Query psy18179
Match_columns 108
No_of_seqs 208 out of 1301
Neff 9.5
Searched_HMMs 46136
Date Sat Aug 17 00:49:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18179.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18179hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15227 zf-C3HC4_4: zinc fing 99.7 6.2E-18 1.3E-22 83.9 3.1 39 19-57 1-42 (42)
2 smart00504 Ubox Modified RING 99.6 2.6E-16 5.7E-21 84.5 3.9 62 16-85 1-62 (63)
3 PLN03208 E3 ubiquitin-protein 99.6 6.2E-16 1.3E-20 98.6 4.8 52 12-63 14-80 (193)
4 PF04564 U-box: U-box domain; 99.6 1.6E-15 3.5E-20 83.8 4.4 69 14-89 2-70 (73)
5 KOG0823|consensus 99.6 2.2E-15 4.9E-20 97.7 4.0 51 13-63 44-96 (230)
6 PF13923 zf-C3HC4_2: Zinc fing 99.6 2.5E-15 5.4E-20 73.5 2.8 38 19-57 1-39 (39)
7 TIGR00599 rad18 DNA repair pro 99.5 1.6E-14 3.5E-19 101.4 6.0 69 10-86 20-88 (397)
8 PF00097 zf-C3HC4: Zinc finger 99.5 2.9E-14 6.3E-19 70.4 3.0 39 19-57 1-41 (41)
9 KOG0317|consensus 99.5 2.6E-14 5.7E-19 95.3 3.6 57 6-63 229-285 (293)
10 PF13920 zf-C3HC4_3: Zinc fing 99.5 3.2E-14 7E-19 73.1 3.2 46 16-62 2-48 (50)
11 PF14835 zf-RING_6: zf-RING of 99.4 2.8E-14 6.1E-19 75.5 1.4 60 14-83 5-65 (65)
12 PF13639 zf-RING_2: Ring finge 99.4 4.2E-14 9.2E-19 70.8 1.9 40 18-58 2-44 (44)
13 KOG0287|consensus 99.4 6.5E-14 1.4E-18 95.4 2.8 66 13-86 20-85 (442)
14 KOG0320|consensus 99.4 1.4E-13 3.1E-18 86.2 3.5 48 14-62 129-178 (187)
15 PF13445 zf-RING_UBOX: RING-ty 99.4 1.3E-13 2.8E-18 68.4 2.0 36 19-55 1-43 (43)
16 PHA02929 N1R/p28-like protein; 99.4 5.3E-13 1.2E-17 88.2 3.8 49 14-63 172-228 (238)
17 cd00162 RING RING-finger (Real 99.4 6.2E-13 1.3E-17 66.2 3.1 43 18-60 1-44 (45)
18 KOG0311|consensus 99.3 2.3E-13 5E-18 93.0 -0.9 68 12-81 39-107 (381)
19 PF14634 zf-RING_5: zinc-RING 99.3 2.5E-12 5.4E-17 64.4 2.9 41 18-59 1-44 (44)
20 smart00184 RING Ring finger. E 99.3 3.2E-12 7E-17 61.6 3.1 39 19-57 1-39 (39)
21 COG5432 RAD18 RING-finger-cont 99.3 3.5E-12 7.5E-17 85.6 2.8 48 14-62 23-70 (391)
22 PHA02926 zinc finger-like prot 99.2 5.5E-12 1.2E-16 81.8 3.3 51 13-63 167-231 (242)
23 COG5574 PEX10 RING-finger-cont 99.2 8.9E-12 1.9E-16 82.5 3.3 50 14-63 213-263 (271)
24 KOG2177|consensus 99.2 9.6E-12 2.1E-16 83.9 3.1 48 11-59 8-55 (386)
25 KOG2660|consensus 99.2 1.2E-11 2.6E-16 84.1 2.4 76 12-91 11-87 (331)
26 KOG2164|consensus 99.1 5.9E-11 1.3E-15 84.7 3.1 48 16-63 186-237 (513)
27 PF12678 zf-rbx1: RING-H2 zinc 99.1 1.4E-10 3.1E-15 64.0 3.5 40 18-58 21-73 (73)
28 TIGR00570 cdk7 CDK-activating 99.0 3.5E-10 7.7E-15 77.1 4.9 48 16-63 3-55 (309)
29 KOG4159|consensus 99.0 2.4E-10 5.2E-15 80.6 3.8 77 13-92 81-157 (398)
30 KOG4628|consensus 98.9 6.7E-10 1.4E-14 76.8 1.9 47 17-63 230-279 (348)
31 COG5152 Uncharacterized conser 98.9 1.9E-09 4.1E-14 69.0 3.4 62 14-84 194-255 (259)
32 KOG0978|consensus 98.9 6.3E-10 1.4E-14 82.6 0.8 50 14-63 641-690 (698)
33 KOG0824|consensus 98.8 2.3E-09 4.9E-14 72.4 1.7 50 14-63 5-54 (324)
34 COG5540 RING-finger-containing 98.8 3.3E-09 7.1E-14 71.8 2.3 48 15-62 322-372 (374)
35 PF12861 zf-Apc11: Anaphase-pr 98.8 7.8E-09 1.7E-13 58.0 3.2 47 16-62 21-82 (85)
36 COG5243 HRD1 HRD ubiquitin lig 98.7 5.9E-09 1.3E-13 72.4 2.7 50 12-62 283-345 (491)
37 KOG2879|consensus 98.7 1E-08 2.2E-13 68.5 3.5 56 7-62 230-287 (298)
38 KOG0802|consensus 98.7 4.5E-09 9.7E-14 77.3 1.8 47 14-61 289-340 (543)
39 KOG0297|consensus 98.7 1.9E-08 4E-13 71.4 3.7 59 4-63 9-68 (391)
40 KOG1813|consensus 98.7 1.3E-08 2.9E-13 68.6 2.7 62 14-84 239-300 (313)
41 COG5222 Uncharacterized conser 98.6 6.8E-08 1.5E-12 65.6 5.0 45 15-59 273-318 (427)
42 PF11789 zf-Nse: Zinc-finger o 98.6 4.2E-08 9.1E-13 51.5 2.4 44 13-56 8-53 (57)
43 KOG4172|consensus 98.3 1.2E-07 2.7E-12 48.5 0.3 46 17-62 8-54 (62)
44 KOG1785|consensus 98.3 4.1E-07 8.8E-12 64.0 1.6 46 18-63 371-417 (563)
45 KOG0804|consensus 98.2 6.8E-07 1.5E-11 63.5 2.4 48 12-62 171-222 (493)
46 KOG4265|consensus 98.2 1.2E-06 2.7E-11 60.6 3.6 49 14-63 288-337 (349)
47 KOG1039|consensus 98.2 1.3E-06 2.9E-11 60.9 2.5 50 13-62 158-221 (344)
48 PF11793 FANCL_C: FANCL C-term 98.1 7.6E-07 1.6E-11 48.7 0.4 48 16-63 2-67 (70)
49 KOG4185|consensus 98.1 3.7E-06 8E-11 57.6 3.6 47 16-62 3-55 (296)
50 smart00744 RINGv The RING-vari 98.0 7.9E-06 1.7E-10 41.5 2.9 41 18-58 1-49 (49)
51 KOG4367|consensus 98.0 4E-06 8.7E-11 59.8 2.0 35 14-48 2-36 (699)
52 PF14570 zf-RING_4: RING/Ubox 98.0 8.6E-06 1.9E-10 41.0 2.5 43 19-61 1-47 (48)
53 KOG1002|consensus 97.9 3.6E-06 7.9E-11 61.3 1.5 52 12-63 532-587 (791)
54 KOG1734|consensus 97.9 3.4E-06 7.3E-11 56.6 1.0 51 13-63 221-282 (328)
55 KOG0828|consensus 97.9 4.9E-06 1.1E-10 60.0 1.6 49 14-62 569-634 (636)
56 COG5194 APC11 Component of SCF 97.9 1.5E-05 3.3E-10 44.0 2.7 30 33-63 53-82 (88)
57 KOG4275|consensus 97.8 2.6E-06 5.7E-11 57.7 -1.0 42 16-62 300-342 (350)
58 COG5219 Uncharacterized conser 97.8 8E-06 1.7E-10 63.0 1.1 49 14-62 1467-1523(1525)
59 KOG3039|consensus 97.8 1.6E-05 3.6E-10 52.8 2.2 50 13-63 218-271 (303)
60 PF14447 Prok-RING_4: Prokaryo 97.8 1.1E-05 2.4E-10 41.6 1.0 46 14-62 5-50 (55)
61 KOG1645|consensus 97.8 4.8E-05 1.1E-09 53.8 4.5 48 15-62 3-56 (463)
62 KOG1493|consensus 97.7 5.9E-06 1.3E-10 45.2 -0.1 45 18-62 22-81 (84)
63 KOG0825|consensus 97.6 1.4E-05 3.1E-10 60.5 0.4 49 14-63 121-172 (1134)
64 KOG4692|consensus 97.6 4.9E-05 1.1E-09 53.1 2.8 51 11-62 417-467 (489)
65 COG5175 MOT2 Transcriptional r 97.5 0.0002 4.4E-09 49.8 5.0 51 11-62 10-64 (480)
66 KOG1814|consensus 97.5 0.0003 6.6E-09 49.9 5.3 47 13-59 181-237 (445)
67 KOG0827|consensus 97.5 6.5E-05 1.4E-09 52.9 2.0 43 17-59 5-53 (465)
68 KOG2930|consensus 97.4 9.1E-05 2E-09 42.9 1.8 29 33-62 80-108 (114)
69 PF04641 Rtf2: Rtf2 RING-finge 97.4 0.00062 1.3E-08 46.1 6.0 51 11-63 108-162 (260)
70 KOG1941|consensus 97.4 6.3E-05 1.4E-09 53.1 1.1 48 15-62 364-416 (518)
71 KOG3800|consensus 97.4 0.00025 5.5E-09 48.2 3.8 45 18-62 2-51 (300)
72 KOG4739|consensus 97.3 6E-05 1.3E-09 49.9 0.4 44 17-63 4-49 (233)
73 KOG3970|consensus 97.3 0.00054 1.2E-08 45.2 4.4 48 16-63 50-106 (299)
74 KOG2817|consensus 97.2 0.00023 5E-09 50.2 2.5 48 15-62 333-385 (394)
75 KOG1001|consensus 97.2 0.00014 3E-09 55.1 1.5 46 17-63 455-501 (674)
76 KOG1571|consensus 97.2 0.00029 6.2E-09 49.2 2.7 45 15-63 304-348 (355)
77 KOG3002|consensus 97.0 0.00098 2.1E-08 46.0 4.0 48 11-62 43-91 (299)
78 KOG0826|consensus 97.0 0.00066 1.4E-08 47.0 2.7 50 12-62 296-346 (357)
79 COG5236 Uncharacterized conser 96.9 0.0011 2.3E-08 46.5 3.2 51 12-62 57-108 (493)
80 PF02891 zf-MIZ: MIZ/SP-RING z 96.9 0.0015 3.4E-08 33.2 3.0 42 17-59 3-49 (50)
81 KOG1940|consensus 96.7 0.0018 4E-08 44.1 3.2 43 16-59 158-204 (276)
82 KOG3161|consensus 96.7 0.00094 2E-08 50.1 1.7 40 13-55 8-51 (861)
83 KOG4362|consensus 96.7 0.00079 1.7E-08 50.8 1.2 50 13-62 18-69 (684)
84 PF05290 Baculo_IE-1: Baculovi 96.6 0.0024 5.3E-08 38.8 2.8 50 14-63 78-133 (140)
85 PF10367 Vps39_2: Vacuolar sor 96.6 0.00087 1.9E-08 39.0 0.7 31 14-44 76-108 (109)
86 COG5220 TFB3 Cdk activating ki 96.4 0.0012 2.6E-08 44.0 0.8 47 15-61 9-63 (314)
87 PF08746 zf-RING-like: RING-li 96.1 0.01 2.2E-07 29.2 2.9 39 19-57 1-43 (43)
88 KOG2114|consensus 95.9 0.0044 9.6E-08 47.8 1.7 42 17-62 841-883 (933)
89 PHA03096 p28-like protein; Pro 95.7 0.0066 1.4E-07 41.7 1.9 44 17-60 179-232 (284)
90 PHA02825 LAP/PHD finger-like p 95.6 0.023 4.9E-07 35.7 3.8 51 12-63 4-60 (162)
91 KOG1952|consensus 95.5 0.0077 1.7E-07 46.5 1.8 49 12-60 187-245 (950)
92 PF03854 zf-P11: P-11 zinc fin 95.3 0.0084 1.8E-07 30.0 0.9 32 30-62 14-46 (50)
93 KOG1812|consensus 95.3 0.028 6E-07 40.3 3.8 48 15-62 145-203 (384)
94 KOG0298|consensus 95.2 0.0058 1.3E-07 49.1 0.2 46 15-61 1152-1198(1394)
95 KOG1428|consensus 95.1 0.055 1.2E-06 44.9 5.1 51 12-62 3482-3544(3738)
96 KOG2932|consensus 95.0 0.011 2.4E-07 41.0 1.0 29 31-62 106-134 (389)
97 PF07191 zinc-ribbons_6: zinc- 94.7 0.0026 5.6E-08 34.5 -2.1 41 16-62 1-41 (70)
98 PF12906 RINGv: RING-variant d 94.6 0.027 5.7E-07 28.2 1.6 39 19-57 1-47 (47)
99 COG5109 Uncharacterized conser 94.6 0.027 5.9E-07 39.1 2.1 49 14-62 334-387 (396)
100 KOG3579|consensus 94.5 0.024 5.2E-07 38.8 1.8 36 14-49 266-305 (352)
101 PF14569 zf-UDP: Zinc-binding 94.4 0.062 1.3E-06 29.7 2.9 48 15-62 8-62 (80)
102 KOG1100|consensus 94.4 0.022 4.7E-07 37.5 1.3 39 19-62 161-200 (207)
103 KOG3039|consensus 94.0 0.038 8.2E-07 37.2 1.9 31 18-48 45-75 (303)
104 PF10272 Tmpp129: Putative tra 94.0 0.041 8.9E-07 39.0 2.1 27 36-62 313-351 (358)
105 KOG1815|consensus 93.9 0.046 1E-06 39.8 2.2 36 13-48 67-103 (444)
106 PF05883 Baculo_RING: Baculovi 93.8 0.026 5.6E-07 34.5 0.7 33 16-48 26-67 (134)
107 PHA02862 5L protein; Provision 93.7 0.074 1.6E-06 33.0 2.6 45 18-63 4-54 (156)
108 COG3813 Uncharacterized protei 93.5 0.087 1.9E-06 28.7 2.4 26 34-62 27-52 (84)
109 KOG3268|consensus 93.0 0.11 2.4E-06 33.4 2.6 48 16-63 165-229 (234)
110 PF10571 UPF0547: Uncharacteri 92.6 0.064 1.4E-06 23.4 0.9 21 18-38 2-24 (26)
111 KOG3899|consensus 92.4 0.086 1.9E-06 36.4 1.7 30 34-63 325-366 (381)
112 KOG2034|consensus 91.7 0.092 2E-06 41.1 1.3 35 14-48 815-851 (911)
113 KOG4185|consensus 91.7 0.024 5.1E-07 39.0 -1.7 44 17-60 208-265 (296)
114 PF07800 DUF1644: Protein of u 91.6 0.084 1.8E-06 33.2 0.9 20 15-34 1-20 (162)
115 COG0068 HypF Hydrogenase matur 91.2 0.19 4.1E-06 38.7 2.5 58 6-63 91-185 (750)
116 KOG4445|consensus 91.2 0.11 2.3E-06 36.1 1.2 50 14-63 113-187 (368)
117 KOG3113|consensus 90.1 1.8 4E-05 29.5 6.1 49 12-63 107-159 (293)
118 PF06906 DUF1272: Protein of u 89.4 0.3 6.6E-06 25.3 1.6 42 18-62 7-52 (57)
119 KOG1812|consensus 88.9 0.2 4.4E-06 36.0 1.1 36 16-51 306-346 (384)
120 PF05605 zf-Di19: Drought indu 88.2 0.29 6.4E-06 25.0 1.2 40 15-61 1-41 (54)
121 PF10497 zf-4CXXC_R1: Zinc-fin 87.9 0.86 1.9E-05 26.8 3.1 47 15-61 6-71 (105)
122 PF07975 C1_4: TFIIH C1-like d 87.9 0.73 1.6E-05 23.5 2.5 25 33-58 26-50 (51)
123 PF13240 zinc_ribbon_2: zinc-r 87.5 0.08 1.7E-06 22.4 -1.0 6 54-59 16-21 (23)
124 PF14446 Prok-RING_1: Prokaryo 87.3 0.66 1.4E-05 23.9 2.1 31 15-45 4-38 (54)
125 PLN02915 cellulose synthase A 86.9 0.93 2E-05 36.5 3.6 48 15-62 14-68 (1044)
126 PF10235 Cript: Microtubule-as 86.8 0.39 8.5E-06 27.4 1.2 37 16-62 44-80 (90)
127 PLN02189 cellulose synthase 86.7 0.53 1.2E-05 37.8 2.2 47 16-62 34-87 (1040)
128 PLN02436 cellulose synthase A 86.2 0.58 1.3E-05 37.8 2.2 47 16-62 36-89 (1094)
129 PF01363 FYVE: FYVE zinc finge 86.0 0.2 4.4E-06 26.7 -0.2 34 14-47 7-44 (69)
130 PF06844 DUF1244: Protein of u 86.0 0.48 1E-05 25.4 1.2 12 37-48 11-22 (68)
131 KOG0825|consensus 84.5 1 2.2E-05 35.4 2.8 50 15-64 95-156 (1134)
132 cd00350 rubredoxin_like Rubred 84.2 0.79 1.7E-05 20.9 1.4 10 51-60 17-26 (33)
133 KOG4718|consensus 84.1 0.62 1.4E-05 30.8 1.3 46 16-62 181-227 (235)
134 KOG2169|consensus 83.6 2 4.4E-05 33.0 4.0 68 12-86 302-373 (636)
135 cd00065 FYVE FYVE domain; Zinc 82.8 0.8 1.7E-05 23.3 1.2 31 18-48 4-38 (57)
136 PF04216 FdhE: Protein involve 81.8 0.3 6.6E-06 33.6 -0.8 47 13-60 169-220 (290)
137 KOG0309|consensus 81.4 1.1 2.4E-05 35.1 1.9 40 16-56 1028-1069(1081)
138 PLN02638 cellulose synthase A 81.3 2.4 5.1E-05 34.5 3.7 48 15-62 16-70 (1079)
139 KOG2462|consensus 80.9 0.92 2E-05 31.1 1.3 50 14-63 159-227 (279)
140 smart00064 FYVE Protein presen 80.7 1.7 3.8E-05 22.9 2.1 33 16-48 10-46 (68)
141 PLN02195 cellulose synthase A 80.3 1.6 3.4E-05 35.1 2.5 46 17-62 7-59 (977)
142 PF02318 FYVE_2: FYVE-type zin 80.0 0.17 3.6E-06 30.3 -2.2 46 15-60 53-103 (118)
143 PF14353 CpXC: CpXC protein 79.7 1.7 3.7E-05 26.1 2.1 48 16-63 1-50 (128)
144 smart00154 ZnF_AN1 AN1-like Zi 79.5 1.4 3E-05 21.0 1.3 22 19-40 1-24 (39)
145 KOG0824|consensus 79.4 0.62 1.4E-05 32.4 0.1 52 10-62 99-151 (324)
146 PLN02400 cellulose synthase 78.6 1.3 2.7E-05 36.0 1.5 48 16-63 36-90 (1085)
147 PRK04023 DNA polymerase II lar 78.4 2.1 4.6E-05 34.6 2.7 51 10-63 620-675 (1121)
148 KOG2979|consensus 76.9 2.9 6.2E-05 28.5 2.6 45 16-60 176-222 (262)
149 PF00628 PHD: PHD-finger; Int 76.6 0.51 1.1E-05 23.5 -0.8 41 18-58 1-49 (51)
150 PF01485 IBR: IBR domain; Int 76.4 0.36 7.8E-06 25.0 -1.4 32 15-46 17-58 (64)
151 PRK06266 transcription initiat 76.3 1.5 3.3E-05 28.1 1.2 31 50-86 135-165 (178)
152 KOG2068|consensus 76.0 2.4 5.1E-05 29.9 2.1 45 17-62 250-298 (327)
153 TIGR00373 conserved hypothetic 75.2 1.5 3.3E-05 27.6 1.0 13 51-63 128-140 (158)
154 PF13248 zf-ribbon_3: zinc-rib 74.8 0.49 1.1E-05 20.4 -1.0 6 54-59 19-24 (26)
155 PF15616 TerY-C: TerY-C metal 74.8 1.4 3E-05 27.0 0.6 45 12-63 73-117 (131)
156 COG4647 AcxC Acetone carboxyla 74.7 1.5 3.3E-05 26.8 0.8 21 21-41 62-82 (165)
157 smart00647 IBR In Between Ring 74.3 0.49 1.1E-05 24.5 -1.2 15 33-47 45-59 (64)
158 COG5183 SSM4 Protein involved 73.3 11 0.00024 30.2 5.2 54 10-63 6-67 (1175)
159 smart00249 PHD PHD zinc finger 72.6 1.8 3.8E-05 20.5 0.7 28 18-45 1-31 (47)
160 TIGR01562 FdhE formate dehydro 72.3 1.6 3.4E-05 30.6 0.6 46 14-60 182-233 (305)
161 PF09297 zf-NADH-PPase: NADH p 71.6 0.63 1.4E-05 21.1 -1.0 24 36-59 3-29 (32)
162 PF12773 DZR: Double zinc ribb 70.8 3.2 6.9E-05 20.5 1.4 26 37-62 13-40 (50)
163 PF09538 FYDLN_acid: Protein o 70.1 4.2 9.1E-05 24.0 2.0 15 49-63 24-38 (108)
164 PRK03564 formate dehydrogenase 69.8 2 4.4E-05 30.1 0.7 46 13-59 184-234 (309)
165 PF01428 zf-AN1: AN1-like Zinc 69.6 2.9 6.4E-05 20.2 1.1 21 22-42 6-27 (43)
166 COG3492 Uncharacterized protei 69.5 2.8 6.1E-05 24.0 1.1 12 37-48 42-53 (104)
167 KOG3053|consensus 68.7 9.5 0.0002 26.2 3.6 52 11-62 15-82 (293)
168 KOG2807|consensus 67.4 2.4 5.2E-05 29.9 0.7 28 35-62 329-356 (378)
169 KOG3799|consensus 67.2 4.6 0.0001 24.9 1.7 22 12-36 61-82 (169)
170 PRK11088 rrmA 23S rRNA methylt 66.5 3.7 8E-05 27.8 1.4 23 16-38 2-27 (272)
171 PF13717 zinc_ribbon_4: zinc-r 66.1 3.9 8.5E-05 19.1 1.1 11 17-27 3-13 (36)
172 KOG0827|consensus 65.1 0.59 1.3E-05 33.7 -2.7 45 18-63 198-246 (465)
173 TIGR00143 hypF [NiFe] hydrogen 63.6 5.1 0.00011 31.3 1.8 55 9-63 61-152 (711)
174 smart00734 ZnF_Rad18 Rad18-lik 63.4 7.8 0.00017 16.6 1.7 10 53-62 3-12 (26)
175 PF04710 Pellino: Pellino; In 62.1 2.6 5.6E-05 30.5 0.0 30 30-62 305-339 (416)
176 PF00096 zf-C2H2: Zinc finger, 62.0 1.4 3.1E-05 17.8 -0.8 11 18-28 2-12 (23)
177 KOG3476|consensus 61.8 1.5 3.2E-05 24.9 -1.0 38 15-62 53-90 (100)
178 KOG1729|consensus 61.7 2.3 4.9E-05 29.6 -0.3 51 12-62 164-225 (288)
179 PF10083 DUF2321: Uncharacteri 61.5 4.8 0.0001 25.4 1.1 24 35-62 27-50 (158)
180 PRK11595 DNA utilization prote 61.0 7.9 0.00017 25.7 2.2 37 18-60 7-43 (227)
181 PF10146 zf-C4H2: Zinc finger- 60.4 6.7 0.00015 26.4 1.7 24 38-62 196-219 (230)
182 PF13719 zinc_ribbon_5: zinc-r 60.0 5.7 0.00012 18.6 1.0 13 17-29 3-15 (37)
183 PF13834 DUF4193: Domain of un 59.4 4 8.6E-05 23.7 0.5 39 4-42 57-98 (99)
184 KOG0314|consensus 57.7 4.3 9.4E-05 29.9 0.5 48 11-60 214-264 (448)
185 PF06869 DUF1258: Protein of u 57.6 16 0.00034 25.0 3.1 53 35-96 17-71 (258)
186 COG4098 comFA Superfamily II D 57.1 5 0.00011 28.9 0.8 37 9-45 32-69 (441)
187 PF00412 LIM: LIM domain; Int 56.8 11 0.00024 18.8 1.9 31 15-45 25-56 (58)
188 PF09723 Zn-ribbon_8: Zinc rib 56.6 2.2 4.7E-05 20.6 -0.8 25 33-59 10-34 (42)
189 PF07503 zf-HYPF: HypF finger; 56.3 11 0.00025 17.5 1.7 24 39-62 2-32 (35)
190 PF04423 Rad50_zn_hook: Rad50 56.1 4.1 8.8E-05 20.6 0.1 11 53-63 22-32 (54)
191 KOG1609|consensus 55.9 11 0.00024 25.8 2.3 47 16-62 78-134 (323)
192 TIGR00622 ssl1 transcription f 54.0 9.1 0.0002 22.8 1.4 40 18-58 57-110 (112)
193 PF13894 zf-C2H2_4: C2H2-type 53.2 5.8 0.00012 15.6 0.4 9 54-62 3-11 (24)
194 PRK04179 rpl37e 50S ribosomal 53.2 3.6 7.9E-05 21.8 -0.3 25 35-59 16-40 (62)
195 KOG3362|consensus 52.2 4.6 9.9E-05 25.2 -0.1 28 16-44 118-146 (156)
196 PF14471 DUF4428: Domain of un 52.0 18 0.00039 18.3 2.1 28 18-46 1-30 (51)
197 PF07754 DUF1610: Domain of un 51.5 2.9 6.2E-05 17.8 -0.7 7 52-58 17-23 (24)
198 smart00290 ZnF_UBP Ubiquitin C 51.0 11 0.00024 18.4 1.3 23 19-41 2-24 (50)
199 COG3809 Uncharacterized protei 50.9 3.1 6.8E-05 23.2 -0.8 13 17-29 2-14 (88)
200 KOG0801|consensus 49.9 5.4 0.00012 25.4 0.0 26 13-38 174-202 (205)
201 PF12874 zf-met: Zinc-finger o 49.8 3 6.6E-05 17.2 -0.8 12 18-29 2-13 (25)
202 PF06676 DUF1178: Protein of u 49.7 21 0.00046 22.4 2.6 24 33-61 9-42 (148)
203 smart00132 LIM Zinc-binding do 49.3 15 0.00033 16.3 1.6 34 19-61 2-37 (39)
204 PLN02248 cellulose synthase-li 49.3 14 0.00029 30.6 2.1 29 33-62 149-177 (1135)
205 PF09237 GAGA: GAGA factor; I 49.2 5.6 0.00012 20.3 -0.0 13 51-63 24-36 (54)
206 KOG2231|consensus 49.2 15 0.00032 28.7 2.2 46 18-63 2-53 (669)
207 PF06937 EURL: EURL protein; 48.6 59 0.0013 22.6 4.7 38 15-55 29-74 (285)
208 PF13913 zf-C2HC_2: zinc-finge 48.0 9.5 0.00021 16.1 0.6 10 53-62 4-13 (25)
209 PF03119 DNA_ligase_ZBD: NAD-d 47.9 8 0.00017 16.9 0.4 10 53-62 1-10 (28)
210 COG5082 AIR1 Arginine methyltr 47.7 14 0.00031 24.1 1.6 31 10-42 54-84 (190)
211 PF13901 DUF4206: Domain of un 47.5 13 0.00028 24.3 1.5 39 15-59 151-197 (202)
212 COG1675 TFA1 Transcription ini 46.4 29 0.00063 22.4 2.9 30 51-86 132-161 (176)
213 KOG3993|consensus 46.3 3 6.4E-05 30.6 -1.7 43 10-62 261-306 (500)
214 KOG3475|consensus 45.9 9.5 0.00021 21.5 0.6 29 34-62 14-42 (92)
215 KOG1829|consensus 45.0 7.9 0.00017 29.6 0.2 42 14-59 509-558 (580)
216 PF08882 Acetone_carb_G: Aceto 44.8 12 0.00025 22.3 0.9 11 30-40 25-35 (112)
217 KOG1842|consensus 44.8 8.7 0.00019 28.4 0.4 26 7-32 6-31 (505)
218 COG5242 TFB4 RNA polymerase II 44.1 9.7 0.00021 25.7 0.5 14 16-29 260-273 (296)
219 TIGR02300 FYDLN_acid conserved 44.0 14 0.00031 22.5 1.1 14 49-62 24-37 (129)
220 COG1198 PriA Primosomal protei 43.8 8.5 0.00018 30.3 0.2 66 16-90 435-507 (730)
221 PF09889 DUF2116: Uncharacteri 43.6 50 0.0011 17.3 3.7 11 52-62 4-14 (59)
222 KOG2113|consensus 43.3 29 0.00064 24.7 2.7 44 15-61 342-386 (394)
223 PF10186 Atg14: UV radiation r 43.3 20 0.00042 24.4 1.9 22 18-47 1-22 (302)
224 KOG4443|consensus 42.9 14 0.0003 28.7 1.2 56 6-61 8-72 (694)
225 KOG0289|consensus 42.6 1.1E+02 0.0024 22.9 5.6 46 17-63 1-47 (506)
226 KOG2042|consensus 42.5 52 0.0011 26.9 4.2 70 13-90 867-937 (943)
227 PF12292 DUF3624: Protein of u 42.2 7.6 0.00017 21.5 -0.2 24 39-62 3-26 (77)
228 PTZ00303 phosphatidylinositol 42.0 13 0.00029 29.8 1.0 31 17-47 461-500 (1374)
229 KOG4451|consensus 42.0 19 0.00041 24.3 1.6 26 37-63 250-275 (286)
230 PRK14714 DNA polymerase II lar 41.7 15 0.00032 30.8 1.2 51 13-63 664-721 (1337)
231 COG2816 NPY1 NTP pyrophosphohy 41.4 6.1 0.00013 27.4 -0.8 29 34-62 109-140 (279)
232 KOG4021|consensus 41.1 21 0.00045 23.6 1.6 23 40-62 97-119 (239)
233 KOG4642|consensus 40.9 40 0.00086 23.3 3.0 68 15-89 210-277 (284)
234 COG4640 Predicted membrane pro 39.4 19 0.0004 26.4 1.3 9 54-62 18-26 (465)
235 PF14205 Cys_rich_KTR: Cystein 39.1 13 0.00028 19.2 0.4 9 17-25 5-13 (55)
236 PF13832 zf-HC5HC2H_2: PHD-zin 38.9 47 0.001 19.1 2.8 34 12-45 51-87 (110)
237 PF06827 zf-FPG_IleRS: Zinc fi 37.8 7.1 0.00015 17.1 -0.6 9 19-27 4-12 (30)
238 COG4068 Uncharacterized protei 37.5 65 0.0014 16.9 4.0 11 52-62 9-19 (64)
239 cd00729 rubredoxin_SM Rubredox 37.4 19 0.00042 16.4 0.8 9 52-60 19-27 (34)
240 COG2126 RPL37A Ribosomal prote 36.8 13 0.00029 19.4 0.2 28 34-61 14-41 (61)
241 PF00643 zf-B_box: B-box zinc 36.6 33 0.00071 15.9 1.6 29 17-45 4-32 (42)
242 PRK00418 DNA gyrase inhibitor; 36.1 18 0.00038 19.2 0.6 11 52-62 7-17 (62)
243 PF04606 Ogr_Delta: Ogr/Delta- 36.0 16 0.00035 17.9 0.5 6 33-38 32-37 (47)
244 KOG3005|consensus 36.0 40 0.00086 23.4 2.4 46 17-62 183-243 (276)
245 PF13912 zf-C2H2_6: C2H2-type 35.9 14 0.00031 15.3 0.2 10 18-27 3-12 (27)
246 KOG1356|consensus 35.8 15 0.00033 29.3 0.5 33 15-47 228-262 (889)
247 COG4357 Zinc finger domain con 35.7 29 0.00063 20.1 1.5 12 52-63 81-92 (105)
248 KOG3726|consensus 35.6 22 0.00048 27.8 1.3 40 18-62 656-700 (717)
249 PF12907 zf-met2: Zinc-binding 34.3 9.4 0.0002 18.4 -0.5 11 52-62 2-12 (40)
250 PF13465 zf-H2C2_2: Zinc-finge 34.0 22 0.00047 15.0 0.7 11 16-26 14-24 (26)
251 PF03884 DUF329: Domain of unk 33.9 14 0.00031 19.2 0.1 11 53-63 4-14 (57)
252 PTZ00073 60S ribosomal protein 33.5 11 0.00024 21.5 -0.4 26 35-60 15-40 (91)
253 PF12171 zf-C2H2_jaz: Zinc-fin 33.2 30 0.00064 14.5 1.1 12 17-28 2-13 (27)
254 COG3364 Zn-ribbon containing p 33.2 25 0.00055 20.6 1.0 26 31-61 5-30 (112)
255 COG4306 Uncharacterized protei 33.1 25 0.00055 21.5 1.1 21 37-61 29-49 (160)
256 KOG2789|consensus 32.4 19 0.00041 26.4 0.5 31 16-46 74-106 (482)
257 KOG1818|consensus 31.9 21 0.00045 27.7 0.7 46 13-58 162-218 (634)
258 TIGR03826 YvyF flagellar opero 31.5 29 0.00062 21.5 1.1 23 17-44 4-26 (137)
259 cd00730 rubredoxin Rubredoxin; 31.3 27 0.00058 17.6 0.8 12 13-24 31-42 (50)
260 TIGR00100 hypA hydrogenase nic 31.3 8.8 0.00019 22.8 -1.1 11 51-61 86-96 (115)
261 PRK01343 zinc-binding protein; 31.2 55 0.0012 17.0 2.0 13 15-27 8-20 (57)
262 PRK12380 hydrogenase nickel in 31.1 9.1 0.0002 22.7 -1.1 10 51-60 86-95 (113)
263 PF14311 DUF4379: Domain of un 31.1 32 0.00068 17.3 1.1 6 52-57 50-55 (55)
264 PF12760 Zn_Tnp_IS1595: Transp 30.5 53 0.0011 15.9 1.8 11 50-60 17-27 (46)
265 COG4694 Uncharacterized protei 30.4 99 0.0021 24.1 3.9 20 43-62 264-289 (758)
266 COG3024 Uncharacterized protei 30.4 33 0.00071 18.3 1.1 12 52-63 8-19 (65)
267 KOG1701|consensus 30.2 32 0.0007 25.4 1.3 46 15-63 359-406 (468)
268 PF03833 PolC_DP2: DNA polymer 30.1 17 0.00037 29.1 0.0 51 10-63 649-704 (900)
269 KOG2272|consensus 29.9 48 0.001 22.9 2.0 30 5-34 172-201 (332)
270 TIGR01206 lysW lysine biosynth 29.8 24 0.00051 18.1 0.5 12 52-63 3-14 (54)
271 COG5216 Uncharacterized conser 29.6 16 0.00035 19.2 -0.2 29 33-62 26-55 (67)
272 PF09986 DUF2225: Uncharacteri 29.5 32 0.0007 22.7 1.2 17 14-30 3-19 (214)
273 PRK09678 DNA-binding transcrip 29.5 23 0.00051 19.3 0.5 8 32-39 33-40 (72)
274 PRK00564 hypA hydrogenase nick 29.0 17 0.00037 21.6 -0.1 8 53-60 90-97 (117)
275 COG1592 Rubrerythrin [Energy p 28.8 14 0.0003 23.6 -0.6 10 51-60 149-158 (166)
276 PF01907 Ribosomal_L37e: Ribos 28.6 5.1 0.00011 20.7 -2.1 28 35-62 14-41 (55)
277 KOG2923|consensus 28.3 31 0.00068 18.4 0.8 28 33-62 26-55 (67)
278 PF00301 Rubredoxin: Rubredoxi 28.3 28 0.00061 17.3 0.6 12 13-24 31-42 (47)
279 PRK14892 putative transcriptio 27.4 52 0.0011 19.1 1.7 36 13-62 18-53 (99)
280 KOG0269|consensus 27.0 70 0.0015 25.6 2.7 39 17-56 780-820 (839)
281 PF13811 DUF4186: Domain of un 27.0 38 0.00083 20.1 1.1 12 37-48 75-86 (111)
282 cd00029 C1 Protein kinase C co 26.8 35 0.00076 16.2 0.8 10 18-27 13-22 (50)
283 PF07282 OrfB_Zn_ribbon: Putat 26.2 45 0.00097 17.4 1.2 12 51-62 46-57 (69)
284 PF14952 zf-tcix: Putative tre 26.2 30 0.00064 17.0 0.4 16 45-60 5-20 (44)
285 PF01155 HypA: Hydrogenase exp 25.8 7.1 0.00015 23.1 -2.2 9 52-60 87-95 (113)
286 PF15135 UPF0515: Uncharacteri 25.4 17 0.00037 24.8 -0.6 15 13-27 109-123 (278)
287 PF04981 NMD3: NMD3 family ; 25.3 1.5E+02 0.0032 19.8 3.8 40 19-63 1-47 (236)
288 PF13453 zf-TFIIB: Transcripti 25.2 33 0.00071 16.2 0.5 9 54-62 2-10 (41)
289 TIGR02652 conserved hypothetic 24.8 28 0.0006 21.7 0.2 13 51-63 9-21 (163)
290 smart00659 RPOLCX RNA polymera 24.7 36 0.00079 16.6 0.6 14 50-63 18-31 (44)
291 PF09654 DUF2396: Protein of u 24.3 29 0.00062 21.6 0.2 12 52-63 7-18 (161)
292 PF02148 zf-UBP: Zn-finger in 24.3 48 0.001 17.1 1.1 22 19-41 1-24 (63)
293 PF14319 Zn_Tnp_IS91: Transpos 24.2 32 0.00069 20.3 0.4 25 17-43 43-67 (111)
294 PF06467 zf-FCS: MYM-type Zinc 24.1 91 0.002 14.4 2.0 30 15-44 5-41 (43)
295 PF11781 RRN7: RNA polymerase 23.8 48 0.001 15.4 0.9 11 17-27 9-19 (36)
296 PF12132 DUF3587: Protein of u 23.6 71 0.0015 21.1 2.0 24 25-48 150-177 (199)
297 KOG1702|consensus 23.4 11 0.00025 25.0 -1.7 22 41-62 21-42 (264)
298 PRK00398 rpoP DNA-directed RNA 23.2 34 0.00074 16.5 0.4 13 51-63 21-33 (46)
299 KOG3183|consensus 22.9 1E+02 0.0022 21.1 2.6 46 18-63 10-67 (250)
300 COG2093 DNA-directed RNA polym 22.7 30 0.00066 18.4 0.1 21 39-60 7-27 (64)
301 COG1996 RPC10 DNA-directed RNA 22.7 45 0.00097 16.8 0.7 14 50-63 23-36 (49)
302 PRK06393 rpoE DNA-directed RNA 22.6 42 0.00092 17.9 0.7 10 52-61 18-27 (64)
303 PF12660 zf-TFIIIC: Putative z 22.4 29 0.00063 20.0 0.0 46 17-63 15-67 (99)
304 KOG3214|consensus 22.4 26 0.00056 20.5 -0.2 24 10-33 17-40 (109)
305 PRK00420 hypothetical protein; 22.2 17 0.00036 21.7 -1.0 14 49-62 38-51 (112)
306 KOG3608|consensus 22.1 47 0.001 24.1 1.0 49 14-62 205-274 (467)
307 PF10013 DUF2256: Uncharacteri 22.1 48 0.001 16.1 0.7 12 52-63 9-20 (42)
308 PF05265 DUF723: Protein of un 21.8 53 0.0011 17.3 0.9 29 28-58 29-60 (60)
309 PF14577 SEO_C: Sieve element 21.8 69 0.0015 21.7 1.7 26 11-36 209-234 (235)
310 PF08273 Prim_Zn_Ribbon: Zinc- 21.5 38 0.00083 16.2 0.3 25 18-42 5-32 (40)
311 PF07649 C1_3: C1-like domain; 21.5 87 0.0019 13.5 1.5 11 18-28 2-12 (30)
312 PF10122 Mu-like_Com: Mu-like 21.4 48 0.001 16.9 0.7 11 52-62 25-35 (51)
313 TIGR00627 tfb4 transcription f 21.4 64 0.0014 22.4 1.5 8 53-60 271-278 (279)
314 TIGR02098 MJ0042_CXXC MJ0042 f 21.1 40 0.00087 15.4 0.3 12 52-63 3-14 (38)
315 PF06221 zf-C2HC5: Putative zi 21.0 63 0.0014 16.8 1.1 27 29-62 19-46 (57)
316 KOG2906|consensus 20.9 22 0.00047 20.8 -0.7 26 17-42 2-27 (105)
317 smart00451 ZnF_U1 U1-like zinc 20.9 45 0.00099 14.6 0.5 10 53-62 5-14 (35)
318 PF05502 Dynactin_p62: Dynacti 20.9 50 0.0011 24.8 1.0 13 14-26 24-36 (483)
319 smart00714 LITAF Possible memb 20.6 41 0.00089 17.6 0.4 12 51-62 52-63 (67)
320 PF04690 YABBY: YABBY protein; 20.3 38 0.00083 21.8 0.2 9 28-36 33-41 (170)
321 PF08209 Sgf11: Sgf11 (transcr 20.1 1E+02 0.0023 14.0 1.6 12 52-63 5-16 (33)
322 smart00355 ZnF_C2H2 zinc finge 20.1 53 0.0011 12.6 0.6 9 54-62 3-11 (26)
No 1
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.71 E-value=6.2e-18 Score=83.88 Aligned_cols=39 Identities=38% Similarity=1.147 Sum_probs=31.0
Q ss_pred cccccccccCceecCCCCcchHHhHHHHhhcCC---Cccccc
Q psy18179 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSN---LSCPMC 57 (108)
Q Consensus 19 C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~---~~CP~C 57 (108)
||||+++|.+|++|+|||+||..||.++++... ..||.|
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 899999999999999999999999999998432 469987
No 2
>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=99.63 E-value=2.6e-16 Score=84.54 Aligned_cols=62 Identities=18% Similarity=0.284 Sum_probs=51.1
Q ss_pred ccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHH
Q psy18179 16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQK 85 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~ 85 (108)
++.||||.+.+.+|+.++|||+||+.||..|+... ..||.|+..+. ..++..+..+++.++.
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~-~~cP~~~~~~~-------~~~l~~~~~l~~~i~~ 62 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSH-GTDPVTGQPLT-------HEDLIPNLALKSAIQE 62 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHC-CCCCCCcCCCC-------hhhceeCHHHHHHHHh
Confidence 47899999999999999999999999999999874 57999999886 2345556666666653
No 3
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.62 E-value=6.2e-16 Score=98.59 Aligned_cols=52 Identities=21% Similarity=0.577 Sum_probs=44.5
Q ss_pred CCCCccccccccccccCceecCCCCcchHHhHHHHhhc---------------CCCcccccccccch
Q psy18179 12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN---------------SNLSCPMCRKRLSI 63 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~---------------~~~~CP~Cr~~~~~ 63 (108)
...+++.|+||++.+.+|+.++|||.||+.||..|+.. +...||.||..+..
T Consensus 14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 34467999999999999999999999999999999752 23579999998864
No 4
>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=99.59 E-value=1.6e-15 Score=83.84 Aligned_cols=69 Identities=23% Similarity=0.435 Sum_probs=55.0
Q ss_pred CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhH
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK 89 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 89 (108)
.+.|.|||+.++|.+||.+++||+|++.+|..|+..++..||.++..+.. .++..|..|+..++.|...
T Consensus 2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~-------~~l~pn~~Lk~~I~~~~~~ 70 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSE-------SDLIPNRALKSAIEEWCAE 70 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SG-------GGSEE-HHHHHHHHHHHHH
T ss_pred CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCc-------ccceECHHHHHHHHHHHHH
Confidence 46899999999999999999999999999999999866789999998873 4577788899999887654
No 5
>KOG0823|consensus
Probab=99.57 E-value=2.2e-15 Score=97.73 Aligned_cols=51 Identities=25% Similarity=0.663 Sum_probs=45.0
Q ss_pred CCCccccccccccccCceecCCCCcchHHhHHHHhhc--CCCcccccccccch
Q psy18179 13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN--SNLSCPMCRKRLSI 63 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~~ 63 (108)
....|.|.||++.-++||.+.|||.||+.||.+|+.. ....||+|+..+..
T Consensus 44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 4668999999999999999999999999999999983 33568999988764
No 6
>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=99.56 E-value=2.5e-15 Score=73.50 Aligned_cols=38 Identities=37% Similarity=1.065 Sum_probs=32.7
Q ss_pred cccccccccCc-eecCCCCcchHHhHHHHhhcCCCccccc
Q psy18179 19 CLVCQGILIKP-IKLPCNHHVCLECLQRICDNSNLSCPMC 57 (108)
Q Consensus 19 C~IC~~~~~~p-~~l~CgH~fC~~Ci~~~~~~~~~~CP~C 57 (108)
|+||++.+.+| +.++|||+||..|+.+|+.. ...||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 89999999999 56799999999999999988 5689987
No 7
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.53 E-value=1.6e-14 Score=101.35 Aligned_cols=69 Identities=22% Similarity=0.490 Sum_probs=54.4
Q ss_pred CCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179 10 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 86 (108)
Q Consensus 10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 86 (108)
.......+.|+||.+.|..|+.++|||+||..||..|+.... .||.|+..+.. ..+..|..|.++++.+
T Consensus 20 l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~-~CP~Cr~~~~~-------~~Lr~N~~L~~iVe~~ 88 (397)
T TIGR00599 20 LYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP-KCPLCRAEDQE-------SKLRSNWLVSEIVESF 88 (397)
T ss_pred ccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCC-CCCCCCCcccc-------ccCccchHHHHHHHHH
Confidence 345667899999999999999999999999999999998653 69999998763 2344455555655544
No 8
>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=99.48 E-value=2.9e-14 Score=70.36 Aligned_cols=39 Identities=33% Similarity=1.069 Sum_probs=35.7
Q ss_pred cccccccccCce-ecCCCCcchHHhHHHHhh-cCCCccccc
Q psy18179 19 CLVCQGILIKPI-KLPCNHHVCLECLQRICD-NSNLSCPMC 57 (108)
Q Consensus 19 C~IC~~~~~~p~-~l~CgH~fC~~Ci~~~~~-~~~~~CP~C 57 (108)
|+||++.+.+|+ .++|||+||..|+.+|+. .+...||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999999999 789999999999999998 566789987
No 9
>KOG0317|consensus
Probab=99.48 E-value=2.6e-14 Score=95.33 Aligned_cols=57 Identities=26% Similarity=0.723 Sum_probs=48.9
Q ss_pred cCCCCCCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 6 CNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 6 ~~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
-++.....+....|.+|++...+|..+||||.||+.||..|..... .||.||..+..
T Consensus 229 s~~~~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~-eCPlCR~~~~p 285 (293)
T KOG0317|consen 229 SNSLSSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA-ECPLCREKFQP 285 (293)
T ss_pred ccCCccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc-CCCcccccCCC
Confidence 3444556777899999999999999999999999999999998664 59999998874
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=99.48 E-value=3.2e-14 Score=73.14 Aligned_cols=46 Identities=30% Similarity=0.773 Sum_probs=39.8
Q ss_pred ccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccc
Q psy18179 16 SVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
+..|.||++...+++.+||||. ||..|+.+|+... ..||.||+.+.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~-~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRK-KKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTT-SBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccC-CCCCcCChhhc
Confidence 5689999999999999999999 9999999999844 57999999875
No 11
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.44 E-value=2.8e-14 Score=75.47 Aligned_cols=60 Identities=27% Similarity=0.622 Sum_probs=32.7
Q ss_pred CCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHH
Q psy18179 14 PDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQI 83 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~ 83 (108)
+..+.|++|.+++.+||.+ .|.|.||..||...+.. .||+|..+.. ..++.+|..|.+++
T Consensus 5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw-------~qD~~~NrqLd~~i 65 (65)
T PF14835_consen 5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAW-------IQDIQINRQLDSMI 65 (65)
T ss_dssp HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT---B-SSS--B-S--------SS----HHHHHHH
T ss_pred HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC---CCCCcCChHH-------HHHHHhhhhhhccC
Confidence 3468899999999999986 89999999999876642 4999998876 45788888777654
No 12
>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=99.44 E-value=4.2e-14 Score=70.84 Aligned_cols=40 Identities=35% Similarity=0.815 Sum_probs=33.9
Q ss_pred cccccccccc---CceecCCCCcchHHhHHHHhhcCCCcccccc
Q psy18179 18 LCLVCQGILI---KPIKLPCNHHVCLECLQRICDNSNLSCPMCR 58 (108)
Q Consensus 18 ~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr 58 (108)
.|+||++.+. .++.++|||.||..||.+|+... .+||.||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-NSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-SB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-CcCCccC
Confidence 5999999885 45667999999999999999875 4799997
No 13
>KOG0287|consensus
Probab=99.43 E-value=6.5e-14 Score=95.43 Aligned_cols=66 Identities=21% Similarity=0.486 Sum_probs=52.2
Q ss_pred CCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179 13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 86 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 86 (108)
..+.+.|.||.++|..|+.+||+|+||..||..++.... .||.|+..+.- ..++-+..+.++++.+
T Consensus 20 lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p-~CP~C~~~~~E-------s~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 20 LDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKP-QCPTCCVTVTE-------SDLRNNRILDEIVKSL 85 (442)
T ss_pred hHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCC-CCCceecccch-------hhhhhhhHHHHHHHHH
Confidence 346789999999999999999999999999999998664 59999998872 3344455555555443
No 14
>KOG0320|consensus
Probab=99.42 E-value=1.4e-13 Score=86.16 Aligned_cols=48 Identities=29% Similarity=0.856 Sum_probs=41.4
Q ss_pred CCccccccccccccC--ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 14 PDSVLCLVCQGILIK--PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~--p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
+..+.||||+..+.+ |+.+.|||.||..||...++.+. .||+|++.+.
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~-~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTN-KCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCC-CCCCcccccc
Confidence 445899999998884 66789999999999999998765 5999999776
No 15
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.40 E-value=1.3e-13 Score=68.38 Aligned_cols=36 Identities=39% Similarity=1.125 Sum_probs=22.9
Q ss_pred cccccccccC----ceecCCCCcchHHhHHHHhhcC---CCccc
Q psy18179 19 CLVCQGILIK----PIKLPCNHHVCLECLQRICDNS---NLSCP 55 (108)
Q Consensus 19 C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~~~~~---~~~CP 55 (108)
||||.+ +.+ |+.|+|||+||+.||.+++..+ .+.||
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 887 9999999999999999999843 46676
No 16
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.36 E-value=5.3e-13 Score=88.22 Aligned_cols=49 Identities=27% Similarity=0.666 Sum_probs=40.3
Q ss_pred CCccccccccccccCc--------eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 14 PDSVLCLVCQGILIKP--------IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p--------~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
.++..|+||++.+.++ +.++|||.||..||.+|+... .+||+||..+..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~-~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK-NTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC-CCCCCCCCEeeE
Confidence 4568999999987653 345899999999999999865 479999998763
No 17
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.36 E-value=6.2e-13 Score=66.22 Aligned_cols=43 Identities=28% Similarity=0.821 Sum_probs=37.3
Q ss_pred ccccccccccCceecC-CCCcchHHhHHHHhhcCCCcccccccc
Q psy18179 18 LCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKR 60 (108)
Q Consensus 18 ~C~IC~~~~~~p~~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 60 (108)
.|+||++.+.+++.++ |||.||..|+..|+..+...||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 4999999998887775 999999999999998755679999875
No 18
>KOG0311|consensus
Probab=99.30 E-value=2.3e-13 Score=93.02 Aligned_cols=68 Identities=26% Similarity=0.619 Sum_probs=54.9
Q ss_pred CCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHH
Q psy18179 12 LTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWN 81 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~ 81 (108)
....++.|+||+++++...++ .|+|.||..||...++.++..||.||+.+.+ ...++.+..++..+..
T Consensus 39 ~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S--krsLr~Dp~fdaLis~ 107 (381)
T KOG0311|consen 39 MFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS--KRSLRIDPNFDALISK 107 (381)
T ss_pred HhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc--cccCCCCccHHHHHHH
Confidence 345689999999999998888 5999999999999999888899999998876 4445555555544443
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.29 E-value=2.5e-12 Score=64.36 Aligned_cols=41 Identities=32% Similarity=0.877 Sum_probs=34.2
Q ss_pred ccccccccc---cCceecCCCCcchHHhHHHHhhcCCCccccccc
Q psy18179 18 LCLVCQGIL---IKPIKLPCNHHVCLECLQRICDNSNLSCPMCRK 59 (108)
Q Consensus 18 ~C~IC~~~~---~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 59 (108)
.|+||.+.+ ..|..++|||+||..|+..+. .....||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence 489999998 256778999999999999988 34567999974
No 20
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.29 E-value=3.2e-12 Score=61.56 Aligned_cols=39 Identities=36% Similarity=1.036 Sum_probs=34.8
Q ss_pred cccccccccCceecCCCCcchHHhHHHHhhcCCCccccc
Q psy18179 19 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMC 57 (108)
Q Consensus 19 C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~C 57 (108)
|+||++....++.++|||.||..|+..|+..+...||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999988999999999999999999998555679987
No 21
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.25 E-value=3.5e-12 Score=85.62 Aligned_cols=48 Identities=25% Similarity=0.711 Sum_probs=43.2
Q ss_pred CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
...+.|.||...+..|+.++|||+||..||.+.+....+ ||+||....
T Consensus 23 Ds~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~-CP~Cr~~~~ 70 (391)
T COG5432 23 DSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPF-CPVCREDPC 70 (391)
T ss_pred hhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCC-CccccccHH
Confidence 346789999999999999999999999999999987765 999998765
No 22
>PHA02926 zinc finger-like protein; Provisional
Probab=99.24 E-value=5.5e-12 Score=81.81 Aligned_cols=51 Identities=24% Similarity=0.640 Sum_probs=39.6
Q ss_pred CCCccccccccccccC---------ceecCCCCcchHHhHHHHhhcC-----CCcccccccccch
Q psy18179 13 TPDSVLCLVCQGILIK---------PIKLPCNHHVCLECLQRICDNS-----NLSCPMCRKRLSI 63 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~---------p~~l~CgH~fC~~Ci~~~~~~~-----~~~CP~Cr~~~~~ 63 (108)
...+..|+||++...+ ++..+|+|.||..||..|.... ...||.||..+..
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 3457899999997643 2344899999999999999742 2469999998763
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=8.9e-12 Score=82.46 Aligned_cols=50 Identities=28% Similarity=0.614 Sum_probs=44.4
Q ss_pred CCccccccccccccCceecCCCCcchHHhHHH-HhhcCCCcccccccccch
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQR-ICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~-~~~~~~~~CP~Cr~~~~~ 63 (108)
+.++.|+||++....|..++|||.||..||.. |..+....||.||+....
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p 263 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP 263 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence 56899999999999999999999999999999 777665559999998763
No 24
>KOG2177|consensus
Probab=99.20 E-value=9.6e-12 Score=83.94 Aligned_cols=48 Identities=35% Similarity=0.943 Sum_probs=43.1
Q ss_pred CCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCccccccc
Q psy18179 11 TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRK 59 (108)
Q Consensus 11 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 59 (108)
....+++.|+||++.|..|+.++|||+||..|+..++. ....||.||.
T Consensus 8 ~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 8 EVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred hhccccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence 45668999999999999998889999999999999988 5578999995
No 25
>KOG2660|consensus
Probab=99.17 E-value=1.2e-11 Score=84.11 Aligned_cols=76 Identities=21% Similarity=0.448 Sum_probs=62.7
Q ss_pred CCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhHH
Q psy18179 12 LTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKE 90 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 90 (108)
-.....+|.+|..+|.++.++ .|-|+||++||.+.+... ..||.|...+.. .+...++..+..++.++.+++|.-
T Consensus 11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~-~~CP~C~i~ih~---t~pl~ni~~DrtlqdiVyKLVPgl 86 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEES-KYCPTCDIVIHK---THPLLNIRSDRTLQDIVYKLVPGL 86 (331)
T ss_pred hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHh-ccCCccceeccC---ccccccCCcchHHHHHHHHHcchH
Confidence 345678999999999999987 699999999999999874 579999988763 333456778899999999998864
Q ss_pred H
Q psy18179 91 V 91 (108)
Q Consensus 91 ~ 91 (108)
.
T Consensus 87 ~ 87 (331)
T KOG2660|consen 87 Q 87 (331)
T ss_pred H
Confidence 4
No 26
>KOG2164|consensus
Probab=99.09 E-value=5.9e-11 Score=84.69 Aligned_cols=48 Identities=27% Similarity=0.744 Sum_probs=42.7
Q ss_pred ccccccccccccCceecCCCCcchHHhHHHHhhcC----CCcccccccccch
Q psy18179 16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS----NLSCPMCRKRLSI 63 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~ 63 (108)
+..||||++...-|+.+.|||.||..||..+|..+ ...||+|+..+..
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 88999999999999999999999999999988733 3679999998874
No 27
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.08 E-value=1.4e-10 Score=63.99 Aligned_cols=40 Identities=35% Similarity=0.916 Sum_probs=31.8
Q ss_pred ccccccccccC------------cee-cCCCCcchHHhHHHHhhcCCCcccccc
Q psy18179 18 LCLVCQGILIK------------PIK-LPCNHHVCLECLQRICDNSNLSCPMCR 58 (108)
Q Consensus 18 ~C~IC~~~~~~------------p~~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr 58 (108)
.|+||++.|.+ ++. .+|||.|+..||.+|+..+. +||+||
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 49999999942 233 38999999999999998765 799997
No 28
>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=99.04 E-value=3.5e-10 Score=77.08 Aligned_cols=48 Identities=25% Similarity=0.583 Sum_probs=37.9
Q ss_pred cccccccccc-ccCce---ec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 16 SVLCLVCQGI-LIKPI---KL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 16 ~~~C~IC~~~-~~~p~---~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
+..||+|... +.+|. .+ +|||.||..|+...+..+...||.|+..+..
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 4579999984 44553 22 7999999999999887666789999988764
No 29
>KOG4159|consensus
Probab=99.03 E-value=2.4e-10 Score=80.59 Aligned_cols=77 Identities=31% Similarity=0.651 Sum_probs=57.6
Q ss_pred CCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhHHHH
Q psy18179 13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVD 92 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 92 (108)
...+|.|.||...+.+|+++||||+||..||.+.+... ..||.||..+..... ......+++.+..++.++++....
T Consensus 81 ~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~-~~cp~Cr~~l~e~~~--~~~~~~~~r~~~~li~~F~~~~~~ 157 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQE-TECPLCRDELVELPA--LEQALSLNRLLCKLITKFLEGSSS 157 (398)
T ss_pred ccchhhhhhhHhhcCCCccccccccccHHHHHHHhccC-CCCcccccccccchH--HHHHHHHHHHHHHHHHHhhhhhhc
Confidence 36789999999999999999999999999999988754 469999998873111 011122356666777777776554
No 30
>KOG4628|consensus
Probab=98.89 E-value=6.7e-10 Score=76.84 Aligned_cols=47 Identities=23% Similarity=0.636 Sum_probs=39.9
Q ss_pred cccccccccccCc---eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 17 VLCLVCQGILIKP---IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 17 ~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
..|.||++.|..- +.|||+|.|+..||..|+.+....||+|+..+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 5899999999843 4579999999999999999775569999987654
No 31
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.87 E-value=1.9e-09 Score=69.04 Aligned_cols=62 Identities=21% Similarity=0.439 Sum_probs=49.2
Q ss_pred CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHH
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQ 84 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~ 84 (108)
...|.|.||...+..||.+.|||.||..|..+-.+.+ ..|-.|.+.+.. ...+...++.++.
T Consensus 194 ~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg-~~C~~Cgk~t~G--------~f~V~~d~~kmL~ 255 (259)
T COG5152 194 KIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKG-DECGVCGKATYG--------RFWVVSDLQKMLN 255 (259)
T ss_pred CCceeehhchhhccchhhhhcchhHHHHHHHHHhccC-Ccceecchhhcc--------ceeHHhhHHHHHh
Confidence 3468999999999999999999999999998877765 469999987763 3445555655554
No 32
>KOG0978|consensus
Probab=98.85 E-value=6.3e-10 Score=82.58 Aligned_cols=50 Identities=24% Similarity=0.608 Sum_probs=44.9
Q ss_pred CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
..-+.||+|..-+.+.+.+.|||.||..|+.+........||.|...|..
T Consensus 641 K~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 641 KELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred HhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 35689999999999999999999999999999998777789999999873
No 33
>KOG0824|consensus
Probab=98.79 E-value=2.3e-09 Score=72.39 Aligned_cols=50 Identities=26% Similarity=0.634 Sum_probs=44.0
Q ss_pred CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
.-.-.|+||+....-|+.++|+|.||.-||......+..+|++||.++..
T Consensus 5 ~~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 5 TKKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred ccCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 34557999999999999999999999999998777666779999999874
No 34
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=3.3e-09 Score=71.82 Aligned_cols=48 Identities=29% Similarity=0.726 Sum_probs=40.4
Q ss_pred CccccccccccccCc---eecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 15 DSVLCLVCQGILIKP---IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p---~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
....|.||++.|.+- +.+||.|.|...|+.+|+..-...||+||..++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 357899999988743 457999999999999999855567999999886
No 35
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.76 E-value=7.8e-09 Score=58.00 Aligned_cols=47 Identities=26% Similarity=0.656 Sum_probs=36.6
Q ss_pred cccccccccccc------------Cceec-CCCCcchHHhHHHHhhc--CCCcccccccccc
Q psy18179 16 SVLCLVCQGILI------------KPIKL-PCNHHVCLECLQRICDN--SNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~------------~p~~l-~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~ 62 (108)
+-.|+||...|. -|+.+ .|+|.|...||.+|+.. +...||+||+...
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 456888877666 14444 79999999999999984 3467999999865
No 36
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=5.9e-09 Score=72.37 Aligned_cols=50 Identities=32% Similarity=0.826 Sum_probs=41.8
Q ss_pred CCCCccccccccccc-cC------------ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 12 LTPDSVLCLVCQGIL-IK------------PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~-~~------------p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
...++-.|.||++.+ .. |..+||||.+...|+..|...+. +||.||.++.
T Consensus 283 l~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ-TCPICr~p~i 345 (491)
T COG5243 283 LTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-TCPICRRPVI 345 (491)
T ss_pred hcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc-CCCcccCccc
Confidence 366788999999874 33 47899999999999999998664 7999998854
No 37
>KOG2879|consensus
Probab=98.73 E-value=1e-08 Score=68.47 Aligned_cols=56 Identities=20% Similarity=0.541 Sum_probs=47.2
Q ss_pred CCCCCCCCCccccccccccccCceec-CCCCcchHHhHHHHhh-cCCCcccccccccc
Q psy18179 7 NSNNTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICD-NSNLSCPMCRKRLS 62 (108)
Q Consensus 7 ~~~~~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~ 62 (108)
....+...++.+|++|.+....|... +|||.||..|+.+... ..+++||.|+....
T Consensus 230 ~~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 230 KFSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred CcccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 34556677889999999999999987 6999999999998766 34588999998776
No 38
>KOG0802|consensus
Probab=98.72 E-value=4.5e-09 Score=77.29 Aligned_cols=47 Identities=34% Similarity=0.804 Sum_probs=41.5
Q ss_pred CCccccccccccccC-----ceecCCCCcchHHhHHHHhhcCCCccccccccc
Q psy18179 14 PDSVLCLVCQGILIK-----PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRL 61 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~-----p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 61 (108)
..+..|+||.+.+.. |..++|||.|+..|+..|++... +||.||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q-tCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ-TCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC-cCCcchhhh
Confidence 347889999999998 78999999999999999999754 699999844
No 39
>KOG0297|consensus
Probab=98.68 E-value=1.9e-08 Score=71.40 Aligned_cols=59 Identities=29% Similarity=0.718 Sum_probs=49.3
Q ss_pred cccCCCCCCCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 4 EDCNSNNTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 4 ~~~~~~~~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
.+.+....+...++.|++|..++.+|+.. .|||.||..|+..|... ...||.|+..+..
T Consensus 9 ~~~~~~~~~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 9 FDLKHLGRPLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQ 68 (391)
T ss_pred ccccccCCCCcccccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcccccccch
Confidence 34445555677889999999999999995 99999999999999987 4579999887764
No 40
>KOG1813|consensus
Probab=98.67 E-value=1.3e-08 Score=68.59 Aligned_cols=62 Identities=18% Similarity=0.511 Sum_probs=48.3
Q ss_pred CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHH
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQ 84 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~ 84 (108)
.-.+.|-||.+.|.+||.+.|||+||..|..+-+..+. .|++|.+.+.. ...+...|...+.
T Consensus 239 ~~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~-~c~vC~~~t~g--------~~~~akeL~~~L~ 300 (313)
T KOG1813|consen 239 LLPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGE-KCYVCSQQTHG--------SFNVAKELLVSLK 300 (313)
T ss_pred cCCccccccccccccchhhcCCceeehhhhccccccCC-cceeccccccc--------ccchHHHHHHHHH
Confidence 33567999999999999999999999999988777654 59999998764 3444455544443
No 41
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.63 E-value=6.8e-08 Score=65.58 Aligned_cols=45 Identities=36% Similarity=0.887 Sum_probs=40.5
Q ss_pred CccccccccccccCceecC-CCCcchHHhHHHHhhcCCCccccccc
Q psy18179 15 DSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRK 59 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 59 (108)
-.|.|++|..++.+|+.++ |+|+||..||...+....+.||.|..
T Consensus 273 i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 273 ISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 3499999999999999995 89999999999988877789999976
No 42
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.58 E-value=4.2e-08 Score=51.49 Aligned_cols=44 Identities=23% Similarity=0.431 Sum_probs=31.2
Q ss_pred CCCccccccccccccCceec-CCCCcchHHhHHHHhh-cCCCcccc
Q psy18179 13 TPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICD-NSNLSCPM 56 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~-~~~~~CP~ 56 (108)
....+.|||.+..|.+||.- .|||+|.+..|..++. .+...||.
T Consensus 8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 45578999999999999985 8999999999999994 44577997
No 43
>KOG4172|consensus
Probab=98.33 E-value=1.2e-07 Score=48.50 Aligned_cols=46 Identities=24% Similarity=0.663 Sum_probs=40.0
Q ss_pred cccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccc
Q psy18179 17 VLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
-.|.||++...+.|..-|||. .|..|-.+.++..+..||.||+++.
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 579999998888888899995 7999999888866678999999876
No 44
>KOG1785|consensus
Probab=98.25 E-value=4.1e-07 Score=64.00 Aligned_cols=46 Identities=30% Similarity=0.691 Sum_probs=39.3
Q ss_pred ccccccccccCceecCCCCcchHHhHHHHhhcC-CCcccccccccch
Q psy18179 18 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNS-NLSCPMCRKRLSI 63 (108)
Q Consensus 18 ~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~ 63 (108)
.|.||.+--++-..-||||..|..|+..|.... +.+||.||.++..
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEecc
Confidence 488999987776667999999999999999744 6789999998875
No 45
>KOG0804|consensus
Probab=98.23 E-value=6.8e-07 Score=63.50 Aligned_cols=48 Identities=31% Similarity=0.589 Sum_probs=39.4
Q ss_pred CCCCccccccccccccCce----ecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 12 LTPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
...+.-+||||++.+..-+ ++.|.|+|...|+..|+.. +||+||-...
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS---SCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC---cChhhhhhcC
Confidence 3556789999999998665 4589999999999999863 5999997554
No 46
>KOG4265|consensus
Probab=98.23 E-value=1.2e-06 Score=60.59 Aligned_cols=49 Identities=27% Similarity=0.750 Sum_probs=41.2
Q ss_pred CCccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccch
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
+..-.|.||+...++-+.|||.|. .|..|.....-+.+ .||+||+.+..
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n-~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTN-NCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhc-CCCccccchHh
Confidence 446889999999999999999997 79999987664444 59999998874
No 47
>KOG1039|consensus
Probab=98.16 E-value=1.3e-06 Score=60.86 Aligned_cols=50 Identities=28% Similarity=0.638 Sum_probs=39.8
Q ss_pred CCCccccccccccccCce-----e---cCCCCcchHHhHHHHhh--cC----CCcccccccccc
Q psy18179 13 TPDSVLCLVCQGILIKPI-----K---LPCNHHVCLECLQRICD--NS----NLSCPMCRKRLS 62 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~-----~---l~CgH~fC~~Ci~~~~~--~~----~~~CP~Cr~~~~ 62 (108)
...+..|.||++...+.. . .+|.|.||..||..|-. +. ...||.||....
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 356889999999887665 2 36999999999999984 21 367999998765
No 48
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.10 E-value=7.6e-07 Score=48.67 Aligned_cols=48 Identities=25% Similarity=0.506 Sum_probs=23.8
Q ss_pred cccccccccccc----Cceec----CCCCcchHHhHHHHhhc---C-------CCcccccccccch
Q psy18179 16 SVLCLVCQGILI----KPIKL----PCNHHVCLECLQRICDN---S-------NLSCPMCRKRLSI 63 (108)
Q Consensus 16 ~~~C~IC~~~~~----~p~~l----~CgH~fC~~Ci~~~~~~---~-------~~~CP~Cr~~~~~ 63 (108)
+..|+||+..+. .|... .|++.|...||.+|+.. + ...||.|+..+..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 568999998754 24333 69999999999999872 1 1359999998873
No 49
>KOG4185|consensus
Probab=98.08 E-value=3.7e-06 Score=57.61 Aligned_cols=47 Identities=30% Similarity=0.744 Sum_probs=40.0
Q ss_pred cccccccccccc------CceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 16 SVLCLVCQGILI------KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~------~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.+.|-||.+.|. .|..+.|||+||..|+...+......||.||..+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~ 55 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTE 55 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCccc
Confidence 357999998877 47788999999999999988877778999999853
No 50
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.00 E-value=7.9e-06 Score=41.54 Aligned_cols=41 Identities=34% Similarity=0.822 Sum_probs=31.6
Q ss_pred ccccccc--cccCceecCCC-----CcchHHhHHHHhhcC-CCcccccc
Q psy18179 18 LCLVCQG--ILIKPIKLPCN-----HHVCLECLQRICDNS-NLSCPMCR 58 (108)
Q Consensus 18 ~C~IC~~--~~~~p~~l~Cg-----H~fC~~Ci~~~~~~~-~~~CP~Cr 58 (108)
.|.||++ .-.+|...||. |.+...|+.+|+..+ ..+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4889987 34467777885 789999999999744 45799984
No 51
>KOG4367|consensus
Probab=97.96 E-value=4e-06 Score=59.82 Aligned_cols=35 Identities=34% Similarity=0.852 Sum_probs=32.0
Q ss_pred CCccccccccccccCceecCCCCcchHHhHHHHhh
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD 48 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~ 48 (108)
++++.|+||...|.+|+.|+|+|..|..|....+.
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence 67899999999999999999999999999876653
No 52
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.95 E-value=8.6e-06 Score=41.01 Aligned_cols=43 Identities=28% Similarity=0.658 Sum_probs=21.9
Q ss_pred cccccccccCc--eec--CCCCcchHHhHHHHhhcCCCccccccccc
Q psy18179 19 CLVCQGILIKP--IKL--PCNHHVCLECLQRICDNSNLSCPMCRKRL 61 (108)
Q Consensus 19 C~IC~~~~~~p--~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 61 (108)
||+|.+.+..- ... +||+.+|..|+.+.....+..||.||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 78888877421 223 68999999999999875556799999864
No 53
>KOG1002|consensus
Probab=97.94 E-value=3.6e-06 Score=61.25 Aligned_cols=52 Identities=31% Similarity=0.705 Sum_probs=44.1
Q ss_pred CCCCccccccccccccCceecCCCCcchHHhHHHHhh----cCCCcccccccccch
Q psy18179 12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD----NSNLSCPMCRKRLSI 63 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~~~~~ 63 (108)
....+..|.+|.+.-.+++...|-|.||+.|+..+.. ..+.+||.|...++.
T Consensus 532 enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 3456789999999999999999999999999988765 345889999887764
No 54
>KOG1734|consensus
Probab=97.92 E-value=3.4e-06 Score=56.63 Aligned_cols=51 Identities=25% Similarity=0.682 Sum_probs=40.3
Q ss_pred CCCccccccccccccCce----------ecCCCCcchHHhHHHHhh-cCCCcccccccccch
Q psy18179 13 TPDSVLCLVCQGILIKPI----------KLPCNHHVCLECLQRICD-NSNLSCPMCRKRLSI 63 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~----------~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~~ 63 (108)
..++-.|.||.+.+...+ .|.|+|.|...||..|-. ....+||-|++.+..
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 345678999998776433 579999999999999976 334679999988765
No 55
>KOG0828|consensus
Probab=97.91 E-value=4.9e-06 Score=60.02 Aligned_cols=49 Identities=29% Similarity=0.607 Sum_probs=38.4
Q ss_pred CCccccccccccccC-----------------ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 14 PDSVLCLVCQGILIK-----------------PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~-----------------p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.....|+||+....- =..+||.|.|...|+.+|...-+..||.||..++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 345679999975541 1234999999999999999966667999999876
No 56
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.86 E-value=1.5e-05 Score=44.00 Aligned_cols=30 Identities=30% Similarity=0.649 Sum_probs=26.3
Q ss_pred CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 33 PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 33 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
-|.|.|...||.+|+...+ .||++++....
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~-~CPld~q~w~~ 82 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKG-VCPLDRQTWVL 82 (88)
T ss_pred ecchHHHHHHHHHHHhhCC-CCCCCCceeEE
Confidence 5999999999999999765 59999998763
No 57
>KOG4275|consensus
Probab=97.81 E-value=2.6e-06 Score=57.71 Aligned_cols=42 Identities=31% Similarity=0.804 Sum_probs=35.7
Q ss_pred ccccccccccccCceecCCCCc-chHHhHHHHhhcCCCcccccccccc
Q psy18179 16 SVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
...|.||++...+-+.|+|||. -|..|-.+. ..||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm-----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM-----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc-----ccCchHHHHHH
Confidence 7789999999999999999994 688886553 25999999775
No 58
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.79 E-value=8e-06 Score=62.98 Aligned_cols=49 Identities=27% Similarity=0.667 Sum_probs=38.1
Q ss_pred CCcccccccccccc-----Cceec--CCCCcchHHhHHHHhhcC-CCcccccccccc
Q psy18179 14 PDSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNS-NLSCPMCRKRLS 62 (108)
Q Consensus 14 ~~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~ 62 (108)
...-.|+||+.++. -|-.. .|.|.|+..|+.+|++.+ +.+||.||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 34567999999877 23322 599999999999999943 467999998776
No 59
>KOG3039|consensus
Probab=97.76 E-value=1.6e-05 Score=52.79 Aligned_cols=50 Identities=24% Similarity=0.432 Sum_probs=41.8
Q ss_pred CCCccccccccccccCcee---c-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 13 TPDSVLCLVCQGILIKPIK---L-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~---l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
....+.||||...+.+.+. | +|||.||..|.++.+.... .||+|..++..
T Consensus 218 ~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-v~pv~d~plkd 271 (303)
T KOG3039|consen 218 ASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-VDPVTDKPLKD 271 (303)
T ss_pred hccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-cccCCCCcCcc
Confidence 3467899999999997543 3 8999999999999998775 59999988764
No 60
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.76 E-value=1.1e-05 Score=41.57 Aligned_cols=46 Identities=26% Similarity=0.618 Sum_probs=35.7
Q ss_pred CCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 14 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
..+..|-.|...-...+.++|||..|..|+..+-- ..||.|..++.
T Consensus 5 ~~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rY---ngCPfC~~~~~ 50 (55)
T PF14447_consen 5 QPEQPCVFCGFVGTKGTVLPCGHLICDNCFPGERY---NGCPFCGTPFE 50 (55)
T ss_pred ccceeEEEccccccccccccccceeeccccChhhc---cCCCCCCCccc
Confidence 34556777777777888999999999999865432 24999999876
No 61
>KOG1645|consensus
Probab=97.76 E-value=4.8e-05 Score=53.80 Aligned_cols=48 Identities=19% Similarity=0.588 Sum_probs=38.4
Q ss_pred CccccccccccccCce-----ecCCCCcchHHhHHHHhhcC-CCcccccccccc
Q psy18179 15 DSVLCLVCQGILIKPI-----KLPCNHHVCLECLQRICDNS-NLSCPMCRKRLS 62 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~-----~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~ 62 (108)
...+||||++.+..|. .+.|||.|-.+||++|+.+. ...||.|...-.
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT 56 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence 4568999999988664 45899999999999999732 256999987654
No 62
>KOG1493|consensus
Probab=97.75 E-value=5.9e-06 Score=45.24 Aligned_cols=45 Identities=27% Similarity=0.606 Sum_probs=34.5
Q ss_pred cccccccccc------------Cceec-CCCCcchHHhHHHHhhc--CCCcccccccccc
Q psy18179 18 LCLVCQGILI------------KPIKL-PCNHHVCLECLQRICDN--SNLSCPMCRKRLS 62 (108)
Q Consensus 18 ~C~IC~~~~~------------~p~~l-~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~ 62 (108)
.|.||.-.|. -|..+ -|.|.|...||.+|+.. +...||+||+...
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 6777776665 24444 59999999999999983 2357999998765
No 63
>KOG0825|consensus
Probab=97.63 E-value=1.4e-05 Score=60.50 Aligned_cols=49 Identities=18% Similarity=0.351 Sum_probs=39.7
Q ss_pred CCccccccccccccCcee---cCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 14 PDSVLCLVCQGILIKPIK---LPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~---l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
...-.||+|+..+.+-.. .+|+|.||..||..|.+... +||+||..+..
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq-TCPiDR~EF~~ 172 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ-TCPVDRGEFGE 172 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc-cCchhhhhhhe
Confidence 556789999988775443 37999999999999998654 69999998763
No 64
>KOG4692|consensus
Probab=97.61 E-value=4.9e-05 Score=53.07 Aligned_cols=51 Identities=24% Similarity=0.619 Sum_probs=43.0
Q ss_pred CCCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 11 TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 11 ~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.+..++-.||||.--..+.+..||+|.-|+.||.+.+-+.. .|-.|+..+.
T Consensus 417 lp~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k-~CFfCktTv~ 467 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCK-RCFFCKTTVI 467 (489)
T ss_pred CCCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCC-eeeEecceee
Confidence 34577888999999888999999999999999999887554 5999987665
No 65
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.54 E-value=0.0002 Score=49.81 Aligned_cols=51 Identities=25% Similarity=0.596 Sum_probs=36.7
Q ss_pred CCCCCccccccccccccCc--ee--cCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 11 TLTPDSVLCLVCQGILIKP--IK--LPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 11 ~~~~~~~~C~IC~~~~~~p--~~--l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
+..+++. ||+|.+.+..- -. .+||-..|+.|+......-+..||.||....
T Consensus 10 sedeed~-cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 10 SEDEEDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred ccccccc-CcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 3445555 99999977622 22 3789999999998766544457999998765
No 66
>KOG1814|consensus
Probab=97.48 E-value=0.0003 Score=49.92 Aligned_cols=47 Identities=28% Similarity=0.523 Sum_probs=34.3
Q ss_pred CCCccccccccccccC---ceecCCCCcchHHhHHHHhh---c----CCCccccccc
Q psy18179 13 TPDSVLCLVCQGILIK---PIKLPCNHHVCLECLQRICD---N----SNLSCPMCRK 59 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~---p~~l~CgH~fC~~Ci~~~~~---~----~~~~CP~Cr~ 59 (108)
....+.|.||++...- =+.+||+|.||+.|+..++. + +...||.+.-
T Consensus 181 ~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred HhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 3457889999987653 24569999999999998876 1 2256886543
No 67
>KOG0827|consensus
Probab=97.48 E-value=6.5e-05 Score=52.90 Aligned_cols=43 Identities=21% Similarity=0.569 Sum_probs=32.0
Q ss_pred cccccccccccCcee---c-CCCCcchHHhHHHHhhcCC--Cccccccc
Q psy18179 17 VLCLVCQGILIKPIK---L-PCNHHVCLECLQRICDNSN--LSCPMCRK 59 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~---l-~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~ 59 (108)
..|.||.+.+..-.- + .|||+|...|+..|+.... ..||.|+-
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence 479999655443222 3 4999999999999998432 57999993
No 68
>KOG2930|consensus
Probab=97.42 E-value=9.1e-05 Score=42.92 Aligned_cols=29 Identities=31% Similarity=0.693 Sum_probs=25.1
Q ss_pred CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 33 PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 33 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.|.|.|...||.+|++... .||+|.+.-.
T Consensus 80 ~CNHaFH~hCisrWlktr~-vCPLdn~eW~ 108 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRN-VCPLDNKEWV 108 (114)
T ss_pred ecchHHHHHHHHHHHhhcC-cCCCcCccee
Confidence 6999999999999999776 4999987644
No 69
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.41 E-value=0.00062 Score=46.12 Aligned_cols=51 Identities=20% Similarity=0.406 Sum_probs=39.7
Q ss_pred CCCCCccccccccccccC---ceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 11 TLTPDSVLCLVCQGILIK---PIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 11 ~~~~~~~~C~IC~~~~~~---p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
......+.|||....|.. -+.+ +|||.|+..+|...- ....||.|..++..
T Consensus 108 ~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 108 DNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTE 162 (260)
T ss_pred ccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCcccc
Confidence 345778999999998853 2334 999999999999873 23459999999874
No 70
>KOG1941|consensus
Probab=97.39 E-value=6.3e-05 Score=53.13 Aligned_cols=48 Identities=42% Similarity=0.763 Sum_probs=37.6
Q ss_pred Ccccccccccccc-Cce---ecCCCCcchHHhHHHHhhc-CCCcccccccccc
Q psy18179 15 DSVLCLVCQGILI-KPI---KLPCNHHVCLECLQRICDN-SNLSCPMCRKRLS 62 (108)
Q Consensus 15 ~~~~C~IC~~~~~-~p~---~l~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~~~ 62 (108)
-++.|..|.+.+- .|- .+||.|.|..+|+.+++.+ +..+||.||+-.+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrS 416 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRS 416 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence 3678999998766 333 4699999999999999874 4578999995443
No 71
>KOG3800|consensus
Probab=97.38 E-value=0.00025 Score=48.18 Aligned_cols=45 Identities=31% Similarity=0.730 Sum_probs=35.7
Q ss_pred ccccccc-cccCcee-c---CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 18 LCLVCQG-ILIKPIK-L---PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 18 ~C~IC~~-~~~~p~~-l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.||+|.. .+.+|-. + +|||..|.+|+.+.+..+...||.|...+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 4899975 3445532 2 899999999999999988888999987654
No 72
>KOG4739|consensus
Probab=97.33 E-value=6e-05 Score=49.92 Aligned_cols=44 Identities=34% Similarity=0.773 Sum_probs=31.3
Q ss_pred ccccccccccc-Cceec-CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 17 VLCLVCQGILI-KPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 17 ~~C~IC~~~~~-~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
+-|..|...-. +|..| .|+|.||..|...... ..||.|++.+..
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~---~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSP---DVCPLCKKSIRI 49 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCc---cccccccceeee
Confidence 45777776544 44444 8999999999865432 269999998764
No 73
>KOG3970|consensus
Probab=97.28 E-value=0.00054 Score=45.21 Aligned_cols=48 Identities=25% Similarity=0.598 Sum_probs=38.4
Q ss_pred cccccccccccc--CceecCCCCcchHHhHHHHhhc-------CCCcccccccccch
Q psy18179 16 SVLCLVCQGILI--KPIKLPCNHHVCLECLQRICDN-------SNLSCPMCRKRLSI 63 (108)
Q Consensus 16 ~~~C~IC~~~~~--~p~~l~CgH~fC~~Ci~~~~~~-------~~~~CP~Cr~~~~~ 63 (108)
.-.|.+|...+. +-+.|-|-|.|.+.|+..|..+ .+..||.|..++-.
T Consensus 50 ~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 346889988877 4566799999999999999762 34679999988763
No 74
>KOG2817|consensus
Probab=97.24 E-value=0.00023 Score=50.23 Aligned_cols=48 Identities=25% Similarity=0.580 Sum_probs=40.0
Q ss_pred Ccccccccccccc---CceecCCCCcchHHhHHHHhhcCC--Ccccccccccc
Q psy18179 15 DSVLCLVCQGILI---KPIKLPCNHHVCLECLQRICDNSN--LSCPMCRKRLS 62 (108)
Q Consensus 15 ~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~ 62 (108)
.-|.|||=.+.-. .|+.+.|||..++.-+.+..+.+. +.||.|-....
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~ 385 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL 385 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence 4689999776544 688999999999999999998776 88999977654
No 75
>KOG1001|consensus
Probab=97.24 E-value=0.00014 Score=55.08 Aligned_cols=46 Identities=33% Similarity=0.773 Sum_probs=39.2
Q ss_pred cccccccccccCceecCCCCcchHHhHHHHhhcCC-Ccccccccccch
Q psy18179 17 VLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSN-LSCPMCRKRLSI 63 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~-~~CP~Cr~~~~~ 63 (108)
..|.||.+ ...++.++|||.||..|+...+.... ..||.||..+..
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 79999999 78888999999999999999887433 459999987764
No 76
>KOG1571|consensus
Probab=97.21 E-value=0.00029 Score=49.19 Aligned_cols=45 Identities=31% Similarity=0.775 Sum_probs=35.2
Q ss_pred CccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
....|.||.+..++.+.+||||.-| |..-... ...||+||..+..
T Consensus 304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIRL 348 (355)
T ss_pred CCCceEEecCCccceeeecCCcEEE--chHHHhh--CCCCchhHHHHHH
Confidence 3567999999999999999999877 6654433 3459999998763
No 77
>KOG3002|consensus
Probab=97.05 E-value=0.00098 Score=46.02 Aligned_cols=48 Identities=31% Similarity=0.612 Sum_probs=38.7
Q ss_pred CCCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 11 TLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 11 ~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
....+.+.||||.+.+..|+.- +=||.-|..|-.+. ...||.||.++.
T Consensus 43 ~~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 43 LLDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKV----SNKCPTCRLPIG 91 (299)
T ss_pred ccchhhccCchhhccCcccceecCCCcEehhhhhhhh----cccCCccccccc
Confidence 3466789999999999999754 67999999997532 246999999887
No 78
>KOG0826|consensus
Probab=96.98 E-value=0.00066 Score=46.98 Aligned_cols=50 Identities=28% Similarity=0.471 Sum_probs=40.8
Q ss_pred CCCCccccccccccccCceecCC-CCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 12 LTPDSVLCLVCQGILIKPIKLPC-NHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l~C-gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
...+.-.||||...-.+|..+.- |-.||..|+..++.+. ..||+-..+..
T Consensus 296 l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~-~~CPVT~~p~~ 346 (357)
T KOG0826|consen 296 LPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNY-GHCPVTGYPAS 346 (357)
T ss_pred CCCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhc-CCCCccCCcch
Confidence 45567889999999999998864 9999999999999855 46997655544
No 79
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.91 E-value=0.0011 Score=46.49 Aligned_cols=51 Identities=25% Similarity=0.750 Sum_probs=39.9
Q ss_pred CCCCccccccccccccCceecCCCCcchHHhHHHHhh-cCCCcccccccccc
Q psy18179 12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD-NSNLSCPMCRKRLS 62 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~ 62 (108)
-.++...|.||.+-+.-...+||+|..|..|..+.-. -....||.||....
T Consensus 57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 4566789999999988888899999999999876533 12246999997643
No 80
>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=96.88 E-value=0.0015 Score=33.19 Aligned_cols=42 Identities=24% Similarity=0.695 Sum_probs=22.3
Q ss_pred cccccccccccCceec-CCCCcchHHhHHHHhh----cCCCccccccc
Q psy18179 17 VLCLVCQGILIKPIKL-PCNHHVCLECLQRICD----NSNLSCPMCRK 59 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~ 59 (108)
+.|||....+..|+.- .|.|.-|.+ +..++. .+...||.|.+
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 6899999999999986 799987743 233333 44578999976
No 81
>KOG1940|consensus
Probab=96.71 E-value=0.0018 Score=44.08 Aligned_cols=43 Identities=26% Similarity=0.706 Sum_probs=36.1
Q ss_pred cccccccccccc----CceecCCCCcchHHhHHHHhhcCCCccccccc
Q psy18179 16 SVLCLVCQGILI----KPIKLPCNHHVCLECLQRICDNSNLSCPMCRK 59 (108)
Q Consensus 16 ~~~C~IC~~~~~----~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 59 (108)
+..||||.+.+. .|..++|||.....|+......+ .+||.|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence 445999998766 56677999999999999888777 89999988
No 82
>KOG3161|consensus
Probab=96.68 E-value=0.00094 Score=50.06 Aligned_cols=40 Identities=33% Similarity=0.887 Sum_probs=32.4
Q ss_pred CCCcccccccccccc----CceecCCCCcchHHhHHHHhhcCCCccc
Q psy18179 13 TPDSVLCLVCQGILI----KPIKLPCNHHVCLECLQRICDNSNLSCP 55 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~----~p~~l~CgH~fC~~Ci~~~~~~~~~~CP 55 (108)
..+.+-|+||...|. .|+.+-|||+.|+.|++..... +||
T Consensus 8 w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~---scp 51 (861)
T KOG3161|consen 8 WVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA---SCP 51 (861)
T ss_pred hHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc---cCC
Confidence 345678999987776 7999999999999999877643 477
No 83
>KOG4362|consensus
Probab=96.65 E-value=0.00079 Score=50.76 Aligned_cols=50 Identities=20% Similarity=0.586 Sum_probs=41.5
Q ss_pred CCCccccccccccccCceecCCCCcchHHhHHHHhh--cCCCcccccccccc
Q psy18179 13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD--NSNLSCPMCRKRLS 62 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~--~~~~~CP~Cr~~~~ 62 (108)
....+.|+||...+..|+.+.|.|.||..|+...+. .+...||+|+..+.
T Consensus 18 ~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 18 MQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred HhhhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 345789999999999999999999999999988665 22457999997665
No 84
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.59 E-value=0.0024 Score=38.80 Aligned_cols=50 Identities=20% Similarity=0.539 Sum_probs=41.9
Q ss_pred CCccccccccccccCceec----CCCCcchHHhHHHHhhcC--CCcccccccccch
Q psy18179 14 PDSVLCLVCQGILIKPIKL----PCNHHVCLECLQRICDNS--NLSCPMCRKRLSI 63 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l----~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~ 63 (108)
....+|.||.+.-.+...| -||-..|..|-...|+.. ...||.|+..+.+
T Consensus 78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 3678999999999988887 399999999999988833 3679999998874
No 85
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.55 E-value=0.00087 Score=39.04 Aligned_cols=31 Identities=32% Similarity=0.714 Sum_probs=25.2
Q ss_pred CCccccccccccccCceec--CCCCcchHHhHH
Q psy18179 14 PDSVLCLVCQGILIKPIKL--PCNHHVCLECLQ 44 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l--~CgH~fC~~Ci~ 44 (108)
.++-.|++|.+.+.+.+.. ||||.|+..|+.
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 4456799999988876543 999999999975
No 86
>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=96.40 E-value=0.0012 Score=43.99 Aligned_cols=47 Identities=38% Similarity=0.871 Sum_probs=35.9
Q ss_pred Ccccccccccc-ccCce-e-c--C-CCCcchHHhHHHHhhcCCCccc--cccccc
Q psy18179 15 DSVLCLVCQGI-LIKPI-K-L--P-CNHHVCLECLQRICDNSNLSCP--MCRKRL 61 (108)
Q Consensus 15 ~~~~C~IC~~~-~~~p~-~-l--~-CgH~fC~~Ci~~~~~~~~~~CP--~Cr~~~ 61 (108)
.+-.||||... +-+|- . + | |-|..|.+|+.+.+..+...|| -|.+-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 35579999863 33553 2 2 5 9999999999999998888899 687644
No 87
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.07 E-value=0.01 Score=29.20 Aligned_cols=39 Identities=23% Similarity=0.709 Sum_probs=23.4
Q ss_pred cccccccccCceecC---CCCcchHHhHHHHhhcCC-Cccccc
Q psy18179 19 CLVCQGILIKPIKLP---CNHHVCLECLQRICDNSN-LSCPMC 57 (108)
Q Consensus 19 C~IC~~~~~~p~~l~---CgH~fC~~Ci~~~~~~~~-~~CP~C 57 (108)
|.+|.++...-+.-+ |+-.+...|+..++.... ..||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 678888888776654 998999999999998544 359987
No 88
>KOG2114|consensus
Probab=95.90 E-value=0.0044 Score=47.79 Aligned_cols=42 Identities=31% Similarity=0.726 Sum_probs=34.9
Q ss_pred cccccccccccCcee-cCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 17 VLCLVCQGILIKPIK-LPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
..|..|...+.-|++ ..|||.|...|++ .+...||.|+....
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKEDKCPKCLPELR 883 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhc----cCcccCCccchhhh
Confidence 589999999999876 4999999999998 23457999987543
No 89
>PHA03096 p28-like protein; Provisional
Probab=95.74 E-value=0.0066 Score=41.69 Aligned_cols=44 Identities=23% Similarity=0.353 Sum_probs=30.0
Q ss_pred ccccccccccc-Cce------ec-CCCCcchHHhHHHHhhcC--CCcccccccc
Q psy18179 17 VLCLVCQGILI-KPI------KL-PCNHHVCLECLQRICDNS--NLSCPMCRKR 60 (108)
Q Consensus 17 ~~C~IC~~~~~-~p~------~l-~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~ 60 (108)
-.|.||++... .+. .| .|.|.||..|+..|.... ...||.|+..
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 56999998544 322 23 699999999999997632 2345555543
No 90
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.63 E-value=0.023 Score=35.71 Aligned_cols=51 Identities=27% Similarity=0.527 Sum_probs=36.2
Q ss_pred CCCCccccccccccccCceecCCC--C---cchHHhHHHHhhcC-CCcccccccccch
Q psy18179 12 LTPDSVLCLVCQGILIKPIKLPCN--H---HVCLECLQRICDNS-NLSCPMCRKRLSI 63 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l~Cg--H---~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~ 63 (108)
....+-.|-||.+.-. +..-||. . ....+|+.+|+..+ ...|+.|+.++..
T Consensus 4 ~s~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 4 VSLMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred cCCCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 3455678999998754 3334554 3 33899999999843 4689999987754
No 91
>KOG1952|consensus
Probab=95.54 E-value=0.0077 Score=46.55 Aligned_cols=49 Identities=22% Similarity=0.661 Sum_probs=38.0
Q ss_pred CCCCcccccccccccc--Ccee--cCCCCcchHHhHHHHhhc------CCCcccccccc
Q psy18179 12 LTPDSVLCLVCQGILI--KPIK--LPCNHHVCLECLQRICDN------SNLSCPMCRKR 60 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~--~p~~--l~CgH~fC~~Ci~~~~~~------~~~~CP~Cr~~ 60 (108)
+..+.+.|.||.+.+. .|+- ..|-|.|...||.+|..+ ....||.|...
T Consensus 187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 3456789999999877 3442 269999999999999873 34779999843
No 92
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.30 E-value=0.0084 Score=29.97 Aligned_cols=32 Identities=38% Similarity=0.917 Sum_probs=21.9
Q ss_pred eecCCC-CcchHHhHHHHhhcCCCcccccccccc
Q psy18179 30 IKLPCN-HHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 30 ~~l~Cg-H~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
-.+.|. |..|..|+...+..+. .||.|..+++
T Consensus 14 ~Li~C~dHYLCl~CLt~ml~~s~-~C~iC~~~LP 46 (50)
T PF03854_consen 14 GLIKCSDHYLCLNCLTLMLSRSD-RCPICGKPLP 46 (50)
T ss_dssp SEEE-SS-EEEHHHHHHT-SSSS-EETTTTEE--
T ss_pred CeeeecchhHHHHHHHHHhcccc-CCCcccCcCc
Confidence 345675 8899999999887665 5999999886
No 93
>KOG1812|consensus
Probab=95.30 E-value=0.028 Score=40.30 Aligned_cols=48 Identities=25% Similarity=0.621 Sum_probs=32.6
Q ss_pred CccccccccccccCc-e---ecCCCCcchHHhHHHHhh-----cCCCcccc--cccccc
Q psy18179 15 DSVLCLVCQGILIKP-I---KLPCNHHVCLECLQRICD-----NSNLSCPM--CRKRLS 62 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p-~---~l~CgH~fC~~Ci~~~~~-----~~~~~CP~--Cr~~~~ 62 (108)
...+|.||......+ . ...|+|.||..|+.+.+. .....||. |...++
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~ 203 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLT 203 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCC
Confidence 467899999433322 2 347999999999998876 23356774 544444
No 94
>KOG0298|consensus
Probab=95.19 E-value=0.0058 Score=49.06 Aligned_cols=46 Identities=26% Similarity=0.586 Sum_probs=38.1
Q ss_pred CccccccccccccC-ceecCCCCcchHHhHHHHhhcCCCccccccccc
Q psy18179 15 DSVLCLVCQGILIK-PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRL 61 (108)
Q Consensus 15 ~~~~C~IC~~~~~~-p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 61 (108)
+.+.|+||.+++.+ -....|||.+|..|+..|+.... .||.|....
T Consensus 1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s-~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASS-RCPICKSIK 1198 (1394)
T ss_pred cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhc-cCcchhhhh
Confidence 45689999999994 44568999999999999999775 499998543
No 95
>KOG1428|consensus
Probab=95.08 E-value=0.055 Score=44.93 Aligned_cols=51 Identities=29% Similarity=0.789 Sum_probs=37.2
Q ss_pred CCCCcccccccccc-cc--CceecCCCCcchHHhHHHHhhc---------CCCcccccccccc
Q psy18179 12 LTPDSVLCLVCQGI-LI--KPIKLPCNHHVCLECLQRICDN---------SNLSCPMCRKRLS 62 (108)
Q Consensus 12 ~~~~~~~C~IC~~~-~~--~p~~l~CgH~fC~~Ci~~~~~~---------~~~~CP~Cr~~~~ 62 (108)
....+-.|-||+.. +. ..+.|.|+|.|...|..+.+.. +-..||.|..++.
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 44556679999853 33 4467899999999998776552 1257999998876
No 96
>KOG2932|consensus
Probab=94.97 E-value=0.011 Score=40.95 Aligned_cols=29 Identities=41% Similarity=1.069 Sum_probs=22.1
Q ss_pred ecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 31 KLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 31 ~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.++|.|.||..|...- ....||.|...+.
T Consensus 106 mIPCkHvFCl~CAr~~---~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 106 MIPCKHVFCLECARSD---SDKICPLCDDRVQ 134 (389)
T ss_pred ccccchhhhhhhhhcC---ccccCcCcccHHH
Confidence 5699999999997542 2346999987664
No 97
>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=94.65 E-value=0.0026 Score=34.54 Aligned_cols=41 Identities=27% Similarity=0.495 Sum_probs=23.1
Q ss_pred ccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
++.||.|...+..- . ||.+|..|-..+.... .||.|..++.
T Consensus 1 e~~CP~C~~~L~~~-~---~~~~C~~C~~~~~~~a--~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELEWQ-G---GHYHCEACQKDYKKEA--FCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEEEE-T---TEEEETTT--EEEEEE--E-TTT-SB-E
T ss_pred CCcCCCCCCccEEe-C---CEEECccccccceecc--cCCCcccHHH
Confidence 46899999876532 1 8888999987665433 5999998775
No 98
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.56 E-value=0.027 Score=28.21 Aligned_cols=39 Identities=31% Similarity=0.698 Sum_probs=23.4
Q ss_pred cccccccccC--ceecCCCC-----cchHHhHHHHhh-cCCCccccc
Q psy18179 19 CLVCQGILIK--PIKLPCNH-----HVCLECLQRICD-NSNLSCPMC 57 (108)
Q Consensus 19 C~IC~~~~~~--p~~l~CgH-----~fC~~Ci~~~~~-~~~~~CP~C 57 (108)
|-||++.-.+ |...||+- .....|+.+|+. ++...|+.|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 5688776442 45667642 457899999998 344668876
No 99
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.56 E-value=0.027 Score=39.15 Aligned_cols=49 Identities=24% Similarity=0.566 Sum_probs=37.5
Q ss_pred CCcccccccccccc---CceecCCCCcchHHhHHHHhhcCC--Ccccccccccc
Q psy18179 14 PDSVLCLVCQGILI---KPIKLPCNHHVCLECLQRICDNSN--LSCPMCRKRLS 62 (108)
Q Consensus 14 ~~~~~C~IC~~~~~---~p~~l~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~ 62 (108)
-..|+||+=.+.-. .|+.+.|||..-+.-+....+.+. +.||.|-....
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~ 387 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSK 387 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchh
Confidence 35689998776544 688999999999998888776553 78999965443
No 100
>KOG3579|consensus
Probab=94.52 E-value=0.024 Score=38.84 Aligned_cols=36 Identities=19% Similarity=0.575 Sum_probs=30.6
Q ss_pred CCccccccccccccCceecCC----CCcchHHhHHHHhhc
Q psy18179 14 PDSVLCLVCQGILIKPIKLPC----NHHVCLECLQRICDN 49 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l~C----gH~fC~~Ci~~~~~~ 49 (108)
..-|.|-+|.+.+.+-..+.| .|.||..|-...++.
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 345899999999999887766 699999999988873
No 101
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=94.41 E-value=0.062 Score=29.71 Aligned_cols=48 Identities=23% Similarity=0.604 Sum_probs=22.1
Q ss_pred Ccccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 15 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 15 ~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
..-.|.||.+..- ++... .|+--.|+.|.+=-.+.+...||.|+..+.
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 4457999998654 44443 688889999998766667778999997765
No 102
>KOG1100|consensus
Probab=94.38 E-value=0.022 Score=37.49 Aligned_cols=39 Identities=31% Similarity=0.709 Sum_probs=30.6
Q ss_pred cccccccccCceecCCCC-cchHHhHHHHhhcCCCcccccccccc
Q psy18179 19 CLVCQGILIKPIKLPCNH-HVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 19 C~IC~~~~~~p~~l~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
|-.|.+.-...+.+||.| .+|..|-.. -..||.|+....
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 889998877766779999 589999543 245999988765
No 103
>KOG3039|consensus
Probab=94.04 E-value=0.038 Score=37.20 Aligned_cols=31 Identities=13% Similarity=0.037 Sum_probs=28.3
Q ss_pred ccccccccccCceecCCCCcchHHhHHHHhh
Q psy18179 18 LCLVCQGILIKPIKLPCNHHVCLECLQRICD 48 (108)
Q Consensus 18 ~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~ 48 (108)
-|.+|++-+.+||..+=||.||+.||..++-
T Consensus 45 cCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 45 CCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred eeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 4689999999999999999999999988765
No 104
>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=93.98 E-value=0.041 Score=39.02 Aligned_cols=27 Identities=30% Similarity=0.830 Sum_probs=21.2
Q ss_pred CcchHHhHHHHhhc------------CCCcccccccccc
Q psy18179 36 HHVCLECLQRICDN------------SNLSCPMCRKRLS 62 (108)
Q Consensus 36 H~fC~~Ci~~~~~~------------~~~~CP~Cr~~~~ 62 (108)
...|..|+.+|+.. +...||+||+.+.
T Consensus 313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccce
Confidence 34589999999862 3467999999886
No 105
>KOG1815|consensus
Probab=93.85 E-value=0.046 Score=39.83 Aligned_cols=36 Identities=25% Similarity=0.469 Sum_probs=30.4
Q ss_pred CCCccccccccccccC-ceecCCCCcchHHhHHHHhh
Q psy18179 13 TPDSVLCLVCQGILIK-PIKLPCNHHVCLECLQRICD 48 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~-p~~l~CgH~fC~~Ci~~~~~ 48 (108)
......|.||.+.+.. .+.+.|||.||..|+..++.
T Consensus 67 ~~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLG 103 (444)
T ss_pred CCccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhh
Confidence 3556899999998885 55679999999999999876
No 106
>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=93.77 E-value=0.026 Score=34.51 Aligned_cols=33 Identities=18% Similarity=0.423 Sum_probs=25.7
Q ss_pred ccccccccccccC--ce-ecCCC------CcchHHhHHHHhh
Q psy18179 16 SVLCLVCQGILIK--PI-KLPCN------HHVCLECLQRICD 48 (108)
Q Consensus 16 ~~~C~IC~~~~~~--p~-~l~Cg------H~fC~~Ci~~~~~ 48 (108)
...|.||++.+.+ -| .++|| |.||..|+.+|.+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 6789999998886 33 34565 6799999999943
No 107
>PHA02862 5L protein; Provisional
Probab=93.73 E-value=0.074 Score=32.95 Aligned_cols=45 Identities=20% Similarity=0.614 Sum_probs=32.8
Q ss_pred ccccccccccCceecCCCC-----cchHHhHHHHhhc-CCCcccccccccch
Q psy18179 18 LCLVCQGILIKPIKLPCNH-----HVCLECLQRICDN-SNLSCPMCRKRLSI 63 (108)
Q Consensus 18 ~C~IC~~~~~~p~~l~CgH-----~fC~~Ci~~~~~~-~~~~CP~Cr~~~~~ 63 (108)
.|-||.+.-.+. .-||.- -.+..|+.+|+.. +...|+.|+.++..
T Consensus 4 iCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 4 ICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred EEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 588999875544 345542 3589999999983 34689999988764
No 108
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=93.51 E-value=0.087 Score=28.73 Aligned_cols=26 Identities=23% Similarity=0.560 Sum_probs=21.1
Q ss_pred CCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 34 CNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 34 CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
=.|+||..|.+..+. ..||.|+..+.
T Consensus 27 fEcTFCadCae~~l~---g~CPnCGGelv 52 (84)
T COG3813 27 FECTFCADCAENRLH---GLCPNCGGELV 52 (84)
T ss_pred EeeehhHhHHHHhhc---CcCCCCCchhh
Confidence 357899999997764 25999999887
No 109
>KOG3268|consensus
Probab=92.96 E-value=0.11 Score=33.36 Aligned_cols=48 Identities=19% Similarity=0.497 Sum_probs=32.4
Q ss_pred cccccccccccc---Ccee----cCCCCcchHHhHHHHhhc-----CC-----Ccccccccccch
Q psy18179 16 SVLCLVCQGILI---KPIK----LPCNHHVCLECLQRICDN-----SN-----LSCPMCRKRLSI 63 (108)
Q Consensus 16 ~~~C~IC~~~~~---~p~~----l~CgH~fC~~Ci~~~~~~-----~~-----~~CP~Cr~~~~~ 63 (108)
...|.||+.+-- .|-. ..||..|..-|+..|++. ++ ..||.|..++..
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 345667765322 2222 379999999999999972 11 359999888763
No 110
>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=92.65 E-value=0.064 Score=23.43 Aligned_cols=21 Identities=24% Similarity=0.592 Sum_probs=10.2
Q ss_pred ccccccccccCceec-C-CCCcc
Q psy18179 18 LCLVCQGILIKPIKL-P-CNHHV 38 (108)
Q Consensus 18 ~C~IC~~~~~~p~~l-~-CgH~f 38 (108)
.||-|.......... | |||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 366666655432222 3 66654
No 111
>KOG3899|consensus
Probab=92.38 E-value=0.086 Score=36.39 Aligned_cols=30 Identities=37% Similarity=0.853 Sum_probs=23.3
Q ss_pred CCCcchHHhHHHHhh------------cCCCcccccccccch
Q psy18179 34 CNHHVCLECLQRICD------------NSNLSCPMCRKRLSI 63 (108)
Q Consensus 34 CgH~fC~~Ci~~~~~------------~~~~~CP~Cr~~~~~ 63 (108)
|....|.+|+.+|+. .++.+||+||+.+..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 455678999999985 245789999998874
No 112
>KOG2034|consensus
Probab=91.69 E-value=0.092 Score=41.05 Aligned_cols=35 Identities=34% Similarity=0.586 Sum_probs=27.2
Q ss_pred CCcccccccccc-ccCceec-CCCCcchHHhHHHHhh
Q psy18179 14 PDSVLCLVCQGI-LIKPIKL-PCNHHVCLECLQRICD 48 (108)
Q Consensus 14 ~~~~~C~IC~~~-~~~p~~l-~CgH~fC~~Ci~~~~~ 48 (108)
+..-.|.+|... +..|..+ ||||.|.+.||.+...
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 344579999875 4477765 9999999999987654
No 113
>KOG4185|consensus
Probab=91.66 E-value=0.024 Score=38.95 Aligned_cols=44 Identities=32% Similarity=0.803 Sum_probs=35.3
Q ss_pred ccccccccccc------CceecC--------CCCcchHHhHHHHhhcCCCcccccccc
Q psy18179 17 VLCLVCQGILI------KPIKLP--------CNHHVCLECLQRICDNSNLSCPMCRKR 60 (108)
Q Consensus 17 ~~C~IC~~~~~------~p~~l~--------CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 60 (108)
..|.||...+. .|..+. |||+.|..|+...+.+.+..||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 55888877666 355566 999999999999988666889999874
No 114
>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=91.62 E-value=0.084 Score=33.17 Aligned_cols=20 Identities=25% Similarity=0.599 Sum_probs=17.2
Q ss_pred CccccccccccccCceecCC
Q psy18179 15 DSVLCLVCQGILIKPIKLPC 34 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~~l~C 34 (108)
++.+||||++...+.|.|-|
T Consensus 1 ed~~CpICme~PHNAVLLlC 20 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLC 20 (162)
T ss_pred CCccCceeccCCCceEEEEe
Confidence 46789999999999998854
No 115
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=91.22 E-value=0.19 Score=38.66 Aligned_cols=58 Identities=26% Similarity=0.576 Sum_probs=44.0
Q ss_pred cCCCCCCCCCccccccccccccCce----------ecCCCCcc--------------------hHHhHHHHhh-------
Q psy18179 6 CNSNNTLTPDSVLCLVCQGILIKPI----------KLPCNHHV--------------------CLECLQRICD------- 48 (108)
Q Consensus 6 ~~~~~~~~~~~~~C~IC~~~~~~p~----------~l~CgH~f--------------------C~~Ci~~~~~------- 48 (108)
-+.++.+..|-.+|+-|++.+.+|. .+.||..| |..|...+-+
T Consensus 91 ~~~~~~I~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfH 170 (750)
T COG0068 91 GNKNTQIPPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFH 170 (750)
T ss_pred CCcccccCCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccc
Confidence 4455677889999999999888763 24789888 9999887654
Q ss_pred cCCCcccccccccch
Q psy18179 49 NSNLSCPMCRKRLSI 63 (108)
Q Consensus 49 ~~~~~CP~Cr~~~~~ 63 (108)
.+...||.|+-.+..
T Consensus 171 AQp~aCp~CGP~~~l 185 (750)
T COG0068 171 AQPIACPKCGPHLFL 185 (750)
T ss_pred cccccCcccCCCeEE
Confidence 234679999876654
No 116
>KOG4445|consensus
Probab=91.20 E-value=0.11 Score=36.07 Aligned_cols=50 Identities=28% Similarity=0.701 Sum_probs=36.3
Q ss_pred CCcccccccccccc-Cc-e-ecCCCCcchHHhHHHHhhc----------------------CCCcccccccccch
Q psy18179 14 PDSVLCLVCQGILI-KP-I-KLPCNHHVCLECLQRICDN----------------------SNLSCPMCRKRLSI 63 (108)
Q Consensus 14 ~~~~~C~IC~~~~~-~p-~-~l~CgH~fC~~Ci~~~~~~----------------------~~~~CP~Cr~~~~~ 63 (108)
.....|.||+.=|. .| . .++|.|.|...|+.+++.. ....||+||..+..
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 34567999987666 34 2 4599999999999887740 12459999987754
No 117
>KOG3113|consensus
Probab=90.12 E-value=1.8 Score=29.45 Aligned_cols=49 Identities=14% Similarity=0.175 Sum_probs=35.7
Q ss_pred CCCCccccccccccccCce----ecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 12 LTPDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~----~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
.....|+|||=.-.|..-. ..+|||.|-.+-+.+.- . -.|++|.+.+..
T Consensus 107 ~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--a-s~C~~C~a~y~~ 159 (293)
T KOG3113|consen 107 TQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--A-SVCHVCGAAYQE 159 (293)
T ss_pred cccceeecccccceecceEEEEEEeccceeccHHHHHHhh--h-ccccccCCcccc
Confidence 3456799999877766433 23899999988877653 2 359999998764
No 118
>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=89.41 E-value=0.3 Score=25.29 Aligned_cols=42 Identities=24% Similarity=0.563 Sum_probs=28.3
Q ss_pred ccccccccccCc--eecCCC--CcchHHhHHHHhhcCCCcccccccccc
Q psy18179 18 LCLVCQGILIKP--IKLPCN--HHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 18 ~C~IC~~~~~~p--~~l~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.|-.|...+... -..-|. .+||..|....+. ..||.|+..+.
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~---~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLN---GVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc---CcCcCCCCccc
Confidence 366666655522 223344 4799999998874 25999998876
No 119
>KOG1812|consensus
Probab=88.91 E-value=0.2 Score=35.97 Aligned_cols=36 Identities=17% Similarity=0.402 Sum_probs=26.9
Q ss_pred cccccccccccc-----CceecCCCCcchHHhHHHHhhcCC
Q psy18179 16 SVLCLVCQGILI-----KPIKLPCNHHVCLECLQRICDNSN 51 (108)
Q Consensus 16 ~~~C~IC~~~~~-----~p~~l~CgH~fC~~Ci~~~~~~~~ 51 (108)
-..||+|.-.+. +.++-.|||-||+.|...|...+.
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~ 346 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNG 346 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCc
Confidence 457999987655 344557999999999988876543
No 120
>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=88.24 E-value=0.29 Score=24.96 Aligned_cols=40 Identities=25% Similarity=0.591 Sum_probs=22.9
Q ss_pred CccccccccccccCceecCCCCcchHHhHHHHhh-cCCCccccccccc
Q psy18179 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD-NSNLSCPMCRKRL 61 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~ 61 (108)
+.|.||.|.+.+... .+..-+...-.. .....||+|...+
T Consensus 1 ~~f~CP~C~~~~~~~-------~L~~H~~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 1 DSFTCPYCGKGFSES-------SLVEHCEDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred CCcCCCCCCCccCHH-------HHHHHHHhHCcCCCCCccCCCchhhh
Confidence 468899999854432 123334333322 2346799997643
No 121
>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=87.93 E-value=0.86 Score=26.77 Aligned_cols=47 Identities=23% Similarity=0.559 Sum_probs=30.0
Q ss_pred CccccccccccccCcee--------cCC---CCcchHHhHHHHhh--------cCCCccccccccc
Q psy18179 15 DSVLCLVCQGILIKPIK--------LPC---NHHVCLECLQRICD--------NSNLSCPMCRKRL 61 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~~--------l~C---gH~fC~~Ci~~~~~--------~~~~~CP~Cr~~~ 61 (108)
...+|..|...-.+..+ ..| .-.||..||..+.. .....||.||..-
T Consensus 6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 34567777764333221 235 66799999987764 2346799998743
No 122
>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=87.90 E-value=0.73 Score=23.48 Aligned_cols=25 Identities=28% Similarity=0.902 Sum_probs=13.2
Q ss_pred CCCCcchHHhHHHHhhcCCCcccccc
Q psy18179 33 PCNHHVCLECLQRICDNSNLSCPMCR 58 (108)
Q Consensus 33 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr 58 (108)
.|++.||..|= -++...-..||-|.
T Consensus 26 ~C~~~FC~dCD-~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCD-VFIHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHH-HTTTTTS-SSSTT-
T ss_pred CCCCccccCcC-hhhhccccCCcCCC
Confidence 59999999993 23333334699874
No 123
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=87.50 E-value=0.08 Score=22.39 Aligned_cols=6 Identities=50% Similarity=1.525 Sum_probs=3.2
Q ss_pred cccccc
Q psy18179 54 CPMCRK 59 (108)
Q Consensus 54 CP~Cr~ 59 (108)
||.|+.
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 555544
No 124
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=87.25 E-value=0.66 Score=23.91 Aligned_cols=31 Identities=19% Similarity=0.486 Sum_probs=24.1
Q ss_pred Cccccccccccc--cCceec--CCCCcchHHhHHH
Q psy18179 15 DSVLCLVCQGIL--IKPIKL--PCNHHVCLECLQR 45 (108)
Q Consensus 15 ~~~~C~IC~~~~--~~p~~l--~CgH~fC~~Ci~~ 45 (108)
....|++|.+.| .+.++. .||-.+.+.|..+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 345799999999 455554 5999999999764
No 125
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=86.85 E-value=0.93 Score=36.53 Aligned_cols=48 Identities=29% Similarity=0.656 Sum_probs=36.6
Q ss_pred Ccccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 15 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 15 ~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
+.-.|.||.+..- +|... .|+--.|+.|.+--.+.++..||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 4567999998755 34433 688889999996555566778999998876
No 126
>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=86.77 E-value=0.39 Score=27.43 Aligned_cols=37 Identities=27% Similarity=0.740 Sum_probs=27.5
Q ss_pred ccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.-.|-||...+..+ ||.||..|... .+ .|.+|++.+.
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAYk----kG-iCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAYK----KG-ICAMCGKKIL 80 (90)
T ss_pred CccccccccccccC-----CCccChhhhcc----cC-cccccCCeec
Confidence 45788888766654 88999999643 23 5999999874
No 127
>PLN02189 cellulose synthase
Probab=86.67 E-value=0.53 Score=37.80 Aligned_cols=47 Identities=21% Similarity=0.581 Sum_probs=35.9
Q ss_pred cccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 16 SVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.-.|.||.+.+. +|... .|+--.|+.|.+--.+.++..||.|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 348999998755 33332 588889999997666667778999998876
No 128
>PLN02436 cellulose synthase A
Probab=86.20 E-value=0.58 Score=37.75 Aligned_cols=47 Identities=26% Similarity=0.675 Sum_probs=36.0
Q ss_pred cccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 16 SVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.-.|.||.+..- +|.+. .|+--.|+.|.+--.+.++..||.|+....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 348999998764 34333 588889999997666666778999998776
No 129
>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=86.05 E-value=0.2 Score=26.74 Aligned_cols=34 Identities=18% Similarity=0.467 Sum_probs=17.1
Q ss_pred CCccccccccccccCcee----cCCCCcchHHhHHHHh
Q psy18179 14 PDSVLCLVCQGILIKPIK----LPCNHHVCLECLQRIC 47 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~----l~CgH~fC~~Ci~~~~ 47 (108)
.+.-.|.+|...|.--.. -.||+.||..|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 345679999998853211 2799999999986543
No 130
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=86.00 E-value=0.48 Score=25.38 Aligned_cols=12 Identities=25% Similarity=0.686 Sum_probs=9.0
Q ss_pred cchHHhHHHHhh
Q psy18179 37 HVCLECLQRICD 48 (108)
Q Consensus 37 ~fC~~Ci~~~~~ 48 (108)
.||+.|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999987
No 131
>KOG0825|consensus
Probab=84.51 E-value=1 Score=35.41 Aligned_cols=50 Identities=20% Similarity=0.422 Sum_probs=35.7
Q ss_pred CccccccccccccCce----ecC---CCCcchHHhHHHHhhc-----CCCcccccccccchh
Q psy18179 15 DSVLCLVCQGILIKPI----KLP---CNHHVCLECLQRICDN-----SNLSCPMCRKRLSIW 64 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~----~l~---CgH~fC~~Ci~~~~~~-----~~~~CP~Cr~~~~~~ 64 (108)
+.-+|.+|...+.+|+ .++ |+|.||..||..|..+ ..-.|++|..-+..+
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW 156 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW 156 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence 3456788877777654 234 9999999999999872 234578887766654
No 132
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=84.20 E-value=0.79 Score=20.94 Aligned_cols=10 Identities=30% Similarity=0.909 Sum_probs=7.1
Q ss_pred CCcccccccc
Q psy18179 51 NLSCPMCRKR 60 (108)
Q Consensus 51 ~~~CP~Cr~~ 60 (108)
...||.|+..
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 4569999764
No 133
>KOG4718|consensus
Probab=84.10 E-value=0.62 Score=30.78 Aligned_cols=46 Identities=24% Similarity=0.585 Sum_probs=36.0
Q ss_pred ccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 16 SVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.-.|.+|..+...-+.. .||-.+...|+.+.+.... .||.|+.-.+
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~-~cphc~d~w~ 227 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRD-ICPHCGDLWT 227 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccC-cCCchhcccC
Confidence 34799999987766655 6888889999999998754 5999976544
No 134
>KOG2169|consensus
Probab=83.64 E-value=2 Score=33.02 Aligned_cols=68 Identities=24% Similarity=0.434 Sum_probs=45.1
Q ss_pred CCCCccccccccccccCcee-cCCCCcchHHhHHHHhh---cCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179 12 LTPDSVLCLVCQGILIKPIK-LPCNHHVCLECLQRICD---NSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 86 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~-l~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 86 (108)
...--|.|+|....+.-|.. ..|.|.-|.+=..-... .....||+|.+... ...+.++..+..++...
T Consensus 302 ~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~-------~e~l~iD~~~~~iL~~~ 373 (636)
T KOG2169|consen 302 SLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAP-------FEGLIIDGYFLNILQSC 373 (636)
T ss_pred cceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCcccc-------ccchhhhHHHHHHHhhc
Confidence 34446889999888887665 47888766543321111 23477999988776 45677777777777644
No 135
>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=82.81 E-value=0.8 Score=23.31 Aligned_cols=31 Identities=16% Similarity=0.351 Sum_probs=21.4
Q ss_pred ccccccccccC----ceecCCCCcchHHhHHHHhh
Q psy18179 18 LCLVCQGILIK----PIKLPCNHHVCLECLQRICD 48 (108)
Q Consensus 18 ~C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~~~ 48 (108)
.|.+|...|.- ..-..||+.||..|......
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 57888775552 22237999999999875543
No 136
>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=81.77 E-value=0.3 Score=33.61 Aligned_cols=47 Identities=17% Similarity=0.263 Sum_probs=21.6
Q ss_pred CCCccccccccccccCceecCC-----CCcchHHhHHHHhhcCCCcccccccc
Q psy18179 13 TPDSVLCLVCQGILIKPIKLPC-----NHHVCLECLQRICDNSNLSCPMCRKR 60 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~l~C-----gH~fC~~Ci~~~~~~~~~~CP~Cr~~ 60 (108)
.+..-.||||.....-.+...= .+.+|..|-..|-... ..||.|...
T Consensus 169 ~w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R-~~Cp~Cg~~ 220 (290)
T PF04216_consen 169 GWQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVR-IKCPYCGNT 220 (290)
T ss_dssp -TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--T-TS-TTT---
T ss_pred CccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecC-CCCcCCCCC
Confidence 4456799999987654443322 3567999999987654 458888754
No 137
>KOG0309|consensus
Probab=81.36 E-value=1.1 Score=35.07 Aligned_cols=40 Identities=18% Similarity=0.453 Sum_probs=29.3
Q ss_pred ccccccccccccCc--eecCCCCcchHHhHHHHhhcCCCcccc
Q psy18179 16 SVLCLVCQGILIKP--IKLPCNHHVCLECLQRICDNSNLSCPM 56 (108)
Q Consensus 16 ~~~C~IC~~~~~~p--~~l~CgH~fC~~Ci~~~~~~~~~~CP~ 56 (108)
.+.|.||.-...-- +...|||....+|...|+..+. .||.
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 45677776554432 2347999999999999999765 5885
No 138
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=81.33 E-value=2.4 Score=34.48 Aligned_cols=48 Identities=25% Similarity=0.663 Sum_probs=36.1
Q ss_pred Ccccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 15 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 15 ~~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
..-.|.||.+..- +|.+. .|+--.|+.|.+==.+.++..||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3458999998755 34433 688889999996555566778999998776
No 139
>KOG2462|consensus
Probab=80.90 E-value=0.92 Score=31.11 Aligned_cols=50 Identities=24% Similarity=0.602 Sum_probs=33.1
Q ss_pred CCccccccccccccC-c--------eecCCCCcchHHhHH-HHhhcC---------CCcccccccccch
Q psy18179 14 PDSVLCLVCQGILIK-P--------IKLPCNHHVCLECLQ-RICDNS---------NLSCPMCRKRLSI 63 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~-p--------~~l~CgH~fC~~Ci~-~~~~~~---------~~~CP~Cr~~~~~ 63 (108)
..-+.|++|...+.. | -+|+|.-.+|..=+. .|+-++ .+.||.|++.+..
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFAD 227 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFAD 227 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcc
Confidence 456789999887762 1 235666666655554 365432 4789999998874
No 140
>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 PLN02195 cellulose synthase A
Probab=80.26 E-value=1.6 Score=35.06 Aligned_cols=46 Identities=17% Similarity=0.451 Sum_probs=34.8
Q ss_pred ccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 17 VLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 17 ~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
-.|.||.+..- +|... .|+--.|+.|.+==.+.++..||.|+....
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 36999998554 44443 699999999996545566778999998776
No 142
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=80.05 E-value=0.17 Score=30.26 Aligned_cols=46 Identities=22% Similarity=0.460 Sum_probs=28.9
Q ss_pred Ccccccccccccc---Cc-e-ecCCCCcchHHhHHHHhhcCCCcccccccc
Q psy18179 15 DSVLCLVCQGILI---KP-I-KLPCNHHVCLECLQRICDNSNLSCPMCRKR 60 (108)
Q Consensus 15 ~~~~C~IC~~~~~---~p-~-~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 60 (108)
++-.|.+|...|. ++ . -..|+|.+|..|-..........|.+|.+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHHH
Confidence 5668999987543 22 2 237999999999655222334568888664
No 143
>PF14353 CpXC: CpXC protein
Probab=79.69 E-value=1.7 Score=26.11 Aligned_cols=48 Identities=21% Similarity=0.414 Sum_probs=24.3
Q ss_pred ccccccccccccCceecCCCCcchHHhHHHHhhcC--CCcccccccccch
Q psy18179 16 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS--NLSCPMCRKRLSI 63 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~ 63 (108)
+++||-|...+.-.+-+.-.-..=..=..+.+... ..+||.|+..+..
T Consensus 1 ~itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 1 EITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRL 50 (128)
T ss_pred CcCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceec
Confidence 36788888877644432211111112222223211 3689999987653
No 144
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=79.52 E-value=1.4 Score=21.05 Aligned_cols=22 Identities=23% Similarity=0.505 Sum_probs=14.7
Q ss_pred cccccccccC-ceecC-CCCcchH
Q psy18179 19 CLVCQGILIK-PIKLP-CNHHVCL 40 (108)
Q Consensus 19 C~IC~~~~~~-p~~l~-CgH~fC~ 40 (108)
|.+|.....- |..-. |+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 5566665554 76665 8888885
No 145
>KOG0824|consensus
Probab=79.43 E-value=0.62 Score=32.37 Aligned_cols=52 Identities=31% Similarity=0.763 Sum_probs=40.1
Q ss_pred CCCCCCccccccccccccCceec-CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 10 NTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 10 ~~~~~~~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.....++-.|-||...+.-|... .|+|-||..|...|...+. .||.|+....
T Consensus 99 A~~~~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~-~~~d~~~~~~ 151 (324)
T KOG0824|consen 99 AGFQQDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGN-DCPDCRGKIS 151 (324)
T ss_pred ccccCCccceeeeeeeEEecccccCceeeeeecCCchhhhhhh-ccchhhcCcC
Confidence 34455667888999999988877 5999999999998887554 4887776543
No 146
>PLN02400 cellulose synthase
Probab=78.58 E-value=1.3 Score=35.95 Aligned_cols=48 Identities=21% Similarity=0.559 Sum_probs=35.7
Q ss_pred cccccccccccc-----Cceec--CCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 16 SVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 16 ~~~C~IC~~~~~-----~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
.-.|.||.+..- +|.+. .|+--.|+.|.+=-.+.++..||.|+.....
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccc
Confidence 348999998755 34443 6888899999964444566789999988763
No 147
>PRK04023 DNA polymerase II large subunit; Validated
Probab=78.39 E-value=2.1 Score=34.56 Aligned_cols=51 Identities=14% Similarity=0.197 Sum_probs=34.2
Q ss_pred CCCCCCccccccccccccCceecCCCC-----cchHHhHHHHhhcCCCcccccccccch
Q psy18179 10 NTLTPDSVLCLVCQGILIKPIKLPCNH-----HVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH-----~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
+........|+-|.........-.||. .||..|-.. .....||.|......
T Consensus 620 ~eVEVg~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~~---~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 620 IEVEIGRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGIE---VEEDECEKCGREPTP 675 (1121)
T ss_pred eeecccCccCCCCCCcCCcccCCCCCCCCCcceeCccccCc---CCCCcCCCCCCCCCc
Confidence 445666788999998753332235984 599999322 223569999998874
No 148
>KOG2979|consensus
Probab=76.87 E-value=2.9 Score=28.52 Aligned_cols=45 Identities=16% Similarity=0.298 Sum_probs=34.6
Q ss_pred ccccccccccccCceec-CCCCcchHHhHHHHhhc-CCCcccccccc
Q psy18179 16 SVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDN-SNLSCPMCRKR 60 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l-~CgH~fC~~Ci~~~~~~-~~~~CP~Cr~~ 60 (108)
.+.|||=...+.+|+.- .|||.|=+.=|...+.. ....||+=+..
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 57899988888888764 89999999999888763 23568874443
No 149
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=76.56 E-value=0.51 Score=23.49 Aligned_cols=41 Identities=27% Similarity=0.524 Sum_probs=25.3
Q ss_pred ccccccccccCceec---CCCCcchHHhHHHHhh-----cCCCcccccc
Q psy18179 18 LCLVCQGILIKPIKL---PCNHHVCLECLQRICD-----NSNLSCPMCR 58 (108)
Q Consensus 18 ~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~~-----~~~~~CP~Cr 58 (108)
.|.||......-..+ .|+..|...|+..... .....||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 378888843322222 6888888888754432 2256788775
No 150
>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=76.42 E-value=0.36 Score=25.01 Aligned_cols=32 Identities=25% Similarity=0.665 Sum_probs=17.8
Q ss_pred Ccccccc--ccccccC-----c--eecC-CCCcchHHhHHHH
Q psy18179 15 DSVLCLV--CQGILIK-----P--IKLP-CNHHVCLECLQRI 46 (108)
Q Consensus 15 ~~~~C~I--C~~~~~~-----p--~~l~-CgH~fC~~Ci~~~ 46 (108)
+...||- |...+.. . +.-+ |++.||..|-..|
T Consensus 17 ~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 17 NIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp -CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 3357876 8876662 1 3335 9999999997766
No 151
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=76.26 E-value=1.5 Score=28.14 Aligned_cols=31 Identities=23% Similarity=0.329 Sum_probs=19.3
Q ss_pred CCCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179 50 SNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 86 (108)
Q Consensus 50 ~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 86 (108)
.++.||.|+..+.. ..+......|...+...
T Consensus 135 ~~F~Cp~Cg~~L~~------~dn~~~~~~l~~~I~~l 165 (178)
T PRK06266 135 YGFRCPQCGEMLEE------YDNSELIKELKEQIKEL 165 (178)
T ss_pred cCCcCCCCCCCCee------cccHHHHHHHHHHHHHH
Confidence 36889999998874 33444444555555433
No 152
>KOG2068|consensus
Probab=75.99 E-value=2.4 Score=29.91 Aligned_cols=45 Identities=36% Similarity=0.713 Sum_probs=33.5
Q ss_pred ccccccccccc--Cceec--CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 17 VLCLVCQGILI--KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 17 ~~C~IC~~~~~--~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
-.|+||.+.+. +-..+ +||+..|..|+....... ..||.||+...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~-~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGD-GRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccC-CCCCccCCccc
Confidence 57999998764 22233 789999999998877644 57999997654
No 153
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=75.17 E-value=1.5 Score=27.58 Aligned_cols=13 Identities=38% Similarity=0.945 Sum_probs=11.0
Q ss_pred CCcccccccccch
Q psy18179 51 NLSCPMCRKRLSI 63 (108)
Q Consensus 51 ~~~CP~Cr~~~~~ 63 (108)
++.||.|+..+..
T Consensus 128 ~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 128 NFTCPRCGAMLDY 140 (158)
T ss_pred CCcCCCCCCEeee
Confidence 5889999998874
No 154
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=74.79 E-value=0.49 Score=20.42 Aligned_cols=6 Identities=50% Similarity=1.497 Sum_probs=2.9
Q ss_pred cccccc
Q psy18179 54 CPMCRK 59 (108)
Q Consensus 54 CP~Cr~ 59 (108)
||.|+.
T Consensus 19 C~~CG~ 24 (26)
T PF13248_consen 19 CPNCGA 24 (26)
T ss_pred ChhhCC
Confidence 555543
No 155
>PF15616 TerY-C: TerY-C metal binding domain
Probab=74.76 E-value=1.4 Score=27.03 Aligned_cols=45 Identities=18% Similarity=0.455 Sum_probs=31.9
Q ss_pred CCCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 12 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
.....-.||-|...+.-.+- .||+.||.. .....+||-|......
T Consensus 73 eL~g~PgCP~CGn~~~fa~C-~CGkl~Ci~------g~~~~~CPwCg~~g~~ 117 (131)
T PF15616_consen 73 ELIGAPGCPHCGNQYAFAVC-GCGKLFCID------GEGEVTCPWCGNEGSF 117 (131)
T ss_pred HhcCCCCCCCCcChhcEEEe-cCCCEEEeC------CCCCEECCCCCCeeee
Confidence 34445789999987664444 899999853 1234689999987764
No 156
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=74.69 E-value=1.5 Score=26.80 Aligned_cols=21 Identities=24% Similarity=0.444 Sum_probs=13.3
Q ss_pred cccccccCceecCCCCcchHH
Q psy18179 21 VCQGILIKPIKLPCNHHVCLE 41 (108)
Q Consensus 21 IC~~~~~~p~~l~CgH~fC~~ 41 (108)
||...-...+...|||+||..
T Consensus 62 i~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEecccccEEEEeccccccCh
Confidence 455544443445899999963
No 157
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=74.33 E-value=0.49 Score=24.52 Aligned_cols=15 Identities=20% Similarity=0.642 Sum_probs=12.8
Q ss_pred CCCCcchHHhHHHHh
Q psy18179 33 PCNHHVCLECLQRIC 47 (108)
Q Consensus 33 ~CgH~fC~~Ci~~~~ 47 (108)
.||+.||..|...|-
T Consensus 45 ~C~~~fC~~C~~~~H 59 (64)
T smart00647 45 KCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCeECCCCCCcCC
Confidence 589999999988773
No 158
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=73.25 E-value=11 Score=30.18 Aligned_cols=54 Identities=20% Similarity=0.518 Sum_probs=39.2
Q ss_pred CCCCCCcccccccccc--ccCceecCCCCc-----chHHhHHHHhhc-CCCcccccccccch
Q psy18179 10 NTLTPDSVLCLVCQGI--LIKPIKLPCNHH-----VCLECLQRICDN-SNLSCPMCRKRLSI 63 (108)
Q Consensus 10 ~~~~~~~~~C~IC~~~--~~~p~~l~CgH~-----fC~~Ci~~~~~~-~~~~CP~Cr~~~~~ 63 (108)
.....|+-+|.||... -.+|..=||..+ ..+.|+.+|+.. +...|-.|..++..
T Consensus 6 ~~mN~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F 67 (1175)
T COG5183 6 TPMNEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF 67 (1175)
T ss_pred CCCCccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence 4455677899999853 446766676542 579999999983 34679999987654
No 159
>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 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=72.31 E-value=1.6 Score=30.58 Aligned_cols=46 Identities=15% Similarity=0.360 Sum_probs=30.5
Q ss_pred CCccccccccccccCceec----CCC--CcchHHhHHHHhhcCCCcccccccc
Q psy18179 14 PDSVLCLVCQGILIKPIKL----PCN--HHVCLECLQRICDNSNLSCPMCRKR 60 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~~l----~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~ 60 (108)
+..-.||||.....-.+.. .=| +.+|..|-..|--.. ..||.|...
T Consensus 182 ~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R-~~C~~Cg~~ 233 (305)
T TIGR01562 182 ESRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVR-VKCSHCEES 233 (305)
T ss_pred CCCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccC-ccCCCCCCC
Confidence 4456899999876433221 233 456888988887654 469999863
No 161
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=71.64 E-value=0.63 Score=21.07 Aligned_cols=24 Identities=25% Similarity=0.537 Sum_probs=10.5
Q ss_pred CcchHHhHHHHhhc---CCCccccccc
Q psy18179 36 HHVCLECLQRICDN---SNLSCPMCRK 59 (108)
Q Consensus 36 H~fC~~Ci~~~~~~---~~~~CP~Cr~ 59 (108)
|.||..|-...... ....||.|+.
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 66777776544331 1245777754
No 162
>PF12773 DZR: Double zinc ribbon
Probab=70.76 E-value=3.2 Score=20.50 Aligned_cols=26 Identities=27% Similarity=0.584 Sum_probs=13.6
Q ss_pred cchHHhHHHHh--hcCCCcccccccccc
Q psy18179 37 HVCLECLQRIC--DNSNLSCPMCRKRLS 62 (108)
Q Consensus 37 ~fC~~Ci~~~~--~~~~~~CP~Cr~~~~ 62 (108)
.||..|-.... ......||.|+..+.
T Consensus 13 ~fC~~CG~~l~~~~~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 13 KFCPHCGTPLPPPDQSKKICPNCGAENP 40 (50)
T ss_pred cCChhhcCChhhccCCCCCCcCCcCCCc
Confidence 45555544433 223355888877654
No 163
>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=70.09 E-value=4.2 Score=24.04 Aligned_cols=15 Identities=20% Similarity=0.682 Sum_probs=10.9
Q ss_pred cCCCcccccccccch
Q psy18179 49 NSNLSCPMCRKRLSI 63 (108)
Q Consensus 49 ~~~~~CP~Cr~~~~~ 63 (108)
+....||.|+..+..
T Consensus 24 k~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 24 KDPIVCPKCGTEFPP 38 (108)
T ss_pred CCCccCCCCCCccCc
Confidence 445679999887764
No 164
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=69.77 E-value=2 Score=30.08 Aligned_cols=46 Identities=15% Similarity=0.398 Sum_probs=30.8
Q ss_pred CCCccccccccccccCcee-c--CCC--CcchHHhHHHHhhcCCCccccccc
Q psy18179 13 TPDSVLCLVCQGILIKPIK-L--PCN--HHVCLECLQRICDNSNLSCPMCRK 59 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~-l--~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~ 59 (108)
.+..-.||||.....-.+. + .=| +.+|..|-..|--.. ..||.|..
T Consensus 184 ~~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R-~~C~~Cg~ 234 (309)
T PRK03564 184 GEQRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVR-VKCSNCEQ 234 (309)
T ss_pred ccCCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccC-ccCCCCCC
Confidence 3457889999987653332 1 234 456888988887654 45888875
No 165
>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=69.64 E-value=2.9 Score=20.20 Aligned_cols=21 Identities=29% Similarity=0.670 Sum_probs=11.6
Q ss_pred ccccccCceecC-CCCcchHHh
Q psy18179 22 CQGILIKPIKLP-CNHHVCLEC 42 (108)
Q Consensus 22 C~~~~~~p~~l~-CgH~fC~~C 42 (108)
|......|+.-+ |+..||..=
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 777666777765 999999653
No 166
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=69.54 E-value=2.8 Score=23.97 Aligned_cols=12 Identities=25% Similarity=0.620 Sum_probs=11.0
Q ss_pred cchHHhHHHHhh
Q psy18179 37 HVCLECLQRICD 48 (108)
Q Consensus 37 ~fC~~Ci~~~~~ 48 (108)
.||+.|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 599999999987
No 167
>KOG3053|consensus
Probab=68.70 E-value=9.5 Score=26.19 Aligned_cols=52 Identities=25% Similarity=0.487 Sum_probs=36.3
Q ss_pred CCCCCccccccccccccCcee----cCCC-----CcchHHhHHHHhhcC-------CCcccccccccc
Q psy18179 11 TLTPDSVLCLVCQGILIKPIK----LPCN-----HHVCLECLQRICDNS-------NLSCPMCRKRLS 62 (108)
Q Consensus 11 ~~~~~~~~C~IC~~~~~~p~~----l~Cg-----H~fC~~Ci~~~~~~~-------~~~CP~Cr~~~~ 62 (108)
...+.+-.|-||+..=.+-.. -||. |=...+|+.+|++.+ ...||.|+.+..
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 445667889999986654322 1553 346899999999732 257999998765
No 168
>KOG2807|consensus
Probab=67.45 E-value=2.4 Score=29.94 Aligned_cols=28 Identities=14% Similarity=0.615 Sum_probs=12.8
Q ss_pred CCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 35 NHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 35 gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
|-.||..|-.+.+.+....|+.|+..+.
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FC 356 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFC 356 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceee
Confidence 4444555533333333345555555443
No 169
>KOG3799|consensus
Probab=67.17 E-value=4.6 Score=24.91 Aligned_cols=22 Identities=23% Similarity=0.455 Sum_probs=14.7
Q ss_pred CCCCccccccccccccCceecCCCC
Q psy18179 12 LTPDSVLCLVCQGILIKPIKLPCNH 36 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l~CgH 36 (108)
-..++.+|.||...-. .-.|||
T Consensus 61 Gv~ddatC~IC~KTKF---ADG~GH 82 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKF---ADGCGH 82 (169)
T ss_pred ccCcCcchhhhhhccc---ccccCc
Confidence 3567899999997532 114666
No 170
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=66.48 E-value=3.7 Score=27.83 Aligned_cols=23 Identities=30% Similarity=0.531 Sum_probs=16.2
Q ss_pred cccccccccccc-Cceec--CCCCcc
Q psy18179 16 SVLCLVCQGILI-KPIKL--PCNHHV 38 (108)
Q Consensus 16 ~~~C~IC~~~~~-~p~~l--~CgH~f 38 (108)
.|.||+|...+. .+..+ +.||+|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 378999999886 23334 568877
No 171
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=66.06 E-value=3.9 Score=19.05 Aligned_cols=11 Identities=27% Similarity=0.567 Sum_probs=6.8
Q ss_pred ccccccccccc
Q psy18179 17 VLCLVCQGILI 27 (108)
Q Consensus 17 ~~C~IC~~~~~ 27 (108)
+.||-|...|.
T Consensus 3 i~Cp~C~~~y~ 13 (36)
T PF13717_consen 3 ITCPNCQAKYE 13 (36)
T ss_pred EECCCCCCEEe
Confidence 45666766555
No 172
>KOG0827|consensus
Probab=65.05 E-value=0.59 Score=33.66 Aligned_cols=45 Identities=20% Similarity=0.304 Sum_probs=35.5
Q ss_pred ccccccccccCc----eecCCCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 18 LCLVCQGILIKP----IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 18 ~C~IC~~~~~~p----~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
.|.||...+..- ..+.|||.+...||.+|+... ..||.|+..+..
T Consensus 198 sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~-~kl~~~~rel~~ 246 (465)
T KOG0827|consen 198 SLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATK-RKLPSCRRELPK 246 (465)
T ss_pred hhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHH-HHhHHHHhhhhh
Confidence 577888766632 346899999999999999874 459999988763
No 173
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=63.59 E-value=5.1 Score=31.34 Aligned_cols=55 Identities=20% Similarity=0.529 Sum_probs=41.8
Q ss_pred CCCCCCCccccccccccccCce----------ecCCCCcc--------------------hHHhHHHHhhc-------CC
Q psy18179 9 NNTLTPDSVLCLVCQGILIKPI----------KLPCNHHV--------------------CLECLQRICDN-------SN 51 (108)
Q Consensus 9 ~~~~~~~~~~C~IC~~~~~~p~----------~l~CgH~f--------------------C~~Ci~~~~~~-------~~ 51 (108)
.+.++.|...|.-|+..+.+|. .+.||..| |..|..++... ..
T Consensus 61 ~~~ippD~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~ 140 (711)
T TIGR00143 61 LSIIPADVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQP 140 (711)
T ss_pred ceecCCchhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCC
Confidence 3556778899999999888763 24788877 99999987551 23
Q ss_pred Ccccccccccch
Q psy18179 52 LSCPMCRKRLSI 63 (108)
Q Consensus 52 ~~CP~Cr~~~~~ 63 (108)
..||.|+-.+..
T Consensus 141 ~~C~~Cgp~l~l 152 (711)
T TIGR00143 141 IACPRCGPQLNF 152 (711)
T ss_pred ccCCCCCcEEEE
Confidence 679999887753
No 174
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=63.39 E-value=7.8 Score=16.64 Aligned_cols=10 Identities=30% Similarity=1.148 Sum_probs=7.9
Q ss_pred cccccccccc
Q psy18179 53 SCPMCRKRLS 62 (108)
Q Consensus 53 ~CP~Cr~~~~ 62 (108)
.||+|.+.+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 5999988765
No 175
>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=62.11 E-value=2.6 Score=30.55 Aligned_cols=30 Identities=23% Similarity=0.517 Sum_probs=0.0
Q ss_pred eecCCCCcchHHhHHHHhh-----cCCCcccccccccc
Q psy18179 30 IKLPCNHHVCLECLQRICD-----NSNLSCPMCRKRLS 62 (108)
Q Consensus 30 ~~l~CgH~fC~~Ci~~~~~-----~~~~~CP~Cr~~~~ 62 (108)
|.+.|||.+=.. .|-. .....||+|+..-+
T Consensus 305 VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 305 VYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp --------------------------------------
T ss_pred eeccccceeeec---ccccccccccccccCCCccccCC
Confidence 346899986543 4432 12467999997654
No 176
>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=62.03 E-value=1.4 Score=17.83 Aligned_cols=11 Identities=18% Similarity=0.549 Sum_probs=5.1
Q ss_pred ccccccccccC
Q psy18179 18 LCLVCQGILIK 28 (108)
Q Consensus 18 ~C~IC~~~~~~ 28 (108)
.|++|...|..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 34555444443
No 177
>KOG3476|consensus
Probab=61.78 E-value=1.5 Score=24.86 Aligned_cols=38 Identities=26% Similarity=0.750 Sum_probs=28.5
Q ss_pred CccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
....|-||......| |..||..|... ...|.+|++.+.
T Consensus 53 ~~~kC~iCk~~vHQ~-----GshYC~tCAY~-----KgiCAMCGKki~ 90 (100)
T KOG3476|consen 53 ALAKCRICKQLVHQP-----GSHYCQTCAYK-----KGICAMCGKKIL 90 (100)
T ss_pred ccchhHHHHHHhcCC-----cchhHhHhhhh-----hhHHHHhhhHhh
Confidence 346799999888877 66699999753 235999988764
No 178
>KOG1729|consensus
Probab=61.70 E-value=2.3 Score=29.56 Aligned_cols=51 Identities=20% Similarity=0.412 Sum_probs=32.5
Q ss_pred CCCCccccccccccccCce-----ecCCCCcchHHhHHHHhh------cCCCcccccccccc
Q psy18179 12 LTPDSVLCLVCQGILIKPI-----KLPCNHHVCLECLQRICD------NSNLSCPMCRKRLS 62 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~-----~l~CgH~fC~~Ci~~~~~------~~~~~CP~Cr~~~~ 62 (108)
|+.+...|.+|........ .-.||+.||..|-...+. +....|+.|-..+.
T Consensus 164 PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~ 225 (288)
T KOG1729|consen 164 PDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELE 225 (288)
T ss_pred CcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHh
Confidence 4556789999998422221 237999999999765332 12236888865553
No 179
>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=61.53 E-value=4.8 Score=25.38 Aligned_cols=24 Identities=25% Similarity=0.724 Sum_probs=16.1
Q ss_pred CCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 35 NHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 35 gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.+.||..|-.+.+. .||.|..++.
T Consensus 27 ~~~fC~kCG~~tI~----~Cp~C~~~Ir 50 (158)
T PF10083_consen 27 REKFCSKCGAKTIT----SCPNCSTPIR 50 (158)
T ss_pred HHHHHHHhhHHHHH----HCcCCCCCCC
Confidence 45799999877664 3666665553
No 180
>PRK11595 DNA utilization protein GntX; Provisional
Probab=60.95 E-value=7.9 Score=25.69 Aligned_cols=37 Identities=24% Similarity=0.604 Sum_probs=16.3
Q ss_pred ccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccc
Q psy18179 18 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKR 60 (108)
Q Consensus 18 ~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 60 (108)
.|.+|...+... ....|..|...+-.-. ..||.|..+
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l~~~~-~~C~~Cg~~ 43 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRALRTLK-TCCPQCGLP 43 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhCCccc-CcCccCCCc
Confidence 466666554321 1224556655432211 235555543
No 181
>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=60.40 E-value=6.7 Score=26.35 Aligned_cols=24 Identities=33% Similarity=0.897 Sum_probs=18.9
Q ss_pred chHHhHHHHhhcCCCcccccccccc
Q psy18179 38 VCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 38 fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
-|.+|-...-++.. .||+|+....
T Consensus 196 ~C~sC~qqIHRNAP-iCPlCK~KsR 219 (230)
T PF10146_consen 196 TCQSCHQQIHRNAP-ICPLCKAKSR 219 (230)
T ss_pred hhHhHHHHHhcCCC-CCcccccccc
Confidence 48999888777664 6999998755
No 182
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=60.01 E-value=5.7 Score=18.55 Aligned_cols=13 Identities=31% Similarity=0.641 Sum_probs=8.5
Q ss_pred cccccccccccCc
Q psy18179 17 VLCLVCQGILIKP 29 (108)
Q Consensus 17 ~~C~IC~~~~~~p 29 (108)
+.||-|...|.-|
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 4677777766644
No 183
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=59.38 E-value=4 Score=23.73 Aligned_cols=39 Identities=15% Similarity=0.318 Sum_probs=24.0
Q ss_pred cccCCCCCC-CCCccccccccccccCceec--CCCCcchHHh
Q psy18179 4 EDCNSNNTL-TPDSVLCLVCQGILIKPIKL--PCNHHVCLEC 42 (108)
Q Consensus 4 ~~~~~~~~~-~~~~~~C~IC~~~~~~p~~l--~CgH~fC~~C 42 (108)
++++--+.| ..++|+|.-|+-+-..-... .=|+.+|..|
T Consensus 57 EEL~V~ViP~q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 57 EELSVRVIPKQADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred CeEEEEEecCCCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 334444443 45789999998776643322 3467777776
No 184
>KOG0314|consensus
Probab=57.67 E-value=4.3 Score=29.92 Aligned_cols=48 Identities=19% Similarity=0.516 Sum_probs=36.6
Q ss_pred CCCCCccccccc-cccccCceec--CCCCcchHHhHHHHhhcCCCcccccccc
Q psy18179 11 TLTPDSVLCLVC-QGILIKPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKR 60 (108)
Q Consensus 11 ~~~~~~~~C~IC-~~~~~~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 60 (108)
.....++.|++| ...|.+...+ -|+-+||..||.+.+... .++.|.+.
T Consensus 214 ~~~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~~--~~~~c~~~ 264 (448)
T KOG0314|consen 214 GELPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALISK--SMCVCGAS 264 (448)
T ss_pred ccCCccccCceecchhhHHHHHhhhhhcccCCccccccccccc--cCCcchhh
Confidence 445678999999 7788887777 488999999999877644 36666553
No 185
>PF06869 DUF1258: Protein of unknown function (DUF1258); InterPro: IPR009667 This family represents a conserved region approximately 260 residues long within a number of hypothetical proteins of unknown function that seem to be specific to Caenorhabditis elegans. Note that this family contains a number of conserved cysteine and histidine residues.
Probab=57.65 E-value=16 Score=25.04 Aligned_cols=53 Identities=17% Similarity=0.373 Sum_probs=31.3
Q ss_pred CCcchHHhHHHHhhcCCCccccc--ccccchhhhcCCCCChHHHHHHHHHHHHHhhHHHHhhhh
Q psy18179 35 NHHVCLECLQRICDNSNLSCPMC--RKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQKLF 96 (108)
Q Consensus 35 gH~fC~~Ci~~~~~~~~~~CP~C--r~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 96 (108)
.|.||..|.. ... ....|-.| ...... .-......|.++++.+.++-.+-++.
T Consensus 17 ~h~~CN~CG~-~~~-~~~kC~~c~~~~vakf-------vRig~~~QL~dLV~~y~~~Il~ir~~ 71 (258)
T PF06869_consen 17 THFICNSCGK-VVE-SNEKCSCCGCGPVAKF-------VRIGGFSQLQDLVEQYLEDILEIREK 71 (258)
T ss_pred eehhhhhhhh-hhc-cCceeeccCCCccEEE-------EEEcHHHHHHHHHHHHHHHHHHHHHH
Confidence 4889999987 333 23357655 333321 12334466778888887776555543
No 186
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=57.08 E-value=5 Score=28.92 Aligned_cols=37 Identities=24% Similarity=0.453 Sum_probs=27.6
Q ss_pred CCCCCCCccccccccc-cccCceecCCCCcchHHhHHH
Q psy18179 9 NNTLTPDSVLCLVCQG-ILIKPIKLPCNHHVCLECLQR 45 (108)
Q Consensus 9 ~~~~~~~~~~C~IC~~-~~~~p~~l~CgH~fC~~Ci~~ 45 (108)
.+......+.|.-|.. ....-..+|||-.||+.|+.-
T Consensus 32 s~~~~~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~m 69 (441)
T COG4098 32 SIIIENGKYRCNRCGNTHIELFAKLPCGCLYCRNCLMM 69 (441)
T ss_pred ceecccCcEEehhcCCcchhhhcccccceEeehhhhhc
Confidence 3445566789999984 444556789999999999853
No 187
>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=56.85 E-value=11 Score=18.82 Aligned_cols=31 Identities=19% Similarity=0.383 Sum_probs=17.9
Q ss_pred CccccccccccccCc-eecCCCCcchHHhHHH
Q psy18179 15 DSVLCLVCQGILIKP-IKLPCNHHVCLECLQR 45 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p-~~l~CgH~fC~~Ci~~ 45 (108)
+=|.|..|...+... ....=|..||..|..+
T Consensus 25 ~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp TTSBETTTTCBTTTSSEEEETTEEEEHHHHHH
T ss_pred cccccCCCCCccCCCeeEeECCEEECHHHHhh
Confidence 346677777666644 2334456677766654
No 188
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=56.65 E-value=2.2 Score=20.59 Aligned_cols=25 Identities=24% Similarity=0.664 Sum_probs=13.7
Q ss_pred CCCCcchHHhHHHHhhcCCCccccccc
Q psy18179 33 PCNHHVCLECLQRICDNSNLSCPMCRK 59 (108)
Q Consensus 33 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 59 (108)
.|||.|=..- .........||.|+.
T Consensus 10 ~Cg~~fe~~~--~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQ--SISEDDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEE--EcCCCCCCcCCCCCC
Confidence 5666664322 111123467999988
No 189
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=56.29 E-value=11 Score=17.45 Aligned_cols=24 Identities=38% Similarity=0.801 Sum_probs=12.3
Q ss_pred hHHhHHHHhh-------cCCCcccccccccc
Q psy18179 39 CLECLQRICD-------NSNLSCPMCRKRLS 62 (108)
Q Consensus 39 C~~Ci~~~~~-------~~~~~CP~Cr~~~~ 62 (108)
|..|+.+... .....|+.|+-.+.
T Consensus 2 C~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~ 32 (35)
T PF07503_consen 2 CDDCLKEYFDPSNRRFHYQFISCTNCGPRYS 32 (35)
T ss_dssp -HHHHHHHCSTTSTTTT-TT--BTTCC-SCC
T ss_pred CHHHHHHHcCCCCCcccCcCccCCCCCCCEE
Confidence 6677766654 12357888876554
No 190
>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=56.10 E-value=4.1 Score=20.65 Aligned_cols=11 Identities=36% Similarity=1.093 Sum_probs=5.9
Q ss_pred cccccccccch
Q psy18179 53 SCPMCRKRLSI 63 (108)
Q Consensus 53 ~CP~Cr~~~~~ 63 (108)
.||+|..++..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 79999998873
No 191
>KOG1609|consensus
Probab=55.90 E-value=11 Score=25.79 Aligned_cols=47 Identities=21% Similarity=0.588 Sum_probs=33.8
Q ss_pred ccccccccccccC----ceecCCC-----CcchHHhHHHHhh-cCCCcccccccccc
Q psy18179 16 SVLCLVCQGILIK----PIKLPCN-----HHVCLECLQRICD-NSNLSCPMCRKRLS 62 (108)
Q Consensus 16 ~~~C~IC~~~~~~----p~~l~Cg-----H~fC~~Ci~~~~~-~~~~~CP~Cr~~~~ 62 (108)
...|-||...... +...||. +...+.|+..|.. ++...|..|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 5789999985542 4455653 2457999999998 44567999987655
No 192
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=54.03 E-value=9.1 Score=22.81 Aligned_cols=40 Identities=33% Similarity=0.743 Sum_probs=24.3
Q ss_pred ccccccccccCce--------------ecCCCCcchHHhHHHHhhcCCCcccccc
Q psy18179 18 LCLVCQGILIKPI--------------KLPCNHHVCLECLQRICDNSNLSCPMCR 58 (108)
Q Consensus 18 ~C~IC~~~~~~p~--------------~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr 58 (108)
.|--|+..|..+. -..|++.||.+|=.=+-. .-..||-|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe-~Lh~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHE-SLHCCPGCI 110 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhh-hccCCcCCC
Confidence 4888888776441 125888888888432222 223488774
No 193
>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=53.22 E-value=5.8 Score=15.63 Aligned_cols=9 Identities=44% Similarity=1.364 Sum_probs=3.4
Q ss_pred ccccccccc
Q psy18179 54 CPMCRKRLS 62 (108)
Q Consensus 54 CP~Cr~~~~ 62 (108)
||.|...+.
T Consensus 3 C~~C~~~~~ 11 (24)
T PF13894_consen 3 CPICGKSFR 11 (24)
T ss_dssp -SSTS-EES
T ss_pred CcCCCCcCC
Confidence 555554443
No 194
>PRK04179 rpl37e 50S ribosomal protein L37e; Reviewed
Probab=53.16 E-value=3.6 Score=21.76 Aligned_cols=25 Identities=20% Similarity=0.452 Sum_probs=19.9
Q ss_pred CCcchHHhHHHHhhcCCCccccccc
Q psy18179 35 NHHVCLECLQRICDNSNLSCPMCRK 59 (108)
Q Consensus 35 gH~fC~~Ci~~~~~~~~~~CP~Cr~ 59 (108)
.|++|..|-...+......|..|.-
T Consensus 16 tHt~CrRCG~~syh~qK~~CasCGy 40 (62)
T PRK04179 16 THIRCRRCGRHSYNVRKKYCAACGF 40 (62)
T ss_pred ccchhcccCcccccccccchhhcCC
Confidence 6899999988877755567998876
No 195
>KOG3362|consensus
Probab=52.17 E-value=4.6 Score=25.17 Aligned_cols=28 Identities=29% Similarity=0.667 Sum_probs=18.4
Q ss_pred ccccccccccccCceecCCCCcch-HHhHH
Q psy18179 16 SVLCLVCQGILIKPIKLPCNHHVC-LECLQ 44 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l~CgH~fC-~~Ci~ 44 (108)
--.|.||. ++..-..+.||-.|| ..|+.
T Consensus 118 r~fCaVCG-~~S~ysC~~CG~kyCsv~C~~ 146 (156)
T KOG3362|consen 118 RKFCAVCG-YDSKYSCVNCGTKYCSVRCLK 146 (156)
T ss_pred chhhhhcC-CCchhHHHhcCCceeechhhh
Confidence 45689998 444444568998887 34554
No 196
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=52.02 E-value=18 Score=18.25 Aligned_cols=28 Identities=25% Similarity=0.694 Sum_probs=18.3
Q ss_pred cccccccccc--CceecCCCCcchHHhHHHH
Q psy18179 18 LCLVCQGILI--KPIKLPCNHHVCLECLQRI 46 (108)
Q Consensus 18 ~C~IC~~~~~--~p~~l~CgH~fC~~Ci~~~ 46 (108)
.|+||.+-+. ..+.+.=| ..|..|+.+.
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 4888876543 33555666 6788888765
No 197
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=51.50 E-value=2.9 Score=17.84 Aligned_cols=7 Identities=43% Similarity=1.417 Sum_probs=4.5
Q ss_pred Ccccccc
Q psy18179 52 LSCPMCR 58 (108)
Q Consensus 52 ~~CP~Cr 58 (108)
+.||.|+
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 5677764
No 198
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=51.03 E-value=11 Score=18.42 Aligned_cols=23 Identities=30% Similarity=0.478 Sum_probs=12.4
Q ss_pred cccccccccCceecCCCCcchHH
Q psy18179 19 CLVCQGILIKPIKLPCNHHVCLE 41 (108)
Q Consensus 19 C~IC~~~~~~p~~l~CgH~fC~~ 41 (108)
|..|...-..=+-|.|+|.+|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCC
Confidence 55555433222345688877743
No 199
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=50.91 E-value=3.1 Score=23.15 Aligned_cols=13 Identities=31% Similarity=0.736 Sum_probs=8.7
Q ss_pred cccccccccccCc
Q psy18179 17 VLCLVCQGILIKP 29 (108)
Q Consensus 17 ~~C~IC~~~~~~p 29 (108)
+.||||.-.+...
T Consensus 2 llCP~C~v~l~~~ 14 (88)
T COG3809 2 LLCPICGVELVMS 14 (88)
T ss_pred cccCcCCceeeee
Confidence 4688887766643
No 200
>KOG0801|consensus
Probab=49.94 E-value=5.4 Score=25.43 Aligned_cols=26 Identities=27% Similarity=0.431 Sum_probs=14.2
Q ss_pred CCCccccccccccccCce---ecCCCCcc
Q psy18179 13 TPDSVLCLVCQGILIKPI---KLPCNHHV 38 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~---~l~CgH~f 38 (108)
..+.-+|.||++.+..-- .|||...|
T Consensus 174 ~ddkGECvICLEdL~~GdtIARLPCLCIY 202 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIARLPCLCIY 202 (205)
T ss_pred cccCCcEEEEhhhccCCCceeccceEEEe
Confidence 344556777777666322 34665444
No 201
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=49.84 E-value=3 Score=17.18 Aligned_cols=12 Identities=17% Similarity=0.548 Sum_probs=6.3
Q ss_pred ccccccccccCc
Q psy18179 18 LCLVCQGILIKP 29 (108)
Q Consensus 18 ~C~IC~~~~~~p 29 (108)
.|.||...|..+
T Consensus 2 ~C~~C~~~f~s~ 13 (25)
T PF12874_consen 2 YCDICNKSFSSE 13 (25)
T ss_dssp EETTTTEEESSH
T ss_pred CCCCCCCCcCCH
Confidence 455665555443
No 202
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=49.72 E-value=21 Score=22.37 Aligned_cols=24 Identities=21% Similarity=0.386 Sum_probs=16.2
Q ss_pred CCCCcchHHhHHHHhh----------cCCCccccccccc
Q psy18179 33 PCNHHVCLECLQRICD----------NSNLSCPMCRKRL 61 (108)
Q Consensus 33 ~CgH~fC~~Ci~~~~~----------~~~~~CP~Cr~~~ 61 (108)
.+||.|= .|+. .+-..||+|+...
T Consensus 9 ~~gH~FE-----gWF~ss~~fd~Q~~~glv~CP~Cgs~~ 42 (148)
T PF06676_consen 9 ENGHEFE-----GWFRSSAAFDRQQARGLVSCPVCGSTE 42 (148)
T ss_pred CCCCccc-----eecCCHHHHHHHHHcCCccCCCCCCCe
Confidence 4688773 4664 3457899999643
No 203
>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=49.31 E-value=15 Score=16.31 Aligned_cols=34 Identities=26% Similarity=0.517 Sum_probs=17.2
Q ss_pred cccccccccCc-eec-CCCCcchHHhHHHHhhcCCCccccccccc
Q psy18179 19 CLVCQGILIKP-IKL-PCNHHVCLECLQRICDNSNLSCPMCRKRL 61 (108)
Q Consensus 19 C~IC~~~~~~p-~~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 61 (108)
|..|.+.+... ..+ .=+..|...| +.|..|+..+
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~C---------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPEC---------FKCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccC---------CCCcccCCcC
Confidence 66777766542 222 2344444444 3466665544
No 204
>PLN02248 cellulose synthase-like protein
Probab=49.26 E-value=14 Score=30.56 Aligned_cols=29 Identities=21% Similarity=0.760 Sum_probs=24.6
Q ss_pred CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 33 PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 33 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.|+...|+.|....++.++ .||-|+.+..
T Consensus 149 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 177 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGG-ICPGCKEPYK 177 (1135)
T ss_pred cccchhHHhHhhhhhhcCC-CCCCCccccc
Confidence 5888999999999888755 6999998774
No 205
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=49.24 E-value=5.6 Score=20.33 Aligned_cols=13 Identities=23% Similarity=0.764 Sum_probs=7.2
Q ss_pred CCcccccccccch
Q psy18179 51 NLSCPMCRKRLSI 63 (108)
Q Consensus 51 ~~~CP~Cr~~~~~ 63 (108)
..+||.|...+..
T Consensus 24 PatCP~C~a~~~~ 36 (54)
T PF09237_consen 24 PATCPICGAVIRQ 36 (54)
T ss_dssp -EE-TTT--EESS
T ss_pred CCCCCcchhhccc
Confidence 3689999998874
No 206
>KOG2231|consensus
Probab=49.22 E-value=15 Score=28.68 Aligned_cols=46 Identities=26% Similarity=0.612 Sum_probs=34.1
Q ss_pred ccccccccccCceecCCCC-cchHHhHHHHhhc-C----CCcccccccccch
Q psy18179 18 LCLVCQGILIKPIKLPCNH-HVCLECLQRICDN-S----NLSCPMCRKRLSI 63 (108)
Q Consensus 18 ~C~IC~~~~~~p~~l~CgH-~fC~~Ci~~~~~~-~----~~~CP~Cr~~~~~ 63 (108)
.|+||-.-+.-+..=.||| ..|..|..+.... . ...||.|+..+..
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 4889988777666668999 8999999876541 1 3457999986543
No 207
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=48.62 E-value=59 Score=22.58 Aligned_cols=38 Identities=26% Similarity=0.611 Sum_probs=24.3
Q ss_pred CccccccccccccC--cee--c----CCCCcchHHhHHHHhhcCCCccc
Q psy18179 15 DSVLCLVCQGILIK--PIK--L----PCNHHVCLECLQRICDNSNLSCP 55 (108)
Q Consensus 15 ~~~~C~IC~~~~~~--p~~--l----~CgH~fC~~Ci~~~~~~~~~~CP 55 (108)
....|+||+++-.. |.. + --|| +.|+++|-.-.+..||
T Consensus 29 tLsfChiCfEl~iegvpks~llHtkSlRGH---rdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 29 TLSFCHICFELSIEGVPKSNLLHTKSLRGH---RDCFEKYHLIANQDCP 74 (285)
T ss_pred ceeecceeeccccccCccccccccccccch---HHHHHHHHHHHcCCCC
Confidence 34568888876553 322 2 2677 7899998664445688
No 208
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=48.04 E-value=9.5 Score=16.12 Aligned_cols=10 Identities=30% Similarity=1.358 Sum_probs=6.6
Q ss_pred cccccccccc
Q psy18179 53 SCPMCRKRLS 62 (108)
Q Consensus 53 ~CP~Cr~~~~ 62 (108)
.||.|+..+.
T Consensus 4 ~C~~CgR~F~ 13 (25)
T PF13913_consen 4 PCPICGRKFN 13 (25)
T ss_pred cCCCCCCEEC
Confidence 4777776665
No 209
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=47.91 E-value=8 Score=16.95 Aligned_cols=10 Identities=40% Similarity=1.281 Sum_probs=5.4
Q ss_pred cccccccccc
Q psy18179 53 SCPMCRKRLS 62 (108)
Q Consensus 53 ~CP~Cr~~~~ 62 (108)
.||.|...+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4899988776
No 210
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=47.71 E-value=14 Score=24.11 Aligned_cols=31 Identities=19% Similarity=0.642 Sum_probs=22.0
Q ss_pred CCCCCCccccccccccccCceecCCCCcchHHh
Q psy18179 10 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLEC 42 (108)
Q Consensus 10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH~fC~~C 42 (108)
.....+.-.|..|.+.=.. .-.|-|..|..|
T Consensus 54 ~~~~~~~~~C~nCg~~GH~--~~DCP~~iC~~C 84 (190)
T COG5082 54 SAIREENPVCFNCGQNGHL--RRDCPHSICYNC 84 (190)
T ss_pred ccccccccccchhcccCcc--cccCChhHhhhc
Confidence 3566677788888876443 335668999999
No 211
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=47.48 E-value=13 Score=24.34 Aligned_cols=39 Identities=26% Similarity=0.802 Sum_probs=25.7
Q ss_pred Ccccccccccc-ccCce----ec---CCCCcchHHhHHHHhhcCCCccccccc
Q psy18179 15 DSVLCLVCQGI-LIKPI----KL---PCNHHVCLECLQRICDNSNLSCPMCRK 59 (108)
Q Consensus 15 ~~~~C~IC~~~-~~~p~----~l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 59 (108)
..+.|.+|.+. +--|. +. .|+..|.+.|+.+ ..||.|..
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~------~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK------KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC------CCCCCcHh
Confidence 46789999852 22221 11 6999999999762 34999954
No 212
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=46.44 E-value=29 Score=22.41 Aligned_cols=30 Identities=23% Similarity=0.331 Sum_probs=18.0
Q ss_pred CCcccccccccchhhhcCCCCChHHHHHHHHHHHHH
Q psy18179 51 NLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 86 (108)
Q Consensus 51 ~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 86 (108)
++.||.|+..+.. ..+......+.+.++..
T Consensus 132 ~F~Cp~Cg~~L~~------~d~s~~i~~l~~~i~~l 161 (176)
T COG1675 132 GFTCPKCGEDLEE------YDSSEEIEELESELDEL 161 (176)
T ss_pred CCCCCCCCchhhh------ccchHHHHHHHHHHHHH
Confidence 4789999998874 33334444454444433
No 213
>KOG3993|consensus
Probab=46.28 E-value=3 Score=30.57 Aligned_cols=43 Identities=23% Similarity=0.482 Sum_probs=29.8
Q ss_pred CCCCCCccccccccccccCceec---CCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 10 NTLTPDSVLCLVCQGILIKPIKL---PCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 10 ~~~~~~~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
+...+.++.|.+|...|.++..| .|-.... -...||.|.+.++
T Consensus 261 i~n~iGdyiCqLCK~kYeD~F~LAQHrC~RIV~----------vEYrCPEC~KVFs 306 (500)
T KOG3993|consen 261 IPNVIGDYICQLCKEKYEDAFALAQHRCPRIVH----------VEYRCPECDKVFS 306 (500)
T ss_pred CcccHHHHHHHHHHHhhhhHHHHhhccCCeeEE----------eeecCCccccccc
Confidence 34556789999999999999877 3543211 1356888887775
No 214
>KOG3475|consensus
Probab=45.89 E-value=9.5 Score=21.50 Aligned_cols=29 Identities=21% Similarity=0.486 Sum_probs=21.7
Q ss_pred CCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 34 CNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 34 CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
=.|+.|..|-.+.+..+..+|..|.-+-.
T Consensus 14 kshtlC~RCG~~syH~QKstC~~CGYpaa 42 (92)
T KOG3475|consen 14 KSHTLCRRCGRRSYHIQKSTCSSCGYPAA 42 (92)
T ss_pred cchHHHHHhCchhhhhhcccccccCCcch
Confidence 35899999998877645557999986543
No 215
>KOG1829|consensus
Probab=44.95 E-value=7.9 Score=29.57 Aligned_cols=42 Identities=29% Similarity=0.719 Sum_probs=26.6
Q ss_pred CCcccccccccc-ccCce-----e--cCCCCcchHHhHHHHhhcCCCccccccc
Q psy18179 14 PDSVLCLVCQGI-LIKPI-----K--LPCNHHVCLECLQRICDNSNLSCPMCRK 59 (108)
Q Consensus 14 ~~~~~C~IC~~~-~~~p~-----~--l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 59 (108)
...+.|.+|... ..-|. . ..||+.|+..|+.+. +..||.|-.
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~----s~~CPrC~R 558 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRK----SPCCPRCER 558 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhcc----CCCCCchHH
Confidence 346778888431 11232 1 269999999998752 334999944
No 216
>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=44.81 E-value=12 Score=22.29 Aligned_cols=11 Identities=36% Similarity=0.908 Sum_probs=8.5
Q ss_pred eecCCCCcchH
Q psy18179 30 IKLPCNHHVCL 40 (108)
Q Consensus 30 ~~l~CgH~fC~ 40 (108)
+.-.|||.||.
T Consensus 25 vkc~CGh~f~d 35 (112)
T PF08882_consen 25 VKCDCGHEFCD 35 (112)
T ss_pred eeccCCCeecC
Confidence 34479999995
No 217
>KOG1842|consensus
Probab=44.76 E-value=8.7 Score=28.41 Aligned_cols=26 Identities=19% Similarity=0.275 Sum_probs=18.1
Q ss_pred CCCCCCCCCccccccccccccCceec
Q psy18179 7 NSNNTLTPDSVLCLVCQGILIKPIKL 32 (108)
Q Consensus 7 ~~~~~~~~~~~~C~IC~~~~~~p~~l 32 (108)
+.......+.|.||||+..|.+=-.|
T Consensus 6 ~~hs~~i~egflCPiC~~dl~~~~~L 31 (505)
T KOG1842|consen 6 DNHSGEILEGFLCPICLLDLPNLSAL 31 (505)
T ss_pred CCCcchhhhcccCchHhhhhhhHHHH
Confidence 33345566789999999988864444
No 218
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=44.15 E-value=9.7 Score=25.73 Aligned_cols=14 Identities=29% Similarity=0.944 Sum_probs=8.1
Q ss_pred ccccccccccccCc
Q psy18179 16 SVLCLVCQGILIKP 29 (108)
Q Consensus 16 ~~~C~IC~~~~~~p 29 (108)
.|.|+||+.+|-.|
T Consensus 260 GfvCsVCLsvfc~p 273 (296)
T COG5242 260 GFVCSVCLSVFCRP 273 (296)
T ss_pred eeehhhhheeecCC
Confidence 45666666665444
No 219
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=43.97 E-value=14 Score=22.54 Aligned_cols=14 Identities=7% Similarity=0.195 Sum_probs=9.1
Q ss_pred cCCCcccccccccc
Q psy18179 49 NSNLSCPMCRKRLS 62 (108)
Q Consensus 49 ~~~~~CP~Cr~~~~ 62 (108)
+....||.|+..+.
T Consensus 24 k~p~vcP~cg~~~~ 37 (129)
T TIGR02300 24 RRPAVSPYTGEQFP 37 (129)
T ss_pred CCCccCCCcCCccC
Confidence 34466888877655
No 220
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=43.83 E-value=8.5 Score=30.28 Aligned_cols=66 Identities=20% Similarity=0.327 Sum_probs=34.7
Q ss_pred ccccccccccccCce-----ec--CCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhh
Q psy18179 16 SVLCLVCQGILIKPI-----KL--PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYK 88 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~-----~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 88 (108)
.+.|.-|..++.-|. ++ .=+..+|..|-.. ..-...||.|....-. ....- ...+.+.+.++||
T Consensus 435 ~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~--~~~p~~Cp~Cgs~~L~------~~G~G-terieeeL~~~FP 505 (730)
T COG1198 435 LLLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQ--EPIPQSCPECGSEHLR------AVGPG-TERIEEELKRLFP 505 (730)
T ss_pred eeecccCCCcccCCCCCcceEEecCCCeeEeCCCCCC--CCCCCCCCCCCCCeeE------Eeccc-HHHHHHHHHHHCC
Confidence 355666666666431 22 2345567777544 2223579999987221 01111 2445566777776
Q ss_pred HH
Q psy18179 89 KE 90 (108)
Q Consensus 89 ~~ 90 (108)
+.
T Consensus 506 ~~ 507 (730)
T COG1198 506 GA 507 (730)
T ss_pred CC
Confidence 53
No 221
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=43.65 E-value=50 Score=17.30 Aligned_cols=11 Identities=36% Similarity=1.041 Sum_probs=7.3
Q ss_pred Ccccccccccc
Q psy18179 52 LSCPMCRKRLS 62 (108)
Q Consensus 52 ~~CP~Cr~~~~ 62 (108)
..||.|+.+++
T Consensus 4 kHC~~CG~~Ip 14 (59)
T PF09889_consen 4 KHCPVCGKPIP 14 (59)
T ss_pred CcCCcCCCcCC
Confidence 35777777665
No 222
>KOG2113|consensus
Probab=43.35 E-value=29 Score=24.66 Aligned_cols=44 Identities=11% Similarity=-0.081 Sum_probs=30.3
Q ss_pred CccccccccccccCceecCCCC-cchHHhHHHHhhcCCCccccccccc
Q psy18179 15 DSVLCLVCQGILIKPIKLPCNH-HVCLECLQRICDNSNLSCPMCRKRL 61 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~~l~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~ 61 (108)
..+.|-.|..-+-.-.-.+|+| .||..|... .....||.|....
T Consensus 342 s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~~---s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLSTIWSGGNMNLSPGSLASA---SASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCceeeeEeecCCcccChhhhhhc---ccCCccccccccc
Confidence 3466777776655555569999 589999873 2346799997643
No 223
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=43.32 E-value=20 Score=24.35 Aligned_cols=22 Identities=18% Similarity=0.605 Sum_probs=16.3
Q ss_pred ccccccccccCceecCCCCcchHHhHHHHh
Q psy18179 18 LCLVCQGILIKPIKLPCNHHVCLECLQRIC 47 (108)
Q Consensus 18 ~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~ 47 (108)
.|+||. ..-.+.+|..|+...+
T Consensus 1 ~C~iC~--------~~~~~~~C~~C~~~~L 22 (302)
T PF10186_consen 1 QCPICH--------NSRRRFYCANCVNNRL 22 (302)
T ss_pred CCCCCC--------CCCCCeECHHHHHHHH
Confidence 489998 3455678999998754
No 224
>KOG4443|consensus
Probab=42.90 E-value=14 Score=28.68 Aligned_cols=56 Identities=18% Similarity=0.376 Sum_probs=35.8
Q ss_pred cCCCCCCCCCccccccccccccCce--ec---CCCCcchHHhHHHHhhc----CCCccccccccc
Q psy18179 6 CNSNNTLTPDSVLCLVCQGILIKPI--KL---PCNHHVCLECLQRICDN----SNLSCPMCRKRL 61 (108)
Q Consensus 6 ~~~~~~~~~~~~~C~IC~~~~~~p~--~l---~CgH~fC~~Ci~~~~~~----~~~~CP~Cr~~~ 61 (108)
+........-.+.|+||...=..+- .+ .||-.|...|+..|+.. ++..||-|+.-.
T Consensus 8 ~s~~~~~~~~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe 72 (694)
T KOG4443|consen 8 VSSSDKAIIVCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCE 72 (694)
T ss_pred EeccchhhhhhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeee
Confidence 3344445556778888876544322 12 68888889999888762 235688877543
No 225
>KOG0289|consensus
Probab=42.64 E-value=1.1e+02 Score=22.94 Aligned_cols=46 Identities=17% Similarity=0.373 Sum_probs=38.3
Q ss_pred cccccccccccCceecC-CCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 17 VLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
+.|.|-.++..+||.-+ =||.|=++=|++++...+ .+|.-..+++.
T Consensus 1 m~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G-~DPIt~~pLs~ 47 (506)
T KOG0289|consen 1 MVCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETG-KDPITNEPLSI 47 (506)
T ss_pred CeecccCCCCCCccccccccchHHHHHHHHHHHHcC-CCCCCCCcCCH
Confidence 36999999999999875 899999999999998665 48988776653
No 226
>KOG2042|consensus
Probab=42.48 E-value=52 Score=26.89 Aligned_cols=70 Identities=21% Similarity=0.302 Sum_probs=54.1
Q ss_pred CCCccccccccccccCceecC-CCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhHH
Q psy18179 13 TPDSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKE 90 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 90 (108)
..+++.=|+=..++.+||.+| =|++.+++=|.+.+-... +=|.||.+++ ......|.++...++.|....
T Consensus 867 vpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~-tdPFNR~pLt-------~d~v~pn~eLK~kI~~~~~ek 937 (943)
T KOG2042|consen 867 VPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDC-TDPFNREPLT-------EDMVSPNEELKAKIRCWIKEK 937 (943)
T ss_pred CchhhhCccccccCCCCccCCcccccccHHHHHHHHhcCC-CCccccccCc-------hhhcCCCHHHHHHHHHHHHHh
Confidence 445666677778899999998 899999999988877442 3489999988 345667788888888877653
No 227
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=42.23 E-value=7.6 Score=21.51 Aligned_cols=24 Identities=21% Similarity=0.433 Sum_probs=18.3
Q ss_pred hHHhHHHHhhcCCCcccccccccc
Q psy18179 39 CLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 39 C~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
|..|-+.|+.++-..|..|-..+.
T Consensus 3 C~~C~~~~F~~KiGRC~rCM~QLt 26 (77)
T PF12292_consen 3 CNDCQESWFWQKIGRCQRCMWQLT 26 (77)
T ss_pred hhhHHHHHHHHHhccHHHHHHHHH
Confidence 778888888876667999976544
No 228
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=41.98 E-value=13 Score=29.78 Aligned_cols=31 Identities=19% Similarity=0.573 Sum_probs=23.0
Q ss_pred cccccccccccC-c--e------ecCCCCcchHHhHHHHh
Q psy18179 17 VLCLVCQGILIK-P--I------KLPCNHHVCLECLQRIC 47 (108)
Q Consensus 17 ~~C~IC~~~~~~-p--~------~l~CgH~fC~~Ci~~~~ 47 (108)
-.|..|...|.. . + .-.||..||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 469999998852 1 1 23799999999986554
No 229
>KOG4451|consensus
Probab=41.96 E-value=19 Score=24.34 Aligned_cols=26 Identities=38% Similarity=0.910 Sum_probs=19.2
Q ss_pred cchHHhHHHHhhcCCCcccccccccch
Q psy18179 37 HVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 37 ~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
..|.+|-...-+.. ..||+|+....+
T Consensus 250 K~ClsChqqIHRNA-PiCPlCKaKsRS 275 (286)
T KOG4451|consen 250 KVCLSCHQQIHRNA-PICPLCKAKSRS 275 (286)
T ss_pred hHHHHHHHHHhcCC-CCCcchhhcccc
Confidence 35888888776655 469999987653
No 230
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=41.71 E-value=15 Score=30.82 Aligned_cols=51 Identities=22% Similarity=0.481 Sum_probs=29.5
Q ss_pred CCCccccccccccccCceecCCCCc-----chHHhHHHHhhc--CCCcccccccccch
Q psy18179 13 TPDSVLCLVCQGILIKPIKLPCNHH-----VCLECLQRICDN--SNLSCPMCRKRLSI 63 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~l~CgH~-----fC~~Ci~~~~~~--~~~~CP~Cr~~~~~ 63 (108)
....+.||-|.........-.||.. +|..|-...-.. ....||.|..++..
T Consensus 664 EV~~rkCPkCG~~t~~~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 664 EVGRRRCPSCGTETYENRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTP 721 (1337)
T ss_pred EEEEEECCCCCCccccccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccc
Confidence 3346789988875443322248754 377775432111 12369999877764
No 231
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=41.41 E-value=6.1 Score=27.35 Aligned_cols=29 Identities=21% Similarity=0.488 Sum_probs=20.0
Q ss_pred CCCcchHHhHHHHhhcC---CCcccccccccc
Q psy18179 34 CNHHVCLECLQRICDNS---NLSCPMCRKRLS 62 (108)
Q Consensus 34 CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~ 62 (108)
=.|.||..|-.+..... ...||.|+..+-
T Consensus 109 ~~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~f 140 (279)
T COG2816 109 RSHRFCGRCGTKTYPREGGWARVCPKCGHEHF 140 (279)
T ss_pred hhCcCCCCCCCcCccccCceeeeCCCCCCccC
Confidence 56889999987654422 256999987654
No 232
>KOG4021|consensus
Probab=41.05 E-value=21 Score=23.56 Aligned_cols=23 Identities=22% Similarity=0.586 Sum_probs=13.8
Q ss_pred HHhHHHHhhcCCCcccccccccc
Q psy18179 40 LECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 40 ~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
+.||.+--..-+..||+||...-
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL 119 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYL 119 (239)
T ss_pred hHHHhhcCeecCCCCCccccceE
Confidence 45665533322346999998654
No 233
>KOG4642|consensus
Probab=40.88 E-value=40 Score=23.26 Aligned_cols=68 Identities=15% Similarity=0.195 Sum_probs=49.8
Q ss_pred CccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccchhhhcCCCCChHHHHHHHHHHHHHhhH
Q psy18179 15 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK 89 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 89 (108)
+.+-|.|=++++.+|+..|=|-++=+.=|...+..-+.-=|.-|.++. ...+.+|..+...+..+...
T Consensus 210 d~lcgkIt~el~~~pvi~psgIty~ra~I~Ehl~rvghfdpvtr~~Lt-------e~q~ipN~alkevIa~fl~~ 277 (284)
T KOG4642|consen 210 DYLCGKITLELMREPVITPSGITYDRADIEEHLQRVGHFDPVTRWPLT-------EYQLIPNLALKEVIAAFLKE 277 (284)
T ss_pred chhhhhhhHHhhcCCccCccccchhHHHHHHHHHHhccCCchhcccCC-------HHhhccchHHHHHHHHHHHh
Confidence 445568999999999999999999999998887743322477777776 34456667777777766543
No 234
>COG4640 Predicted membrane protein [Function unknown]
Probab=39.40 E-value=19 Score=26.41 Aligned_cols=9 Identities=22% Similarity=1.032 Sum_probs=5.1
Q ss_pred ccccccccc
Q psy18179 54 CPMCRKRLS 62 (108)
Q Consensus 54 CP~Cr~~~~ 62 (108)
||.|+.++.
T Consensus 18 C~qCG~~~t 26 (465)
T COG4640 18 CTQCGHKFT 26 (465)
T ss_pred ccccCCcCC
Confidence 555555554
No 235
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=39.12 E-value=13 Score=19.17 Aligned_cols=9 Identities=33% Similarity=1.043 Sum_probs=6.2
Q ss_pred ccccccccc
Q psy18179 17 VLCLVCQGI 25 (108)
Q Consensus 17 ~~C~IC~~~ 25 (108)
+.||+|..-
T Consensus 5 i~CP~CgnK 13 (55)
T PF14205_consen 5 ILCPICGNK 13 (55)
T ss_pred EECCCCCCc
Confidence 468888754
No 236
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=38.86 E-value=47 Score=19.11 Aligned_cols=34 Identities=18% Similarity=0.272 Sum_probs=22.1
Q ss_pred CCCCccccccccccccCceec---CCCCcchHHhHHH
Q psy18179 12 LTPDSVLCLVCQGILIKPIKL---PCNHHVCLECLQR 45 (108)
Q Consensus 12 ~~~~~~~C~IC~~~~~~p~~l---~CgH~fC~~Ci~~ 45 (108)
.......|.||....--.+.- .|...|.-.|...
T Consensus 51 ~~~~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 51 PSRFKLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred chhcCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 334588999999873322221 3777888888754
No 237
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=37.84 E-value=7.1 Score=17.11 Aligned_cols=9 Identities=22% Similarity=0.586 Sum_probs=2.9
Q ss_pred ccccccccc
Q psy18179 19 CLVCQGILI 27 (108)
Q Consensus 19 C~IC~~~~~ 27 (108)
|+.|...+.
T Consensus 4 C~rC~~~~~ 12 (30)
T PF06827_consen 4 CPRCWNYIE 12 (30)
T ss_dssp -TTT--BBE
T ss_pred CccCCCcce
Confidence 555555443
No 238
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=37.53 E-value=65 Score=16.92 Aligned_cols=11 Identities=27% Similarity=0.763 Sum_probs=9.3
Q ss_pred Ccccccccccc
Q psy18179 52 LSCPMCRKRLS 62 (108)
Q Consensus 52 ~~CP~Cr~~~~ 62 (108)
..|++|.+.++
T Consensus 9 ~HC~VCg~aIp 19 (64)
T COG4068 9 RHCVVCGKAIP 19 (64)
T ss_pred ccccccCCcCC
Confidence 46999999887
No 239
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=37.44 E-value=19 Score=16.41 Aligned_cols=9 Identities=33% Similarity=1.040 Sum_probs=6.4
Q ss_pred Ccccccccc
Q psy18179 52 LSCPMCRKR 60 (108)
Q Consensus 52 ~~CP~Cr~~ 60 (108)
..||.|...
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 358888764
No 240
>COG2126 RPL37A Ribosomal protein L37E [Translation, ribosomal structure and biogenesis]
Probab=36.79 E-value=13 Score=19.44 Aligned_cols=28 Identities=21% Similarity=0.360 Sum_probs=21.2
Q ss_pred CCCcchHHhHHHHhhcCCCccccccccc
Q psy18179 34 CNHHVCLECLQRICDNSNLSCPMCRKRL 61 (108)
Q Consensus 34 CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 61 (108)
=.|+-|..|-...+......|..|...-
T Consensus 14 ~tH~~CRRCGr~syhv~k~~CaaCGfgr 41 (61)
T COG2126 14 KTHIRCRRCGRRSYHVRKKYCAACGFGR 41 (61)
T ss_pred cceehhhhccchheeeccceecccCCCC
Confidence 3588899998887775556799998763
No 241
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=36.58 E-value=33 Score=15.95 Aligned_cols=29 Identities=21% Similarity=0.338 Sum_probs=17.2
Q ss_pred cccccccccccCceecCCCCcchHHhHHH
Q psy18179 17 VLCLVCQGILIKPIKLPCNHHVCLECLQR 45 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~ 45 (108)
..|..+.+....-.-..|+-.+|..|+..
T Consensus 4 ~~C~~H~~~~~~~~C~~C~~~~C~~C~~~ 32 (42)
T PF00643_consen 4 PKCPEHPEEPLSLFCEDCNEPLCSECTVS 32 (42)
T ss_dssp SB-SSTTTSBEEEEETTTTEEEEHHHHHT
T ss_pred ccCccCCccceEEEecCCCCccCccCCCC
Confidence 45666665322222347888899999765
No 242
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=36.06 E-value=18 Score=19.22 Aligned_cols=11 Identities=36% Similarity=1.090 Sum_probs=9.1
Q ss_pred Ccccccccccc
Q psy18179 52 LSCPMCRKRLS 62 (108)
Q Consensus 52 ~~CP~Cr~~~~ 62 (108)
..||.|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 46999999875
No 243
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=36.00 E-value=16 Score=17.94 Aligned_cols=6 Identities=33% Similarity=0.955 Sum_probs=5.0
Q ss_pred CCCCcc
Q psy18179 33 PCNHHV 38 (108)
Q Consensus 33 ~CgH~f 38 (108)
.|||+|
T Consensus 32 ~Cg~tf 37 (47)
T PF04606_consen 32 ECGHTF 37 (47)
T ss_pred cCCCEE
Confidence 599987
No 244
>KOG3005|consensus
Probab=35.96 E-value=40 Score=23.35 Aligned_cols=46 Identities=28% Similarity=0.507 Sum_probs=30.8
Q ss_pred ccccccccccc--Cceec-----CCCCcchHHhHHHHhhc--------CCCcccccccccc
Q psy18179 17 VLCLVCQGILI--KPIKL-----PCNHHVCLECLQRICDN--------SNLSCPMCRKRLS 62 (108)
Q Consensus 17 ~~C~IC~~~~~--~p~~l-----~CgH~fC~~Ci~~~~~~--------~~~~CP~Cr~~~~ 62 (108)
..|.+|.+.+. ++..+ .|+-.+...|+...+.. -...||.|++.+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 48999988773 33333 47777788899884331 1246999998665
No 245
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=35.89 E-value=14 Score=15.32 Aligned_cols=10 Identities=20% Similarity=0.394 Sum_probs=5.1
Q ss_pred cccccccccc
Q psy18179 18 LCLVCQGILI 27 (108)
Q Consensus 18 ~C~IC~~~~~ 27 (108)
.|.+|...|.
T Consensus 3 ~C~~C~~~F~ 12 (27)
T PF13912_consen 3 ECDECGKTFS 12 (27)
T ss_dssp EETTTTEEES
T ss_pred CCCccCCccC
Confidence 4555555444
No 246
>KOG1356|consensus
Probab=35.85 E-value=15 Score=29.30 Aligned_cols=33 Identities=24% Similarity=0.542 Sum_probs=25.4
Q ss_pred CccccccccccccCcee--cCCCCcchHHhHHHHh
Q psy18179 15 DSVLCLVCQGILIKPIK--LPCNHHVCLECLQRIC 47 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~~--l~CgH~fC~~Ci~~~~ 47 (108)
..-.|..|...+.+-.- -.||+.+|..|+..|.
T Consensus 228 ~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 228 IREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred cchhhhhhcccccceeEEccccCCeeeecchhhcc
Confidence 34568888887776433 3699999999999994
No 247
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=35.73 E-value=29 Score=20.15 Aligned_cols=12 Identities=33% Similarity=0.811 Sum_probs=9.2
Q ss_pred Ccccccccccch
Q psy18179 52 LSCPMCRKRLSI 63 (108)
Q Consensus 52 ~~CP~Cr~~~~~ 63 (108)
..||.|+.+++.
T Consensus 81 ~~Cp~C~spFNp 92 (105)
T COG4357 81 GSCPYCQSPFNP 92 (105)
T ss_pred CCCCCcCCCCCc
Confidence 469999888774
No 248
>KOG3726|consensus
Probab=35.62 E-value=22 Score=27.76 Aligned_cols=40 Identities=20% Similarity=0.375 Sum_probs=26.2
Q ss_pred ccccccccccC-----ceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 18 LCLVCQGILIK-----PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 18 ~C~IC~~~~~~-----p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.|-+|+. +.+ +.++.|+-.||..|.... ++ .||.|.-...
T Consensus 656 ~C~vcq~-pedse~~v~rt~~C~~~~C~~c~~~~---~~-~~~vC~~~~~ 700 (717)
T KOG3726|consen 656 TCKVCQL-PEDSETDVCRTTFCYTPYCVACSLDY---AS-ISEVCGPDAA 700 (717)
T ss_pred HHHHhcC-CcCccccccCccccCCcchHhhhhhh---hc-cCcccCchhh
Confidence 5677765 233 345689999999986543 33 4999965443
No 249
>PF12907 zf-met2: Zinc-binding
Probab=34.31 E-value=9.4 Score=18.37 Aligned_cols=11 Identities=27% Similarity=0.984 Sum_probs=7.3
Q ss_pred Ccccccccccc
Q psy18179 52 LSCPMCRKRLS 62 (108)
Q Consensus 52 ~~CP~Cr~~~~ 62 (108)
..|++|++.+.
T Consensus 2 i~C~iC~qtF~ 12 (40)
T PF12907_consen 2 IICKICRQTFM 12 (40)
T ss_pred cCcHHhhHHHH
Confidence 35888886554
No 250
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=34.05 E-value=22 Score=14.97 Aligned_cols=11 Identities=18% Similarity=0.452 Sum_probs=6.2
Q ss_pred ccccccccccc
Q psy18179 16 SVLCLVCQGIL 26 (108)
Q Consensus 16 ~~~C~IC~~~~ 26 (108)
.+.|++|...|
T Consensus 14 ~~~C~~C~k~F 24 (26)
T PF13465_consen 14 PYKCPYCGKSF 24 (26)
T ss_dssp SEEESSSSEEE
T ss_pred CCCCCCCcCee
Confidence 35666665544
No 251
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=33.89 E-value=14 Score=19.20 Aligned_cols=11 Identities=36% Similarity=1.050 Sum_probs=5.9
Q ss_pred cccccccccch
Q psy18179 53 SCPMCRKRLSI 63 (108)
Q Consensus 53 ~CP~Cr~~~~~ 63 (108)
.||.|++.+..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 59999998874
No 252
>PTZ00073 60S ribosomal protein L37; Provisional
Probab=33.53 E-value=11 Score=21.48 Aligned_cols=26 Identities=23% Similarity=0.554 Sum_probs=19.4
Q ss_pred CCcchHHhHHHHhhcCCCcccccccc
Q psy18179 35 NHHVCLECLQRICDNSNLSCPMCRKR 60 (108)
Q Consensus 35 gH~fC~~Ci~~~~~~~~~~CP~Cr~~ 60 (108)
.|+.|..|-...+......|..|.-+
T Consensus 15 tHtlCrRCG~~syH~qK~~CasCGyp 40 (91)
T PTZ00073 15 THTLCRRCGKRSFHVQKKRCASCGYP 40 (91)
T ss_pred CcchhcccCccccccccccchhcCCc
Confidence 58889888877766555568888764
No 253
>PF12171 zf-C2H2_jaz: Zinc-finger double-stranded RNA-binding; InterPro: IPR022755 This zinc finger is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localise in the nucleus, particularly the nucleolus []. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localisation. This entry represents the multiple-adjacent-C2H2 zinc finger, JAZ. ; PDB: 4DGW_A 1ZR9_A.
Probab=33.19 E-value=30 Score=14.50 Aligned_cols=12 Identities=17% Similarity=0.517 Sum_probs=6.1
Q ss_pred cccccccccccC
Q psy18179 17 VLCLVCQGILIK 28 (108)
Q Consensus 17 ~~C~IC~~~~~~ 28 (108)
+.|.+|...|.+
T Consensus 2 ~~C~~C~k~f~~ 13 (27)
T PF12171_consen 2 FYCDACDKYFSS 13 (27)
T ss_dssp CBBTTTTBBBSS
T ss_pred CCcccCCCCcCC
Confidence 345555555543
No 254
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=33.16 E-value=25 Score=20.64 Aligned_cols=26 Identities=15% Similarity=0.195 Sum_probs=15.6
Q ss_pred ecCCCCcchHHhHHHHhhcCCCccccccccc
Q psy18179 31 KLPCNHHVCLECLQRICDNSNLSCPMCRKRL 61 (108)
Q Consensus 31 ~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 61 (108)
.+.|||.|=.. ..-+.+ .||-|+...
T Consensus 5 CtrCG~vf~~g--~~~il~---GCp~CG~nk 30 (112)
T COG3364 5 CTRCGEVFDDG--SEEILS---GCPKCGCNK 30 (112)
T ss_pred ecccccccccc--cHHHHc---cCccccchh
Confidence 35788888654 222222 399997643
No 255
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.14 E-value=25 Score=21.49 Aligned_cols=21 Identities=24% Similarity=0.820 Sum_probs=11.5
Q ss_pred cchHHhHHHHhhcCCCccccccccc
Q psy18179 37 HVCLECLQRICDNSNLSCPMCRKRL 61 (108)
Q Consensus 37 ~fC~~Ci~~~~~~~~~~CP~Cr~~~ 61 (108)
.||..|-...+. .||.|..++
T Consensus 29 afcskcgeati~----qcp~csasi 49 (160)
T COG4306 29 AFCSKCGEATIT----QCPICSASI 49 (160)
T ss_pred HHHhhhchHHHh----cCCccCCcc
Confidence 477777655432 355555544
No 256
>KOG2789|consensus
Probab=32.40 E-value=19 Score=26.39 Aligned_cols=31 Identities=23% Similarity=0.544 Sum_probs=24.6
Q ss_pred ccccccccccccCceec--CCCCcchHHhHHHH
Q psy18179 16 SVLCLVCQGILIKPIKL--PCNHHVCLECLQRI 46 (108)
Q Consensus 16 ~~~C~IC~~~~~~p~~l--~CgH~fC~~Ci~~~ 46 (108)
...||||+-++-....+ -|..+.|..|+...
T Consensus 74 ~~ecpicflyyps~~n~~rcC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 74 KTECPICFLYYPSAKNLVRCCSETICGECFAPF 106 (482)
T ss_pred cccCceeeeecccccchhhhhccchhhhheecc
Confidence 46899999887765544 68999999998764
No 257
>KOG1818|consensus
Probab=31.90 E-value=21 Score=27.70 Aligned_cols=46 Identities=22% Similarity=0.344 Sum_probs=31.1
Q ss_pred CCCccccccccccccC----ceecCCCCcchHHhHHHHhh-------cCCCcccccc
Q psy18179 13 TPDSVLCLVCQGILIK----PIKLPCNHHVCLECLQRICD-------NSNLSCPMCR 58 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~----p~~l~CgH~fC~~Ci~~~~~-------~~~~~CP~Cr 58 (108)
..+...|..|.-.|.. =....||-.||..|....+. +....|-.|-
T Consensus 162 W~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C~ 218 (634)
T KOG1818|consen 162 WIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSCY 218 (634)
T ss_pred cccccccceeeeeeeeccccccccccchhhccCccccccCcccccccccceehhhhH
Confidence 3445889999887762 23458999999999876543 2234566663
No 258
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=31.55 E-value=29 Score=21.47 Aligned_cols=23 Identities=26% Similarity=0.764 Sum_probs=17.3
Q ss_pred cccccccccccCceecCCCCcchHHhHH
Q psy18179 17 VLCLVCQGILIKPIKLPCNHHVCLECLQ 44 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~l~CgH~fC~~Ci~ 44 (108)
..|+.|..+|... |..+|..|+.
T Consensus 4 ~nC~~CgklF~~~-----~~~iCp~C~~ 26 (137)
T TIGR03826 4 ANCPKCGRLFVKT-----GRDVCPSCYE 26 (137)
T ss_pred ccccccchhhhhc-----CCccCHHHhH
Confidence 4688999888761 6678888884
No 259
>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=31.32 E-value=27 Score=17.60 Aligned_cols=12 Identities=42% Similarity=0.952 Sum_probs=8.4
Q ss_pred CCCccccccccc
Q psy18179 13 TPDSVLCLVCQG 24 (108)
Q Consensus 13 ~~~~~~C~IC~~ 24 (108)
..+++.||+|..
T Consensus 31 Lp~~w~CP~C~a 42 (50)
T cd00730 31 LPDDWVCPVCGA 42 (50)
T ss_pred CCCCCCCCCCCC
Confidence 456778888864
No 260
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=31.29 E-value=8.8 Score=22.79 Aligned_cols=11 Identities=27% Similarity=0.784 Sum_probs=7.9
Q ss_pred CCccccccccc
Q psy18179 51 NLSCPMCRKRL 61 (108)
Q Consensus 51 ~~~CP~Cr~~~ 61 (108)
...||.|+...
T Consensus 86 ~~~CP~Cgs~~ 96 (115)
T TIGR00100 86 LYRCPKCHGIM 96 (115)
T ss_pred CccCcCCcCCC
Confidence 35699998653
No 261
>PRK01343 zinc-binding protein; Provisional
Probab=31.22 E-value=55 Score=17.03 Aligned_cols=13 Identities=15% Similarity=0.204 Sum_probs=8.0
Q ss_pred Ccccccccccccc
Q psy18179 15 DSVLCLVCQGILI 27 (108)
Q Consensus 15 ~~~~C~IC~~~~~ 27 (108)
....||||...+.
T Consensus 8 p~~~CP~C~k~~~ 20 (57)
T PRK01343 8 PTRPCPECGKPST 20 (57)
T ss_pred CCCcCCCCCCcCc
Confidence 3456777776544
No 262
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=31.10 E-value=9.1 Score=22.67 Aligned_cols=10 Identities=30% Similarity=1.012 Sum_probs=7.2
Q ss_pred CCcccccccc
Q psy18179 51 NLSCPMCRKR 60 (108)
Q Consensus 51 ~~~CP~Cr~~ 60 (108)
...||.|...
T Consensus 86 ~~~CP~Cgs~ 95 (113)
T PRK12380 86 DAQCPHCHGE 95 (113)
T ss_pred CccCcCCCCC
Confidence 3469999864
No 263
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=31.07 E-value=32 Score=17.32 Aligned_cols=6 Identities=50% Similarity=1.591 Sum_probs=3.8
Q ss_pred Cccccc
Q psy18179 52 LSCPMC 57 (108)
Q Consensus 52 ~~CP~C 57 (108)
..||.|
T Consensus 50 ~~CP~C 55 (55)
T PF14311_consen 50 KGCPYC 55 (55)
T ss_pred CCCCCC
Confidence 457766
No 264
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=30.50 E-value=53 Score=15.87 Aligned_cols=11 Identities=27% Similarity=0.911 Sum_probs=8.4
Q ss_pred CCCcccccccc
Q psy18179 50 SNLSCPMCRKR 60 (108)
Q Consensus 50 ~~~~CP~Cr~~ 60 (108)
.++.||.|+..
T Consensus 17 ~g~~CP~Cg~~ 27 (46)
T PF12760_consen 17 DGFVCPHCGST 27 (46)
T ss_pred CCCCCCCCCCe
Confidence 34679999875
No 265
>COG4694 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.41 E-value=99 Score=24.13 Aligned_cols=20 Identities=25% Similarity=0.591 Sum_probs=12.9
Q ss_pred HHHHhhc------CCCcccccccccc
Q psy18179 43 LQRICDN------SNLSCPMCRKRLS 62 (108)
Q Consensus 43 i~~~~~~------~~~~CP~Cr~~~~ 62 (108)
|+.|..+ .+..||.|++.+.
T Consensus 264 ie~WV~qGrE~~k~~q~CpFCg~et~ 289 (758)
T COG4694 264 IEDWVAQGREYNKDNQICPFCGKETI 289 (758)
T ss_pred HHHHHHhhhhhhccCCCCCccchHHH
Confidence 4566652 2457999996654
No 266
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.37 E-value=33 Score=18.34 Aligned_cols=12 Identities=33% Similarity=0.902 Sum_probs=9.1
Q ss_pred Ccccccccccch
Q psy18179 52 LSCPMCRKRLSI 63 (108)
Q Consensus 52 ~~CP~Cr~~~~~ 63 (108)
..||.|++++..
T Consensus 8 v~CP~Cgkpv~w 19 (65)
T COG3024 8 VPCPTCGKPVVW 19 (65)
T ss_pred ccCCCCCCcccc
Confidence 459999888764
No 267
>KOG1701|consensus
Probab=30.17 E-value=32 Score=25.45 Aligned_cols=46 Identities=20% Similarity=0.465 Sum_probs=30.8
Q ss_pred Ccccccccccccc-CceecC-CCCcchHHhHHHHhhcCCCcccccccccch
Q psy18179 15 DSVLCLVCQGILI-KPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 15 ~~~~C~IC~~~~~-~p~~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
.=|+|.+|.+-+. .|.++. =+..+|-.++.+-+. ..|.+|...|..
T Consensus 359 ~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfA---PrCs~C~~PI~P 406 (468)
T KOG1701|consen 359 GCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFA---PRCSVCGNPILP 406 (468)
T ss_pred CceEEEEeccccCCccccccCCCceeeehhhhhhcC---cchhhccCCccC
Confidence 4477888877666 566663 456677777666543 358888887764
No 268
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=30.09 E-value=17 Score=29.15 Aligned_cols=51 Identities=18% Similarity=0.354 Sum_probs=0.0
Q ss_pred CCCCCCccccccccccccCceecCCCC-----cchHHhHHHHhhcCCCcccccccccch
Q psy18179 10 NTLTPDSVLCLVCQGILIKPIKLPCNH-----HVCLECLQRICDNSNLSCPMCRKRLSI 63 (108)
Q Consensus 10 ~~~~~~~~~C~IC~~~~~~p~~l~CgH-----~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 63 (108)
+........|+-|...-.....-.||- .+|..|-...-. ..||.|......
T Consensus 649 i~vei~~r~Cp~Cg~~t~~~~Cp~CG~~T~~~~~Cp~C~~~~~~---~~C~~C~~~~~~ 704 (900)
T PF03833_consen 649 IEVEIGRRRCPKCGKETFYNRCPECGSHTEPVYVCPDCGIEVEE---DECPKCGRETTS 704 (900)
T ss_dssp -----------------------------------------------------------
T ss_pred eEEeeecccCcccCCcchhhcCcccCCccccceeccccccccCc---cccccccccCcc
Confidence 344556788999988655444445773 379999765432 269999987664
No 269
>KOG2272|consensus
Probab=29.87 E-value=48 Score=22.90 Aligned_cols=30 Identities=23% Similarity=0.455 Sum_probs=17.0
Q ss_pred ccCCCCCCCCCccccccccccccCceecCC
Q psy18179 5 DCNSNNTLTPDSVLCLVCQGILIKPIKLPC 34 (108)
Q Consensus 5 ~~~~~~~~~~~~~~C~IC~~~~~~p~~l~C 34 (108)
.+.+.+....+++.|+-|.+.|..|+.-.|
T Consensus 172 eL~sdaRevk~eLyClrChD~mgipiCgaC 201 (332)
T KOG2272|consen 172 ELTSDAREVKGELYCLRCHDKMGIPICGAC 201 (332)
T ss_pred cccchhhhhccceeccccccccCCcccccc
Confidence 344444455566667666666666654433
No 270
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=29.85 E-value=24 Score=18.15 Aligned_cols=12 Identities=25% Similarity=0.960 Sum_probs=8.6
Q ss_pred Ccccccccccch
Q psy18179 52 LSCPMCRKRLSI 63 (108)
Q Consensus 52 ~~CP~Cr~~~~~ 63 (108)
+.||.|...+..
T Consensus 3 ~~CP~CG~~iev 14 (54)
T TIGR01206 3 FECPDCGAEIEL 14 (54)
T ss_pred cCCCCCCCEEec
Confidence 468888887763
No 271
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=29.62 E-value=16 Score=19.19 Aligned_cols=29 Identities=21% Similarity=0.592 Sum_probs=16.3
Q ss_pred CCCCcchHHhHHHHhh-cCCCcccccccccc
Q psy18179 33 PCNHHVCLECLQRICD-NSNLSCPMCRKRLS 62 (108)
Q Consensus 33 ~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~ 62 (108)
|||..|=-+ +..... .....||.|.-.+.
T Consensus 26 PCGDRFeIs-LeDl~~GE~VArCPSCSLiv~ 55 (67)
T COG5216 26 PCGDRFEIS-LEDLRNGEVVARCPSCSLIVC 55 (67)
T ss_pred CCCCEeEEE-HHHhhCCceEEEcCCceEEEE
Confidence 788877432 233222 22357999965443
No 272
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=29.51 E-value=32 Score=22.72 Aligned_cols=17 Identities=18% Similarity=0.360 Sum_probs=13.4
Q ss_pred CCccccccccccccCce
Q psy18179 14 PDSVLCLVCQGILIKPI 30 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~ 30 (108)
.....||+|...|....
T Consensus 3 ~k~~~CPvC~~~F~~~~ 19 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKK 19 (214)
T ss_pred CCceECCCCCCeeeeeE
Confidence 45789999999988543
No 273
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=29.51 E-value=23 Score=19.31 Aligned_cols=8 Identities=13% Similarity=0.467 Sum_probs=5.7
Q ss_pred cCCCCcch
Q psy18179 32 LPCNHHVC 39 (108)
Q Consensus 32 l~CgH~fC 39 (108)
+.|||+|=
T Consensus 33 ~eCg~tF~ 40 (72)
T PRK09678 33 VNCSATFI 40 (72)
T ss_pred CCCCCEEE
Confidence 36888873
No 274
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=29.03 E-value=17 Score=21.65 Aligned_cols=8 Identities=25% Similarity=0.978 Sum_probs=6.4
Q ss_pred cccccccc
Q psy18179 53 SCPMCRKR 60 (108)
Q Consensus 53 ~CP~Cr~~ 60 (108)
.||.|+..
T Consensus 90 ~CP~Cgs~ 97 (117)
T PRK00564 90 VCEKCHSK 97 (117)
T ss_pred cCcCCCCC
Confidence 49999875
No 275
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=28.80 E-value=14 Score=23.61 Aligned_cols=10 Identities=30% Similarity=0.870 Sum_probs=7.0
Q ss_pred CCcccccccc
Q psy18179 51 NLSCPMCRKR 60 (108)
Q Consensus 51 ~~~CP~Cr~~ 60 (108)
...||+|+.+
T Consensus 149 P~~CPiCga~ 158 (166)
T COG1592 149 PEVCPICGAP 158 (166)
T ss_pred CCcCCCCCCh
Confidence 3469999764
No 276
>PF01907 Ribosomal_L37e: Ribosomal protein L37e; InterPro: IPR001569 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families consists of proteins of 56 to 96 amino-acid residues that share a highly conserved region located in the N-terminal part.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A19_A 4A1D_A 4A18_A 4A1B_A 1S1I_Y 3O5H_d 3IZS_l 3O58_d 2ZKR_2 3IZR_l ....
Probab=28.64 E-value=5.1 Score=20.72 Aligned_cols=28 Identities=21% Similarity=0.530 Sum_probs=18.4
Q ss_pred CCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 35 NHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 35 gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.|+.|..|-...+..+...|..|.-+-.
T Consensus 14 tH~~CrRCG~~syH~qK~~CasCGyp~~ 41 (55)
T PF01907_consen 14 THTLCRRCGRRSYHIQKKTCASCGYPAA 41 (55)
T ss_dssp SEEE-TTTSSEEEETTTTEETTTBTTTS
T ss_pred cEeeecccCCeeeecCCCcccccCCCcc
Confidence 5788888876665545567888876543
No 277
>KOG2923|consensus
Probab=28.34 E-value=31 Score=18.42 Aligned_cols=28 Identities=21% Similarity=0.567 Sum_probs=15.2
Q ss_pred CCCCcchHHhHHHHhh--cCCCcccccccccc
Q psy18179 33 PCNHHVCLECLQRICD--NSNLSCPMCRKRLS 62 (108)
Q Consensus 33 ~CgH~fC~~Ci~~~~~--~~~~~CP~Cr~~~~ 62 (108)
|||..|=-. . .-+. .....||.|.-.+.
T Consensus 26 pCGDrf~It-~-edL~~ge~Va~CpsCSL~I~ 55 (67)
T KOG2923|consen 26 PCGDRFQIT-L-EDLENGEDVARCPSCSLIIR 55 (67)
T ss_pred CCCCeeeec-H-HHHhCCCeeecCCCceEEEE
Confidence 688775321 1 1122 23467999976554
No 278
>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=28.29 E-value=28 Score=17.29 Aligned_cols=12 Identities=42% Similarity=0.952 Sum_probs=5.7
Q ss_pred CCCccccccccc
Q psy18179 13 TPDSVLCLVCQG 24 (108)
Q Consensus 13 ~~~~~~C~IC~~ 24 (108)
..+++.||+|..
T Consensus 31 Lp~~w~CP~C~a 42 (47)
T PF00301_consen 31 LPDDWVCPVCGA 42 (47)
T ss_dssp S-TT-B-TTTSS
T ss_pred CCCCCcCcCCCC
Confidence 355677777753
No 279
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=27.39 E-value=52 Score=19.14 Aligned_cols=36 Identities=17% Similarity=0.385 Sum_probs=20.2
Q ss_pred CCCccccccccccccCceecCCCCcchHHhHHHHhhcCCCcccccccccc
Q psy18179 13 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
....|.||-|.+ ..-++.+. + ......||.|+....
T Consensus 18 lpt~f~CP~Cge-~~v~v~~~--k-----------~~~h~~C~~CG~y~~ 53 (99)
T PRK14892 18 LPKIFECPRCGK-VSISVKIK--K-----------NIAIITCGNCGLYTE 53 (99)
T ss_pred CCcEeECCCCCC-eEeeeecC--C-----------CcceEECCCCCCccC
Confidence 345788888884 23333221 1 123456888887654
No 280
>KOG0269|consensus
Probab=27.02 E-value=70 Score=25.60 Aligned_cols=39 Identities=18% Similarity=0.265 Sum_probs=26.4
Q ss_pred cccccccccccCceec--CCCCcchHHhHHHHhhcCCCcccc
Q psy18179 17 VLCLVCQGILIKPIKL--PCNHHVCLECLQRICDNSNLSCPM 56 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~l--~CgH~fC~~Ci~~~~~~~~~~CP~ 56 (108)
..|.+|...+.--..- -|||.-..+|+..|+.+.+ .||.
T Consensus 780 ~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s-~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKAS-PCAK 820 (839)
T ss_pred cCceeecceeeeeEeecccccccccHHHHHHHHhcCC-CCcc
Confidence 3567776655532222 4888888999999998654 3654
No 281
>PF13811 DUF4186: Domain of unknown function (DUF4186)
Probab=27.01 E-value=38 Score=20.14 Aligned_cols=12 Identities=25% Similarity=0.697 Sum_probs=10.2
Q ss_pred cchHHhHHHHhh
Q psy18179 37 HVCLECLQRICD 48 (108)
Q Consensus 37 ~fC~~Ci~~~~~ 48 (108)
+-|+.||.+|-.
T Consensus 75 tCCRgCL~KWH~ 86 (111)
T PF13811_consen 75 TCCRGCLEKWHG 86 (111)
T ss_pred cchHHHHHHHhC
Confidence 469999999975
No 282
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=26.75 E-value=35 Score=16.24 Aligned_cols=10 Identities=30% Similarity=0.800 Sum_probs=4.6
Q ss_pred cccccccccc
Q psy18179 18 LCLVCQGILI 27 (108)
Q Consensus 18 ~C~IC~~~~~ 27 (108)
.|.+|.+.+.
T Consensus 13 ~C~~C~~~i~ 22 (50)
T cd00029 13 FCDVCRKSIW 22 (50)
T ss_pred Chhhcchhhh
Confidence 3444444444
No 283
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=26.23 E-value=45 Score=17.42 Aligned_cols=12 Identities=25% Similarity=0.808 Sum_probs=8.5
Q ss_pred CCcccccccccc
Q psy18179 51 NLSCPMCRKRLS 62 (108)
Q Consensus 51 ~~~CP~Cr~~~~ 62 (108)
.+.||.|+....
T Consensus 46 ~~~C~~Cg~~~~ 57 (69)
T PF07282_consen 46 VFTCPNCGFEMD 57 (69)
T ss_pred eEEcCCCCCEEC
Confidence 467888877654
No 284
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=26.19 E-value=30 Score=17.01 Aligned_cols=16 Identities=19% Similarity=0.374 Sum_probs=10.0
Q ss_pred HHhhcCCCcccccccc
Q psy18179 45 RICDNSNLSCPMCRKR 60 (108)
Q Consensus 45 ~~~~~~~~~CP~Cr~~ 60 (108)
+|...+...||.|...
T Consensus 5 k~TlRGirkCp~CGt~ 20 (44)
T PF14952_consen 5 KPTLRGIRKCPKCGTY 20 (44)
T ss_pred hhhHhccccCCcCcCc
Confidence 3444455679998764
No 285
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=25.75 E-value=7.1 Score=23.10 Aligned_cols=9 Identities=44% Similarity=1.158 Sum_probs=6.2
Q ss_pred Ccccccccc
Q psy18179 52 LSCPMCRKR 60 (108)
Q Consensus 52 ~~CP~Cr~~ 60 (108)
..||.|+..
T Consensus 87 ~~CP~Cgs~ 95 (113)
T PF01155_consen 87 FSCPRCGSP 95 (113)
T ss_dssp HH-SSSSSS
T ss_pred CCCcCCcCC
Confidence 569999875
No 286
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=25.41 E-value=17 Score=24.84 Aligned_cols=15 Identities=13% Similarity=0.390 Sum_probs=9.2
Q ss_pred CCCcccccccccccc
Q psy18179 13 TPDSVLCLVCQGILI 27 (108)
Q Consensus 13 ~~~~~~C~IC~~~~~ 27 (108)
..-.|.|..|..+++
T Consensus 109 ~drqFaC~~Cd~~Ww 123 (278)
T PF15135_consen 109 VDRQFACSSCDHMWW 123 (278)
T ss_pred cceeeeccccchHHH
Confidence 334677777765544
No 287
>PF04981 NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 protein is involved in nonsense mediated mRNA decay. This N-terminal region contains four conserved CXXC motifs that could be metal binding. NMD3 is involved in export of the 60S ribosomal subunit is mediated by the adapter protein Nmd3p in a Crm1p-dependent pathway [].
Probab=25.34 E-value=1.5e+02 Score=19.81 Aligned_cols=40 Identities=23% Similarity=0.590 Sum_probs=23.4
Q ss_pred cccccccccCceecCCCCcchHHhHHHHhh-----c--CCCcccccccccch
Q psy18179 19 CLVCQGILIKPIKLPCNHHVCLECLQRICD-----N--SNLSCPMCRKRLSI 63 (108)
Q Consensus 19 C~IC~~~~~~p~~l~CgH~fC~~Ci~~~~~-----~--~~~~CP~Cr~~~~~ 63 (108)
|+.|.... +|.. ...|..|+.+-.. . ....||.|+.....
T Consensus 1 C~~CG~~~-~~~~----~~lC~~C~~~~~~i~ei~~~i~v~~C~~Cg~~~~~ 47 (236)
T PF04981_consen 1 CPRCGREI-EPLI----DGLCPDCYLKRFDIIEIPDRIEVTICPKCGRYRIG 47 (236)
T ss_pred CCCCCCCC-CCcc----cccChHHhcccCCeeecCCccCceECCCCCCEECC
Confidence 66776622 2211 1478888866443 1 22569999886653
No 288
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=25.19 E-value=33 Score=16.16 Aligned_cols=9 Identities=44% Similarity=1.206 Sum_probs=6.5
Q ss_pred ccccccccc
Q psy18179 54 CPMCRKRLS 62 (108)
Q Consensus 54 CP~Cr~~~~ 62 (108)
||.|+..+.
T Consensus 2 CP~C~~~l~ 10 (41)
T PF13453_consen 2 CPRCGTELE 10 (41)
T ss_pred cCCCCcccc
Confidence 888877554
No 289
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=24.78 E-value=28 Score=21.73 Aligned_cols=13 Identities=31% Similarity=1.068 Sum_probs=10.1
Q ss_pred CCcccccccccch
Q psy18179 51 NLSCPMCRKRLSI 63 (108)
Q Consensus 51 ~~~CP~Cr~~~~~ 63 (108)
...||.||+.++.
T Consensus 9 ei~CPhCRQ~ipA 21 (163)
T TIGR02652 9 EIRCPHCRQNIPA 21 (163)
T ss_pred cCcCchhhcccch
Confidence 3579999998764
No 290
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=24.70 E-value=36 Score=16.56 Aligned_cols=14 Identities=21% Similarity=0.515 Sum_probs=9.6
Q ss_pred CCCcccccccccch
Q psy18179 50 SNLSCPMCRKRLSI 63 (108)
Q Consensus 50 ~~~~CP~Cr~~~~~ 63 (108)
....||.|+..+-.
T Consensus 18 ~~irC~~CG~rIly 31 (44)
T smart00659 18 DVVRCRECGYRILY 31 (44)
T ss_pred CceECCCCCceEEE
Confidence 34678888877654
No 291
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=24.34 E-value=29 Score=21.62 Aligned_cols=12 Identities=33% Similarity=1.129 Sum_probs=9.6
Q ss_pred Ccccccccccch
Q psy18179 52 LSCPMCRKRLSI 63 (108)
Q Consensus 52 ~~CP~Cr~~~~~ 63 (108)
..||.||+.++.
T Consensus 7 i~CPhCRq~ipA 18 (161)
T PF09654_consen 7 IQCPHCRQTIPA 18 (161)
T ss_pred CcCchhhcccch
Confidence 579999988764
No 292
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=24.34 E-value=48 Score=17.15 Aligned_cols=22 Identities=27% Similarity=0.538 Sum_probs=11.8
Q ss_pred cccccccccCc--eecCCCCcchHH
Q psy18179 19 CLVCQGILIKP--IKLPCNHHVCLE 41 (108)
Q Consensus 19 C~IC~~~~~~p--~~l~CgH~fC~~ 41 (108)
|..|... ... +-|.||+.+|.+
T Consensus 1 C~~C~~~-~~~lw~CL~Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGST-NSNLWLCLTCGYVGCGR 24 (63)
T ss_dssp -SSSHTC-SSSEEEETTTS-EEETT
T ss_pred CCCCCCc-CCceEEeCCCCcccccC
Confidence 4555544 222 235899999985
No 293
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=24.17 E-value=32 Score=20.30 Aligned_cols=25 Identities=24% Similarity=0.542 Sum_probs=12.1
Q ss_pred cccccccccccCceecCCCCcchHHhH
Q psy18179 17 VLCLVCQGILIKPIKLPCNHHVCLECL 43 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~l~CgH~fC~~Ci 43 (108)
..|+-|..... +...|+|.+|-.|-
T Consensus 43 ~~C~~Cg~~~~--~~~SCk~R~CP~C~ 67 (111)
T PF14319_consen 43 YRCEDCGHEKI--VYNSCKNRHCPSCQ 67 (111)
T ss_pred eecCCCCceEE--ecCcccCcCCCCCC
Confidence 44555544321 22356666665554
No 294
>PF06467 zf-FCS: MYM-type Zinc finger with FCS sequence motif; InterPro: IPR010507 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. MYM-type zinc fingers were identified in MYM family proteins []. Human protein Q14202 from SWISSPROT is involved in a chromosomal translocation and may be responsible for X-linked retardation in XQ13.1 []. Q9UBW7 from SWISSPROT is also involved in disease. In myeloproliferative disorders it is fused to FGF receptor 1 []; in atypical myeloproliferative disorders it is rearranged []. Members of the family generally are involved in development. This Zn-finger domain functions as a transcriptional trans-activator of late vaccinia viral genes, and orthologues are also found in all nucleocytoplasmic large DNA viruses, NCLDV. This domain is also found fused to the C termini of recombinases from certain prokaryotic transposons []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2L8E_A 2DAS_A.
Probab=24.11 E-value=91 Score=14.42 Aligned_cols=30 Identities=17% Similarity=0.401 Sum_probs=15.5
Q ss_pred CccccccccccccCce-----ec-CCCCcch-HHhHH
Q psy18179 15 DSVLCLVCQGILIKPI-----KL-PCNHHVC-LECLQ 44 (108)
Q Consensus 15 ~~~~C~IC~~~~~~p~-----~l-~CgH~fC-~~Ci~ 44 (108)
....|.-|...+.... .. .-.|.|| ..|+.
T Consensus 5 ~~~~C~~C~~~~~~~~~~~~~~~~g~~~~FCS~~C~~ 41 (43)
T PF06467_consen 5 KMKTCSYCKKYIPNKPTMIEVQYDGKMKQFCSQSCLS 41 (43)
T ss_dssp SCEE-TTT--EEECCC----EE-TTTTSCCSSHHHHH
T ss_pred cCCcCcccCCcccCCCccccccccCcccChhCHHHHh
Confidence 4567888888776332 22 4667787 44554
No 295
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=23.77 E-value=48 Score=15.36 Aligned_cols=11 Identities=27% Similarity=0.522 Sum_probs=7.9
Q ss_pred ccccccccccc
Q psy18179 17 VLCLVCQGILI 27 (108)
Q Consensus 17 ~~C~IC~~~~~ 27 (108)
+.|++|...+.
T Consensus 9 ~~C~~C~~~~~ 19 (36)
T PF11781_consen 9 EPCPVCGSRWF 19 (36)
T ss_pred CcCCCCCCeEe
Confidence 45888888744
No 296
>PF12132 DUF3587: Protein of unknown function (DUF3587); InterPro: IPR021982 This entry is represented by Hyposoter fugitivus ichnovirus, Gp7; it is a family of uncharacterised viral proteins.
Probab=23.56 E-value=71 Score=21.09 Aligned_cols=24 Identities=25% Similarity=0.502 Sum_probs=16.6
Q ss_pred cccCceecCC----CCcchHHhHHHHhh
Q psy18179 25 ILIKPIKLPC----NHHVCLECLQRICD 48 (108)
Q Consensus 25 ~~~~p~~l~C----gH~fC~~Ci~~~~~ 48 (108)
.+..|....| -|.||...+..|+.
T Consensus 150 ~f~~p~~~~C~~gHfHHyCs~HV~~WL~ 177 (199)
T PF12132_consen 150 KFVKPSVDECEYGHFHHYCSQHVNSWLN 177 (199)
T ss_pred cccCCCCCCCCCCCcChhhHHHHHHHHH
Confidence 3445544444 46899999999986
No 297
>KOG1702|consensus
Probab=23.44 E-value=11 Score=25.02 Aligned_cols=22 Identities=23% Similarity=0.765 Sum_probs=12.8
Q ss_pred HhHHHHhhcCCCcccccccccc
Q psy18179 41 ECLQRICDNSNLSCPMCRKRLS 62 (108)
Q Consensus 41 ~Ci~~~~~~~~~~CP~Cr~~~~ 62 (108)
.|+.+.|.+.-+.|-+|+..+.
T Consensus 21 ~cldk~whk~cfkce~c~mtln 42 (264)
T KOG1702|consen 21 KCLDKVWHKQCFKCEVCGMTLN 42 (264)
T ss_pred hhHHHHHHHHhheeeeccCChh
Confidence 4666655555556767765544
No 298
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=23.23 E-value=34 Score=16.51 Aligned_cols=13 Identities=31% Similarity=0.915 Sum_probs=10.0
Q ss_pred CCcccccccccch
Q psy18179 51 NLSCPMCRKRLSI 63 (108)
Q Consensus 51 ~~~CP~Cr~~~~~ 63 (108)
...||.|+..+..
T Consensus 21 ~~~Cp~CG~~~~~ 33 (46)
T PRK00398 21 GVRCPYCGYRILF 33 (46)
T ss_pred ceECCCCCCeEEE
Confidence 3579999987764
No 299
>KOG3183|consensus
Probab=22.85 E-value=1e+02 Score=21.06 Aligned_cols=46 Identities=26% Similarity=0.496 Sum_probs=30.3
Q ss_pred ccc--cccccccCceec-CCCCcchHHhHHH------Hhh---cCCCcccccccccch
Q psy18179 18 LCL--VCQGILIKPIKL-PCNHHVCLECLQR------ICD---NSNLSCPMCRKRLSI 63 (108)
Q Consensus 18 ~C~--IC~~~~~~p~~l-~CgH~fC~~Ci~~------~~~---~~~~~CP~Cr~~~~~ 63 (108)
-|. .|.++=.-|+.- .|++.||..=... |.. ....+||.|..++..
T Consensus 10 HCs~~~CkqlDFLPf~Cd~C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~~ 67 (250)
T KOG3183|consen 10 HCSVPYCKQLDFLPFKCDGCSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVPT 67 (250)
T ss_pred ccCcchhhhccccceeeCCccchhhhccchHhhcCCCcccccceeecccCCCCCCCCC
Confidence 465 688887788877 6999998642211 111 123679999988874
No 300
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=22.74 E-value=30 Score=18.38 Aligned_cols=21 Identities=24% Similarity=0.812 Sum_probs=11.8
Q ss_pred hHHhHHHHhhcCCCcccccccc
Q psy18179 39 CLECLQRICDNSNLSCPMCRKR 60 (108)
Q Consensus 39 C~~Ci~~~~~~~~~~CP~Cr~~ 60 (108)
|..|.. ........||.|...
T Consensus 7 C~~Ck~-l~~~d~e~CP~Cgs~ 27 (64)
T COG2093 7 CKNCKR-LTPEDTEICPVCGST 27 (64)
T ss_pred Hhhccc-cCCCCCccCCCCCCc
Confidence 555632 222233459999876
No 301
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=22.67 E-value=45 Score=16.80 Aligned_cols=14 Identities=29% Similarity=0.971 Sum_probs=9.8
Q ss_pred CCCcccccccccch
Q psy18179 50 SNLSCPMCRKRLSI 63 (108)
Q Consensus 50 ~~~~CP~Cr~~~~~ 63 (108)
....||.|+..+-.
T Consensus 23 ~~irCp~Cg~rIl~ 36 (49)
T COG1996 23 RGIRCPYCGSRILV 36 (49)
T ss_pred CceeCCCCCcEEEE
Confidence 34679999877654
No 302
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=22.62 E-value=42 Score=17.91 Aligned_cols=10 Identities=20% Similarity=0.554 Sum_probs=7.8
Q ss_pred Cccccccccc
Q psy18179 52 LSCPMCRKRL 61 (108)
Q Consensus 52 ~~CP~Cr~~~ 61 (108)
..||.|+...
T Consensus 18 ~~Cp~Cgs~~ 27 (64)
T PRK06393 18 KTCPVHGDEK 27 (64)
T ss_pred CcCCCCCCCc
Confidence 3699998864
No 303
>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=22.39 E-value=29 Score=20.02 Aligned_cols=46 Identities=17% Similarity=0.299 Sum_probs=14.6
Q ss_pred ccccccccccc--Cceec--CCCCcchHHhHHHHhh---cCCCcccccccccch
Q psy18179 17 VLCLVCQGILI--KPIKL--PCNHHVCLECLQRICD---NSNLSCPMCRKRLSI 63 (108)
Q Consensus 17 ~~C~IC~~~~~--~p~~l--~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~~~~~ 63 (108)
-.|++|...+. ++... +=||.|= +|....+. .....|+.|+..+..
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w~-RC~lT~l~i~~~~~r~C~~C~~~~l~ 67 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVWP-RCALTFLPIQTPGVRVCPVCGRRALD 67 (99)
T ss_dssp --------------SSEEE-TTS-EEE-B-SSS-SBS-SS-EEE-TTT--EEE-
T ss_pred ccccccccccccCCcCEeECCCCCEEe-eeeeeeeeeccCCeeEcCCCCCEEec
Confidence 57999998553 54444 4588863 35444433 222679999976653
No 304
>KOG3214|consensus
Probab=22.37 E-value=26 Score=20.50 Aligned_cols=24 Identities=17% Similarity=0.162 Sum_probs=16.1
Q ss_pred CCCCCCccccccccccccCceecC
Q psy18179 10 NTLTPDSVLCLVCQGILIKPIKLP 33 (108)
Q Consensus 10 ~~~~~~~~~C~IC~~~~~~p~~l~ 33 (108)
+++..-.|.|+.|...-.--+++.
T Consensus 17 ~~~ldt~FnClfcnHek~v~~~~D 40 (109)
T KOG3214|consen 17 VEPLDTQFNCLFCNHEKSVSCTLD 40 (109)
T ss_pred ccchheeeccCccccccceeeeeh
Confidence 445566789999988665555553
No 305
>PRK00420 hypothetical protein; Validated
Probab=22.17 E-value=17 Score=21.69 Aligned_cols=14 Identities=21% Similarity=0.527 Sum_probs=9.6
Q ss_pred cCCCcccccccccc
Q psy18179 49 NSNLSCPMCRKRLS 62 (108)
Q Consensus 49 ~~~~~CP~Cr~~~~ 62 (108)
.+...||.|+..+.
T Consensus 38 ~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 38 DGEVVCPVHGKVYI 51 (112)
T ss_pred CCceECCCCCCeee
Confidence 34456898888665
No 306
>KOG3608|consensus
Probab=22.13 E-value=47 Score=24.15 Aligned_cols=49 Identities=24% Similarity=0.596 Sum_probs=33.8
Q ss_pred CCccccccccccccCce----------ecCCCCcchHHhHHHHhh-----------cCCCcccccccccc
Q psy18179 14 PDSVLCLVCQGILIKPI----------KLPCNHHVCLECLQRICD-----------NSNLSCPMCRKRLS 62 (108)
Q Consensus 14 ~~~~~C~IC~~~~~~p~----------~l~CgH~fC~~Ci~~~~~-----------~~~~~CP~Cr~~~~ 62 (108)
+..+.||-|.+.|..-. .+.=.|-.|..|..++.. -...+||+|....+
T Consensus 205 eKvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~ 274 (467)
T KOG3608|consen 205 EKVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCS 274 (467)
T ss_pred CeEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCC
Confidence 34577999999888542 234567779999876543 12478999987655
No 307
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.13 E-value=48 Score=16.14 Aligned_cols=12 Identities=25% Similarity=0.855 Sum_probs=9.4
Q ss_pred Ccccccccccch
Q psy18179 52 LSCPMCRKRLSI 63 (108)
Q Consensus 52 ~~CP~Cr~~~~~ 63 (108)
..||.|..+++-
T Consensus 9 K~C~~C~rpf~W 20 (42)
T PF10013_consen 9 KICPVCGRPFTW 20 (42)
T ss_pred CcCcccCCcchH
Confidence 569999888763
No 308
>PF05265 DUF723: Protein of unknown function (DUF723); InterPro: IPR007929 This family contains several uncharacterised proteins from Neisseria meningitidis. These proteins may have a role in DNA binding.
Probab=21.83 E-value=53 Score=17.31 Aligned_cols=29 Identities=28% Similarity=0.811 Sum_probs=14.5
Q ss_pred CceecCCC-C--cchHHhHHHHhhcCCCcccccc
Q psy18179 28 KPIKLPCN-H--HVCLECLQRICDNSNLSCPMCR 58 (108)
Q Consensus 28 ~p~~l~Cg-H--~fC~~Ci~~~~~~~~~~CP~Cr 58 (108)
.|+++.|- | ..+.. .+..++ +...||.|.
T Consensus 29 ~PvtI~CP~HG~~~~s~-~~~~~~-sk~GCP~Cg 60 (60)
T PF05265_consen 29 TPVTIRCPKHGNFTCST-FNSFIK-SKHGCPECG 60 (60)
T ss_pred CceEEECCCCCcEEecc-HHhhhh-hccCCCCCC
Confidence 67777663 3 22221 123333 334699884
No 309
>PF14577 SEO_C: Sieve element occlusion C-terminus
Probab=21.78 E-value=69 Score=21.73 Aligned_cols=26 Identities=23% Similarity=0.556 Sum_probs=18.1
Q ss_pred CCCCCccccccccccccCceecCCCC
Q psy18179 11 TLTPDSVLCLVCQGILIKPIKLPCNH 36 (108)
Q Consensus 11 ~~~~~~~~C~IC~~~~~~p~~l~CgH 36 (108)
....+...||-|...+..-+...|-|
T Consensus 209 g~ipe~i~CpeC~R~MEk~v~YkCCh 234 (235)
T PF14577_consen 209 GRIPETIVCPECGRPMEKFVMYKCCH 234 (235)
T ss_pred cCCCceeECCCCCCchhhceeeeccC
Confidence 34556677888888777666667766
No 310
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=21.54 E-value=38 Score=16.20 Aligned_cols=25 Identities=24% Similarity=0.430 Sum_probs=9.4
Q ss_pred ccccccccccCcee---cCCCCcchHHh
Q psy18179 18 LCLVCQGILIKPIK---LPCNHHVCLEC 42 (108)
Q Consensus 18 ~C~IC~~~~~~p~~---l~CgH~fC~~C 42 (108)
-||+|...-.--+. -.=|+-+|..|
T Consensus 5 pCP~CGG~DrFri~~d~~~~G~~~C~~C 32 (40)
T PF08273_consen 5 PCPICGGKDRFRIFDDKDGRGTWICRQC 32 (40)
T ss_dssp --TTTT-TTTEEEETT----S-EEETTT
T ss_pred CCCCCcCccccccCcCcccCCCEECCCC
Confidence 47888652111111 11377777776
No 311
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=21.50 E-value=87 Score=13.47 Aligned_cols=11 Identities=18% Similarity=0.308 Sum_probs=2.5
Q ss_pred ccccccccccC
Q psy18179 18 LCLVCQGILIK 28 (108)
Q Consensus 18 ~C~IC~~~~~~ 28 (108)
.|.+|......
T Consensus 2 ~C~~C~~~~~~ 12 (30)
T PF07649_consen 2 RCDACGKPIDG 12 (30)
T ss_dssp --TTTS----S
T ss_pred cCCcCCCcCCC
Confidence 35555554443
No 312
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=21.45 E-value=48 Score=16.85 Aligned_cols=11 Identities=27% Similarity=0.878 Sum_probs=8.2
Q ss_pred Ccccccccccc
Q psy18179 52 LSCPMCRKRLS 62 (108)
Q Consensus 52 ~~CP~Cr~~~~ 62 (108)
..||.|+..-.
T Consensus 25 IKCpRC~tiN~ 35 (51)
T PF10122_consen 25 IKCPRCKTINH 35 (51)
T ss_pred EECCCCCccce
Confidence 57999987543
No 313
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.35 E-value=64 Score=22.44 Aligned_cols=8 Identities=25% Similarity=0.924 Sum_probs=5.5
Q ss_pred cccccccc
Q psy18179 53 SCPMCRKR 60 (108)
Q Consensus 53 ~CP~Cr~~ 60 (108)
.||.|+..
T Consensus 271 ~C~~Cgt~ 278 (279)
T TIGR00627 271 ICKTCKTA 278 (279)
T ss_pred CCCCCCCC
Confidence 58888654
No 314
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=21.08 E-value=40 Score=15.36 Aligned_cols=12 Identities=25% Similarity=1.079 Sum_probs=8.8
Q ss_pred Ccccccccccch
Q psy18179 52 LSCPMCRKRLSI 63 (108)
Q Consensus 52 ~~CP~Cr~~~~~ 63 (108)
..||.|.+.+..
T Consensus 3 ~~CP~C~~~~~v 14 (38)
T TIGR02098 3 IQCPNCKTSFRV 14 (38)
T ss_pred EECCCCCCEEEe
Confidence 369999887653
No 315
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 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 zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=20.95 E-value=63 Score=16.79 Aligned_cols=27 Identities=30% Similarity=0.685 Sum_probs=18.4
Q ss_pred ceecCCCCcchHHhHHHHhhcC-CCcccccccccc
Q psy18179 29 PIKLPCNHHVCLECLQRICDNS-NLSCPMCRKRLS 62 (108)
Q Consensus 29 p~~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~ 62 (108)
|--+.||-.+|.. .+ ...||.|...+.
T Consensus 19 ~NCl~CGkIiC~~-------Eg~~~pC~fCg~~l~ 46 (57)
T PF06221_consen 19 PNCLNCGKIICEQ-------EGPLGPCPFCGTPLL 46 (57)
T ss_pred ccccccChhhccc-------ccCcCcCCCCCCccc
Confidence 3456899888852 23 356999997765
No 316
>KOG2906|consensus
Probab=20.93 E-value=22 Score=20.76 Aligned_cols=26 Identities=31% Similarity=0.800 Sum_probs=13.1
Q ss_pred cccccccccccCceecCCCCcchHHh
Q psy18179 17 VLCLVCQGILIKPIKLPCNHHVCLEC 42 (108)
Q Consensus 17 ~~C~IC~~~~~~p~~l~CgH~fC~~C 42 (108)
+.||.|...+.-...-.|..-+|..|
T Consensus 2 ~FCP~Cgn~Live~g~~~~rf~C~tC 27 (105)
T KOG2906|consen 2 LFCPTCGNMLIVESGESCNRFSCRTC 27 (105)
T ss_pred cccCCCCCEEEEecCCeEeeEEcCCC
Confidence 35677766655333333444445444
No 317
>smart00451 ZnF_U1 U1-like zinc finger. Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.
Probab=20.93 E-value=45 Score=14.57 Aligned_cols=10 Identities=20% Similarity=0.839 Sum_probs=5.2
Q ss_pred cccccccccc
Q psy18179 53 SCPMCRKRLS 62 (108)
Q Consensus 53 ~CP~Cr~~~~ 62 (108)
.|..|...+.
T Consensus 5 ~C~~C~~~~~ 14 (35)
T smart00451 5 YCKLCNVTFT 14 (35)
T ss_pred EccccCCccC
Confidence 3555555544
No 318
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=20.92 E-value=50 Score=24.79 Aligned_cols=13 Identities=31% Similarity=0.360 Sum_probs=5.8
Q ss_pred CCccccccccccc
Q psy18179 14 PDSVLCLVCQGIL 26 (108)
Q Consensus 14 ~~~~~C~IC~~~~ 26 (108)
.+-..||-|+..+
T Consensus 24 i~~~yCp~CL~~~ 36 (483)
T PF05502_consen 24 IDSYYCPNCLFEV 36 (483)
T ss_pred cceeECccccccC
Confidence 3344455554433
No 319
>smart00714 LITAF Possible membrane-associated motif in LPS-induced tumor necrosis factor alpha factor (LITAF), also known as PIG7, and other animal proteins.
Probab=20.61 E-value=41 Score=17.65 Aligned_cols=12 Identities=42% Similarity=0.783 Sum_probs=9.3
Q ss_pred CCcccccccccc
Q psy18179 51 NLSCPMCRKRLS 62 (108)
Q Consensus 51 ~~~CP~Cr~~~~ 62 (108)
.-.||.|+..+.
T Consensus 52 ~H~Cp~C~~~lg 63 (67)
T smart00714 52 NHYCPNCGAFLG 63 (67)
T ss_pred cEECCCCCCEeE
Confidence 456999998775
No 320
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=20.33 E-value=38 Score=21.76 Aligned_cols=9 Identities=33% Similarity=0.936 Sum_probs=5.4
Q ss_pred CceecCCCC
Q psy18179 28 KPIKLPCNH 36 (108)
Q Consensus 28 ~p~~l~CgH 36 (108)
+-|++.|||
T Consensus 33 ~~VTVRCGH 41 (170)
T PF04690_consen 33 KTVTVRCGH 41 (170)
T ss_pred hhhceeccC
Confidence 335557777
No 321
>PF08209 Sgf11: Sgf11 (transcriptional regulation protein); InterPro: IPR013246 The Sgf11 family is a SAGA complex subunit in Saccharomyces cerevisiae (Baker's yeast). The SAGA complex is a multisubunit protein complex involved in transcriptional regulation. SAGA combines proteins involved in interactions with DNA-bound activators and TATA-binding protein (TBP), as well as enzymes for histone acetylation and deubiquitylation [].; PDB: 3M99_B 2LO2_A 3MHH_C 3MHS_C.
Probab=20.10 E-value=1e+02 Score=14.02 Aligned_cols=12 Identities=25% Similarity=0.924 Sum_probs=8.5
Q ss_pred Ccccccccccch
Q psy18179 52 LSCPMCRKRLSI 63 (108)
Q Consensus 52 ~~CP~Cr~~~~~ 63 (108)
..||.|...+..
T Consensus 5 ~~C~nC~R~v~a 16 (33)
T PF08209_consen 5 VECPNCGRPVAA 16 (33)
T ss_dssp EE-TTTSSEEEG
T ss_pred EECCCCcCCcch
Confidence 469999888873
No 322
>smart00355 ZnF_C2H2 zinc finger.
Probab=20.08 E-value=53 Score=12.61 Aligned_cols=9 Identities=44% Similarity=1.143 Sum_probs=4.8
Q ss_pred ccccccccc
Q psy18179 54 CPMCRKRLS 62 (108)
Q Consensus 54 CP~Cr~~~~ 62 (108)
|+.|...+.
T Consensus 3 C~~C~~~f~ 11 (26)
T smart00355 3 CPECGKVFK 11 (26)
T ss_pred CCCCcchhC
Confidence 555555444
Done!