+|..+..
T Consensus 37 ~~~p~CPlC~s~M~ 50 (59)
T PF14169_consen 37 EEEPVCPLCKSPMV 50 (59)
T ss_pred CCCccCCCcCCccc
Confidence 45689999998754
No 142
>PRK11827 hypothetical protein; Provisional
Probab=32.86 E-value=22 Score=21.78 Aligned_cols=13 Identities=31% Similarity=0.703 Sum_probs=10.4
Q ss_pred CCCcccccccccc
Q psy11807 31 QICPYCKEKVDLK 43 (88)
Q Consensus 31 ~tCP~CR~~v~~~ 43 (88)
-.||.|+.++...
T Consensus 9 LaCP~ckg~L~~~ 21 (60)
T PRK11827 9 IACPVCNGKLWYN 21 (60)
T ss_pred eECCCCCCcCeEc
Confidence 4799999988654
No 143
>COG0695 GrxC Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]
Probab=32.69 E-value=13 Score=22.96 Aligned_cols=10 Identities=60% Similarity=1.334 Sum_probs=7.9
Q ss_pred CCCCcccccc
Q psy11807 30 KQICPYCKEK 39 (88)
Q Consensus 30 ~~tCP~CR~~ 39 (88)
+..||+|.+.
T Consensus 8 ~~~CPyC~~a 17 (80)
T COG0695 8 KPGCPYCKRA 17 (80)
T ss_pred CCCCchHHHH
Confidence 5689999864
No 144
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=32.34 E-value=21 Score=24.63 Aligned_cols=17 Identities=35% Similarity=0.792 Sum_probs=13.6
Q ss_pred cCCCCCCcccccccccc
Q psy11807 27 VGKKQICPYCKEKVDLK 43 (88)
Q Consensus 27 ~~~~~tCP~CR~~v~~~ 43 (88)
.++.+.|+.|++++...
T Consensus 82 LGr~D~CM~C~~pLTLd 98 (114)
T PF11023_consen 82 LGRVDACMHCKEPLTLD 98 (114)
T ss_pred hchhhccCcCCCcCccC
Confidence 37778999999998654
No 145
>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=32.19 E-value=28 Score=22.08 Aligned_cols=12 Identities=25% Similarity=0.634 Sum_probs=8.6
Q ss_pred cCcHhhHHHHHh
Q psy11807 15 IFHEFCIRGWCI 26 (88)
Q Consensus 15 ~FH~~CI~~Wl~ 26 (88)
-|...|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 388999999984
No 146
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=31.38 E-value=13 Score=21.97 Aligned_cols=11 Identities=36% Similarity=0.613 Sum_probs=8.7
Q ss_pred CCCCccccccc
Q psy11807 30 KQICPYCKEKV 40 (88)
Q Consensus 30 ~~tCP~CR~~v 40 (88)
+..||.|++.-
T Consensus 6 ~~~Cp~C~~ak 16 (72)
T TIGR02194 6 KNNCVQCKMTK 16 (72)
T ss_pred CCCCHHHHHHH
Confidence 56899999754
No 147
>PF14353 CpXC: CpXC protein
Probab=30.94 E-value=21 Score=23.62 Aligned_cols=12 Identities=25% Similarity=0.952 Sum_probs=8.0
Q ss_pred CCcccccccccc
Q psy11807 32 ICPYCKEKVDLK 43 (88)
Q Consensus 32 tCP~CR~~v~~~ 43 (88)
+||.|.++.+.+
T Consensus 3 tCP~C~~~~~~~ 14 (128)
T PF14353_consen 3 TCPHCGHEFEFE 14 (128)
T ss_pred CCCCCCCeeEEE
Confidence 677777766543
No 148
>PRK13240 pbsY photosystem II protein Y; Reviewed
Probab=30.66 E-value=38 Score=19.31 Aligned_cols=21 Identities=24% Similarity=0.226 Sum_probs=18.8
Q ss_pred ccccchhHHHHHHHHHhhhhc
Q psy11807 65 RWLVAWQPVILALIQGVNYML 85 (88)
Q Consensus 65 r~~~~w~p~~~~~~~~~~~~~ 85 (88)
|.+++.-|++..++=.+||+.
T Consensus 4 RlliVl~Pil~A~~Wa~fNIg 24 (40)
T PRK13240 4 RLLIVLAPILAAAGWAVFNIG 24 (40)
T ss_pred hHHHHHHHHHHHHHHHHHHhh
Confidence 888999999999999999874
No 149
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=30.24 E-value=22 Score=25.49 Aligned_cols=15 Identities=20% Similarity=0.585 Sum_probs=12.1
Q ss_pred CCCCccccccccccc
Q psy11807 30 KQICPYCKEKVDLKL 44 (88)
Q Consensus 30 ~~tCP~CR~~v~~~~ 44 (88)
...||.|++.+..+.
T Consensus 169 ~~~c~~~~~~~~~~~ 183 (187)
T TIGR01367 169 SHECPLCLAGIPAEK 183 (187)
T ss_pred cccCChhhcCCCCcC
Confidence 468999999987654
No 150
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=29.18 E-value=23 Score=20.06 Aligned_cols=14 Identities=36% Similarity=0.683 Sum_probs=10.4
Q ss_pred CCCCcCcHhhHHHH
Q psy11807 11 YCIFIFHEFCIRGW 24 (88)
Q Consensus 11 ~C~H~FH~~CI~~W 24 (88)
.|||.|...|-.+|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 57777777777777
No 151
>PF06298 PsbY: Photosystem II protein Y (PsbY); InterPro: IPR009388 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbY found in PSII. In higher plants, two related PsbY proteins exist, PsbY-1 and PsbY-2, which appear to function as a heterodimer. In spinach and Arabidopsis, these two proteins arise from a single-copy nuclear gene that is processed in the chloroplast. By contrast, prokaryotic and organellar chromosomes encode a single PsbY protein, as found in cyanobacteria and red algae, indicating a duplication event in the evolution of higher plants []. PsbY has two low manganese-dependent activities: a catalase-like activity and an L-arginine metabolising activity that converts L-arginine into ornithine and urea []. In addition, a redox-active group is thought to be present in the protein. In cyanobacteria, PsbY deletion mutants have a slightly impaired PSII that is less capable of coping with low levels of calcium ions than the wild-type.; GO: 0030145 manganese ion binding, 0015979 photosynthesis, 0009523 photosystem II, 0016021 integral to membrane
Probab=29.07 E-value=47 Score=18.56 Aligned_cols=21 Identities=19% Similarity=0.161 Sum_probs=18.6
Q ss_pred ccccchhHHHHHHHHHhhhhc
Q psy11807 65 RWLVAWQPVILALIQGVNYML 85 (88)
Q Consensus 65 r~~~~w~p~~~~~~~~~~~~~ 85 (88)
|.+++.-|++..+.=.+||+.
T Consensus 4 R~liVl~Pil~A~gWa~fNIg 24 (36)
T PF06298_consen 4 RLLIVLLPILPAAGWALFNIG 24 (36)
T ss_pred hhHHHHHHHHHHHHHHHHHhH
Confidence 888999999999998888874
No 152
>CHL00196 psbY photosystem II protein Y; Provisional
Probab=28.97 E-value=47 Score=18.59 Aligned_cols=23 Identities=30% Similarity=0.193 Sum_probs=19.2
Q ss_pred hhhccccchhHHHHHHHHHhhhhc
Q psy11807 62 DWLRWLVAWQPVILALIQGVNYML 85 (88)
Q Consensus 62 d~~r~~~~w~p~~~~~~~~~~~~~ 85 (88)
|+ |.+++.-|++..+.=.+||+.
T Consensus 2 D~-RlliVl~Pil~A~~Wa~fNIg 24 (36)
T CHL00196 2 DT-RLLVIAAPVLAAASWALFNIG 24 (36)
T ss_pred Ch-hHHHHHHHHHHHHHHHHHHhH
Confidence 44 888999999999988888874
No 153
>cd03029 GRX_hybridPRX5 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins. PRX-GRX hybrid proteins from Haemophilus influenza and Neisseria meningitis exhibit GSH-dependent peroxidase activity. The flow of reducing equivalents in the catalytic cycle of the hybrid protein goes from NADPH - GSH reductase - GSH - GRX domain of hybrid - PRX domain of hybrid - peroxide substrate.
Probab=28.27 E-value=16 Score=21.36 Aligned_cols=11 Identities=36% Similarity=0.972 Sum_probs=8.9
Q ss_pred CCCCccccccc
Q psy11807 30 KQICPYCKEKV 40 (88)
Q Consensus 30 ~~tCP~CR~~v 40 (88)
+..||.|++..
T Consensus 8 ~~~Cp~C~~ak 18 (72)
T cd03029 8 KPGCPFCARAK 18 (72)
T ss_pred CCCCHHHHHHH
Confidence 57899999764
No 154
>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=27.21 E-value=22 Score=25.42 Aligned_cols=32 Identities=25% Similarity=0.473 Sum_probs=21.2
Q ss_pred CcHhhHHHHHhc--CCCCCCcccccccccccccc
Q psy11807 16 FHEFCIRGWCIV--GKKQICPYCKEKVDLKLMFV 47 (88)
Q Consensus 16 FH~~CI~~Wl~~--~~~~tCP~CR~~v~~~~~~~ 47 (88)
||..|++.=|.. ...=.||.|+.+-..+.+..
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~~~~ 35 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQSAMP 35 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCCcccc
Confidence 899999876532 22347999998765554433
No 155
>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=25.73 E-value=58 Score=22.94 Aligned_cols=13 Identities=46% Similarity=0.897 Sum_probs=8.0
Q ss_pred CCCCCCccccccc
Q psy11807 28 GKKQICPYCKEKV 40 (88)
Q Consensus 28 ~~~~tCP~CR~~v 40 (88)
+.|.+||.|-+++
T Consensus 7 GtKr~Cp~cg~kF 19 (129)
T TIGR02300 7 GTKRICPNTGSKF 19 (129)
T ss_pred CccccCCCcCccc
Confidence 4556666666654
No 156
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=25.51 E-value=26 Score=17.42 Aligned_cols=15 Identities=27% Similarity=0.654 Sum_probs=11.2
Q ss_pred CCCcccccccccccc
Q psy11807 31 QICPYCKEKVDLKLM 45 (88)
Q Consensus 31 ~tCP~CR~~v~~~~~ 45 (88)
..||.|...+....+
T Consensus 3 ~~C~~CgR~F~~~~l 17 (25)
T PF13913_consen 3 VPCPICGRKFNPDRL 17 (25)
T ss_pred CcCCCCCCEECHHHH
Confidence 469999998866544
No 157
>PRK11200 grxA glutaredoxin 1; Provisional
Probab=25.35 E-value=21 Score=21.67 Aligned_cols=13 Identities=38% Similarity=1.017 Sum_probs=9.8
Q ss_pred CCCCccccccccc
Q psy11807 30 KQICPYCKEKVDL 42 (88)
Q Consensus 30 ~~tCP~CR~~v~~ 42 (88)
+..||.|++-...
T Consensus 8 ~~~C~~C~~a~~~ 20 (85)
T PRK11200 8 RPGCPYCVRAKEL 20 (85)
T ss_pred CCCChhHHHHHHH
Confidence 5689999976543
No 158
>KOG1812|consensus
Probab=24.61 E-value=33 Score=27.51 Aligned_cols=22 Identities=18% Similarity=0.182 Sum_probs=17.6
Q ss_pred CceeecCCCCcCcHhhHHHHHh
Q psy11807 5 IMTCKTYCIFIFHEFCIRGWCI 26 (88)
Q Consensus 5 e~~~~L~C~H~FH~~CI~~Wl~ 26 (88)
+....+.|+|.|..+|+++=..
T Consensus 161 ~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 161 DMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred hhHHHhcccchhhhHHhHHHhh
Confidence 3344678999999999998875
No 159
>TIGR01295 PedC_BrcD bacteriocin transport accessory protein, putative. This model describes a small family of proteins believed to aid in the export of various class II bacteriocins, which are ribosomally-synthesized, non-lantibiotic bacterial peptide antibiotics. Members of this family are found in operons for pediocin PA-1 from Pediococcus acidilactici and brochocin-C from Brochothrix campestris.
Probab=24.60 E-value=25 Score=23.33 Aligned_cols=11 Identities=36% Similarity=1.259 Sum_probs=8.5
Q ss_pred CCCCccccccc
Q psy11807 30 KQICPYCKEKV 40 (88)
Q Consensus 30 ~~tCP~CR~~v 40 (88)
..+||.||.-.
T Consensus 32 ~~~Cp~C~~~~ 42 (122)
T TIGR01295 32 RKTCPYCRKFS 42 (122)
T ss_pred CCCChhHHHHh
Confidence 46899999754
No 160
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=24.49 E-value=34 Score=25.24 Aligned_cols=10 Identities=30% Similarity=1.072 Sum_probs=8.7
Q ss_pred CCcccccccc
Q psy11807 32 ICPYCKEKVD 41 (88)
Q Consensus 32 tCP~CR~~v~ 41 (88)
.||+|++++.
T Consensus 4 ~CP~C~~~l~ 13 (272)
T PRK11088 4 QCPLCHQPLT 13 (272)
T ss_pred cCCCCCcchh
Confidence 6999999985
No 161
>COG5595 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]
Probab=24.27 E-value=39 Score=25.93 Aligned_cols=21 Identities=29% Similarity=0.472 Sum_probs=16.1
Q ss_pred cCCCCCCcccccccccccccc
Q psy11807 27 VGKKQICPYCKEKVDLKLMFV 47 (88)
Q Consensus 27 ~~~~~tCP~CR~~v~~~~~~~ 47 (88)
.++...||.|.+++..++...
T Consensus 215 qek~r~CPsC~k~Wqlk~~i~ 235 (256)
T COG5595 215 QEKYRCCPSCGKDWQLKNPIF 235 (256)
T ss_pred hhccCCCCcccccceeccchh
Confidence 356678999999998876433
No 162
>TIGR02189 GlrX-like_plant Glutaredoxin-like family. This family of glutaredoxin-like proteins is aparrently limited to plants. Multiple isoforms are found in A. thaliana and O.sativa.
Probab=24.23 E-value=21 Score=22.90 Aligned_cols=11 Identities=18% Similarity=0.489 Sum_probs=8.7
Q ss_pred CCCCccccccc
Q psy11807 30 KQICPYCKEKV 40 (88)
Q Consensus 30 ~~tCP~CR~~v 40 (88)
+..||.|++--
T Consensus 15 k~~Cp~C~~ak 25 (99)
T TIGR02189 15 RSSCCMCHVVK 25 (99)
T ss_pred CCCCHHHHHHH
Confidence 57899999654
No 163
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=24.17 E-value=38 Score=18.44 Aligned_cols=13 Identities=23% Similarity=0.641 Sum_probs=9.4
Q ss_pred CCccccccccccc
Q psy11807 32 ICPYCKEKVDLKL 44 (88)
Q Consensus 32 tCP~CR~~v~~~~ 44 (88)
.||.|+..+....
T Consensus 1 ~CP~C~~~l~~~~ 13 (41)
T PF13453_consen 1 KCPRCGTELEPVR 13 (41)
T ss_pred CcCCCCcccceEE
Confidence 4999998765444
No 164
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=24.15 E-value=17 Score=20.45 Aligned_cols=11 Identities=55% Similarity=1.186 Sum_probs=8.7
Q ss_pred CCCCccccccc
Q psy11807 30 KQICPYCKEKV 40 (88)
Q Consensus 30 ~~tCP~CR~~v 40 (88)
+.+||.|++-.
T Consensus 6 ~~~C~~C~~~~ 16 (60)
T PF00462_consen 6 KPGCPYCKKAK 16 (60)
T ss_dssp STTSHHHHHHH
T ss_pred cCCCcCHHHHH
Confidence 46899999764
No 165
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=23.99 E-value=44 Score=27.65 Aligned_cols=37 Identities=22% Similarity=0.412 Sum_probs=23.8
Q ss_pred eeecCCCCcCcHhhHHHHHhcCCCCCCccccccccccc
Q psy11807 7 TCKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVDLKL 44 (88)
Q Consensus 7 ~~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~~~~ 44 (88)
...-+||.....-|-..=- .+-+..||-||...+-++
T Consensus 31 f~pc~cgy~ic~fc~~~ir-q~lngrcpacrr~y~den 67 (480)
T COG5175 31 FFPCPCGYQICQFCYNNIR-QNLNGRCPACRRKYDDEN 67 (480)
T ss_pred cccCCcccHHHHHHHHHHH-hhccCCChHhhhhccccc
Confidence 3445899876666644332 244678999998775443
No 166
>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=23.91 E-value=31 Score=17.76 Aligned_cols=11 Identities=36% Similarity=0.845 Sum_probs=6.1
Q ss_pred CCccccccccc
Q psy11807 32 ICPYCKEKVDL 42 (88)
Q Consensus 32 tCP~CR~~v~~ 42 (88)
+||.|-.++..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 59999988763
No 167
>PF13395 HNH_4: HNH endonuclease
Probab=23.76 E-value=37 Score=19.52 Aligned_cols=15 Identities=33% Similarity=1.123 Sum_probs=12.4
Q ss_pred Ccccccccccccccc
Q psy11807 33 CPYCKEKVDLKLMFV 47 (88)
Q Consensus 33 CP~CR~~v~~~~~~~ 47 (88)
||+|-++++..++..
T Consensus 1 C~Y~g~~i~~~~l~~ 15 (54)
T PF13395_consen 1 CPYCGKPISIENLFK 15 (54)
T ss_pred CCCCCCCCChhhccc
Confidence 999999998887544
No 168
>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=23.55 E-value=54 Score=20.26 Aligned_cols=18 Identities=11% Similarity=0.414 Sum_probs=13.5
Q ss_pred CCCCCCcccccccccccc
Q psy11807 28 GKKQICPYCKEKVDLKLM 45 (88)
Q Consensus 28 ~~~~tCP~CR~~v~~~~~ 45 (88)
+....|+.|.+++..+.+
T Consensus 76 ~~~~~C~vC~k~l~~~~f 93 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVF 93 (109)
T ss_pred CCCCCccCcCCcCCCceE
Confidence 345789999999876543
No 169
>KOG4692|consensus
Probab=23.51 E-value=51 Score=27.45 Aligned_cols=32 Identities=22% Similarity=0.294 Sum_probs=26.7
Q ss_pred eecCCCCcCcHhhHHHHHhcCCCCCCcccccccc
Q psy11807 8 CKTYCIFIFHEFCIRGWCIVGKKQICPYCKEKVD 41 (88)
Q Consensus 8 ~~L~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v~ 41 (88)
+--||+|.-...||.+=+. ..+.|=.|+..+.
T Consensus 436 vf~PC~H~SC~~CI~qHlm--N~k~CFfCktTv~ 467 (489)
T KOG4692|consen 436 VFAPCSHRSCYGCITQHLM--NCKRCFFCKTTVI 467 (489)
T ss_pred hccCCCCchHHHHHHHHHh--cCCeeeEecceee
Confidence 4459999999999999984 3458999998875
No 170
>cd02066 GRX_family Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known including human GRX1 and GRX2, as well as E. coli GRX1 and GRX3, which
Probab=23.44 E-value=22 Score=19.55 Aligned_cols=11 Identities=55% Similarity=1.292 Sum_probs=8.4
Q ss_pred CCCCccccccc
Q psy11807 30 KQICPYCKEKV 40 (88)
Q Consensus 30 ~~tCP~CR~~v 40 (88)
+..||.|++-.
T Consensus 7 ~~~Cp~C~~~~ 17 (72)
T cd02066 7 KSTCPYCKRAK 17 (72)
T ss_pred CCCCHHHHHHH
Confidence 46799999764
No 171
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=23.41 E-value=44 Score=22.50 Aligned_cols=24 Identities=33% Similarity=0.627 Sum_probs=16.9
Q ss_pred CCCCcCcHhhHHHHHhcCCCCCCccccccc
Q psy11807 11 YCIFIFHEFCIRGWCIVGKKQICPYCKEKV 40 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~~~~~tCP~CR~~v 40 (88)
.||..|-.+= +++-..||.|+..+
T Consensus 63 kCGfef~~~~------ik~pSRCP~CKSE~ 86 (97)
T COG3357 63 KCGFEFRDDK------IKKPSRCPKCKSEW 86 (97)
T ss_pred ccCccccccc------cCCcccCCcchhhc
Confidence 5888887732 34456799999764
No 172
>PF04376 ATE_N: Arginine-tRNA-protein transferase, N terminus; InterPro: IPR007471 Arginine-tRNA-protein transferase catalyses the post-translational conjugation of arginine to the N terminus of a protein. In eukaryotes, this functions as part of the N terminus rule pathway of protein degradation by conjugating a destabilising amino acid to the N-terminal aspartate or glutamate of a protein, targeting the protein for ubiquitin-dependent proteolysis. N-terminal cysteine is sometimes modified []. In Saccharomyces cerevisiae, Cys20, 23, 94 and/or 95 are thought to be important for activity []. Of these, only Cys 94 appears to be completely conserved in this family. This entry represents the N-terminal region of the enzyme arginine-tRNA-protein transferase, found in both eukaryotic and prokaryotic enzymes.; GO: 0004057 arginyltransferase activity, 0016598 protein arginylation
Probab=22.78 E-value=68 Score=20.07 Aligned_cols=35 Identities=23% Similarity=0.245 Sum_probs=19.1
Q ss_pred CCCCCCcccccccccccccc--cCCCCCcchhhchhh
Q psy11807 28 GKKQICPYCKEKVDLKLMFV--NLWEKPHVFYGQLLD 62 (88)
Q Consensus 28 ~~~~tCP~CR~~v~~~~~~~--~p~~~~~~~~~~~ld 62 (88)
.....||+|........... ..-.-+...|..|+|
T Consensus 5 ~~~~~C~Y~~~~~~~~~~~~~~~~~~~~~~~y~~Ll~ 41 (80)
T PF04376_consen 5 TQPSSCGYCPGRSARSSYTYGAPSESLSPEDYQQLLD 41 (80)
T ss_pred CCCCcCCCCCCCccCEEEEeccccccCCHHHHHHHHH
Confidence 34678999986554443332 222334445655554
No 173
>KOG4443|consensus
Probab=22.76 E-value=53 Score=28.88 Aligned_cols=29 Identities=24% Similarity=0.697 Sum_probs=22.3
Q ss_pred CCCCcCcHhhHHHHHhc---CCCCCCcccccc
Q psy11807 11 YCIFIFHEFCIRGWCIV---GKKQICPYCKEK 39 (88)
Q Consensus 11 ~C~H~FH~~CI~~Wl~~---~~~~tCP~CR~~ 39 (88)
.||-.||..|...|+.. ++--.||-||.-
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvC 71 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVC 71 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceee
Confidence 58899999999999831 333569999854
No 174
>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=22.64 E-value=60 Score=20.93 Aligned_cols=21 Identities=19% Similarity=0.569 Sum_probs=14.0
Q ss_pred HHHHHhcCCCCCCcccccccccc
Q psy11807 21 IRGWCIVGKKQICPYCKEKVDLK 43 (88)
Q Consensus 21 I~~Wl~~~~~~tCP~CR~~v~~~ 43 (88)
|-.|+. .+..|..|++++...
T Consensus 51 i~S~l~--lrGrCr~C~~~I~~~ 71 (92)
T PF06750_consen 51 ILSYLL--LRGRCRYCGAPIPPR 71 (92)
T ss_pred HHHHHH--hCCCCcccCCCCChH
Confidence 556664 356788888877654
No 175
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=22.60 E-value=49 Score=17.83 Aligned_cols=6 Identities=33% Similarity=0.827 Sum_probs=3.2
Q ss_pred CCCCcC
Q psy11807 11 YCIFIF 16 (88)
Q Consensus 11 ~C~H~F 16 (88)
.|||.|
T Consensus 30 ~C~~~f 35 (36)
T PF13717_consen 30 KCGHVF 35 (36)
T ss_pred CCCCEe
Confidence 455555
No 176
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=22.45 E-value=27 Score=18.94 Aligned_cols=15 Identities=27% Similarity=0.558 Sum_probs=10.8
Q ss_pred CCCcccccccccccc
Q psy11807 31 QICPYCKEKVDLKLM 45 (88)
Q Consensus 31 ~tCP~CR~~v~~~~~ 45 (88)
-+||.|..+|.....
T Consensus 5 ~~C~nC~R~v~a~Rf 19 (33)
T PF08209_consen 5 VECPNCGRPVAASRF 19 (33)
T ss_dssp EE-TTTSSEEEGGGH
T ss_pred EECCCCcCCcchhhh
Confidence 479999999877653
No 177
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.23 E-value=51 Score=23.77 Aligned_cols=17 Identities=12% Similarity=0.180 Sum_probs=13.0
Q ss_pred CCCCceeecCCCCcCcH
Q psy11807 2 DNDIMTCKTYCIFIFHE 18 (88)
Q Consensus 2 ~~~e~~~~L~C~H~FH~ 18 (88)
+.++++.+-.|||.|..
T Consensus 65 s~~~rv~rcecghsf~d 81 (165)
T COG4647 65 SAQKRVIRCECGHSFGD 81 (165)
T ss_pred cccccEEEEeccccccC
Confidence 35667888899999864
No 178
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=21.84 E-value=44 Score=19.92 Aligned_cols=14 Identities=29% Similarity=0.729 Sum_probs=10.5
Q ss_pred CCCccccccccccc
Q psy11807 31 QICPYCKEKVDLKL 44 (88)
Q Consensus 31 ~tCP~CR~~v~~~~ 44 (88)
.+||.|-+.+...+
T Consensus 3 ~~CP~CG~~iev~~ 16 (54)
T TIGR01206 3 FECPDCGAEIELEN 16 (54)
T ss_pred cCCCCCCCEEecCC
Confidence 47999999886643
No 179
>cd02977 ArsC_family Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from glutathione (GSH) via glutaredoxin (GRX), through a single catalytic cysteine. This family of predominantly bacterial enzymes is unrelated to two other families of arsenate reductases which show similarity to low-molecular-weight acid phosphatases and phosphotyrosyl phosphatases. Spx is a general regulator that exerts negative and positive control over transcription initiation by binding to the C-terminal domain of the alpha subunit of RNA polymerase.
Probab=21.76 E-value=25 Score=22.30 Aligned_cols=11 Identities=9% Similarity=0.401 Sum_probs=8.9
Q ss_pred CCCCccccccc
Q psy11807 30 KQICPYCKEKV 40 (88)
Q Consensus 30 ~~tCP~CR~~v 40 (88)
+..||.||+..
T Consensus 6 ~~~C~~c~ka~ 16 (105)
T cd02977 6 NPNCSTSRKAL 16 (105)
T ss_pred CCCCHHHHHHH
Confidence 57899999765
No 180
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=21.59 E-value=42 Score=24.39 Aligned_cols=16 Identities=25% Similarity=0.742 Sum_probs=12.4
Q ss_pred CCCCCCcccccccccc
Q psy11807 28 GKKQICPYCKEKVDLK 43 (88)
Q Consensus 28 ~~~~tCP~CR~~v~~~ 43 (88)
+..-.||.||+.+..-
T Consensus 7 Gpei~CPhCRQ~ipAL 22 (163)
T TIGR02652 7 GPEIRCPHCRQNIPAL 22 (163)
T ss_pred CCcCcCchhhcccchh
Confidence 4567899999998654
No 181
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=21.48 E-value=41 Score=19.92 Aligned_cols=12 Identities=42% Similarity=1.245 Sum_probs=9.4
Q ss_pred CCcccccccccc
Q psy11807 32 ICPYCKEKVDLK 43 (88)
Q Consensus 32 tCP~CR~~v~~~ 43 (88)
+||+|-+.++..
T Consensus 2 ~CPyCge~~~~~ 13 (52)
T PF14255_consen 2 QCPYCGEPIEIL 13 (52)
T ss_pred CCCCCCCeeEEE
Confidence 699999887553
No 182
>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=21.38 E-value=23 Score=16.35 Aligned_cols=12 Identities=33% Similarity=0.825 Sum_probs=8.9
Q ss_pred CCcccccccccc
Q psy11807 32 ICPYCKEKVDLK 43 (88)
Q Consensus 32 tCP~CR~~v~~~ 43 (88)
.||.|.+....+
T Consensus 2 ~C~~C~~~f~~~ 13 (23)
T PF00096_consen 2 KCPICGKSFSSK 13 (23)
T ss_dssp EETTTTEEESSH
T ss_pred CCCCCCCccCCH
Confidence 489998876554
No 183
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=21.35 E-value=28 Score=20.37 Aligned_cols=12 Identities=17% Similarity=0.243 Sum_probs=9.3
Q ss_pred CCCCcccccccc
Q psy11807 30 KQICPYCKEKVD 41 (88)
Q Consensus 30 ~~tCP~CR~~v~ 41 (88)
...||.|++...
T Consensus 8 ~~~C~~C~ka~~ 19 (73)
T cd03027 8 RLGCEDCTAVRL 19 (73)
T ss_pred cCCChhHHHHHH
Confidence 468999997654
No 184
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=21.22 E-value=43 Score=24.25 Aligned_cols=16 Identities=25% Similarity=0.737 Sum_probs=12.1
Q ss_pred CCCCCCcccccccccc
Q psy11807 28 GKKQICPYCKEKVDLK 43 (88)
Q Consensus 28 ~~~~tCP~CR~~v~~~ 43 (88)
+..-.||.||+.+..-
T Consensus 4 Gpei~CPhCRq~ipAL 19 (161)
T PF09654_consen 4 GPEIQCPHCRQTIPAL 19 (161)
T ss_pred CCcCcCchhhcccchh
Confidence 4456899999998654
No 185
>PRK10638 glutaredoxin 3; Provisional
Probab=21.14 E-value=28 Score=21.04 Aligned_cols=13 Identities=38% Similarity=1.042 Sum_probs=9.7
Q ss_pred CCCCccccccccc
Q psy11807 30 KQICPYCKEKVDL 42 (88)
Q Consensus 30 ~~tCP~CR~~v~~ 42 (88)
+..||.|++-...
T Consensus 9 ~~~Cp~C~~a~~~ 21 (83)
T PRK10638 9 KATCPFCHRAKAL 21 (83)
T ss_pred CCCChhHHHHHHH
Confidence 5789999976543
No 186
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=21.07 E-value=35 Score=15.19 Aligned_cols=12 Identities=33% Similarity=0.808 Sum_probs=6.8
Q ss_pred CCcccccccccc
Q psy11807 32 ICPYCKEKVDLK 43 (88)
Q Consensus 32 tCP~CR~~v~~~ 43 (88)
.||+|.+.....
T Consensus 2 ~C~~C~~~~~~~ 13 (24)
T PF13894_consen 2 QCPICGKSFRSK 13 (24)
T ss_dssp E-SSTS-EESSH
T ss_pred CCcCCCCcCCcH
Confidence 489998876543
No 187
>PF05182 Fip1: Fip1 motif; InterPro: IPR007854 This short motif is about 40 amino acids in length and is found in the Fip1 protein that is a component of a Saccharomyces cerevisiae pre-mRNA polyadenylation factor that directly interacts with poly(A) polymerase []. This region of Fip1 is needed for the interaction with the Yth1 subunit of the complex and for specific polyadenylation of the cleaved mRNA precursor [].
Probab=20.94 E-value=65 Score=18.69 Aligned_cols=28 Identities=21% Similarity=0.376 Sum_probs=20.2
Q ss_pred ccccccccccCCCCCcchhhchhhhhccccc
Q psy11807 39 KVDLKLMFVNLWEKPHVFYGQLLDWLRWLVA 69 (88)
Q Consensus 39 ~v~~~~~~~~p~~~~~~~~~~~ld~~r~~~~ 69 (88)
++++..+..-||.+..+.- .|...|++.
T Consensus 2 d~d~d~~~~KPWr~pGaDi---sDyFNYGf~ 29 (45)
T PF05182_consen 2 DVDIDSFEEKPWRKPGADI---SDYFNYGFN 29 (45)
T ss_pred CcChhhhccCCccCCCCCh---hhhcCCCCC
Confidence 3566667778999998875 567777654
No 188
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=20.69 E-value=28 Score=20.55 Aligned_cols=12 Identities=42% Similarity=1.077 Sum_probs=9.1
Q ss_pred CCCCcccccccc
Q psy11807 30 KQICPYCKEKVD 41 (88)
Q Consensus 30 ~~tCP~CR~~v~ 41 (88)
+..||.|++-..
T Consensus 6 ~~~Cp~C~~a~~ 17 (79)
T TIGR02181 6 KPYCPYCTRAKA 17 (79)
T ss_pred cCCChhHHHHHH
Confidence 468999997643
No 189
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=20.50 E-value=39 Score=18.77 Aligned_cols=14 Identities=36% Similarity=0.871 Sum_probs=10.8
Q ss_pred CCCCcccccccccc
Q psy11807 30 KQICPYCKEKVDLK 43 (88)
Q Consensus 30 ~~tCP~CR~~v~~~ 43 (88)
..+||.|..++..+
T Consensus 21 ~~~Cp~CG~~~~~~ 34 (46)
T PRK00398 21 GVRCPYCGYRILFK 34 (46)
T ss_pred ceECCCCCCeEEEc
Confidence 46899999887654
No 190
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=20.25 E-value=62 Score=16.06 Aligned_cols=12 Identities=33% Similarity=0.966 Sum_probs=7.9
Q ss_pred CCCccccccccc
Q psy11807 31 QICPYCKEKVDL 42 (88)
Q Consensus 31 ~tCP~CR~~v~~ 42 (88)
..||.|.+.++.
T Consensus 3 ~~Cp~Cg~~~~~ 14 (26)
T PF13248_consen 3 MFCPNCGAEIDP 14 (26)
T ss_pred CCCcccCCcCCc
Confidence 368888876543
Done!