Query psy2200
Match_columns 248
No_of_seqs 356 out of 2415
Neff 8.3
Searched_HMMs 46136
Date Fri Aug 16 18:47:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2200.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2200hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0823|consensus 99.9 4.4E-21 9.5E-26 156.9 10.7 109 129-237 43-167 (230)
2 PLN03208 E3 ubiquitin-protein 99.7 5.6E-17 1.2E-21 130.7 9.9 85 129-214 14-111 (193)
3 KOG0823|consensus 99.6 3.5E-16 7.5E-21 128.2 5.5 67 30-96 43-137 (230)
4 PF15227 zf-C3HC4_4: zinc fing 99.4 1.6E-13 3.5E-18 84.7 2.9 41 136-176 1-42 (42)
5 KOG0320|consensus 99.3 2.6E-12 5.7E-17 101.2 5.7 58 130-190 128-187 (187)
6 KOG0317|consensus 99.3 1.8E-12 3.9E-17 109.5 4.8 56 130-188 236-291 (293)
7 smart00504 Ubox Modified RING 99.3 7E-13 1.5E-17 89.3 1.7 58 134-194 2-59 (63)
8 PF13923 zf-C3HC4_2: Zinc fing 99.2 6.4E-12 1.4E-16 76.4 2.7 38 136-176 1-39 (39)
9 PF13639 zf-RING_2: Ring finge 99.2 8E-12 1.7E-16 78.1 2.2 40 135-177 2-44 (44)
10 PF13920 zf-C3HC4_3: Zinc fing 99.2 1.2E-11 2.5E-16 79.5 3.0 46 133-181 2-48 (50)
11 TIGR00599 rad18 DNA repair pro 99.1 2.9E-11 6.2E-16 108.6 1.2 66 127-195 20-85 (397)
12 PHA02929 N1R/p28-like protein; 99.1 1.2E-10 2.5E-15 98.0 4.1 47 132-181 173-227 (238)
13 PF04564 U-box: U-box domain; 99.1 6.3E-11 1.4E-15 82.2 1.9 61 132-194 3-63 (73)
14 PF00097 zf-C3HC4: Zinc finger 99.0 1.8E-10 4E-15 70.7 3.2 40 136-176 1-41 (41)
15 PF13445 zf-RING_UBOX: RING-ty 99.0 3.4E-10 7.3E-15 69.9 2.4 38 136-174 1-43 (43)
16 KOG2164|consensus 99.0 3.7E-10 8E-15 102.3 3.6 62 133-194 186-249 (513)
17 KOG0287|consensus 98.9 1.7E-10 3.6E-15 99.3 -0.5 65 128-195 18-82 (442)
18 cd00162 RING RING-finger (Real 98.9 1.2E-09 2.5E-14 67.7 3.4 44 135-180 1-45 (45)
19 PHA02926 zinc finger-like prot 98.9 9.5E-10 2.1E-14 90.0 3.1 61 130-190 167-239 (242)
20 COG5574 PEX10 RING-finger-cont 98.9 8.2E-10 1.8E-14 92.4 2.3 53 131-185 213-266 (271)
21 PF14634 zf-RING_5: zinc-RING 98.8 2.6E-09 5.7E-14 66.6 2.2 41 135-178 1-44 (44)
22 smart00184 RING Ring finger. E 98.8 4.6E-09 1E-13 62.7 3.0 39 136-176 1-39 (39)
23 KOG0978|consensus 98.8 3.7E-10 8.1E-15 106.7 -3.5 66 123-190 633-698 (698)
24 PF12678 zf-rbx1: RING-H2 zinc 98.8 4.9E-09 1.1E-13 72.6 2.8 40 135-177 21-73 (73)
25 COG5432 RAD18 RING-finger-cont 98.8 2.6E-09 5.7E-14 90.3 1.5 63 127-192 19-81 (391)
26 KOG4628|consensus 98.7 9.6E-09 2.1E-13 90.3 3.7 49 134-184 230-281 (348)
27 PLN03208 E3 ubiquitin-protein 98.7 1.3E-08 2.8E-13 82.4 3.9 34 31-64 15-49 (193)
28 PF15227 zf-C3HC4_4: zinc fing 98.7 5.9E-09 1.3E-13 64.2 0.7 30 37-66 1-31 (42)
29 PF14835 zf-RING_6: zf-RING of 98.6 5E-09 1.1E-13 69.2 -1.1 54 132-190 6-60 (65)
30 COG5243 HRD1 HRD ubiquitin lig 98.6 3.5E-08 7.7E-13 86.2 3.4 48 132-182 286-346 (491)
31 KOG4172|consensus 98.5 8.2E-09 1.8E-13 65.4 -0.9 51 134-188 8-59 (62)
32 PF12861 zf-Apc11: Anaphase-pr 98.5 7.2E-08 1.6E-12 67.7 3.3 49 134-182 22-83 (85)
33 COG5540 RING-finger-containing 98.4 1.7E-07 3.7E-12 79.9 3.3 47 133-181 323-372 (374)
34 KOG2177|consensus 98.4 1E-07 2.2E-12 82.5 1.1 46 130-178 10-55 (386)
35 KOG0802|consensus 98.4 1.9E-07 4.1E-12 88.4 2.6 51 132-185 290-345 (543)
36 KOG0317|consensus 98.3 1.5E-07 3.4E-12 79.9 1.4 50 25-76 230-280 (293)
37 KOG0824|consensus 98.3 3.3E-07 7.2E-12 78.2 1.7 51 134-186 8-58 (324)
38 TIGR00570 cdk7 CDK-activating 98.2 9.7E-07 2.1E-11 76.6 3.4 52 134-187 4-60 (309)
39 KOG3039|consensus 98.1 6.2E-06 1.3E-10 68.6 6.1 56 132-190 220-279 (303)
40 KOG4265|consensus 98.1 2.3E-06 5E-11 75.0 3.7 48 131-181 288-336 (349)
41 KOG4159|consensus 98.1 1.9E-06 4.1E-11 77.8 2.4 51 129-182 80-130 (398)
42 KOG0320|consensus 98.0 3.5E-06 7.6E-11 66.9 2.1 36 28-63 125-162 (187)
43 PF13923 zf-C3HC4_2: Zinc fing 97.9 2E-06 4.4E-11 51.9 0.0 30 37-66 1-32 (39)
44 KOG0311|consensus 97.9 1.2E-06 2.7E-11 76.3 -1.8 53 128-182 38-91 (381)
45 PF11789 zf-Nse: Zinc-finger o 97.9 6.5E-06 1.4E-10 54.0 1.6 43 132-175 10-53 (57)
46 KOG1785|consensus 97.9 6.9E-06 1.5E-10 72.7 2.2 56 135-191 371-426 (563)
47 COG5152 Uncharacterized conser 97.8 8.2E-06 1.8E-10 65.8 1.9 46 132-180 195-240 (259)
48 smart00504 Ubox Modified RING 97.8 9.4E-06 2E-10 54.1 1.0 41 34-76 1-42 (63)
49 KOG0827|consensus 97.7 2E-05 4.3E-10 69.6 2.4 53 134-186 5-61 (465)
50 PF00097 zf-C3HC4: Zinc finger 97.7 7.1E-06 1.5E-10 50.0 -0.3 30 37-66 1-32 (41)
51 KOG1039|consensus 97.7 1.8E-05 3.9E-10 70.1 2.2 62 131-192 159-232 (344)
52 KOG2660|consensus 97.7 8.7E-06 1.9E-10 70.6 -0.2 54 129-185 11-65 (331)
53 KOG0297|consensus 97.6 2.2E-05 4.7E-10 71.5 2.0 55 130-187 18-73 (391)
54 PF04641 Rtf2: Rtf2 RING-finge 97.6 0.00011 2.3E-09 63.4 6.0 137 31-194 31-174 (260)
55 PF11793 FANCL_C: FANCL C-term 97.6 1.4E-05 3E-10 54.8 0.3 49 133-181 2-66 (70)
56 KOG1734|consensus 97.6 1.7E-05 3.6E-10 66.9 0.7 55 133-188 224-288 (328)
57 smart00744 RINGv The RING-vari 97.6 5.3E-05 1.1E-09 48.1 2.8 42 135-177 1-49 (49)
58 KOG2879|consensus 97.6 6.8E-05 1.5E-09 63.5 4.1 50 131-181 237-287 (298)
59 PF13445 zf-RING_UBOX: RING-ty 97.6 8.1E-06 1.8E-10 50.3 -1.2 27 37-64 1-32 (43)
60 COG5574 PEX10 RING-finger-cont 97.6 1.6E-05 3.4E-10 67.0 0.1 31 32-62 213-244 (271)
61 KOG0824|consensus 97.5 2.6E-05 5.6E-10 66.9 0.9 135 35-181 8-151 (324)
62 KOG1813|consensus 97.5 3.1E-05 6.7E-10 66.2 1.3 46 133-181 241-286 (313)
63 TIGR00599 rad18 DNA repair pro 97.5 2.7E-05 5.8E-10 70.4 0.7 47 29-77 21-68 (397)
64 KOG0804|consensus 97.5 4.7E-05 1E-09 68.5 2.2 46 131-181 173-222 (493)
65 KOG1645|consensus 97.5 2E-05 4.2E-10 70.1 -0.2 60 134-194 5-69 (463)
66 COG5194 APC11 Component of SCF 97.5 8.6E-05 1.9E-09 51.1 2.5 29 150-181 53-81 (88)
67 PF04564 U-box: U-box domain; 97.3 6.9E-05 1.5E-09 51.8 0.8 43 32-75 2-45 (73)
68 KOG0825|consensus 97.3 4.8E-05 1E-09 72.6 -0.8 56 132-190 122-180 (1134)
69 KOG0828|consensus 97.2 0.00012 2.7E-09 66.6 1.4 49 131-181 569-634 (636)
70 PF14447 Prok-RING_4: Prokaryo 97.2 0.00016 3.5E-09 46.4 1.6 48 133-185 7-54 (55)
71 KOG4275|consensus 97.2 6.1E-05 1.3E-09 64.3 -0.7 42 133-181 300-342 (350)
72 KOG1493|consensus 97.2 9.2E-05 2E-09 50.5 0.3 32 150-181 50-81 (84)
73 smart00184 RING Ring finger. E 97.2 0.00012 2.5E-09 43.1 0.6 29 37-65 1-30 (39)
74 PF13920 zf-C3HC4_3: Zinc fing 97.2 0.0001 2.3E-09 46.9 0.3 32 34-65 2-35 (50)
75 PF13639 zf-RING_2: Ring finge 97.2 8.1E-05 1.8E-09 46.0 -0.3 31 36-66 2-36 (44)
76 COG5219 Uncharacterized conser 97.1 0.00015 3.1E-09 70.7 0.8 50 131-181 1467-1523(1525)
77 KOG1002|consensus 97.1 0.00025 5.4E-09 65.2 1.8 57 129-185 532-590 (791)
78 KOG1571|consensus 97.1 0.00034 7.3E-09 61.6 2.4 47 129-181 301-347 (355)
79 KOG4692|consensus 97.0 0.0004 8.7E-09 60.9 2.5 48 132-182 421-468 (489)
80 KOG2164|consensus 96.9 0.00018 4E-09 65.9 -0.3 31 34-64 186-217 (513)
81 PHA02929 N1R/p28-like protein; 96.8 0.00043 9.4E-09 58.5 1.0 42 32-75 172-222 (238)
82 COG5432 RAD18 RING-finger-cont 96.8 0.00025 5.5E-09 60.6 -0.7 54 28-82 19-72 (391)
83 KOG2930|consensus 96.8 0.00072 1.6E-08 48.9 1.6 28 150-180 80-107 (114)
84 KOG0826|consensus 96.7 0.00063 1.4E-08 59.1 1.0 56 131-189 298-354 (357)
85 KOG0287|consensus 96.7 0.00014 3.1E-09 63.3 -3.0 53 29-82 18-70 (442)
86 cd00162 RING RING-finger (Real 96.6 0.0007 1.5E-08 41.1 0.6 31 36-66 1-33 (45)
87 COG5222 Uncharacterized conser 96.5 0.0012 2.5E-08 56.8 1.6 55 134-190 275-331 (427)
88 KOG4159|consensus 96.4 0.00073 1.6E-08 61.2 -0.0 38 29-66 79-117 (398)
89 PF11789 zf-Nse: Zinc-finger o 96.4 0.00078 1.7E-08 44.1 -0.0 42 32-73 9-52 (57)
90 KOG4628|consensus 96.3 0.0054 1.2E-07 54.5 4.7 42 35-77 230-275 (348)
91 PF14634 zf-RING_5: zinc-RING 96.3 0.0012 2.6E-08 40.8 0.2 28 36-63 1-32 (44)
92 COG5236 Uncharacterized conser 96.2 0.0059 1.3E-07 53.6 4.3 51 129-180 57-107 (493)
93 PF07800 DUF1644: Protein of u 96.2 0.0048 1E-07 48.4 3.2 53 133-185 2-95 (162)
94 KOG2177|consensus 96.2 0.00077 1.7E-08 58.1 -1.5 47 29-76 8-54 (386)
95 KOG4367|consensus 96.0 0.003 6.5E-08 57.0 1.5 38 131-168 2-39 (699)
96 KOG1001|consensus 96.0 0.0016 3.4E-08 63.2 -0.3 52 134-187 455-506 (674)
97 PF05290 Baculo_IE-1: Baculovi 96.0 0.0059 1.3E-07 46.5 2.7 52 132-183 79-134 (140)
98 KOG4739|consensus 95.8 0.0028 6E-08 53.1 0.5 47 134-185 4-52 (233)
99 KOG1941|consensus 95.8 0.003 6.5E-08 56.2 0.7 47 133-180 365-415 (518)
100 KOG0802|consensus 95.8 0.0079 1.7E-07 57.2 3.3 47 132-185 478-524 (543)
101 PF14570 zf-RING_4: RING/Ubox 95.7 0.0045 9.6E-08 38.9 1.0 43 136-180 1-47 (48)
102 PF14835 zf-RING_6: zf-RING of 95.7 0.0041 8.9E-08 41.3 0.7 29 33-61 6-35 (65)
103 KOG4185|consensus 95.7 0.007 1.5E-07 53.0 2.4 45 134-180 4-54 (296)
104 PF12678 zf-rbx1: RING-H2 zinc 95.6 0.0048 1E-07 42.5 0.8 33 36-68 21-67 (73)
105 KOG1814|consensus 95.4 0.0072 1.6E-07 54.2 1.4 47 131-177 182-236 (445)
106 COG5152 Uncharacterized conser 95.4 0.0048 1E-07 50.1 0.3 36 34-69 196-232 (259)
107 KOG2817|consensus 95.4 0.013 2.7E-07 52.6 2.8 57 130-186 331-390 (394)
108 KOG1814|consensus 95.1 0.0076 1.6E-07 54.1 0.6 32 31-62 181-215 (445)
109 KOG0804|consensus 95.0 0.0081 1.8E-07 54.5 0.5 31 34-64 175-210 (493)
110 PHA02926 zinc finger-like prot 94.9 0.0056 1.2E-07 50.8 -0.5 33 32-64 168-210 (242)
111 KOG1813|consensus 94.8 0.016 3.5E-07 49.9 1.9 42 28-69 235-277 (313)
112 PHA03096 p28-like protein; Pro 94.5 0.019 4.1E-07 50.0 1.6 46 134-179 179-232 (284)
113 KOG3800|consensus 94.4 0.027 5.9E-07 48.4 2.2 49 135-185 2-55 (300)
114 KOG3002|consensus 94.3 0.026 5.6E-07 49.5 1.9 47 129-181 44-91 (299)
115 PF02891 zf-MIZ: MIZ/SP-RING z 94.0 0.064 1.4E-06 34.1 2.9 45 134-179 3-50 (50)
116 KOG0978|consensus 93.8 0.012 2.7E-07 56.6 -1.0 35 31-65 640-675 (698)
117 KOG1428|consensus 93.6 0.05 1.1E-06 56.0 2.8 52 131-182 3484-3545(3738)
118 PHA02825 LAP/PHD finger-like p 93.5 0.091 2E-06 41.4 3.6 48 133-182 8-60 (162)
119 KOG2932|consensus 93.5 0.029 6.3E-07 48.6 0.9 45 132-181 89-134 (389)
120 PHA02862 5L protein; Provision 93.5 0.054 1.2E-06 41.9 2.2 47 134-182 3-54 (156)
121 PF08746 zf-RING-like: RING-li 93.4 0.082 1.8E-06 32.4 2.5 40 136-176 1-43 (43)
122 KOG0311|consensus 93.4 0.004 8.6E-08 54.8 -4.6 36 31-66 40-77 (381)
123 COG5175 MOT2 Transcriptional r 93.3 0.055 1.2E-06 47.6 2.3 51 134-186 15-69 (480)
124 PF10367 Vps39_2: Vacuolar sor 93.3 0.026 5.6E-07 41.4 0.3 31 131-161 76-108 (109)
125 TIGR00570 cdk7 CDK-activating 93.3 0.038 8.2E-07 48.4 1.3 48 34-81 3-55 (309)
126 PF12906 RINGv: RING-variant d 93.2 0.063 1.4E-06 33.6 1.8 40 136-176 1-47 (47)
127 KOG3113|consensus 93.0 0.16 3.4E-06 43.0 4.4 59 128-191 106-168 (293)
128 KOG3161|consensus 93.0 0.032 6.9E-07 52.8 0.3 38 132-174 10-51 (861)
129 KOG1100|consensus 92.9 0.055 1.2E-06 45.0 1.6 39 136-181 161-200 (207)
130 KOG1952|consensus 92.8 0.072 1.6E-06 52.1 2.4 50 132-181 190-247 (950)
131 KOG3970|consensus 92.8 0.085 1.8E-06 43.8 2.5 48 134-181 51-105 (299)
132 KOG4362|consensus 92.6 0.025 5.3E-07 54.4 -1.0 54 132-185 20-73 (684)
133 PF10272 Tmpp129: Putative tra 92.3 0.085 1.8E-06 47.3 2.1 36 151-186 311-356 (358)
134 KOG0298|consensus 92.0 0.045 9.8E-07 55.7 0.0 49 127-178 1147-1196(1394)
135 KOG1940|consensus 91.9 0.078 1.7E-06 45.8 1.3 42 134-178 159-204 (276)
136 PF03854 zf-P11: P-11 zinc fin 91.8 0.058 1.3E-06 33.5 0.3 44 134-182 3-47 (50)
137 KOG2114|consensus 91.7 0.085 1.8E-06 51.6 1.5 41 133-179 840-881 (933)
138 PF05883 Baculo_RING: Baculovi 91.6 0.082 1.8E-06 40.5 1.1 34 133-166 26-68 (134)
139 KOG3039|consensus 91.4 0.14 3E-06 43.2 2.2 37 130-166 40-76 (303)
140 KOG4445|consensus 91.3 0.06 1.3E-06 46.6 0.0 50 133-182 115-187 (368)
141 KOG1571|consensus 90.5 0.18 3.9E-06 44.8 2.3 29 29-57 300-328 (355)
142 COG5540 RING-finger-containing 90.3 0.1 2.2E-06 45.3 0.6 39 35-74 324-366 (374)
143 KOG4275|consensus 89.3 0.14 3.1E-06 44.1 0.7 23 34-56 300-322 (350)
144 KOG1815|consensus 89.2 0.071 1.5E-06 49.5 -1.3 33 32-64 68-101 (444)
145 COG5109 Uncharacterized conser 89.0 0.28 6E-06 42.9 2.2 57 129-185 332-391 (396)
146 KOG3899|consensus 88.6 0.22 4.9E-06 42.9 1.4 37 151-187 325-371 (381)
147 COG5243 HRD1 HRD ubiquitin lig 88.5 0.41 8.9E-06 42.8 2.9 44 33-78 286-343 (491)
148 KOG3268|consensus 88.4 0.31 6.7E-06 39.1 1.9 34 149-182 188-229 (234)
149 KOG3579|consensus 87.6 0.27 5.9E-06 42.3 1.3 37 132-168 267-307 (352)
150 KOG4367|consensus 87.4 0.23 5.1E-06 45.2 0.8 27 33-59 3-29 (699)
151 COG5220 TFB3 Cdk activating ki 86.8 0.18 3.9E-06 42.4 -0.2 50 134-185 11-68 (314)
152 KOG4172|consensus 86.8 0.068 1.5E-06 34.2 -2.1 40 34-74 7-48 (62)
153 KOG1645|consensus 84.7 0.23 5E-06 44.8 -0.6 39 36-74 6-50 (463)
154 PF12861 zf-Apc11: Anaphase-pr 83.2 0.65 1.4E-05 32.8 1.3 39 37-75 35-77 (85)
155 KOG4265|consensus 82.2 0.62 1.3E-05 41.4 1.0 49 30-79 286-335 (349)
156 KOG1815|consensus 81.9 0.8 1.7E-05 42.6 1.7 58 131-188 68-133 (444)
157 KOG1812|consensus 79.9 0.88 1.9E-05 41.5 1.2 50 133-182 146-204 (384)
158 KOG0297|consensus 79.6 1.6 3.5E-05 39.8 2.9 42 31-74 18-61 (391)
159 COG3813 Uncharacterized protei 79.4 1.2 2.5E-05 30.3 1.4 38 150-192 26-63 (84)
160 KOG2034|consensus 76.5 1.4 3E-05 43.8 1.5 35 131-165 815-851 (911)
161 PF06906 DUF1272: Protein of u 75.6 2.6 5.7E-05 27.2 2.1 45 135-184 7-55 (57)
162 PF04710 Pellino: Pellino; In 74.5 0.99 2.1E-05 40.8 0.0 32 147-181 305-339 (416)
163 KOG1002|consensus 73.8 1 2.2E-05 42.2 -0.1 47 31-77 533-583 (791)
164 KOG1785|consensus 73.0 1.2 2.5E-05 40.4 0.1 38 36-73 371-409 (563)
165 PF10571 UPF0547: Uncharacteri 72.6 1.7 3.7E-05 23.5 0.7 21 135-155 2-24 (26)
166 KOG1001|consensus 72.1 1.9 4E-05 42.3 1.2 23 35-58 455-477 (674)
167 KOG0309|consensus 70.9 3 6.4E-05 40.9 2.2 40 133-175 1028-1069(1081)
168 PF14447 Prok-RING_4: Prokaryo 70.9 2.5 5.4E-05 27.3 1.2 31 32-62 5-35 (55)
169 PF07800 DUF1644: Protein of u 70.8 2.2 4.9E-05 33.7 1.2 20 35-54 3-22 (162)
170 COG5222 Uncharacterized conser 70.8 1 2.2E-05 39.1 -0.7 28 35-62 275-303 (427)
171 KOG2879|consensus 69.8 5.5 0.00012 34.4 3.4 47 32-78 237-285 (298)
172 PF06844 DUF1244: Protein of u 68.6 3.3 7.1E-05 27.7 1.4 13 154-166 11-23 (68)
173 KOG0825|consensus 68.4 3.5 7.6E-05 40.6 2.2 49 132-180 95-153 (1134)
174 KOG3053|consensus 68.4 3 6.4E-05 35.6 1.5 51 131-181 18-82 (293)
175 PF07191 zinc-ribbons_6: zinc- 67.8 0.22 4.7E-06 33.8 -4.3 40 134-181 2-41 (70)
176 COG5183 SSM4 Protein involved 66.0 4.1 9E-05 40.2 2.1 51 134-185 13-70 (1175)
177 PF10235 Cript: Microtubule-as 65.0 4 8.6E-05 29.2 1.4 37 134-182 45-81 (90)
178 KOG2979|consensus 62.5 3.7 8E-05 35.0 1.0 43 133-176 176-219 (262)
179 PF14569 zf-UDP: Zinc-binding 61.3 12 0.00025 26.0 3.1 49 134-184 10-65 (80)
180 KOG1812|consensus 60.8 4 8.6E-05 37.3 1.0 35 134-168 307-346 (384)
181 PF10367 Vps39_2: Vacuolar sor 60.7 5.6 0.00012 28.7 1.6 27 33-59 77-106 (109)
182 KOG2068|consensus 60.6 5.5 0.00012 35.2 1.8 45 134-181 250-298 (327)
183 KOG1734|consensus 57.4 6.7 0.00015 33.8 1.7 48 28-75 218-276 (328)
184 PF14446 Prok-RING_1: Prokaryo 57.0 11 0.00023 24.3 2.2 28 134-161 6-37 (54)
185 KOG0828|consensus 56.2 3 6.5E-05 38.8 -0.6 36 32-67 569-622 (636)
186 KOG4185|consensus 54.7 2.2 4.9E-05 37.2 -1.6 44 134-179 208-265 (296)
187 PF07975 C1_4: TFIIH C1-like d 54.4 10 0.00022 24.1 1.8 25 150-177 26-50 (51)
188 KOG4718|consensus 54.0 7.1 0.00015 32.4 1.3 43 133-178 181-224 (235)
189 KOG3970|consensus 53.2 9 0.0002 32.1 1.8 65 35-99 51-124 (299)
190 PF04216 FdhE: Protein involve 53.0 2.3 5E-05 37.1 -1.8 45 132-179 171-220 (290)
191 KOG0827|consensus 49.4 5.4 0.00012 36.1 -0.1 46 135-183 198-247 (465)
192 PF01363 FYVE: FYVE zinc finge 46.9 4 8.8E-05 27.2 -1.0 29 134-162 10-42 (69)
193 smart00647 IBR In Between Ring 46.9 3.4 7.3E-05 26.8 -1.4 14 150-163 45-58 (64)
194 KOG3842|consensus 46.7 7.4 0.00016 34.3 0.3 31 147-180 318-351 (429)
195 KOG0269|consensus 46.6 19 0.0004 35.5 3.0 45 133-180 779-827 (839)
196 KOG4692|consensus 46.4 5.9 0.00013 35.4 -0.3 24 35-58 423-446 (489)
197 KOG2113|consensus 46.1 19 0.00042 31.7 2.8 45 131-180 341-386 (394)
198 smart00132 LIM Zinc-binding do 45.5 14 0.0003 20.8 1.4 34 136-180 2-37 (39)
199 PF10146 zf-C4H2: Zinc finger- 45.4 15 0.00033 31.0 2.0 27 155-184 196-222 (230)
200 smart00064 FYVE Protein presen 45.2 16 0.00035 24.1 1.8 32 134-165 11-46 (68)
201 PF04641 Rtf2: Rtf2 RING-finge 45.0 15 0.00032 31.6 1.9 30 30-59 109-142 (260)
202 KOG2169|consensus 44.9 18 0.0004 35.3 2.7 57 130-186 303-361 (636)
203 TIGR01562 FdhE formate dehydro 42.7 4.7 0.0001 35.6 -1.5 45 132-179 183-233 (305)
204 COG4647 AcxC Acetone carboxyla 42.5 13 0.00029 28.3 1.1 22 138-159 62-83 (165)
205 KOG0289|consensus 41.6 20 0.00044 33.0 2.3 53 135-190 2-55 (506)
206 COG3492 Uncharacterized protei 41.5 13 0.00028 26.5 0.9 14 154-167 42-55 (104)
207 KOG3161|consensus 41.4 3.3 7.1E-05 39.8 -2.8 40 28-67 5-49 (861)
208 KOG4362|consensus 41.1 7.4 0.00016 37.9 -0.6 23 34-56 21-43 (684)
209 KOG1609|consensus 41.1 40 0.00088 29.2 4.2 50 133-183 78-136 (323)
210 KOG4451|consensus 40.9 18 0.00038 30.5 1.7 26 155-183 251-276 (286)
211 COG5236 Uncharacterized conser 40.8 25 0.00055 31.5 2.7 39 18-56 45-83 (493)
212 KOG2231|consensus 40.5 20 0.00044 34.9 2.3 47 135-181 2-52 (669)
213 smart00249 PHD PHD zinc finger 40.1 10 0.00022 22.4 0.1 27 136-162 2-31 (47)
214 PF05605 zf-Di19: Drought indu 39.3 8.6 0.00019 24.4 -0.3 41 133-181 2-42 (54)
215 cd00065 FYVE FYVE domain; Zinc 38.8 20 0.00043 22.6 1.4 30 135-164 4-37 (57)
216 PRK03564 formate dehydrogenase 37.0 11 0.00023 33.4 -0.2 44 132-178 186-234 (309)
217 KOG1356|consensus 37.0 9 0.00019 38.1 -0.7 48 133-180 229-281 (889)
218 KOG1829|consensus 36.7 13 0.00029 35.6 0.4 31 33-63 339-375 (580)
219 KOG0801|consensus 36.5 13 0.00027 29.6 0.2 25 132-156 176-203 (205)
220 PF12773 DZR: Double zinc ribb 36.3 27 0.00057 21.5 1.6 27 155-181 14-40 (50)
221 PF09538 FYDLN_acid: Protein o 35.4 29 0.00063 25.7 2.0 28 29-56 4-36 (108)
222 PF10497 zf-4CXXC_R1: Zinc-fin 35.3 36 0.00078 25.0 2.5 28 152-179 37-70 (105)
223 PLN02189 cellulose synthase 34.9 32 0.00068 35.4 2.7 47 134-182 35-88 (1040)
224 PLN02436 cellulose synthase A 34.9 31 0.00068 35.5 2.7 47 134-182 37-90 (1094)
225 KOG3842|consensus 33.3 44 0.00095 29.6 3.0 52 132-183 340-416 (429)
226 PF13240 zinc_ribbon_2: zinc-r 32.4 6.1 0.00013 20.6 -1.5 7 172-178 15-21 (23)
227 PLN02638 cellulose synthase A 31.5 39 0.00085 34.9 2.7 46 134-181 18-70 (1079)
228 smart00154 ZnF_AN1 AN1-like Zi 31.4 33 0.00072 20.3 1.4 22 136-157 1-24 (39)
229 PF00412 LIM: LIM domain; Int 30.9 22 0.00047 22.4 0.6 38 136-184 1-40 (58)
230 smart00290 ZnF_UBP Ubiquitin C 30.1 33 0.00071 21.0 1.3 23 136-158 2-24 (50)
231 PF13894 zf-C2H2_4: C2H2-type 29.6 23 0.00051 17.4 0.5 11 35-45 1-11 (24)
232 PLN02195 cellulose synthase A 29.3 53 0.0011 33.6 3.2 47 134-182 7-60 (977)
233 KOG1701|consensus 28.8 18 0.00039 33.2 -0.1 33 134-166 428-465 (468)
234 PLN02400 cellulose synthase 28.7 39 0.00085 34.9 2.2 47 134-182 37-90 (1085)
235 TIGR00622 ssl1 transcription f 28.3 51 0.0011 24.6 2.2 25 150-177 86-110 (112)
236 KOG0826|consensus 28.2 39 0.00085 30.0 1.9 52 25-78 290-344 (357)
237 PF01485 IBR: IBR domain; Int 27.2 6.4 0.00014 25.4 -2.5 13 151-163 46-58 (64)
238 PF08882 Acetone_carb_G: Aceto 26.5 34 0.00074 25.4 1.0 13 146-158 24-36 (112)
239 KOG1039|consensus 26.4 21 0.00045 32.1 -0.2 32 32-63 159-199 (344)
240 PF10083 DUF2321: Uncharacteri 26.3 33 0.00072 27.1 1.0 25 153-183 28-52 (158)
241 PF14353 CpXC: CpXC protein 26.0 52 0.0011 24.7 2.0 49 134-182 2-50 (128)
242 KOG2807|consensus 25.4 41 0.00089 29.9 1.5 40 135-177 332-374 (378)
243 PF04423 Rad50_zn_hook: Rad50 25.2 25 0.00054 22.2 0.1 12 172-183 22-33 (54)
244 COG4098 comFA Superfamily II D 24.6 33 0.00072 31.0 0.8 31 131-161 37-68 (441)
245 KOG2042|consensus 24.2 70 0.0015 32.7 3.0 60 130-192 867-927 (943)
246 PLN02248 cellulose synthase-li 23.8 1.5E+02 0.0032 31.1 5.2 33 150-185 149-181 (1135)
247 PLN02915 cellulose synthase A 23.4 95 0.0021 32.1 3.7 47 134-182 16-69 (1044)
248 KOG3799|consensus 23.2 58 0.0013 25.1 1.7 46 131-180 63-117 (169)
249 PF00096 zf-C2H2: Zinc finger, 22.9 28 0.00061 17.3 0.0 12 35-46 1-12 (23)
250 PRK11088 rrmA 23S rRNA methylt 22.5 48 0.001 28.3 1.4 23 34-56 2-27 (272)
251 PF00301 Rubredoxin: Rubredoxi 22.3 33 0.00071 21.4 0.2 14 29-42 29-42 (47)
252 PF06750 DiS_P_DiS: Bacterial 22.3 88 0.0019 22.3 2.5 37 134-182 34-70 (92)
253 KOG1074|consensus 22.1 1.3E+02 0.0027 30.4 4.2 14 131-144 603-616 (958)
254 KOG0006|consensus 22.1 74 0.0016 28.3 2.4 37 131-167 219-257 (446)
255 PF01428 zf-AN1: AN1-like Zinc 21.1 48 0.001 19.9 0.8 21 139-159 6-27 (43)
256 PF12660 zf-TFIIIC: Putative z 21.1 6.7 0.00014 28.5 -3.6 48 134-182 15-67 (99)
257 cd00730 rubredoxin Rubredoxin; 20.9 38 0.00082 21.3 0.3 15 29-43 29-43 (50)
No 1
>KOG0823|consensus
Probab=99.85 E-value=4.4e-21 Score=156.89 Aligned_cols=109 Identities=51% Similarity=1.079 Sum_probs=90.3
Q ss_pred CCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecCCCCCCCCCCCC-CCCCC
Q psy2200 129 DKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGRGGSSKTDPRDK-VPPRP 207 (248)
Q Consensus 129 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~~-~~~rp 207 (248)
.....+.|.||++..++||++.|||+|||.||++|++.+.+.+.||+|+..+..+.++|+|+++....++++.+ +|+||
T Consensus 43 ~~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~~~~~~vP~RP 122 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSKKPSDPRKKDVPPRP 122 (230)
T ss_pred CCCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCCCCCCcccccCCCCC
Confidence 34567999999999999999999999999999999999888889999999999999999999999888888777 99999
Q ss_pred CCCCCCCCC-----CC--Ccc-cCC-------CcEEeeecccchh
Q psy2200 208 QGQRTEPEN-----SS--SCY-LLE-------TVFHFCVQFCTSG 237 (248)
Q Consensus 208 ~~~~~~~~~-----~~--~~~-~g~-------~~f~~~~g~~~~~ 237 (248)
+++|.+..+ .+ .++ +|. ..|++++|+....
T Consensus 123 ~~~R~e~~~p~~~~~~~~g~r~~g~~~~~~~~~~f~~s~~i~~~~ 167 (230)
T KOG0823|consen 123 AGQRYESKRPTPQNRGNHGFRFFGFRLGEESSNRFMYSFGIGLFG 167 (230)
T ss_pred CCccccccCCCCccccccccccccccccccCCcceeEEeecccCC
Confidence 999975322 22 333 221 1388888876433
No 2
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.71 E-value=5.6e-17 Score=130.69 Aligned_cols=85 Identities=44% Similarity=1.125 Sum_probs=70.7
Q ss_pred CCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhC-------------CCCCcccccccccccCCceeeecCCCCC
Q psy2200 129 DKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETC-------------PNRQTCPVCKAAIDKDKVIPVYGRGGSS 195 (248)
Q Consensus 129 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~-------------~~~~~CP~Cr~~~~~~~~~~~~~~~~~~ 195 (248)
+..+.+.|+||++.+.+|++++|||+||+.||..|+... .+...||+||..+...+++++|..+...
T Consensus 14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg~~~ 93 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRGQKA 93 (193)
T ss_pred cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccCCCC
Confidence 334568999999999999999999999999999998642 1245899999999999999999998764
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q psy2200 196 KTDPRDKVPPRPQGQRTEP 214 (248)
Q Consensus 196 ~~~~~~~~~~rp~~~~~~~ 214 (248)
......+|+||.+.+.++
T Consensus 94 -~~~~~~iP~rp~~~~~~~ 111 (193)
T PLN03208 94 -PQSGSNVPSRPSGPVYDL 111 (193)
T ss_pred -CCCCCCCCcCCCCCccCC
Confidence 344567899998887664
No 3
>KOG0823|consensus
Probab=99.63 E-value=3.5e-16 Score=128.23 Aligned_cols=67 Identities=49% Similarity=1.081 Sum_probs=56.3
Q ss_pred CCCCceeccccCCCCCCceEeccCccc-ccceecc-------------------------ccCCCC-CCCCCCC-CCCCC
Q psy2200 30 DKSQIYDCNICFDTAKDAVISMCGHLF-WLKFFYW-------------------------PGRGGS-EIDPRDE-VPPRP 81 (248)
Q Consensus 30 ~~~~~~~C~iCld~~~~~v~~~CGH~f-~~cv~~~-------------------------y~Rg~~-~~~p~~~-~p~rp 81 (248)
.....|+|+||||.++|||+|.|||+| |.|+|+| ||||.. ..+++.. .|+||
T Consensus 43 ~~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~~~~~~vP~RP 122 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSKKPSDPRKKDVPPRP 122 (230)
T ss_pred CCCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCCCCCCcccccCCCCC
Confidence 357789999999999999999999999 6699999 899984 7888877 99999
Q ss_pred CCCCccccccchhhh
Q psy2200 82 QGQRTERENSSVQSK 96 (248)
Q Consensus 82 ~~~~~e~~~~~~~~~ 96 (248)
+++|.+.+....+..
T Consensus 123 ~~~R~e~~~p~~~~~ 137 (230)
T KOG0823|consen 123 AGQRYESKRPTPQNR 137 (230)
T ss_pred CCccccccCCCCccc
Confidence 999987665544443
No 4
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.40 E-value=1.6e-13 Score=84.67 Aligned_cols=41 Identities=44% Similarity=0.959 Sum_probs=32.7
Q ss_pred ecccccccCCcEEccCCCccCHhHHHHHHHhCCCC-Cccccc
Q psy2200 136 CNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNR-QTCPVC 176 (248)
Q Consensus 136 C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~-~~CP~C 176 (248)
|+||++++.+|+.++|||+||..||.+|++..... ..||+|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999999999999999999999876533 689987
No 5
>KOG0320|consensus
Probab=99.31 E-value=2.6e-12 Score=101.24 Aligned_cols=58 Identities=34% Similarity=0.864 Sum_probs=50.6
Q ss_pred CCCceeecccccccCC--cEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeec
Q psy2200 130 KGQIYDCNICLDTAKD--AVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYG 190 (248)
Q Consensus 130 ~~~~~~C~IC~~~~~~--p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 190 (248)
.+..+.|+||++.+.+ |+.+.|||+||..||...++... .||+|++.|..+.++++|.
T Consensus 128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~---~CP~C~kkIt~k~~~rI~L 187 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTN---KCPTCRKKITHKQFHRIYL 187 (187)
T ss_pred cccccCCCceecchhhccccccccchhHHHHHHHHHHHhCC---CCCCcccccchhhheeccC
Confidence 3456899999998875 45679999999999999999877 9999999999999998874
No 6
>KOG0317|consensus
Probab=99.31 E-value=1.8e-12 Score=109.54 Aligned_cols=56 Identities=30% Similarity=0.950 Sum_probs=50.0
Q ss_pred CCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceee
Q psy2200 130 KGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPV 188 (248)
Q Consensus 130 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~ 188 (248)
.+....|.+|++...+|..+||||+|||.||..|...+. .||+||..+...+++-.
T Consensus 236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~---eCPlCR~~~~pskvi~L 291 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA---ECPLCREKFQPSKVICL 291 (293)
T ss_pred CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc---CCCcccccCCCcceeee
Confidence 345579999999999999999999999999999999877 89999999998877543
No 7
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.30 E-value=7e-13 Score=89.26 Aligned_cols=58 Identities=26% Similarity=0.481 Sum_probs=52.3
Q ss_pred eeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecCCCC
Q psy2200 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGRGGS 194 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~ 194 (248)
+.|+||.+.+.+|++++|||+||+.||..|++.+. .||+|+..+..+++++++.++..
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~---~cP~~~~~~~~~~l~~~~~l~~~ 59 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHG---TDPVTGQPLTHEDLIPNLALKSA 59 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCC---CCCCCcCCCChhhceeCHHHHHH
Confidence 67999999999999999999999999999998855 99999999998999888766543
No 8
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.22 E-value=6.4e-12 Score=76.41 Aligned_cols=38 Identities=53% Similarity=1.324 Sum_probs=33.1
Q ss_pred ecccccccCCc-EEccCCCccCHhHHHHHHHhCCCCCccccc
Q psy2200 136 CNICLDTAKDA-VISMCGHLFCWPCLHQWLETCPNRQTCPVC 176 (248)
Q Consensus 136 C~IC~~~~~~p-~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C 176 (248)
|+||++.+.+| ++++|||+||..|+.+|++... +||+|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~---~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNP---KCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTS---B-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcC---CCcCC
Confidence 89999999999 6789999999999999999854 99987
No 9
>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=99.19 E-value=8e-12 Score=78.06 Aligned_cols=40 Identities=40% Similarity=1.110 Sum_probs=34.9
Q ss_pred eecccccccC---CcEEccCCCccCHhHHHHHHHhCCCCCcccccc
Q psy2200 135 DCNICLDTAK---DAVISMCGHLFCWPCLHQWLETCPNRQTCPVCK 177 (248)
Q Consensus 135 ~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr 177 (248)
.|+||++.+. ..+.++|||.||..||..|++.+. +||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~---~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNN---SCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSS---B-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCC---cCCccC
Confidence 6999999884 457789999999999999999876 999997
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.19 E-value=1.2e-11 Score=79.48 Aligned_cols=46 Identities=37% Similarity=0.979 Sum_probs=40.4
Q ss_pred ceeecccccccCCcEEccCCCc-cCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 133 IYDCNICLDTAKDAVISMCGHL-FCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
+..|.||++...+.++++|||. ||..|+.+|++... .||+||++|.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~---~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKK---KCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTS---BBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCC---CCCcCChhhc
Confidence 4689999999999999999999 99999999999655 9999999885
No 11
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.08 E-value=2.9e-11 Score=108.55 Aligned_cols=66 Identities=26% Similarity=0.546 Sum_probs=56.5
Q ss_pred ccCCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecCCCCC
Q psy2200 127 ENDKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGRGGSS 195 (248)
Q Consensus 127 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~ 195 (248)
...++..+.|+||++.+.+|++++|||.||..||..|+.... .||+|+..+....+..++.+..++
T Consensus 20 l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~---~CP~Cr~~~~~~~Lr~N~~L~~iV 85 (397)
T TIGR00599 20 LYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP---KCPLCRAEDQESKLRSNWLVSEIV 85 (397)
T ss_pred ccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCC---CCCCCCCccccccCccchHHHHHH
Confidence 345667789999999999999999999999999999998754 899999999887777777666554
No 12
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.06 E-value=1.2e-10 Score=97.99 Aligned_cols=47 Identities=34% Similarity=0.952 Sum_probs=40.2
Q ss_pred CceeecccccccCCc--------EEccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 132 QIYDCNICLDTAKDA--------VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p--------~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
....|+||++.+.++ ++++|||.||..||..|++... +||+||..+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~---tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN---TCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC---CCCCCCCEee
Confidence 346899999987643 5568999999999999999866 9999999887
No 13
>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=99.05 E-value=6.3e-11 Score=82.22 Aligned_cols=61 Identities=23% Similarity=0.431 Sum_probs=48.8
Q ss_pred CceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecCCCC
Q psy2200 132 QIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGRGGS 194 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~ 194 (248)
+.+.|+|+.+.|.+||++++||+|++.+|..|+... ...||+|+..+...++++++.+...
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~--~~~~P~t~~~l~~~~l~pn~~Lk~~ 63 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQN--GGTDPFTRQPLSESDLIPNRALKSA 63 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTT--SSB-TTT-SB-SGGGSEE-HHHHHH
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcC--CCCCCCCCCcCCcccceECHHHHHH
Confidence 468999999999999999999999999999999982 2499999999999999999876544
No 14
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.03 E-value=1.8e-10 Score=70.66 Aligned_cols=40 Identities=48% Similarity=1.231 Sum_probs=35.9
Q ss_pred ecccccccCCcE-EccCCCccCHhHHHHHHHhCCCCCccccc
Q psy2200 136 CNICLDTAKDAV-ISMCGHLFCWPCLHQWLETCPNRQTCPVC 176 (248)
Q Consensus 136 C~IC~~~~~~p~-~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C 176 (248)
|+||++.+.+++ +++|||.||..|+.+|++.. +...||+|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~-~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENS-GSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHT-SSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhc-CCccCCcC
Confidence 899999999998 88999999999999999963 35689987
No 15
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.97 E-value=3.4e-10 Score=69.89 Aligned_cols=38 Identities=37% Similarity=0.933 Sum_probs=23.8
Q ss_pred ecccccccCC----cEEccCCCccCHhHHHHHHHhCC-CCCccc
Q psy2200 136 CNICLDTAKD----AVISMCGHLFCWPCLHQWLETCP-NRQTCP 174 (248)
Q Consensus 136 C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~~~~~-~~~~CP 174 (248)
|+||++ +.+ |++|+|||+||..|+.++++... +..+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 777 89999999999999999998642 356776
No 16
>KOG2164|consensus
Probab=98.96 E-value=3.7e-10 Score=102.34 Aligned_cols=62 Identities=31% Similarity=0.809 Sum_probs=55.4
Q ss_pred ceeecccccccCCcEEccCCCccCHhHHHHHHHhC--CCCCcccccccccccCCceeeecCCCC
Q psy2200 133 IYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETC--PNRQTCPVCKAAIDKDKVIPVYGRGGS 194 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~--~~~~~CP~Cr~~~~~~~~~~~~~~~~~ 194 (248)
...||||++...-|+.+.|||+||..||.+++... ...+.||+|+..|..+++.+++.....
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~q 249 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQ 249 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeecccc
Confidence 67899999999999999999999999999988764 236799999999999999999987764
No 17
>KOG0287|consensus
Probab=98.91 E-value=1.7e-10 Score=99.35 Aligned_cols=65 Identities=22% Similarity=0.548 Sum_probs=57.6
Q ss_pred cCCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecCCCCC
Q psy2200 128 NDKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGRGGSS 195 (248)
Q Consensus 128 ~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~ 195 (248)
..+...+.|-||.++|..|++++|||.||.-||..+|..++ .||.|+..+...++..++.+..++
T Consensus 18 k~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p---~CP~C~~~~~Es~Lr~n~il~Eiv 82 (442)
T KOG0287|consen 18 KTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKP---QCPTCCVTVTESDLRNNRILDEIV 82 (442)
T ss_pred hhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCC---CCCceecccchhhhhhhhHHHHHH
Confidence 34566789999999999999999999999999999999887 999999999998888877766554
No 18
>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=1.2e-09 Score=67.68 Aligned_cols=44 Identities=41% Similarity=1.288 Sum_probs=36.7
Q ss_pred eecccccccCCcEEcc-CCCccCHhHHHHHHHhCCCCCccccccccc
Q psy2200 135 DCNICLDTAKDAVISM-CGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180 (248)
Q Consensus 135 ~C~IC~~~~~~p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~ 180 (248)
.|+||++.+.+++.+. |||.||..|+..|++.. ...||+|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~--~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSG--KNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhC--cCCCCCCCCcC
Confidence 4899999997776665 99999999999999872 34899998754
No 19
>PHA02926 zinc finger-like protein; Provisional
Probab=98.89 E-value=9.5e-10 Score=90.01 Aligned_cols=61 Identities=23% Similarity=0.739 Sum_probs=45.3
Q ss_pred CCCceeecccccccCC---------cEEccCCCccCHhHHHHHHHhCC---CCCcccccccccccCCceeeec
Q psy2200 130 KGQIYDCNICLDTAKD---------AVISMCGHLFCWPCLHQWLETCP---NRQTCPVCKAAIDKDKVIPVYG 190 (248)
Q Consensus 130 ~~~~~~C~IC~~~~~~---------p~~~~CgH~fC~~Ci~~~~~~~~---~~~~CP~Cr~~~~~~~~~~~~~ 190 (248)
...+..|+||++...+ ++..+|+|.||..||..|.+.+. ....||+||..+..-...+.|.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf~~ 239 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKFYK 239 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccccee
Confidence 3445799999997532 35669999999999999998642 2457999999987554444443
No 20
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=8.2e-10 Score=92.44 Aligned_cols=53 Identities=36% Similarity=0.847 Sum_probs=46.8
Q ss_pred CCceeecccccccCCcEEccCCCccCHhHHHH-HHHhCCCCCcccccccccccCCc
Q psy2200 131 GQIYDCNICLDTAKDAVISMCGHLFCWPCLHQ-WLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~-~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
..++.|.||++....|..++|||+||+.||.. |...+. -.||+||+.+..+++
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~--~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKY--EFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhcc--ccCchhhhhccchhh
Confidence 45789999999999999999999999999999 887765 259999999887766
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.80 E-value=2.6e-09 Score=66.56 Aligned_cols=41 Identities=34% Similarity=1.027 Sum_probs=34.1
Q ss_pred eeccccccc---CCcEEccCCCccCHhHHHHHHHhCCCCCccccccc
Q psy2200 135 DCNICLDTA---KDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKA 178 (248)
Q Consensus 135 ~C~IC~~~~---~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~ 178 (248)
.|+||++.+ ..+++++|||+||..|+..+... ...||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~---~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGK---SVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCC---CCCCcCCCC
Confidence 489999988 35688899999999999998832 449999985
No 22
>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=98.79 E-value=4.6e-09 Score=62.72 Aligned_cols=39 Identities=49% Similarity=1.317 Sum_probs=34.2
Q ss_pred ecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCccccc
Q psy2200 136 CNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVC 176 (248)
Q Consensus 136 C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~C 176 (248)
|+||++....++.++|||.||..|+..|++.. ...||+|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~--~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSG--NNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhC--cCCCCCC
Confidence 78999998999999999999999999999832 3479987
No 23
>KOG0978|consensus
Probab=98.77 E-value=3.7e-10 Score=106.74 Aligned_cols=66 Identities=32% Similarity=0.674 Sum_probs=57.8
Q ss_pred CCCCccCCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeec
Q psy2200 123 KTDGENDKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYG 190 (248)
Q Consensus 123 ~~~~~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 190 (248)
+..+.......+.|++|...+++.+++.|||+||..|+...+..+. ++||.|...|...|+.++|.
T Consensus 633 L~EElk~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRq--RKCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 633 LAEELKEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQ--RKCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred HHHHHHHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhc--CCCCCCCCCCCcccccccCC
Confidence 3445555667789999999999999999999999999999999865 69999999999999998873
No 24
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.76 E-value=4.9e-09 Score=72.62 Aligned_cols=40 Identities=43% Similarity=1.168 Sum_probs=32.8
Q ss_pred eecccccccCC------------c-EEccCCCccCHhHHHHHHHhCCCCCcccccc
Q psy2200 135 DCNICLDTAKD------------A-VISMCGHLFCWPCLHQWLETCPNRQTCPVCK 177 (248)
Q Consensus 135 ~C~IC~~~~~~------------p-~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr 177 (248)
.|+||++.+.+ + +..+|||.|+..||.+|++... +||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~---~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN---TCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS---B-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC---cCCCCC
Confidence 49999998832 2 3448999999999999999876 999997
No 25
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.75 E-value=2.6e-09 Score=90.32 Aligned_cols=63 Identities=27% Similarity=0.570 Sum_probs=52.6
Q ss_pred ccCCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecCC
Q psy2200 127 ENDKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGRG 192 (248)
Q Consensus 127 ~~~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~ 192 (248)
...+...+.|-||.+++..|+.++|||+||.-||..+|..++ .||+||.......+...+...
T Consensus 19 L~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp---~CP~Cr~~~~esrlr~~s~~~ 81 (391)
T COG5432 19 LKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQP---FCPVCREDPCESRLRGSSGSR 81 (391)
T ss_pred hhcchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCC---CCccccccHHhhhcccchhHH
Confidence 344556689999999999999999999999999999999887 999999988766555544443
No 26
>KOG4628|consensus
Probab=98.71 E-value=9.6e-09 Score=90.33 Aligned_cols=49 Identities=37% Similarity=0.816 Sum_probs=41.6
Q ss_pred eeecccccccCCc---EEccCCCccCHhHHHHHHHhCCCCCcccccccccccCC
Q psy2200 134 YDCNICLDTAKDA---VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDK 184 (248)
Q Consensus 134 ~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~ 184 (248)
..|+||+|.|... ++|||+|.||..||+.|+.... ..||+|+..+....
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r--~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTR--TFCPVCKRDIRTDS 281 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcC--ccCCCCCCcCCCCC
Confidence 5999999999865 6789999999999999998853 46999999776543
No 27
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.70 E-value=1.3e-08 Score=82.40 Aligned_cols=34 Identities=44% Similarity=1.164 Sum_probs=29.4
Q ss_pred CCCceeccccCCCCCCceEeccCccc-ccceeccc
Q psy2200 31 KSQIYDCNICFDTAKDAVISMCGHLF-WLKFFYWP 64 (248)
Q Consensus 31 ~~~~~~C~iCld~~~~~v~~~CGH~f-~~cv~~~y 64 (248)
....|+|+||+|.+++||+|+|||+| |.|+..|.
T Consensus 15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl 49 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWT 49 (193)
T ss_pred CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHH
Confidence 34569999999999999999999999 55777774
No 28
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.66 E-value=5.9e-09 Score=64.23 Aligned_cols=30 Identities=37% Similarity=0.528 Sum_probs=23.1
Q ss_pred ccccCCCCCCceEeccCcccc-cceeccccC
Q psy2200 37 CNICFDTAKDAVISMCGHLFW-LKFFYWPGR 66 (248)
Q Consensus 37 C~iCld~~~~~v~~~CGH~f~-~cv~~~y~R 66 (248)
|+||+|++++||+++|||+|+ .|+..|+..
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~ 31 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKE 31 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCC
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHc
Confidence 899999999999999999995 566665443
No 29
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.59 E-value=5e-09 Score=69.25 Aligned_cols=54 Identities=28% Similarity=0.714 Sum_probs=28.3
Q ss_pred CceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeec
Q psy2200 132 QIYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYG 190 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 190 (248)
+.+.|++|.+.+++||.+ .|.|+||..||..-+.. .||+|+.+-...|+.-|..
T Consensus 6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~-----~CPvC~~Paw~qD~~~Nrq 60 (65)
T PF14835_consen 6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS-----ECPVCHTPAWIQDIQINRQ 60 (65)
T ss_dssp HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT-----B-SSS--B-S-SS----HH
T ss_pred HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC-----CCCCcCChHHHHHHHhhhh
Confidence 347899999999999865 89999999999775543 7999999988777765543
No 30
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=3.5e-08 Score=86.19 Aligned_cols=48 Identities=33% Similarity=0.790 Sum_probs=40.7
Q ss_pred CceeecccccccCC-------------cEEccCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 132 QIYDCNICLDTAKD-------------AVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 132 ~~~~C~IC~~~~~~-------------p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
++-.|.||++.+.. |..+||||.++..|++.|++..+ +||+||.++..
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ---TCPICr~p~if 346 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ---TCPICRRPVIF 346 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc---CCCcccCcccc
Confidence 34689999998542 36889999999999999999887 99999998543
No 31
>KOG4172|consensus
Probab=98.55 E-value=8.2e-09 Score=65.44 Aligned_cols=51 Identities=33% Similarity=0.892 Sum_probs=42.5
Q ss_pred eeecccccccCCcEEccCCCc-cCHhHHHHHHHhCCCCCcccccccccccCCceee
Q psy2200 134 YDCNICLDTAKDAVISMCGHL-FCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPV 188 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~ 188 (248)
.+|.||++...+.|+..|||+ .|..|-.+.++.. +..||+||++|. +++.-
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~--~g~CPiCRapi~--dvIkT 59 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKAL--HGCCPICRAPIK--DVIKT 59 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHHcc--CCcCcchhhHHH--HHHHh
Confidence 589999999999999999998 9999998877742 339999999986 44433
No 32
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.53 E-value=7.2e-08 Score=67.74 Aligned_cols=49 Identities=27% Similarity=0.678 Sum_probs=37.4
Q ss_pred eeecccccccCC------------cEEc-cCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAKD------------AVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~~------------p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
..|.||...|.. |+++ .|+|.|+..||.+|+........||+||+....
T Consensus 22 d~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 22 DVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 467777766541 3333 799999999999999975445699999998754
No 33
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=1.7e-07 Score=79.94 Aligned_cols=47 Identities=32% Similarity=0.774 Sum_probs=39.1
Q ss_pred ceeecccccccCC---cEEccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 133 IYDCNICLDTAKD---AVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 133 ~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
..+|+||++.+.. -+++||.|.||..|+.+|+-... ..||+||..+.
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~--~~CPvCrt~iP 372 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYS--NKCPVCRTAIP 372 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhc--ccCCccCCCCC
Confidence 4799999998763 37789999999999999998422 28999998875
No 34
>KOG2177|consensus
Probab=98.37 E-value=1e-07 Score=82.49 Aligned_cols=46 Identities=37% Similarity=0.890 Sum_probs=40.8
Q ss_pred CCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCccccccc
Q psy2200 130 KGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKA 178 (248)
Q Consensus 130 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~ 178 (248)
..+.+.|+||++++.+|++++|||.||..|+..++. ....||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~---~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE---GPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcCccccccchHhHHHHHHhcC---CCcCCcccCC
Confidence 456689999999999999999999999999999988 2469999994
No 35
>KOG0802|consensus
Probab=98.36 E-value=1.9e-07 Score=88.42 Aligned_cols=51 Identities=31% Similarity=0.703 Sum_probs=44.2
Q ss_pred CceeecccccccCC-----cEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 132 QIYDCNICLDTAKD-----AVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 132 ~~~~C~IC~~~~~~-----p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
....|.||.+.+.. +.+++|||+||..|+..|++... +||+||..+.....
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q---tCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ---TCPTCRTVLYDYVL 345 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC---cCCcchhhhhcccc
Confidence 34689999999998 78999999999999999999977 99999996554443
No 36
>KOG0317|consensus
Probab=98.34 E-value=1.5e-07 Score=79.89 Aligned_cols=50 Identities=18% Similarity=0.496 Sum_probs=38.8
Q ss_pred CCCCCCCCCceeccccCCCCCCceEeccCccc-ccceeccccCCCCCCCCCCC
Q psy2200 25 TDGGNDKSQIYDCNICFDTAKDAVISMCGHLF-WLKFFYWPGRGGSEIDPRDE 76 (248)
Q Consensus 25 ~~~~~~~~~~~~C~iCld~~~~~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~~~ 76 (248)
..+..-..+.++|.+||+.-.+|..|||||+| |.|+..|..... .||.+.
T Consensus 230 ~~~~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~--eCPlCR 280 (293)
T KOG0317|consen 230 NSLSSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA--ECPLCR 280 (293)
T ss_pred cCCccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc--CCCccc
Confidence 34455567789999999999999999999999 668888866443 355443
No 37
>KOG0824|consensus
Probab=98.26 E-value=3.3e-07 Score=78.23 Aligned_cols=51 Identities=31% Similarity=0.681 Sum_probs=43.9
Q ss_pred eeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCce
Q psy2200 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVI 186 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~ 186 (248)
.+|+||+.....|+.+.|+|.||+.||.--.... .+.|++||.+|..+.+.
T Consensus 8 ~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~nd--k~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 8 KECLICYNTGNCPVNLYCFHKFCYICIKGSYKND--KKTCAVCRFPIDSTIDF 58 (324)
T ss_pred CcceeeeccCCcCccccccchhhhhhhcchhhcC--CCCCceecCCCCcchhc
Confidence 4899999999999999999999999999866653 35799999999865543
No 38
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.21 E-value=9.7e-07 Score=76.64 Aligned_cols=52 Identities=23% Similarity=0.643 Sum_probs=39.3
Q ss_pred eeecccccc-cCCcE---Ec-cCCCccCHhHHHHHHHhCCCCCcccccccccccCCcee
Q psy2200 134 YDCNICLDT-AKDAV---IS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIP 187 (248)
Q Consensus 134 ~~C~IC~~~-~~~p~---~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~ 187 (248)
..||+|+.. +.+|. ++ +|||.||..|+...+... ...||.|+..+....+.+
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~--~~~CP~C~~~lrk~~fr~ 60 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG--SGSCPECDTPLRKNNFRV 60 (309)
T ss_pred CCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC--CCCCCCCCCccchhhccc
Confidence 589999983 33442 22 799999999999977543 348999999998877543
No 39
>KOG3039|consensus
Probab=98.11 E-value=6.2e-06 Score=68.61 Aligned_cols=56 Identities=20% Similarity=0.389 Sum_probs=49.2
Q ss_pred CceeecccccccCCc----EEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeec
Q psy2200 132 QIYDCNICLDTAKDA----VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYG 190 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 190 (248)
..+.|+||.+.+.+. ++-+|||+||..|+.+++.... .||+|-.++..++++.+..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~---v~pv~d~plkdrdiI~Lqr 279 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM---VDPVTDKPLKDRDIIGLQR 279 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc---cccCCCCcCcccceEeeec
Confidence 568999999999875 4449999999999999999887 9999999999999987643
No 40
>KOG4265|consensus
Probab=98.11 E-value=2.3e-06 Score=74.97 Aligned_cols=48 Identities=31% Similarity=0.782 Sum_probs=42.5
Q ss_pred CCceeecccccccCCcEEccCCCc-cCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 131 GQIYDCNICLDTAKDAVISMCGHL-FCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
+...+|.||+...++-++|||.|+ .|..|.+...-+++ .||+||+.|.
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n---~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTN---NCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhc---CCCccccchH
Confidence 335689999999999999999998 99999998776655 8999999986
No 41
>KOG4159|consensus
Probab=98.06 E-value=1.9e-06 Score=77.76 Aligned_cols=51 Identities=27% Similarity=0.799 Sum_probs=45.5
Q ss_pred CCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 129 DKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 129 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
.....+.|.||...+..|+.++|||.||..||.+-+.... .||.||..+..
T Consensus 80 ~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~---~cp~Cr~~l~e 130 (398)
T KOG4159|consen 80 EIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQET---ECPLCRDELVE 130 (398)
T ss_pred cccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCC---CCccccccccc
Confidence 3467799999999999999999999999999999887655 99999998874
No 42
>KOG0320|consensus
Probab=97.97 E-value=3.5e-06 Score=66.89 Aligned_cols=36 Identities=31% Similarity=0.635 Sum_probs=27.8
Q ss_pred CCCCCCceeccccCCCCCC--ceEeccCcccccceecc
Q psy2200 28 GNDKSQIYDCNICFDTAKD--AVISMCGHLFWLKFFYW 63 (248)
Q Consensus 28 ~~~~~~~~~C~iCld~~~~--~v~~~CGH~f~~cv~~~ 63 (248)
.......|.|+||||...+ ||.|.|||+||..+++-
T Consensus 125 ~~~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~ 162 (187)
T KOG0320|consen 125 PLRKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKD 162 (187)
T ss_pred ccccccccCCCceecchhhccccccccchhHHHHHHHH
Confidence 3445566999999988664 56799999998877663
No 43
>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=97.93 E-value=2e-06 Score=51.94 Aligned_cols=30 Identities=33% Similarity=0.705 Sum_probs=23.9
Q ss_pred ccccCCCCCCc-eEeccCccc-ccceeccccC
Q psy2200 37 CNICFDTAKDA-VISMCGHLF-WLKFFYWPGR 66 (248)
Q Consensus 37 C~iCld~~~~~-v~~~CGH~f-~~cv~~~y~R 66 (248)
|+||+|.+.+| ++++|||+| ..|+.+|+..
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~ 32 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK 32 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC
Confidence 89999999999 689999999 5566666544
No 44
>KOG0311|consensus
Probab=97.90 E-value=1.2e-06 Score=76.32 Aligned_cols=53 Identities=26% Similarity=0.614 Sum_probs=43.7
Q ss_pred cCCCCceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 128 NDKGQIYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 128 ~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
..+...+.|+||++.++..+.+ .|+|.||..||..-++..+ ..||.||+.+..
T Consensus 38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn--~ecptcRk~l~S 91 (381)
T KOG0311|consen 38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGN--NECPTCRKKLVS 91 (381)
T ss_pred HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcC--CCCchHHhhccc
Confidence 3455678999999999987766 6999999999998887744 599999997653
No 45
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.87 E-value=6.5e-06 Score=54.01 Aligned_cols=43 Identities=33% Similarity=0.616 Sum_probs=30.8
Q ss_pred CceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCcccc
Q psy2200 132 QIYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPV 175 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~ 175 (248)
..+.|||.+..+.+||.- .|||+|.+..|..|+... +...||+
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~-~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRN-GSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTT-S-EE-SC
T ss_pred eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhc-CCCCCCC
Confidence 447999999999999886 899999999999999443 3679998
No 46
>KOG1785|consensus
Probab=97.87 E-value=6.9e-06 Score=72.72 Aligned_cols=56 Identities=36% Similarity=0.813 Sum_probs=47.2
Q ss_pred eecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecC
Q psy2200 135 DCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGR 191 (248)
Q Consensus 135 ~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 191 (248)
.|.||-+.-++..+-||||..|..|+..|..... ...||.||..|.-...+.++..
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~-gq~CPFCRcEIKGte~viid~F 426 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDE-GQTCPFCRCEIKGTEPVIIDPF 426 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhcccCC-CCCCCceeeEeccccceeeecc
Confidence 6999999999888889999999999999997653 4599999999987766655543
No 47
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.83 E-value=8.2e-06 Score=65.79 Aligned_cols=46 Identities=30% Similarity=0.676 Sum_probs=40.6
Q ss_pred CceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCccccccccc
Q psy2200 132 QIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~ 180 (248)
-.+.|.||...+..||++.|||.||..|..+-.+... .|-+|.+..
T Consensus 195 IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~---~C~~Cgk~t 240 (259)
T COG5152 195 IPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGD---ECGVCGKAT 240 (259)
T ss_pred CceeehhchhhccchhhhhcchhHHHHHHHHHhccCC---cceecchhh
Confidence 3589999999999999999999999999988877665 899997754
No 48
>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=97.75 E-value=9.4e-06 Score=54.13 Aligned_cols=41 Identities=24% Similarity=0.374 Sum_probs=31.4
Q ss_pred ceeccccCCCCCCceEeccCccc-ccceeccccCCCCCCCCCCC
Q psy2200 34 IYDCNICFDTAKDAVISMCGHLF-WLKFFYWPGRGGSEIDPRDE 76 (248)
Q Consensus 34 ~~~C~iCld~~~~~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~~~ 76 (248)
.|.|+||++++.+||+++|||+| -.|+..|+.. ...+|...
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~--~~~cP~~~ 42 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLS--HGTDPVTG 42 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH--CCCCCCCc
Confidence 37899999999999999999999 4556666544 34566543
No 49
>KOG0827|consensus
Probab=97.70 E-value=2e-05 Score=69.61 Aligned_cols=53 Identities=36% Similarity=0.950 Sum_probs=41.4
Q ss_pred eeecccccccCCcE----EccCCCccCHhHHHHHHHhCCCCCcccccccccccCCce
Q psy2200 134 YDCNICLDTAKDAV----ISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVI 186 (248)
Q Consensus 134 ~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~ 186 (248)
-.|.||.+.+.+.. +-.|||+|+..|+.+|++..+..+.||+|+-.+....++
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~ 61 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA 61 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence 47999976554432 235999999999999999988668999999666666555
No 50
>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=97.70 E-value=7.1e-06 Score=49.95 Aligned_cols=30 Identities=33% Similarity=0.724 Sum_probs=25.3
Q ss_pred ccccCCCCCCce-EeccCccc-ccceeccccC
Q psy2200 37 CNICFDTAKDAV-ISMCGHLF-WLKFFYWPGR 66 (248)
Q Consensus 37 C~iCld~~~~~v-~~~CGH~f-~~cv~~~y~R 66 (248)
|+||++.+.+++ +++|||.| ..|+.+|+..
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~ 32 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLEN 32 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHH
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHh
Confidence 899999999999 99999999 5566666553
No 51
>KOG1039|consensus
Probab=97.70 E-value=1.8e-05 Score=70.14 Aligned_cols=62 Identities=21% Similarity=0.656 Sum_probs=44.8
Q ss_pred CCceeecccccccCCcE-----E---ccCCCccCHhHHHHHHHhCCC----CCcccccccccccCCceeeecCC
Q psy2200 131 GQIYDCNICLDTAKDAV-----I---SMCGHLFCWPCLHQWLETCPN----RQTCPVCKAAIDKDKVIPVYGRG 192 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~-----~---~~CgH~fC~~Ci~~~~~~~~~----~~~CP~Cr~~~~~~~~~~~~~~~ 192 (248)
.....|.||++...+.. . .+|-|.||..||..|-..... .+.||.||...........|...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~Wv~t 232 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFWVET 232 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccceeeee
Confidence 34578999999877655 3 579999999999999954331 46999999887654433334333
No 52
>KOG2660|consensus
Probab=97.67 E-value=8.7e-06 Score=70.60 Aligned_cols=54 Identities=30% Similarity=0.644 Sum_probs=46.2
Q ss_pred CCCCceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 129 DKGQIYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 129 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
.......|.+|..++.++..+ -|-|+||..||..++.... .||.|...|.....
T Consensus 11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~---~CP~C~i~ih~t~p 65 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESK---YCPTCDIVIHKTHP 65 (331)
T ss_pred hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhc---cCCccceeccCccc
Confidence 345568999999999998655 7999999999999999865 99999998887653
No 53
>KOG0297|consensus
Probab=97.65 E-value=2.2e-05 Score=71.47 Aligned_cols=55 Identities=33% Similarity=0.799 Sum_probs=47.6
Q ss_pred CCCceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCcccccccccccCCcee
Q psy2200 130 KGQIYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIP 187 (248)
Q Consensus 130 ~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~ 187 (248)
...++.|++|...+.+|+.. .|||.||..|+..|+..+. .||.|+..+......+
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~---~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQ---KCPVCRQELTQAEELP 73 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhccCc---CCcccccccchhhccC
Confidence 45668999999999999995 9999999999999999866 9999998877655543
No 54
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.63 E-value=0.00011 Score=63.37 Aligned_cols=137 Identities=13% Similarity=0.277 Sum_probs=80.4
Q ss_pred CCCceeccccCCCCCCceE-eccCccc-ccceeccccCCCCC-CCCCCCCCCCCCCCCccccccchhhhhccccccCCCC
Q psy2200 31 KSQIYDCNICFDTAKDAVI-SMCGHLF-WLKFFYWPGRGGSE-IDPRDEVPPRPQGQRTERENSSVQSKVSNMATTSSGS 107 (248)
Q Consensus 31 ~~~~~~C~iCld~~~~~v~-~~CGH~f-~~cv~~~y~Rg~~~-~~p~~~~p~rp~~~~~e~~~~~~~~~~~~~~~~~~~~ 107 (248)
...-+.|++=++.|..||| ..-|++| -.-|+.|+-..... ..+. ...+-+.- +.+-++.-.....
T Consensus 31 ~~~w~~CaLS~~pL~~PiV~d~~G~LynKeaile~Ll~~~~~~~~~~-----~~~hI~~L-------KDl~~l~~~~n~~ 98 (260)
T PF04641_consen 31 EARWTHCALSQQPLEDPIVSDRLGRLYNKEAILEFLLDKKKNKDLPK-----TFSHIKSL-------KDLVELKFTKNPS 98 (260)
T ss_pred hCCcCcccCcCCccCCCeeeCCCCeeEcHHHHHHHHHhcCcCCCCcc-----ccccccCc-------cceeeEEeEecCc
Confidence 3455789999999999985 7899999 56677764332211 1110 00000000 0011110000000
Q ss_pred CCCCCCCCCCCCCCCCCCCccCCCCceeecccccccCCc----EEccCCCccCHhHHHHHHHhCCCCCcccccccccccC
Q psy2200 108 KQTPPNRDEGSGDQKKTDGENDKGQIYDCNICLDTAKDA----VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKD 183 (248)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~ 183 (248)
.... . ..........+.|||....|..- ++.+|||+|+..++...- .. ..||+|-.++...
T Consensus 99 --~~~~-------~--~~~~~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~---~~Cp~c~~~f~~~ 163 (260)
T PF04641_consen 99 --YKEE-------D--KSSGDNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KS---KKCPVCGKPFTEE 163 (260)
T ss_pred --cccc-------c--ccccccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-cc---ccccccCCccccC
Confidence 0000 0 01122335568999999888532 344999999999999884 22 2799999999999
Q ss_pred CceeeecCCCC
Q psy2200 184 KVIPVYGRGGS 194 (248)
Q Consensus 184 ~~~~~~~~~~~ 194 (248)
+++++......
T Consensus 164 DiI~Lnp~~ee 174 (260)
T PF04641_consen 164 DIIPLNPPEEE 174 (260)
T ss_pred CEEEecCCccH
Confidence 99988766653
No 55
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.63 E-value=1.4e-05 Score=54.82 Aligned_cols=49 Identities=29% Similarity=0.730 Sum_probs=24.5
Q ss_pred ceeecccccccC-C---cEEc----cCCCccCHhHHHHHHHhCCC--------CCcccccccccc
Q psy2200 133 IYDCNICLDTAK-D---AVIS----MCGHLFCWPCLHQWLETCPN--------RQTCPVCKAAID 181 (248)
Q Consensus 133 ~~~C~IC~~~~~-~---p~~~----~CgH~fC~~Ci~~~~~~~~~--------~~~CP~Cr~~~~ 181 (248)
...|.||+.... + |.+. .|++.||..|+..|+....+ ...||.|+.+|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 368999998765 2 2221 69999999999999975321 136999999875
No 56
>KOG1734|consensus
Probab=97.61 E-value=1.7e-05 Score=66.91 Aligned_cols=55 Identities=25% Similarity=0.564 Sum_probs=42.7
Q ss_pred ceeecccccccCC----------cEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceee
Q psy2200 133 IYDCNICLDTAKD----------AVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPV 188 (248)
Q Consensus 133 ~~~C~IC~~~~~~----------p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~ 188 (248)
+..|.||-..+.. -..|.|+|+|+..||.-|.--.. ..+||.|+..+.......|
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK-kqtCPYCKekVdl~rmfsn 288 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK-KQTCPYCKEKVDLKRMFSN 288 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC-CCCCchHHHHhhHhhhccC
Confidence 3589999986653 35789999999999999987543 5699999998876555433
No 57
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.61 E-value=5.3e-05 Score=48.13 Aligned_cols=42 Identities=33% Similarity=0.860 Sum_probs=33.6
Q ss_pred eeccccc--ccCCcEEccCC-----CccCHhHHHHHHHhCCCCCcccccc
Q psy2200 135 DCNICLD--TAKDAVISMCG-----HLFCWPCLHQWLETCPNRQTCPVCK 177 (248)
Q Consensus 135 ~C~IC~~--~~~~p~~~~Cg-----H~fC~~Ci~~~~~~~~~~~~CP~Cr 177 (248)
.|-||++ ...++.+.||. |.++..|+.+|+.... ...||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~-~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG-NKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC-CCcCCCCC
Confidence 3889997 44567788985 8899999999998764 45899995
No 58
>KOG2879|consensus
Probab=97.60 E-value=6.8e-05 Score=63.51 Aligned_cols=50 Identities=22% Similarity=0.629 Sum_probs=40.7
Q ss_pred CCceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 131 GQIYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
....+|++|.+....|.+. +|||+||..||..-..... ..+||.|...+.
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~a-sf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDA-SFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchh-hcccCccCCCCc
Confidence 3457999999999999766 6999999999998776542 458999987664
No 59
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.58 E-value=8.1e-06 Score=50.33 Aligned_cols=27 Identities=26% Similarity=0.590 Sum_probs=15.3
Q ss_pred ccccCCCCCC----ceEeccCccccc-ceeccc
Q psy2200 37 CNICFDTAKD----AVISMCGHLFWL-KFFYWP 64 (248)
Q Consensus 37 C~iCld~~~~----~v~~~CGH~f~~-cv~~~y 64 (248)
|+||++ +.+ |++++|||+|+. |+.++.
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~ 32 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLS 32 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHH
Confidence 899999 888 999999999944 444443
No 60
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=1.6e-05 Score=67.05 Aligned_cols=31 Identities=26% Similarity=0.626 Sum_probs=28.2
Q ss_pred CCceeccccCCCCCCceEeccCccc-ccceec
Q psy2200 32 SQIYDCNICFDTAKDAVISMCGHLF-WLKFFY 62 (248)
Q Consensus 32 ~~~~~C~iCld~~~~~v~~~CGH~f-~~cv~~ 62 (248)
...|+|.||++...+|+-|+|||+| |.|++.
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~ 244 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLI 244 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHH
Confidence 5689999999999999999999999 667777
No 61
>KOG0824|consensus
Probab=97.55 E-value=2.6e-05 Score=66.87 Aligned_cols=135 Identities=16% Similarity=0.256 Sum_probs=73.8
Q ss_pred eeccccCCCCCCceEeccCccc-ccceeccccCCCC-CCCCCCCCCCCCCCCCccccccchhhhhccccccCCCCCCCCC
Q psy2200 35 YDCNICFDTAKDAVISMCGHLF-WLKFFYWPGRGGS-EIDPRDEVPPRPQGQRTERENSSVQSKVSNMATTSSGSKQTPP 112 (248)
Q Consensus 35 ~~C~iCld~~~~~v~~~CGH~f-~~cv~~~y~Rg~~-~~~p~~~~p~rp~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~ 112 (248)
=+|.||+..---||.+.|+|-| +.|+-..|+++.. ..-.+..++....-+.... -++.....+......
T Consensus 8 ~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~~psl~---------~~LK~n~p~~~~~t~ 78 (324)
T KOG0824|consen 8 KECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDFEPSLK---------YRLKPNTPEVKRITR 78 (324)
T ss_pred CcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchhcchhhh---------hhhcCCCCCCCcccc
Confidence 4799999999999999999999 6666666766543 2222222222111110000 000000000000000
Q ss_pred ------CCCCCCCCCCCCCCccCCCCceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 113 ------NRDEGSGDQKKTDGENDKGQIYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 113 ------~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
.......................|-||...+.-|... .|+|-||..|...|..... .||.|+..+.
T Consensus 79 ~~~~rag~n~nqnvp~~~~dA~~~~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~---~~~d~~~~~~ 151 (324)
T KOG0824|consen 79 SQAKRAGVNGNQNVPYMKEDAGFQQDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGN---DCPDCRGKIS 151 (324)
T ss_pred cHHhhhhhhccCCcchhhhhccccCCccceeeeeeeEEecccccCceeeeeecCCchhhhhhh---ccchhhcCcC
Confidence 0000000000011112233445788999988877666 5999999999999998766 8998887554
No 62
>KOG1813|consensus
Probab=97.53 E-value=3.1e-05 Score=66.20 Aligned_cols=46 Identities=28% Similarity=0.646 Sum_probs=40.6
Q ss_pred ceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 133 IYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
.+.|-||..++.+||++.|||.||..|...-++... .|.+|.+.+.
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~---~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGE---KCYVCSQQTH 286 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccccccCC---cceecccccc
Confidence 367999999999999999999999999988777655 8999987764
No 63
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.52 E-value=2.7e-05 Score=70.40 Aligned_cols=47 Identities=19% Similarity=0.218 Sum_probs=35.2
Q ss_pred CCCCCceeccccCCCCCCceEeccCccccc-ceeccccCCCCCCCCCCCC
Q psy2200 29 NDKSQIYDCNICFDTAKDAVISMCGHLFWL-KFFYWPGRGGSEIDPRDEV 77 (248)
Q Consensus 29 ~~~~~~~~C~iCld~~~~~v~~~CGH~f~~-cv~~~y~Rg~~~~~p~~~~ 77 (248)
..+...|.|+||++.+.+||+++|||.||. |+..|+... ..||.+..
T Consensus 21 ~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~--~~CP~Cr~ 68 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQ--PKCPLCRA 68 (397)
T ss_pred cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCC--CCCCCCCC
Confidence 456678999999999999999999999965 555555432 34555433
No 64
>KOG0804|consensus
Probab=97.52 E-value=4.7e-05 Score=68.50 Aligned_cols=46 Identities=28% Similarity=0.892 Sum_probs=38.5
Q ss_pred CCceeecccccccCCcE----EccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 131 GQIYDCNICLDTAKDAV----ISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~----~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
.+..+||||++.+...+ .+.|-|.|+..|+..|... +||+||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~-----scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS-----SCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC-----cChhhhhhcC
Confidence 45569999999998653 4589999999999999976 8999997655
No 65
>KOG1645|consensus
Probab=97.51 E-value=2e-05 Score=70.11 Aligned_cols=60 Identities=35% Similarity=0.793 Sum_probs=50.0
Q ss_pred eeecccccccCCc-----EEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecCCCC
Q psy2200 134 YDCNICLDTAKDA-----VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGRGGS 194 (248)
Q Consensus 134 ~~C~IC~~~~~~p-----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~ 194 (248)
..|+||++.+.-+ +.+.|||.|-..||..|+.. .....||.|...-.++.+.+.|.++..
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k-~~~~~cp~c~~katkr~i~~e~alR~q 69 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGK-KTKMQCPLCSGKATKRQIRPEYALRVQ 69 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhh-hhhhhCcccCChhHHHHHHHHHHHHHH
Confidence 5899999988754 67799999999999999963 336799999998888888888876644
No 66
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.47 E-value=8.6e-05 Score=51.10 Aligned_cols=29 Identities=31% Similarity=0.763 Sum_probs=26.9
Q ss_pred cCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 150 MCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 150 ~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
.|.|.|+..||++||..++ .||++|+...
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~---~CPld~q~w~ 81 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKG---VCPLDRQTWV 81 (88)
T ss_pred ecchHHHHHHHHHHHhhCC---CCCCCCceeE
Confidence 6999999999999999987 9999998865
No 67
>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=97.34 E-value=6.9e-05 Score=51.76 Aligned_cols=43 Identities=23% Similarity=0.379 Sum_probs=31.3
Q ss_pred CCceeccccCCCCCCceEeccCccc-ccceeccccCCCCCCCCCC
Q psy2200 32 SQIYDCNICFDTAKDAVISMCGHLF-WLKFFYWPGRGGSEIDPRD 75 (248)
Q Consensus 32 ~~~~~C~iCld~~~~~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~~ 75 (248)
.+.|.|+|+.++..|||++++||+| -.++..|+.+ ....||.+
T Consensus 2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~-~~~~~P~t 45 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQ-NGGTDPFT 45 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCT-TSSB-TTT
T ss_pred CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHc-CCCCCCCC
Confidence 3579999999999999999999999 5567777766 23455544
No 68
>KOG0825|consensus
Probab=97.27 E-value=4.8e-05 Score=72.57 Aligned_cols=56 Identities=29% Similarity=0.628 Sum_probs=44.2
Q ss_pred CceeecccccccCCcE---EccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeec
Q psy2200 132 QIYDCNICLDTAKDAV---ISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYG 190 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~---~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 190 (248)
..-.|++|+..+.+.. ..+|+|.||..||..|.+... +||+||..+...++..-+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq---TCPiDR~EF~~v~V~eS~~ 180 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ---TCPVDRGEFGEVKVLESTG 180 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc---cCchhhhhhheeeeecccc
Confidence 3457999998776543 348999999999999999877 9999999988665544333
No 69
>KOG0828|consensus
Probab=97.23 E-value=0.00012 Score=66.57 Aligned_cols=49 Identities=33% Similarity=0.918 Sum_probs=38.1
Q ss_pred CCceeecccccccC-----------------CcEEccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 131 GQIYDCNICLDTAK-----------------DAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 131 ~~~~~C~IC~~~~~-----------------~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
+....|+||+.... +-+.+||-|+|+..|+.+|.... +..||+||.++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~y--kl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTY--KLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhh--cccCCccCCCCC
Confidence 44568999998542 12456999999999999999853 248999999875
No 70
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.23 E-value=0.00016 Score=46.40 Aligned_cols=48 Identities=25% Similarity=0.545 Sum_probs=38.3
Q ss_pred ceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 133 IYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
...|-.|...-...++++|||+.|..|..-+-.+ .||+|..++...++
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rYn-----gCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGERYN-----GCPFCGTPFEFDDP 54 (55)
T ss_pred ceeEEEccccccccccccccceeeccccChhhcc-----CCCCCCCcccCCCC
Confidence 3567788888788899999999999997754433 79999999876543
No 71
>KOG4275|consensus
Probab=97.21 E-value=6.1e-05 Score=64.28 Aligned_cols=42 Identities=36% Similarity=0.881 Sum_probs=36.0
Q ss_pred ceeecccccccCCcEEccCCCc-cCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 133 IYDCNICLDTAKDAVISMCGHL-FCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
...|.||++...+-+.|+|||. -|..|-.+. ..||+||+.|.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm-------~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM-------NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc-------ccCchHHHHHH
Confidence 5689999999999999999996 899996542 37999999875
No 72
>KOG1493|consensus
Probab=97.20 E-value=9.2e-05 Score=50.51 Aligned_cols=32 Identities=31% Similarity=0.843 Sum_probs=28.6
Q ss_pred cCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 150 MCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 150 ~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
.|.|.|+..||.+|+....+...||+||+...
T Consensus 50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred HHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 69999999999999998776779999998765
No 73
>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=97.18 E-value=0.00012 Score=43.06 Aligned_cols=29 Identities=38% Similarity=0.799 Sum_probs=24.7
Q ss_pred ccccCCCCCCceEeccCccc-ccceecccc
Q psy2200 37 CNICFDTAKDAVISMCGHLF-WLKFFYWPG 65 (248)
Q Consensus 37 C~iCld~~~~~v~~~CGH~f-~~cv~~~y~ 65 (248)
|+||++...+++.++|||.| ..|+..|+.
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~ 30 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLK 30 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHH
Confidence 89999999999999999999 556666654
No 74
>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=97.17 E-value=0.0001 Score=46.89 Aligned_cols=32 Identities=34% Similarity=0.575 Sum_probs=25.5
Q ss_pred ceeccccCCCCCCceEeccCcc-c-ccceecccc
Q psy2200 34 IYDCNICFDTAKDAVISMCGHL-F-WLKFFYWPG 65 (248)
Q Consensus 34 ~~~C~iCld~~~~~v~~~CGH~-f-~~cv~~~y~ 65 (248)
.+.|.||++...+++++||||. | ..|...|+.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~ 35 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK 35 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc
Confidence 4689999999999999999999 7 556666643
No 75
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=97.16 E-value=8.1e-05 Score=46.04 Aligned_cols=31 Identities=32% Similarity=0.716 Sum_probs=25.5
Q ss_pred eccccCCCC---CCceEeccCccc-ccceeccccC
Q psy2200 36 DCNICFDTA---KDAVISMCGHLF-WLKFFYWPGR 66 (248)
Q Consensus 36 ~C~iCld~~---~~~v~~~CGH~f-~~cv~~~y~R 66 (248)
+|+||++.+ ..++.++|||.| ..|+..|+.+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~ 36 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR 36 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh
Confidence 699999887 467889999999 7788888654
No 76
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.12 E-value=0.00015 Score=70.69 Aligned_cols=50 Identities=28% Similarity=0.769 Sum_probs=38.9
Q ss_pred CCceeecccccccC--C---c--EEccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 131 GQIYDCNICLDTAK--D---A--VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 131 ~~~~~C~IC~~~~~--~---p--~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
...-+|+||...+. + | ..-.|.|.||..|+.+|++... ..+||+||..+.
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~-~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSA-RSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcC-CCCCCccccccc
Confidence 34568999998765 1 1 2235999999999999999865 669999997764
No 77
>KOG1002|consensus
Probab=97.08 E-value=0.00025 Score=65.15 Aligned_cols=57 Identities=33% Similarity=0.771 Sum_probs=47.0
Q ss_pred CCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCC--CCCcccccccccccCCc
Q psy2200 129 DKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCP--NRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 129 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~--~~~~CP~Cr~~~~~~~~ 185 (248)
.......|.+|.+...+++...|.|.||+-|+..++..-. ...+||.|...+..+.-
T Consensus 532 enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 3455679999999999999999999999999999887532 25799999988876543
No 78
>KOG1571|consensus
Probab=97.06 E-value=0.00034 Score=61.62 Aligned_cols=47 Identities=38% Similarity=0.764 Sum_probs=37.2
Q ss_pred CCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 129 DKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 129 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
.......|.||++...+.+.++|||+-| |..-..+. ..||+||..|.
T Consensus 301 ~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~l----~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKHL----PQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCccceeeecCCcEEE--chHHHhhC----CCCchhHHHHH
Confidence 3445578999999999999999999976 66554443 36999999875
No 79
>KOG4692|consensus
Probab=97.02 E-value=0.0004 Score=60.86 Aligned_cols=48 Identities=31% Similarity=0.713 Sum_probs=42.3
Q ss_pred CceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 132 QIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
++..|+||.....+.|+.||+|.-|..||.+.+-+.. .|-.|+..+..
T Consensus 421 Ed~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k---~CFfCktTv~~ 468 (489)
T KOG4692|consen 421 EDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCK---RCFFCKTTVID 468 (489)
T ss_pred ccccCcceecccchhhccCCCCchHHHHHHHHHhcCC---eeeEecceeee
Confidence 3458999999999999999999999999999988755 99999988764
No 80
>KOG2164|consensus
Probab=96.94 E-value=0.00018 Score=65.90 Aligned_cols=31 Identities=26% Similarity=0.550 Sum_probs=27.3
Q ss_pred ceeccccCCCCCCceEeccCccc-ccceeccc
Q psy2200 34 IYDCNICFDTAKDAVISMCGHLF-WLKFFYWP 64 (248)
Q Consensus 34 ~~~C~iCld~~~~~v~~~CGH~f-~~cv~~~y 64 (248)
...|||||.-..-|+.|.|||+| |.|+++++
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~ 217 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYW 217 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHH
Confidence 68899999999999999999999 66777643
No 81
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.81 E-value=0.00043 Score=58.50 Aligned_cols=42 Identities=26% Similarity=0.533 Sum_probs=30.3
Q ss_pred CCceeccccCCCCCC--------ceEeccCccc-ccceeccccCCCCCCCCCC
Q psy2200 32 SQIYDCNICFDTAKD--------AVISMCGHLF-WLKFFYWPGRGGSEIDPRD 75 (248)
Q Consensus 32 ~~~~~C~iCld~~~~--------~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~~ 75 (248)
....+|+||++.+.+ ++.++|||.| ..|+..|..+. ..||..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~--~tCPlC 222 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK--NTCPVC 222 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC--CCCCCC
Confidence 345799999998765 3677899999 45677787643 456654
No 82
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=96.77 E-value=0.00025 Score=60.56 Aligned_cols=54 Identities=17% Similarity=0.170 Sum_probs=37.1
Q ss_pred CCCCCCceeccccCCCCCCceEeccCcccccceeccccCCCCCCCCCCCCCCCCC
Q psy2200 28 GNDKSQIYDCNICFDTAKDAVISMCGHLFWLKFFYWPGRGGSEIDPRDEVPPRPQ 82 (248)
Q Consensus 28 ~~~~~~~~~C~iCld~~~~~v~~~CGH~f~~cv~~~y~Rg~~~~~p~~~~p~rp~ 82 (248)
-..+..+..|-||-+.++.|+.|+|||.||.-+|+-|-+. ...+|.+.++++..
T Consensus 19 L~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~es 72 (391)
T COG5432 19 LKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGT-QPFCPVCREDPCES 72 (391)
T ss_pred hhcchhHHHhhhhhheeecceecccccchhHHHHHHHhcC-CCCCccccccHHhh
Confidence 3456778999999999999999999999966555443222 24455554444333
No 83
>KOG2930|consensus
Probab=96.75 E-value=0.00072 Score=48.91 Aligned_cols=28 Identities=32% Similarity=0.918 Sum_probs=25.5
Q ss_pred cCCCccCHhHHHHHHHhCCCCCccccccccc
Q psy2200 150 MCGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180 (248)
Q Consensus 150 ~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~ 180 (248)
-|.|.|+..||.+|++++. .||+|.+.-
T Consensus 80 ~CNHaFH~hCisrWlktr~---vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRN---VCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcC---cCCCcCcce
Confidence 5999999999999999988 999998764
No 84
>KOG0826|consensus
Probab=96.67 E-value=0.00063 Score=59.11 Aligned_cols=56 Identities=23% Similarity=0.659 Sum_probs=46.5
Q ss_pred CCceeecccccccCCcEEcc-CCCccCHhHHHHHHHhCCCCCcccccccccccCCceeee
Q psy2200 131 GQIYDCNICLDTAKDAVISM-CGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVY 189 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 189 (248)
.+.-.|+||+..-.+|.++. -|-+||+.|+..++...+ .||+-..+..-.+++.+|
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~---~CPVT~~p~~v~~l~rl~ 354 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYG---HCPVTGYPASVDHLIRLF 354 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcC---CCCccCCcchHHHHHHHh
Confidence 34458999999999997775 499999999999999877 999988887766666555
No 85
>KOG0287|consensus
Probab=96.66 E-value=0.00014 Score=63.30 Aligned_cols=53 Identities=19% Similarity=0.224 Sum_probs=37.7
Q ss_pred CCCCCceeccccCCCCCCceEeccCcccccceeccccCCCCCCCCCCCCCCCCC
Q psy2200 29 NDKSQIYDCNICFDTAKDAVISMCGHLFWLKFFYWPGRGGSEIDPRDEVPPRPQ 82 (248)
Q Consensus 29 ~~~~~~~~C~iCld~~~~~v~~~CGH~f~~cv~~~y~Rg~~~~~p~~~~p~rp~ 82 (248)
..+.+.+.|-||.|.|+.|++|||||+||.-+|+-|-+. ...||.+.++-+..
T Consensus 18 k~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 18 KTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTES 70 (442)
T ss_pred hhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhcc-CCCCCceecccchh
Confidence 455678999999999999999999999977555544333 24556554444333
No 86
>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=96.60 E-value=0.0007 Score=41.09 Aligned_cols=31 Identities=29% Similarity=0.811 Sum_probs=23.8
Q ss_pred eccccCCCCCCceEec-cCccc-ccceeccccC
Q psy2200 36 DCNICFDTAKDAVISM-CGHLF-WLKFFYWPGR 66 (248)
Q Consensus 36 ~C~iCld~~~~~v~~~-CGH~f-~~cv~~~y~R 66 (248)
+|+||++.+.+++.++ |||.| ..|+..|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~ 33 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKS 33 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHh
Confidence 5999999997777766 99999 5566666543
No 87
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.52 E-value=0.0012 Score=56.82 Aligned_cols=55 Identities=25% Similarity=0.606 Sum_probs=42.3
Q ss_pred eeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCccccccc-ccccCCceeeec
Q psy2200 134 YDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKA-AIDKDKVIPVYG 190 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~-~~~~~~~~~~~~ 190 (248)
+.|+.|..++++|+.+ -|||.||.+||..-|-.. -..||.|.. .+..+.+.+-+.
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~ds--Df~CpnC~rkdvlld~l~pD~d 331 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDS--DFKCPNCSRKDVLLDGLTPDID 331 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhc--cccCCCcccccchhhccCccHH
Confidence 7899999999999999 589999999999765442 249999965 455555555443
No 88
>KOG4159|consensus
Probab=96.45 E-value=0.00073 Score=61.24 Aligned_cols=38 Identities=18% Similarity=0.393 Sum_probs=31.5
Q ss_pred CCCCCceeccccCCCCCCceEeccCccc-ccceeccccC
Q psy2200 29 NDKSQIYDCNICFDTAKDAVISMCGHLF-WLKFFYWPGR 66 (248)
Q Consensus 29 ~~~~~~~~C~iCld~~~~~v~~~CGH~f-~~cv~~~y~R 66 (248)
.+....|+|.||.+++..||+|+|||.| .+|+++..+.
T Consensus 79 ~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~ 117 (398)
T KOG4159|consen 79 EEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQ 117 (398)
T ss_pred ccccchhhhhhhHhhcCCCccccccccccHHHHHHHhcc
Confidence 3447789999999999999999999999 4477776553
No 89
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.42 E-value=0.00078 Score=44.13 Aligned_cols=42 Identities=31% Similarity=0.504 Sum_probs=25.0
Q ss_pred CCceeccccCCCCCCceEe-ccCccc-ccceeccccCCCCCCCC
Q psy2200 32 SQIYDCNICFDTAKDAVIS-MCGHLF-WLKFFYWPGRGGSEIDP 73 (248)
Q Consensus 32 ~~~~~C~iCld~~~~~v~~-~CGH~f-~~cv~~~y~Rg~~~~~p 73 (248)
.-.+.|+|.+..+.+||.. .|||+| -..+..++.+.+...+|
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CP 52 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCP 52 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-S
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCC
Confidence 4579999999999999985 899999 33455566444444444
No 90
>KOG4628|consensus
Probab=96.33 E-value=0.0054 Score=54.49 Aligned_cols=42 Identities=21% Similarity=0.339 Sum_probs=33.7
Q ss_pred eeccccCCCCCC---ceEeccCccc-ccceeccccCCCCCCCCCCCC
Q psy2200 35 YDCNICFDTAKD---AVISMCGHLF-WLKFFYWPGRGGSEIDPRDEV 77 (248)
Q Consensus 35 ~~C~iCld~~~~---~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~~~~ 77 (248)
+.|.||||-+.+ .+++||.|.| ..|+-.|+.+. ...||.++.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~-r~~CPvCK~ 275 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT-RTFCPVCKR 275 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc-CccCCCCCC
Confidence 899999999874 5779999999 88999998766 345665544
No 91
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=96.27 E-value=0.0012 Score=40.81 Aligned_cols=28 Identities=32% Similarity=0.781 Sum_probs=21.5
Q ss_pred eccccCCCC---CCceEeccCccccc-ceecc
Q psy2200 36 DCNICFDTA---KDAVISMCGHLFWL-KFFYW 63 (248)
Q Consensus 36 ~C~iCld~~---~~~v~~~CGH~f~~-cv~~~ 63 (248)
+|+||.+.+ ..+++++|||+|+. |+...
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~ 32 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKL 32 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhh
Confidence 599999887 46899999999954 44444
No 92
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.22 E-value=0.0059 Score=53.61 Aligned_cols=51 Identities=22% Similarity=0.623 Sum_probs=39.9
Q ss_pred CCCCceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCccccccccc
Q psy2200 129 DKGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180 (248)
Q Consensus 129 ~~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~ 180 (248)
..++...|.||.+.+.-..++||+|..|.-|..+.-.--. .+.|++||..-
T Consensus 57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~-~K~C~~CrTE~ 107 (493)
T COG5236 57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYM-QKGCPLCRTET 107 (493)
T ss_pred cccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHh-ccCCCcccccc
Confidence 3455678999999998889999999999999877543322 45899998753
No 93
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=96.19 E-value=0.0048 Score=48.43 Aligned_cols=53 Identities=25% Similarity=0.592 Sum_probs=39.2
Q ss_pred ceeecccccccCCcEEccC------------CCc-cCHhHHHHHHHhCC----------------------------CCC
Q psy2200 133 IYDCNICLDTAKDAVISMC------------GHL-FCWPCLHQWLETCP----------------------------NRQ 171 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~~C------------gH~-fC~~Ci~~~~~~~~----------------------------~~~ 171 (248)
+..|+||++...+.|+|-| +-. -+..|++++.+... ...
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 81 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL 81 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence 3689999999999999976 211 34689998876532 145
Q ss_pred cccccccccccCCc
Q psy2200 172 TCPVCKAAIDKDKV 185 (248)
Q Consensus 172 ~CP~Cr~~~~~~~~ 185 (248)
.||+||..|....+
T Consensus 82 ~CPLCRG~V~GWtv 95 (162)
T PF07800_consen 82 ACPLCRGEVKGWTV 95 (162)
T ss_pred cCccccCceeceEE
Confidence 79999999876544
No 94
>KOG2177|consensus
Probab=96.17 E-value=0.00077 Score=58.08 Aligned_cols=47 Identities=21% Similarity=0.357 Sum_probs=33.2
Q ss_pred CCCCCceeccccCCCCCCceEeccCcccccceeccccCCCCCCCCCCC
Q psy2200 29 NDKSQIYDCNICFDTAKDAVISMCGHLFWLKFFYWPGRGGSEIDPRDE 76 (248)
Q Consensus 29 ~~~~~~~~C~iCld~~~~~v~~~CGH~f~~cv~~~y~Rg~~~~~p~~~ 76 (248)
......+.|+||++.+.+|++++|||+||.-++...+. ....+|...
T Consensus 8 ~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr 54 (386)
T KOG2177|consen 8 EVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCPVCR 54 (386)
T ss_pred hhccccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCcccC
Confidence 34466899999999999999999999995544433222 334555444
No 95
>KOG4367|consensus
Probab=96.02 E-value=0.003 Score=56.96 Aligned_cols=38 Identities=24% Similarity=0.605 Sum_probs=33.2
Q ss_pred CCceeecccccccCCcEEccCCCccCHhHHHHHHHhCC
Q psy2200 131 GQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCP 168 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~ 168 (248)
++++.|+||...+++|++|+|||..|+-|....+-+.+
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~tp 39 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQTP 39 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhhcccCC
Confidence 35689999999999999999999999999988776543
No 96
>KOG1001|consensus
Probab=96.01 E-value=0.0016 Score=63.16 Aligned_cols=52 Identities=31% Similarity=0.818 Sum_probs=44.7
Q ss_pred eeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCcee
Q psy2200 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIP 187 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~ 187 (248)
+.|.||.+ ...++++.|||.||..|+...+.... ...||.||..+...++..
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~-~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSE-NAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhcccccc-CCCCcHHHHHHHHHHHhh
Confidence 79999999 78889999999999999999988765 348999999887766544
No 97
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.97 E-value=0.0059 Score=46.46 Aligned_cols=52 Identities=31% Similarity=0.809 Sum_probs=44.4
Q ss_pred CceeecccccccCCcEEcc----CCCccCHhHHHHHHHhCCCCCcccccccccccC
Q psy2200 132 QIYDCNICLDTAKDAVISM----CGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKD 183 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~~----CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~ 183 (248)
..++|.||.+...+...|. ||-..|.-|....|+...-...||+|+.++...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 4589999999988887773 999999999999888766577999999988754
No 98
>KOG4739|consensus
Probab=95.85 E-value=0.0028 Score=53.12 Aligned_cols=47 Identities=34% Similarity=0.858 Sum_probs=32.4
Q ss_pred eeecccccccC-Cc-EEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 134 YDCNICLDTAK-DA-VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 134 ~~C~IC~~~~~-~p-~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
+.|..|..... ++ .++.|+|+||..|...-.. ..||+|++.+....+
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~-----~~C~lCkk~ir~i~l 52 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP-----DVCPLCKKSIRIIQL 52 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCc-----cccccccceeeeeec
Confidence 46777775443 33 4568999999999754222 289999998765444
No 99
>KOG1941|consensus
Probab=95.82 E-value=0.003 Score=56.22 Aligned_cols=47 Identities=26% Similarity=0.612 Sum_probs=37.7
Q ss_pred ceeecccccccC----CcEEccCCCccCHhHHHHHHHhCCCCCccccccccc
Q psy2200 133 IYDCNICLDTAK----DAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180 (248)
Q Consensus 133 ~~~C~IC~~~~~----~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~ 180 (248)
.+.|..|-+.+- .--.+||.|+|+..|+..++.++. .++||.||+-.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~-~rsCP~Crklr 415 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG-TRSCPNCRKLR 415 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC-CCCCccHHHHH
Confidence 468999998654 224679999999999999998764 78999999543
No 100
>KOG0802|consensus
Probab=95.75 E-value=0.0079 Score=57.22 Aligned_cols=47 Identities=30% Similarity=0.694 Sum_probs=36.0
Q ss_pred CceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 132 QIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
....|.||.+.. ...+.+|- ...|+..|+..+. .||+|+..+..++.
T Consensus 478 ~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~---~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 478 PNDVCAICYQEM-SARITPCS---HALCLRKWLYVQE---VCPLCHTYMKEDDF 524 (543)
T ss_pred ccCcchHHHHHH-Hhcccccc---chhHHHhhhhhcc---ccCCCchhhhcccc
Confidence 345799999988 55666777 5688888988776 89999988765543
No 101
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.75 E-value=0.0045 Score=38.87 Aligned_cols=43 Identities=30% Similarity=0.728 Sum_probs=20.8
Q ss_pred ecccccccC--CcEEc--cCCCccCHhHHHHHHHhCCCCCccccccccc
Q psy2200 136 CNICLDTAK--DAVIS--MCGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180 (248)
Q Consensus 136 C~IC~~~~~--~p~~~--~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~ 180 (248)
|++|.+.+. +-.++ +||+.+|..|....++.. ...||-||.++
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~--~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENE--GGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS---SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhcc--CCCCCCCCCCC
Confidence 678888763 22333 689999999998888642 23999999875
No 102
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=95.68 E-value=0.0041 Score=41.34 Aligned_cols=29 Identities=34% Similarity=0.817 Sum_probs=15.0
Q ss_pred CceeccccCCCCCCceE-eccCccccccee
Q psy2200 33 QIYDCNICFDTAKDAVI-SMCGHLFWLKFF 61 (248)
Q Consensus 33 ~~~~C~iCld~~~~~v~-~~CGH~f~~cv~ 61 (248)
....|++|.+.+++||. +.|.|+||+-++
T Consensus 6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci 35 (65)
T PF14835_consen 6 ELLRCSICFDILKEPVCLGGCEHIFCSSCI 35 (65)
T ss_dssp HTTS-SSS-S--SS-B---SSS--B-TTTG
T ss_pred HhcCCcHHHHHhcCCceeccCccHHHHHHh
Confidence 35789999999999985 889999955444
No 103
>KOG4185|consensus
Probab=95.65 E-value=0.007 Score=52.98 Aligned_cols=45 Identities=29% Similarity=0.744 Sum_probs=37.5
Q ss_pred eeecccccccC------CcEEccCCCccCHhHHHHHHHhCCCCCccccccccc
Q psy2200 134 YDCNICLDTAK------DAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180 (248)
Q Consensus 134 ~~C~IC~~~~~------~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~ 180 (248)
+.|-||-+.+. .|.+|.|||.||..|+...+... ...||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~--~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNS--RILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCc--eeeccCCCCcc
Confidence 57999998775 46888999999999999888763 46889999984
No 104
>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=95.56 E-value=0.0048 Score=42.53 Aligned_cols=33 Identities=30% Similarity=0.763 Sum_probs=25.4
Q ss_pred eccccCCCCCCc-------------eEeccCccc-ccceeccccCCC
Q psy2200 36 DCNICFDTAKDA-------------VISMCGHLF-WLKFFYWPGRGG 68 (248)
Q Consensus 36 ~C~iCld~~~~~-------------v~~~CGH~f-~~cv~~~y~Rg~ 68 (248)
.|.||++.+.++ +..+|||.| .-|+.+|+.+..
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~ 67 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN 67 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC
Confidence 399999888332 456899999 788888986554
No 105
>KOG1814|consensus
Probab=95.38 E-value=0.0072 Score=54.23 Aligned_cols=47 Identities=28% Similarity=0.709 Sum_probs=35.1
Q ss_pred CCceeecccccccCC---cEEccCCCccCHhHHHHHHHhCC-----CCCcccccc
Q psy2200 131 GQIYDCNICLDTAKD---AVISMCGHLFCWPCLHQWLETCP-----NRQTCPVCK 177 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~---p~~~~CgH~fC~~Ci~~~~~~~~-----~~~~CP~Cr 177 (248)
...+.|.||++...- -+.+||+|+||+.|+..+....- ...+||.+.
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 356899999997653 36779999999999999976422 245677654
No 106
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.38 E-value=0.0048 Score=50.09 Aligned_cols=36 Identities=28% Similarity=0.528 Sum_probs=30.7
Q ss_pred ceeccccCCCCCCceEeccCcccc-cceeccccCCCC
Q psy2200 34 IYDCNICFDTAKDAVISMCGHLFW-LKFFYWPGRGGS 69 (248)
Q Consensus 34 ~~~C~iCld~~~~~v~~~CGH~f~-~cv~~~y~Rg~~ 69 (248)
.|.|-||...+..||+|-|||.|| .|.+.-|..+..
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~ 232 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDE 232 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHhccCCc
Confidence 699999999999999999999994 477777766654
No 107
>KOG2817|consensus
Probab=95.35 E-value=0.013 Score=52.55 Aligned_cols=57 Identities=14% Similarity=0.378 Sum_probs=43.1
Q ss_pred CCCceeecccccccC---CcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCce
Q psy2200 130 KGQIYDCNICLDTAK---DAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVI 186 (248)
Q Consensus 130 ~~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~ 186 (248)
....|.|||=.+.-. .|+.+.|||+.+..-+.+..+...-..+||.|-......+..
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~~k 390 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASDTK 390 (394)
T ss_pred ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHhcc
Confidence 446789999776433 579999999999999999888744357999997665544443
No 108
>KOG1814|consensus
Probab=95.08 E-value=0.0076 Score=54.10 Aligned_cols=32 Identities=25% Similarity=0.597 Sum_probs=24.9
Q ss_pred CCCceeccccCCCCC---CceEeccCcccccceec
Q psy2200 31 KSQIYDCNICFDTAK---DAVISMCGHLFWLKFFY 62 (248)
Q Consensus 31 ~~~~~~C~iCld~~~---~~v~~~CGH~f~~cv~~ 62 (248)
....|+|.||.+... .-+.+||+|.||.-+.+
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~k 215 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLK 215 (445)
T ss_pred HhhcccceeeehhhcCcceeeecccchHHHHHHHH
Confidence 456799999998854 46889999999664444
No 109
>KOG0804|consensus
Probab=94.96 E-value=0.0081 Score=54.46 Aligned_cols=31 Identities=19% Similarity=0.652 Sum_probs=25.7
Q ss_pred ceeccccCCCCCCc----eEeccCccc-ccceeccc
Q psy2200 34 IYDCNICFDTAKDA----VISMCGHLF-WLKFFYWP 64 (248)
Q Consensus 34 ~~~C~iCld~~~~~----v~~~CGH~f-~~cv~~~y 64 (248)
.=.|+|||+....- +.+.|-|.| +.|+-+|.
T Consensus 175 LPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~ 210 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW 210 (493)
T ss_pred CCCcchhHhhcCccccceeeeecccccchHHHhhcc
Confidence 34799999887653 578999999 99999993
No 110
>PHA02926 zinc finger-like protein; Provisional
Probab=94.95 E-value=0.0056 Score=50.75 Aligned_cols=33 Identities=24% Similarity=0.723 Sum_probs=25.2
Q ss_pred CCceeccccCCCCCC---------ceEeccCccc-ccceeccc
Q psy2200 32 SQIYDCNICFDTAKD---------AVISMCGHLF-WLKFFYWP 64 (248)
Q Consensus 32 ~~~~~C~iCld~~~~---------~v~~~CGH~f-~~cv~~~y 64 (248)
....+|.||+|...+ .+..+|+|.| +.|+..|.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr 210 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWH 210 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHH
Confidence 445889999998643 4778999999 55777783
No 111
>KOG1813|consensus
Probab=94.81 E-value=0.016 Score=49.92 Aligned_cols=42 Identities=21% Similarity=0.365 Sum_probs=33.2
Q ss_pred CCCCCCceeccccCCCCCCceEeccCcccc-cceeccccCCCC
Q psy2200 28 GNDKSQIYDCNICFDTAKDAVISMCGHLFW-LKFFYWPGRGGS 69 (248)
Q Consensus 28 ~~~~~~~~~C~iCld~~~~~v~~~CGH~f~-~cv~~~y~Rg~~ 69 (248)
.+.+.-.|.|-||...+.+||+|.|||.|| .|-+.-|.++..
T Consensus 235 ~D~~~~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~ 277 (313)
T KOG1813|consen 235 EDIELLPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEK 277 (313)
T ss_pred CCcccCCccccccccccccchhhcCCceeehhhhccccccCCc
Confidence 334455699999999999999999999994 466666776644
No 112
>PHA03096 p28-like protein; Provisional
Probab=94.47 E-value=0.019 Score=49.95 Aligned_cols=46 Identities=26% Similarity=0.529 Sum_probs=34.3
Q ss_pred eeecccccccCC--------cEEccCCCccCHhHHHHHHHhCCCCCcccccccc
Q psy2200 134 YDCNICLDTAKD--------AVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAA 179 (248)
Q Consensus 134 ~~C~IC~~~~~~--------p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~ 179 (248)
..|.||++.... ..+..|-|.||..|+..|...+.....||.||.-
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~ 232 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRL 232 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccch
Confidence 479999986542 2344799999999999999876555566666653
No 113
>KOG3800|consensus
Probab=94.35 E-value=0.027 Score=48.40 Aligned_cols=49 Identities=27% Similarity=0.726 Sum_probs=36.6
Q ss_pred eeccccc-ccCCc----EEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 135 DCNICLD-TAKDA----VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 135 ~C~IC~~-~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
.|++|.. .+.+| .+-+|||..|.+|+...+.... ..||.|...+....+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~--~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGP--AQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCC--CCCCcccchhhhccc
Confidence 5899986 34454 1228999999999999887643 599999887765544
No 114
>KOG3002|consensus
Probab=94.26 E-value=0.026 Score=49.50 Aligned_cols=47 Identities=26% Similarity=0.655 Sum_probs=36.5
Q ss_pred CCCCceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 129 DKGQIYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 129 ~~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
...+.+.||||.+.+..|+.= .=||+.|..|-.+.. . .||.||.++.
T Consensus 44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~---~---~CP~Cr~~~g 91 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVS---N---KCPTCRLPIG 91 (299)
T ss_pred cchhhccCchhhccCcccceecCCCcEehhhhhhhhc---c---cCCccccccc
Confidence 345668999999999887432 449999999976432 2 8999999887
No 115
>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=94.00 E-value=0.064 Score=34.05 Aligned_cols=45 Identities=20% Similarity=0.551 Sum_probs=22.4
Q ss_pred eeecccccccCCcEEc-cCCCccCHhH--HHHHHHhCCCCCcccccccc
Q psy2200 134 YDCNICLDTAKDAVIS-MCGHLFCWPC--LHQWLETCPNRQTCPVCKAA 179 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~-~CgH~fC~~C--i~~~~~~~~~~~~CP~Cr~~ 179 (248)
+.|+|....+..|+.. .|.|.-|.+= ........ +...||+|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~-~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRT-PKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS----B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhcc-CCeECcCCcCc
Confidence 6899999999999877 7999966443 22222323 25789999763
No 116
>KOG0978|consensus
Probab=93.81 E-value=0.012 Score=56.58 Aligned_cols=35 Identities=31% Similarity=0.546 Sum_probs=29.1
Q ss_pred CCCceeccccCCCCCCceEeccCccccc-ceecccc
Q psy2200 31 KSQIYDCNICFDTAKDAVISMCGHLFWL-KFFYWPG 65 (248)
Q Consensus 31 ~~~~~~C~iCld~~~~~v~~~CGH~f~~-cv~~~y~ 65 (248)
.-....|++|.+..+|.|.+.|||.||. ||-..|.
T Consensus 640 yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~e 675 (698)
T KOG0978|consen 640 YKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYE 675 (698)
T ss_pred HHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHH
Confidence 4456899999999999999999999954 6666665
No 117
>KOG1428|consensus
Probab=93.60 E-value=0.05 Score=55.98 Aligned_cols=52 Identities=31% Similarity=0.583 Sum_probs=39.7
Q ss_pred CCceeecccccccC---CcEEccCCCccCHhHHHHHHHhCC-------CCCccccccccccc
Q psy2200 131 GQIYDCNICLDTAK---DAVISMCGHLFCWPCLHQWLETCP-------NRQTCPVCKAAIDK 182 (248)
Q Consensus 131 ~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~-------~~~~CP~Cr~~~~~ 182 (248)
..+..|-||+...- ..+.|.|+|+|+..|..+.++.+= +-..||+|+.+|..
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 34568999996432 347889999999999999888652 24589999988763
No 118
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=93.54 E-value=0.091 Score=41.40 Aligned_cols=48 Identities=25% Similarity=0.654 Sum_probs=36.6
Q ss_pred ceeecccccccCCcEEccCCC-----ccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 133 IYDCNICLDTAKDAVISMCGH-----LFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~~CgH-----~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
...|-||.+... +..-||.. ..|.+|+.+|+.... ...|++|+.++..
T Consensus 8 ~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~-~~~CeiC~~~Y~i 60 (162)
T PHA02825 8 DKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSK-NKSCKICNGPYNI 60 (162)
T ss_pred CCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCC-CCcccccCCeEEE
Confidence 358999998764 33456654 359999999999764 6799999998753
No 119
>KOG2932|consensus
Probab=93.51 E-value=0.029 Score=48.64 Aligned_cols=45 Identities=22% Similarity=0.685 Sum_probs=31.8
Q ss_pred CceeecccccccC-CcEEccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 132 QIYDCNICLDTAK-DAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 132 ~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
....|.-|--.+. -..+++|.|+||.+|... +. .+.||.|-..|.
T Consensus 89 ~VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~---dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 89 RVHFCDRCDFPIAIYGRMIPCKHVFCLECARS--DS---DKICPLCDDRVQ 134 (389)
T ss_pred ceEeecccCCcceeeecccccchhhhhhhhhc--Cc---cccCcCcccHHH
Confidence 3567888865433 456789999999999753 22 348999976554
No 120
>PHA02862 5L protein; Provisional
Probab=93.48 E-value=0.054 Score=41.92 Aligned_cols=47 Identities=23% Similarity=0.685 Sum_probs=36.4
Q ss_pred eeecccccccCCcEEccCCC-----ccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAKDAVISMCGH-----LFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~CgH-----~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
..|-||++.-.+. .-||.. ..|+.|+.+|+.... ...|++|+.++..
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~-k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSK-KKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCC-CcCccCCCCeEEE
Confidence 3799999876544 457653 378999999997654 7799999998864
No 121
>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=93.38 E-value=0.082 Score=32.42 Aligned_cols=40 Identities=18% Similarity=0.589 Sum_probs=25.0
Q ss_pred ecccccccCCcEEcc---CCCccCHhHHHHHHHhCCCCCccccc
Q psy2200 136 CNICLDTAKDAVISM---CGHLFCWPCLHQWLETCPNRQTCPVC 176 (248)
Q Consensus 136 C~IC~~~~~~p~~~~---CgH~fC~~Ci~~~~~~~~~~~~CP~C 176 (248)
|.+|.+.....+.-+ |+=.++..|+..+++... ...||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~-~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRS-NPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-S-S-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCC-CCCCcCC
Confidence 678888888777765 888899999999998765 2379987
No 122
>KOG0311|consensus
Probab=93.37 E-value=0.004 Score=54.82 Aligned_cols=36 Identities=19% Similarity=0.280 Sum_probs=28.5
Q ss_pred CCCceeccccCCCCCCceEec-cCccc-ccceeccccC
Q psy2200 31 KSQIYDCNICFDTAKDAVISM-CGHLF-WLKFFYWPGR 66 (248)
Q Consensus 31 ~~~~~~C~iCld~~~~~v~~~-CGH~f-~~cv~~~y~R 66 (248)
....|.|+|||++++....++ |+|-| +.|++..+..
T Consensus 40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~ 77 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRS 77 (381)
T ss_pred hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHh
Confidence 345699999999999998887 99999 5566665443
No 123
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.35 E-value=0.055 Score=47.57 Aligned_cols=51 Identities=24% Similarity=0.604 Sum_probs=37.3
Q ss_pred eeecccccccC--CcEEc--cCCCccCHhHHHHHHHhCCCCCcccccccccccCCce
Q psy2200 134 YDCNICLDTAK--DAVIS--MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVI 186 (248)
Q Consensus 134 ~~C~IC~~~~~--~p~~~--~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~ 186 (248)
..|+.|++.+. +.-.. +||-..|+-|.....+.-. .+||.||..+..+.+.
T Consensus 15 d~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~ln--grcpacrr~y~denv~ 69 (480)
T COG5175 15 DYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLN--GRCPACRRKYDDENVR 69 (480)
T ss_pred ccCcccccccccccCCcccCCcccHHHHHHHHHHHhhcc--CCChHhhhhcccccee
Confidence 35999999765 33333 6888889999776655432 3899999999887764
No 124
>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=93.34 E-value=0.026 Score=41.40 Aligned_cols=31 Identities=23% Similarity=0.720 Sum_probs=24.9
Q ss_pred CCceeecccccccCCc--EEccCCCccCHhHHH
Q psy2200 131 GQIYDCNICLDTAKDA--VISMCGHLFCWPCLH 161 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p--~~~~CgH~fC~~Ci~ 161 (248)
.....|++|...+.+. ++.||||+||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 3345799999988866 445999999999975
No 125
>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=93.34 E-value=0.038 Score=48.41 Aligned_cols=48 Identities=23% Similarity=0.328 Sum_probs=29.0
Q ss_pred ceeccccCCCCC-Cc----eEeccCcccccceeccccCCCCCCCCCCCCCCCC
Q psy2200 34 IYDCNICFDTAK-DA----VISMCGHLFWLKFFYWPGRGGSEIDPRDEVPPRP 81 (248)
Q Consensus 34 ~~~C~iCld~~~-~~----v~~~CGH~f~~cv~~~y~Rg~~~~~p~~~~p~rp 81 (248)
...||||+...+ .| .+.+|||.||.-|+..+...+...||.+..+-+.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 368999997422 22 2338999997655443333345678876544444
No 126
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=93.16 E-value=0.063 Score=33.61 Aligned_cols=40 Identities=30% Similarity=0.918 Sum_probs=25.6
Q ss_pred ecccccccC--CcEEccCCC-----ccCHhHHHHHHHhCCCCCccccc
Q psy2200 136 CNICLDTAK--DAVISMCGH-----LFCWPCLHQWLETCPNRQTCPVC 176 (248)
Q Consensus 136 C~IC~~~~~--~p~~~~CgH-----~fC~~Ci~~~~~~~~~~~~CP~C 176 (248)
|-||++... ++.+.||+- ..|..|+.+|+.... ...|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~-~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESG-NRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT--SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcC-CCcCCCC
Confidence 668887644 256778753 368999999999753 5578887
No 127
>KOG3113|consensus
Probab=93.04 E-value=0.16 Score=43.01 Aligned_cols=59 Identities=24% Similarity=0.456 Sum_probs=44.7
Q ss_pred cCCCCceeecccccccCCc----EEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecC
Q psy2200 128 NDKGQIYDCNICLDTAKDA----VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGR 191 (248)
Q Consensus 128 ~~~~~~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 191 (248)
+.....+.|||-.-.|... ++..|||+|-..-+.+.-.. .|++|.+.+..++++.+-..
T Consensus 106 D~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeikas-----~C~~C~a~y~~~dvIvlNg~ 168 (293)
T KOG3113|consen 106 DTQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKAS-----VCHVCGAAYQEDDVIVLNGT 168 (293)
T ss_pred ccccceeecccccceecceEEEEEEeccceeccHHHHHHhhhc-----cccccCCcccccCeEeeCCC
Confidence 3345668999876555433 55599999999998876643 89999999999998876543
No 128
>KOG3161|consensus
Probab=92.96 E-value=0.032 Score=52.84 Aligned_cols=38 Identities=32% Similarity=0.818 Sum_probs=31.1
Q ss_pred CceeecccccccC----CcEEccCCCccCHhHHHHHHHhCCCCCccc
Q psy2200 132 QIYDCNICLDTAK----DAVISMCGHLFCWPCLHQWLETCPNRQTCP 174 (248)
Q Consensus 132 ~~~~C~IC~~~~~----~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP 174 (248)
..+.|+||+..+. .|+.+-|||+.|..|+...... +||
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~-----scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA-----SCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc-----cCC
Confidence 3468999987664 6889999999999999876654 788
No 129
>KOG1100|consensus
Probab=92.92 E-value=0.055 Score=45.00 Aligned_cols=39 Identities=26% Similarity=0.760 Sum_probs=32.0
Q ss_pred ecccccccCCcEEccCCCc-cCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 136 CNICLDTAKDAVISMCGHL-FCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 136 C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
|-.|.+.-...+.+||.|. +|..|-.. ...||+|+....
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~-------~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES-------LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc-------CccCCCCcChhh
Confidence 9999998888788899997 99999543 347999987654
No 130
>KOG1952|consensus
Probab=92.77 E-value=0.072 Score=52.05 Aligned_cols=50 Identities=26% Similarity=0.773 Sum_probs=37.9
Q ss_pred CceeecccccccCCc-EEc---cCCCccCHhHHHHHHHhCC----CCCcccccccccc
Q psy2200 132 QIYDCNICLDTAKDA-VIS---MCGHLFCWPCLHQWLETCP----NRQTCPVCKAAID 181 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p-~~~---~CgH~fC~~Ci~~~~~~~~----~~~~CP~Cr~~~~ 181 (248)
+.++|-||.+.+... -+. .|-|+|+..||..|.+... ..+.||.|+....
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 568999999987633 122 5889999999999987632 3679999985544
No 131
>KOG3970|consensus
Probab=92.75 E-value=0.085 Score=43.82 Aligned_cols=48 Identities=31% Similarity=0.758 Sum_probs=38.1
Q ss_pred eeecccccccC--CcEEccCCCccCHhHHHHHHHhCC-----CCCcccccccccc
Q psy2200 134 YDCNICLDTAK--DAVISMCGHLFCWPCLHQWLETCP-----NRQTCPVCKAAID 181 (248)
Q Consensus 134 ~~C~IC~~~~~--~p~~~~CgH~fC~~Ci~~~~~~~~-----~~~~CP~Cr~~~~ 181 (248)
..|..|...+. +.+.|-|-|+|++.|+..|...-+ ....||.|...|-
T Consensus 51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 36888988776 457889999999999999986532 2468999988764
No 132
>KOG4362|consensus
Probab=92.60 E-value=0.025 Score=54.35 Aligned_cols=54 Identities=31% Similarity=0.782 Sum_probs=44.8
Q ss_pred CceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 132 QIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
..++|+||...+.+|+.+.|-|.||..|+...+....+...||+|+..+.....
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~ 73 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL 73 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence 457899999999999999999999999998877765556799999976654433
No 133
>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=92.26 E-value=0.085 Score=47.32 Aligned_cols=36 Identities=25% Similarity=0.800 Sum_probs=29.0
Q ss_pred CCCccCHhHHHHHHHhCC----------CCCcccccccccccCCce
Q psy2200 151 CGHLFCWPCLHQWLETCP----------NRQTCPVCKAAIDKDKVI 186 (248)
Q Consensus 151 CgH~fC~~Ci~~~~~~~~----------~~~~CP~Cr~~~~~~~~~ 186 (248)
|.-+.|.+|+.+|+..++ ++..||.||+.+.-.|+.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV~ 356 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDVC 356 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeeee
Confidence 555679999999998765 367999999999877653
No 134
>KOG0298|consensus
Probab=92.01 E-value=0.045 Score=55.68 Aligned_cols=49 Identities=35% Similarity=0.813 Sum_probs=42.0
Q ss_pred ccCCCCceeecccccccC-CcEEccCCCccCHhHHHHHHHhCCCCCccccccc
Q psy2200 127 ENDKGQIYDCNICLDTAK-DAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKA 178 (248)
Q Consensus 127 ~~~~~~~~~C~IC~~~~~-~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~ 178 (248)
.........|.||++.+. ...+..|||.+|..|...|+..+. .||.|+.
T Consensus 1147 ~~~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s---~~~~~ks 1196 (1394)
T KOG0298|consen 1147 LMNLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASS---RCPICKS 1196 (1394)
T ss_pred HHHhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhc---cCcchhh
Confidence 334455679999999998 668889999999999999999977 9999974
No 135
>KOG1940|consensus
Probab=91.90 E-value=0.078 Score=45.78 Aligned_cols=42 Identities=31% Similarity=0.764 Sum_probs=35.3
Q ss_pred eeecccccccC----CcEEccCCCccCHhHHHHHHHhCCCCCccccccc
Q psy2200 134 YDCNICLDTAK----DAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKA 178 (248)
Q Consensus 134 ~~C~IC~~~~~----~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~ 178 (248)
..||||.+.+. .+..++|||..+..|+......+- +||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y---~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGY---TCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCC---CCCcccc
Confidence 45999998664 567789999999999999887754 9999988
No 136
>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=91.81 E-value=0.058 Score=33.52 Aligned_cols=44 Identities=27% Similarity=0.810 Sum_probs=25.2
Q ss_pred eeecccccccCCcEEccCC-CccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAKDAVISMCG-HLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~Cg-H~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
+.|--|. |.+.-.+.|. |..|..|+...+.... .||+|..++..
T Consensus 3 ~nCKsCW--f~~k~Li~C~dHYLCl~CLt~ml~~s~---~C~iC~~~LPt 47 (50)
T PF03854_consen 3 YNCKSCW--FANKGLIKCSDHYLCLNCLTLMLSRSD---RCPICGKPLPT 47 (50)
T ss_dssp ----SS---S--SSEEE-SS-EEEHHHHHHT-SSSS---EETTTTEE---
T ss_pred ccChhhh--hcCCCeeeecchhHHHHHHHHHhcccc---CCCcccCcCcc
Confidence 3455555 3344566776 8899999999998766 99999988754
No 137
>KOG2114|consensus
Probab=91.66 E-value=0.085 Score=51.58 Aligned_cols=41 Identities=29% Similarity=0.742 Sum_probs=33.4
Q ss_pred ceeecccccccCCc-EEccCCCccCHhHHHHHHHhCCCCCcccccccc
Q psy2200 133 IYDCNICLDTAKDA-VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAA 179 (248)
Q Consensus 133 ~~~C~IC~~~~~~p-~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~ 179 (248)
...|..|...+.-| |...|||.||+.|+. + +...||.|+..
T Consensus 840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~---~~~~CP~C~~e 881 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE---D---KEDKCPKCLPE 881 (933)
T ss_pred eeeecccCCccccceeeeecccHHHHHhhc---c---CcccCCccchh
Confidence 35899999999888 456999999999987 2 24589999873
No 138
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=91.64 E-value=0.082 Score=40.54 Aligned_cols=34 Identities=29% Similarity=0.800 Sum_probs=27.0
Q ss_pred ceeecccccccCC--c-EEccCC------CccCHhHHHHHHHh
Q psy2200 133 IYDCNICLDTAKD--A-VISMCG------HLFCWPCLHQWLET 166 (248)
Q Consensus 133 ~~~C~IC~~~~~~--p-~~~~Cg------H~fC~~Ci~~~~~~ 166 (248)
..+|.||++...+ . |.++|| |+||..|+.+|-+.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 5799999998876 4 445775 77999999999544
No 139
>KOG3039|consensus
Probab=91.37 E-value=0.14 Score=43.21 Aligned_cols=37 Identities=22% Similarity=0.368 Sum_probs=32.1
Q ss_pred CCCceeecccccccCCcEEccCCCccCHhHHHHHHHh
Q psy2200 130 KGQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLET 166 (248)
Q Consensus 130 ~~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~ 166 (248)
+.....|..|++...+||+.+=||+||++||..++-.
T Consensus 40 iK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYILA 76 (303)
T ss_pred cCCcceeeeecccccCCccCCCCeeeeHHHHHHHHHH
Confidence 4444578999999999999999999999999998754
No 140
>KOG4445|consensus
Probab=91.28 E-value=0.06 Score=46.57 Aligned_cols=50 Identities=30% Similarity=0.756 Sum_probs=37.3
Q ss_pred ceeecccccccCCc---EEccCCCccCHhHHHHHHHhCC--------------------CCCccccccccccc
Q psy2200 133 IYDCNICLDTAKDA---VISMCGHLFCWPCLHQWLETCP--------------------NRQTCPVCKAAIDK 182 (248)
Q Consensus 133 ~~~C~IC~~~~~~p---~~~~CgH~fC~~Ci~~~~~~~~--------------------~~~~CP~Cr~~~~~ 182 (248)
...|.||+--|.+. .+++|-|.|+..|+.+++..-. -...||+||..|..
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 45799998776543 5669999999999998874311 13469999998864
No 141
>KOG1571|consensus
Probab=90.54 E-value=0.18 Score=44.81 Aligned_cols=29 Identities=34% Similarity=0.651 Sum_probs=24.8
Q ss_pred CCCCCceeccccCCCCCCceEeccCcccc
Q psy2200 29 NDKSQIYDCNICFDTAKDAVISMCGHLFW 57 (248)
Q Consensus 29 ~~~~~~~~C~iCld~~~~~v~~~CGH~f~ 57 (248)
.+....-.|.||+|-.++.++.||||+.|
T Consensus 300 ~~~~~p~lcVVcl~e~~~~~fvpcGh~cc 328 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDEPKSAVFVPCGHVCC 328 (355)
T ss_pred cccCCCCceEEecCCccceeeecCCcEEE
Confidence 34455678999999999999999999985
No 142
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.31 E-value=0.1 Score=45.26 Aligned_cols=39 Identities=21% Similarity=0.280 Sum_probs=29.5
Q ss_pred eeccccCCCCCC---ceEeccCccc-ccceeccccCCCCCCCCC
Q psy2200 35 YDCNICFDTAKD---AVISMCGHLF-WLKFFYWPGRGGSEIDPR 74 (248)
Q Consensus 35 ~~C~iCld~~~~---~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~ 74 (248)
.+|.||+.-+.+ -+++||-|.| -.|+-+|....+ .+||.
T Consensus 324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~-~~CPv 366 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYS-NKCPV 366 (374)
T ss_pred ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhc-ccCCc
Confidence 799999976543 5889999999 788999966442 34444
No 143
>KOG4275|consensus
Probab=89.33 E-value=0.14 Score=44.12 Aligned_cols=23 Identities=39% Similarity=0.882 Sum_probs=22.0
Q ss_pred ceeccccCCCCCCceEeccCccc
Q psy2200 34 IYDCNICFDTAKDAVISMCGHLF 56 (248)
Q Consensus 34 ~~~C~iCld~~~~~v~~~CGH~f 56 (248)
...|.||.|...|-|+++|||+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmV 322 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMV 322 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEE
Confidence 68899999999999999999988
No 144
>KOG1815|consensus
Probab=89.21 E-value=0.071 Score=49.50 Aligned_cols=33 Identities=21% Similarity=0.366 Sum_probs=25.1
Q ss_pred CCceeccccCCCCCC-ceEeccCcccccceeccc
Q psy2200 32 SQIYDCNICFDTAKD-AVISMCGHLFWLKFFYWP 64 (248)
Q Consensus 32 ~~~~~C~iCld~~~~-~v~~~CGH~f~~cv~~~y 64 (248)
...++|-||.+.... .+...|||-|+.-+..+|
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~y 101 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGY 101 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHH
Confidence 456999999988874 788899999955444443
No 145
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.03 E-value=0.28 Score=42.86 Aligned_cols=57 Identities=16% Similarity=0.356 Sum_probs=42.8
Q ss_pred CCCCceeecccccccC---CcEEccCCCccCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 129 DKGQIYDCNICLDTAK---DAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 129 ~~~~~~~C~IC~~~~~---~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
.....+.||+=.+.-. .|+++.|||+.-..-+....+...-...||.|-..-...++
T Consensus 332 hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~~~~~ 391 (396)
T COG5109 332 HFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSKYENI 391 (396)
T ss_pred cccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchhhhhh
Confidence 3456789998766443 57999999999999999988875557899999655444333
No 146
>KOG3899|consensus
Probab=88.64 E-value=0.22 Score=42.95 Aligned_cols=37 Identities=27% Similarity=0.589 Sum_probs=29.7
Q ss_pred CCCccCHhHHHHHHHhCC----------CCCcccccccccccCCcee
Q psy2200 151 CGHLFCWPCLHQWLETCP----------NRQTCPVCKAAIDKDKVIP 187 (248)
Q Consensus 151 CgH~fC~~Ci~~~~~~~~----------~~~~CP~Cr~~~~~~~~~~ 187 (248)
|....|.+|+.+|+..+. +...||.||+.+...++.-
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~ 371 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHC 371 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeE
Confidence 566789999999987654 3679999999998777643
No 147
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=88.46 E-value=0.41 Score=42.79 Aligned_cols=44 Identities=25% Similarity=0.454 Sum_probs=31.4
Q ss_pred CceeccccCCC-CC------------CceEeccCccc-ccceeccccCCCCCCCCCCCCC
Q psy2200 33 QIYDCNICFDT-AK------------DAVISMCGHLF-WLKFFYWPGRGGSEIDPRDEVP 78 (248)
Q Consensus 33 ~~~~C~iCld~-~~------------~~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~~~~p 78 (248)
+.=-|.||.|- ++ .|--+||||++ ..|+-.|..|. +.||.+..|
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq--QTCPICr~p 343 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ--QTCPICRRP 343 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc--cCCCcccCc
Confidence 34569999986 33 24689999999 77888898875 556654443
No 148
>KOG3268|consensus
Probab=88.36 E-value=0.31 Score=39.09 Aligned_cols=34 Identities=32% Similarity=0.702 Sum_probs=26.1
Q ss_pred ccCCCccCHhHHHHHHHhCCC--------CCccccccccccc
Q psy2200 149 SMCGHLFCWPCLHQWLETCPN--------RQTCPVCKAAIDK 182 (248)
Q Consensus 149 ~~CgH~fC~~Ci~~~~~~~~~--------~~~CP~Cr~~~~~ 182 (248)
..||..|+.-|+..|++.-.. -..||.|..++..
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 369999999999999975210 2379999888753
No 149
>KOG3579|consensus
Probab=87.64 E-value=0.27 Score=42.27 Aligned_cols=37 Identities=24% Similarity=0.695 Sum_probs=32.4
Q ss_pred CceeecccccccCCcEEccC----CCccCHhHHHHHHHhCC
Q psy2200 132 QIYDCNICLDTAKDAVISMC----GHLFCWPCLHQWLETCP 168 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~~C----gH~fC~~Ci~~~~~~~~ 168 (248)
..+.|.+|.+.+.+.....| .|.||+.|-...++...
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhc
Confidence 34899999999999988888 79999999999988754
No 150
>KOG4367|consensus
Probab=87.36 E-value=0.23 Score=45.15 Aligned_cols=27 Identities=19% Similarity=0.467 Sum_probs=24.0
Q ss_pred CceeccccCCCCCCceEeccCcccccc
Q psy2200 33 QIYDCNICFDTAKDAVISMCGHLFWLK 59 (248)
Q Consensus 33 ~~~~C~iCld~~~~~v~~~CGH~f~~c 59 (248)
..++|+||...+++|++++|||..|.-
T Consensus 3 eelkc~vc~~f~~epiil~c~h~lc~~ 29 (699)
T KOG4367|consen 3 EELKCPVCGSFYREPIILPCSHNLCQA 29 (699)
T ss_pred ccccCceehhhccCceEeecccHHHHH
Confidence 357999999999999999999999553
No 151
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=86.84 E-value=0.18 Score=42.37 Aligned_cols=50 Identities=24% Similarity=0.568 Sum_probs=36.2
Q ss_pred eeeccccc-ccCCc-E-Ec--c-CCCccCHhHHHHHHHhCCCCCccc--ccccccccCCc
Q psy2200 134 YDCNICLD-TAKDA-V-IS--M-CGHLFCWPCLHQWLETCPNRQTCP--VCKAAIDKDKV 185 (248)
Q Consensus 134 ~~C~IC~~-~~~~p-~-~~--~-CgH~fC~~Ci~~~~~~~~~~~~CP--~Cr~~~~~~~~ 185 (248)
-.||||.. .+-+| + ++ | |-|..|.+|+.+.+... ...|| -|.+.+.....
T Consensus 11 ~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~G--pAqCP~~gC~kILRK~kf 68 (314)
T COG5220 11 RRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRG--PAQCPYKGCGKILRKIKF 68 (314)
T ss_pred ccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCC--CCCCCCccHHHHHHHhcc
Confidence 48999996 34444 2 22 4 99999999999998764 46899 78776654443
No 152
>KOG4172|consensus
Probab=86.82 E-value=0.068 Score=34.25 Aligned_cols=40 Identities=23% Similarity=0.495 Sum_probs=28.6
Q ss_pred ceeccccCCCCCCceEeccCccc--ccceeccccCCCCCCCCC
Q psy2200 34 IYDCNICFDTAKDAVISMCGHLF--WLKFFYWPGRGGSEIDPR 74 (248)
Q Consensus 34 ~~~C~iCld~~~~~v~~~CGH~f--~~cv~~~y~Rg~~~~~p~ 74 (248)
+-+|.||.|-.-|.|.-.|||+. +.|-+.. +++....+|.
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl-~~~~~g~CPi 48 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRL-KKALHGCCPI 48 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHH-HHccCCcCcc
Confidence 36899999999999999999998 5554443 2323344554
No 153
>KOG1645|consensus
Probab=84.70 E-value=0.23 Score=44.84 Aligned_cols=39 Identities=33% Similarity=0.596 Sum_probs=29.2
Q ss_pred eccccCCCCCC-----ceEeccCccc-ccceeccccCCCCCCCCC
Q psy2200 36 DCNICFDTAKD-----AVISMCGHLF-WLKFFYWPGRGGSEIDPR 74 (248)
Q Consensus 36 ~C~iCld~~~~-----~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~ 74 (248)
.|+||||-..- .|...|||.| -.|+-.|+++.....+|.
T Consensus 6 tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~ 50 (463)
T KOG1645|consen 6 TCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPL 50 (463)
T ss_pred cCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcc
Confidence 69999998654 4678899999 778888886443355554
No 154
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=83.21 E-value=0.65 Score=32.84 Aligned_cols=39 Identities=23% Similarity=0.353 Sum_probs=25.9
Q ss_pred ccccCCCCCC--ceEeccCccc-ccceeccccCC-CCCCCCCC
Q psy2200 37 CNICFDTAKD--AVISMCGHLF-WLKFFYWPGRG-GSEIDPRD 75 (248)
Q Consensus 37 C~iCld~~~~--~v~~~CGH~f-~~cv~~~y~Rg-~~~~~p~~ 75 (248)
|+.|.-.-.+ .|...|+|.| .-|+.+|+... +...+|..
T Consensus 35 Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmC 77 (85)
T PF12861_consen 35 CPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMC 77 (85)
T ss_pred CCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCc
Confidence 6666544333 3567899999 88999998754 23555543
No 155
>KOG4265|consensus
Probab=82.17 E-value=0.62 Score=41.42 Aligned_cols=49 Identities=20% Similarity=0.264 Sum_probs=32.9
Q ss_pred CCCCceeccccCCCCCCceEeccCccc-ccceeccccCCCCCCCCCCCCCC
Q psy2200 30 DKSQIYDCNICFDTAKDAVISMCGHLF-WLKFFYWPGRGGSEIDPRDEVPP 79 (248)
Q Consensus 30 ~~~~~~~C~iCld~~~~~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~~~~p~ 79 (248)
+.+..-+|-||++-.+|.+++||=|+. |.-+.+.+. .....||.+..+.
T Consensus 286 ~~~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-~q~n~CPICRqpi 335 (349)
T KOG4265|consen 286 ESESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-YQTNNCPICRQPI 335 (349)
T ss_pred cccCCCeeEEEecCCcceEEecchhhehhHhHHHHHH-HhhcCCCccccch
Confidence 345568999999999999999999999 444433222 2223456554443
No 156
>KOG1815|consensus
Probab=81.94 E-value=0.8 Score=42.58 Aligned_cols=58 Identities=31% Similarity=0.666 Sum_probs=41.4
Q ss_pred CCceeecccccccCC-cEEccCCCccCHhHHHHHHHhCCC-----CCccc--ccccccccCCceee
Q psy2200 131 GQIYDCNICLDTAKD-AVISMCGHLFCWPCLHQWLETCPN-----RQTCP--VCKAAIDKDKVIPV 188 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~-p~~~~CgH~fC~~Ci~~~~~~~~~-----~~~CP--~Cr~~~~~~~~~~~ 188 (248)
.....|.||.+.+.. .+.+.|||.||..|+..++..+-. ..+|| -|++.+....+..+
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~ 133 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKL 133 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeee
Confidence 344789999998875 667799999999999999876321 14565 47666665554433
No 157
>KOG1812|consensus
Probab=79.86 E-value=0.88 Score=41.50 Aligned_cols=50 Identities=30% Similarity=0.710 Sum_probs=33.5
Q ss_pred ceeecccccccCCc----EEccCCCccCHhHHHHHHHhCC---CCCccc--cccccccc
Q psy2200 133 IYDCNICLDTAKDA----VISMCGHLFCWPCLHQWLETCP---NRQTCP--VCKAAIDK 182 (248)
Q Consensus 133 ~~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~---~~~~CP--~Cr~~~~~ 182 (248)
...|.||....... .+..|+|.||..|+.++++.+. ....|| -|...+..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~ 204 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTL 204 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCH
Confidence 46899999433322 2457999999999999988542 245665 35544443
No 158
>KOG0297|consensus
Probab=79.62 E-value=1.6 Score=39.85 Aligned_cols=42 Identities=24% Similarity=0.418 Sum_probs=32.5
Q ss_pred CCCceeccccCCCCCCceEe-ccCccccc-ceeccccCCCCCCCCC
Q psy2200 31 KSQIYDCNICFDTAKDAVIS-MCGHLFWL-KFFYWPGRGGSEIDPR 74 (248)
Q Consensus 31 ~~~~~~C~iCld~~~~~v~~-~CGH~f~~-cv~~~y~Rg~~~~~p~ 74 (248)
...++.|++|-.++.+|+-+ .|||.||. |+..|... .+.+|.
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~--~~~cp~ 61 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN--HQKCPV 61 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhcc--CcCCcc
Confidence 56779999999999999995 99999954 66667555 344443
No 159
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.39 E-value=1.2 Score=30.35 Aligned_cols=38 Identities=21% Similarity=0.448 Sum_probs=29.0
Q ss_pred cCCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecCC
Q psy2200 150 MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGRG 192 (248)
Q Consensus 150 ~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~ 192 (248)
.=-|+||..|....+.. .||.|...+....+.|.-.+.
T Consensus 26 tfEcTFCadCae~~l~g-----~CPnCGGelv~RP~RPaa~L~ 63 (84)
T COG3813 26 TFECTFCADCAENRLHG-----LCPNCGGELVARPIRPAAKLA 63 (84)
T ss_pred EEeeehhHhHHHHhhcC-----cCCCCCchhhcCcCChHHHHh
Confidence 33578999999987764 899999988877776654443
No 160
>KOG2034|consensus
Probab=76.52 E-value=1.4 Score=43.76 Aligned_cols=35 Identities=23% Similarity=0.444 Sum_probs=26.9
Q ss_pred CCceeecccccccC-Cc-EEccCCCccCHhHHHHHHH
Q psy2200 131 GQIYDCNICLDTAK-DA-VISMCGHLFCWPCLHQWLE 165 (248)
Q Consensus 131 ~~~~~C~IC~~~~~-~p-~~~~CgH~fC~~Ci~~~~~ 165 (248)
+....|.+|...+. .| ++.+|||.|++.|+.+-..
T Consensus 815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred cCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 34458999998654 45 5569999999999988654
No 161
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=75.58 E-value=2.6 Score=27.20 Aligned_cols=45 Identities=22% Similarity=0.616 Sum_probs=28.9
Q ss_pred eecccccccCCc--EEccCC--CccCHhHHHHHHHhCCCCCcccccccccccCC
Q psy2200 135 DCNICLDTAKDA--VISMCG--HLFCWPCLHQWLETCPNRQTCPVCKAAIDKDK 184 (248)
Q Consensus 135 ~C~IC~~~~~~p--~~~~Cg--H~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~ 184 (248)
.|-.|-..+... ...-|. .+||..|....+.. .||.|...+..+.
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~-----~CPNCgGelv~RP 55 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLNG-----VCPNCGGELVRRP 55 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcC-----cCcCCCCccccCC
Confidence 455555544321 122233 46999999998854 8999988776543
No 162
>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=74.49 E-value=0.99 Score=40.78 Aligned_cols=32 Identities=31% Similarity=0.797 Sum_probs=0.0
Q ss_pred EEccCCCccCHhHHHHHHHhC---CCCCcccccccccc
Q psy2200 147 VISMCGHLFCWPCLHQWLETC---PNRQTCPVCKAAID 181 (248)
Q Consensus 147 ~~~~CgH~fC~~Ci~~~~~~~---~~~~~CP~Cr~~~~ 181 (248)
|.+.|||++-+.= |.... ...+.||+||..-.
T Consensus 305 VYl~CGHVhG~h~---Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 305 VYLNCGHVHGYHN---WGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp --------------------------------------
T ss_pred eeccccceeeecc---cccccccccccccCCCccccCC
Confidence 6778999976543 43221 12569999997654
No 163
>KOG1002|consensus
Probab=73.81 E-value=1 Score=42.19 Aligned_cols=47 Identities=21% Similarity=0.303 Sum_probs=35.2
Q ss_pred CCCceeccccCCCCCCceEeccCcccccceec----cccCCCCCCCCCCCC
Q psy2200 31 KSQIYDCNICFDTAKDAVISMCGHLFWLKFFY----WPGRGGSEIDPRDEV 77 (248)
Q Consensus 31 ~~~~~~C~iCld~~~~~v~~~CGH~f~~cv~~----~y~Rg~~~~~p~~~~ 77 (248)
....-+|-+|-|.+.|++.+.|-|.||.-|+. .++.+....||.+.+
T Consensus 533 nk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i 583 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHI 583 (791)
T ss_pred ccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccc
Confidence 34467999999999999999999999765553 244444567776544
No 164
>KOG1785|consensus
Probab=72.99 E-value=1.2 Score=40.35 Aligned_cols=38 Identities=32% Similarity=0.689 Sum_probs=28.2
Q ss_pred eccccCCCCCCceEeccCcccccceec-cccCCCCCCCC
Q psy2200 36 DCNICFDTAKDAVISMCGHLFWLKFFY-WPGRGGSEIDP 73 (248)
Q Consensus 36 ~C~iCld~~~~~v~~~CGH~f~~cv~~-~y~Rg~~~~~p 73 (248)
.|-||-|--+|.-+-||||+.|.+++. |-...+.+.||
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CP 409 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCP 409 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCC
Confidence 499999999999999999999776655 53222234554
No 165
>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=72.65 E-value=1.7 Score=23.53 Aligned_cols=21 Identities=24% Similarity=0.488 Sum_probs=10.0
Q ss_pred eecccccccCCcEEc--cCCCcc
Q psy2200 135 DCNICLDTAKDAVIS--MCGHLF 155 (248)
Q Consensus 135 ~C~IC~~~~~~p~~~--~CgH~f 155 (248)
.||.|.......... .|||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 366666554332222 256555
No 166
>KOG1001|consensus
Probab=72.08 E-value=1.9 Score=42.27 Aligned_cols=23 Identities=39% Similarity=0.782 Sum_probs=21.3
Q ss_pred eeccccCCCCCCceEeccCccccc
Q psy2200 35 YDCNICFDTAKDAVISMCGHLFWL 58 (248)
Q Consensus 35 ~~C~iCld~~~~~v~~~CGH~f~~ 58 (248)
+.|.||+| ...+++++|||.||.
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~ 477 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCV 477 (674)
T ss_pred cccccccc-cccceeecccchHHH
Confidence 99999999 899999999999944
No 167
>KOG0309|consensus
Probab=70.88 E-value=3 Score=40.86 Aligned_cols=40 Identities=28% Similarity=0.792 Sum_probs=29.4
Q ss_pred ceeecccccccCCc--EEccCCCccCHhHHHHHHHhCCCCCcccc
Q psy2200 133 IYDCNICLDTAKDA--VISMCGHLFCWPCLHQWLETCPNRQTCPV 175 (248)
Q Consensus 133 ~~~C~IC~~~~~~p--~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~ 175 (248)
.+.|.||--....- +...|||+.+..|...|++... .||.
T Consensus 1028 ~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd---~Cps 1069 (1081)
T KOG0309|consen 1028 TFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGD---VCPS 1069 (1081)
T ss_pred eeeeeeEeeEeeccchhhccccccccHHHHHHHHhcCC---cCCC
Confidence 34577766544432 3447999999999999999876 7884
No 168
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=70.85 E-value=2.5 Score=27.28 Aligned_cols=31 Identities=23% Similarity=0.379 Sum_probs=24.5
Q ss_pred CCceeccccCCCCCCceEeccCcccccceec
Q psy2200 32 SQIYDCNICFDTAKDAVISMCGHLFWLKFFY 62 (248)
Q Consensus 32 ~~~~~C~iCld~~~~~v~~~CGH~f~~cv~~ 62 (248)
.+...|-.|...-++.++++|||+.+.-.+.
T Consensus 5 ~~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~ 35 (55)
T PF14447_consen 5 QPEQPCVFCGFVGTKGTVLPCGHLICDNCFP 35 (55)
T ss_pred ccceeEEEccccccccccccccceeeccccC
Confidence 4556788899999999999999999544444
No 169
>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=70.83 E-value=2.2 Score=33.67 Aligned_cols=20 Identities=30% Similarity=0.884 Sum_probs=18.0
Q ss_pred eeccccCCCCCCceEeccCc
Q psy2200 35 YDCNICFDTAKDAVISMCGH 54 (248)
Q Consensus 35 ~~C~iCld~~~~~v~~~CGH 54 (248)
-.|+||+|..+++|.+.|--
T Consensus 3 ~~CpICme~PHNAVLLlCSS 22 (162)
T PF07800_consen 3 VTCPICMEHPHNAVLLLCSS 22 (162)
T ss_pred ccCceeccCCCceEEEEecc
Confidence 46999999999999999974
No 170
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=70.77 E-value=1 Score=39.13 Aligned_cols=28 Identities=21% Similarity=0.543 Sum_probs=24.3
Q ss_pred eeccccCCCCCCceEec-cCcccccceec
Q psy2200 35 YDCNICFDTAKDAVISM-CGHLFWLKFFY 62 (248)
Q Consensus 35 ~~C~iCld~~~~~v~~~-CGH~f~~cv~~ 62 (248)
+.|+.|--+++.|+-|+ |||.||.-++.
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~ 303 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIG 303 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHh
Confidence 89999999999999995 99999665444
No 171
>KOG2879|consensus
Probab=69.77 E-value=5.5 Score=34.36 Aligned_cols=47 Identities=15% Similarity=0.199 Sum_probs=29.9
Q ss_pred CCceeccccCCCCCCceEec-cCccc-ccceeccccCCCCCCCCCCCCC
Q psy2200 32 SQIYDCNICFDTAKDAVISM-CGHLF-WLKFFYWPGRGGSEIDPRDEVP 78 (248)
Q Consensus 32 ~~~~~C~iCld~~~~~v~~~-CGH~f-~~cv~~~y~Rg~~~~~p~~~~p 78 (248)
...-+|++|.+..+.|-+.- |||+| .-|+.....-.-...||.+..+
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~ 285 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGEN 285 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCC
Confidence 44578999999999997765 99999 4455443211112355554443
No 172
>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=68.58 E-value=3.3 Score=27.68 Aligned_cols=13 Identities=38% Similarity=1.099 Sum_probs=9.6
Q ss_pred ccCHhHHHHHHHh
Q psy2200 154 LFCWPCLHQWLET 166 (248)
Q Consensus 154 ~fC~~Ci~~~~~~ 166 (248)
.||+.|+.+|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999875
No 173
>KOG0825|consensus
Probab=68.40 E-value=3.5 Score=40.55 Aligned_cols=49 Identities=12% Similarity=0.212 Sum_probs=33.0
Q ss_pred CceeecccccccCCc----EEc---cCCCccCHhHHHHHHHhCC---CCCccccccccc
Q psy2200 132 QIYDCNICLDTAKDA----VIS---MCGHLFCWPCLHQWLETCP---NRQTCPVCKAAI 180 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p----~~~---~CgH~fC~~Ci~~~~~~~~---~~~~CP~Cr~~~ 180 (248)
....|.||...+.++ -++ .|+|.||..||..|...-. ....|++|..-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 345677777666553 233 4999999999999987522 244678886654
No 174
>KOG3053|consensus
Probab=68.38 E-value=3 Score=35.60 Aligned_cols=51 Identities=24% Similarity=0.578 Sum_probs=36.4
Q ss_pred CCceeecccccccCCcE----EccC-----CCccCHhHHHHHHHhCCC-----CCcccccccccc
Q psy2200 131 GQIYDCNICLDTAKDAV----ISMC-----GHLFCWPCLHQWLETCPN-----RQTCPVCKAAID 181 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~----~~~C-----gH~fC~~Ci~~~~~~~~~-----~~~CP~Cr~~~~ 181 (248)
+.+-.|=||+..-.+.. +-|| -|-.|..|+.+|+.++.. ...||.|+..+.
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 33458999998766532 2366 256899999999986541 457999998764
No 175
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=67.78 E-value=0.22 Score=33.84 Aligned_cols=40 Identities=23% Similarity=0.623 Sum_probs=21.2
Q ss_pred eeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
..||.|...+... =||.+|..|-..+... ..||.|..++.
T Consensus 2 ~~CP~C~~~L~~~----~~~~~C~~C~~~~~~~----a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQ----GGHYHCEACQKDYKKE----AFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEE----TTEEEETTT--EEEEE----EE-TTT-SB-E
T ss_pred CcCCCCCCccEEe----CCEEECccccccceec----ccCCCcccHHH
Confidence 4788888764421 1778888887655443 37999988775
No 176
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=66.00 E-value=4.1 Score=40.23 Aligned_cols=51 Identities=22% Similarity=0.615 Sum_probs=39.3
Q ss_pred eeeccccccc--CCcEEccCCCc-----cCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 134 YDCNICLDTA--KDAVISMCGHL-----FCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 134 ~~C~IC~~~~--~~p~~~~CgH~-----fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
-.|-||...- .+|..-||... .|++|+..|+.... .+.|-+|..++..+++
T Consensus 13 ~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~-~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 13 RSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSG-TKKCDICHYEYKFKDI 70 (1175)
T ss_pred hhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCC-Ccceeeecceeeeeee
Confidence 5899998643 45666687643 79999999999654 7899999998876654
No 177
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=64.98 E-value=4 Score=29.21 Aligned_cols=37 Identities=24% Similarity=0.650 Sum_probs=28.2
Q ss_pred eeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
-.|.||......+ ||.||..|.+. .. .|.+|-+.|..
T Consensus 45 ~~C~~CK~~v~q~-----g~~YCq~CAYk----kG---iCamCGKki~d 81 (90)
T PF10235_consen 45 SKCKICKTKVHQP-----GAKYCQTCAYK----KG---ICAMCGKKILD 81 (90)
T ss_pred ccccccccccccC-----CCccChhhhcc----cC---cccccCCeecc
Confidence 4799999765543 88899999653 33 89999988753
No 178
>KOG2979|consensus
Probab=62.54 E-value=3.7 Score=35.04 Aligned_cols=43 Identities=28% Similarity=0.352 Sum_probs=34.5
Q ss_pred ceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCccccc
Q psy2200 133 IYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVC 176 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~C 176 (248)
...|||=...+.+|++- .|||+|=+.-|..++.... ...||+=
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~-~i~CPv~ 219 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEI-TIRCPVL 219 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCc-eeecccc
Confidence 36899988888888766 8999999999999887633 5578863
No 179
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=61.35 E-value=12 Score=25.97 Aligned_cols=49 Identities=29% Similarity=0.683 Sum_probs=19.5
Q ss_pred eeecccccccC-----CcEEc--cCCCccCHhHHHHHHHhCCCCCcccccccccccCC
Q psy2200 134 YDCNICLDTAK-----DAVIS--MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDK 184 (248)
Q Consensus 134 ~~C~IC~~~~~-----~p~~~--~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~ 184 (248)
-.|.||-+..- ++.+. .|+--.|+.|..-=.+. +...||.|+..+....
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErke--g~q~CpqCkt~ykr~k 65 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKE--GNQVCPQCKTRYKRHK 65 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHT--S-SB-TTT--B----T
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhc--CcccccccCCCccccc
Confidence 47999998653 22222 57888999998755544 3569999998876433
No 180
>KOG1812|consensus
Probab=60.75 E-value=4 Score=37.27 Aligned_cols=35 Identities=26% Similarity=0.673 Sum_probs=26.0
Q ss_pred eeecccccccC-----CcEEccCCCccCHhHHHHHHHhCC
Q psy2200 134 YDCNICLDTAK-----DAVISMCGHLFCWPCLHQWLETCP 168 (248)
Q Consensus 134 ~~C~IC~~~~~-----~p~~~~CgH~fC~~Ci~~~~~~~~ 168 (248)
..|+.|.-.+. +.+.-.|||-||+.|...|.....
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~ 346 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNG 346 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCc
Confidence 46888886543 235557999999999999877644
No 181
>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=60.75 E-value=5.6 Score=28.71 Aligned_cols=27 Identities=22% Similarity=0.598 Sum_probs=19.8
Q ss_pred CceeccccCCCCCCc--eEeccCccc-ccc
Q psy2200 33 QIYDCNICFDTAKDA--VISMCGHLF-WLK 59 (248)
Q Consensus 33 ~~~~C~iCld~~~~~--v~~~CGH~f-~~c 59 (248)
+.-.|+||...+... ++.||||.| ..|
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C 106 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSC 106 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCCeEEeccc
Confidence 345699998877754 458999999 444
No 182
>KOG2068|consensus
Probab=60.58 E-value=5.5 Score=35.24 Aligned_cols=45 Identities=24% Similarity=0.631 Sum_probs=35.0
Q ss_pred eeecccccccC--CcEEc--cCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 134 YDCNICLDTAK--DAVIS--MCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 134 ~~C~IC~~~~~--~p~~~--~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
-.|+||.+.+. +-..+ +||+..|+.|+......+. .||.||+...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~---~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDG---RCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCC---CCCccCCccc
Confidence 57999999763 22333 7899999999998888766 9999996554
No 183
>KOG1734|consensus
Probab=57.38 E-value=6.7 Score=33.77 Aligned_cols=48 Identities=19% Similarity=0.229 Sum_probs=33.0
Q ss_pred CCCCCCceeccccCCCCCCce----------EeccCccc-ccceeccccCCCCCCCCCC
Q psy2200 28 GNDKSQIYDCNICFDTAKDAV----------ISMCGHLF-WLKFFYWPGRGGSEIDPRD 75 (248)
Q Consensus 28 ~~~~~~~~~C~iCld~~~~~v----------~~~CGH~f-~~cv~~~y~Rg~~~~~p~~ 75 (248)
...-.+.--|.||-.-+..-+ .+.|+|.| -.|+-.|.-.|..+.||-+
T Consensus 218 Ptkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYC 276 (328)
T KOG1734|consen 218 PTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYC 276 (328)
T ss_pred CCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchH
Confidence 333445567999976554443 68899999 5566667666777888854
No 184
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=57.03 E-value=11 Score=24.31 Aligned_cols=28 Identities=21% Similarity=0.635 Sum_probs=21.9
Q ss_pred eeeccccccc--CCcEEc--cCCCccCHhHHH
Q psy2200 134 YDCNICLDTA--KDAVIS--MCGHLFCWPCLH 161 (248)
Q Consensus 134 ~~C~IC~~~~--~~p~~~--~CgH~fC~~Ci~ 161 (248)
..|++|-+.+ .+.++. .||-.+++.|..
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 4799999998 444444 699999999954
No 185
>KOG0828|consensus
Probab=56.24 E-value=3 Score=38.85 Aligned_cols=36 Identities=22% Similarity=0.589 Sum_probs=26.3
Q ss_pred CCceeccccCCCCC-----------------CceEeccCccc-ccceeccccCC
Q psy2200 32 SQIYDCNICFDTAK-----------------DAVISMCGHLF-WLKFFYWPGRG 67 (248)
Q Consensus 32 ~~~~~C~iCld~~~-----------------~~v~~~CGH~f-~~cv~~~y~Rg 67 (248)
...-+|.||..... .=.+|||-|+| -.|+.+|++..
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~y 622 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTY 622 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhh
Confidence 44568999975421 23578999999 78899998744
No 186
>KOG4185|consensus
Probab=54.67 E-value=2.2 Score=37.16 Aligned_cols=44 Identities=25% Similarity=0.567 Sum_probs=35.2
Q ss_pred eeecccccccC------CcEEcc--------CCCccCHhHHHHHHHhCCCCCcccccccc
Q psy2200 134 YDCNICLDTAK------DAVISM--------CGHLFCWPCLHQWLETCPNRQTCPVCKAA 179 (248)
Q Consensus 134 ~~C~IC~~~~~------~p~~~~--------CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~ 179 (248)
..|.||...+. .|.++. |||..|..|+...+.... ..||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~--~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAG--IKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhh--hcCCcccce
Confidence 46999987665 245555 999999999999988754 699999875
No 187
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=54.42 E-value=10 Score=24.12 Aligned_cols=25 Identities=28% Similarity=0.860 Sum_probs=13.2
Q ss_pred cCCCccCHhHHHHHHHhCCCCCcccccc
Q psy2200 150 MCGHLFCWPCLHQWLETCPNRQTCPVCK 177 (248)
Q Consensus 150 ~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr 177 (248)
.|++.||.+|= .++... .-.||-|.
T Consensus 26 ~C~~~FC~dCD-~fiHE~--LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCD-VFIHET--LHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHH-HTTTTT--S-SSSTT-
T ss_pred CCCCccccCcC-hhhhcc--ccCCcCCC
Confidence 58889999993 333332 34899883
No 188
>KOG4718|consensus
Probab=54.02 E-value=7.1 Score=32.39 Aligned_cols=43 Identities=21% Similarity=0.639 Sum_probs=34.6
Q ss_pred ceeecccccccCCcEEc-cCCCccCHhHHHHHHHhCCCCCccccccc
Q psy2200 133 IYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKA 178 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~ 178 (248)
...|.+|.......+.- .||-.++..|+..++.... .||-|.-
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~---~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRD---ICPHCGD 224 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccC---cCCchhc
Confidence 35799999987765544 6777799999999999866 9999943
No 189
>KOG3970|consensus
Probab=53.16 E-value=9 Score=32.10 Aligned_cols=65 Identities=15% Similarity=0.248 Sum_probs=38.7
Q ss_pred eeccccCCCCC--CceEeccCccc-ccceeccccC---C---CCCCCCCCCCCCCCCCCCccccccchhhhhcc
Q psy2200 35 YDCNICFDTAK--DAVISMCGHLF-WLKFFYWPGR---G---GSEIDPRDEVPPRPQGQRTERENSSVQSKVSN 99 (248)
Q Consensus 35 ~~C~iCld~~~--~~v~~~CGH~f-~~cv~~~y~R---g---~~~~~p~~~~p~rp~~~~~e~~~~~~~~~~~~ 99 (248)
-.|.+|...+. |-+-+-|=|+| |.|+-.|-.. . ...++|....+.-|......+..+.+..++++
T Consensus 51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L~q 124 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQLKQ 124 (299)
T ss_pred CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHHHh
Confidence 46999987765 67788899999 8888777321 1 11455554444444444444444445544443
No 190
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=52.96 E-value=2.3 Score=37.12 Aligned_cols=45 Identities=24% Similarity=0.433 Sum_probs=23.1
Q ss_pred CceeecccccccCCcEEccC-----CCccCHhHHHHHHHhCCCCCcccccccc
Q psy2200 132 QIYDCNICLDTAKDAVISMC-----GHLFCWPCLHQWLETCPNRQTCPVCKAA 179 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~~C-----gH~fC~~Ci~~~~~~~~~~~~CP~Cr~~ 179 (248)
....||||-....-.++..= .|.+|.-|-..|-..+. .||.|-..
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~---~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRI---KCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TT---S-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCC---CCcCCCCC
Confidence 34689999987665555433 36699999999987766 99999654
No 191
>KOG0827|consensus
Probab=49.37 E-value=5.4 Score=36.07 Aligned_cols=46 Identities=28% Similarity=0.698 Sum_probs=36.8
Q ss_pred eecccccccCCc----EEccCCCccCHhHHHHHHHhCCCCCcccccccccccC
Q psy2200 135 DCNICLDTAKDA----VISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKD 183 (248)
Q Consensus 135 ~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~ 183 (248)
.|.||...++.- -.+.|||.+...|+.+|+.... .||.|+..+...
T Consensus 198 sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~---kl~~~~rel~~~ 247 (465)
T KOG0827|consen 198 SLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKR---KLPSCRRELPKN 247 (465)
T ss_pred hhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHH---HhHHHHhhhhhh
Confidence 588888766532 4557999999999999999865 999999877643
No 192
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=46.89 E-value=4 Score=27.19 Aligned_cols=29 Identities=28% Similarity=0.557 Sum_probs=14.7
Q ss_pred eeecccccccCCc----EEccCCCccCHhHHHH
Q psy2200 134 YDCNICLDTAKDA----VISMCGHLFCWPCLHQ 162 (248)
Q Consensus 134 ~~C~IC~~~~~~p----~~~~CgH~fC~~Ci~~ 162 (248)
..|.+|...|.-- .--.||++||..|...
T Consensus 10 ~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 10 SNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 5799999987421 1226999999999654
No 193
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=46.87 E-value=3.4 Score=26.80 Aligned_cols=14 Identities=43% Similarity=1.357 Sum_probs=12.4
Q ss_pred cCCCccCHhHHHHH
Q psy2200 150 MCGHLFCWPCLHQW 163 (248)
Q Consensus 150 ~CgH~fC~~Ci~~~ 163 (248)
.|||.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 68999999998877
No 194
>KOG3842|consensus
Probab=46.74 E-value=7.4 Score=34.29 Aligned_cols=31 Identities=26% Similarity=0.679 Sum_probs=18.6
Q ss_pred EEccCCCccCHhHHHHHHHhC---CCCCccccccccc
Q psy2200 147 VISMCGHLFCWPCLHQWLETC---PNRQTCPVCKAAI 180 (248)
Q Consensus 147 ~~~~CgH~fC~~Ci~~~~~~~---~~~~~CP~Cr~~~ 180 (248)
|.|.|||+--+. .|-... ...+.||+||..-
T Consensus 318 vYl~CGHV~G~H---~WG~~e~~g~~~r~CPmC~~~g 351 (429)
T KOG3842|consen 318 VYLNCGHVHGYH---NWGVRENTGQRERECPMCRVVG 351 (429)
T ss_pred EEEecccccccc---ccccccccCcccCcCCeeeeec
Confidence 678999983321 232221 1256999998654
No 195
>KOG0269|consensus
Probab=46.60 E-value=19 Score=35.55 Aligned_cols=45 Identities=20% Similarity=0.437 Sum_probs=32.8
Q ss_pred ceeecccccccCCcEEc--cCCCccCHhHHHHHHHhCCCCCcccc--ccccc
Q psy2200 133 IYDCNICLDTAKDAVIS--MCGHLFCWPCLHQWLETCPNRQTCPV--CKAAI 180 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~--~CgH~fC~~Ci~~~~~~~~~~~~CP~--Cr~~~ 180 (248)
...|.+|-..++.-..- -|||.-+..|+.+|+.... .||. |-...
T Consensus 779 ~~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s---~ca~~~C~~~c 827 (839)
T KOG0269|consen 779 SAKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKAS---PCAKSICPHLC 827 (839)
T ss_pred hcCceeecceeeeeEeecccccccccHHHHHHHHhcCC---CCccccCCccc
Confidence 34688888766654333 5999999999999999876 6765 54443
No 196
>KOG4692|consensus
Probab=46.38 E-value=5.9 Score=35.43 Aligned_cols=24 Identities=29% Similarity=0.586 Sum_probs=20.7
Q ss_pred eeccccCCCCCCceEeccCccccc
Q psy2200 35 YDCNICFDTAKDAVISMCGHLFWL 58 (248)
Q Consensus 35 ~~C~iCld~~~~~v~~~CGH~f~~ 58 (248)
-.|+||---.-.+|++||||.-|.
T Consensus 423 ~lCpICyA~pi~Avf~PC~H~SC~ 446 (489)
T KOG4692|consen 423 NLCPICYAGPINAVFAPCSHRSCY 446 (489)
T ss_pred ccCcceecccchhhccCCCCchHH
Confidence 469999888888999999999844
No 197
>KOG2113|consensus
Probab=46.15 E-value=19 Score=31.73 Aligned_cols=45 Identities=7% Similarity=-0.206 Sum_probs=34.3
Q ss_pred CCceeecccccccCCcEEccCCCc-cCHhHHHHHHHhCCCCCccccccccc
Q psy2200 131 GQIYDCNICLDTAKDAVISMCGHL-FCWPCLHQWLETCPNRQTCPVCKAAI 180 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~~~~CgH~-fC~~Ci~~~~~~~~~~~~CP~Cr~~~ 180 (248)
...+.|-+|-..+...+..+|||. ||-.|.. +... ..||+|....
T Consensus 341 ~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~---~~~~~c~~~~ 386 (394)
T KOG2113|consen 341 MSSLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASAS---PTSSTCDHND 386 (394)
T ss_pred hhhcccccccCceeeeEeecCCcccChhhhhh--cccC---Cccccccccc
Confidence 345689999888877777899995 9999987 3333 3999997654
No 198
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=45.47 E-value=14 Score=20.84 Aligned_cols=34 Identities=21% Similarity=0.605 Sum_probs=21.0
Q ss_pred ecccccccCC--cEEccCCCccCHhHHHHHHHhCCCCCccccccccc
Q psy2200 136 CNICLDTAKD--AVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAI 180 (248)
Q Consensus 136 C~IC~~~~~~--p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~ 180 (248)
|..|.+.+.. .++..=+..|+..|. .|..|+..|
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~Cf-----------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPECF-----------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccCC-----------CCcccCCcC
Confidence 6667776655 233344666777764 677777665
No 199
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=45.38 E-value=15 Score=31.03 Aligned_cols=27 Identities=33% Similarity=0.757 Sum_probs=21.3
Q ss_pred cCHhHHHHHHHhCCCCCcccccccccccCC
Q psy2200 155 FCWPCLHQWLETCPNRQTCPVCKAAIDKDK 184 (248)
Q Consensus 155 fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~ 184 (248)
-|..|....-++.+ .||+|++..-.++
T Consensus 196 ~C~sC~qqIHRNAP---iCPlCK~KsRSrn 222 (230)
T PF10146_consen 196 TCQSCHQQIHRNAP---ICPLCKAKSRSRN 222 (230)
T ss_pred hhHhHHHHHhcCCC---CCcccccccccCC
Confidence 48999988888777 9999988765443
No 200
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PF04641 Rtf2: Rtf2 RING-finger
Probab=45.02 E-value=15 Score=31.62 Aligned_cols=30 Identities=17% Similarity=0.327 Sum_probs=22.0
Q ss_pred CCCCceeccccCCCCCC----ceEeccCcccccc
Q psy2200 30 DKSQIYDCNICFDTAKD----AVISMCGHLFWLK 59 (248)
Q Consensus 30 ~~~~~~~C~iCld~~~~----~v~~~CGH~f~~c 59 (248)
.....|.|||....+.. ..+-+|||+|..-
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~ 142 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEK 142 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHH
Confidence 35678999999877742 4456899999433
No 202
>KOG2169|consensus
Probab=44.89 E-value=18 Score=35.31 Aligned_cols=57 Identities=21% Similarity=0.360 Sum_probs=37.0
Q ss_pred CCCceeecccccccCCcEEc-cCCCccCHhHHHHHHHh-CCCCCcccccccccccCCce
Q psy2200 130 KGQIYDCNICLDTAKDAVIS-MCGHLFCWPCLHQWLET-CPNRQTCPVCKAAIDKDKVI 186 (248)
Q Consensus 130 ~~~~~~C~IC~~~~~~p~~~-~CgH~fC~~Ci~~~~~~-~~~~~~CP~Cr~~~~~~~~~ 186 (248)
..-.+.|+|+...+.-|..- .|+|+=|..-..-.-.. ....+.||+|.+....++++
T Consensus 303 ~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~ 361 (636)
T KOG2169|consen 303 LRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLI 361 (636)
T ss_pred ceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccchh
Confidence 44568899998877666443 68887666654322111 22378999999887766554
No 203
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=42.72 E-value=4.7 Score=35.55 Aligned_cols=45 Identities=20% Similarity=0.478 Sum_probs=32.8
Q ss_pred CceeecccccccCCcEEcc----CC--CccCHhHHHHHHHhCCCCCcccccccc
Q psy2200 132 QIYDCNICLDTAKDAVISM----CG--HLFCWPCLHQWLETCPNRQTCPVCKAA 179 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~~----Cg--H~fC~~Ci~~~~~~~~~~~~CP~Cr~~ 179 (248)
....||||-....-.++.. =| |.+|..|-..|-..+. .||.|...
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~---~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRV---KCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCc---cCCCCCCC
Confidence 3458999998765443322 23 5689999999988766 99999763
No 204
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=42.49 E-value=13 Score=28.29 Aligned_cols=22 Identities=32% Similarity=0.502 Sum_probs=15.4
Q ss_pred ccccccCCcEEccCCCccCHhH
Q psy2200 138 ICLDTAKDAVISMCGHLFCWPC 159 (248)
Q Consensus 138 IC~~~~~~p~~~~CgH~fC~~C 159 (248)
||.+.-...+...|||.||..=
T Consensus 62 i~qs~~~rv~rcecghsf~d~r 83 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDYR 83 (165)
T ss_pred EEecccccEEEEeccccccChh
Confidence 5666555555668999999753
No 205
>KOG0289|consensus
Probab=41.60 E-value=20 Score=33.02 Aligned_cols=53 Identities=17% Similarity=0.379 Sum_probs=46.6
Q ss_pred eecccccccCCcEEcc-CCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeec
Q psy2200 135 DCNICLDTAKDAVISM-CGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYG 190 (248)
Q Consensus 135 ~C~IC~~~~~~p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 190 (248)
.|.|=-+...+||+-+ -||+|=++=|.+++...+ +||+-..++..++++++-.
T Consensus 2 ~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G---~DPIt~~pLs~eelV~Ik~ 55 (506)
T KOG0289|consen 2 VCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETG---KDPITNEPLSIEELVEIKV 55 (506)
T ss_pred eecccCCCCCCccccccccchHHHHHHHHHHHHcC---CCCCCCCcCCHHHeeeccc
Confidence 6899999999998885 799999999999999987 9999999999888876643
No 206
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.46 E-value=13 Score=26.50 Aligned_cols=14 Identities=36% Similarity=1.013 Sum_probs=12.2
Q ss_pred ccCHhHHHHHHHhC
Q psy2200 154 LFCWPCLHQWLETC 167 (248)
Q Consensus 154 ~fC~~Ci~~~~~~~ 167 (248)
.||+.|+..|.+..
T Consensus 42 gFCRNCLs~Wy~ea 55 (104)
T COG3492 42 GFCRNCLSNWYREA 55 (104)
T ss_pred HHHHHHHHHHHHHH
Confidence 49999999999864
No 207
>KOG3161|consensus
Probab=41.36 E-value=3.3 Score=39.82 Aligned_cols=40 Identities=18% Similarity=0.293 Sum_probs=29.2
Q ss_pred CCCCCCceeccccCCCCC----CceEeccCccccccee-ccccCC
Q psy2200 28 GNDKSQIYDCNICFDTAK----DAVISMCGHLFWLKFF-YWPGRG 67 (248)
Q Consensus 28 ~~~~~~~~~C~iCld~~~----~~v~~~CGH~f~~cv~-~~y~Rg 67 (248)
.-.|.....|+||+..+. .||++-|||+.|..|. ..|.+.
T Consensus 5 a~~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~s 49 (861)
T KOG3161|consen 5 ALKWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNAS 49 (861)
T ss_pred chhhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhcc
Confidence 345677789999987754 6999999999966444 455543
No 208
>KOG4362|consensus
Probab=41.13 E-value=7.4 Score=37.92 Aligned_cols=23 Identities=35% Similarity=1.002 Sum_probs=21.7
Q ss_pred ceeccccCCCCCCceEeccCccc
Q psy2200 34 IYDCNICFDTAKDAVISMCGHLF 56 (248)
Q Consensus 34 ~~~C~iCld~~~~~v~~~CGH~f 56 (248)
..+|+||+...++|+.+.|-|.|
T Consensus 21 ~lEc~ic~~~~~~p~~~kc~~~~ 43 (684)
T KOG4362|consen 21 ILECPICLEHVKEPSLLKCDHIF 43 (684)
T ss_pred hccCCceeEEeeccchhhhhHHH
Confidence 47899999999999999999999
No 209
>KOG1609|consensus
Probab=41.10 E-value=40 Score=29.23 Aligned_cols=50 Identities=26% Similarity=0.572 Sum_probs=37.0
Q ss_pred ceeecccccccCC----cEEccCC-----CccCHhHHHHHHHhCCCCCcccccccccccC
Q psy2200 133 IYDCNICLDTAKD----AVISMCG-----HLFCWPCLHQWLETCPNRQTCPVCKAAIDKD 183 (248)
Q Consensus 133 ~~~C~IC~~~~~~----p~~~~Cg-----H~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~ 183 (248)
...|-||...... +...+|. +..+..|+..|+..+. ...|.+|...+...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~-~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKG-NITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhcccc-Ceeeecccccceec
Confidence 4689999986542 4566773 3368999999998654 66999998866543
No 210
>KOG4451|consensus
Probab=40.88 E-value=18 Score=30.45 Aligned_cols=26 Identities=35% Similarity=0.830 Sum_probs=20.6
Q ss_pred cCHhHHHHHHHhCCCCCcccccccccccC
Q psy2200 155 FCWPCLHQWLETCPNRQTCPVCKAAIDKD 183 (248)
Q Consensus 155 fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~ 183 (248)
.|..|..+.-+..+ .||+|++....+
T Consensus 251 ~ClsChqqIHRNAP---iCPlCKaKsRSr 276 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAP---ICPLCKAKSRSR 276 (286)
T ss_pred HHHHHHHHHhcCCC---CCcchhhccccC
Confidence 48899888887776 999998876543
No 211
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=40.85 E-value=25 Score=31.47 Aligned_cols=39 Identities=15% Similarity=0.422 Sum_probs=28.8
Q ss_pred CCCCCCCCCCCCCCCCceeccccCCCCCCceEeccCccc
Q psy2200 18 GSGDQKKTDGGNDKSQIYDCNICFDTAKDAVISMCGHLF 56 (248)
Q Consensus 18 ~~~~~~~~~~~~~~~~~~~C~iCld~~~~~v~~~CGH~f 56 (248)
.+++...++-.+..+..--|-||-.-.+-..++||||..
T Consensus 45 aEPnlttsSaddtDEen~~C~ICA~~~TYs~~~PC~H~~ 83 (493)
T COG5236 45 AEPNLTTSSADDTDEENMNCQICAGSTTYSARYPCGHQI 83 (493)
T ss_pred cCCccccccccccccccceeEEecCCceEEEeccCCchH
Confidence 344444444444556667899999999989999999988
No 212
>KOG2231|consensus
Probab=40.53 E-value=20 Score=34.95 Aligned_cols=47 Identities=26% Similarity=0.611 Sum_probs=36.1
Q ss_pred eecccccccCCcEEccCCC-ccCHhHHHHHHHhCC---CCCcccccccccc
Q psy2200 135 DCNICLDTAKDAVISMCGH-LFCWPCLHQWLETCP---NRQTCPVCKAAID 181 (248)
Q Consensus 135 ~C~IC~~~~~~p~~~~CgH-~fC~~Ci~~~~~~~~---~~~~CP~Cr~~~~ 181 (248)
.|+||-..+.-...-.||| ..|..|..+...... -...||+||..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 5899998887777779999 799999988765432 1346799998664
No 213
>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 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=39.28 E-value=8.6 Score=24.40 Aligned_cols=41 Identities=15% Similarity=0.464 Sum_probs=21.6
Q ss_pred ceeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 133 IYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 133 ~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
.+.||.|.+.+... .| ..-|...-.... ....||+|...+.
T Consensus 2 ~f~CP~C~~~~~~~-~L------~~H~~~~H~~~~-~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 2 SFTCPYCGKGFSES-SL------VEHCEDEHRSES-KNVVCPICSSRVT 42 (54)
T ss_pred CcCCCCCCCccCHH-HH------HHHHHhHCcCCC-CCccCCCchhhhh
Confidence 47899999854432 11 222222222211 2457999986543
No 215
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=38.81 E-value=20 Score=22.61 Aligned_cols=30 Identities=23% Similarity=0.531 Sum_probs=20.4
Q ss_pred eecccccccCC----cEEccCCCccCHhHHHHHH
Q psy2200 135 DCNICLDTAKD----AVISMCGHLFCWPCLHQWL 164 (248)
Q Consensus 135 ~C~IC~~~~~~----p~~~~CgH~fC~~Ci~~~~ 164 (248)
.|.+|...|.- ..-..||++||..|.....
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 57788765542 2233799999999976543
No 216
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=37.04 E-value=11 Score=33.44 Aligned_cols=44 Identities=25% Similarity=0.542 Sum_probs=32.7
Q ss_pred CceeecccccccCCcEEc---cCC--CccCHhHHHHHHHhCCCCCccccccc
Q psy2200 132 QIYDCNICLDTAKDAVIS---MCG--HLFCWPCLHQWLETCPNRQTCPVCKA 178 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p~~~---~Cg--H~fC~~Ci~~~~~~~~~~~~CP~Cr~ 178 (248)
....||||-....-.++. .=| |.+|.-|-..|--.+. .||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~---~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRV---KCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCc---cCCCCCC
Confidence 456899999876544332 223 5689999999988766 9999975
No 217
>KOG1356|consensus
Probab=37.04 E-value=9 Score=38.06 Aligned_cols=48 Identities=19% Similarity=0.413 Sum_probs=32.4
Q ss_pred ceeecccccccCCc--EEccCCCccCHhHHHHHH---HhCCCCCccccccccc
Q psy2200 133 IYDCNICLDTAKDA--VISMCGHLFCWPCLHQWL---ETCPNRQTCPVCKAAI 180 (248)
Q Consensus 133 ~~~C~IC~~~~~~p--~~~~CgH~fC~~Ci~~~~---~~~~~~~~CP~Cr~~~ 180 (248)
.-.|..|...+.+- +-..|||.+|..|+..|. ........|++|+...
T Consensus 229 ~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C 281 (889)
T KOG1356|consen 229 REMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKC 281 (889)
T ss_pred chhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhc
Confidence 34799999887753 444899999999999994 1111133566665443
No 218
>KOG1829|consensus
Probab=36.73 E-value=13 Score=35.60 Aligned_cols=31 Identities=23% Similarity=0.230 Sum_probs=20.9
Q ss_pred CceeccccCCCCC-Cc-----eEeccCcccccceecc
Q psy2200 33 QIYDCNICFDTAK-DA-----VISMCGHLFWLKFFYW 63 (248)
Q Consensus 33 ~~~~C~iCld~~~-~~-----v~~~CGH~f~~cv~~~ 63 (248)
..|.|..|...+. +- ...=+|+.||.+++.-
T Consensus 339 Q~~~CAgC~~~i~~~~~~~~R~C~y~G~y~C~~Ch~~ 375 (580)
T KOG1829|consen 339 QNFRCAGCGHTIGPDLEQRPRLCRYLGKYFCDCCHQN 375 (580)
T ss_pred cCceecccCCCcccccccchhHhhhhhhhhCchhccc
Confidence 5699999987666 22 2244788887777653
No 219
>KOG0801|consensus
Probab=36.48 E-value=13 Score=29.62 Aligned_cols=25 Identities=20% Similarity=0.465 Sum_probs=14.7
Q ss_pred CceeecccccccCCc---EEccCCCccC
Q psy2200 132 QIYDCNICLDTAKDA---VISMCGHLFC 156 (248)
Q Consensus 132 ~~~~C~IC~~~~~~p---~~~~CgH~fC 156 (248)
+.-+|.||++.+... ..|||-.+|+
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYH 203 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYH 203 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEee
Confidence 345677777766533 4456655554
No 220
>PF12773 DZR: Double zinc ribbon
Probab=36.28 E-value=27 Score=21.51 Aligned_cols=27 Identities=26% Similarity=0.530 Sum_probs=13.7
Q ss_pred cCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 155 FCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 155 fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
||..|-............||.|...+.
T Consensus 14 fC~~CG~~l~~~~~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 14 FCPHCGTPLPPPDQSKKICPNCGAENP 40 (50)
T ss_pred CChhhcCChhhccCCCCCCcCCcCCCc
Confidence 455554443311112447888877654
No 221
>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=35.42 E-value=29 Score=25.70 Aligned_cols=28 Identities=25% Similarity=0.535 Sum_probs=21.4
Q ss_pred CCCCCceeccccCCC----CCCceEec-cCccc
Q psy2200 29 NDKSQIYDCNICFDT----AKDAVISM-CGHLF 56 (248)
Q Consensus 29 ~~~~~~~~C~iCld~----~~~~v~~~-CGH~f 56 (248)
.+++....|+-|.-. -++|++.| ||..|
T Consensus 4 pelGtKR~Cp~CG~kFYDLnk~PivCP~CG~~~ 36 (108)
T PF09538_consen 4 PELGTKRTCPSCGAKFYDLNKDPIVCPKCGTEF 36 (108)
T ss_pred cccCCcccCCCCcchhccCCCCCccCCCCCCcc
Confidence 467888999999754 45688777 88877
No 222
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=35.31 E-value=36 Score=25.01 Aligned_cols=28 Identities=25% Similarity=0.576 Sum_probs=20.5
Q ss_pred CCccCHhHHHHHHHhC------CCCCcccccccc
Q psy2200 152 GHLFCWPCLHQWLETC------PNRQTCPVCKAA 179 (248)
Q Consensus 152 gH~fC~~Ci~~~~~~~------~~~~~CP~Cr~~ 179 (248)
.=.||..||..+.... .....||.||..
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 4459999998877542 135789999873
No 223
>PLN02189 cellulose synthase
Probab=34.93 E-value=32 Score=35.40 Aligned_cols=47 Identities=34% Similarity=0.764 Sum_probs=32.7
Q ss_pred eeecccccccC-----Cc-EEc-cCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAK-----DA-VIS-MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~-----~p-~~~-~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
..|.||-+..- ++ |.. .||--.|+.|.. +-+.. +...||.|+..+..
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cye-yer~e-g~q~CpqCkt~Y~r 88 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYE-YERRE-GTQNCPQCKTRYKR 88 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhh-hhhhc-CCccCcccCCchhh
Confidence 38999999754 12 222 478889999984 33322 46799999998874
No 224
>PLN02436 cellulose synthase A
Probab=34.88 E-value=31 Score=35.54 Aligned_cols=47 Identities=30% Similarity=0.740 Sum_probs=32.6
Q ss_pred eeecccccccC---Cc-EEc---cCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAK---DA-VIS---MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~---~p-~~~---~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
..|.||-+..- +. ... -||--.|+.|.. +-+.. +...||.|+..+..
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cye-yer~e-g~~~Cpqckt~Y~r 90 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYE-YERRE-GNQACPQCKTRYKR 90 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhh-hhhhc-CCccCcccCCchhh
Confidence 38999999753 11 222 478889999984 33332 46799999998873
No 225
>KOG3842|consensus
Probab=33.27 E-value=44 Score=29.62 Aligned_cols=52 Identities=17% Similarity=0.531 Sum_probs=32.7
Q ss_pred CceeecccccccC--------C---------c--EEccCCCccCHhHHHHHHHhCC------CCCcccccccccccC
Q psy2200 132 QIYDCNICLDTAK--------D---------A--VISMCGHLFCWPCLHQWLETCP------NRQTCPVCKAAIDKD 183 (248)
Q Consensus 132 ~~~~C~IC~~~~~--------~---------p--~~~~CgH~fC~~Ci~~~~~~~~------~~~~CP~Cr~~~~~~ 183 (248)
..-+||+|+..-. + | ...||||+--..-+.-|.+..- -...||.|-..+..+
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 3468999986321 1 1 3458999866666655654311 156899998877643
No 226
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=32.41 E-value=6.1 Score=20.63 Aligned_cols=7 Identities=43% Similarity=1.222 Sum_probs=3.0
Q ss_pred ccccccc
Q psy2200 172 TCPVCKA 178 (248)
Q Consensus 172 ~CP~Cr~ 178 (248)
.||.|..
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 4444433
No 227
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=31.53 E-value=39 Score=34.88 Aligned_cols=46 Identities=28% Similarity=0.766 Sum_probs=32.2
Q ss_pred eeecccccccC-----CcEE--ccCCCccCHhHHHHHHHhCCCCCcccccccccc
Q psy2200 134 YDCNICLDTAK-----DAVI--SMCGHLFCWPCLHQWLETCPNRQTCPVCKAAID 181 (248)
Q Consensus 134 ~~C~IC~~~~~-----~p~~--~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~ 181 (248)
-.|.||-+..- ++.+ -.||--.|+.|.. +=+ +.+...||.|+..+.
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr-~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YER-KDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhh-hcCCccCCccCCchh
Confidence 38999998753 2221 1578889999983 333 234679999998887
No 228
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=31.38 E-value=33 Score=20.29 Aligned_cols=22 Identities=32% Similarity=0.807 Sum_probs=10.6
Q ss_pred ecccccccCC-cEEcc-CCCccCH
Q psy2200 136 CNICLDTAKD-AVISM-CGHLFCW 157 (248)
Q Consensus 136 C~IC~~~~~~-p~~~~-CgH~fC~ 157 (248)
|.+|.....- |..-. |+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 3445543332 44444 6666664
No 229
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=30.89 E-value=22 Score=22.36 Aligned_cols=38 Identities=16% Similarity=0.572 Sum_probs=20.2
Q ss_pred ecccccccCCc-EE-ccCCCccCHhHHHHHHHhCCCCCcccccccccccCC
Q psy2200 136 CNICLDTAKDA-VI-SMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDK 184 (248)
Q Consensus 136 C~IC~~~~~~p-~~-~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~ 184 (248)
|..|...+... ++ ..-|..|+..|. .|-.|+..|....
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~Cf-----------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPECF-----------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTTS-----------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEEeCCcEEEcccc-----------ccCCCCCccCCCe
Confidence 44455544422 22 255666666663 6777776665444
No 230
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=30.13 E-value=33 Score=21.01 Aligned_cols=23 Identities=22% Similarity=0.518 Sum_probs=14.2
Q ss_pred ecccccccCCcEEccCCCccCHh
Q psy2200 136 CNICLDTAKDAVISMCGHLFCWP 158 (248)
Q Consensus 136 C~IC~~~~~~p~~~~CgH~fC~~ 158 (248)
|..|.....--+-|.|+|++|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCC
Confidence 55666444333566788888844
No 231
>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=29.63 E-value=23 Score=17.36 Aligned_cols=11 Identities=27% Similarity=0.887 Sum_probs=6.1
Q ss_pred eeccccCCCCC
Q psy2200 35 YDCNICFDTAK 45 (248)
Q Consensus 35 ~~C~iCld~~~ 45 (248)
|.|++|...+.
T Consensus 1 ~~C~~C~~~~~ 11 (24)
T PF13894_consen 1 FQCPICGKSFR 11 (24)
T ss_dssp EE-SSTS-EES
T ss_pred CCCcCCCCcCC
Confidence 67888865554
No 232
>PLN02195 cellulose synthase A
Probab=29.31 E-value=53 Score=33.64 Aligned_cols=47 Identities=23% Similarity=0.560 Sum_probs=32.8
Q ss_pred eeecccccccC-----CcEE--ccCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAK-----DAVI--SMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~-----~p~~--~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
-.|.||-+..- ++.+ -.||--.|+.|.. +=+. .+...||.|+..+..
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCye-yer~-eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLE-YEIK-EGRKVCLRCGGPYDA 60 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhh-hhhh-cCCccCCccCCcccc
Confidence 37999998543 2222 2688889999983 3332 346799999998873
No 233
>KOG1701|consensus
Probab=28.83 E-value=18 Score=33.25 Aligned_cols=33 Identities=30% Similarity=0.634 Sum_probs=19.9
Q ss_pred eeecccccccC-CcEEccC----CCccCHhHHHHHHHh
Q psy2200 134 YDCNICLDTAK-DAVISMC----GHLFCWPCLHQWLET 166 (248)
Q Consensus 134 ~~C~IC~~~~~-~p~~~~C----gH~fC~~Ci~~~~~~ 166 (248)
+.|--|...+. +.----| ||+||+.|....++.
T Consensus 428 Y~CEDCg~~LS~e~e~qgCyPld~HllCk~Ch~~Rl~~ 465 (468)
T KOG1701|consen 428 YKCEDCGLLLSSEEEGQGCYPLDGHLLCKTCHLKRLQA 465 (468)
T ss_pred eehhhcCccccccCCCCcceeccCceeechhhhhhhcc
Confidence 45555655554 3222223 899999998766653
No 234
>PLN02400 cellulose synthase
Probab=28.68 E-value=39 Score=34.92 Aligned_cols=47 Identities=30% Similarity=0.720 Sum_probs=32.5
Q ss_pred eeecccccccC-----CcEE--ccCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAK-----DAVI--SMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~-----~p~~--~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
-.|.||-+..- ++.+ -.|+--.|+.|.. += .+.+...||.|+..+..
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-YE-RkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-YE-RKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhh-ee-cccCCccCcccCCcccc
Confidence 38999999753 2222 2578789999984 32 23346799999998873
No 235
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.26 E-value=51 Score=24.61 Aligned_cols=25 Identities=32% Similarity=0.774 Sum_probs=17.8
Q ss_pred cCCCccCHhHHHHHHHhCCCCCcccccc
Q psy2200 150 MCGHLFCWPCLHQWLETCPNRQTCPVCK 177 (248)
Q Consensus 150 ~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr 177 (248)
.|++.||.+|-.-+-+.- -.||-|.
T Consensus 86 ~C~~~FC~dCD~fiHe~L---h~CPGC~ 110 (112)
T TIGR00622 86 VCKNVFCVDCDVFVHESL---HCCPGCI 110 (112)
T ss_pred CCCCccccccchhhhhhc---cCCcCCC
Confidence 588999999955444432 3799985
No 236
>KOG0826|consensus
Probab=28.24 E-value=39 Score=30.02 Aligned_cols=52 Identities=15% Similarity=0.294 Sum_probs=31.6
Q ss_pred CCCCCCC-CCceeccccCCCC-CCceEeccCccc-ccceeccccCCCCCCCCCCCCC
Q psy2200 25 TDGGNDK-SQIYDCNICFDTA-KDAVISMCGHLF-WLKFFYWPGRGGSEIDPRDEVP 78 (248)
Q Consensus 25 ~~~~~~~-~~~~~C~iCld~~-~~~v~~~CGH~f-~~cv~~~y~Rg~~~~~p~~~~p 78 (248)
+++.+.. .+.-.|+||+..- .+-|.+--|-.| +.|++.... .-..||.+..|
T Consensus 290 ~se~e~l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~--~~~~CPVT~~p 344 (357)
T KOG0826|consen 290 NSESELLPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV--NYGHCPVTGYP 344 (357)
T ss_pred ccccccCCCccccChhHHhccCCCceEEecceEEeHHHHHHHHH--hcCCCCccCCc
Confidence 4444443 4568899998654 455666679999 556666533 23456655443
No 237
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=27.19 E-value=6.4 Score=25.40 Aligned_cols=13 Identities=46% Similarity=1.485 Sum_probs=11.3
Q ss_pred CCCccCHhHHHHH
Q psy2200 151 CGHLFCWPCLHQW 163 (248)
Q Consensus 151 CgH~fC~~Ci~~~ 163 (248)
||+.||..|-..|
T Consensus 46 C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 46 CGTEFCFKCGEPW 58 (64)
T ss_dssp CCSEECSSSTSES
T ss_pred CCCcCccccCccc
Confidence 9999999997766
No 238
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=26.49 E-value=34 Score=25.40 Aligned_cols=13 Identities=46% Similarity=0.856 Sum_probs=9.9
Q ss_pred cEEccCCCccCHh
Q psy2200 146 AVISMCGHLFCWP 158 (248)
Q Consensus 146 p~~~~CgH~fC~~ 158 (248)
.+.-.|||.||..
T Consensus 24 ~vkc~CGh~f~d~ 36 (112)
T PF08882_consen 24 VVKCDCGHEFCDA 36 (112)
T ss_pred eeeccCCCeecCh
Confidence 4556899999864
No 239
>KOG1039|consensus
Probab=26.41 E-value=21 Score=32.13 Aligned_cols=32 Identities=31% Similarity=0.719 Sum_probs=25.3
Q ss_pred CCceeccccCCCCCCce-----E---eccCccccc-ceecc
Q psy2200 32 SQIYDCNICFDTAKDAV-----I---SMCGHLFWL-KFFYW 63 (248)
Q Consensus 32 ~~~~~C~iCld~~~~~v-----~---~~CGH~f~~-cv~~~ 63 (248)
.....|-||+|...+.+ + .+|-|.||. |+.+|
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~w 199 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKW 199 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhh
Confidence 34689999999988877 5 679999955 56667
No 240
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=26.31 E-value=33 Score=27.08 Aligned_cols=25 Identities=32% Similarity=0.774 Sum_probs=20.5
Q ss_pred CccCHhHHHHHHHhCCCCCcccccccccccC
Q psy2200 153 HLFCWPCLHQWLETCPNRQTCPVCKAAIDKD 183 (248)
Q Consensus 153 H~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~ 183 (248)
+.||..|-..-+. .||.|..+|.-.
T Consensus 28 ~~fC~kCG~~tI~------~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 28 EKFCSKCGAKTIT------SCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHhhHHHHH------HCcCCCCCCCCc
Confidence 5699999888776 699999988754
No 241
>PF14353 CpXC: CpXC protein
Probab=26.02 E-value=52 Score=24.73 Aligned_cols=49 Identities=16% Similarity=0.108 Sum_probs=25.9
Q ss_pred eeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
+.||.|...+...+-..--=..-..=....+...-...+||.|...+..
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRL 50 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceec
Confidence 5788888766543222111111223334444333335689999987754
No 242
>KOG2807|consensus
Probab=25.40 E-value=41 Score=29.91 Aligned_cols=40 Identities=23% Similarity=0.656 Sum_probs=25.6
Q ss_pred eecccccccCCc--E-EccCCCccCHhHHHHHHHhCCCCCcccccc
Q psy2200 135 DCNICLDTAKDA--V-ISMCGHLFCWPCLHQWLETCPNRQTCPVCK 177 (248)
Q Consensus 135 ~C~IC~~~~~~p--~-~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr 177 (248)
.|-.|.+..... + --.|.|+||..|-. +++.. .-.||-|.
T Consensus 332 ~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv-~iHes--Lh~CpgCe 374 (378)
T KOG2807|consen 332 FCFACQGELLSSGRYRCESCKNVFCLDCDV-FIHES--LHNCPGCE 374 (378)
T ss_pred ceeeeccccCCCCcEEchhccceeeccchH-HHHhh--hhcCCCcC
Confidence 488886654432 2 22689999999943 33332 22799996
No 243
>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=25.22 E-value=25 Score=22.24 Aligned_cols=12 Identities=33% Similarity=1.162 Sum_probs=6.3
Q ss_pred cccccccccccC
Q psy2200 172 TCPVCKAAIDKD 183 (248)
Q Consensus 172 ~CP~Cr~~~~~~ 183 (248)
.||+|..++...
T Consensus 22 ~CPlC~r~l~~e 33 (54)
T PF04423_consen 22 CCPLCGRPLDEE 33 (54)
T ss_dssp E-TTT--EE-HH
T ss_pred cCCCCCCCCCHH
Confidence 899999988653
No 244
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=24.59 E-value=33 Score=31.00 Aligned_cols=31 Identities=32% Similarity=0.658 Sum_probs=24.5
Q ss_pred CCceeecccc-cccCCcEEccCCCccCHhHHH
Q psy2200 131 GQIYDCNICL-DTAKDAVISMCGHLFCWPCLH 161 (248)
Q Consensus 131 ~~~~~C~IC~-~~~~~p~~~~CgH~fC~~Ci~ 161 (248)
...+.|.-|- .....-..+|||..||+.|+.
T Consensus 37 ~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~ 68 (441)
T COG4098 37 NGKYRCNRCGNTHIELFAKLPCGCLYCRNCLM 68 (441)
T ss_pred cCcEEehhcCCcchhhhcccccceEeehhhhh
Confidence 3457899988 445556889999999999985
No 245
>KOG2042|consensus
Probab=24.20 E-value=70 Score=32.65 Aligned_cols=60 Identities=13% Similarity=0.024 Sum_probs=50.5
Q ss_pred CCCceeecccccccCCcEEcc-CCCccCHhHHHHHHHhCCCCCcccccccccccCCceeeecCC
Q psy2200 130 KGQIYDCNICLDTAKDAVISM-CGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKVIPVYGRG 192 (248)
Q Consensus 130 ~~~~~~C~IC~~~~~~p~~~~-CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~ 192 (248)
..+.+.=|+-...+.+||++| =|++.++.=|.+.+.... +=|.||.++..+.+.++-.+.
T Consensus 867 vpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~---tdPFNR~pLt~d~v~pn~eLK 927 (943)
T KOG2042|consen 867 VPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDC---TDPFNREPLTEDMVSPNEELK 927 (943)
T ss_pred CchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCC---CCccccccCchhhcCCCHHHH
Confidence 445566678888899999998 899999999999998866 779999999999888776554
No 246
>PLN02248 cellulose synthase-like protein
Probab=23.81 E-value=1.5e+02 Score=31.07 Aligned_cols=33 Identities=24% Similarity=0.629 Sum_probs=27.5
Q ss_pred cCCCccCHhHHHHHHHhCCCCCcccccccccccCCc
Q psy2200 150 MCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDKDKV 185 (248)
Q Consensus 150 ~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~~~~ 185 (248)
.|++..|++|...-++... .||-|+.++...+.
T Consensus 149 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~ 181 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGG---ICPGCKEPYKVTDL 181 (1135)
T ss_pred cccchhHHhHhhhhhhcCC---CCCCCccccccccc
Confidence 5889999999999888866 99999998865443
No 247
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=23.36 E-value=95 Score=32.14 Aligned_cols=47 Identities=26% Similarity=0.784 Sum_probs=32.7
Q ss_pred eeecccccccC-----CcEE--ccCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAK-----DAVI--SMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~-----~p~~--~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
..|.||-+..- ++.+ -.|+--.|+.|.. +=+. .+...||.|+..+..
T Consensus 16 ~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cye-ye~~-~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 16 KTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYE-YERS-EGNQCCPQCNTRYKR 69 (1044)
T ss_pred chhhccccccCcCCCCCEEEEeccCCCccccchhh-hhhh-cCCccCCccCCchhh
Confidence 47999998653 2222 1578889999983 3332 246799999998874
No 248
>KOG3799|consensus
Probab=23.19 E-value=58 Score=25.11 Aligned_cols=46 Identities=28% Similarity=0.646 Sum_probs=25.4
Q ss_pred CCceeecccccccCCcEEccCCCccCHhHHHHHHHhCC---------CCCccccccccc
Q psy2200 131 GQIYDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCP---------NRQTCPVCKAAI 180 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~---------~~~~CP~Cr~~~ 180 (248)
.++..|.||+.... .-.|||. |..|-.+....-+ -...|-+|+...
T Consensus 63 ~ddatC~IC~KTKF---ADG~GH~-C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 63 GDDATCGICHKTKF---ADGCGHN-CSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred CcCcchhhhhhccc---ccccCcc-cchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 44568999997532 2258885 4455444332211 144677777643
No 249
>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=22.89 E-value=28 Score=17.33 Aligned_cols=12 Identities=33% Similarity=0.819 Sum_probs=8.3
Q ss_pred eeccccCCCCCC
Q psy2200 35 YDCNICFDTAKD 46 (248)
Q Consensus 35 ~~C~iCld~~~~ 46 (248)
|.|.+|...+..
T Consensus 1 y~C~~C~~~f~~ 12 (23)
T PF00096_consen 1 YKCPICGKSFSS 12 (23)
T ss_dssp EEETTTTEEESS
T ss_pred CCCCCCCCccCC
Confidence 678888766554
No 250
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=22.45 E-value=48 Score=28.33 Aligned_cols=23 Identities=26% Similarity=0.629 Sum_probs=17.9
Q ss_pred ceeccccCCCCC---CceEeccCccc
Q psy2200 34 IYDCNICFDTAK---DAVISMCGHLF 56 (248)
Q Consensus 34 ~~~C~iCld~~~---~~v~~~CGH~f 56 (248)
.|.||||...+. ....-..||.|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 489999987774 34667789999
No 251
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=22.32 E-value=33 Score=21.36 Aligned_cols=14 Identities=21% Similarity=0.522 Sum_probs=8.3
Q ss_pred CCCCCceeccccCC
Q psy2200 29 NDKSQIYDCNICFD 42 (248)
Q Consensus 29 ~~~~~~~~C~iCld 42 (248)
+++.+.|.|++|.-
T Consensus 29 ~~Lp~~w~CP~C~a 42 (47)
T PF00301_consen 29 EDLPDDWVCPVCGA 42 (47)
T ss_dssp GGS-TT-B-TTTSS
T ss_pred HHCCCCCcCcCCCC
Confidence 35677899999964
No 252
>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=22.28 E-value=88 Score=22.29 Aligned_cols=37 Identities=19% Similarity=0.242 Sum_probs=24.6
Q ss_pred eeecccccccCCcEEccCCCccCHhHHHHHHHhCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAKDAVISMCGHLFCWPCLHQWLETCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~~p~~~~CgH~fC~~Ci~~~~~~~~~~~~CP~Cr~~~~~ 182 (248)
-.|+.|...+.---.+| +..|+-.++ +|..|+++|..
T Consensus 34 S~C~~C~~~L~~~~lIP---------i~S~l~lrG---rCr~C~~~I~~ 70 (92)
T PF06750_consen 34 SHCPHCGHPLSWWDLIP---------ILSYLLLRG---RCRYCGAPIPP 70 (92)
T ss_pred CcCcCCCCcCcccccch---------HHHHHHhCC---CCcccCCCCCh
Confidence 36777777665333332 456777777 89999888763
No 253
>KOG1074|consensus
Probab=22.07 E-value=1.3e+02 Score=30.45 Aligned_cols=14 Identities=29% Similarity=0.560 Sum_probs=10.3
Q ss_pred CCceeecccccccC
Q psy2200 131 GQIYDCNICLDTAK 144 (248)
Q Consensus 131 ~~~~~C~IC~~~~~ 144 (248)
.+...|.||+..+.
T Consensus 603 TdPNqCiiC~rVlS 616 (958)
T KOG1074|consen 603 TDPNQCIICLRVLS 616 (958)
T ss_pred CCccceeeeeeccc
Confidence 34568999998765
No 254
>KOG0006|consensus
Probab=22.06 E-value=74 Score=28.28 Aligned_cols=37 Identities=22% Similarity=0.564 Sum_probs=29.5
Q ss_pred CCceeecccccccCCcEEccCC--CccCHhHHHHHHHhC
Q psy2200 131 GQIYDCNICLDTAKDAVISMCG--HLFCWPCLHQWLETC 167 (248)
Q Consensus 131 ~~~~~C~IC~~~~~~p~~~~Cg--H~fC~~Ci~~~~~~~ 167 (248)
.....|-.|.+.-....+++|. |+.|..|...|...+
T Consensus 219 ~~ni~C~~Ctdv~~~vlvf~Cns~HvtC~dCFr~yc~~R 257 (446)
T KOG0006|consen 219 SRNITCITCTDVRSPVLVFQCNSRHVTCLDCFRLYCVTR 257 (446)
T ss_pred cccceeEEecCCccceEEEecCCceeehHHhhhhHhhhc
Confidence 4457899999987766777998 999999998766544
No 255
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=21.09 E-value=48 Score=19.91 Aligned_cols=21 Identities=24% Similarity=0.507 Sum_probs=9.6
Q ss_pred cccccCCcEEcc-CCCccCHhH
Q psy2200 139 CLDTAKDAVISM-CGHLFCWPC 159 (248)
Q Consensus 139 C~~~~~~p~~~~-CgH~fC~~C 159 (248)
|......|+.-+ |+..||..=
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLKH 27 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TTT
T ss_pred CcCccCCCeECCCCCcccCccc
Confidence 665555555554 777777654
No 256
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=21.06 E-value=6.7 Score=28.54 Aligned_cols=48 Identities=29% Similarity=0.621 Sum_probs=14.3
Q ss_pred eeecccccccC--CcEEccC--CCccCHhHHHHHHH-hCCCCCccccccccccc
Q psy2200 134 YDCNICLDTAK--DAVISMC--GHLFCWPCLHQWLE-TCPNRQTCPVCKAAIDK 182 (248)
Q Consensus 134 ~~C~IC~~~~~--~p~~~~C--gH~fC~~Ci~~~~~-~~~~~~~CP~Cr~~~~~ 182 (248)
-.|++|.+.+. +.....| ||+| ..|....+. ...+.+.|++|...+..
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~~~~r~C~~C~~~~l~ 67 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQTPGVRVCPVCGRRALD 67 (99)
T ss_dssp --------------SSEEE-TTS-EE-EB-SSS-SBS-SS-EEE-TTT--EEE-
T ss_pred ccccccccccccCCcCEeECCCCCEE-eeeeeeeeeeccCCeeEcCCCCCEEec
Confidence 37999998553 4444444 8987 334333332 22235789999876653
No 257
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=20.90 E-value=38 Score=21.35 Aligned_cols=15 Identities=20% Similarity=0.463 Sum_probs=11.4
Q ss_pred CCCCCceeccccCCC
Q psy2200 29 NDKSQIYDCNICFDT 43 (248)
Q Consensus 29 ~~~~~~~~C~iCld~ 43 (248)
+++.+.|.|++|...
T Consensus 29 ~~Lp~~w~CP~C~a~ 43 (50)
T cd00730 29 EDLPDDWVCPVCGAG 43 (50)
T ss_pred hHCCCCCCCCCCCCc
Confidence 356778999999643
Done!