Query psy18180
Match_columns 143
No_of_seqs 207 out of 1289
Neff 8.7
Searched_HMMs 46136
Date Sat Aug 17 00:52:46 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy18180.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/18180hhsearch_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 99.6 4.9E-16 1.1E-20 85.4 2.8 39 37-75 1-42 (42)
2 smart00504 Ubox Modified RING 99.5 1.1E-14 2.3E-19 86.8 4.1 62 34-103 1-62 (63)
3 PLN03208 E3 ubiquitin-protein 99.5 2.6E-14 5.6E-19 101.7 5.0 52 30-81 14-80 (193)
4 PF04564 U-box: U-box domain; 99.5 1.6E-14 3.5E-19 88.7 3.4 68 33-107 3-70 (73)
5 TIGR00599 rad18 DNA repair pro 99.4 2.2E-13 4.8E-18 107.0 5.0 69 29-105 21-89 (397)
6 PF13923 zf-C3HC4_2: Zinc fing 99.4 1.2E-13 2.6E-18 74.8 2.3 38 37-75 1-39 (39)
7 KOG0287|consensus 99.3 6.6E-13 1.4E-17 100.9 3.5 65 32-104 21-85 (442)
8 PF00097 zf-C3HC4: Zinc finger 99.3 7.6E-13 1.7E-17 72.2 2.5 39 37-75 1-41 (41)
9 KOG0823|consensus 99.3 5.9E-13 1.3E-17 96.5 2.6 51 31-81 44-96 (230)
10 PF13920 zf-C3HC4_3: Zinc fing 99.3 7.8E-13 1.7E-17 75.3 2.6 47 33-80 1-48 (50)
11 PF14835 zf-RING_6: zf-RING of 99.3 5.3E-13 1.1E-17 78.4 0.8 58 34-101 7-65 (65)
12 PF13639 zf-RING_2: Ring finge 99.3 1.1E-12 2.4E-17 72.7 1.5 40 36-76 2-44 (44)
13 KOG0320|consensus 99.3 4.7E-12 1E-16 88.5 3.8 49 32-81 129-179 (187)
14 PF13445 zf-RING_UBOX: RING-ty 99.2 3.7E-12 8E-17 70.0 1.7 36 37-73 1-43 (43)
15 cd00162 RING RING-finger (Real 99.2 1.1E-11 2.5E-16 68.1 3.2 43 36-78 1-44 (45)
16 PHA02929 N1R/p28-like protein; 99.2 1E-11 2.2E-16 91.7 3.7 48 33-81 173-228 (238)
17 KOG0317|consensus 99.2 1.5E-11 3.3E-16 91.8 3.7 54 27-81 232-285 (293)
18 PF14634 zf-RING_5: zinc-RING 99.2 3.5E-11 7.5E-16 66.7 3.4 41 36-77 1-44 (44)
19 COG5432 RAD18 RING-finger-cont 99.1 2.7E-11 5.9E-16 90.6 3.2 47 33-80 24-70 (391)
20 smart00184 RING Ring finger. E 99.1 5.5E-11 1.2E-15 63.2 3.5 39 37-75 1-39 (39)
21 PHA02926 zinc finger-like prot 99.1 2.2E-10 4.8E-15 82.9 4.9 49 33-81 169-231 (242)
22 KOG2177|consensus 99.0 1.6E-10 3.5E-15 86.8 3.7 64 31-104 10-73 (386)
23 KOG2660|consensus 99.0 1.5E-10 3.2E-15 87.9 3.0 73 33-109 14-87 (331)
24 KOG0311|consensus 99.0 5.4E-11 1.2E-15 91.0 0.1 51 31-81 40-91 (381)
25 KOG4159|consensus 99.0 4.2E-10 9.1E-15 88.7 3.6 106 31-139 81-191 (398)
26 KOG2164|consensus 98.9 5.4E-10 1.2E-14 89.1 2.2 48 34-81 186-237 (513)
27 PF12678 zf-rbx1: RING-H2 zinc 98.9 1.5E-09 3.3E-14 66.5 3.0 40 36-76 21-73 (73)
28 TIGR00570 cdk7 CDK-activating 98.9 2.9E-09 6.4E-14 81.1 5.0 49 33-81 2-55 (309)
29 COG5574 PEX10 RING-finger-cont 98.9 1.4E-09 3E-14 80.5 2.7 49 32-80 213-262 (271)
30 KOG4628|consensus 98.7 4.8E-09 1.1E-13 81.1 1.9 47 35-81 230-279 (348)
31 KOG0978|consensus 98.7 1.3E-08 2.7E-13 84.7 2.6 48 33-80 642-689 (698)
32 COG5152 Uncharacterized conser 98.6 2.9E-08 6.3E-13 70.8 3.9 61 32-101 194-254 (259)
33 PF12861 zf-Apc11: Anaphase-pr 98.6 4E-08 8.7E-13 61.3 3.6 47 34-80 21-82 (85)
34 KOG2879|consensus 98.6 5.5E-08 1.2E-12 72.4 4.8 74 7-80 211-287 (298)
35 KOG0802|consensus 98.6 2.7E-08 5.9E-13 81.9 2.9 49 31-80 288-341 (543)
36 COG5222 Uncharacterized conser 98.6 2.3E-07 4.9E-12 70.1 6.7 44 35-78 275-319 (427)
37 KOG0824|consensus 98.6 3.6E-08 7.7E-13 74.3 2.4 49 33-81 6-54 (324)
38 COG5243 HRD1 HRD ubiquitin lig 98.5 7.3E-08 1.6E-12 74.6 2.4 49 31-80 284-345 (491)
39 COG5540 RING-finger-containing 98.5 6.9E-08 1.5E-12 72.9 1.9 49 32-80 321-372 (374)
40 KOG1813|consensus 98.4 1.7E-07 3.6E-12 70.5 2.3 47 34-81 241-287 (313)
41 PF11789 zf-Nse: Zinc-finger o 98.4 2E-07 4.3E-12 54.3 1.8 43 32-74 9-53 (57)
42 KOG0297|consensus 98.2 9.3E-07 2E-11 70.2 3.2 51 30-81 17-68 (391)
43 KOG4172|consensus 98.2 3.9E-07 8.4E-12 51.8 0.6 46 35-80 8-54 (62)
44 KOG1002|consensus 98.1 2.1E-06 4.6E-11 69.4 3.8 50 32-81 534-587 (791)
45 KOG4265|consensus 98.0 5E-06 1.1E-10 64.2 3.6 49 32-81 288-337 (349)
46 KOG0804|consensus 98.0 3.4E-06 7.3E-11 66.8 2.2 46 32-80 173-222 (493)
47 KOG1039|consensus 97.9 8E-06 1.7E-10 63.6 2.9 54 28-81 155-222 (344)
48 KOG1785|consensus 97.9 6.1E-06 1.3E-10 64.7 2.0 47 36-82 371-418 (563)
49 KOG4692|consensus 97.8 2.6E-05 5.6E-10 60.4 4.4 53 27-80 415-467 (489)
50 PF11793 FANCL_C: FANCL C-term 97.8 2.6E-06 5.6E-11 51.7 -0.8 47 34-80 2-66 (70)
51 smart00744 RINGv The RING-vari 97.8 2.7E-05 5.9E-10 43.9 3.4 41 36-76 1-49 (49)
52 KOG4367|consensus 97.8 1.2E-05 2.6E-10 63.8 2.5 36 31-66 1-36 (699)
53 KOG4185|consensus 97.8 2.2E-05 4.8E-10 60.0 3.5 69 34-104 3-77 (296)
54 COG5194 APC11 Component of SCF 97.8 2.9E-05 6.3E-10 47.6 3.2 30 51-81 53-82 (88)
55 KOG1734|consensus 97.7 1.2E-05 2.6E-10 60.0 1.1 51 31-81 221-282 (328)
56 COG5219 Uncharacterized conser 97.7 1.6E-05 3.4E-10 68.3 1.3 47 34-80 1469-1523(1525)
57 KOG4275|consensus 97.6 2E-05 4.3E-10 59.5 0.5 43 33-80 299-342 (350)
58 KOG1493|consensus 97.6 2.3E-05 5.1E-10 47.6 0.6 45 36-80 22-81 (84)
59 KOG0827|consensus 97.5 5.2E-05 1.1E-09 59.3 2.3 46 35-80 5-56 (465)
60 PF14570 zf-RING_4: RING/Ubox 97.5 0.00011 2.3E-09 41.1 2.3 43 37-79 1-47 (48)
61 KOG0828|consensus 97.4 7.3E-05 1.6E-09 60.2 2.0 50 31-80 568-634 (636)
62 KOG1941|consensus 97.4 7.8E-05 1.7E-09 58.5 1.8 48 33-80 364-416 (518)
63 PF14447 Prok-RING_4: Prokaryo 97.3 6.7E-05 1.5E-09 42.9 0.5 45 33-80 6-50 (55)
64 KOG0825|consensus 97.2 7E-05 1.5E-09 63.2 -0.2 47 33-80 122-171 (1134)
65 KOG2930|consensus 97.2 0.00027 6E-09 45.4 2.3 29 51-80 80-108 (114)
66 KOG1645|consensus 97.2 0.00055 1.2E-08 54.1 4.2 48 33-80 3-56 (463)
67 KOG3800|consensus 97.1 0.00033 7.2E-09 52.9 2.8 45 36-80 2-51 (300)
68 KOG3039|consensus 97.1 0.00029 6.3E-09 52.2 2.1 48 33-81 220-271 (303)
69 KOG4739|consensus 97.1 0.00022 4.8E-09 52.6 1.1 44 35-81 4-49 (233)
70 COG5175 MOT2 Transcriptional r 97.0 0.00055 1.2E-08 53.0 3.1 51 29-80 10-64 (480)
71 COG5236 Uncharacterized conser 96.9 0.00081 1.8E-08 52.2 3.1 52 29-80 56-108 (493)
72 KOG1001|consensus 96.9 0.00055 1.2E-08 57.9 2.0 46 35-81 455-501 (674)
73 KOG1571|consensus 96.8 0.00042 9.1E-09 53.8 1.0 45 33-81 304-348 (355)
74 KOG1814|consensus 96.7 0.0038 8.2E-08 49.5 5.5 45 33-77 183-237 (445)
75 KOG2817|consensus 96.7 0.0012 2.7E-08 51.9 2.5 50 31-80 331-385 (394)
76 KOG2114|consensus 96.6 0.0022 4.8E-08 54.8 3.7 43 34-80 840-883 (933)
77 KOG1940|consensus 96.5 0.0021 4.6E-08 48.7 2.9 60 34-103 158-221 (276)
78 PF07800 DUF1644: Protein of u 96.5 0.0025 5.4E-08 44.3 2.9 50 33-82 1-93 (162)
79 PF05290 Baculo_IE-1: Baculovi 96.5 0.0025 5.5E-08 43.0 2.8 49 33-81 79-133 (140)
80 PF04641 Rtf2: Rtf2 RING-finge 96.5 0.0031 6.6E-08 47.6 3.4 49 31-81 110-162 (260)
81 KOG3970|consensus 96.4 0.0068 1.5E-07 44.6 4.5 48 34-81 50-106 (299)
82 COG5220 TFB3 Cdk activating ki 96.2 0.0018 3.8E-08 48.0 0.8 47 34-80 10-64 (314)
83 PF02891 zf-MIZ: MIZ/SP-RING z 96.2 0.0065 1.4E-07 34.3 2.9 44 34-77 2-49 (50)
84 KOG3161|consensus 96.1 0.0027 5.9E-08 52.9 1.7 41 30-73 7-51 (861)
85 PF10367 Vps39_2: Vacuolar sor 95.8 0.0027 5.7E-08 41.1 0.3 32 31-62 75-108 (109)
86 KOG1952|consensus 95.7 0.013 2.9E-07 50.3 4.1 47 33-79 190-246 (950)
87 PHA02825 LAP/PHD finger-like p 95.7 0.017 3.8E-07 40.2 3.9 51 30-81 4-60 (162)
88 KOG4362|consensus 95.5 0.007 1.5E-07 51.0 1.6 49 33-81 20-70 (684)
89 KOG0826|consensus 95.2 0.014 3.1E-07 45.0 2.4 49 31-80 297-346 (357)
90 KOG3002|consensus 95.2 0.012 2.7E-07 45.3 2.1 47 30-80 44-91 (299)
91 PF08746 zf-RING-like: RING-li 95.2 0.026 5.7E-07 30.7 2.7 39 37-75 1-43 (43)
92 KOG1812|consensus 94.8 0.026 5.6E-07 45.0 2.9 48 33-80 145-203 (384)
93 PHA03096 p28-like protein; Pro 94.7 0.023 4.9E-07 43.5 2.3 45 35-79 179-233 (284)
94 PHA02862 5L protein; Provision 94.5 0.042 9E-07 37.7 2.9 46 35-81 3-54 (156)
95 KOG1428|consensus 94.5 0.062 1.3E-06 49.3 4.7 53 29-81 3481-3545(3738)
96 KOG4445|consensus 94.4 0.034 7.3E-07 42.6 2.6 48 34-81 115-187 (368)
97 PF14569 zf-UDP: Zinc-binding 94.3 0.057 1.2E-06 33.1 2.9 48 33-80 8-62 (80)
98 PF03854 zf-P11: P-11 zinc fin 94.2 0.018 4E-07 31.9 0.6 35 45-80 11-46 (50)
99 KOG0298|consensus 93.9 0.024 5.3E-07 50.7 1.0 46 34-80 1153-1199(1394)
100 PF12906 RINGv: RING-variant d 93.6 0.033 7.1E-07 30.9 0.9 39 37-75 1-47 (47)
101 KOG1815|consensus 93.3 0.11 2.5E-06 42.1 4.0 37 30-66 66-103 (444)
102 KOG2932|consensus 93.2 0.041 8.8E-07 42.4 1.1 30 49-81 106-135 (389)
103 PF10272 Tmpp129: Putative tra 93.0 0.076 1.6E-06 41.9 2.4 30 52-81 311-352 (358)
104 COG5109 Uncharacterized conser 92.7 0.073 1.6E-06 41.1 1.8 50 30-79 332-386 (396)
105 PF05605 zf-Di19: Drought indu 92.0 0.12 2.5E-06 29.4 1.7 40 33-79 1-41 (54)
106 KOG3268|consensus 91.9 0.16 3.4E-06 36.2 2.6 46 36-81 167-229 (234)
107 PF05883 Baculo_RING: Baculovi 91.8 0.11 2.3E-06 35.3 1.6 33 34-66 26-67 (134)
108 KOG3579|consensus 91.2 0.13 2.8E-06 39.3 1.6 70 33-110 267-345 (352)
109 KOG1100|consensus 91.0 0.097 2.1E-06 38.3 0.9 39 37-80 161-200 (207)
110 KOG4185|consensus 90.2 0.046 9.9E-07 41.8 -1.5 45 34-78 207-265 (296)
111 KOG3899|consensus 89.8 0.25 5.4E-06 37.9 2.1 30 52-81 325-366 (381)
112 PF07191 zinc-ribbons_6: zinc- 89.4 0.015 3.3E-07 35.0 -3.7 42 34-81 1-42 (70)
113 COG3813 Uncharacterized protei 89.3 0.43 9.3E-06 28.9 2.5 27 51-80 26-52 (84)
114 KOG3039|consensus 89.3 0.22 4.8E-06 37.3 1.6 32 35-66 44-75 (303)
115 PF10571 UPF0547: Uncharacteri 88.8 0.19 4.2E-06 24.3 0.7 21 36-56 2-24 (26)
116 KOG2034|consensus 87.3 0.31 6.7E-06 42.4 1.4 35 32-66 815-851 (911)
117 PF02318 FYVE_2: FYVE-type zin 87.2 0.045 9.8E-07 36.4 -2.9 47 33-79 53-104 (118)
118 KOG4718|consensus 86.9 0.49 1.1E-05 34.6 2.0 66 2-80 161-227 (235)
119 PLN02189 cellulose synthase 85.3 0.57 1.2E-05 41.7 2.1 47 34-80 34-87 (1040)
120 PF10497 zf-4CXXC_R1: Zinc-fin 85.3 0.92 2E-05 29.6 2.6 45 34-78 7-70 (105)
121 PLN02436 cellulose synthase A 85.2 0.57 1.2E-05 41.9 2.0 48 33-80 35-89 (1094)
122 PF14446 Prok-RING_1: Prokaryo 85.2 0.96 2.1E-05 25.8 2.3 30 34-63 5-38 (54)
123 PLN02638 cellulose synthase A 84.1 0.74 1.6E-05 41.2 2.2 48 33-80 16-70 (1079)
124 PF10235 Cript: Microtubule-as 83.7 0.55 1.2E-05 29.7 1.0 37 34-80 44-80 (90)
125 PRK04023 DNA polymerase II lar 82.9 1.6 3.5E-05 38.9 3.8 65 32-103 624-693 (1121)
126 COG5183 SSM4 Protein involved 82.2 1.8 3.9E-05 37.8 3.7 53 29-81 7-67 (1175)
127 KOG0309|consensus 82.1 0.87 1.9E-05 39.4 1.8 40 34-74 1028-1069(1081)
128 PLN02915 cellulose synthase A 82.0 1.5 3.3E-05 39.2 3.3 48 33-80 14-68 (1044)
129 PF06906 DUF1272: Protein of u 81.6 1.8 3.8E-05 24.9 2.4 43 36-81 7-53 (57)
130 PF13240 zinc_ribbon_2: zinc-r 81.3 0.19 4.1E-06 23.5 -1.4 7 72-78 16-22 (23)
131 PF06844 DUF1244: Protein of u 81.1 0.97 2.1E-05 26.8 1.3 12 55-66 11-22 (68)
132 PLN02400 cellulose synthase 80.9 0.84 1.8E-05 40.9 1.4 48 33-80 35-89 (1085)
133 PRK03564 formate dehydrogenase 80.8 1.2 2.7E-05 34.5 2.1 50 28-78 181-235 (309)
134 KOG3053|consensus 80.7 3 6.6E-05 31.5 4.0 51 30-80 16-82 (293)
135 PLN02195 cellulose synthase A 80.6 1.2 2.7E-05 39.4 2.3 47 34-80 6-59 (977)
136 KOG3113|consensus 80.6 3.6 7.7E-05 31.1 4.3 47 32-81 109-159 (293)
137 KOG0825|consensus 80.4 1.1 2.4E-05 38.9 1.8 50 34-83 96-157 (1134)
138 KOG1812|consensus 79.9 0.88 1.9E-05 36.4 1.1 41 34-75 306-351 (384)
139 cd00350 rubredoxin_like Rubred 79.7 1.3 2.8E-05 22.4 1.3 11 69-79 17-27 (33)
140 PF07975 C1_4: TFIIH C1-like d 78.3 3.1 6.8E-05 23.4 2.7 25 51-76 26-50 (51)
141 PF14353 CpXC: CpXC protein 78.2 1.5 3.2E-05 29.3 1.6 48 34-81 1-50 (128)
142 KOG2169|consensus 76.9 4.7 0.0001 34.5 4.6 73 27-106 299-375 (636)
143 PRK06266 transcription initiat 76.0 9.7 0.00021 27.1 5.4 50 33-104 116-165 (178)
144 PF04216 FdhE: Protein involve 75.7 0.43 9.3E-06 36.5 -1.7 49 30-79 168-221 (290)
145 KOG0824|consensus 75.7 0.95 2E-05 34.9 0.2 53 27-80 98-151 (324)
146 KOG0827|consensus 74.0 0.32 7E-06 38.7 -2.8 46 35-81 197-246 (465)
147 TIGR01562 FdhE formate dehydro 73.3 0.94 2E-05 35.1 -0.4 46 32-78 182-233 (305)
148 smart00249 PHD PHD zinc finger 72.8 1.7 3.7E-05 22.8 0.7 29 36-64 1-32 (47)
149 TIGR00373 conserved hypothetic 72.2 13 0.00028 25.9 5.2 33 33-81 108-140 (158)
150 PF01363 FYVE: FYVE zinc finge 70.2 0.66 1.4E-05 27.4 -1.5 32 34-65 9-44 (69)
151 KOG2462|consensus 69.5 1.3 2.9E-05 33.6 -0.3 50 32-81 159-227 (279)
152 PF00628 PHD: PHD-finger; Int 68.7 0.58 1.2E-05 25.8 -1.9 42 36-77 1-50 (51)
153 cd00065 FYVE FYVE domain; Zinc 68.6 2.7 5.8E-05 23.6 0.9 32 35-66 3-38 (57)
154 PF15616 TerY-C: TerY-C metal 68.3 2.2 4.9E-05 28.9 0.6 45 30-81 73-117 (131)
155 KOG2068|consensus 68.3 3.9 8.4E-05 31.9 2.0 45 35-80 250-298 (327)
156 COG0068 HypF Hydrogenase matur 67.1 4.2 9.2E-05 35.0 2.1 54 28-81 95-185 (750)
157 smart00064 FYVE Protein presen 67.1 4.5 9.8E-05 23.6 1.7 33 34-66 10-46 (68)
158 KOG3476|consensus 66.7 1.2 2.6E-05 27.9 -0.9 37 34-80 54-90 (100)
159 KOG2979|consensus 65.8 6.9 0.00015 29.6 2.8 43 34-76 176-220 (262)
160 COG1198 PriA Primosomal protei 64.1 6.5 0.00014 34.2 2.7 96 2-112 405-511 (730)
161 COG3492 Uncharacterized protei 63.4 4.8 0.0001 25.5 1.4 12 55-66 42-53 (104)
162 PF10146 zf-C4H2: Zinc finger- 62.6 5.6 0.00012 29.6 1.9 24 56-80 196-219 (230)
163 PF13248 zf-ribbon_3: zinc-rib 60.9 1.2 2.5E-05 21.3 -1.4 6 72-77 19-24 (26)
164 smart00154 ZnF_AN1 AN1-like Zi 60.9 5.1 0.00011 21.1 1.0 22 37-58 1-24 (39)
165 COG4647 AcxC Acetone carboxyla 59.9 4.1 8.8E-05 27.6 0.7 20 39-58 62-81 (165)
166 PF09538 FYDLN_acid: Protein o 58.4 6.8 0.00015 25.7 1.5 15 67-81 24-38 (108)
167 PRK00420 hypothetical protein; 58.4 9.5 0.00021 25.2 2.2 28 35-80 24-51 (112)
168 KOG1729|consensus 58.1 7.4 0.00016 30.0 1.9 51 29-79 163-224 (288)
169 PRK11088 rrmA 23S rRNA methylt 56.7 6.5 0.00014 29.6 1.4 23 34-56 2-27 (272)
170 KOG1609|consensus 54.4 16 0.00035 27.7 3.3 48 34-81 78-135 (323)
171 KOG3799|consensus 54.4 3.7 8.1E-05 28.0 -0.2 22 30-54 61-82 (169)
172 COG1675 TFA1 Transcription ini 54.1 64 0.0014 23.1 6.0 30 69-104 132-161 (176)
173 PF13717 zinc_ribbon_4: zinc-r 53.9 7.2 0.00016 20.1 0.9 11 35-45 3-13 (36)
174 smart00734 ZnF_Rad18 Rad18-lik 53.6 10 0.00022 18.0 1.3 11 70-80 2-12 (26)
175 PRK11595 DNA utilization prote 52.6 12 0.00025 27.6 2.1 37 36-78 7-43 (227)
176 KOG2231|consensus 52.1 10 0.00022 32.6 2.0 46 36-81 2-53 (669)
177 PF10083 DUF2321: Uncharacteri 52.0 9.6 0.00021 26.6 1.5 25 53-81 27-51 (158)
178 PF12773 DZR: Double zinc ribb 51.9 9 0.00019 20.9 1.1 25 56-80 14-40 (50)
179 KOG3993|consensus 51.4 3 6.5E-05 33.7 -1.2 47 26-82 259-308 (500)
180 KOG2807|consensus 51.3 3.7 7.9E-05 32.2 -0.7 28 53-80 329-356 (378)
181 COG1592 Rubrerythrin [Energy p 49.6 19 0.00041 25.5 2.7 12 34-45 134-145 (166)
182 smart00647 IBR In Between Ring 49.1 1.9 4.2E-05 24.6 -2.1 15 51-65 45-59 (64)
183 PF01428 zf-AN1: AN1-like Zinc 48.3 9.8 0.00021 20.3 0.9 20 40-59 6-26 (43)
184 KOG4642|consensus 47.5 46 0.001 25.3 4.5 67 34-107 211-277 (284)
185 PF13719 zinc_ribbon_5: zinc-r 47.3 9.9 0.00021 19.7 0.8 13 35-47 3-15 (37)
186 PF00096 zf-C2H2: Zinc finger, 47.0 6.8 0.00015 17.4 0.1 10 36-45 2-11 (23)
187 KOG4299|consensus 46.9 11 0.00023 32.0 1.3 68 13-81 230-308 (613)
188 PF04423 Rad50_zn_hook: Rad50 46.6 7.1 0.00015 21.9 0.2 11 71-81 22-32 (54)
189 KOG4451|consensus 46.2 15 0.00033 27.4 1.8 25 56-81 251-275 (286)
190 PF07503 zf-HYPF: HypF finger; 46.1 20 0.00043 18.4 1.8 25 56-80 1-32 (35)
191 KOG2042|consensus 45.6 37 0.00079 30.6 4.3 71 32-110 868-939 (943)
192 KOG3362|consensus 45.0 5.8 0.00013 27.3 -0.4 28 34-62 118-146 (156)
193 PF06676 DUF1178: Protein of u 45.0 21 0.00045 24.8 2.3 25 51-80 9-43 (148)
194 COG3809 Uncharacterized protei 44.7 3.6 7.8E-05 25.4 -1.3 13 35-47 2-14 (88)
195 KOG0269|consensus 44.7 43 0.00093 29.4 4.4 74 4-78 736-826 (839)
196 KOG3726|consensus 44.6 12 0.00026 32.2 1.2 41 36-80 656-700 (717)
197 COG4098 comFA Superfamily II D 44.5 8.3 0.00018 30.8 0.3 36 28-63 33-69 (441)
198 TIGR02300 FYDLN_acid conserved 44.4 13 0.00028 25.1 1.1 14 67-80 24-37 (129)
199 PRK14714 DNA polymerase II lar 44.0 14 0.0003 34.1 1.6 67 34-104 667-740 (1337)
200 smart00531 TFIIE Transcription 44.0 31 0.00068 23.6 3.1 38 32-81 97-135 (147)
201 PF09297 zf-NADH-PPase: NADH p 43.2 2.8 6.2E-05 20.9 -1.7 24 54-77 3-29 (32)
202 TIGR02098 MJ0042_CXXC MJ0042 f 42.7 15 0.00032 18.8 1.0 11 35-45 3-13 (38)
203 PF01485 IBR: IBR domain; Int 41.3 2.1 4.5E-05 24.4 -2.7 30 35-64 19-58 (64)
204 PRK09678 DNA-binding transcrip 41.2 11 0.00023 22.9 0.3 9 35-43 2-10 (72)
205 TIGR00627 tfb4 transcription f 40.5 18 0.00039 27.8 1.5 8 71-78 271-278 (279)
206 PF13894 zf-C2H2_4: C2H2-type 40.4 12 0.00025 16.3 0.3 9 72-80 3-11 (24)
207 PF13901 DUF4206: Domain of un 40.1 17 0.00038 26.3 1.4 39 33-77 151-197 (202)
208 PF10186 Atg14: UV radiation r 40.1 19 0.00041 27.1 1.7 22 36-65 1-22 (302)
209 KOG4159|consensus 39.0 29 0.00062 28.1 2.5 81 53-140 2-82 (398)
210 KOG4443|consensus 37.7 15 0.00033 31.5 0.8 51 30-80 14-73 (694)
211 PF09723 Zn-ribbon_8: Zinc rib 36.8 4.3 9.2E-05 21.7 -1.7 10 68-77 25-34 (42)
212 KOG1829|consensus 36.5 16 0.00034 31.0 0.7 41 33-77 510-558 (580)
213 PF06937 EURL: EURL protein; 36.2 81 0.0018 24.2 4.4 42 34-80 30-79 (285)
214 smart00132 LIM Zinc-binding do 36.0 16 0.00034 18.1 0.5 34 37-79 2-37 (39)
215 KOG4218|consensus 36.0 31 0.00067 27.5 2.2 12 34-45 15-26 (475)
216 KOG0314|consensus 35.9 13 0.00028 30.5 0.2 47 30-78 215-264 (448)
217 COG4306 Uncharacterized protei 35.8 23 0.00049 24.0 1.3 22 55-80 29-50 (160)
218 PRK14890 putative Zn-ribbon RN 35.4 25 0.00054 20.4 1.3 18 57-77 39-56 (59)
219 KOG2807|consensus 35.4 17 0.00036 28.7 0.7 41 36-77 332-375 (378)
220 PF04959 ARS2: Arsenite-resist 35.2 12 0.00026 27.6 -0.1 23 25-47 68-90 (214)
221 smart00834 CxxC_CXXC_SSSS Puta 34.7 24 0.00053 18.1 1.1 11 69-79 26-36 (41)
222 PF00412 LIM: LIM domain; Int 34.3 32 0.00069 18.9 1.6 32 33-64 25-57 (58)
223 COG1379 PHP family phosphoeste 34.1 38 0.00082 26.8 2.4 46 35-80 227-276 (403)
224 PF09862 DUF2089: Protein of u 33.2 15 0.00033 24.2 0.2 9 37-45 1-9 (113)
225 smart00290 ZnF_UBP Ubiquitin C 32.7 27 0.00059 18.8 1.1 22 37-58 2-23 (50)
226 TIGR02159 PA_CoA_Oxy4 phenylac 32.6 46 0.001 22.9 2.5 48 9-57 78-127 (146)
227 PF12874 zf-met: Zinc-finger o 32.0 16 0.00035 16.5 0.1 11 36-46 2-12 (25)
228 PF05502 Dynactin_p62: Dynacti 31.8 14 0.00031 30.5 -0.2 7 71-77 88-94 (483)
229 KOG2113|consensus 31.2 38 0.00083 26.6 2.0 43 34-79 343-386 (394)
230 PF13834 DUF4193: Domain of un 31.2 15 0.00033 23.6 -0.1 32 29-60 65-98 (99)
231 PF07754 DUF1610: Domain of un 31.1 7.4 0.00016 18.3 -1.2 8 69-76 16-23 (24)
232 TIGR00143 hypF [NiFe] hydrogen 30.7 28 0.0006 30.4 1.3 52 30-81 64-152 (711)
233 PF14311 DUF4379: Domain of un 30.2 26 0.00056 19.6 0.8 7 69-75 49-55 (55)
234 PLN02248 cellulose synthase-li 29.9 40 0.00087 30.9 2.2 29 51-80 149-177 (1135)
235 PF14471 DUF4428: Domain of un 29.2 64 0.0014 18.0 2.3 28 36-64 1-30 (51)
236 KOG2789|consensus 28.9 47 0.001 26.9 2.2 32 33-64 73-106 (482)
237 PF13771 zf-HC5HC2H: PHD-like 28.1 90 0.002 18.9 3.1 30 34-63 36-68 (90)
238 cd00729 rubredoxin_SM Rubredox 28.0 30 0.00066 17.5 0.7 9 71-79 20-28 (34)
239 PF03119 DNA_ligase_ZBD: NAD-d 27.7 25 0.00055 17.0 0.4 10 71-80 1-10 (28)
240 COG1579 Zn-ribbon protein, pos 27.1 91 0.002 23.4 3.4 61 2-80 172-232 (239)
241 COG5242 TFB4 RNA polymerase II 27.1 24 0.00053 26.4 0.3 14 34-47 260-273 (296)
242 KOG3475|consensus 27.0 34 0.00074 21.4 0.9 28 53-80 15-42 (92)
243 PRK00418 DNA gyrase inhibitor; 25.9 32 0.00069 20.2 0.6 11 70-80 7-17 (62)
244 PF12132 DUF3587: Protein of u 25.9 55 0.0012 23.9 2.0 24 43-66 150-177 (199)
245 TIGR00595 priA primosomal prot 25.9 1.5E+02 0.0033 24.7 4.8 17 2-18 183-199 (505)
246 KOG1356|consensus 25.9 24 0.00053 31.2 0.2 32 34-65 229-262 (889)
247 PF13912 zf-C2H2_6: C2H2-type 25.5 28 0.00061 16.0 0.3 11 35-45 2-12 (27)
248 PF13913 zf-C2HC_2: zinc-finge 25.4 35 0.00075 15.9 0.6 10 71-80 4-13 (25)
249 COG3058 FdhE Uncharacterized p 25.3 88 0.0019 24.2 3.0 46 32-78 183-234 (308)
250 COG4640 Predicted membrane pro 25.2 34 0.00074 27.7 0.9 9 72-80 18-26 (465)
251 PRK01343 zinc-binding protein; 25.1 37 0.0008 19.6 0.8 12 69-80 9-20 (57)
252 PRK05580 primosome assembly pr 25.1 1.4E+02 0.003 25.9 4.6 95 2-107 351-452 (679)
253 PF12760 Zn_Tnp_IS1595: Transp 24.8 79 0.0017 16.9 2.1 12 67-78 16-27 (46)
254 PF06869 DUF1258: Protein of u 24.7 99 0.0021 23.5 3.2 45 54-107 18-64 (258)
255 COG5082 AIR1 Arginine methyltr 24.4 57 0.0012 23.6 1.8 33 26-60 52-84 (190)
256 PRK14873 primosome assembly pr 24.4 1.1E+02 0.0024 26.5 3.8 95 2-108 354-454 (665)
257 TIGR00622 ssl1 transcription f 23.6 49 0.0011 21.8 1.2 41 35-76 56-110 (112)
258 KOG1818|consensus 23.6 30 0.00065 29.6 0.3 51 29-79 160-221 (634)
259 PF12292 DUF3624: Protein of u 23.5 26 0.00056 21.5 -0.1 24 57-80 3-26 (77)
260 COG3364 Zn-ribbon containing p 23.5 34 0.00073 22.2 0.5 26 50-80 6-31 (112)
261 KOG2066|consensus 22.7 33 0.00071 30.2 0.4 38 36-75 786-830 (846)
262 KOG3608|consensus 22.6 83 0.0018 25.3 2.5 49 33-81 206-275 (467)
263 KOG0289|consensus 22.5 1.1E+02 0.0024 25.3 3.2 46 35-81 1-47 (506)
264 PRK04179 rpl37e 50S ribosomal 22.5 21 0.00045 20.9 -0.6 25 53-77 16-40 (62)
265 TIGR03826 YvyF flagellar opero 22.4 39 0.00085 23.1 0.7 23 35-62 4-26 (137)
266 PF00643 zf-B_box: B-box zinc 22.3 55 0.0012 16.8 1.1 31 34-64 3-33 (42)
267 PF08882 Acetone_carb_G: Aceto 22.3 38 0.00083 22.3 0.5 11 48-58 25-35 (112)
268 PF03833 PolC_DP2: DNA polymer 22.2 30 0.00064 30.8 0.0 46 33-81 654-704 (900)
269 PTZ00303 phosphatidylinositol 22.1 38 0.00083 30.1 0.6 31 35-65 461-500 (1374)
270 PF13465 zf-H2C2_2: Zinc-finge 21.8 44 0.00096 15.5 0.6 12 34-45 14-25 (26)
271 COG4888 Uncharacterized Zn rib 21.5 38 0.00083 21.9 0.4 42 28-80 16-57 (104)
272 KOG0006|consensus 21.5 94 0.002 24.6 2.6 32 33-64 220-253 (446)
273 PF03884 DUF329: Domain of unk 21.4 32 0.0007 19.8 0.0 12 70-81 3-14 (57)
274 PF12907 zf-met2: Zinc-binding 21.2 23 0.00051 18.8 -0.5 11 70-80 2-12 (40)
275 COG2816 NPY1 NTP pyrophosphohy 21.0 16 0.00034 28.1 -1.6 30 52-81 109-141 (279)
276 PF15135 UPF0515: Uncharacteri 20.9 15 0.00032 27.8 -1.8 28 16-43 94-121 (278)
277 PF09986 DUF2225: Uncharacteri 20.9 56 0.0012 23.9 1.2 16 32-47 3-18 (214)
278 PF04606 Ogr_Delta: Ogr/Delta- 20.8 37 0.0008 18.4 0.2 6 51-56 32-37 (47)
279 PF06827 zf-FPG_IleRS: Zinc fi 20.6 13 0.00029 18.0 -1.5 10 36-45 3-12 (30)
280 PF12171 zf-C2H2_jaz: Zinc-fin 20.4 66 0.0014 14.9 1.1 12 35-46 2-13 (27)
281 KOG0801|consensus 20.4 25 0.00054 24.9 -0.6 12 34-45 177-188 (205)
282 KOG4080|consensus 20.2 85 0.0019 22.2 1.9 11 54-64 106-116 (176)
No 1
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.60 E-value=4.9e-16 Score=85.42 Aligned_cols=39 Identities=38% Similarity=1.143 Sum_probs=31.0
Q ss_pred cccccccccCcEEccCCChhHHHHHHHHhhcC---CCccccc
Q psy18180 37 CLVCQGILIKPIKLPCNHHVCLECLQRICDNS---NLSCPMC 75 (143)
Q Consensus 37 C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~---~~~CP~C 75 (143)
||||+++|.+|++++|||+||..||.+|++.. ...||.|
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 89999999999999999999999999999843 2569987
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=99.53 E-value=1.1e-14 Score=86.82 Aligned_cols=62 Identities=18% Similarity=0.284 Sum_probs=52.5
Q ss_pred ccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHH
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQK 103 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~ 103 (143)
++.|+||++.+.+|+.++|||+||+.||.+|+..+ ..||.|+..+. ..++..|..+.+.++.
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 46999999886 3456667777777664
No 3
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.50 E-value=2.6e-14 Score=101.73 Aligned_cols=52 Identities=21% Similarity=0.577 Sum_probs=44.6
Q ss_pred CCCCccccccccccccCcEEccCCChhHHHHHHHHhhc---------------CCCcccccccccch
Q psy18180 30 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN---------------SNLSCPMCRKRLSI 81 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~---------------~~~~CP~Cr~~~~~ 81 (143)
...+++.|+||++.+.+|++++|||.||..||.+|+.. +...||.||..+..
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 34468999999999999999999999999999999752 23579999999874
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=99.50 E-value=1.6e-14 Score=88.70 Aligned_cols=68 Identities=22% Similarity=0.430 Sum_probs=55.6
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHHhhh
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK 107 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~ 107 (143)
+.|.|||+.++|.+||++++||+|++.+|.+|+..++..||.|+..+. ...+..|..|+..|+.|..+
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~-------~~~l~pn~~Lk~~I~~~~~~ 70 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLS-------ESDLIPNRALKSAIEEWCAE 70 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S-------GGGSEE-HHHHHHHHHHHHH
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC-------cccceECHHHHHHHHHHHHH
Confidence 579999999999999999999999999999999986677999999887 34778899999999998764
No 5
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.41 E-value=2.2e-13 Score=106.99 Aligned_cols=69 Identities=22% Similarity=0.495 Sum_probs=55.7
Q ss_pred CCCCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHHh
Q psy18180 29 TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYY 105 (143)
Q Consensus 29 ~~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~~ 105 (143)
...+..+.|+||.++|.+|++++|||+||..||..|+.... .||.|+..+.. ..+..|..|.++++.|.
T Consensus 21 ~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~-~CP~Cr~~~~~-------~~Lr~N~~L~~iVe~~~ 89 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP-KCPLCRAEDQE-------SKLRSNWLVSEIVESFK 89 (397)
T ss_pred cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCC-CCCCCCCcccc-------ccCccchHHHHHHHHHH
Confidence 44567899999999999999999999999999999998654 69999998863 24555666666666553
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=99.41 E-value=1.2e-13 Score=74.78 Aligned_cols=38 Identities=37% Similarity=1.065 Sum_probs=32.8
Q ss_pred cccccccccCc-EEccCCChhHHHHHHHHhhcCCCccccc
Q psy18180 37 CLVCQGILIKP-IKLPCNHHVCLECLQRICDNSNLSCPMC 75 (143)
Q Consensus 37 C~IC~~~~~~p-v~l~CgH~fC~~Ci~~~~~~~~~~CP~C 75 (143)
|+||.+.+.+| +.++|||+||..|+.+|+.. +..||.|
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 5679987
No 7
>KOG0287|consensus
Probab=99.34 E-value=6.6e-13 Score=100.93 Aligned_cols=65 Identities=22% Similarity=0.527 Sum_probs=53.2
Q ss_pred CCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHH
Q psy18180 32 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 104 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 104 (143)
.+-++|.||.++|..|+++||||+||.-||..++.... .||.|+..+. ...+.-|..|.++++.+
T Consensus 21 D~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p-~CP~C~~~~~-------Es~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKP-QCPTCCVTVT-------ESDLRNNRILDEIVKSL 85 (442)
T ss_pred HHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCC-CCCceecccc-------hhhhhhhhHHHHHHHHH
Confidence 45679999999999999999999999999999998655 4999999887 34555566666666555
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=99.33 E-value=7.6e-13 Score=72.25 Aligned_cols=39 Identities=33% Similarity=1.069 Sum_probs=36.1
Q ss_pred cccccccccCcE-EccCCChhHHHHHHHHhh-cCCCccccc
Q psy18180 37 CLVCQGILIKPI-KLPCNHHVCLECLQRICD-NSNLSCPMC 75 (143)
Q Consensus 37 C~IC~~~~~~pv-~l~CgH~fC~~Ci~~~~~-~~~~~CP~C 75 (143)
|+||.+.+.+|+ +++|||+||..|+.+|+. .+...||.|
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 789999999999999999 667789987
No 9
>KOG0823|consensus
Probab=99.33 E-value=5.9e-13 Score=96.51 Aligned_cols=51 Identities=25% Similarity=0.654 Sum_probs=45.3
Q ss_pred CCCccccccccccccCcEEccCCChhHHHHHHHHhh--cCCCcccccccccch
Q psy18180 31 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD--NSNLSCPMCRKRLSI 81 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~--~~~~~CP~Cr~~~~~ 81 (143)
....|.|.||++..++||++.|||.||-.||++|+. .+...||+|+..++.
T Consensus 44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 455899999999999999999999999999999998 345669999998874
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=99.33 E-value=7.8e-13 Score=75.35 Aligned_cols=47 Identities=30% Similarity=0.781 Sum_probs=39.9
Q ss_pred CccccccccccccCcEEccCCCh-hHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
++..|.||++...+++.+||||. ||..|+.+|+.. ...||.||+.+.
T Consensus 1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-S
T ss_pred CcCCCccCCccCCceEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhc
Confidence 36789999999999999999999 999999999984 456999999875
No 11
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.30 E-value=5.3e-13 Score=78.42 Aligned_cols=58 Identities=28% Similarity=0.630 Sum_probs=32.6
Q ss_pred ccccccccccccCcEEc-cCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHH
Q psy18180 34 SVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQI 101 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i 101 (143)
-+.|++|.+++.+|+.+ .|.|.||+.|+...+.. .||+|..+.. ..++.+|..|.++|
T Consensus 7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw-------~qD~~~NrqLd~~i 65 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAW-------IQDIQINRQLDSMI 65 (65)
T ss_dssp TTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT---B-SSS--B-S--------SS----HHHHHHH
T ss_pred hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC---CCCCcCChHH-------HHHHHhhhhhhccC
Confidence 68999999999999976 89999999999876542 4999999876 45889999988765
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=99.28 E-value=1.1e-12 Score=72.73 Aligned_cols=40 Identities=38% Similarity=0.872 Sum_probs=33.9
Q ss_pred cccccccccc---CcEEccCCChhHHHHHHHHhhcCCCcccccc
Q psy18180 36 LCLVCQGILI---KPIKLPCNHHVCLECLQRICDNSNLSCPMCR 76 (143)
Q Consensus 36 ~C~IC~~~~~---~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr 76 (143)
.|+||++.+. .++.++|||.||..||.+|+..+. .||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~-~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNN-SCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSS-B-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCC-cCCccC
Confidence 6999999885 556779999999999999998754 699997
No 13
>KOG0320|consensus
Probab=99.26 E-value=4.7e-12 Score=88.46 Aligned_cols=49 Identities=29% Similarity=0.790 Sum_probs=42.2
Q ss_pred CCcccccccccccc--CcEEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 32 PDSVLCLVCQGILI--KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 32 ~~~~~C~IC~~~~~--~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
+..+.||||++.+. .|+.+.|||.||..||+..++.+.. ||+|++.++.
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~-CP~C~kkIt~ 179 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNK-CPTCRKKITH 179 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCC-CCCcccccch
Confidence 44689999999998 4566899999999999999987765 9999998874
No 14
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.23 E-value=3.7e-12 Score=70.04 Aligned_cols=36 Identities=39% Similarity=1.125 Sum_probs=23.0
Q ss_pred cccccccccC----cEEccCCChhHHHHHHHHhhcC---CCccc
Q psy18180 37 CLVCQGILIK----PIKLPCNHHVCLECLQRICDNS---NLSCP 73 (143)
Q Consensus 37 C~IC~~~~~~----pv~l~CgH~fC~~Ci~~~~~~~---~~~CP 73 (143)
||||.+ +.+ |+.|+|||+||..|+.+++.++ .+.||
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 56676
No 15
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.21 E-value=1.1e-11 Score=68.09 Aligned_cols=43 Identities=28% Similarity=0.821 Sum_probs=37.5
Q ss_pred ccccccccccCcEEcc-CCChhHHHHHHHHhhcCCCcccccccc
Q psy18180 36 LCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKR 78 (143)
Q Consensus 36 ~C~IC~~~~~~pv~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 78 (143)
.|+||.+.+.+++.++ |||.||..|+..|+..+...||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 4899999998887775 999999999999998756679999875
No 16
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.21 E-value=1e-11 Score=91.73 Aligned_cols=48 Identities=29% Similarity=0.724 Sum_probs=39.9
Q ss_pred CccccccccccccCc--------EEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 33 DSVLCLVCQGILIKP--------IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~p--------v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
++..|+||++.+.++ +.++|||.||..||.+|+.... +||+||..+..
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~-tCPlCR~~~~~ 228 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN-TCPVCRTPFIS 228 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC-CCCCCCCEeeE
Confidence 468999999987653 4458999999999999998654 69999998873
No 17
>KOG0317|consensus
Probab=99.19 E-value=1.5e-11 Score=91.75 Aligned_cols=54 Identities=24% Similarity=0.725 Sum_probs=47.0
Q ss_pred CCCCCCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 27 NNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 27 ~~~~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
..+..+....|.+|++...+|..+||||.||-.||..|..... .||.||..+..
T Consensus 232 ~~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~-eCPlCR~~~~p 285 (293)
T KOG0317|consen 232 LSSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA-ECPLCREKFQP 285 (293)
T ss_pred CccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc-CCCcccccCCC
Confidence 4455667799999999999999999999999999999997544 59999998873
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.16 E-value=3.5e-11 Score=66.71 Aligned_cols=41 Identities=32% Similarity=0.877 Sum_probs=34.6
Q ss_pred ccccccccc---cCcEEccCCChhHHHHHHHHhhcCCCccccccc
Q psy18180 36 LCLVCQGIL---IKPIKLPCNHHVCLECLQRICDNSNLSCPMCRK 77 (143)
Q Consensus 36 ~C~IC~~~~---~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 77 (143)
.|+||++.+ ..|..++|||+||..|+..+. .....||+|++
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 489999999 256788999999999999988 44567999985
No 19
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.14 E-value=2.7e-11 Score=90.59 Aligned_cols=47 Identities=26% Similarity=0.731 Sum_probs=42.9
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.-+.|.||.+.+..|+.++|||+||.-||.+++....+ ||.||....
T Consensus 24 s~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~-CP~Cr~~~~ 70 (391)
T COG5432 24 SMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPF-CPVCREDPC 70 (391)
T ss_pred hHHHhhhhhheeecceecccccchhHHHHHHHhcCCCC-CccccccHH
Confidence 46799999999999999999999999999999987665 999999876
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=99.14 E-value=5.5e-11 Score=63.16 Aligned_cols=39 Identities=36% Similarity=1.036 Sum_probs=35.1
Q ss_pred cccccccccCcEEccCCChhHHHHHHHHhhcCCCccccc
Q psy18180 37 CLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMC 75 (143)
Q Consensus 37 C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~C 75 (143)
|+||.+....++.++|||.||..|+..|+..+...||.|
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
>PHA02926 zinc finger-like protein; Provisional
Probab=99.06 E-value=2.2e-10 Score=82.91 Aligned_cols=49 Identities=24% Similarity=0.663 Sum_probs=38.6
Q ss_pred CccccccccccccC---------cEEccCCChhHHHHHHHHhhcC-----CCcccccccccch
Q psy18180 33 DSVLCLVCQGILIK---------PIKLPCNHHVCLECLQRICDNS-----NLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~---------pv~l~CgH~fC~~Ci~~~~~~~-----~~~CP~Cr~~~~~ 81 (143)
++..|+||++...+ ++..+|+|.||..||..|.... ...||.||..+..
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 47899999987643 2344899999999999999732 2459999998763
No 22
>KOG2177|consensus
Probab=99.04 E-value=1.6e-10 Score=86.83 Aligned_cols=64 Identities=33% Similarity=0.725 Sum_probs=50.6
Q ss_pred CCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHH
Q psy18180 31 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 104 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 104 (143)
..+.+.|+||++.|.+|++++|||+||..|+..++. ....||.||. ... ....|..+.+++..+
T Consensus 10 ~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~-~~~--------~~~~n~~l~~~~~~~ 73 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCPVCRP-PSR--------NLRPNVLLANLVERL 73 (386)
T ss_pred ccccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCcccCC-chh--------ccCccHHHHHHHHHH
Confidence 456899999999999998889999999999999998 6678999995 321 333555565555555
No 23
>KOG2660|consensus
Probab=99.02 E-value=1.5e-10 Score=87.90 Aligned_cols=73 Identities=22% Similarity=0.489 Sum_probs=62.4
Q ss_pred CccccccccccccCcEEc-cCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHHhhhHH
Q psy18180 33 DSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEV 109 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~ 109 (143)
....|.+|.++|.++.++ .|-|+||++||.+++... ..||.|...+.. .+...++..+..|+.++.+++|.-.
T Consensus 14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~-~~CP~C~i~ih~---t~pl~ni~~DrtlqdiVyKLVPgl~ 87 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEES-KYCPTCDIVIHK---THPLLNIRSDRTLQDIVYKLVPGLQ 87 (331)
T ss_pred cceehhhccceeecchhHHHHHHHHHHHHHHHHHHHh-ccCCccceeccC---ccccccCCcchHHHHHHHHHcchHH
Confidence 367999999999999987 699999999999999874 469999998874 3445688899999999999998643
No 24
>KOG0311|consensus
Probab=99.01 E-value=5.4e-11 Score=90.98 Aligned_cols=51 Identities=31% Similarity=0.773 Sum_probs=46.1
Q ss_pred CCCccccccccccccCcEEc-cCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 31 TPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
...+++|+||+++++...++ .|+|.||..||...+..++..||.||+.+.+
T Consensus 40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 34588999999999998888 5999999999999999888889999999886
No 25
>KOG4159|consensus
Probab=98.97 E-value=4.2e-10 Score=88.70 Aligned_cols=106 Identities=25% Similarity=0.451 Sum_probs=70.0
Q ss_pred CCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHHhhhHHh
Q psy18180 31 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVD 110 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~ 110 (143)
...+|.|.||...+..|+++||||+||..||.+.++.. ..||.||..+..... ......+++.+..++..+++....
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 36799999999999999999999999999999977754 469999999874211 011112466666777777766544
Q ss_pred hhhcCCc--hhHHh--hhccccc-cccccCCccc
Q psy18180 111 QKLFDQD--DGVWE--NYHQHIS-TYLLTAPTYL 139 (143)
Q Consensus 111 ~~~~~~e--~~~~~--~~~~~i~-~~~~s~p~~~ 139 (143)
.+....+ ..+.+ +...|++ +..+++|+..
T Consensus 158 ~s~~~~~~~~~e~~~~e~~~p~f~v~~~~~p~v~ 191 (398)
T KOG4159|consen 158 FSPKASEKSKEEESSRECESPLFPVCTLAFPEVP 191 (398)
T ss_pred cchhhhhhhccccccccccCCccccccccccccc
Confidence 2222111 11111 2234666 6677777654
No 26
>KOG2164|consensus
Probab=98.91 E-value=5.4e-10 Score=89.15 Aligned_cols=48 Identities=27% Similarity=0.744 Sum_probs=43.0
Q ss_pred ccccccccccccCcEEccCCChhHHHHHHHHhhcC----CCcccccccccch
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS----NLSCPMCRKRLSI 81 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~----~~~CP~Cr~~~~~ 81 (143)
+..||||++...-|+.+.|||.||..||-++|..+ -..||+|+..+..
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 88999999999999999999999999999998743 3569999998875
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=98.88 E-value=1.5e-09 Score=66.50 Aligned_cols=40 Identities=35% Similarity=0.916 Sum_probs=31.8
Q ss_pred ccccccccccC------------cEE-ccCCChhHHHHHHHHhhcCCCcccccc
Q psy18180 36 LCLVCQGILIK------------PIK-LPCNHHVCLECLQRICDNSNLSCPMCR 76 (143)
Q Consensus 36 ~C~IC~~~~~~------------pv~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr 76 (143)
.|.||++.|.+ ++. .+|||.|+..||.+|+..+. .||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCCCC
Confidence 49999998832 333 37999999999999998766 699997
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=98.87 E-value=2.9e-09 Score=81.05 Aligned_cols=49 Identities=27% Similarity=0.603 Sum_probs=39.0
Q ss_pred Ccccccccccc-ccCcE---Ec-cCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 33 DSVLCLVCQGI-LIKPI---KL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~-~~~pv---~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
++..||+|... +.+|. .+ +|||.||..|+..+|..+...||.|+..+..
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 35789999973 44553 22 6999999999999887777789999998874
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=1.4e-09 Score=80.48 Aligned_cols=49 Identities=29% Similarity=0.644 Sum_probs=43.0
Q ss_pred CCccccccccccccCcEEccCCChhHHHHHHH-HhhcCCCcccccccccc
Q psy18180 32 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQR-ICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~-~~~~~~~~CP~Cr~~~~ 80 (143)
+.++.|.||.+....|..++|||.||..||-. |-....-.||.||+...
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 56899999999999999999999999999999 65554445999999876
No 30
>KOG4628|consensus
Probab=98.72 E-value=4.8e-09 Score=81.06 Aligned_cols=47 Identities=23% Similarity=0.636 Sum_probs=40.6
Q ss_pred cccccccccccCc---EEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 35 VLCLVCQGILIKP---IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 35 ~~C~IC~~~~~~p---v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
..|.||++.|..- ..|||+|.|+..||..|+......||+|++.+..
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 5999999999832 4579999999999999999776679999998764
No 31
>KOG0978|consensus
Probab=98.65 E-value=1.3e-08 Score=84.71 Aligned_cols=48 Identities=25% Similarity=0.643 Sum_probs=43.6
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.-+.||+|..-+.+.+++.|||.||..|+...+......||.|...|.
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFG 689 (698)
T ss_pred hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence 467999999999999999999999999999999865667999999987
No 32
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.64 E-value=2.9e-08 Score=70.80 Aligned_cols=61 Identities=21% Similarity=0.476 Sum_probs=48.4
Q ss_pred CCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHH
Q psy18180 32 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQI 101 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i 101 (143)
.-.|.|.||...|..||.+.|||.||..|..+-...+. .|-+|.+.+.. ...+...++.++
T Consensus 194 ~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~-~C~~Cgk~t~G--------~f~V~~d~~kmL 254 (259)
T COG5152 194 KIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGD-ECGVCGKATYG--------RFWVVSDLQKML 254 (259)
T ss_pred CCceeehhchhhccchhhhhcchhHHHHHHHHHhccCC-cceecchhhcc--------ceeHHhhHHHHH
Confidence 34679999999999999999999999999988777654 59999988764 444555555544
No 33
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.62 E-value=4e-08 Score=61.29 Aligned_cols=47 Identities=26% Similarity=0.656 Sum_probs=37.0
Q ss_pred cccccccccccc------------CcEEc-cCCChhHHHHHHHHhhc--CCCcccccccccc
Q psy18180 34 SVLCLVCQGILI------------KPIKL-PCNHHVCLECLQRICDN--SNLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~------------~pv~l-~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~ 80 (143)
+-.|.||+..|. -|+.+ .|+|.|+..||.+|+.. +...||+||+...
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 567888887665 14444 79999999999999984 3457999999875
No 34
>KOG2879|consensus
Probab=98.62 E-value=5.5e-08 Score=72.42 Aligned_cols=74 Identities=22% Similarity=0.514 Sum_probs=55.9
Q ss_pred HHHHHHHhhccccc-ccccCCCCCCCCCccccccccccccCcEEc-cCCChhHHHHHHHHhh-cCCCcccccccccc
Q psy18180 7 FRDVSLLLVNSKMD-NEDCNSNNTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICD-NSNLSCPMCRKRLS 80 (143)
Q Consensus 7 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~ 80 (143)
|+.++..+..-..+ .+..+.+++....+.+|++|.+....|.+. +|||.||..|+..... ...+.||.|.....
T Consensus 211 ~~k~r~~l~sw~~~l~~ap~~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 211 FRKLRRVLKSWKLDLDRAPKFSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred HHHHHHHHHhhcccccCCCCcccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 45555544443333 223445677788899999999999999987 5999999999998765 44678999988876
No 35
>KOG0802|consensus
Probab=98.59 E-value=2.7e-08 Score=81.95 Aligned_cols=49 Identities=33% Similarity=0.762 Sum_probs=42.4
Q ss_pred CCCccccccccccccC-----cEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 31 TPDSVLCLVCQGILIK-----PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~-----pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
...+..|+||.+.+.. |..++|||.||..|+..|++..+ +||.||..+.
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q-tCP~CR~~~~ 341 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ-TCPTCRTVLY 341 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC-cCCcchhhhh
Confidence 3447899999999998 78999999999999999999865 4999999443
No 36
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.56 E-value=2.3e-07 Score=70.14 Aligned_cols=44 Identities=32% Similarity=0.859 Sum_probs=40.5
Q ss_pred cccccccccccCcEEc-cCCChhHHHHHHHHhhcCCCcccccccc
Q psy18180 35 VLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKR 78 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 78 (143)
+.|+.|..++.+|+.+ -|||+||..||...+....+.||.|...
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rk 319 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRK 319 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcccc
Confidence 8999999999999999 5999999999999888778889999774
No 37
>KOG0824|consensus
Probab=98.55 E-value=3.6e-08 Score=74.29 Aligned_cols=49 Identities=27% Similarity=0.647 Sum_probs=44.5
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
.+-.|+||+....-|+.++|+|.||.-||+....++...|++||.++..
T Consensus 6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred cCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 3568999999999999999999999999999887777789999999985
No 38
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=7.3e-08 Score=74.62 Aligned_cols=49 Identities=31% Similarity=0.820 Sum_probs=40.8
Q ss_pred CCCccccccccccc-c------------CcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 31 TPDSVLCLVCQGIL-I------------KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 31 ~~~~~~C~IC~~~~-~------------~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..+|-.|.||.+-+ . .|..+||||.++..|++.|+.++. +||.||.++.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ-TCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-TCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc-CCCcccCccc
Confidence 34578999999874 3 347899999999999999999765 4999999854
No 39
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=6.9e-08 Score=72.90 Aligned_cols=49 Identities=29% Similarity=0.697 Sum_probs=40.7
Q ss_pred CCccccccccccccC---cEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 32 PDSVLCLVCQGILIK---PIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~---pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.....|.||+..|.+ -+.+||.|.|+..|+.+|+..-...||+||..++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 346799999998863 2457999999999999999855556999999886
No 40
>KOG1813|consensus
Probab=98.38 E-value=1.7e-07 Score=70.53 Aligned_cols=47 Identities=19% Similarity=0.636 Sum_probs=41.4
Q ss_pred ccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
.+.|-||...|.+||.+.|||.||..|..+-+..+. .|.+|.+.+..
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~-~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGE-KCYVCSQQTHG 287 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccccccCC-cceeccccccc
Confidence 456999999999999999999999999988877654 49999998874
No 41
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.36 E-value=2e-07 Score=54.29 Aligned_cols=43 Identities=23% Similarity=0.449 Sum_probs=30.7
Q ss_pred CCccccccccccccCcEEc-cCCChhHHHHHHHHhh-cCCCcccc
Q psy18180 32 PDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICD-NSNLSCPM 74 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~-~~~~~CP~ 74 (143)
...+.|||....|.+||.- .|||+|.+..|.+++. ++...||.
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3468999999999999985 8999999999999994 45567997
No 42
>KOG0297|consensus
Probab=98.22 E-value=9.3e-07 Score=70.22 Aligned_cols=51 Identities=31% Similarity=0.849 Sum_probs=45.2
Q ss_pred CCCCccccccccccccCcEEc-cCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 30 LTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
+.++++.|++|...+.+|+.+ .|||.||..|+..|+.. ...||.|+..+..
T Consensus 17 ~~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 17 PLDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQ 68 (391)
T ss_pred CCcccccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcccccccch
Confidence 367789999999999999995 99999999999999987 4569999888774
No 43
>KOG4172|consensus
Probab=98.20 E-value=3.9e-07 Score=51.78 Aligned_cols=46 Identities=24% Similarity=0.663 Sum_probs=40.2
Q ss_pred cccccccccccCcEEccCCCh-hHHHHHHHHhhcCCCcccccccccc
Q psy18180 35 VLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
-.|.||++...+.|..-|||. .|..|-.+.++.....||.||+++.
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 689999998888888899995 7999999988866667999999886
No 44
>KOG1002|consensus
Probab=98.14 E-value=2.1e-06 Score=69.36 Aligned_cols=50 Identities=32% Similarity=0.748 Sum_probs=43.7
Q ss_pred CCccccccccccccCcEEccCCChhHHHHHHHHhh----cCCCcccccccccch
Q psy18180 32 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD----NSNLSCPMCRKRLSI 81 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~~~~~ 81 (143)
..+..|.+|.+.-.+++...|.|.||+.|+..+.. +.+.+||.|...++.
T Consensus 534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 45779999999999999999999999999988775 456889999888764
No 45
>KOG4265|consensus
Probab=98.02 E-value=5e-06 Score=64.20 Aligned_cols=49 Identities=27% Similarity=0.750 Sum_probs=41.3
Q ss_pred CCccccccccccccCcEEccCCCh-hHHHHHHHHhhcCCCcccccccccch
Q psy18180 32 PDSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
+....|.||+.-.++-+.+||.|. .|..|.+...-+.+ .||+||+.+..
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 447799999999999999999996 79999987764444 49999999874
No 46
>KOG0804|consensus
Probab=97.99 E-value=3.4e-06 Score=66.84 Aligned_cols=46 Identities=33% Similarity=0.655 Sum_probs=37.6
Q ss_pred CCccccccccccccCcE----EccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 32 PDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv----~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.+--+||||++-+...+ ++.|.|+|...|+..|+.. +||+||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS---SCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC---cChhhhhhcC
Confidence 34559999999998664 4589999999999999863 5999987655
No 47
>KOG1039|consensus
Probab=97.90 E-value=8e-06 Score=63.58 Aligned_cols=54 Identities=26% Similarity=0.597 Sum_probs=41.8
Q ss_pred CCCCCCccccccccccccCcE-----E---ccCCChhHHHHHHHHhhcC------CCcccccccccch
Q psy18180 28 NTLTPDSVLCLVCQGILIKPI-----K---LPCNHHVCLECLQRICDNS------NLSCPMCRKRLSI 81 (143)
Q Consensus 28 ~~~~~~~~~C~IC~~~~~~pv-----~---l~CgH~fC~~Ci~~~~~~~------~~~CP~Cr~~~~~ 81 (143)
+.....+..|.||++...+.. . .+|.|.||..||..|-... ...||.||.....
T Consensus 155 a~~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 155 ALQKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred CcCccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 344456889999999887665 3 3699999999999998421 3579999987663
No 48
>KOG1785|consensus
Probab=97.89 E-value=6.1e-06 Score=64.72 Aligned_cols=47 Identities=30% Similarity=0.652 Sum_probs=40.4
Q ss_pred ccccccccccCcEEccCCChhHHHHHHHHhhcC-CCcccccccccchh
Q psy18180 36 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNS-NLSCPMCRKRLSIW 82 (143)
Q Consensus 36 ~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~~ 82 (143)
.|.||-+.=++-.+-||||..|..|+..|.... +..||.||..+..+
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 689999988887777999999999999999643 56799999998864
No 49
>KOG4692|consensus
Probab=97.82 E-value=2.6e-05 Score=60.41 Aligned_cols=53 Identities=23% Similarity=0.614 Sum_probs=43.9
Q ss_pred CCCCCCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 27 NNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 27 ~~~~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..-+..++-.||||..-..+.+..||+|.-|..||.+.+-+.. .|=.|...+.
T Consensus 415 ~~lp~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k-~CFfCktTv~ 467 (489)
T KOG4692|consen 415 KDLPDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCK-RCFFCKTTVI 467 (489)
T ss_pred CCCCCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCC-eeeEecceee
Confidence 3344567889999999888889999999999999999887654 5999987665
No 50
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.82 E-value=2.6e-06 Score=51.70 Aligned_cols=47 Identities=26% Similarity=0.529 Sum_probs=23.3
Q ss_pred cccccccccccc----CcEEc----cCCChhHHHHHHHHhhc---C-------CCcccccccccc
Q psy18180 34 SVLCLVCQGILI----KPIKL----PCNHHVCLECLQRICDN---S-------NLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~----~pv~l----~CgH~fC~~Ci~~~~~~---~-------~~~CP~Cr~~~~ 80 (143)
+..|+||+..+. .|... .|++.|+..||.+|+.. + ...||.|++.+.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 578999998754 24333 59999999999999872 1 125999999886
No 51
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.82 E-value=2.7e-05 Score=43.88 Aligned_cols=41 Identities=34% Similarity=0.822 Sum_probs=31.8
Q ss_pred ccccccc--cccCcEEccCC-----ChhHHHHHHHHhhcC-CCcccccc
Q psy18180 36 LCLVCQG--ILIKPIKLPCN-----HHVCLECLQRICDNS-NLSCPMCR 76 (143)
Q Consensus 36 ~C~IC~~--~~~~pv~l~Cg-----H~fC~~Ci~~~~~~~-~~~CP~Cr 76 (143)
.|.||++ .-.+|...||. |.++..|+.+|+... ...||+|.
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 4889997 33467777885 789999999999743 45799984
No 52
>KOG4367|consensus
Probab=97.81 E-value=1.2e-05 Score=63.83 Aligned_cols=36 Identities=33% Similarity=0.823 Sum_probs=32.6
Q ss_pred CCCccccccccccccCcEEccCCChhHHHHHHHHhh
Q psy18180 31 TPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD 66 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~ 66 (143)
+++++.|+||...|.+|++++|+|..|+.|....+.
T Consensus 1 meeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYREPIILPCSHNLCQACARNILV 36 (699)
T ss_pred CcccccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence 357899999999999999999999999999987764
No 53
>KOG4185|consensus
Probab=97.77 E-value=2.2e-05 Score=60.02 Aligned_cols=69 Identities=28% Similarity=0.526 Sum_probs=50.5
Q ss_pred cccccccccccc------CcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHH
Q psy18180 34 SVLCLVCQGILI------KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 104 (143)
Q Consensus 34 ~~~C~IC~~~~~------~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 104 (143)
.+.|-||.+.|. .|..+.|||++|..|+.+.+.++...||.||..+..+ ......+..|..+...++..
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~~~~--~~~~~~l~kNf~ll~~~~~~ 77 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETTEIP--DGDVKSLQKNFALLQAIEHM 77 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcccCC--chhHhhhhhhHHHHHHHHHH
Confidence 467999998887 5777889999999999999988888899999986431 11223444555555555443
No 54
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.77 E-value=2.9e-05 Score=47.57 Aligned_cols=30 Identities=30% Similarity=0.680 Sum_probs=26.4
Q ss_pred cCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 51 PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 51 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
-|.|.|...||.+|++..+. ||++++....
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~-CPld~q~w~~ 82 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGV-CPLDRQTWVL 82 (88)
T ss_pred ecchHHHHHHHHHHHhhCCC-CCCCCceeEE
Confidence 59999999999999997665 9999998763
No 55
>KOG1734|consensus
Probab=97.71 E-value=1.2e-05 Score=60.05 Aligned_cols=51 Identities=25% Similarity=0.657 Sum_probs=40.7
Q ss_pred CCCccccccccccccCc----------EEccCCChhHHHHHHHHhh-cCCCcccccccccch
Q psy18180 31 TPDSVLCLVCQGILIKP----------IKLPCNHHVCLECLQRICD-NSNLSCPMCRKRLSI 81 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~p----------v~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~~ 81 (143)
-.++-.|.||.+.+... .+++|+|.|+..||+.|-- ....+||.|+..+..
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 34677999999876533 4679999999999999976 344579999998774
No 56
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.67 E-value=1.6e-05 Score=68.26 Aligned_cols=47 Identities=26% Similarity=0.684 Sum_probs=37.3
Q ss_pred cccccccccccc-----CcEEc--cCCChhHHHHHHHHhh-cCCCcccccccccc
Q psy18180 34 SVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICD-NSNLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~-----~pv~l--~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~ 80 (143)
.-.|+||+.++. -|... .|.|.|+..|+.+|++ .++..||.||..++
T Consensus 1469 ~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1469 HEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 458999998876 23322 5999999999999999 34557999998775
No 57
>KOG4275|consensus
Probab=97.57 E-value=2e-05 Score=59.52 Aligned_cols=43 Identities=30% Similarity=0.794 Sum_probs=36.9
Q ss_pred CccccccccccccCcEEccCCCh-hHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHH-VCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~-fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.+..|.||++...+-+.|+|||. -|..|-.++. .||+||+.+.
T Consensus 299 ~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~-----eCPICRqyi~ 342 (350)
T KOG4275|consen 299 TRRLCAICMDAPRDCVFLECGHMVTCTKCGKRMN-----ECPICRQYIV 342 (350)
T ss_pred HHHHHHHHhcCCcceEEeecCcEEeehhhccccc-----cCchHHHHHH
Confidence 37899999999999999999995 5999977642 5999999875
No 58
>KOG1493|consensus
Probab=97.56 E-value=2.3e-05 Score=47.58 Aligned_cols=45 Identities=27% Similarity=0.606 Sum_probs=34.6
Q ss_pred cccccccccc------------CcEEc-cCCChhHHHHHHHHhh--cCCCcccccccccc
Q psy18180 36 LCLVCQGILI------------KPIKL-PCNHHVCLECLQRICD--NSNLSCPMCRKRLS 80 (143)
Q Consensus 36 ~C~IC~~~~~------------~pv~l-~CgH~fC~~Ci~~~~~--~~~~~CP~Cr~~~~ 80 (143)
.|.||.-.|. -|.++ -|.|.|...||.+|+. .+...||+||+...
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 7888886664 24444 5999999999999998 23356999999765
No 59
>KOG0827|consensus
Probab=97.53 E-value=5.2e-05 Score=59.34 Aligned_cols=46 Identities=24% Similarity=0.616 Sum_probs=34.0
Q ss_pred cccccccccccCcEE---c-cCCChhHHHHHHHHhhcC--CCcccccccccc
Q psy18180 35 VLCLVCQGILIKPIK---L-PCNHHVCLECLQRICDNS--NLSCPMCRKRLS 80 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~---l-~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~ 80 (143)
-.|.||.+.+-.-.- + .|||+|+..|+.+|+... +..||.|+-.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 479999766553332 3 499999999999999843 346999994443
No 60
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.45 E-value=0.00011 Score=41.07 Aligned_cols=43 Identities=28% Similarity=0.652 Sum_probs=21.9
Q ss_pred cccccccccC--cEEc--cCCChhHHHHHHHHhhcCCCccccccccc
Q psy18180 37 CLVCQGILIK--PIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRL 79 (143)
Q Consensus 37 C~IC~~~~~~--pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 79 (143)
||+|.+.+.. -... +||+.+|..|..+.....+..||-||+..
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 6888887732 1223 69999999999999876566799999864
No 61
>KOG0828|consensus
Probab=97.43 E-value=7.3e-05 Score=60.17 Aligned_cols=50 Identities=28% Similarity=0.614 Sum_probs=38.4
Q ss_pred CCCcccccccccccc-----------------CcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 31 TPDSVLCLVCQGILI-----------------KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~-----------------~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.+....|+||..... +-..+||.|.|+..|+.+|.+.-...||.||..++
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 344568999996432 12235999999999999999855567999999876
No 62
>KOG1941|consensus
Probab=97.40 E-value=7.8e-05 Score=58.51 Aligned_cols=48 Identities=42% Similarity=0.763 Sum_probs=38.4
Q ss_pred Ccccccccccccc-CcE---EccCCChhHHHHHHHHhh-cCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILI-KPI---KLPCNHHVCLECLQRICD-NSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~-~pv---~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~ 80 (143)
-++.|..|.+.+. .|- .+||.|.|+..|++.++. ++..+||.||+-.+
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 3789999999886 333 369999999999999987 44568999996544
No 63
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.32 E-value=6.7e-05 Score=42.89 Aligned_cols=45 Identities=29% Similarity=0.684 Sum_probs=35.4
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
....|-.|...-...++++|||..|..|+.-+-.+ .||.|..++.
T Consensus 6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rYn---gCPfC~~~~~ 50 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGERYN---GCPFCGTPFE 50 (55)
T ss_pred cceeEEEccccccccccccccceeeccccChhhcc---CCCCCCCccc
Confidence 35677778887778889999999999997654322 3999999886
No 64
>KOG0825|consensus
Probab=97.22 E-value=7e-05 Score=63.24 Aligned_cols=47 Identities=19% Similarity=0.393 Sum_probs=37.3
Q ss_pred CccccccccccccCcEE---ccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILIKPIK---LPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~---l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..-.||+|+..+.+-.. .+|+|.||..|+..|-+... +||+||..+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq-TCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ-TCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc-cCchhhhhhh
Confidence 34478888887775543 37999999999999988655 4999999886
No 65
>KOG2930|consensus
Probab=97.18 E-value=0.00027 Score=45.43 Aligned_cols=29 Identities=31% Similarity=0.725 Sum_probs=25.1
Q ss_pred cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 51 PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 51 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.|.|.|+..||.+|++..+. ||+|.+.-.
T Consensus 80 ~CNHaFH~hCisrWlktr~v-CPLdn~eW~ 108 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNV-CPLDNKEWV 108 (114)
T ss_pred ecchHHHHHHHHHHHhhcCc-CCCcCccee
Confidence 69999999999999997765 999977643
No 66
>KOG1645|consensus
Probab=97.16 E-value=0.00055 Score=54.06 Aligned_cols=48 Identities=19% Similarity=0.588 Sum_probs=38.1
Q ss_pred CccccccccccccCcE-----EccCCChhHHHHHHHHhhcC-CCcccccccccc
Q psy18180 33 DSVLCLVCQGILIKPI-----KLPCNHHVCLECLQRICDNS-NLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv-----~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~ 80 (143)
...+||||++.+.-|. .+.|||.|=..||++|+.+. ...||.|.....
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 3569999999988663 45799999999999999622 246999977655
No 67
>KOG3800|consensus
Probab=97.15 E-value=0.00033 Score=52.93 Aligned_cols=45 Identities=31% Similarity=0.730 Sum_probs=35.9
Q ss_pred ccccccc-cccCcEE-c---cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 36 LCLVCQG-ILIKPIK-L---PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 36 ~C~IC~~-~~~~pv~-l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.||+|.. .+.+|-. + +|||..|.+|+...+..+...||.|...+-
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 5899984 4455532 2 899999999999999988888999977654
No 68
>KOG3039|consensus
Probab=97.10 E-value=0.00029 Score=52.17 Aligned_cols=48 Identities=25% Similarity=0.463 Sum_probs=40.6
Q ss_pred CccccccccccccCcEE---c-cCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 33 DSVLCLVCQGILIKPIK---L-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~---l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
..+.||+|.+.+.+.+. | +|||.||..|+++++....+ ||+|..++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v-~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMV-DPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccccc-ccCCCCcCcc
Confidence 57899999999996532 3 89999999999999987665 9999988774
No 69
>KOG4739|consensus
Probab=97.06 E-value=0.00022 Score=52.59 Aligned_cols=44 Identities=32% Similarity=0.788 Sum_probs=31.7
Q ss_pred ccccccccccc-CcE-EccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 35 VLCLVCQGILI-KPI-KLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 35 ~~C~IC~~~~~-~pv-~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
..|..|..... +|. .+.|+|.||..|...-... .||.|++.+..
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~---~C~lCkk~ir~ 49 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPD---VCPLCKKSIRI 49 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCcc---ccccccceeee
Confidence 46887776544 444 3489999999998754322 59999998764
No 70
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.04 E-value=0.00055 Score=52.97 Aligned_cols=51 Identities=25% Similarity=0.591 Sum_probs=37.5
Q ss_pred CCCCCccccccccccccC--cEE--ccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 29 TLTPDSVLCLVCQGILIK--PIK--LPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 29 ~~~~~~~~C~IC~~~~~~--pv~--l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
+..++++ ||+|.+.+.. --. .+||-..|+-|...+-.+-+..||.||....
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 3445565 9999987762 222 3799999999988876654557999999876
No 71
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.92 E-value=0.00081 Score=52.23 Aligned_cols=52 Identities=25% Similarity=0.735 Sum_probs=41.2
Q ss_pred CCCCCccccccccccccCcEEccCCChhHHHHHHHHhh-cCCCcccccccccc
Q psy18180 29 TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD-NSNLSCPMCRKRLS 80 (143)
Q Consensus 29 ~~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~ 80 (143)
...++...|.||-+-+.-...+||+|..|.-|..+... .....||.||....
T Consensus 56 dtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 56 DTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 34566789999999888888899999999999877544 23456999998643
No 72
>KOG1001|consensus
Probab=96.87 E-value=0.00055 Score=57.94 Aligned_cols=46 Identities=35% Similarity=0.794 Sum_probs=39.7
Q ss_pred cccccccccccCcEEccCCChhHHHHHHHHhhcC-CCcccccccccch
Q psy18180 35 VLCLVCQGILIKPIKLPCNHHVCLECLQRICDNS-NLSCPMCRKRLSI 81 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~-~~~CP~Cr~~~~~ 81 (143)
+.|.+|.+ ...++.+.|||.||..|+...+... ...||.||..+..
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 8888899999999999999988743 3359999998774
No 73
>KOG1571|consensus
Probab=96.84 E-value=0.00042 Score=53.84 Aligned_cols=45 Identities=31% Similarity=0.775 Sum_probs=35.6
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
....|.||.+-..+.+.+||||.-| |..-... ...||+||..+..
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 3568999999999999999999877 6655433 3359999998863
No 74
>KOG1814|consensus
Probab=96.73 E-value=0.0038 Score=49.49 Aligned_cols=45 Identities=29% Similarity=0.581 Sum_probs=33.3
Q ss_pred CccccccccccccCc---EEccCCChhHHHHHHHHhh----c---CCCccccccc
Q psy18180 33 DSVLCLVCQGILIKP---IKLPCNHHVCLECLQRICD----N---SNLSCPMCRK 77 (143)
Q Consensus 33 ~~~~C~IC~~~~~~p---v~l~CgH~fC~~Ci~~~~~----~---~~~~CP~Cr~ 77 (143)
.-+.|.||++...-. +.+||+|.||+.|+..++. . +...||.+.-
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 368999999876632 4569999999999999886 1 2345776543
No 75
>KOG2817|consensus
Probab=96.67 E-value=0.0012 Score=51.88 Aligned_cols=50 Identities=24% Similarity=0.535 Sum_probs=41.1
Q ss_pred CCCcccccccccccc---CcEEccCCChhHHHHHHHHhhcCC--Ccccccccccc
Q psy18180 31 TPDSVLCLVCQGILI---KPIKLPCNHHVCLECLQRICDNSN--LSCPMCRKRLS 80 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~---~pv~l~CgH~fC~~Ci~~~~~~~~--~~CP~Cr~~~~ 80 (143)
...-|.|||=.+.-. .|..+.|||..+..-+.+..+++. +.||.|-....
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~ 385 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL 385 (394)
T ss_pred ccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence 345789999776554 678899999999999999998877 88999976654
No 76
>KOG2114|consensus
Probab=96.60 E-value=0.0022 Score=54.80 Aligned_cols=43 Identities=30% Similarity=0.702 Sum_probs=35.5
Q ss_pred ccccccccccccCcEE-ccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 34 SVLCLVCQGILIKPIK-LPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~-l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.-.|..|...+.-|.+ ..|||.|+++|+. .+...||.|+....
T Consensus 840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKEDKCPKCLPELR 883 (933)
T ss_pred eeeecccCCccccceeeeecccHHHHHhhc----cCcccCCccchhhh
Confidence 3699999999999976 4999999999999 34456999977543
No 77
>KOG1940|consensus
Probab=96.54 E-value=0.0021 Score=48.69 Aligned_cols=60 Identities=20% Similarity=0.439 Sum_probs=44.5
Q ss_pred cccccccccccc----CcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHH
Q psy18180 34 SVLCLVCQGILI----KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQK 103 (143)
Q Consensus 34 ~~~C~IC~~~~~----~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~ 103 (143)
...||||.+.+. .|..++|||.....|+......+ ..||.|.+ +.. ...+.+.+...|..
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~-~~d--------~~~~~~~~d~~l~~ 221 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK-PGD--------MSHYFRKLDKELAG 221 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc-hHH--------HHHHHHHHHHHHhc
Confidence 345999998765 56677999999999999988877 89999988 442 34455555555554
No 78
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=96.51 E-value=0.0025 Score=44.26 Aligned_cols=50 Identities=28% Similarity=0.738 Sum_probs=36.7
Q ss_pred CccccccccccccCcEEccCCCh------------h-HHHHHHHHhhc------------------------------CC
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHH------------V-CLECLQRICDN------------------------------SN 69 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~------------f-C~~Ci~~~~~~------------------------------~~ 69 (143)
++.+||||++...+.|.|-|.-. | ...|+.++-+. ..
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE 80 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence 47899999999999999865421 1 46788776431 13
Q ss_pred Ccccccccccchh
Q psy18180 70 LSCPMCRKRLSIW 82 (143)
Q Consensus 70 ~~CP~Cr~~~~~~ 82 (143)
..||+||..+..|
T Consensus 81 L~CPLCRG~V~GW 93 (162)
T PF07800_consen 81 LACPLCRGEVKGW 93 (162)
T ss_pred ccCccccCceece
Confidence 4699999999865
No 79
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.50 E-value=0.0025 Score=42.95 Aligned_cols=49 Identities=20% Similarity=0.571 Sum_probs=41.1
Q ss_pred CccccccccccccCcEEc-c---CCChhHHHHHHHHhhcC--CCcccccccccch
Q psy18180 33 DSVLCLVCQGILIKPIKL-P---CNHHVCLECLQRICDNS--NLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l-~---CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~~~ 81 (143)
.-++|.||.+.-.+...+ | ||-..|..|-...|+.. ...||.|+..+.+
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 457999999999988887 3 99999999999988833 3569999998874
No 80
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.46 E-value=0.0031 Score=47.63 Aligned_cols=49 Identities=20% Similarity=0.464 Sum_probs=38.4
Q ss_pred CCCccccccccccccCc---EEc-cCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 31 TPDSVLCLVCQGILIKP---IKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~p---v~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
....+.|||....|..- +.+ +|||.|+..++...- ....||.|..++..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTE 162 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCcccc
Confidence 46688999999988632 223 999999999999873 23459999999873
No 81
>KOG3970|consensus
Probab=96.37 E-value=0.0068 Score=44.56 Aligned_cols=48 Identities=25% Similarity=0.598 Sum_probs=39.0
Q ss_pred cccccccccccc--CcEEccCCChhHHHHHHHHhhc-------CCCcccccccccch
Q psy18180 34 SVLCLVCQGILI--KPIKLPCNHHVCLECLQRICDN-------SNLSCPMCRKRLSI 81 (143)
Q Consensus 34 ~~~C~IC~~~~~--~pv~l~CgH~fC~~Ci~~~~~~-------~~~~CP~Cr~~~~~ 81 (143)
.-.|.+|...+. +-+.+.|-|.|+-.|+..|..+ .+..||.|...+..
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 347999998887 5667899999999999999762 24679999998864
No 82
>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=96.20 E-value=0.0018 Score=47.98 Aligned_cols=47 Identities=36% Similarity=0.823 Sum_probs=36.3
Q ss_pred ccccccccc-cccCcE--Ec--c-CCChhHHHHHHHHhhcCCCccc--ccccccc
Q psy18180 34 SVLCLVCQG-ILIKPI--KL--P-CNHHVCLECLQRICDNSNLSCP--MCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~-~~~~pv--~l--~-CgH~fC~~Ci~~~~~~~~~~CP--~Cr~~~~ 80 (143)
+-.||||.. .|-+|- .+ | |-|..|.+|+.+.+..+...|| -|.+-+.
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 568999995 344552 22 5 9999999999999998888899 6866443
No 83
>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=96.17 E-value=0.0065 Score=34.27 Aligned_cols=44 Identities=25% Similarity=0.616 Sum_probs=23.0
Q ss_pred ccccccccccccCcEEc-cCCChhHHH---HHHHHhhcCCCccccccc
Q psy18180 34 SVLCLVCQGILIKPIKL-PCNHHVCLE---CLQRICDNSNLSCPMCRK 77 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l-~CgH~fC~~---Ci~~~~~~~~~~CP~Cr~ 77 (143)
.+.|||....+..|+.- .|.|.-|.+ -+......+...||.|.+
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT--
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcC
Confidence 37899999999999976 799997743 233333355678999976
No 84
>KOG3161|consensus
Probab=96.14 E-value=0.0027 Score=52.91 Aligned_cols=41 Identities=32% Similarity=0.848 Sum_probs=32.5
Q ss_pred CCCCcccccccccccc----CcEEccCCChhHHHHHHHHhhcCCCccc
Q psy18180 30 LTPDSVLCLVCQGILI----KPIKLPCNHHVCLECLQRICDNSNLSCP 73 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~----~pv~l~CgH~fC~~Ci~~~~~~~~~~CP 73 (143)
...+-+.|+||...|. .|+.+-|||+.|..|++..... .||
T Consensus 7 ~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~---scp 51 (861)
T KOG3161|consen 7 KWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA---SCP 51 (861)
T ss_pred hhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc---cCC
Confidence 3445678999987765 7899999999999999986543 477
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=95.83 E-value=0.0027 Score=41.06 Aligned_cols=32 Identities=31% Similarity=0.688 Sum_probs=26.0
Q ss_pred CCCccccccccccccCcEE--ccCCChhHHHHHH
Q psy18180 31 TPDSVLCLVCQGILIKPIK--LPCNHHVCLECLQ 62 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~pv~--l~CgH~fC~~Ci~ 62 (143)
..++-.|++|...+.+... .||||.|+..|+.
T Consensus 75 i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 3456789999999987654 3999999999975
No 86
>KOG1952|consensus
Probab=95.73 E-value=0.013 Score=50.28 Aligned_cols=47 Identities=21% Similarity=0.641 Sum_probs=36.8
Q ss_pred Ccccccccccccc--CcEEc--cCCChhHHHHHHHHhhc------CCCccccccccc
Q psy18180 33 DSVLCLVCQGILI--KPIKL--PCNHHVCLECLQRICDN------SNLSCPMCRKRL 79 (143)
Q Consensus 33 ~~~~C~IC~~~~~--~pv~l--~CgH~fC~~Ci~~~~~~------~~~~CP~Cr~~~ 79 (143)
..+.|.||.+.+. .|+-. .|.|.|...||.+|..+ ..+.||.|+...
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 4689999999876 44422 69999999999999873 357899998543
No 87
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.69 E-value=0.017 Score=40.19 Aligned_cols=51 Identities=25% Similarity=0.500 Sum_probs=37.2
Q ss_pred CCCCccccccccccccCcEEccCCC-----hhHHHHHHHHhh-cCCCcccccccccch
Q psy18180 30 LTPDSVLCLVCQGILIKPIKLPCNH-----HVCLECLQRICD-NSNLSCPMCRKRLSI 81 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv~l~CgH-----~fC~~Ci~~~~~-~~~~~CP~Cr~~~~~ 81 (143)
.+..+-.|-||.+... +..-||.- ..++.|+++|+. ++...|+.|...+..
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 3445779999998754 33346554 349999999998 446779999988764
No 88
>KOG4362|consensus
Probab=95.48 E-value=0.007 Score=51.00 Aligned_cols=49 Identities=20% Similarity=0.589 Sum_probs=41.5
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhh--cCCCcccccccccch
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD--NSNLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~--~~~~~CP~Cr~~~~~ 81 (143)
..+.|+||...+..|+.+.|.|.||..|+-..+. ++...||+|+..+..
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 3789999999999999999999999999987665 335679999977663
No 89
>KOG0826|consensus
Probab=95.23 E-value=0.014 Score=45.04 Aligned_cols=49 Identities=27% Similarity=0.487 Sum_probs=39.5
Q ss_pred CCCccccccccccccCcEEcc-CCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 31 TPDSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 31 ~~~~~~C~IC~~~~~~pv~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..+.-.||||...-.+|..+. =|-.||..|+-.++.+.+ .||+-..++.
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~-~CPVT~~p~~ 346 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYG-HCPVTGYPAS 346 (357)
T ss_pred CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcC-CCCccCCcch
Confidence 345669999999999998886 499999999999998544 5997655544
No 90
>KOG3002|consensus
Probab=95.22 E-value=0.012 Score=45.26 Aligned_cols=47 Identities=32% Similarity=0.634 Sum_probs=37.2
Q ss_pred CCCCccccccccccccCcEEc-cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 30 LTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
...+-+.||||.+.+..|+.- +=||.-|..|-.+. ...||.||..+.
T Consensus 44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKV----SNKCPTCRLPIG 91 (299)
T ss_pred cchhhccCchhhccCcccceecCCCcEehhhhhhhh----cccCCccccccc
Confidence 345677999999999998643 56899999997643 235999999987
No 91
>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=95.16 E-value=0.026 Score=30.73 Aligned_cols=39 Identities=23% Similarity=0.693 Sum_probs=23.0
Q ss_pred cccccccccCcEEc---cCCChhHHHHHHHHhhcCCC-ccccc
Q psy18180 37 CLVCQGILIKPIKL---PCNHHVCLECLQRICDNSNL-SCPMC 75 (143)
Q Consensus 37 C~IC~~~~~~pv~l---~CgH~fC~~Ci~~~~~~~~~-~CP~C 75 (143)
|.+|.++...-+.- .|+-.++..|+..++..... .||.|
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 67788887766654 39989999999999985442 59987
No 92
>KOG1812|consensus
Probab=94.79 E-value=0.026 Score=45.02 Aligned_cols=48 Identities=25% Similarity=0.621 Sum_probs=32.6
Q ss_pred CccccccccccccCc-E---EccCCChhHHHHHHHHhh-----cCCCcccc--cccccc
Q psy18180 33 DSVLCLVCQGILIKP-I---KLPCNHHVCLECLQRICD-----NSNLSCPM--CRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~~p-v---~l~CgH~fC~~Ci~~~~~-----~~~~~CP~--Cr~~~~ 80 (143)
....|.||..-...+ . +..|+|.||..|+.+.+. .....||. |...++
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 467999999333322 2 347999999999998887 33456764 544444
No 93
>PHA03096 p28-like protein; Provisional
Probab=94.71 E-value=0.023 Score=43.50 Aligned_cols=45 Identities=22% Similarity=0.323 Sum_probs=30.8
Q ss_pred ccccccccccc-CcE------Ec-cCCChhHHHHHHHHhhcC--CCccccccccc
Q psy18180 35 VLCLVCQGILI-KPI------KL-PCNHHVCLECLQRICDNS--NLSCPMCRKRL 79 (143)
Q Consensus 35 ~~C~IC~~~~~-~pv------~l-~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~ 79 (143)
-.|.||++... .+. ++ .|.|.||..|+..|.... ...||.|+...
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~ 233 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLN 233 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchh
Confidence 57999998654 221 23 699999999999997622 23466665543
No 94
>PHA02862 5L protein; Provisional
Probab=94.51 E-value=0.042 Score=37.73 Aligned_cols=46 Identities=20% Similarity=0.596 Sum_probs=34.4
Q ss_pred cccccccccccCcEEccCCC-----hhHHHHHHHHhh-cCCCcccccccccch
Q psy18180 35 VLCLVCQGILIKPIKLPCNH-----HVCLECLQRICD-NSNLSCPMCRKRLSI 81 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~l~CgH-----~fC~~Ci~~~~~-~~~~~CP~Cr~~~~~ 81 (143)
-.|-||.+.-.+. .-||.- -.++.|+.+|+. .+...|+.|+..+..
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEE
Confidence 3688999876544 346654 368999999998 445679999998764
No 95
>KOG1428|consensus
Probab=94.50 E-value=0.062 Score=49.27 Aligned_cols=53 Identities=32% Similarity=0.817 Sum_probs=38.5
Q ss_pred CCCCCccccccccc-ccc-Cc-EEccCCChhHHHHHHHHhhcC---------CCcccccccccch
Q psy18180 29 TLTPDSVLCLVCQG-ILI-KP-IKLPCNHHVCLECLQRICDNS---------NLSCPMCRKRLSI 81 (143)
Q Consensus 29 ~~~~~~~~C~IC~~-~~~-~p-v~l~CgH~fC~~Ci~~~~~~~---------~~~CP~Cr~~~~~ 81 (143)
.....+-.|-||+. .+. .| +.+.|+|.|+..|..+.+.+. -..||.|...+..
T Consensus 3481 tkQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3481 TKQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred hhcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 34445678999984 333 33 568999999999998877632 2469999888763
No 96
>KOG4445|consensus
Probab=94.41 E-value=0.034 Score=42.62 Aligned_cols=48 Identities=29% Similarity=0.731 Sum_probs=36.2
Q ss_pred cccccccccccc-Cc--EEccCCChhHHHHHHHHhhc----------------------CCCcccccccccch
Q psy18180 34 SVLCLVCQGILI-KP--IKLPCNHHVCLECLQRICDN----------------------SNLSCPMCRKRLSI 81 (143)
Q Consensus 34 ~~~C~IC~~~~~-~p--v~l~CgH~fC~~Ci~~~~~~----------------------~~~~CP~Cr~~~~~ 81 (143)
.-+|.||+-=|. .| +.++|.|-|+..|+.+++.. -...||+||..+..
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 458999997665 34 34699999999999988741 12359999998875
No 97
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=94.28 E-value=0.057 Score=33.08 Aligned_cols=48 Identities=23% Similarity=0.604 Sum_probs=22.8
Q ss_pred Ccccccccccccc-----CcEEc--cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~-----~pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..-.|.||.+..- ++.+. .|+--.|+.|.+--.+.++..||.|+....
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 3568999998654 34333 688889999998777777788999997765
No 98
>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=94.20 E-value=0.018 Score=31.85 Aligned_cols=35 Identities=34% Similarity=0.814 Sum_probs=22.8
Q ss_pred cCcEEccCC-ChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 45 IKPIKLPCN-HHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 45 ~~pv~l~Cg-H~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.+--.+.|. |-.|..|+...+..+.. ||+|..+++
T Consensus 11 ~~k~Li~C~dHYLCl~CLt~ml~~s~~-C~iC~~~LP 46 (50)
T PF03854_consen 11 ANKGLIKCSDHYLCLNCLTLMLSRSDR-CPICGKPLP 46 (50)
T ss_dssp --SSEEE-SS-EEEHHHHHHT-SSSSE-ETTTTEE--
T ss_pred cCCCeeeecchhHHHHHHHHHhccccC-CCcccCcCc
Confidence 344456787 77899999998887654 999999886
No 99
>KOG0298|consensus
Probab=93.88 E-value=0.024 Score=50.73 Aligned_cols=46 Identities=26% Similarity=0.579 Sum_probs=38.2
Q ss_pred cccccccccccc-CcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 34 SVLCLVCQGILI-KPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~-~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
...|+||.+++. .-....|||.+|..|...|+..... ||.|.....
T Consensus 1153 ~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~-~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSR-CPICKSIKG 1199 (1394)
T ss_pred ccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhcc-Ccchhhhhh
Confidence 458999999999 4456689999999999999987665 999975443
No 100
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=93.61 E-value=0.033 Score=30.92 Aligned_cols=39 Identities=31% Similarity=0.698 Sum_probs=24.0
Q ss_pred ccccccccc--CcEEccCCC-----hhHHHHHHHHhh-cCCCccccc
Q psy18180 37 CLVCQGILI--KPIKLPCNH-----HVCLECLQRICD-NSNLSCPMC 75 (143)
Q Consensus 37 C~IC~~~~~--~pv~l~CgH-----~fC~~Ci~~~~~-~~~~~CP~C 75 (143)
|-||++.-. .|...||+- ..+..|+.+|+. +++..|++|
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 668887654 256667663 358899999998 445668877
No 101
>KOG1815|consensus
Probab=93.33 E-value=0.11 Score=42.12 Aligned_cols=37 Identities=24% Similarity=0.438 Sum_probs=31.0
Q ss_pred CCCCccccccccccccC-cEEccCCChhHHHHHHHHhh
Q psy18180 30 LTPDSVLCLVCQGILIK-PIKLPCNHHVCLECLQRICD 66 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~-pv~l~CgH~fC~~Ci~~~~~ 66 (143)
......+|.||.+.+.. .+.+.|||.||..|+..++.
T Consensus 66 ~~~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 66 KKKGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLG 103 (444)
T ss_pred CCCccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhh
Confidence 34557899999998885 55669999999999999886
No 102
>KOG2932|consensus
Probab=93.21 E-value=0.041 Score=42.38 Aligned_cols=30 Identities=40% Similarity=1.007 Sum_probs=22.7
Q ss_pred EccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 49 KLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 49 ~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
.++|.|.||.+|...- ..+.||.|...+..
T Consensus 106 mIPCkHvFCl~CAr~~---~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 106 MIPCKHVFCLECARSD---SDKICPLCDDRVQR 135 (389)
T ss_pred ccccchhhhhhhhhcC---ccccCcCcccHHHH
Confidence 4699999999997642 23469999776654
No 103
>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=93.00 E-value=0.076 Score=41.92 Aligned_cols=30 Identities=33% Similarity=0.923 Sum_probs=22.6
Q ss_pred CCChhHHHHHHHHhhc------------CCCcccccccccch
Q psy18180 52 CNHHVCLECLQRICDN------------SNLSCPMCRKRLSI 81 (143)
Q Consensus 52 CgH~fC~~Ci~~~~~~------------~~~~CP~Cr~~~~~ 81 (143)
|.-..|..|+-+|+.. +...||+||+.+..
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 3344589999999862 34579999999873
No 104
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.66 E-value=0.073 Score=41.13 Aligned_cols=50 Identities=24% Similarity=0.547 Sum_probs=38.7
Q ss_pred CCCCcccccccccccc---CcEEccCCChhHHHHHHHHhhcC--CCccccccccc
Q psy18180 30 LTPDSVLCLVCQGILI---KPIKLPCNHHVCLECLQRICDNS--NLSCPMCRKRL 79 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~---~pv~l~CgH~fC~~Ci~~~~~~~--~~~CP~Cr~~~ 79 (143)
....-|.||+=.+.-. .|+.+.|||..-..-+.+..++| ++.||.|-...
T Consensus 332 hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~ 386 (396)
T COG5109 332 HFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS 386 (396)
T ss_pred cccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence 4456789998776554 68889999999999998887765 46799996543
No 105
>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=91.96 E-value=0.12 Score=29.39 Aligned_cols=40 Identities=25% Similarity=0.591 Sum_probs=25.7
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhh-cCCCccccccccc
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD-NSNLSCPMCRKRL 79 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~ 79 (143)
+.|.||.|.+.+... .+...|...-.. .....||+|...+
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 368999999954422 355556555443 3457799997643
No 106
>KOG3268|consensus
Probab=91.89 E-value=0.16 Score=36.22 Aligned_cols=46 Identities=20% Similarity=0.553 Sum_probs=32.0
Q ss_pred cccccccccc---CcE----EccCCChhHHHHHHHHhhc-----CC-----Ccccccccccch
Q psy18180 36 LCLVCQGILI---KPI----KLPCNHHVCLECLQRICDN-----SN-----LSCPMCRKRLSI 81 (143)
Q Consensus 36 ~C~IC~~~~~---~pv----~l~CgH~fC~~Ci~~~~~~-----~~-----~~CP~Cr~~~~~ 81 (143)
-|.||+.+-- .|- .+.||..|++-|+..|++. ++ ..||.|..++..
T Consensus 167 ~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 167 ACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred cccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 5777775432 121 2379999999999999972 11 259999888763
No 107
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=91.75 E-value=0.11 Score=35.32 Aligned_cols=33 Identities=18% Similarity=0.423 Sum_probs=25.6
Q ss_pred ccccccccccccC--cE-EccCC------ChhHHHHHHHHhh
Q psy18180 34 SVLCLVCQGILIK--PI-KLPCN------HHVCLECLQRICD 66 (143)
Q Consensus 34 ~~~C~IC~~~~~~--pv-~l~Cg------H~fC~~Ci~~~~~ 66 (143)
...|.||.+...+ -+ .++|| |.||..|+.+|-.
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 6799999998876 33 34666 5699999999943
No 108
>KOG3579|consensus
Probab=91.17 E-value=0.13 Score=39.26 Aligned_cols=70 Identities=20% Similarity=0.376 Sum_probs=44.6
Q ss_pred CccccccccccccCcEEccC----CChhHHHHHHHHhhcC----CCccccccc-ccchhccccCCCCchhhHHHHHHHHH
Q psy18180 33 DSVLCLVCQGILIKPIKLPC----NHHVCLECLQRICDNS----NLSCPMCRK-RLSIWLRRNKDFSLLIDENLWNQIQK 103 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~C----gH~fC~~Ci~~~~~~~----~~~CP~Cr~-~~~~~~~~~~~~~~~~~~~l~~~i~~ 103 (143)
.-+.|.+|.+-+.+-..+.| .|.||..|-.+.++.. .+.||.-.+ ++. ........++..|..
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLv--------gS~vPWAFMQGEIat 338 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLV--------GSNVPWAFMQGEIAT 338 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCccc--------CCcccHHHhhhhHHH
Confidence 35899999999999887766 5999999999888732 234553211 111 123334455556665
Q ss_pred HhhhHHh
Q psy18180 104 YYKKEVD 110 (143)
Q Consensus 104 ~~~~~~~ 110 (143)
.+..+.+
T Consensus 339 ILagdvk 345 (352)
T KOG3579|consen 339 ILAGDVK 345 (352)
T ss_pred Hhcccee
Confidence 5555443
No 109
>KOG1100|consensus
Probab=91.00 E-value=0.097 Score=38.29 Aligned_cols=39 Identities=31% Similarity=0.709 Sum_probs=30.4
Q ss_pred cccccccccCcEEccCCC-hhHHHHHHHHhhcCCCcccccccccc
Q psy18180 37 CLVCQGILIKPIKLPCNH-HVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 37 C~IC~~~~~~pv~l~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
|-.|.+--..-+.+||.| .+|..|-.. -..||.|+....
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 889998777766779998 589999553 235999988765
No 110
>KOG4185|consensus
Probab=90.21 E-value=0.046 Score=41.80 Aligned_cols=45 Identities=31% Similarity=0.787 Sum_probs=36.5
Q ss_pred cccccccccccc------CcEEcc--------CCChhHHHHHHHHhhcCCCcccccccc
Q psy18180 34 SVLCLVCQGILI------KPIKLP--------CNHHVCLECLQRICDNSNLSCPMCRKR 78 (143)
Q Consensus 34 ~~~C~IC~~~~~------~pv~l~--------CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 78 (143)
+..|.||...+. .|..+. |||+.|..|+...+...+..||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 357889987766 355566 999999999999988666889999875
No 111
>KOG3899|consensus
Probab=89.78 E-value=0.25 Score=37.91 Aligned_cols=30 Identities=37% Similarity=0.853 Sum_probs=23.4
Q ss_pred CCChhHHHHHHHHhh------------cCCCcccccccccch
Q psy18180 52 CNHHVCLECLQRICD------------NSNLSCPMCRKRLSI 81 (143)
Q Consensus 52 CgH~fC~~Ci~~~~~------------~~~~~CP~Cr~~~~~ 81 (143)
|....|.+|+.+|+. .++..||+||+.+..
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 245679999999874
No 112
>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=89.42 E-value=0.015 Score=35.00 Aligned_cols=42 Identities=26% Similarity=0.463 Sum_probs=22.9
Q ss_pred ccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
++.||.|...+..-- ||.+|..|-..+... ..||.|.+.+..
T Consensus 1 e~~CP~C~~~L~~~~----~~~~C~~C~~~~~~~--a~CPdC~~~Le~ 42 (70)
T PF07191_consen 1 ENTCPKCQQELEWQG----GHYHCEACQKDYKKE--AFCPDCGQPLEV 42 (70)
T ss_dssp --B-SSS-SBEEEET----TEEEETTT--EEEEE--EE-TTT-SB-EE
T ss_pred CCcCCCCCCccEEeC----CEEECccccccceec--ccCCCcccHHHH
Confidence 368999998765321 788888887765443 359999888763
No 113
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=89.32 E-value=0.43 Score=28.87 Aligned_cols=27 Identities=22% Similarity=0.599 Sum_probs=21.6
Q ss_pred cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 51 PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 51 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.=.|+||..|.+..+.. .||.|...+.
T Consensus 26 tfEcTFCadCae~~l~g---~CPnCGGelv 52 (84)
T COG3813 26 TFECTFCADCAENRLHG---LCPNCGGELV 52 (84)
T ss_pred EEeeehhHhHHHHhhcC---cCCCCCchhh
Confidence 34578999999987643 4999998887
No 114
>KOG3039|consensus
Probab=89.28 E-value=0.22 Score=37.25 Aligned_cols=32 Identities=13% Similarity=0.006 Sum_probs=29.0
Q ss_pred cccccccccccCcEEccCCChhHHHHHHHHhh
Q psy18180 35 VLCLVCQGILIKPIKLPCNHHVCLECLQRICD 66 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~ 66 (143)
--|.+|++.+.+|+.++=||.||+.||-+++.
T Consensus 44 dcCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 44 DCCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred ceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 36799999999999999999999999988765
No 115
>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=88.85 E-value=0.19 Score=24.26 Aligned_cols=21 Identities=24% Similarity=0.592 Sum_probs=10.1
Q ss_pred ccccccccccCcEEc-c-CCChh
Q psy18180 36 LCLVCQGILIKPIKL-P-CNHHV 56 (143)
Q Consensus 36 ~C~IC~~~~~~pv~l-~-CgH~f 56 (143)
.||-|.......... | |||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 466666555432222 2 55554
No 116
>KOG2034|consensus
Probab=87.30 E-value=0.31 Score=42.45 Aligned_cols=35 Identities=31% Similarity=0.577 Sum_probs=27.3
Q ss_pred CCcccccccccccc-CcEE-ccCCChhHHHHHHHHhh
Q psy18180 32 PDSVLCLVCQGILI-KPIK-LPCNHHVCLECLQRICD 66 (143)
Q Consensus 32 ~~~~~C~IC~~~~~-~pv~-l~CgH~fC~~Ci~~~~~ 66 (143)
+..-.|.+|...+. .|-. .+|||.|+..|+.+...
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 34568999997654 6654 49999999999988754
No 117
>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=87.23 E-value=0.045 Score=36.36 Aligned_cols=47 Identities=21% Similarity=0.434 Sum_probs=29.9
Q ss_pred Ccccccccccccc---Cc-E-EccCCChhHHHHHHHHhhcCCCccccccccc
Q psy18180 33 DSVLCLVCQGILI---KP-I-KLPCNHHVCLECLQRICDNSNLSCPMCRKRL 79 (143)
Q Consensus 33 ~~~~C~IC~~~~~---~p-v-~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 79 (143)
.+-.|.+|...|. ++ . -..|+|.+|..|-...-......|.+|.+.-
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k~r 104 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQKQR 104 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHHHH
Confidence 4669999987543 32 2 2379999999996652223345699997643
No 118
>KOG4718|consensus
Probab=86.89 E-value=0.49 Score=34.62 Aligned_cols=66 Identities=20% Similarity=0.515 Sum_probs=47.0
Q ss_pred cchHHHHHHHHHhhcccccccccCCCCCCCCCccccccccccccCcEEc-cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 2 LDKKVFRDVSLLLVNSKMDNEDCNSNNTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
|+.-.+.++...+.+- ....-..|.+|..+.-.-+.- +||-.|...|+..++.... .||.|.--.+
T Consensus 161 l~~ralaELe~YL~s~------------y~dnlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~-~cphc~d~w~ 227 (235)
T KOG4718|consen 161 LGPRALAELEFYLSSN------------YADNLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRD-ICPHCGDLWT 227 (235)
T ss_pred EchHHHHHHHHHHHhh------------hHHHHHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccC-cCCchhcccC
Confidence 3445666777777661 112245899999988766655 6888899999999998744 5999966554
No 119
>PLN02189 cellulose synthase
Probab=85.35 E-value=0.57 Score=41.73 Aligned_cols=47 Identities=21% Similarity=0.581 Sum_probs=36.2
Q ss_pred cccccccccccc-----CcEEc--cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 34 SVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~-----~pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.-.|.||.+.+. ++-+. .|+--.|+.|.+--.+.++..||.|+....
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 459999998765 33322 488889999997666677888999998876
No 120
>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=85.32 E-value=0.92 Score=29.55 Aligned_cols=45 Identities=24% Similarity=0.578 Sum_probs=29.2
Q ss_pred ccccccccccccCcEE--------ccC---CChhHHHHHHHHhh--------cCCCcccccccc
Q psy18180 34 SVLCLVCQGILIKPIK--------LPC---NHHVCLECLQRICD--------NSNLSCPMCRKR 78 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~--------l~C---gH~fC~~Ci~~~~~--------~~~~~CP~Cr~~ 78 (143)
...|..|..--.+..+ ..| .-.||..||..++. .....||.||..
T Consensus 7 g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 7 GKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred CCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 4567777764333321 235 66799999987764 345679999774
No 121
>PLN02436 cellulose synthase A
Probab=85.24 E-value=0.57 Score=41.85 Aligned_cols=48 Identities=25% Similarity=0.665 Sum_probs=36.6
Q ss_pred Ccccccccccccc-----CcEEc--cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~-----~pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..-.|.||.+... ++-+. .|+--.|+.|.+--.+.++..||.|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3459999998764 33332 488889999997666677788999998876
No 122
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=85.16 E-value=0.96 Score=25.84 Aligned_cols=30 Identities=20% Similarity=0.472 Sum_probs=24.4
Q ss_pred ccccccccccc--cCcEEc--cCCChhHHHHHHH
Q psy18180 34 SVLCLVCQGIL--IKPIKL--PCNHHVCLECLQR 63 (143)
Q Consensus 34 ~~~C~IC~~~~--~~pv~l--~CgH~fC~~Ci~~ 63 (143)
.-.|++|.+.| .+.++. .||-.|++.|..+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 56899999999 566655 5999999999765
No 123
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=84.06 E-value=0.74 Score=41.21 Aligned_cols=48 Identities=25% Similarity=0.663 Sum_probs=36.5
Q ss_pred Ccccccccccccc-----CcEEc--cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~-----~pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..-.|.||.+... +|-+. .||--.|+.|.+--.+.++..||.|+....
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 3559999998754 34332 588889999997655677788999998876
No 124
>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=83.73 E-value=0.55 Score=29.73 Aligned_cols=37 Identities=27% Similarity=0.740 Sum_probs=28.5
Q ss_pred ccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.-.|.||...+..+ ||.||..|..+ .+ .|.+|.+.+.
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 45899998766654 88999999664 23 4999999875
No 125
>PRK04023 DNA polymerase II large subunit; Validated
Probab=82.94 E-value=1.6 Score=38.89 Aligned_cols=65 Identities=12% Similarity=0.156 Sum_probs=38.5
Q ss_pred CCccccccccccccCcEEccCCC-----hhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHH
Q psy18180 32 PDSVLCLVCQGILIKPIKLPCNH-----HVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQK 103 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l~CgH-----~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~ 103 (143)
.....|+-|.........-.||. .||..|-.. .+...||.|...+.. .....+.+...+...++.
T Consensus 624 Vg~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~~---~~~y~CPKCG~El~~----~s~~~i~l~~~~~~A~~~ 693 (1121)
T PRK04023 624 IGRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGIE---VEEDECEKCGREPTP----YSKRKIDLKELYDRALEN 693 (1121)
T ss_pred ccCccCCCCCCcCCcccCCCCCCCCCcceeCccccCc---CCCCcCCCCCCCCCc----cceEEecHHHHHHHHHHH
Confidence 34568999998754332335884 499999332 234569999998874 223344444444444333
No 126
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=82.18 E-value=1.8 Score=37.80 Aligned_cols=53 Identities=23% Similarity=0.584 Sum_probs=39.4
Q ss_pred CCCCCccccccccc--cccCcEEccCCCh-----hHHHHHHHHhh-cCCCcccccccccch
Q psy18180 29 TLTPDSVLCLVCQG--ILIKPIKLPCNHH-----VCLECLQRICD-NSNLSCPMCRKRLSI 81 (143)
Q Consensus 29 ~~~~~~~~C~IC~~--~~~~pv~l~CgH~-----fC~~Ci~~~~~-~~~~~CP~Cr~~~~~ 81 (143)
+.-+|+-.|.||.. .-.+|..=||..+ .++.|+.+|+. ++.+.|-.|..++.-
T Consensus 7 ~mN~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~F 67 (1175)
T COG5183 7 PMNEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKF 67 (1175)
T ss_pred CCCccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeee
Confidence 34456789999984 4447766677654 58999999998 556789999887653
No 127
>KOG0309|consensus
Probab=82.08 E-value=0.87 Score=39.36 Aligned_cols=40 Identities=18% Similarity=0.430 Sum_probs=28.4
Q ss_pred ccccccccccccCcE--EccCCChhHHHHHHHHhhcCCCcccc
Q psy18180 34 SVLCLVCQGILIKPI--KLPCNHHVCLECLQRICDNSNLSCPM 74 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv--~l~CgH~fC~~Ci~~~~~~~~~~CP~ 74 (143)
.+.|.||.-...-.. ...|||..+.+|...|+..+. .||.
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 445666654444322 237999999999999999776 4885
No 128
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=82.03 E-value=1.5 Score=39.22 Aligned_cols=48 Identities=29% Similarity=0.656 Sum_probs=36.8
Q ss_pred Ccccccccccccc-----CcEEc--cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~-----~pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..-.|.||.+... +|-+. .|+--.|+.|.+--.+.++..||.|+....
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 3568999998754 34333 588889999997656677788999998876
No 129
>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=81.57 E-value=1.8 Score=24.89 Aligned_cols=43 Identities=23% Similarity=0.568 Sum_probs=28.4
Q ss_pred ccccccccccCc--EEccCC--ChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 36 LCLVCQGILIKP--IKLPCN--HHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 36 ~C~IC~~~~~~p--v~l~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
.|-.|...+... -..-|. .+||..|....+. + .||.|...+..
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~--~-~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETMLN--G-VCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc--C-cCcCCCCcccc
Confidence 466666655422 122343 4799999999874 2 49999888763
No 130
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=81.32 E-value=0.19 Score=23.51 Aligned_cols=7 Identities=43% Similarity=1.265 Sum_probs=3.7
Q ss_pred ccccccc
Q psy18180 72 CPMCRKR 78 (143)
Q Consensus 72 CP~Cr~~ 78 (143)
||.|.+.
T Consensus 16 C~~CG~~ 22 (23)
T PF13240_consen 16 CPNCGTP 22 (23)
T ss_pred hhhhCCc
Confidence 6655543
No 131
>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=81.09 E-value=0.97 Score=26.82 Aligned_cols=12 Identities=25% Similarity=0.686 Sum_probs=9.0
Q ss_pred hhHHHHHHHHhh
Q psy18180 55 HVCLECLQRICD 66 (143)
Q Consensus 55 ~fC~~Ci~~~~~ 66 (143)
.||+.|+.+|..
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 132
>PLN02400 cellulose synthase
Probab=80.95 E-value=0.84 Score=40.90 Aligned_cols=48 Identities=21% Similarity=0.591 Sum_probs=36.3
Q ss_pred Ccccccccccccc-----CcEEc--cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 33 DSVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 33 ~~~~C~IC~~~~~-----~pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..-.|.||.+... +|-+. .|+--.|+.|.+--.+.++..||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3459999998754 34333 588889999996555567778999998876
No 133
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=80.82 E-value=1.2 Score=34.53 Aligned_cols=50 Identities=14% Similarity=0.365 Sum_probs=33.1
Q ss_pred CCCCCCccccccccccccCcEE-c--cCC--ChhHHHHHHHHhhcCCCcccccccc
Q psy18180 28 NTLTPDSVLCLVCQGILIKPIK-L--PCN--HHVCLECLQRICDNSNLSCPMCRKR 78 (143)
Q Consensus 28 ~~~~~~~~~C~IC~~~~~~pv~-l--~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~ 78 (143)
.+..+..-.||||.....-.+. + .=| +.+|..|-..|--. ...||.|...
T Consensus 181 ~~~~~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~-R~~C~~Cg~~ 235 (309)
T PRK03564 181 AEYGEQRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVV-RVKCSNCEQS 235 (309)
T ss_pred cccccCCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccccc-CccCCCCCCC
Confidence 3334457899999997654432 1 223 44688898888765 3459999763
No 134
>KOG3053|consensus
Probab=80.74 E-value=3 Score=31.51 Aligned_cols=51 Identities=25% Similarity=0.501 Sum_probs=36.2
Q ss_pred CCCCccccccccccccCcEEc----cCC-----ChhHHHHHHHHhhcC-------CCcccccccccc
Q psy18180 30 LTPDSVLCLVCQGILIKPIKL----PCN-----HHVCLECLQRICDNS-------NLSCPMCRKRLS 80 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv~l----~Cg-----H~fC~~Ci~~~~~~~-------~~~CP~Cr~~~~ 80 (143)
..+.+-.|-||+..=.+-... ||. |-.+..|+.+|++.. .+.||.|+....
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 345577899999765543221 553 558999999999832 357999998765
No 135
>PLN02195 cellulose synthase A
Probab=80.60 E-value=1.2 Score=39.45 Aligned_cols=47 Identities=17% Similarity=0.449 Sum_probs=35.9
Q ss_pred cccccccccccc-----CcEEc--cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 34 SVLCLVCQGILI-----KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~-----~pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.-.|.||.+... +|-+. .|+--.|+.|.+--.+.++..||.|+....
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 348999998654 44333 688889999996555577788999988776
No 136
>KOG3113|consensus
Probab=80.57 E-value=3.6 Score=31.09 Aligned_cols=47 Identities=15% Similarity=0.181 Sum_probs=35.4
Q ss_pred CCccccccccccccCcE----EccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 32 PDSVLCLVCQGILIKPI----KLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv----~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
...|+|||-.-.|..-. .-+|||.|-..-+.+.- ...|++|.+.+.-
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~ 159 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQE 159 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcccc
Confidence 45789999887666443 33899999999888764 2359999998763
No 137
>KOG0825|consensus
Probab=80.38 E-value=1.1 Score=38.94 Aligned_cols=50 Identities=20% Similarity=0.391 Sum_probs=37.1
Q ss_pred ccccccccccccCcE----Ecc---CCChhHHHHHHHHhhc-----CCCcccccccccchhc
Q psy18180 34 SVLCLVCQGILIKPI----KLP---CNHHVCLECLQRICDN-----SNLSCPMCRKRLSIWL 83 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv----~l~---CgH~fC~~Ci~~~~~~-----~~~~CP~Cr~~~~~~~ 83 (143)
...|.+|..-+.+|+ ..+ |+|.||..||..|.++ ....|++|...+..|.
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs 157 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS 157 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence 447888887777643 224 9999999999999872 2345889988888773
No 138
>KOG1812|consensus
Probab=79.94 E-value=0.88 Score=36.41 Aligned_cols=41 Identities=20% Similarity=0.476 Sum_probs=29.1
Q ss_pred cccccccccccc-----CcEEccCCChhHHHHHHHHhhcCCCccccc
Q psy18180 34 SVLCLVCQGILI-----KPIKLPCNHHVCLECLQRICDNSNLSCPMC 75 (143)
Q Consensus 34 ~~~C~IC~~~~~-----~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~C 75 (143)
-..||.|.-.+. +-++-.|||-||..|...|...+.. |..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~-~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGE-CYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCcc-ccCc
Confidence 468998887654 3445469999999999888765543 5443
No 139
>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=79.67 E-value=1.3 Score=22.43 Aligned_cols=11 Identities=27% Similarity=0.764 Sum_probs=7.6
Q ss_pred CCccccccccc
Q psy18180 69 NLSCPMCRKRL 79 (143)
Q Consensus 69 ~~~CP~Cr~~~ 79 (143)
...||.|...-
T Consensus 17 ~~~CP~Cg~~~ 27 (33)
T cd00350 17 PWVCPVCGAPK 27 (33)
T ss_pred CCcCcCCCCcH
Confidence 44699997643
No 140
>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=78.27 E-value=3.1 Score=23.44 Aligned_cols=25 Identities=28% Similarity=0.909 Sum_probs=13.1
Q ss_pred cCCChhHHHHHHHHhhcCCCcccccc
Q psy18180 51 PCNHHVCLECLQRICDNSNLSCPMCR 76 (143)
Q Consensus 51 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr 76 (143)
.|++.||.+|=. ++...--.||-|.
T Consensus 26 ~C~~~FC~dCD~-fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDV-FIHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHH-TTTTTS-SSSTT-
T ss_pred CCCCccccCcCh-hhhccccCCcCCC
Confidence 599999999943 3333334599884
No 141
>PF14353 CpXC: CpXC protein
Probab=78.24 E-value=1.5 Score=29.29 Aligned_cols=48 Identities=19% Similarity=0.379 Sum_probs=26.6
Q ss_pred ccccccccccccCcEEccCCChhHHHHHHHHhhc--CCCcccccccccch
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDN--SNLSCPMCRKRLSI 81 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~--~~~~CP~Cr~~~~~ 81 (143)
+++||-|...+...+-+.-.-..=..=..+.+.+ ...+||.|+..+..
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 3678888887775443322221222333333432 13579999998764
No 142
>KOG2169|consensus
Probab=76.87 E-value=4.7 Score=34.46 Aligned_cols=73 Identities=23% Similarity=0.407 Sum_probs=49.9
Q ss_pred CCCCCCCccccccccccccCcEE-ccCCChhHHHHHHHHhh---cCCCcccccccccchhccccCCCCchhhHHHHHHHH
Q psy18180 27 NNTLTPDSVLCLVCQGILIKPIK-LPCNHHVCLECLQRICD---NSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQ 102 (143)
Q Consensus 27 ~~~~~~~~~~C~IC~~~~~~pv~-l~CgH~fC~~Ci~~~~~---~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~ 102 (143)
......--|.|+|+.-.+.-|.. ..|.|.-|.+-..-... ...+.||+|.+... ...+.++..+...+.
T Consensus 299 ~tt~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~-------~e~l~iD~~~~~iL~ 371 (636)
T KOG2169|consen 299 ATTSLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAP-------FEGLIIDGYFLNILQ 371 (636)
T ss_pred eeccceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCcccc-------ccchhhhHHHHHHHh
Confidence 34445557899999988877765 47888777654432221 33567999988877 457778887777776
Q ss_pred HHhh
Q psy18180 103 KYYK 106 (143)
Q Consensus 103 ~~~~ 106 (143)
..-.
T Consensus 372 ~~~~ 375 (636)
T KOG2169|consen 372 SCQA 375 (636)
T ss_pred hccC
Confidence 5543
No 143
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=75.96 E-value=9.7 Score=27.14 Aligned_cols=50 Identities=18% Similarity=0.246 Sum_probs=30.6
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHH
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 104 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 104 (143)
..+.||.|..-|.-- ..+ ..++.||.|...+.. ..+......|.+.|...
T Consensus 116 ~~Y~Cp~C~~rytf~---------------eA~-~~~F~Cp~Cg~~L~~------~dn~~~~~~l~~~I~~l 165 (178)
T PRK06266 116 MFFFCPNCHIRFTFD---------------EAM-EYGFRCPQCGEMLEE------YDNSELIKELKEQIKEL 165 (178)
T ss_pred CEEECCCCCcEEeHH---------------HHh-hcCCcCCCCCCCCee------cccHHHHHHHHHHHHHH
Confidence 478899887655410 011 236889999999874 34444555555555544
No 144
>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=75.68 E-value=0.43 Score=36.55 Aligned_cols=49 Identities=16% Similarity=0.206 Sum_probs=21.9
Q ss_pred CCCCccccccccccccCcEEccC-----CChhHHHHHHHHhhcCCCccccccccc
Q psy18180 30 LTPDSVLCLVCQGILIKPIKLPC-----NHHVCLECLQRICDNSNLSCPMCRKRL 79 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv~l~C-----gH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 79 (143)
..++.-.||||.....-.+...= .|.+|..|-..|-... ..||.|...-
T Consensus 168 ~~w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R-~~Cp~Cg~~~ 221 (290)
T PF04216_consen 168 EGWQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVR-IKCPYCGNTD 221 (290)
T ss_dssp --TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--T-TS-TTT---S
T ss_pred CCccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecC-CCCcCCCCCC
Confidence 34556799999986654444322 3567888988886543 4599996653
No 145
>KOG0824|consensus
Probab=75.67 E-value=0.95 Score=34.89 Aligned_cols=53 Identities=30% Similarity=0.735 Sum_probs=42.8
Q ss_pred CCCCCCCccccccccccccCcEEc-cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 27 NNTLTPDSVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 27 ~~~~~~~~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.++...+.-.|-||...+.-|... .|.|-||..|...|...++. ||.|+....
T Consensus 98 dA~~~~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~-~~d~~~~~~ 151 (324)
T KOG0824|consen 98 DAGFQQDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGND-CPDCRGKIS 151 (324)
T ss_pred hccccCCccceeeeeeeEEecccccCceeeeeecCCchhhhhhhc-cchhhcCcC
Confidence 455666777999999999999877 59999999999999876554 888877654
No 146
>KOG0827|consensus
Probab=74.03 E-value=0.32 Score=38.68 Aligned_cols=46 Identities=20% Similarity=0.292 Sum_probs=37.0
Q ss_pred cccccccccccCc----EEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 35 VLCLVCQGILIKP----IKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 35 ~~C~IC~~~~~~p----v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
-+|.||...|..- ..+-|||.+...|+.+|+.... .||.|+..+..
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~-kl~~~~rel~~ 246 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKR-KLPSCRRELPK 246 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHH-HhHHHHhhhhh
Confidence 3789999877632 3468999999999999998744 49999998874
No 147
>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=73.34 E-value=0.94 Score=35.13 Aligned_cols=46 Identities=15% Similarity=0.364 Sum_probs=30.9
Q ss_pred CCccccccccccccCcEEc----cCC--ChhHHHHHHHHhhcCCCcccccccc
Q psy18180 32 PDSVLCLVCQGILIKPIKL----PCN--HHVCLECLQRICDNSNLSCPMCRKR 78 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l----~Cg--H~fC~~Ci~~~~~~~~~~CP~Cr~~ 78 (143)
+..-.||||.....-.+.. .=| +.+|..|-..|--. ...||.|...
T Consensus 182 ~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~-R~~C~~Cg~~ 233 (305)
T TIGR01562 182 ESRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV-RVKCSHCEES 233 (305)
T ss_pred CCCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc-CccCCCCCCC
Confidence 4456999999876543322 133 45688888888765 4469999764
No 148
>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 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=72.17 E-value=13 Score=25.91 Aligned_cols=33 Identities=18% Similarity=0.287 Sum_probs=21.4
Q ss_pred CccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
..+.||.|..-|.- ...+ ..++.||.|...+..
T Consensus 108 ~~Y~Cp~c~~r~tf---------------~eA~-~~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 108 MFFICPNMCVRFTF---------------NEAM-ELNFTCPRCGAMLDY 140 (158)
T ss_pred CeEECCCCCcEeeH---------------HHHH-HcCCcCCCCCCEeee
Confidence 47789888765541 0111 136889999999874
No 150
>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=70.21 E-value=0.66 Score=27.43 Aligned_cols=32 Identities=19% Similarity=0.442 Sum_probs=16.4
Q ss_pred ccccccccccccCcE---E-ccCCChhHHHHHHHHh
Q psy18180 34 SVLCLVCQGILIKPI---K-LPCNHHVCLECLQRIC 65 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv---~-l~CgH~fC~~Ci~~~~ 65 (143)
.-.|.+|...|.--. - -.||+.||..|.....
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 468999998885221 1 2699999999876544
No 151
>KOG2462|consensus
Probab=69.50 E-value=1.3 Score=33.64 Aligned_cols=50 Identities=24% Similarity=0.590 Sum_probs=34.3
Q ss_pred CCccccccccccccC---------cEEccCCChhHHHHHHH-HhhcC---------CCcccccccccch
Q psy18180 32 PDSVLCLVCQGILIK---------PIKLPCNHHVCLECLQR-ICDNS---------NLSCPMCRKRLSI 81 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~---------pv~l~CgH~fC~~Ci~~-~~~~~---------~~~CP~Cr~~~~~ 81 (143)
...+.|++|...|.. --+++|...+|..-+.+ |+.++ .+.||.|++.|..
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 446789999887651 12357777777766654 66533 4679999999885
No 152
>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=68.66 E-value=0.58 Score=25.85 Aligned_cols=42 Identities=26% Similarity=0.507 Sum_probs=25.7
Q ss_pred ccccccccccCcEEc---cCCChhHHHHHHHHhh-----cCCCccccccc
Q psy18180 36 LCLVCQGILIKPIKL---PCNHHVCLECLQRICD-----NSNLSCPMCRK 77 (143)
Q Consensus 36 ~C~IC~~~~~~pv~l---~CgH~fC~~Ci~~~~~-----~~~~~CP~Cr~ 77 (143)
.|.||......-..+ .|+..|+..|+..-.. .+...||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 377888733322222 6888888888765433 23567888853
No 153
>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=68.58 E-value=2.7 Score=23.63 Aligned_cols=32 Identities=16% Similarity=0.342 Sum_probs=22.2
Q ss_pred cccccccccccCc----EEccCCChhHHHHHHHHhh
Q psy18180 35 VLCLVCQGILIKP----IKLPCNHHVCLECLQRICD 66 (143)
Q Consensus 35 ~~C~IC~~~~~~p----v~l~CgH~fC~~Ci~~~~~ 66 (143)
-.|.+|...|.-- .--.||+.||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 3688888766521 2237999999999876544
No 154
>PF15616 TerY-C: TerY-C metal binding domain
Probab=68.33 E-value=2.2 Score=28.92 Aligned_cols=45 Identities=18% Similarity=0.455 Sum_probs=32.1
Q ss_pred CCCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 30 LTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
.....-.||-|...+.-.+- .||+.||.. ..+..+||-|.+....
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 33445689999987665444 899999942 2345679999988763
No 155
>KOG2068|consensus
Probab=68.32 E-value=3.9 Score=31.94 Aligned_cols=45 Identities=36% Similarity=0.713 Sum_probs=33.6
Q ss_pred ccccccccccc--CcEEc--cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 35 VLCLVCQGILI--KPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 35 ~~C~IC~~~~~--~pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
-.|+||.+... +-..+ +||+..|..|+....... ..||.||+...
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 48999998663 32233 799999999988877654 46999997665
No 156
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=67.09 E-value=4.2 Score=35.03 Aligned_cols=54 Identities=24% Similarity=0.583 Sum_probs=38.9
Q ss_pred CCCCCCccccccccccccCcE----------EccCCChh--------------------HHHHHHHHhh-------cCCC
Q psy18180 28 NTLTPDSVLCLVCQGILIKPI----------KLPCNHHV--------------------CLECLQRICD-------NSNL 70 (143)
Q Consensus 28 ~~~~~~~~~C~IC~~~~~~pv----------~l~CgH~f--------------------C~~Ci~~~~~-------~~~~ 70 (143)
.....|--.|+-|+..+.+|. .+.||..| |..|..++-+ .+..
T Consensus 95 ~~I~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~ 174 (750)
T COG0068 95 TQIPPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPI 174 (750)
T ss_pred cccCCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccc
Confidence 344566779999998877662 24677775 9999988765 2346
Q ss_pred cccccccccch
Q psy18180 71 SCPMCRKRLSI 81 (143)
Q Consensus 71 ~CP~Cr~~~~~ 81 (143)
.||.|.-.+..
T Consensus 175 aCp~CGP~~~l 185 (750)
T COG0068 175 ACPKCGPHLFL 185 (750)
T ss_pred cCcccCCCeEE
Confidence 79999876654
No 157
>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 KOG3476|consensus
Probab=66.68 E-value=1.2 Score=27.93 Aligned_cols=37 Identities=27% Similarity=0.810 Sum_probs=29.2
Q ss_pred ccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.-.|.||......| |..||..|..+ .. .|-+|.+.+.
T Consensus 54 ~~kC~iCk~~vHQ~-----GshYC~tCAY~----Kg-iCAMCGKki~ 90 (100)
T KOG3476|consen 54 LAKCRICKQLVHQP-----GSHYCQTCAYK----KG-ICAMCGKKIL 90 (100)
T ss_pred cchhHHHHHHhcCC-----cchhHhHhhhh----hh-HHHHhhhHhh
Confidence 35799999988887 76799999875 22 4999988775
No 159
>KOG2979|consensus
Probab=65.83 E-value=6.9 Score=29.58 Aligned_cols=43 Identities=16% Similarity=0.330 Sum_probs=33.9
Q ss_pred ccccccccccccCcEEc-cCCChhHHHHHHHHhhc-CCCcccccc
Q psy18180 34 SVLCLVCQGILIKPIKL-PCNHHVCLECLQRICDN-SNLSCPMCR 76 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l-~CgH~fC~~Ci~~~~~~-~~~~CP~Cr 76 (143)
.+.|||=...+.+|+.- .|||.|=++=+..++.. ....||+=.
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~g 220 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLG 220 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeeccccc
Confidence 56899988888899865 89999999999988763 245698733
No 160
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=64.14 E-value=6.5 Score=34.22 Aligned_cols=96 Identities=17% Similarity=0.234 Sum_probs=52.1
Q ss_pred cchHHHHHHHHHhhccccc----ccccCCCCCCCCCccccccccccccCc-----EEc--cCCChhHHHHHHHHhhcCCC
Q psy18180 2 LDKKVFRDVSLLLVNSKMD----NEDCNSNNTLTPDSVLCLVCQGILIKP-----IKL--PCNHHVCLECLQRICDNSNL 70 (143)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~C~IC~~~~~~p-----v~l--~CgH~fC~~Ci~~~~~~~~~ 70 (143)
|.+.+++.+...+..|+-. ++.|-+. -+.|.-|..++.=| .++ .=+..+|..|-.+ ..-..
T Consensus 405 lS~~Ll~~i~~~l~~geQ~llflnRRGys~------~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~--~~~p~ 476 (730)
T COG1198 405 LSPALLEAIRKTLERGEQVLLFLNRRGYAP------LLLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQ--EPIPQ 476 (730)
T ss_pred CCHHHHHHHHHHHhcCCeEEEEEccCCccc------eeecccCCCcccCCCCCcceEEecCCCeeEeCCCCCC--CCCCC
Confidence 4577888888888886644 4443331 23455555544421 111 1244456666544 22245
Q ss_pred cccccccccchhccccCCCCchhhHHHHHHHHHHhhhHHhhh
Q psy18180 71 SCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQK 112 (143)
Q Consensus 71 ~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~ 112 (143)
.||.|....- ...-.=.+.+.+.+.++||+-...+
T Consensus 477 ~Cp~Cgs~~L-------~~~G~GterieeeL~~~FP~~rv~r 511 (730)
T COG1198 477 SCPECGSEHL-------RAVGPGTERIEEELKRLFPGARIIR 511 (730)
T ss_pred CCCCCCCCee-------EEecccHHHHHHHHHHHCCCCcEEE
Confidence 6999988722 1112223456677788888654443
No 161
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.37 E-value=4.8 Score=25.52 Aligned_cols=12 Identities=25% Similarity=0.620 Sum_probs=11.1
Q ss_pred hhHHHHHHHHhh
Q psy18180 55 HVCLECLQRICD 66 (143)
Q Consensus 55 ~fC~~Ci~~~~~ 66 (143)
.||+.|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999987
No 162
>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=62.64 E-value=5.6 Score=29.60 Aligned_cols=24 Identities=33% Similarity=0.960 Sum_probs=19.3
Q ss_pred hHHHHHHHHhhcCCCcccccccccc
Q psy18180 56 VCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 56 fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
-|.+|...+.++..+ ||+|.+...
T Consensus 196 ~C~sC~qqIHRNAPi-CPlCK~KsR 219 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPI-CPLCKAKSR 219 (230)
T ss_pred hhHhHHHHHhcCCCC-Ccccccccc
Confidence 599999988777655 999988765
No 163
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=60.94 E-value=1.2 Score=21.33 Aligned_cols=6 Identities=50% Similarity=1.497 Sum_probs=2.9
Q ss_pred cccccc
Q psy18180 72 CPMCRK 77 (143)
Q Consensus 72 CP~Cr~ 77 (143)
||.|.+
T Consensus 19 C~~CG~ 24 (26)
T PF13248_consen 19 CPNCGA 24 (26)
T ss_pred ChhhCC
Confidence 555543
No 164
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=60.90 E-value=5.1 Score=21.11 Aligned_cols=22 Identities=23% Similarity=0.505 Sum_probs=14.4
Q ss_pred cccccccccC-cEEcc-CCChhHH
Q psy18180 37 CLVCQGILIK-PIKLP-CNHHVCL 58 (143)
Q Consensus 37 C~IC~~~~~~-pv~l~-CgH~fC~ 58 (143)
|.+|.....- |..-. |+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 5566655554 66665 8888886
No 165
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=59.91 E-value=4.1 Score=27.62 Aligned_cols=20 Identities=25% Similarity=0.511 Sum_probs=12.8
Q ss_pred cccccccCcEEccCCChhHH
Q psy18180 39 VCQGILIKPIKLPCNHHVCL 58 (143)
Q Consensus 39 IC~~~~~~pv~l~CgH~fC~ 58 (143)
||++--..-+...|||+||.
T Consensus 62 i~qs~~~rv~rcecghsf~d 81 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGD 81 (165)
T ss_pred EEecccccEEEEeccccccC
Confidence 45544444344589999995
No 166
>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=58.44 E-value=6.8 Score=25.67 Aligned_cols=15 Identities=20% Similarity=0.682 Sum_probs=10.9
Q ss_pred cCCCcccccccccch
Q psy18180 67 NSNLSCPMCRKRLSI 81 (143)
Q Consensus 67 ~~~~~CP~Cr~~~~~ 81 (143)
+..+.||.|...+..
T Consensus 24 k~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 24 KDPIVCPKCGTEFPP 38 (108)
T ss_pred CCCccCCCCCCccCc
Confidence 345679999888764
No 167
>PRK00420 hypothetical protein; Validated
Probab=58.40 E-value=9.5 Score=25.17 Aligned_cols=28 Identities=25% Similarity=0.475 Sum_probs=18.7
Q ss_pred cccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 35 VLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
..||+|...+.. +.++...||.|...+.
T Consensus 24 ~~CP~Cg~pLf~------------------lk~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 24 KHCPVCGLPLFE------------------LKDGEVVCPVHGKVYI 51 (112)
T ss_pred CCCCCCCCccee------------------cCCCceECCCCCCeee
Confidence 588988865552 1244566999988665
No 168
>KOG1729|consensus
Probab=58.13 E-value=7.4 Score=30.00 Aligned_cols=51 Identities=20% Similarity=0.399 Sum_probs=32.2
Q ss_pred CCCCCccccccccccccCcE-----EccCCChhHHHHHHHHhh-----cC-CCccccccccc
Q psy18180 29 TLTPDSVLCLVCQGILIKPI-----KLPCNHHVCLECLQRICD-----NS-NLSCPMCRKRL 79 (143)
Q Consensus 29 ~~~~~~~~C~IC~~~~~~pv-----~l~CgH~fC~~Ci~~~~~-----~~-~~~CP~Cr~~~ 79 (143)
-+..+...|.+|....+... .-.||+.||..|-...+. .+ ...|+.|-..+
T Consensus 163 ~PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 163 LPDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred cCcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 34446779999999422211 127999999999876432 11 22588885554
No 169
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=56.70 E-value=6.5 Score=29.57 Aligned_cols=23 Identities=30% Similarity=0.531 Sum_probs=15.9
Q ss_pred cccccccccccc-CcEEc--cCCChh
Q psy18180 34 SVLCLVCQGILI-KPIKL--PCNHHV 56 (143)
Q Consensus 34 ~~~C~IC~~~~~-~pv~l--~CgH~f 56 (143)
.|.||+|...+. ....+ +.||+|
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCCCEEEcCCCCCC
Confidence 378999999886 22233 567776
No 170
>KOG1609|consensus
Probab=54.44 E-value=16 Score=27.73 Aligned_cols=48 Identities=21% Similarity=0.553 Sum_probs=34.7
Q ss_pred ccccccccccccC----cEEccCCC-----hhHHHHHHHHhh-cCCCcccccccccch
Q psy18180 34 SVLCLVCQGILIK----PIKLPCNH-----HVCLECLQRICD-NSNLSCPMCRKRLSI 81 (143)
Q Consensus 34 ~~~C~IC~~~~~~----pv~l~CgH-----~fC~~Ci~~~~~-~~~~~CP~Cr~~~~~ 81 (143)
+..|-||...... +...||.- ..++.|+..|+. .++..|..|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 4679999985542 45566653 358999999998 455679999886653
No 171
>KOG3799|consensus
Probab=54.42 E-value=3.7 Score=28.01 Aligned_cols=22 Identities=23% Similarity=0.455 Sum_probs=14.6
Q ss_pred CCCCccccccccccccCcEEccCCC
Q psy18180 30 LTPDSVLCLVCQGILIKPIKLPCNH 54 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv~l~CgH 54 (143)
-..++-+|.||...-. .-.|||
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 3456889999997433 124777
No 172
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=54.12 E-value=64 Score=23.06 Aligned_cols=30 Identities=23% Similarity=0.331 Sum_probs=18.0
Q ss_pred CCcccccccccchhccccCCCCchhhHHHHHHHHHH
Q psy18180 69 NLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 104 (143)
Q Consensus 69 ~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 104 (143)
.+.||.|...+.. ..+......+...++..
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 3779999998874 33344444444444433
No 173
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=53.89 E-value=7.2 Score=20.13 Aligned_cols=11 Identities=27% Similarity=0.567 Sum_probs=7.0
Q ss_pred ccccccccccc
Q psy18180 35 VLCLVCQGILI 45 (143)
Q Consensus 35 ~~C~IC~~~~~ 45 (143)
+.|+-|...|.
T Consensus 3 i~Cp~C~~~y~ 13 (36)
T PF13717_consen 3 ITCPNCQAKYE 13 (36)
T ss_pred EECCCCCCEEe
Confidence 46777776655
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=53.64 E-value=10 Score=18.04 Aligned_cols=11 Identities=27% Similarity=1.099 Sum_probs=8.2
Q ss_pred Ccccccccccc
Q psy18180 70 LSCPMCRKRLS 80 (143)
Q Consensus 70 ~~CP~Cr~~~~ 80 (143)
..||+|.+.+.
T Consensus 2 v~CPiC~~~v~ 12 (26)
T smart00734 2 VQCPVCFREVP 12 (26)
T ss_pred CcCCCCcCccc
Confidence 35999987764
No 175
>PRK11595 DNA utilization protein GntX; Provisional
Probab=52.60 E-value=12 Score=27.59 Aligned_cols=37 Identities=24% Similarity=0.604 Sum_probs=17.1
Q ss_pred ccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccc
Q psy18180 36 LCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKR 78 (143)
Q Consensus 36 ~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 78 (143)
.|.+|...+... ....|..|...+-... ..||.|...
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 1235666655542211 235555543
No 176
>KOG2231|consensus
Probab=52.12 E-value=10 Score=32.59 Aligned_cols=46 Identities=26% Similarity=0.584 Sum_probs=35.1
Q ss_pred ccccccccccCcEEccCCC-hhHHHHHHHHhh-cC----CCcccccccccch
Q psy18180 36 LCLVCQGILIKPIKLPCNH-HVCLECLQRICD-NS----NLSCPMCRKRLSI 81 (143)
Q Consensus 36 ~C~IC~~~~~~pv~l~CgH-~fC~~Ci~~~~~-~~----~~~CP~Cr~~~~~ 81 (143)
.|.||-.-+.-+..=.||| -.|..|..+..- .. ...||+|+..+..
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 5889988887776678999 899999988654 22 3457999986553
No 177
>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=51.98 E-value=9.6 Score=26.62 Aligned_cols=25 Identities=24% Similarity=0.635 Sum_probs=18.6
Q ss_pred CChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 53 NHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 53 gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
.+.||..|-.+... .||.|..++..
T Consensus 27 ~~~fC~kCG~~tI~----~Cp~C~~~IrG 51 (158)
T PF10083_consen 27 REKFCSKCGAKTIT----SCPNCSTPIRG 51 (158)
T ss_pred HHHHHHHhhHHHHH----HCcCCCCCCCC
Confidence 35699999887664 48888877764
No 178
>PF12773 DZR: Double zinc ribbon
Probab=51.87 E-value=9 Score=20.89 Aligned_cols=25 Identities=28% Similarity=0.599 Sum_probs=12.3
Q ss_pred hHHHHHHHHh--hcCCCcccccccccc
Q psy18180 56 VCLECLQRIC--DNSNLSCPMCRKRLS 80 (143)
Q Consensus 56 fC~~Ci~~~~--~~~~~~CP~Cr~~~~ 80 (143)
||..|-.... ......||.|...+.
T Consensus 14 fC~~CG~~l~~~~~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 14 FCPHCGTPLPPPDQSKKICPNCGAENP 40 (50)
T ss_pred CChhhcCChhhccCCCCCCcCCcCCCc
Confidence 4444443333 223345777776644
No 179
>KOG3993|consensus
Probab=51.36 E-value=3 Score=33.75 Aligned_cols=47 Identities=19% Similarity=0.392 Sum_probs=33.1
Q ss_pred CCCCCCCCccccccccccccCcEEc---cCCChhHHHHHHHHhhcCCCcccccccccchh
Q psy18180 26 SNNTLTPDSVLCLVCQGILIKPIKL---PCNHHVCLECLQRICDNSNLSCPMCRKRLSIW 82 (143)
Q Consensus 26 ~~~~~~~~~~~C~IC~~~~~~pv~l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~ 82 (143)
+++....-|+.|.+|...|.|+..| .|... . .-.+.||.|.+.|+-+
T Consensus 259 ~~i~n~iGdyiCqLCK~kYeD~F~LAQHrC~RI------V----~vEYrCPEC~KVFsCP 308 (500)
T KOG3993|consen 259 AGIPNVIGDYICQLCKEKYEDAFALAQHRCPRI------V----HVEYRCPECDKVFSCP 308 (500)
T ss_pred ccCcccHHHHHHHHHHHhhhhHHHHhhccCCee------E----EeeecCCcccccccCc
Confidence 3555667789999999999999766 35421 1 1235699998888753
No 180
>KOG2807|consensus
Probab=51.34 E-value=3.7 Score=32.16 Aligned_cols=28 Identities=14% Similarity=0.615 Sum_probs=15.4
Q ss_pred CChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 53 NHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 53 gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
|-.||..|-........+.|+.|...+.
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FC 356 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFC 356 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceee
Confidence 4445666644444444556666666555
No 181
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=49.63 E-value=19 Score=25.51 Aligned_cols=12 Identities=25% Similarity=0.337 Sum_probs=8.2
Q ss_pred cccccccccccc
Q psy18180 34 SVLCLVCQGILI 45 (143)
Q Consensus 34 ~~~C~IC~~~~~ 45 (143)
.+.|++|.-+..
T Consensus 134 ~~vC~vCGy~~~ 145 (166)
T COG1592 134 VWVCPVCGYTHE 145 (166)
T ss_pred EEEcCCCCCccc
Confidence 678888865443
No 182
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=49.12 E-value=1.9 Score=24.63 Aligned_cols=15 Identities=20% Similarity=0.642 Sum_probs=12.7
Q ss_pred cCCChhHHHHHHHHh
Q psy18180 51 PCNHHVCLECLQRIC 65 (143)
Q Consensus 51 ~CgH~fC~~Ci~~~~ 65 (143)
.||+.||..|...|-
T Consensus 45 ~C~~~fC~~C~~~~H 59 (64)
T smart00647 45 KCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCeECCCCCCcCC
Confidence 689999999988774
No 183
>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=48.29 E-value=9.8 Score=20.31 Aligned_cols=20 Identities=30% Similarity=0.725 Sum_probs=10.9
Q ss_pred ccccccCcEEcc-CCChhHHH
Q psy18180 40 CQGILIKPIKLP-CNHHVCLE 59 (143)
Q Consensus 40 C~~~~~~pv~l~-CgH~fC~~ 59 (143)
|......|+.-+ |+..||..
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLK 26 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TT
T ss_pred CcCccCCCeECCCCCcccCcc
Confidence 777666777765 99999864
No 184
>KOG4642|consensus
Probab=47.45 E-value=46 Score=25.33 Aligned_cols=67 Identities=13% Similarity=0.174 Sum_probs=51.0
Q ss_pred ccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHHhhh
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK 107 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~ 107 (143)
.+-|.|=.+++.+|+++|=|=+|=..=|.+.+..-+..=|+-|.+++ ......|..+.+.|+.|...
T Consensus 211 ~lcgkIt~el~~~pvi~psgIty~ra~I~Ehl~rvghfdpvtr~~Lt-------e~q~ipN~alkevIa~fl~~ 277 (284)
T KOG4642|consen 211 YLCGKITLELMREPVITPSGITYDRADIEEHLQRVGHFDPVTRWPLT-------EYQLIPNLALKEVIAAFLKE 277 (284)
T ss_pred hhhhhhhHHhhcCCccCccccchhHHHHHHHHHHhccCCchhcccCC-------HHhhccchHHHHHHHHHHHh
Confidence 45568999999999999999999999999888743333577777776 34556677777778877654
No 185
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=47.30 E-value=9.9 Score=19.66 Aligned_cols=13 Identities=31% Similarity=0.641 Sum_probs=9.1
Q ss_pred cccccccccccCc
Q psy18180 35 VLCLVCQGILIKP 47 (143)
Q Consensus 35 ~~C~IC~~~~~~p 47 (143)
++||-|...|.-|
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 5688888777644
No 186
>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=47.01 E-value=6.8 Score=17.42 Aligned_cols=10 Identities=20% Similarity=0.600 Sum_probs=4.4
Q ss_pred cccccccccc
Q psy18180 36 LCLVCQGILI 45 (143)
Q Consensus 36 ~C~IC~~~~~ 45 (143)
.|++|...|.
T Consensus 2 ~C~~C~~~f~ 11 (23)
T PF00096_consen 2 KCPICGKSFS 11 (23)
T ss_dssp EETTTTEEES
T ss_pred CCCCCCCccC
Confidence 3444444443
No 187
>KOG4299|consensus
Probab=46.91 E-value=11 Score=32.00 Aligned_cols=68 Identities=16% Similarity=0.483 Sum_probs=43.0
Q ss_pred HhhcccccccccCCCCCCCCCcc--ccccccc--cccCcEEc--cCCChhHHHHHHHHhh-----cCCCcccccccccch
Q psy18180 13 LLVNSKMDNEDCNSNNTLTPDSV--LCLVCQG--ILIKPIKL--PCNHHVCLECLQRICD-----NSNLSCPMCRKRLSI 81 (143)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~--~C~IC~~--~~~~pv~l--~CgH~fC~~Ci~~~~~-----~~~~~CP~Cr~~~~~ 81 (143)
...++.+.+............++ .|.-|.. .| .++.. .|--.|+..||..=+. .+.+.||.|...+..
T Consensus 230 ~s~~~t~~e~r~~~D~~~~~~~~~~fCsaCn~~~~F-~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k~~i 308 (613)
T KOG4299|consen 230 ESKEGTVEEKRRERDKNISVEDIEDFCSACNGSGLF-NDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIKSVI 308 (613)
T ss_pred hhhhccchhhhhhhccccccCCHHHHHHHhCCcccc-ccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeeeeec
Confidence 33343333333333333333444 8988884 55 55544 6999999999988654 346789999887664
No 188
>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=46.63 E-value=7.1 Score=21.90 Aligned_cols=11 Identities=36% Similarity=1.093 Sum_probs=5.9
Q ss_pred cccccccccch
Q psy18180 71 SCPMCRKRLSI 81 (143)
Q Consensus 71 ~CP~Cr~~~~~ 81 (143)
.||+|...+..
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 79999999873
No 189
>KOG4451|consensus
Probab=46.21 E-value=15 Score=27.41 Aligned_cols=25 Identities=40% Similarity=0.957 Sum_probs=19.4
Q ss_pred hHHHHHHHHhhcCCCcccccccccch
Q psy18180 56 VCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 56 fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
.|..|-.++.++.. .||+|.....+
T Consensus 251 ~ClsChqqIHRNAP-iCPlCKaKsRS 275 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAP-ICPLCKAKSRS 275 (286)
T ss_pred HHHHHHHHHhcCCC-CCcchhhcccc
Confidence 58999888777655 59999887653
No 190
>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=46.10 E-value=20 Score=18.44 Aligned_cols=25 Identities=36% Similarity=0.800 Sum_probs=13.5
Q ss_pred hHHHHHHHHhhc-------CCCcccccccccc
Q psy18180 56 VCLECLQRICDN-------SNLSCPMCRKRLS 80 (143)
Q Consensus 56 fC~~Ci~~~~~~-------~~~~CP~Cr~~~~ 80 (143)
.|..|+.++... ..+.|+.|.-.++
T Consensus 1 lC~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~ 32 (35)
T PF07503_consen 1 LCDDCLKEYFDPSNRRFHYQFISCTNCGPRYS 32 (35)
T ss_dssp --HHHHHHHCSTTSTTTT-TT--BTTCC-SCC
T ss_pred CCHHHHHHHcCCCCCcccCcCccCCCCCCCEE
Confidence 477888877652 2356999976554
No 191
>KOG2042|consensus
Probab=45.55 E-value=37 Score=30.57 Aligned_cols=71 Identities=21% Similarity=0.299 Sum_probs=57.2
Q ss_pred CCccccccccccccCcEEcc-CCChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHHhhhHHh
Q psy18180 32 PDSVLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVD 110 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~ 110 (143)
.+++.=|+=..++.+||.+| =|++.++.=+.+.+.+.. +=|.||.+++ ......|.++...|+.+..+...
T Consensus 868 pdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhlLs~~-tdPFNR~pLt-------~d~v~pn~eLK~kI~~~~~ek~~ 939 (943)
T KOG2042|consen 868 PDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHLLSDC-TDPFNREPLT-------EDMVSPNEELKAKIRCWIKEKRN 939 (943)
T ss_pred chhhhCccccccCCCCccCCcccccccHHHHHHHHhcCC-CCccccccCc-------hhhcCCCHHHHHHHHHHHHHhhh
Confidence 34666688888899999998 889999999999887643 2599999998 45777889999999998876543
No 192
>KOG3362|consensus
Probab=44.98 E-value=5.8 Score=27.34 Aligned_cols=28 Identities=29% Similarity=0.620 Sum_probs=19.9
Q ss_pred ccccccccccccCcEEccCCChhHH-HHHH
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCL-ECLQ 62 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~-~Ci~ 62 (143)
--.|.||. ++..-.-+.||..||. .|+.
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 44899999 5554455789999984 5554
No 193
>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=44.96 E-value=21 Score=24.80 Aligned_cols=25 Identities=20% Similarity=0.357 Sum_probs=16.7
Q ss_pred cCCChhHHHHHHHHhh----------cCCCcccccccccc
Q psy18180 51 PCNHHVCLECLQRICD----------NSNLSCPMCRKRLS 80 (143)
Q Consensus 51 ~CgH~fC~~Ci~~~~~----------~~~~~CP~Cr~~~~ 80 (143)
.+||.|= .|+. .+-+.||+|...-.
T Consensus 9 ~~gH~FE-----gWF~ss~~fd~Q~~~glv~CP~Cgs~~V 43 (148)
T PF06676_consen 9 ENGHEFE-----GWFRSSAAFDRQQARGLVSCPVCGSTEV 43 (148)
T ss_pred CCCCccc-----eecCCHHHHHHHHHcCCccCCCCCCCeE
Confidence 4778774 3554 45678999977543
No 194
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.69 E-value=3.6 Score=25.35 Aligned_cols=13 Identities=31% Similarity=0.736 Sum_probs=9.1
Q ss_pred cccccccccccCc
Q psy18180 35 VLCLVCQGILIKP 47 (143)
Q Consensus 35 ~~C~IC~~~~~~p 47 (143)
+.||||.-.+...
T Consensus 2 llCP~C~v~l~~~ 14 (88)
T COG3809 2 LLCPICGVELVMS 14 (88)
T ss_pred cccCcCCceeeee
Confidence 5688888766643
No 195
>KOG0269|consensus
Probab=44.67 E-value=43 Score=29.41 Aligned_cols=74 Identities=20% Similarity=0.228 Sum_probs=42.7
Q ss_pred hHHHHHHHHHhhcccccccccCCCCCCCCC-------------ccccccccccccCcEEc--cCCChhHHHHHHHHhhcC
Q psy18180 4 KKVFRDVSLLLVNSKMDNEDCNSNNTLTPD-------------SVLCLVCQGILIKPIKL--PCNHHVCLECLQRICDNS 68 (143)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~C~IC~~~~~~pv~l--~CgH~fC~~Ci~~~~~~~ 68 (143)
+.-.+.|+....+..+-.-+.+.-..+.-. ...|.+|...+..-..- -|||.-+..|+.+|+...
T Consensus 736 ~s~~~slk~~~~~st~i~~~~~nc~a~~~~~~~~~c~rc~s~a~~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~ 815 (839)
T KOG0269|consen 736 KSPLRSLKELNQNSTTIHYACPNCDAPMVLTKLWQCDRCESRASAKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKA 815 (839)
T ss_pred hcchhHHHHHhhccceeeccccccCCccccccceeechHHHHhhcCceeecceeeeeEeecccccccccHHHHHHHHhcC
Confidence 344566666666666554444432222211 22566666655533222 499999999999999865
Q ss_pred CCcccc--cccc
Q psy18180 69 NLSCPM--CRKR 78 (143)
Q Consensus 69 ~~~CP~--Cr~~ 78 (143)
.. ||. |...
T Consensus 816 s~-ca~~~C~~~ 826 (839)
T KOG0269|consen 816 SP-CAKSICPHL 826 (839)
T ss_pred CC-CccccCCcc
Confidence 43 765 5443
No 196
>KOG3726|consensus
Probab=44.57 E-value=12 Score=32.18 Aligned_cols=41 Identities=20% Similarity=0.314 Sum_probs=27.1
Q ss_pred ccccccccc----cCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 36 LCLVCQGIL----IKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 36 ~C~IC~~~~----~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.|.+|+..= .-+.++.|+-.||.+|...+ .+ .||+|.-...
T Consensus 656 ~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~~---~~-~~~vC~~~~~ 700 (717)
T KOG3726|consen 656 TCKVCQLPEDSETDVCRTTFCYTPYCVACSLDY---AS-ISEVCGPDAA 700 (717)
T ss_pred HHHHhcCCcCccccccCccccCCcchHhhhhhh---hc-cCcccCchhh
Confidence 677887521 23445689999999995544 33 3999965443
No 197
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=44.46 E-value=8.3 Score=30.79 Aligned_cols=36 Identities=25% Similarity=0.444 Sum_probs=27.0
Q ss_pred CCCCCCcccccccc-ccccCcEEccCCChhHHHHHHH
Q psy18180 28 NTLTPDSVLCLVCQ-GILIKPIKLPCNHHVCLECLQR 63 (143)
Q Consensus 28 ~~~~~~~~~C~IC~-~~~~~pv~l~CgH~fC~~Ci~~ 63 (143)
.......+.|.-|. .....-..+|||-.||+.|+.=
T Consensus 33 ~~~~~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~m 69 (441)
T COG4098 33 IIIENGKYRCNRCGNTHIELFAKLPCGCLYCRNCLMM 69 (441)
T ss_pred eecccCcEEehhcCCcchhhhcccccceEeehhhhhc
Confidence 34445578999998 4444556789999999999863
No 198
>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=44.37 E-value=13 Score=25.13 Aligned_cols=14 Identities=7% Similarity=0.195 Sum_probs=9.5
Q ss_pred cCCCcccccccccc
Q psy18180 67 NSNLSCPMCRKRLS 80 (143)
Q Consensus 67 ~~~~~CP~Cr~~~~ 80 (143)
+....||.|...+.
T Consensus 24 k~p~vcP~cg~~~~ 37 (129)
T TIGR02300 24 RRPAVSPYTGEQFP 37 (129)
T ss_pred CCCccCCCcCCccC
Confidence 34566888877765
No 199
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=44.02 E-value=14 Score=34.13 Aligned_cols=67 Identities=18% Similarity=0.421 Sum_probs=35.9
Q ss_pred ccccccccccccCcEEccCCCh-----hHHHHHHHHhhc--CCCcccccccccchhccccCCCCchhhHHHHHHHHHH
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHH-----VCLECLQRICDN--SNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKY 104 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~-----fC~~Ci~~~~~~--~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~ 104 (143)
.+.||-|.........-.||.. +|..|=...-.. ....||.|...+.. .....+.+...+...++..
T Consensus 667 ~rkCPkCG~~t~~~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~----~~~~~i~~~~~~~~A~~~~ 740 (1337)
T PRK14714 667 RRRCPSCGTETYENRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTP----YQRRTINVKEEYRSALENV 740 (1337)
T ss_pred EEECCCCCCccccccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccc----cceEEecHHHHHHHHHHHh
Confidence 4688888875443322247754 377775543211 13469999888763 1223444444444444433
No 200
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=43.96 E-value=31 Score=23.55 Aligned_cols=38 Identities=21% Similarity=0.423 Sum_probs=22.4
Q ss_pred CCccccccccccccCcEEccCCChhHHHHHHHHhh-cCCCcccccccccch
Q psy18180 32 PDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICD-NSNLSCPMCRKRLSI 81 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~-~~~~~CP~Cr~~~~~ 81 (143)
...+.||-|...|.. .=...... .+.+.||.|...+..
T Consensus 97 ~~~Y~Cp~C~~~y~~------------~ea~~~~d~~~~f~Cp~Cg~~l~~ 135 (147)
T smart00531 97 NAYYKCPNCQSKYTF------------LEANQLLDMDGTFTCPRCGEELEE 135 (147)
T ss_pred CcEEECcCCCCEeeH------------HHHHHhcCCCCcEECCCCCCEEEE
Confidence 347889988766551 10111111 234789999998863
No 201
>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=43.17 E-value=2.8 Score=20.90 Aligned_cols=24 Identities=25% Similarity=0.537 Sum_probs=9.0
Q ss_pred ChhHHHHHHHHhhc---CCCccccccc
Q psy18180 54 HHVCLECLQRICDN---SNLSCPMCRK 77 (143)
Q Consensus 54 H~fC~~Ci~~~~~~---~~~~CP~Cr~ 77 (143)
|.||..|=...... ....||.|..
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 55666555443321 1234666654
No 202
>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=42.66 E-value=15 Score=18.80 Aligned_cols=11 Identities=18% Similarity=0.552 Sum_probs=7.0
Q ss_pred ccccccccccc
Q psy18180 35 VLCLVCQGILI 45 (143)
Q Consensus 35 ~~C~IC~~~~~ 45 (143)
+.||-|...|.
T Consensus 3 ~~CP~C~~~~~ 13 (38)
T TIGR02098 3 IQCPNCKTSFR 13 (38)
T ss_pred EECCCCCCEEE
Confidence 46777766555
No 203
>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=41.35 E-value=2.1 Score=24.44 Aligned_cols=30 Identities=27% Similarity=0.704 Sum_probs=16.8
Q ss_pred ccccc--ccccccC-----c--EEcc-CCChhHHHHHHHH
Q psy18180 35 VLCLV--CQGILIK-----P--IKLP-CNHHVCLECLQRI 64 (143)
Q Consensus 35 ~~C~I--C~~~~~~-----p--v~l~-CgH~fC~~Ci~~~ 64 (143)
..||- |...+.. . ++-+ |++.||..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 47877 8876651 2 2335 9999999887766
No 204
>PRK09678 DNA-binding transcriptional regulator; Provisional
Probab=41.18 E-value=11 Score=22.91 Aligned_cols=9 Identities=33% Similarity=0.785 Sum_probs=5.2
Q ss_pred ccccccccc
Q psy18180 35 VLCLVCQGI 43 (143)
Q Consensus 35 ~~C~IC~~~ 43 (143)
+.||.|...
T Consensus 2 m~CP~Cg~~ 10 (72)
T PRK09678 2 FHCPLCQHA 10 (72)
T ss_pred ccCCCCCCc
Confidence 356666653
No 205
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=40.51 E-value=18 Score=27.79 Aligned_cols=8 Identities=25% Similarity=0.924 Sum_probs=4.8
Q ss_pred cccccccc
Q psy18180 71 SCPMCRKR 78 (143)
Q Consensus 71 ~CP~Cr~~ 78 (143)
.||.|+..
T Consensus 271 ~C~~Cgt~ 278 (279)
T TIGR00627 271 ICKTCKTA 278 (279)
T ss_pred CCCCCCCC
Confidence 47777654
No 206
>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=40.38 E-value=12 Score=16.33 Aligned_cols=9 Identities=44% Similarity=1.364 Sum_probs=3.1
Q ss_pred ccccccccc
Q psy18180 72 CPMCRKRLS 80 (143)
Q Consensus 72 CP~Cr~~~~ 80 (143)
|+.|...+.
T Consensus 3 C~~C~~~~~ 11 (24)
T PF13894_consen 3 CPICGKSFR 11 (24)
T ss_dssp -SSTS-EES
T ss_pred CcCCCCcCC
Confidence 444444443
No 207
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=40.15 E-value=17 Score=26.31 Aligned_cols=39 Identities=23% Similarity=0.784 Sum_probs=26.0
Q ss_pred Cccccccccc--ccc--Cc-EEc---cCCChhHHHHHHHHhhcCCCccccccc
Q psy18180 33 DSVLCLVCQG--ILI--KP-IKL---PCNHHVCLECLQRICDNSNLSCPMCRK 77 (143)
Q Consensus 33 ~~~~C~IC~~--~~~--~p-v~l---~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 77 (143)
.++.|.+|.+ ++. +. .+. .|+..|+..|+.+ ..||.|..
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 3688899985 211 22 222 6999999999773 34999954
No 208
>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=40.10 E-value=19 Score=27.07 Aligned_cols=22 Identities=18% Similarity=0.605 Sum_probs=16.6
Q ss_pred ccccccccccCcEEccCCChhHHHHHHHHh
Q psy18180 36 LCLVCQGILIKPIKLPCNHHVCLECLQRIC 65 (143)
Q Consensus 36 ~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~ 65 (143)
.|+||. ..-.+.||..|+...+
T Consensus 1 ~C~iC~--------~~~~~~~C~~C~~~~L 22 (302)
T PF10186_consen 1 QCPICH--------NSRRRFYCANCVNNRL 22 (302)
T ss_pred CCCCCC--------CCCCCeECHHHHHHHH
Confidence 499998 4456678999998754
No 209
>KOG4159|consensus
Probab=39.00 E-value=29 Score=28.09 Aligned_cols=81 Identities=10% Similarity=0.079 Sum_probs=43.7
Q ss_pred CChhHHHHHHHHhhcCCCcccccccccchhccccCCCCchhhHHHHHHHHHHhhhHHhhhhcCCchhHHhhhcccccccc
Q psy18180 53 NHHVCLECLQRICDNSNLSCPMCRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKEVDQKLFDQDDGVWENYHQHISTYL 132 (143)
Q Consensus 53 gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~e~~~~~~~~~~i~~~~ 132 (143)
+|+-|..|...-+..-. .||.|+.....+...+.+.....+..... ..|........+....+-.....+. ..
T Consensus 2 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~r~~~~~~~~~~t----~~p~~~~~~~~~~~~~e~~~~~~~~--~~ 74 (398)
T KOG4159|consen 2 IQTKAKPCFKSTEEKWS-VSPFSAETKSSWCRDHTRRHSQAEVSRYT----GVPNRCINEDPGKSSEETMADSTPK--AL 74 (398)
T ss_pred Cccccccchhhhhhhhh-ccccccccchhhhcccccCCchhhhhhhc----cCCHHHHhcccchhhhhhhhhhhhh--hh
Confidence 45555555444333334 59999888887765555555555544433 4555555555444444444444444 34
Q ss_pred ccCCcccc
Q psy18180 133 LTAPTYLQ 140 (143)
Q Consensus 133 ~s~p~~~r 140 (143)
++.|++++
T Consensus 75 ~s~~~~~~ 82 (398)
T KOG4159|consen 75 LSGPEEIR 82 (398)
T ss_pred hccCcccc
Confidence 55555544
No 210
>KOG4443|consensus
Probab=37.68 E-value=15 Score=31.45 Aligned_cols=51 Identities=16% Similarity=0.337 Sum_probs=34.1
Q ss_pred CCCCccccccccccccCcE--E---ccCCChhHHHHHHHHhh----cCCCcccccccccc
Q psy18180 30 LTPDSVLCLVCQGILIKPI--K---LPCNHHVCLECLQRICD----NSNLSCPMCRKRLS 80 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv--~---l~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~~~~ 80 (143)
.....+.|++|...=..+- . -.||-.|+..|+..|+. .+...||-||.-..
T Consensus 14 ~~~~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~ 73 (694)
T KOG4443|consen 14 AIIVCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEA 73 (694)
T ss_pred hhhhhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeee
Confidence 3444678899886555332 1 26888888999988875 33467888876543
No 211
>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=36.82 E-value=4.3 Score=21.69 Aligned_cols=10 Identities=30% Similarity=0.983 Sum_probs=7.7
Q ss_pred CCCccccccc
Q psy18180 68 SNLSCPMCRK 77 (143)
Q Consensus 68 ~~~~CP~Cr~ 77 (143)
....||.|+.
T Consensus 25 ~~~~CP~Cg~ 34 (42)
T PF09723_consen 25 DPVPCPECGS 34 (42)
T ss_pred CCCcCCCCCC
Confidence 3567999988
No 212
>KOG1829|consensus
Probab=36.45 E-value=16 Score=31.03 Aligned_cols=41 Identities=27% Similarity=0.724 Sum_probs=26.1
Q ss_pred Cccccccccc--ccc----CcEE--ccCCChhHHHHHHHHhhcCCCccccccc
Q psy18180 33 DSVLCLVCQG--ILI----KPIK--LPCNHHVCLECLQRICDNSNLSCPMCRK 77 (143)
Q Consensus 33 ~~~~C~IC~~--~~~----~pv~--l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 77 (143)
..+.|.+|.. +++ +-+. ..||+.|+..|+.+. +..||.|-.
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~----s~~CPrC~R 558 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRK----SPCCPRCER 558 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhcc----CCCCCchHH
Confidence 4678888853 111 1111 269999999998752 334999944
No 213
>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=36.17 E-value=81 Score=24.17 Aligned_cols=42 Identities=31% Similarity=0.661 Sum_probs=26.5
Q ss_pred ccccccccccccC--cEE--c----cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 34 SVLCLVCQGILIK--PIK--L----PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 34 ~~~C~IC~~~~~~--pv~--l----~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
-..|+||+++-.. |.. + -=|| ++|+++|-.-.+..|| |..+.
T Consensus 30 LsfChiCfEl~iegvpks~llHtkSlRGH---rdCFEK~HlIanQ~~p--rsk~s 79 (285)
T PF06937_consen 30 LSFCHICFELSIEGVPKSNLLHTKSLRGH---RDCFEKYHLIANQDCP--RSKLS 79 (285)
T ss_pred eeecceeeccccccCccccccccccccch---HHHHHHHHHHHcCCCC--ccccc
Confidence 3478888887653 322 1 2566 8899998775555688 44444
No 214
>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=36.03 E-value=16 Score=18.11 Aligned_cols=34 Identities=24% Similarity=0.456 Sum_probs=17.3
Q ss_pred cccccccccCc--EEccCCChhHHHHHHHHhhcCCCccccccccc
Q psy18180 37 CLVCQGILIKP--IKLPCNHHVCLECLQRICDNSNLSCPMCRKRL 79 (143)
Q Consensus 37 C~IC~~~~~~p--v~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~ 79 (143)
|..|.+.+... ....=+..|+..| +.|..|...+
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 66676665542 2223344555444 3466666554
No 215
>KOG4218|consensus
Probab=35.98 E-value=31 Score=27.49 Aligned_cols=12 Identities=33% Similarity=0.656 Sum_probs=9.5
Q ss_pred cccccccccccc
Q psy18180 34 SVLCLVCQGILI 45 (143)
Q Consensus 34 ~~~C~IC~~~~~ 45 (143)
+-.||+|.+-..
T Consensus 15 ~ElCPVCGDkVS 26 (475)
T KOG4218|consen 15 GELCPVCGDKVS 26 (475)
T ss_pred ccccccccCccc
Confidence 558999998665
No 216
>KOG0314|consensus
Probab=35.88 E-value=13 Score=30.46 Aligned_cols=47 Identities=19% Similarity=0.535 Sum_probs=34.6
Q ss_pred CCCCccccccc-cccccCcEEc--cCCChhHHHHHHHHhhcCCCcccccccc
Q psy18180 30 LTPDSVLCLVC-QGILIKPIKL--PCNHHVCLECLQRICDNSNLSCPMCRKR 78 (143)
Q Consensus 30 ~~~~~~~C~IC-~~~~~~pv~l--~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~ 78 (143)
...++++|++| .+.|.+...+ -|.-+||..|+...+... .++.|.+.
T Consensus 215 ~~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~~--~~~~c~~~ 264 (448)
T KOG0314|consen 215 ELPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALISK--SMCVCGAS 264 (448)
T ss_pred cCCccccCceecchhhHHHHHhhhhhcccCCccccccccccc--cCCcchhh
Confidence 34568999999 6777777766 488999999999876643 35666543
No 217
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.84 E-value=23 Score=23.96 Aligned_cols=22 Identities=23% Similarity=0.780 Sum_probs=13.8
Q ss_pred hhHHHHHHHHhhcCCCcccccccccc
Q psy18180 55 HVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 55 ~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.||..|-..-+. .||.|..++.
T Consensus 29 afcskcgeati~----qcp~csasir 50 (160)
T COG4306 29 AFCSKCGEATIT----QCPICSASIR 50 (160)
T ss_pred HHHhhhchHHHh----cCCccCCccc
Confidence 478777665442 3777766654
No 218
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=35.43 E-value=25 Score=20.42 Aligned_cols=18 Identities=28% Similarity=0.916 Sum_probs=12.0
Q ss_pred HHHHHHHHhhcCCCccccccc
Q psy18180 57 CLECLQRICDNSNLSCPMCRK 77 (143)
Q Consensus 57 C~~Ci~~~~~~~~~~CP~Cr~ 77 (143)
|..|-+. .....||.|..
T Consensus 39 C~~CRk~---~~~Y~CP~CGF 56 (59)
T PRK14890 39 CEKCRKQ---SNPYTCPKCGF 56 (59)
T ss_pred chhHHhc---CCceECCCCCC
Confidence 6667543 35677999965
No 219
>KOG2807|consensus
Probab=35.43 E-value=17 Score=28.65 Aligned_cols=41 Identities=32% Similarity=0.825 Sum_probs=25.5
Q ss_pred cccccccccc-CcE-Ec-cCCChhHHHHHHHHhhcCCCccccccc
Q psy18180 36 LCLVCQGILI-KPI-KL-PCNHHVCLECLQRICDNSNLSCPMCRK 77 (143)
Q Consensus 36 ~C~IC~~~~~-~pv-~l-~CgH~fC~~Ci~~~~~~~~~~CP~Cr~ 77 (143)
.|-.|++-.. .+. .- .|.+.||.+|=. ++...--.||-|..
T Consensus 332 ~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv-~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 332 FCFACQGELLSSGRYRCESCKNVFCLDCDV-FIHESLHNCPGCEH 375 (378)
T ss_pred ceeeeccccCCCCcEEchhccceeeccchH-HHHhhhhcCCCcCC
Confidence 4888855444 332 22 699999999944 22222234999963
No 220
>PF04959 ARS2: Arsenite-resistance protein 2; InterPro: IPR007042 This entry represents Arsenite-resistance protein 2 (also known as Serrate RNA effector molecule homolog) which is thought to play a role in arsenite resistance [], although does not directly confer arsenite resistance but rather modulates arsenic sensitivity []. Arsenite is a carcinogenic compound which can act as a comutagen by inhibiting DNA repair. It is also involved in cell cycle progression at S phase. ; PDB: 3AX1_A.
Probab=35.21 E-value=12 Score=27.56 Aligned_cols=23 Identities=17% Similarity=0.424 Sum_probs=14.9
Q ss_pred CCCCCCCCCccccccccccccCc
Q psy18180 25 NSNNTLTPDSVLCLVCQGILIKP 47 (143)
Q Consensus 25 ~~~~~~~~~~~~C~IC~~~~~~p 47 (143)
+......++.+.|++|..+|..|
T Consensus 68 ~~~~e~~~~K~~C~lc~KlFkg~ 90 (214)
T PF04959_consen 68 KNTKEEDEDKWRCPLCGKLFKGP 90 (214)
T ss_dssp EEE-SSSSEEEEE-SSS-EESSH
T ss_pred HHHHHHcCCEECCCCCCcccCCh
Confidence 33445567789999999998876
No 221
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS 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=34.66 E-value=24 Score=18.05 Aligned_cols=11 Identities=27% Similarity=0.767 Sum_probs=7.8
Q ss_pred CCccccccccc
Q psy18180 69 NLSCPMCRKRL 79 (143)
Q Consensus 69 ~~~CP~Cr~~~ 79 (143)
...||.|...+
T Consensus 26 ~~~CP~Cg~~~ 36 (41)
T smart00834 26 LATCPECGGDV 36 (41)
T ss_pred CCCCCCCCCcc
Confidence 45699998754
No 222
>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=34.28 E-value=32 Score=18.92 Aligned_cols=32 Identities=19% Similarity=0.346 Sum_probs=21.2
Q ss_pred CccccccccccccCc-EEccCCChhHHHHHHHH
Q psy18180 33 DSVLCLVCQGILIKP-IKLPCNHHVCLECLQRI 64 (143)
Q Consensus 33 ~~~~C~IC~~~~~~p-v~l~CgH~fC~~Ci~~~ 64 (143)
+-+.|..|...+... ....=|..||..|..+.
T Consensus 25 ~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~~ 57 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQKR 57 (58)
T ss_dssp TTSBETTTTCBTTTSSEEEETTEEEEHHHHHHH
T ss_pred cccccCCCCCccCCCeeEeECCEEECHHHHhhh
Confidence 467888888877754 33345567788777653
No 223
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=34.09 E-value=38 Score=26.85 Aligned_cols=46 Identities=17% Similarity=0.382 Sum_probs=27.8
Q ss_pred cccccccccccCcEEccCCChhHHHHHHHHhh----cCCCcccccccccc
Q psy18180 35 VLCLVCQGILIKPIKLPCNHHVCLECLQRICD----NSNLSCPMCRKRLS 80 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~----~~~~~CP~Cr~~~~ 80 (143)
--|.|=..+=-+|..=.=.-+-|..|..++.. ..+..||.|...+.
T Consensus 227 ~g~~ivaNyGLdP~LGKY~~TAC~rC~t~y~le~A~~~~wrCpkCGg~ik 276 (403)
T COG1379 227 DGCKIVANYGLDPRLGKYHLTACSRCYTRYSLEEAKSLRWRCPKCGGKIK 276 (403)
T ss_pred CCceEEEecCcCccccchhHHHHHHhhhccCcchhhhhcccCcccccchh
Confidence 34555555544564434445678889865533 33567999987654
No 224
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=33.22 E-value=15 Score=24.22 Aligned_cols=9 Identities=56% Similarity=1.261 Sum_probs=5.8
Q ss_pred ccccccccc
Q psy18180 37 CLVCQGILI 45 (143)
Q Consensus 37 C~IC~~~~~ 45 (143)
||+|...+.
T Consensus 1 CPvCg~~l~ 9 (113)
T PF09862_consen 1 CPVCGGELV 9 (113)
T ss_pred CCCCCCceE
Confidence 677776554
No 225
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=32.73 E-value=27 Score=18.80 Aligned_cols=22 Identities=32% Similarity=0.493 Sum_probs=11.3
Q ss_pred cccccccccCcEEccCCChhHH
Q psy18180 37 CLVCQGILIKPIKLPCNHHVCL 58 (143)
Q Consensus 37 C~IC~~~~~~pv~l~CgH~fC~ 58 (143)
|..|...-..=+-+.|+|.+|.
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~ 23 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCG 23 (50)
T ss_pred cccCCCcCCeEEecCCCCcccC
Confidence 5555543322234567777773
No 226
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=32.56 E-value=46 Score=22.92 Aligned_cols=48 Identities=17% Similarity=0.122 Sum_probs=26.0
Q ss_pred HHHHHhhcccccccccCCCCC--CCCCccccccccccccCcEEccCCChhH
Q psy18180 9 DVSLLLVNSKMDNEDCNSNNT--LTPDSVLCLVCQGILIKPIKLPCNHHVC 57 (143)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~C~IC~~~~~~pv~l~CgH~fC 57 (143)
+-+..+....|+.+.+..... .......||-|...-...+. .=|-+-|
T Consensus 78 ~gr~~l~~~giapp~~~~~~~~~~~~~~~~cp~c~s~~t~~~s-~fg~t~c 127 (146)
T TIGR02159 78 DAREKLREYGIAPPAGHYVVGVSPEPPSVQCPRCGSADTTITS-IFGPTAC 127 (146)
T ss_pred HHHHHHHhcCccCCCccCCCcccCCCCCCcCCCCCCCCcEeec-CCCChhh
Confidence 345556666777665542222 11225799999986654332 3444444
No 227
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=31.96 E-value=16 Score=16.47 Aligned_cols=11 Identities=18% Similarity=0.612 Sum_probs=5.6
Q ss_pred ccccccccccC
Q psy18180 36 LCLVCQGILIK 46 (143)
Q Consensus 36 ~C~IC~~~~~~ 46 (143)
.|.||...|..
T Consensus 2 ~C~~C~~~f~s 12 (25)
T PF12874_consen 2 YCDICNKSFSS 12 (25)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCCcCC
Confidence 45555554443
No 228
>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=31.85 E-value=14 Score=30.53 Aligned_cols=7 Identities=57% Similarity=1.265 Sum_probs=3.6
Q ss_pred ccccccc
Q psy18180 71 SCPMCRK 77 (143)
Q Consensus 71 ~CP~Cr~ 77 (143)
.|+.|+=
T Consensus 88 ~C~~C~W 94 (483)
T PF05502_consen 88 SCSYCRW 94 (483)
T ss_pred ECCCcee
Confidence 3555543
No 229
>KOG2113|consensus
Probab=31.18 E-value=38 Score=26.60 Aligned_cols=43 Identities=12% Similarity=-0.086 Sum_probs=30.6
Q ss_pred ccccccccccccCcEEccCCC-hhHHHHHHHHhhcCCCccccccccc
Q psy18180 34 SVLCLVCQGILIKPIKLPCNH-HVCLECLQRICDNSNLSCPMCRKRL 79 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH-~fC~~Ci~~~~~~~~~~CP~Cr~~~ 79 (143)
.+.|-.|..-+..-.-.+|+| .||..|..- .....||.|....
T Consensus 343 ~~~~~~~~~~~~st~~~~~~~n~~~~~~a~~---s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 343 SLKGTSAGFGLLSTIWSGGNMNLSPGSLASA---SASPTSSTCDHND 386 (394)
T ss_pred hcccccccCceeeeEeecCCcccChhhhhhc---ccCCccccccccc
Confidence 457888887665555569998 589999772 3345699997654
No 230
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=31.15 E-value=15 Score=23.61 Aligned_cols=32 Identities=16% Similarity=0.367 Sum_probs=19.7
Q ss_pred CCCCCccccccccccccCcEEc--cCCChhHHHH
Q psy18180 29 TLTPDSVLCLVCQGILIKPIKL--PCNHHVCLEC 60 (143)
Q Consensus 29 ~~~~~~~~C~IC~~~~~~pv~l--~CgH~fC~~C 60 (143)
+...++|+|.-|+-+-...... .=|+.+|..|
T Consensus 65 P~q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 65 PKQADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred cCCCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 4456788999888665533222 2366677666
No 231
>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=31.10 E-value=7.4 Score=18.35 Aligned_cols=8 Identities=38% Similarity=1.203 Sum_probs=4.7
Q ss_pred CCcccccc
Q psy18180 69 NLSCPMCR 76 (143)
Q Consensus 69 ~~~CP~Cr 76 (143)
.+.||.|.
T Consensus 16 ~f~CPnCG 23 (24)
T PF07754_consen 16 PFPCPNCG 23 (24)
T ss_pred eEeCCCCC
Confidence 34577764
No 232
>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=30.73 E-value=28 Score=30.37 Aligned_cols=52 Identities=21% Similarity=0.598 Sum_probs=37.9
Q ss_pred CCCCccccccccccccCcEE----------ccCCChh--------------------HHHHHHHHhhc-------CCCcc
Q psy18180 30 LTPDSVLCLVCQGILIKPIK----------LPCNHHV--------------------CLECLQRICDN-------SNLSC 72 (143)
Q Consensus 30 ~~~~~~~C~IC~~~~~~pv~----------l~CgH~f--------------------C~~Ci~~~~~~-------~~~~C 72 (143)
...|--.|.-|...+.+|.. +.||-.| |..|..++.+. ....|
T Consensus 64 ippD~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~~~C 143 (711)
T TIGR00143 64 IPADVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQPIAC 143 (711)
T ss_pred cCCchhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCCccC
Confidence 34566799999988887631 3677665 99999998652 23579
Q ss_pred cccccccch
Q psy18180 73 PMCRKRLSI 81 (143)
Q Consensus 73 P~Cr~~~~~ 81 (143)
|.|.-.+..
T Consensus 144 ~~Cgp~l~l 152 (711)
T TIGR00143 144 PRCGPQLNF 152 (711)
T ss_pred CCCCcEEEE
Confidence 999887764
No 233
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=30.20 E-value=26 Score=19.59 Aligned_cols=7 Identities=43% Similarity=1.383 Sum_probs=4.5
Q ss_pred CCccccc
Q psy18180 69 NLSCPMC 75 (143)
Q Consensus 69 ~~~CP~C 75 (143)
...||.|
T Consensus 49 ~~~CP~C 55 (55)
T PF14311_consen 49 GKGCPYC 55 (55)
T ss_pred CCCCCCC
Confidence 3458877
No 234
>PLN02248 cellulose synthase-like protein
Probab=29.89 E-value=40 Score=30.89 Aligned_cols=29 Identities=21% Similarity=0.760 Sum_probs=24.1
Q ss_pred cCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 51 PCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 51 ~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.|+...|++|....++.+. .||-|+....
T Consensus 149 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ 177 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGG-ICPGCKEPYK 177 (1135)
T ss_pred cccchhHHhHhhhhhhcCC-CCCCCccccc
Confidence 5888899999998888755 5999988764
No 235
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=29.22 E-value=64 Score=17.96 Aligned_cols=28 Identities=25% Similarity=0.694 Sum_probs=16.6
Q ss_pred cccccccccc--CcEEccCCChhHHHHHHHH
Q psy18180 36 LCLVCQGILI--KPIKLPCNHHVCLECLQRI 64 (143)
Q Consensus 36 ~C~IC~~~~~--~pv~l~CgH~fC~~Ci~~~ 64 (143)
.|+||.+-.. ..+.+.=| ..|.+|+.+.
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 4888886433 22444445 5777777664
No 236
>KOG2789|consensus
Probab=28.91 E-value=47 Score=26.94 Aligned_cols=32 Identities=22% Similarity=0.524 Sum_probs=25.6
Q ss_pred CccccccccccccCcEEc--cCCChhHHHHHHHH
Q psy18180 33 DSVLCLVCQGILIKPIKL--PCNHHVCLECLQRI 64 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l--~CgH~fC~~Ci~~~ 64 (143)
....||||+-++-....+ -|..+.|..|+..+
T Consensus 73 r~~ecpicflyyps~~n~~rcC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 73 RKTECPICFLYYPSAKNLVRCCSETICGECFAPF 106 (482)
T ss_pred ccccCceeeeecccccchhhhhccchhhhheecc
Confidence 457999999887765544 59999999999776
No 237
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=28.15 E-value=90 Score=18.93 Aligned_cols=30 Identities=17% Similarity=0.411 Sum_probs=21.7
Q ss_pred ccccccccccccCcEEc---cCCChhHHHHHHH
Q psy18180 34 SVLCLVCQGILIKPIKL---PCNHHVCLECLQR 63 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l---~CgH~fC~~Ci~~ 63 (143)
...|.+|....-..+.- .|...|+..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 57999999874543332 5888888888765
No 238
>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=28.05 E-value=30 Score=17.47 Aligned_cols=9 Identities=33% Similarity=1.066 Sum_probs=6.3
Q ss_pred ccccccccc
Q psy18180 71 SCPMCRKRL 79 (143)
Q Consensus 71 ~CP~Cr~~~ 79 (143)
.||.|.+.-
T Consensus 20 ~CP~Cg~~~ 28 (34)
T cd00729 20 KCPICGAPK 28 (34)
T ss_pred cCcCCCCch
Confidence 588887653
No 239
>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=27.72 E-value=25 Score=16.99 Aligned_cols=10 Identities=40% Similarity=1.281 Sum_probs=5.4
Q ss_pred cccccccccc
Q psy18180 71 SCPMCRKRLS 80 (143)
Q Consensus 71 ~CP~Cr~~~~ 80 (143)
.||.|...+.
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 4899988876
No 240
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=27.10 E-value=91 Score=23.44 Aligned_cols=61 Identities=20% Similarity=0.386 Sum_probs=32.3
Q ss_pred cchHHHHHHHHHhhcccccccccCCCCCCCCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 2 LDKKVFRDVSLLLVNSKMDNEDCNSNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
||+++|........+++ +-+-....+-.|.-|.-.+.. + -..++.. ...-+.||.|..-+-
T Consensus 172 l~~ell~~yeri~~~~k-------g~gvvpl~g~~C~GC~m~l~~------~---~~~~V~~--~d~iv~CP~CgRILy 232 (239)
T COG1579 172 LDPELLSEYERIRKNKK-------GVGVVPLEGRVCGGCHMKLPS------Q---TLSKVRK--KDEIVFCPYCGRILY 232 (239)
T ss_pred cCHHHHHHHHHHHhcCC-------CceEEeecCCcccCCeeeecH------H---HHHHHhc--CCCCccCCccchHHH
Confidence 57777887777777731 111122234466666544332 1 1233333 234567999977543
No 241
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=27.06 E-value=24 Score=26.38 Aligned_cols=14 Identities=29% Similarity=0.944 Sum_probs=9.2
Q ss_pred ccccccccccccCc
Q psy18180 34 SVLCLVCQGILIKP 47 (143)
Q Consensus 34 ~~~C~IC~~~~~~p 47 (143)
.|.|+||+.+|-.|
T Consensus 260 GfvCsVCLsvfc~p 273 (296)
T COG5242 260 GFVCSVCLSVFCRP 273 (296)
T ss_pred eeehhhhheeecCC
Confidence 56777777766544
No 242
>KOG3475|consensus
Probab=26.97 E-value=34 Score=21.36 Aligned_cols=28 Identities=21% Similarity=0.536 Sum_probs=21.0
Q ss_pred CChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 53 NHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 53 gH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.|+.|..|-.+.+..+...|..|.-+..
T Consensus 15 shtlC~RCG~~syH~QKstC~~CGYpaa 42 (92)
T KOG3475|consen 15 SHTLCRRCGRRSYHIQKSTCSSCGYPAA 42 (92)
T ss_pred chHHHHHhCchhhhhhcccccccCCcch
Confidence 5899999998877755556998865543
No 243
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=25.93 E-value=32 Score=20.19 Aligned_cols=11 Identities=36% Similarity=1.090 Sum_probs=9.1
Q ss_pred Ccccccccccc
Q psy18180 70 LSCPMCRKRLS 80 (143)
Q Consensus 70 ~~CP~Cr~~~~ 80 (143)
..||.|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 56999999874
No 244
>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=25.92 E-value=55 Score=23.86 Aligned_cols=24 Identities=25% Similarity=0.558 Sum_probs=17.1
Q ss_pred cccCcEEccCC----ChhHHHHHHHHhh
Q psy18180 43 ILIKPIKLPCN----HHVCLECLQRICD 66 (143)
Q Consensus 43 ~~~~pv~l~Cg----H~fC~~Ci~~~~~ 66 (143)
.+..|....|. |.||..++..|+.
T Consensus 150 ~f~~p~~~~C~~gHfHHyCs~HV~~WL~ 177 (199)
T PF12132_consen 150 KFVKPSVDECEYGHFHHYCSQHVNSWLN 177 (199)
T ss_pred cccCCCCCCCCCCCcChhhHHHHHHHHH
Confidence 34456555554 6899999999986
No 245
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=25.89 E-value=1.5e+02 Score=24.68 Aligned_cols=17 Identities=12% Similarity=0.261 Sum_probs=11.1
Q ss_pred cchHHHHHHHHHhhccc
Q psy18180 2 LDKKVFRDVSLLLVNSK 18 (143)
Q Consensus 2 ~~~~~~~~~~~~~~~~~ 18 (143)
|..++++.+...+.+|+
T Consensus 183 ls~~l~~~i~~~l~~g~ 199 (505)
T TIGR00595 183 LSPELITAIEQTLAAGE 199 (505)
T ss_pred ccHHHHHHHHHHHHcCC
Confidence 34567777777777754
No 246
>KOG1356|consensus
Probab=25.87 E-value=24 Score=31.15 Aligned_cols=32 Identities=25% Similarity=0.598 Sum_probs=25.4
Q ss_pred ccccccccccccCcEE--ccCCChhHHHHHHHHh
Q psy18180 34 SVLCLVCQGILIKPIK--LPCNHHVCLECLQRIC 65 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~--l~CgH~fC~~Ci~~~~ 65 (143)
.-.|..|...+.+-.- -.||+.||..|+..|.
T Consensus 229 ~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 229 REMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred chhhhhhcccccceeEEccccCCeeeecchhhcc
Confidence 4478999987776443 3699999999999995
No 247
>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=25.52 E-value=28 Score=15.98 Aligned_cols=11 Identities=18% Similarity=0.362 Sum_probs=6.0
Q ss_pred ccccccccccc
Q psy18180 35 VLCLVCQGILI 45 (143)
Q Consensus 35 ~~C~IC~~~~~ 45 (143)
+.|.+|...|.
T Consensus 2 ~~C~~C~~~F~ 12 (27)
T PF13912_consen 2 FECDECGKTFS 12 (27)
T ss_dssp EEETTTTEEES
T ss_pred CCCCccCCccC
Confidence 35566655554
No 248
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=25.39 E-value=35 Score=15.90 Aligned_cols=10 Identities=30% Similarity=1.358 Sum_probs=6.8
Q ss_pred cccccccccc
Q psy18180 71 SCPMCRKRLS 80 (143)
Q Consensus 71 ~CP~Cr~~~~ 80 (143)
.||.|...+.
T Consensus 4 ~C~~CgR~F~ 13 (25)
T PF13913_consen 4 PCPICGRKFN 13 (25)
T ss_pred cCCCCCCEEC
Confidence 4777777765
No 249
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=25.35 E-value=88 Score=24.21 Aligned_cols=46 Identities=15% Similarity=0.369 Sum_probs=29.4
Q ss_pred CCccccccccccccCcEEc----cCCCh--hHHHHHHHHhhcCCCcccccccc
Q psy18180 32 PDSVLCLVCQGILIKPIKL----PCNHH--VCLECLQRICDNSNLSCPMCRKR 78 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~pv~l----~CgH~--fC~~Ci~~~~~~~~~~CP~Cr~~ 78 (143)
+.--.||+|.......++. .=|-. -|.-|...|..-. ..|-.|...
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR-~KC~nC~~t 234 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVR-VKCSNCEQS 234 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHH-HHhcccccc
Confidence 4455899999876654432 23333 4999999997643 247777554
No 250
>COG4640 Predicted membrane protein [Function unknown]
Probab=25.16 E-value=34 Score=27.70 Aligned_cols=9 Identities=22% Similarity=1.032 Sum_probs=5.0
Q ss_pred ccccccccc
Q psy18180 72 CPMCRKRLS 80 (143)
Q Consensus 72 CP~Cr~~~~ 80 (143)
||.|...+.
T Consensus 18 C~qCG~~~t 26 (465)
T COG4640 18 CTQCGHKFT 26 (465)
T ss_pred ccccCCcCC
Confidence 555555554
No 251
>PRK01343 zinc-binding protein; Provisional
Probab=25.15 E-value=37 Score=19.60 Aligned_cols=12 Identities=33% Similarity=0.778 Sum_probs=9.5
Q ss_pred CCcccccccccc
Q psy18180 69 NLSCPMCRKRLS 80 (143)
Q Consensus 69 ~~~CP~Cr~~~~ 80 (143)
...||.|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 356999999875
No 252
>PRK05580 primosome assembly protein PriA; Validated
Probab=25.05 E-value=1.4e+02 Score=25.90 Aligned_cols=95 Identities=14% Similarity=0.107 Sum_probs=42.1
Q ss_pred cchHHHHHHHHHhhcccc----cccccCCC---CCCCCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccc
Q psy18180 2 LDKKVFRDVSLLLVNSKM----DNEDCNSN---NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPM 74 (143)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~----~~~~~~~~---~~~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~ 74 (143)
|...+++.++..+.+|+- .+..|-+. -..-.....|+-|...+.-.. .=+...|..|-... .-...||.
T Consensus 351 ls~~l~~~i~~~l~~g~qvll~~nrrGy~~~~~C~~Cg~~~~C~~C~~~l~~h~--~~~~l~Ch~Cg~~~--~~~~~Cp~ 426 (679)
T PRK05580 351 LSPPLLEAIKQRLERGEQVLLFLNRRGYAPFLLCRDCGWVAECPHCDASLTLHR--FQRRLRCHHCGYQE--PIPKACPE 426 (679)
T ss_pred CCHHHHHHHHHHHHcCCeEEEEEcCCCCCCceEhhhCcCccCCCCCCCceeEEC--CCCeEECCCCcCCC--CCCCCCCC
Confidence 445677777777777531 12222221 111223344555554332110 01112244443221 12346999
Q ss_pred cccccchhccccCCCCchhhHHHHHHHHHHhhh
Q psy18180 75 CRKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK 107 (143)
Q Consensus 75 Cr~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~ 107 (143)
|....-. ..-.-...+.+.+.++||.
T Consensus 427 Cg~~~l~-------~~g~G~e~~~e~l~~~fp~ 452 (679)
T PRK05580 427 CGSTDLV-------PVGPGTERLEEELAELFPE 452 (679)
T ss_pred CcCCeeE-------EeeccHHHHHHHHHHhCCC
Confidence 9765321 1112234456667777775
No 253
>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=24.82 E-value=79 Score=16.91 Aligned_cols=12 Identities=25% Similarity=0.811 Sum_probs=8.8
Q ss_pred cCCCcccccccc
Q psy18180 67 NSNLSCPMCRKR 78 (143)
Q Consensus 67 ~~~~~CP~Cr~~ 78 (143)
.+++.||.|...
T Consensus 16 ~~g~~CP~Cg~~ 27 (46)
T PF12760_consen 16 PDGFVCPHCGST 27 (46)
T ss_pred CCCCCCCCCCCe
Confidence 345779999875
No 254
>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=24.65 E-value=99 Score=23.51 Aligned_cols=45 Identities=18% Similarity=0.411 Sum_probs=26.2
Q ss_pred ChhHHHHHHHHhhcCCCccccc--ccccchhccccCCCCchhhHHHHHHHHHHhhh
Q psy18180 54 HHVCLECLQRICDNSNLSCPMC--RKRLSIWLRRNKDFSLLIDENLWNQIQKYYKK 107 (143)
Q Consensus 54 H~fC~~Ci~~~~~~~~~~CP~C--r~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~ 107 (143)
|.||..|-. .... ...|-.| ...+. ....-...+|.++++.|.++
T Consensus 18 h~~CN~CG~-~~~~-~~kC~~c~~~~vak-------fvRig~~~QL~dLV~~y~~~ 64 (258)
T PF06869_consen 18 HFICNSCGK-VVES-NEKCSCCGCGPVAK-------FVRIGGFSQLQDLVEQYLED 64 (258)
T ss_pred ehhhhhhhh-hhcc-CceeeccCCCccEE-------EEEEcHHHHHHHHHHHHHHH
Confidence 889999988 3332 3347555 33333 12333456677777777665
No 255
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=24.37 E-value=57 Score=23.61 Aligned_cols=33 Identities=18% Similarity=0.586 Sum_probs=23.3
Q ss_pred CCCCCCCCccccccccccccCcEEccCCChhHHHH
Q psy18180 26 SNNTLTPDSVLCLVCQGILIKPIKLPCNHHVCLEC 60 (143)
Q Consensus 26 ~~~~~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~C 60 (143)
.......+.-.|.+|.+.=.. .-.|-|..|..|
T Consensus 52 d~~~~~~~~~~C~nCg~~GH~--~~DCP~~iC~~C 84 (190)
T COG5082 52 DVSAIREENPVCFNCGQNGHL--RRDCPHSICYNC 84 (190)
T ss_pred ccccccccccccchhcccCcc--cccCChhHhhhc
Confidence 334566677889999875442 235779999999
No 256
>PRK14873 primosome assembly protein PriA; Provisional
Probab=24.36 E-value=1.1e+02 Score=26.54 Aligned_cols=95 Identities=15% Similarity=0.185 Sum_probs=46.7
Q ss_pred cchHHHHHHHHHhhccccc---ccccCCCC---CCCCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCccccc
Q psy18180 2 LDKKVFRDVSLLLVNSKMD---NEDCNSNN---TLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMC 75 (143)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~---~~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~C 75 (143)
|...+++.++..+.+|.+- ++.|-+.. ..-.....|+-|...+.-.. .=+...|..|-... ....||.|
T Consensus 354 ls~~l~~~i~~~L~~gqvll~lnRrGyap~l~C~~Cg~~~~C~~C~~~L~~h~--~~~~l~Ch~CG~~~---~p~~Cp~C 428 (665)
T PRK14873 354 LPSLAFRAARDALEHGPVLVQVPRRGYVPSLACARCRTPARCRHCTGPLGLPS--AGGTPRCRWCGRAA---PDWRCPRC 428 (665)
T ss_pred cCHHHHHHHHHHHhcCcEEEEecCCCCCCeeEhhhCcCeeECCCCCCceeEec--CCCeeECCCCcCCC---cCccCCCC
Confidence 4456788888888886332 33333311 11223445555554433110 01112344443321 24569999
Q ss_pred ccccchhccccCCCCchhhHHHHHHHHHHhhhH
Q psy18180 76 RKRLSIWLRRNKDFSLLIDENLWNQIQKYYKKE 108 (143)
Q Consensus 76 r~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~ 108 (143)
....-. ..-.=.+.+.+.+.+.||..
T Consensus 429 gs~~l~-------~~g~Gter~eeeL~~~FP~~ 454 (665)
T PRK14873 429 GSDRLR-------AVVVGARRTAEELGRAFPGV 454 (665)
T ss_pred cCCcce-------eeeccHHHHHHHHHHHCCCC
Confidence 875321 11222345667778888854
No 257
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.58 E-value=49 Score=21.84 Aligned_cols=41 Identities=32% Similarity=0.709 Sum_probs=26.2
Q ss_pred cccccccccccCcE--------------EccCCChhHHHHHHHHhhcCCCcccccc
Q psy18180 35 VLCLVCQGILIKPI--------------KLPCNHHVCLECLQRICDNSNLSCPMCR 76 (143)
Q Consensus 35 ~~C~IC~~~~~~pv--------------~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr 76 (143)
..|--|+..|..+. -..|++.||.+|=.=+.. .--.||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe-~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHE-SLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhh-hccCCcCCC
Confidence 35888888776541 126899999888443322 222488885
No 258
>KOG1818|consensus
Probab=23.57 E-value=30 Score=29.65 Aligned_cols=51 Identities=22% Similarity=0.288 Sum_probs=33.9
Q ss_pred CCCCCccccccccccccCc----EEccCCChhHHHHHHHHhhc-------CCCccccccccc
Q psy18180 29 TLTPDSVLCLVCQGILIKP----IKLPCNHHVCLECLQRICDN-------SNLSCPMCRKRL 79 (143)
Q Consensus 29 ~~~~~~~~C~IC~~~~~~p----v~l~CgH~fC~~Ci~~~~~~-------~~~~CP~Cr~~~ 79 (143)
+.+.+...|-.|...|..- ....||-.||..|....+.. ....|-.|-..+
T Consensus 160 pdW~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C~E~l 221 (634)
T KOG1818|consen 160 PDWIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSCYELL 221 (634)
T ss_pred cccccccccceeeeeeeeccccccccccchhhccCccccccCcccccccccceehhhhHHHh
Confidence 3344558999999877622 24589999999998876651 123577774333
No 259
>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=23.52 E-value=26 Score=21.50 Aligned_cols=24 Identities=21% Similarity=0.433 Sum_probs=17.8
Q ss_pred HHHHHHHHhhcCCCcccccccccc
Q psy18180 57 CLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 57 C~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
|..|-+.|+.+.-..|..|-..++
T Consensus 3 C~~C~~~~F~~KiGRC~rCM~QLt 26 (77)
T PF12292_consen 3 CNDCQESWFWQKIGRCQRCMWQLT 26 (77)
T ss_pred hhhHHHHHHHHHhccHHHHHHHHH
Confidence 778888888866667998855544
No 260
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=23.46 E-value=34 Score=22.24 Aligned_cols=26 Identities=15% Similarity=0.195 Sum_probs=15.9
Q ss_pred ccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 50 LPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 50 l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
+.|||.|=.. ...+.+ .||.|.....
T Consensus 6 trCG~vf~~g--~~~il~---GCp~CG~nkF 31 (112)
T COG3364 6 TRCGEVFDDG--SEEILS---GCPKCGCNKF 31 (112)
T ss_pred cccccccccc--cHHHHc---cCccccchhe
Confidence 5788887654 222222 3999977654
No 261
>KOG2066|consensus
Probab=22.69 E-value=33 Score=30.20 Aligned_cols=38 Identities=21% Similarity=0.396 Sum_probs=26.8
Q ss_pred cccccccccc-------CcEEccCCChhHHHHHHHHhhcCCCccccc
Q psy18180 36 LCLVCQGILI-------KPIKLPCNHHVCLECLQRICDNSNLSCPMC 75 (143)
Q Consensus 36 ~C~IC~~~~~-------~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~C 75 (143)
.|..|.+..- .-+.+.|||.|+..|+.-...++. |-.|
T Consensus 786 rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~--~~~~ 830 (846)
T KOG2066|consen 786 RCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA--CNIE 830 (846)
T ss_pred hhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc--cChh
Confidence 8888887543 334568999999999976654432 5554
No 262
>KOG3608|consensus
Probab=22.57 E-value=83 Score=25.27 Aligned_cols=49 Identities=24% Similarity=0.587 Sum_probs=34.1
Q ss_pred CccccccccccccCcE----------EccCCChhHHHHHHHHhh-----------cCCCcccccccccch
Q psy18180 33 DSVLCLVCQGILIKPI----------KLPCNHHVCLECLQRICD-----------NSNLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv----------~l~CgH~fC~~Ci~~~~~-----------~~~~~CP~Cr~~~~~ 81 (143)
..+-||-|.++|..-. .+.=.|-.|..|..++.. -+...||+|......
T Consensus 206 KvvACp~Cg~~F~~~tkl~DH~rRqt~l~~n~fqC~~C~KrFaTeklL~~Hv~rHvn~ykCplCdmtc~~ 275 (467)
T KOG3608|consen 206 KVVACPHCGELFRTKTKLFDHLRRQTELNTNSFQCAQCFKRFATEKLLKSHVVRHVNCYKCPLCDMTCSS 275 (467)
T ss_pred eEEecchHHHHhccccHHHHHHHhhhhhcCCchHHHHHHHHHhHHHHHHHHHHHhhhcccccccccCCCC
Confidence 4678999999887432 234557779999877643 135679999776654
No 263
>KOG0289|consensus
Probab=22.50 E-value=1.1e+02 Score=25.26 Aligned_cols=46 Identities=17% Similarity=0.373 Sum_probs=38.1
Q ss_pred cccccccccccCcEEcc-CCChhHHHHHHHHhhcCCCcccccccccch
Q psy18180 35 VLCLVCQGILIKPIKLP-CNHHVCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~l~-CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
+.|.|-.++..+||.-+ =||.|=++=|++++...+ .+|+-..+++.
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 46999999999999875 899999999999998655 48887776654
No 264
>PRK04179 rpl37e 50S ribosomal protein L37e; Reviewed
Probab=22.49 E-value=21 Score=20.93 Aligned_cols=25 Identities=20% Similarity=0.452 Sum_probs=19.2
Q ss_pred CChhHHHHHHHHhhcCCCccccccc
Q psy18180 53 NHHVCLECLQRICDNSNLSCPMCRK 77 (143)
Q Consensus 53 gH~fC~~Ci~~~~~~~~~~CP~Cr~ 77 (143)
.|++|..|=...+......|-.|.-
T Consensus 16 tHt~CrRCG~~syh~qK~~CasCGy 40 (62)
T PRK04179 16 THIRCRRCGRHSYNVRKKYCAACGF 40 (62)
T ss_pred ccchhcccCcccccccccchhhcCC
Confidence 5888998888777655566888866
No 265
>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=22.43 E-value=39 Score=23.08 Aligned_cols=23 Identities=26% Similarity=0.764 Sum_probs=16.4
Q ss_pred cccccccccccCcEEccCCChhHHHHHH
Q psy18180 35 VLCLVCQGILIKPIKLPCNHHVCLECLQ 62 (143)
Q Consensus 35 ~~C~IC~~~~~~pv~l~CgH~fC~~Ci~ 62 (143)
..|+.|..+|... |..+|..|..
T Consensus 4 ~nC~~CgklF~~~-----~~~iCp~C~~ 26 (137)
T TIGR03826 4 ANCPKCGRLFVKT-----GRDVCPSCYE 26 (137)
T ss_pred ccccccchhhhhc-----CCccCHHHhH
Confidence 3688888888751 6667777774
No 266
>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=22.34 E-value=55 Score=16.81 Aligned_cols=31 Identities=19% Similarity=0.270 Sum_probs=18.3
Q ss_pred ccccccccccccCcEEccCCChhHHHHHHHH
Q psy18180 34 SVLCLVCQGILIKPIKLPCNHHVCLECLQRI 64 (143)
Q Consensus 34 ~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~ 64 (143)
...|..+.+....-.-..|+-.+|..|....
T Consensus 3 ~~~C~~H~~~~~~~~C~~C~~~~C~~C~~~~ 33 (42)
T PF00643_consen 3 EPKCPEHPEEPLSLFCEDCNEPLCSECTVSG 33 (42)
T ss_dssp SSB-SSTTTSBEEEEETTTTEEEEHHHHHTS
T ss_pred CccCccCCccceEEEecCCCCccCccCCCCC
Confidence 3466666653222222378888999998753
No 267
>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=22.32 E-value=38 Score=22.30 Aligned_cols=11 Identities=36% Similarity=0.908 Sum_probs=8.5
Q ss_pred EEccCCChhHH
Q psy18180 48 IKLPCNHHVCL 58 (143)
Q Consensus 48 v~l~CgH~fC~ 58 (143)
+.-.|||.||.
T Consensus 25 vkc~CGh~f~d 35 (112)
T PF08882_consen 25 VKCDCGHEFCD 35 (112)
T ss_pred eeccCCCeecC
Confidence 34479999995
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=22.17 E-value=30 Score=30.78 Aligned_cols=46 Identities=22% Similarity=0.465 Sum_probs=0.0
Q ss_pred CccccccccccccCcEEccCCCh-----hHHHHHHHHhhcCCCcccccccccch
Q psy18180 33 DSVLCLVCQGILIKPIKLPCNHH-----VCLECLQRICDNSNLSCPMCRKRLSI 81 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~CgH~-----fC~~Ci~~~~~~~~~~CP~Cr~~~~~ 81 (143)
-...|+-|...-.....-.||-. +|..|-...- ...||.|......
T Consensus 654 ~~r~Cp~Cg~~t~~~~Cp~CG~~T~~~~~Cp~C~~~~~---~~~C~~C~~~~~~ 704 (900)
T PF03833_consen 654 GRRRCPKCGKETFYNRCPECGSHTEPVYVCPDCGIEVE---EDECPKCGRETTS 704 (900)
T ss_dssp ------------------------------------------------------
T ss_pred ecccCcccCCcchhhcCcccCCccccceeccccccccC---ccccccccccCcc
Confidence 35689999876554444458843 7999977543 2269999888763
No 269
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=22.06 E-value=38 Score=30.11 Aligned_cols=31 Identities=19% Similarity=0.591 Sum_probs=23.2
Q ss_pred cccccccccccC-c--EE------ccCCChhHHHHHHHHh
Q psy18180 35 VLCLVCQGILIK-P--IK------LPCNHHVCLECLQRIC 65 (143)
Q Consensus 35 ~~C~IC~~~~~~-p--v~------l~CgH~fC~~Ci~~~~ 65 (143)
-.|..|...|.. . +. -.||..||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 469999998852 1 11 2699999999987654
No 270
>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=21.82 E-value=44 Score=15.51 Aligned_cols=12 Identities=17% Similarity=0.365 Sum_probs=7.9
Q ss_pred cccccccccccc
Q psy18180 34 SVLCLVCQGILI 45 (143)
Q Consensus 34 ~~~C~IC~~~~~ 45 (143)
.+.|++|...|.
T Consensus 14 ~~~C~~C~k~F~ 25 (26)
T PF13465_consen 14 PYKCPYCGKSFS 25 (26)
T ss_dssp SEEESSSSEEES
T ss_pred CCCCCCCcCeeC
Confidence 467777776553
No 271
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=21.54 E-value=38 Score=21.91 Aligned_cols=42 Identities=14% Similarity=0.451 Sum_probs=22.9
Q ss_pred CCCCCCccccccccccccCcEEccCCChhHHHHHHHHhhcCCCcccccccccc
Q psy18180 28 NTLTPDSVLCLVCQGILIKPIKLPCNHHVCLECLQRICDNSNLSCPMCRKRLS 80 (143)
Q Consensus 28 ~~~~~~~~~C~IC~~~~~~pv~l~CgH~fC~~Ci~~~~~~~~~~CP~Cr~~~~ 80 (143)
.......|.||.|....... |. +..-...+...|-.|...+.
T Consensus 16 ~~~L~k~FtCp~Cghe~vs~----ct-------vkk~~~~g~~~Cg~CGls~e 57 (104)
T COG4888 16 PQVLPKTFTCPRCGHEKVSS----CT-------VKKTVNIGTAVCGNCGLSFE 57 (104)
T ss_pred CccCCceEecCccCCeeeeE----EE-------EEecCceeEEEcccCcceEE
Confidence 44466688999887654422 11 11111123456888877665
No 272
>KOG0006|consensus
Probab=21.47 E-value=94 Score=24.58 Aligned_cols=32 Identities=25% Similarity=0.807 Sum_probs=24.1
Q ss_pred CccccccccccccCcEEccCC--ChhHHHHHHHH
Q psy18180 33 DSVLCLVCQGILIKPIKLPCN--HHVCLECLQRI 64 (143)
Q Consensus 33 ~~~~C~IC~~~~~~pv~l~Cg--H~fC~~Ci~~~ 64 (143)
....|-.|-+.-..-..++|. |.-|..|+.-+
T Consensus 220 ~ni~C~~Ctdv~~~vlvf~Cns~HvtC~dCFr~y 253 (446)
T KOG0006|consen 220 RNITCITCTDVRSPVLVFQCNSRHVTCLDCFRLY 253 (446)
T ss_pred ccceeEEecCCccceEEEecCCceeehHHhhhhH
Confidence 357888898865444456999 99999999854
No 273
>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=21.37 E-value=32 Score=19.81 Aligned_cols=12 Identities=33% Similarity=1.013 Sum_probs=6.4
Q ss_pred Ccccccccccch
Q psy18180 70 LSCPMCRKRLSI 81 (143)
Q Consensus 70 ~~CP~Cr~~~~~ 81 (143)
+.||.|++.+..
T Consensus 3 v~CP~C~k~~~~ 14 (57)
T PF03884_consen 3 VKCPICGKPVEW 14 (57)
T ss_dssp EE-TTT--EEE-
T ss_pred ccCCCCCCeecc
Confidence 359999998874
No 274
>PF12907 zf-met2: Zinc-binding
Probab=21.16 E-value=23 Score=18.83 Aligned_cols=11 Identities=27% Similarity=0.984 Sum_probs=7.7
Q ss_pred Ccccccccccc
Q psy18180 70 LSCPMCRKRLS 80 (143)
Q Consensus 70 ~~CP~Cr~~~~ 80 (143)
+.|++|++.+.
T Consensus 2 i~C~iC~qtF~ 12 (40)
T PF12907_consen 2 IICKICRQTFM 12 (40)
T ss_pred cCcHHhhHHHH
Confidence 45888886665
No 275
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=20.95 E-value=16 Score=28.06 Aligned_cols=30 Identities=20% Similarity=0.443 Sum_probs=19.2
Q ss_pred CCChhHHHHHHHHhhcC---CCcccccccccch
Q psy18180 52 CNHHVCLECLQRICDNS---NLSCPMCRKRLSI 81 (143)
Q Consensus 52 CgH~fC~~Ci~~~~~~~---~~~CP~Cr~~~~~ 81 (143)
=.|.||..|-.+..... ...||.|+..+..
T Consensus 109 ~~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fP 141 (279)
T COG2816 109 RSHRFCGRCGTKTYPREGGWARVCPKCGHEHFP 141 (279)
T ss_pred hhCcCCCCCCCcCccccCceeeeCCCCCCccCC
Confidence 46778888877654421 2458888776543
No 276
>PF15135 UPF0515: Uncharacterised protein UPF0515
Probab=20.93 E-value=15 Score=27.80 Aligned_cols=28 Identities=14% Similarity=0.245 Sum_probs=14.3
Q ss_pred cccccccccCCCCCCCCCcccccccccc
Q psy18180 16 NSKMDNEDCNSNNTLTPDSVLCLVCQGI 43 (143)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~~C~IC~~~ 43 (143)
|-.|-..+.....+...-.|-|..|..+
T Consensus 94 Nlrm~d~a~~~~ip~~drqFaC~~Cd~~ 121 (278)
T PF15135_consen 94 NLRMFDDAQENLIPSVDRQFACSSCDHM 121 (278)
T ss_pred HHHHhhhhhhccccccceeeeccccchH
Confidence 3333333333344444556777777544
No 277
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=20.90 E-value=56 Score=23.90 Aligned_cols=16 Identities=19% Similarity=0.426 Sum_probs=12.9
Q ss_pred CCccccccccccccCc
Q psy18180 32 PDSVLCLVCQGILIKP 47 (143)
Q Consensus 32 ~~~~~C~IC~~~~~~p 47 (143)
.....||+|...|...
T Consensus 3 ~k~~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTK 18 (214)
T ss_pred CCceECCCCCCeeeee
Confidence 3478999999988854
No 278
>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=20.81 E-value=37 Score=18.42 Aligned_cols=6 Identities=33% Similarity=0.955 Sum_probs=5.0
Q ss_pred cCCChh
Q psy18180 51 PCNHHV 56 (143)
Q Consensus 51 ~CgH~f 56 (143)
.|||+|
T Consensus 32 ~Cg~tf 37 (47)
T PF04606_consen 32 ECGHTF 37 (47)
T ss_pred cCCCEE
Confidence 599987
No 279
>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=20.60 E-value=13 Score=18.02 Aligned_cols=10 Identities=20% Similarity=0.458 Sum_probs=3.5
Q ss_pred cccccccccc
Q psy18180 36 LCLVCQGILI 45 (143)
Q Consensus 36 ~C~IC~~~~~ 45 (143)
.|+.|...+.
T Consensus 3 ~C~rC~~~~~ 12 (30)
T PF06827_consen 3 KCPRCWNYIE 12 (30)
T ss_dssp B-TTT--BBE
T ss_pred cCccCCCcce
Confidence 3555555544
No 280
>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=20.36 E-value=66 Score=14.86 Aligned_cols=12 Identities=17% Similarity=0.517 Sum_probs=6.0
Q ss_pred cccccccccccC
Q psy18180 35 VLCLVCQGILIK 46 (143)
Q Consensus 35 ~~C~IC~~~~~~ 46 (143)
+.|.+|...|.+
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 281
>KOG0801|consensus
Probab=20.35 E-value=25 Score=24.87 Aligned_cols=12 Identities=25% Similarity=0.473 Sum_probs=6.6
Q ss_pred cccccccccccc
Q psy18180 34 SVLCLVCQGILI 45 (143)
Q Consensus 34 ~~~C~IC~~~~~ 45 (143)
.-.|.||++.+.
T Consensus 177 kGECvICLEdL~ 188 (205)
T KOG0801|consen 177 KGECVICLEDLE 188 (205)
T ss_pred CCcEEEEhhhcc
Confidence 345666665554
No 282
>KOG4080|consensus
Probab=20.16 E-value=85 Score=22.24 Aligned_cols=11 Identities=27% Similarity=0.890 Sum_probs=5.6
Q ss_pred ChhHHHHHHHH
Q psy18180 54 HHVCLECLQRI 64 (143)
Q Consensus 54 H~fC~~Ci~~~ 64 (143)
|+.|..|..+.
T Consensus 106 ~~LC~~Cy~kV 116 (176)
T KOG4080|consen 106 HTLCDYCYAKV 116 (176)
T ss_pred cccHHHHHHHH
Confidence 34555555543
Done!