Query 023268
Match_columns 284
No_of_seqs 216 out of 1321
Neff 8.2
Searched_HMMs 46136
Date Fri Mar 29 02:44:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023268.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023268hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2879 Predicted E3 ubiquitin 100.0 2.3E-40 5.1E-45 282.7 11.2 263 1-279 29-297 (298)
2 PF04757 Pex2_Pex12: Pex2 / Pe 100.0 9.1E-33 2E-37 240.8 18.4 194 1-202 4-217 (229)
3 KOG0317 Predicted E3 ubiquitin 100.0 6.8E-33 1.5E-37 239.3 13.4 244 3-272 24-287 (293)
4 KOG0826 Predicted E3 ubiquitin 100.0 4.9E-31 1.1E-35 230.5 17.0 266 4-275 29-352 (357)
5 PF15227 zf-C3HC4_4: zinc fing 99.2 2.1E-11 4.4E-16 77.5 3.3 40 224-264 1-42 (42)
6 PLN03208 E3 ubiquitin-protein 99.1 8.6E-11 1.9E-15 98.0 4.9 53 218-271 15-81 (193)
7 KOG0823 Predicted E3 ubiquitin 99.1 8.2E-11 1.8E-15 99.8 4.3 55 218-273 44-99 (230)
8 PF13923 zf-C3HC4_2: Zinc fing 99.0 1.9E-10 4.1E-15 72.0 2.7 39 224-264 1-39 (39)
9 KOG0320 Predicted E3 ubiquitin 99.0 5.2E-10 1.1E-14 91.1 3.8 57 217-276 127-185 (187)
10 PF00097 zf-C3HC4: Zinc finger 98.9 1.2E-09 2.6E-14 69.0 2.9 41 224-264 1-41 (41)
11 smart00504 Ubox Modified RING 98.9 2.3E-09 4.9E-14 74.2 4.4 45 222-269 2-46 (63)
12 PF13920 zf-C3HC4_3: Zinc fing 98.9 1.7E-09 3.6E-14 71.5 3.2 47 221-270 2-49 (50)
13 PF13639 zf-RING_2: Ring finge 98.8 2.5E-09 5.4E-14 68.7 1.8 41 223-265 2-44 (44)
14 PHA02929 N1R/p28-like protein; 98.8 5.2E-09 1.1E-13 90.9 4.0 56 219-276 172-234 (238)
15 COG5574 PEX10 RING-finger-cont 98.7 4.5E-09 9.8E-14 90.7 2.6 51 218-269 212-262 (271)
16 cd00162 RING RING-finger (Real 98.7 1.5E-08 3.3E-13 64.5 3.4 45 223-268 1-45 (45)
17 KOG2164 Predicted E3 ubiquitin 98.7 9.3E-09 2E-13 96.3 3.0 49 221-270 186-237 (513)
18 PHA02926 zinc finger-like prot 98.6 2.7E-08 5.8E-13 84.1 3.7 57 220-277 169-238 (242)
19 TIGR00599 rad18 DNA repair pro 98.6 2.6E-08 5.6E-13 92.5 3.7 51 217-270 22-72 (397)
20 PF13445 zf-RING_UBOX: RING-ty 98.6 3.6E-08 7.7E-13 62.7 2.1 37 224-262 1-43 (43)
21 PF14835 zf-RING_6: zf-RING of 98.5 3E-08 6.4E-13 67.6 1.3 47 220-270 6-52 (65)
22 COG5432 RAD18 RING-finger-cont 98.5 3.1E-08 6.8E-13 86.4 1.7 51 218-271 22-72 (391)
23 smart00184 RING Ring finger. E 98.5 1.2E-07 2.6E-12 58.1 3.2 39 224-264 1-39 (39)
24 KOG0287 Postreplication repair 98.5 3.8E-08 8.3E-13 87.6 0.8 51 218-271 20-70 (442)
25 KOG0978 E3 ubiquitin ligase in 98.5 5.3E-08 1.2E-12 95.3 1.5 55 220-276 642-696 (698)
26 PF14634 zf-RING_5: zinc-RING 98.5 1.5E-07 3.4E-12 60.3 3.1 42 223-266 1-44 (44)
27 PF04564 U-box: U-box domain; 98.4 1.7E-07 3.7E-12 66.9 3.3 49 220-270 3-51 (73)
28 KOG0311 Predicted E3 ubiquitin 98.2 1.2E-07 2.7E-12 84.9 -1.8 58 219-277 41-98 (381)
29 TIGR00570 cdk7 CDK-activating 98.1 2.3E-06 4.9E-11 76.7 4.2 50 220-270 2-55 (309)
30 PF11789 zf-Nse: Zinc-finger o 98.1 1.3E-06 2.9E-11 59.1 2.1 46 219-264 9-54 (57)
31 PF12678 zf-rbx1: RING-H2 zinc 98.1 2.4E-06 5.3E-11 60.9 3.5 42 222-265 20-73 (73)
32 KOG0824 Predicted E3 ubiquitin 98.1 1.3E-06 2.7E-11 77.0 2.2 48 221-270 7-54 (324)
33 KOG2177 Predicted E3 ubiquitin 98.0 1.8E-06 3.9E-11 77.1 1.7 46 218-266 10-55 (386)
34 KOG4172 Predicted E3 ubiquitin 97.9 2.5E-06 5.5E-11 55.8 0.4 48 221-270 7-55 (62)
35 COG5243 HRD1 HRD ubiquitin lig 97.9 2.4E-05 5.1E-10 70.9 5.8 49 218-269 284-345 (491)
36 COG5222 Uncharacterized conser 97.7 1.7E-05 3.6E-10 69.9 2.3 51 221-272 274-324 (427)
37 COG5152 Uncharacterized conser 97.7 1.3E-05 2.9E-10 66.5 1.2 49 219-270 194-242 (259)
38 COG5540 RING-finger-containing 97.7 2.6E-05 5.6E-10 68.9 2.5 49 220-269 322-372 (374)
39 KOG2660 Locus-specific chromos 97.6 1.3E-05 2.7E-10 71.8 0.5 52 219-272 13-64 (331)
40 KOG4628 Predicted E3 ubiquitin 97.6 4.1E-05 8.9E-10 69.8 3.3 49 222-271 230-280 (348)
41 KOG1785 Tyrosine kinase negati 97.6 2.8E-05 6.2E-10 71.0 1.7 55 222-277 370-424 (563)
42 KOG0802 E3 ubiquitin ligase [P 97.5 4.6E-05 1E-09 74.7 2.5 47 219-268 289-340 (543)
43 KOG0297 TNF receptor-associate 97.5 4.9E-05 1.1E-09 71.4 2.2 57 218-276 18-74 (391)
44 KOG1813 Predicted E3 ubiquitin 97.5 3.9E-05 8.5E-10 67.6 1.3 49 219-270 239-287 (313)
45 KOG4159 Predicted E3 ubiquitin 97.4 8.4E-05 1.8E-09 69.4 2.6 50 218-270 81-130 (398)
46 KOG1734 Predicted RING-contain 97.4 0.00074 1.6E-08 58.9 8.1 132 123-270 135-282 (328)
47 PF12861 zf-Apc11: Anaphase-pr 97.4 0.0002 4.3E-09 52.0 3.5 36 234-269 46-82 (85)
48 KOG4692 Predicted E3 ubiquitin 97.2 0.00016 3.5E-09 65.2 2.4 48 219-269 420-467 (489)
49 KOG1002 Nucleotide excision re 97.2 0.00015 3.2E-09 68.6 1.9 52 217-269 532-586 (791)
50 KOG4265 Predicted E3 ubiquitin 97.2 0.00028 6.1E-09 64.0 3.2 55 219-276 288-343 (349)
51 KOG0828 Predicted E3 ubiquitin 96.8 0.0034 7.3E-08 59.2 7.0 52 218-270 568-635 (636)
52 PF14447 Prok-RING_4: Prokaryo 96.6 0.0012 2.5E-08 43.8 1.8 47 220-271 6-52 (55)
53 KOG1039 Predicted E3 ubiquitin 96.5 0.0015 3.3E-08 59.9 2.4 56 219-274 159-226 (344)
54 KOG2932 E3 ubiquitin ligase in 96.5 0.00073 1.6E-08 60.0 0.3 50 221-274 90-139 (389)
55 KOG1571 Predicted E3 ubiquitin 96.4 0.0021 4.6E-08 58.5 2.7 47 218-270 302-348 (355)
56 KOG3039 Uncharacterized conser 96.2 0.0042 9.2E-08 53.6 3.0 56 220-277 220-278 (303)
57 PF02891 zf-MIZ: MIZ/SP-RING z 96.2 0.0028 6E-08 41.6 1.5 47 221-267 2-50 (50)
58 KOG1001 Helicase-like transcri 96.0 0.0019 4.2E-08 64.5 0.4 52 222-275 455-506 (674)
59 PF04641 Rtf2: Rtf2 RING-finge 96.0 0.0073 1.6E-07 53.7 4.0 56 218-276 110-168 (260)
60 KOG1645 RING-finger-containing 95.9 0.0038 8.1E-08 57.6 1.8 50 220-269 3-56 (463)
61 KOG1941 Acetylcholine receptor 95.9 0.0035 7.5E-08 57.5 1.4 66 219-284 363-432 (518)
62 KOG0804 Cytoplasmic Zn-finger 95.7 0.0053 1.2E-07 57.3 1.9 48 218-269 172-222 (493)
63 KOG4739 Uncharacterized protei 95.7 0.0039 8.4E-08 53.9 0.9 44 222-269 4-48 (233)
64 KOG4367 Predicted Zn-finger pr 95.5 0.0081 1.8E-07 55.9 2.2 43 219-262 2-44 (699)
65 COG5219 Uncharacterized conser 95.2 0.01 2.2E-07 60.1 2.1 51 219-269 1467-1523(1525)
66 smart00744 RINGv The RING-vari 95.2 0.023 5.1E-07 37.0 3.1 42 223-265 1-49 (49)
67 KOG0825 PHD Zn-finger protein 95.1 0.0041 8.8E-08 61.6 -1.1 55 220-276 122-178 (1134)
68 KOG4275 Predicted E3 ubiquitin 95.0 0.0034 7.3E-08 55.5 -1.7 45 221-272 300-345 (350)
69 PF14570 zf-RING_4: RING/Ubox 94.9 0.028 6.1E-07 36.4 2.7 41 224-268 1-47 (48)
70 COG5175 MOT2 Transcriptional r 94.4 0.026 5.7E-07 51.0 2.3 46 220-269 13-64 (480)
71 PF11793 FANCL_C: FANCL C-term 94.2 0.015 3.3E-07 40.9 0.3 50 221-270 2-67 (70)
72 COG5236 Uncharacterized conser 94.2 0.033 7.1E-07 50.5 2.5 53 216-269 56-108 (493)
73 KOG0827 Predicted E3 ubiquitin 93.9 0.035 7.5E-07 51.1 2.0 45 221-265 4-52 (465)
74 PF05290 Baculo_IE-1: Baculovi 93.0 0.099 2.1E-06 41.1 3.1 50 220-271 79-134 (140)
75 KOG4185 Predicted E3 ubiquitin 92.4 0.097 2.1E-06 47.3 2.7 45 222-268 4-54 (296)
76 KOG2114 Vacuolar assembly/sort 92.0 0.085 1.8E-06 53.2 1.8 43 220-267 839-881 (933)
77 KOG1493 Anaphase-promoting com 91.4 0.061 1.3E-06 38.0 0.2 36 234-269 45-81 (84)
78 KOG3800 Predicted E3 ubiquitin 91.4 0.15 3.3E-06 45.2 2.6 46 223-269 2-51 (300)
79 KOG3039 Uncharacterized conser 91.1 0.18 4E-06 43.7 2.8 37 217-254 39-75 (303)
80 KOG3002 Zn finger protein [Gen 90.8 0.17 3.7E-06 45.8 2.5 48 218-272 45-94 (299)
81 KOG1814 Predicted E3 ubiquitin 90.3 0.16 3.5E-06 47.2 1.9 35 220-254 183-219 (445)
82 PF07800 DUF1644: Protein of u 90.1 0.29 6.2E-06 39.8 2.9 20 220-240 1-20 (162)
83 COG5194 APC11 Component of SCF 89.4 0.36 7.8E-06 34.5 2.6 34 234-269 48-81 (88)
84 KOG2817 Predicted E3 ubiquitin 88.9 2.7 5.7E-05 39.2 8.6 51 219-269 332-385 (394)
85 KOG3970 Predicted E3 ubiquitin 88.6 0.38 8.2E-06 41.3 2.7 49 220-269 49-105 (299)
86 PF10367 Vps39_2: Vacuolar sor 88.4 0.22 4.7E-06 37.5 1.1 33 218-250 75-108 (109)
87 PHA02825 LAP/PHD finger-like p 87.9 0.83 1.8E-05 37.2 4.1 51 217-269 4-59 (162)
88 KOG2034 Vacuolar sorting prote 85.8 0.45 9.7E-06 48.4 1.9 37 218-254 814-851 (911)
89 KOG2930 SCF ubiquitin ligase, 85.1 0.6 1.3E-05 35.1 1.8 29 239-269 80-108 (114)
90 PHA03096 p28-like protein; Pro 85.1 0.5 1.1E-05 42.5 1.7 46 222-268 179-236 (284)
91 PF07191 zinc-ribbons_6: zinc- 84.8 0.073 1.6E-06 37.2 -2.9 46 222-275 2-47 (70)
92 KOG3579 Predicted E3 ubiquitin 84.8 0.56 1.2E-05 41.6 1.8 50 219-269 266-328 (352)
93 COG5220 TFB3 Cdk activating ki 84.6 0.34 7.5E-06 41.9 0.4 49 219-268 8-63 (314)
94 PF07975 C1_4: TFIIH C1-like d 83.7 0.9 2E-05 29.8 2.0 29 235-265 22-50 (51)
95 PF10497 zf-4CXXC_R1: Zinc-fin 83.4 1.5 3.3E-05 33.3 3.5 27 241-267 37-70 (105)
96 PF08746 zf-RING-like: RING-li 83.1 1.3 2.8E-05 27.9 2.5 41 224-264 1-43 (43)
97 PRK04023 DNA polymerase II lar 83.1 0.72 1.6E-05 47.8 2.0 54 218-276 623-681 (1121)
98 KOG4362 Transcriptional regula 82.3 0.32 7E-06 48.4 -0.7 47 221-268 21-68 (684)
99 KOG3161 Predicted E3 ubiquitin 82.1 0.47 1E-05 46.6 0.3 38 220-262 10-51 (861)
100 PHA02862 5L protein; Provision 81.6 1.6 3.4E-05 35.0 3.0 46 222-269 3-53 (156)
101 KOG2979 Protein involved in DN 81.5 1 2.2E-05 39.5 2.1 48 220-267 175-222 (262)
102 PF03854 zf-P11: P-11 zinc fin 81.2 1.2 2.6E-05 28.6 1.8 45 222-270 3-47 (50)
103 KOG1812 Predicted E3 ubiquitin 79.4 1.1 2.4E-05 42.1 1.8 43 220-263 145-195 (384)
104 PF04216 FdhE: Protein involve 78.7 0.31 6.6E-06 44.0 -2.1 49 219-269 170-222 (290)
105 PF10272 Tmpp129: Putative tra 78.5 2.8 6E-05 39.0 4.0 33 240-272 311-354 (358)
106 KOG3799 Rab3 effector RIM1 and 77.5 0.86 1.9E-05 35.9 0.4 47 217-268 61-117 (169)
107 PF15616 TerY-C: TerY-C metal 77.1 1.2 2.6E-05 35.2 1.1 43 218-269 74-116 (131)
108 PF05605 zf-Di19: Drought indu 76.7 1.5 3.2E-05 28.9 1.3 41 221-269 2-42 (54)
109 KOG3899 Uncharacterized conser 76.1 1.4 3.1E-05 39.3 1.4 45 239-283 324-379 (381)
110 KOG0298 DEAD box-containing he 75.9 0.61 1.3E-05 49.3 -1.1 44 220-265 1152-1195(1394)
111 PF14569 zf-UDP: Zinc-binding 75.6 4 8.6E-05 29.1 3.2 51 219-270 7-63 (80)
112 PF10235 Cript: Microtubule-as 74.5 1.8 3.9E-05 31.9 1.4 38 221-270 44-81 (90)
113 PLN02638 cellulose synthase A 73.9 2.4 5.2E-05 44.5 2.6 49 220-269 16-70 (1079)
114 PRK03564 formate dehydrogenase 73.8 1.2 2.6E-05 40.5 0.4 54 220-276 186-243 (309)
115 KOG1815 Predicted E3 ubiquitin 73.5 2.4 5.1E-05 40.7 2.3 37 219-255 68-104 (444)
116 KOG1428 Inhibitor of type V ad 73.3 1.5 3.4E-05 47.2 1.0 52 219-270 3484-3545(3738)
117 TIGR01562 FdhE formate dehydro 73.3 1.1 2.4E-05 40.7 0.0 54 220-276 183-241 (305)
118 PLN02436 cellulose synthase A 72.8 2.5 5.4E-05 44.4 2.4 50 220-270 35-90 (1094)
119 KOG2169 Zn-finger transcriptio 72.6 2.3 5E-05 42.8 2.1 56 219-275 304-361 (636)
120 PLN02915 cellulose synthase A 71.5 3.9 8.4E-05 43.0 3.4 51 219-270 13-69 (1044)
121 PLN02189 cellulose synthase 71.2 3 6.5E-05 43.7 2.5 50 220-270 33-88 (1040)
122 COG3813 Uncharacterized protei 71.1 2.9 6.3E-05 29.3 1.7 25 241-269 28-52 (84)
123 PF06271 RDD: RDD family; Int 70.6 29 0.00062 26.6 7.6 31 31-61 56-86 (137)
124 KOG4445 Uncharacterized conser 70.4 2 4.2E-05 38.6 0.9 52 218-269 112-186 (368)
125 KOG1812 Predicted E3 ubiquitin 70.0 1.9 4.2E-05 40.5 0.8 35 220-255 305-344 (384)
126 PLN02195 cellulose synthase A 69.4 4.2 9E-05 42.4 3.1 48 221-269 6-59 (977)
127 COG5183 SSM4 Protein involved 68.6 4.4 9.5E-05 41.2 2.9 56 219-275 10-72 (1175)
128 KOG0825 PHD Zn-finger protein 67.7 3.1 6.7E-05 42.1 1.7 49 220-270 95-155 (1134)
129 KOG1952 Transcription factor N 67.4 4 8.6E-05 41.7 2.4 51 219-269 189-247 (950)
130 PF04710 Pellino: Pellino; In 67.3 1.8 3.9E-05 40.4 0.0 39 231-269 300-339 (416)
131 PF06906 DUF1272: Protein of u 67.3 5.1 0.00011 26.7 2.1 43 223-269 7-52 (57)
132 PLN02400 cellulose synthase 67.1 3.4 7.3E-05 43.6 1.9 51 219-270 34-90 (1085)
133 KOG3842 Adaptor protein Pellin 66.8 5.8 0.00013 36.0 3.1 52 218-270 338-415 (429)
134 PF10571 UPF0547: Uncharacteri 65.7 4 8.7E-05 22.8 1.2 10 259-268 15-24 (26)
135 KOG0289 mRNA splicing factor [ 65.4 7 0.00015 37.0 3.5 46 223-270 2-47 (506)
136 PF05883 Baculo_RING: Baculovi 65.3 2.3 5E-05 33.7 0.3 33 221-253 26-66 (134)
137 TIGR00622 ssl1 transcription f 64.0 7.1 0.00015 30.0 2.7 43 221-265 55-110 (112)
138 KOG2068 MOT2 transcription fac 62.8 6.5 0.00014 35.9 2.7 47 221-269 249-298 (327)
139 KOG1100 Predicted E3 ubiquitin 61.9 2.8 6E-05 36.0 0.2 40 224-270 161-201 (207)
140 COG5109 Uncharacterized conser 60.5 6.3 0.00014 35.7 2.2 51 219-269 334-387 (396)
141 PF03833 PolC_DP2: DNA polymer 60.0 2.9 6.4E-05 42.7 0.0 53 219-276 653-710 (900)
142 KOG3726 Uncharacterized conser 59.4 5.9 0.00013 39.5 1.9 41 221-267 654-698 (717)
143 KOG1940 Zn-finger protein [Gen 59.0 5.8 0.00013 35.5 1.7 42 222-266 159-204 (276)
144 PF12773 DZR: Double zinc ribb 56.6 9.8 0.00021 24.3 2.1 28 242-269 12-40 (50)
145 COG3364 Zn-ribbon containing p 56.5 6.8 0.00015 29.4 1.4 29 233-267 1-29 (112)
146 KOG3113 Uncharacterized conser 56.3 8.3 0.00018 33.9 2.1 52 218-273 108-162 (293)
147 PRK14714 DNA polymerase II lar 54.1 6.2 0.00014 42.2 1.2 55 221-276 667-727 (1337)
148 KOG4718 Non-SMC (structural ma 53.7 6.4 0.00014 33.7 1.0 48 220-269 180-227 (235)
149 smart00064 FYVE Protein presen 53.3 12 0.00027 25.5 2.3 34 221-254 10-46 (68)
150 KOG2807 RNA polymerase II tran 51.8 11 0.00024 34.3 2.3 45 220-266 329-375 (378)
151 KOG3268 Predicted E3 ubiquitin 50.4 14 0.00029 30.8 2.4 51 219-269 163-228 (234)
152 KOG0824 Predicted E3 ubiquitin 49.6 5.2 0.00011 36.0 -0.2 49 219-269 103-151 (324)
153 PF09889 DUF2116: Uncharacteri 49.2 10 0.00023 25.6 1.3 14 257-270 2-15 (59)
154 PF02318 FYVE_2: FYVE-type zin 48.5 1.7 3.7E-05 33.7 -3.1 46 220-266 53-102 (118)
155 COG2093 DNA-directed RNA polym 48.1 6.8 0.00015 26.7 0.3 30 244-275 6-35 (64)
156 cd00350 rubredoxin_like Rubred 47.4 2.6 5.6E-05 24.8 -1.7 15 257-271 16-30 (33)
157 KOG3476 Microtubule-associated 46.5 2.5 5.5E-05 30.7 -2.1 38 221-270 54-91 (100)
158 cd00065 FYVE FYVE domain; Zinc 46.5 16 0.00035 23.8 1.9 33 222-254 3-38 (57)
159 PF04423 Rad50_zn_hook: Rad50 46.3 6.7 0.00015 25.8 0.0 13 259-271 21-33 (54)
160 PF12906 RINGv: RING-variant d 45.2 13 0.00029 23.7 1.3 20 245-264 28-47 (47)
161 PF15200 KRTDAP: Keratinocyte 44.8 30 0.00064 24.3 3.0 23 182-204 43-65 (77)
162 PF13240 zinc_ribbon_2: zinc-r 44.8 3.9 8.4E-05 22.1 -1.1 9 259-267 14-22 (23)
163 PF01363 FYVE: FYVE zinc finge 44.1 4.9 0.00011 27.6 -0.9 35 219-253 7-44 (69)
164 PF14353 CpXC: CpXC protein 44.1 16 0.00035 28.4 1.9 12 258-269 38-49 (128)
165 KOG2231 Predicted E3 ubiquitin 43.9 22 0.00048 35.8 3.2 46 223-269 2-52 (669)
166 PF04088 Peroxin-13_N: Peroxin 43.6 28 0.00061 28.5 3.3 26 76-101 132-157 (158)
167 KOG1729 FYVE finger containing 42.9 5.2 0.00011 36.1 -1.2 50 219-268 166-224 (288)
168 PRK11595 DNA utilization prote 40.6 24 0.00052 30.5 2.6 39 222-268 6-44 (227)
169 smart00531 TFIIE Transcription 39.8 18 0.00039 29.1 1.6 43 218-273 96-138 (147)
170 PF02148 zf-UBP: Zn-finger in 39.0 18 0.00038 24.5 1.2 32 224-255 1-36 (63)
171 PF10083 DUF2321: Uncharacteri 38.0 19 0.00041 29.3 1.4 26 241-271 27-52 (158)
172 PTZ00303 phosphatidylinositol 37.0 22 0.00048 36.4 2.0 32 222-253 461-500 (1374)
173 smart00647 IBR In Between Ring 37.0 6.9 0.00015 26.1 -1.1 15 239-253 45-59 (64)
174 COG3058 FdhE Uncharacterized p 36.3 25 0.00054 31.5 2.0 47 219-267 183-234 (308)
175 COG0068 HypF Hydrogenase matur 36.1 23 0.0005 35.8 2.0 55 217-271 97-186 (750)
176 KOG1356 Putative transcription 36.0 12 0.00026 38.4 -0.0 58 218-275 226-288 (889)
177 PF10013 DUF2256: Uncharacteri 35.0 22 0.00048 22.3 1.1 14 257-270 7-20 (42)
178 KOG2807 RNA polymerase II tran 34.9 12 0.00026 34.2 -0.2 35 233-269 322-356 (378)
179 COG4098 comFA Superfamily II D 34.6 18 0.00039 33.6 0.9 33 218-250 36-68 (441)
180 COG4306 Uncharacterized protei 34.5 22 0.00049 27.8 1.3 23 243-270 29-51 (160)
181 PF09723 Zn-ribbon_8: Zinc rib 33.1 14 0.0003 23.0 -0.0 26 238-266 9-34 (42)
182 TIGR00373 conserved hypothetic 32.9 32 0.00069 28.1 2.0 39 217-273 105-143 (158)
183 PF13248 zf-ribbon_3: zinc-rib 32.7 8.5 0.00018 21.3 -1.0 9 259-267 17-25 (26)
184 PRK12380 hydrogenase nickel in 32.6 10 0.00022 29.1 -0.9 11 258-268 86-96 (113)
185 COG4229 Predicted enolase-phos 32.2 2.2E+02 0.0048 24.2 6.8 74 85-162 18-92 (229)
186 PRK12496 hypothetical protein; 32.0 13 0.00027 30.7 -0.5 12 259-270 144-155 (164)
187 KOG3352 Cytochrome c oxidase, 31.8 19 0.00042 29.1 0.6 26 252-278 127-152 (153)
188 KOG1814 Predicted E3 ubiquitin 31.7 21 0.00046 33.6 0.9 35 219-253 366-405 (445)
189 PRK06266 transcription initiat 31.4 42 0.00092 28.0 2.6 38 218-273 114-151 (178)
190 KOG3842 Adaptor protein Pellin 30.7 18 0.00039 32.9 0.2 36 231-269 313-352 (429)
191 KOG2113 Predicted RNA binding 30.6 32 0.0007 31.3 1.8 50 219-273 341-391 (394)
192 TIGR00100 hypA hydrogenase nic 30.6 11 0.00025 29.0 -0.9 11 258-268 86-96 (115)
193 KOG1815 Predicted E3 ubiquitin 30.6 15 0.00033 35.2 -0.3 34 221-254 226-266 (444)
194 KOG2462 C2H2-type Zn-finger pr 30.5 20 0.00044 31.9 0.5 12 258-269 215-226 (279)
195 PF03119 DNA_ligase_ZBD: NAD-d 30.0 21 0.00045 20.2 0.3 10 260-269 1-10 (28)
196 PF13894 zf-C2H2_4: C2H2-type 29.6 12 0.00027 19.1 -0.7 12 260-271 2-13 (24)
197 PF11023 DUF2614: Protein of u 29.3 18 0.00039 27.8 -0.0 11 259-269 86-96 (114)
198 KOG0309 Conserved WD40 repeat- 29.3 35 0.00077 34.8 2.0 42 220-263 1027-1069(1081)
199 smart00154 ZnF_AN1 AN1-like Zi 29.1 38 0.00082 20.7 1.4 23 224-246 1-24 (39)
200 PF09538 FYDLN_acid: Protein o 29.0 39 0.00084 25.8 1.8 9 221-229 9-17 (108)
201 KOG3362 Predicted BBOX Zn-fing 28.6 21 0.00046 28.6 0.3 32 219-252 116-148 (156)
202 COG5533 UBP5 Ubiquitin C-termi 28.5 41 0.00089 30.7 2.1 56 219-277 233-303 (415)
203 smart00734 ZnF_Rad18 Rad18-lik 28.3 28 0.00061 19.3 0.7 9 260-268 3-11 (26)
204 cd00730 rubredoxin Rubredoxin; 28.0 27 0.00058 22.7 0.6 14 257-270 33-46 (50)
205 TIGR00375 conserved hypothetic 28.0 18 0.00039 34.0 -0.3 12 258-270 259-270 (374)
206 PF01485 IBR: IBR domain; Int 27.7 22 0.00047 23.5 0.2 31 222-252 19-58 (64)
207 COG1996 RPC10 DNA-directed RNA 27.6 26 0.00057 22.7 0.5 15 256-270 22-36 (49)
208 PF01155 HypA: Hydrogenase exp 27.4 7 0.00015 30.1 -2.6 11 258-268 86-96 (113)
209 PF14446 Prok-RING_1: Prokaryo 27.1 86 0.0019 20.8 2.9 43 220-268 4-51 (54)
210 smart00290 ZnF_UBP Ubiquitin C 27.0 41 0.00088 21.2 1.4 25 223-248 1-25 (50)
211 PRK11088 rrmA 23S rRNA methylt 26.9 31 0.00067 30.5 1.1 23 222-244 3-27 (272)
212 COG2331 Uncharacterized protei 26.8 30 0.00065 24.6 0.7 34 234-270 12-45 (82)
213 PF07503 zf-HYPF: HypF finger; 26.7 64 0.0014 19.3 2.1 26 244-269 1-32 (35)
214 PF09845 DUF2072: Zn-ribbon co 26.7 34 0.00073 27.1 1.1 29 234-268 1-29 (131)
215 PF09297 zf-NADH-PPase: NADH p 26.6 12 0.00025 21.7 -1.2 25 242-266 3-29 (32)
216 KOG1701 Focal adhesion adaptor 26.4 42 0.00091 31.9 1.8 46 220-269 359-405 (468)
217 PF14319 Zn_Tnp_IS91: Transpos 26.4 22 0.00047 27.3 -0.0 30 219-251 40-69 (111)
218 PF00301 Rubredoxin: Rubredoxi 25.7 36 0.00079 21.8 0.9 11 257-267 33-43 (47)
219 cd00729 rubredoxin_SM Rubredox 25.6 9.8 0.00021 22.6 -1.6 13 259-271 19-31 (34)
220 PF13824 zf-Mss51: Zinc-finger 25.4 57 0.0012 21.7 1.8 12 258-269 14-25 (55)
221 PRK00564 hypA hydrogenase nick 25.0 23 0.0005 27.4 -0.1 9 260-268 90-98 (117)
222 COG1545 Predicted nucleic-acid 24.8 35 0.00076 27.3 0.9 11 258-268 43-53 (140)
223 PRK14559 putative protein seri 24.5 72 0.0016 32.3 3.2 13 258-270 41-53 (645)
224 PF00096 zf-C2H2: Zinc finger, 24.2 22 0.00048 18.3 -0.2 11 260-270 2-12 (23)
225 PRK03681 hypA hydrogenase nick 23.8 19 0.00041 27.7 -0.8 10 259-268 88-97 (114)
226 PF06844 DUF1244: Protein of u 23.7 49 0.0011 22.9 1.3 13 243-255 11-23 (68)
227 PHA00626 hypothetical protein 23.5 58 0.0013 21.8 1.6 12 258-269 23-34 (59)
228 smart00249 PHD PHD zinc finger 23.3 38 0.00081 20.4 0.7 41 224-264 2-47 (47)
229 PF07754 DUF1610: Domain of un 23.2 36 0.00078 18.6 0.5 9 258-266 16-24 (24)
230 COG4338 Uncharacterized protei 23.1 24 0.00053 22.7 -0.2 13 258-270 12-24 (54)
231 PLN02248 cellulose synthase-li 23.0 75 0.0016 34.1 3.1 30 239-270 149-178 (1135)
232 COG4068 Uncharacterized protei 23.0 50 0.0011 22.3 1.2 14 257-270 7-20 (64)
233 COG5627 MMS21 DNA repair prote 23.0 45 0.00097 29.1 1.3 44 220-263 188-231 (275)
234 PRK01343 zinc-binding protein; 22.9 63 0.0014 21.7 1.7 16 220-235 8-23 (57)
235 COG1592 Rubrerythrin [Energy p 22.9 20 0.00044 29.6 -0.8 15 258-272 149-163 (166)
236 PRK06393 rpoE DNA-directed RNA 22.6 39 0.00085 23.2 0.7 19 258-276 17-35 (64)
237 KOG1819 FYVE finger-containing 22.5 25 0.00054 34.0 -0.4 33 219-251 899-934 (990)
238 PF13719 zinc_ribbon_5: zinc-r 22.4 29 0.00062 20.9 -0.0 13 222-234 3-15 (37)
239 PF05502 Dynactin_p62: Dynacti 22.1 39 0.00084 32.9 0.8 48 222-269 6-63 (483)
240 KOG1609 Protein involved in mR 21.9 57 0.0012 29.2 1.8 50 220-270 77-135 (323)
241 PF13913 zf-C2HC_2: zinc-finge 21.5 41 0.00088 18.3 0.5 11 259-269 3-13 (25)
242 PF09986 DUF2225: Uncharacteri 21.5 26 0.00057 30.1 -0.5 15 220-234 4-18 (214)
243 PF00412 LIM: LIM domain; Int 21.3 87 0.0019 20.1 2.2 32 220-251 25-56 (58)
244 COG2816 NPY1 NTP pyrophosphohy 21.1 24 0.00052 31.6 -0.8 8 222-229 112-119 (279)
245 PRK00420 hypothetical protein; 21.1 21 0.00046 27.5 -1.0 10 222-231 24-33 (112)
246 COG0375 HybF Zn finger protein 21.0 19 0.00041 27.9 -1.3 11 258-268 86-96 (115)
247 TIGR01206 lysW lysine biosynth 20.6 44 0.00095 22.2 0.6 11 259-269 3-13 (54)
248 PF02146 SIR2: Sir2 family; I 20.5 1.1E+02 0.0023 25.2 3.0 32 238-269 109-140 (178)
249 PF09237 GAGA: GAGA factor; I 20.4 23 0.00049 23.3 -0.8 9 220-228 23-31 (54)
250 KOG3183 Predicted Zn-finger pr 20.3 43 0.00093 29.3 0.6 51 221-271 8-68 (250)
No 1
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.3e-40 Score=282.66 Aligned_cols=263 Identities=39% Similarity=0.671 Sum_probs=220.4
Q ss_pred ChhHHHHHHHHHHHhcCCCccccChHHHHHHHHHHHHHHhhccCCCCcchhccCceeccchhhhhhhhhccCCCCCCCch
Q 023268 1 MSAMLKEQLVKVFSLMKPGMLFQYEPELDAFLEFLIWRFSIWVDKPTPGNALMNLRYRDERAVETRAKVRTGLEGPGLTN 80 (284)
Q Consensus 1 ~~~~l~~~l~~v~~~~~p~~~~~~~~El~lll~~l~~~~t~~~~~~T~Ge~~~~L~~~~~~~~~~~~~~~~~~~~~~ls~ 80 (284)
++.++.+|+.+++....|+...++++|.+++++.+++.++.+..+.|+|+...|++|.++.....+ .. +
T Consensus 29 ls~~l~~qf~~~F~~~~p~~~~r~epe~~~vl~~~iw~~si~~~~~T~Gqall~v~y~~ek~~~~r----~~-----l-- 97 (298)
T KOG2879|consen 29 LSFLLWSQFVSIFLYYKPGLLLRVEPELDAVLDSAIWFFSIYSVDDTVGQALLNVAYIFEKLPVLR----VV-----L-- 97 (298)
T ss_pred HHHHHHHHHHHHHHhcCchhhhhhcHHHhHHHHHHHHheeccCCCCcccchhhhHHhhhccCceEE----Ee-----e--
Confidence 467899999999999999999999999999999999999999999999999999999987642111 00 1
Q ss_pred hHHHHHHHHHHhhhhHHHHHHhHHhhhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHhce
Q 023268 81 AQKIWYCIATVGGQYLWARLQSFSAFRRWGDSEQRPLARRAWILIQRIEALYKAASFGNLLIFLYTGRYRNLIERALRAR 160 (284)
Q Consensus 81 ~~r~~~~l~~v~~pYl~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~~Fl~~g~y~sl~~Rllglr 160 (284)
.-++++.+..+++.|+..|.+ ....+.+... .-.+++..+.+++.++.++.+.|++.||..|+++++.++++|++
T Consensus 98 ~g~IW~~v~sig~~~~~~r~q-m~l~r~~~~~----~~~~~~~~v~~ve~i~~~~~~~n~l~fL~~gr~~tlie~il~~~ 172 (298)
T KOG2879|consen 98 EGKIWTHVFSIGGSWLEERNQ-MDLFRAGWVN----LTPKLITSVFMVEGILKALGMLNLLSFLYRGRMYTLIEAILGLG 172 (298)
T ss_pred cceEEEEeccccCCchhhhhH-HHHHHhhhhh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHhccc
Confidence 114455567889999999976 2222222111 22356778888999999999999999999999999999999999
Q ss_pred eecCCCCCcccchhhhhhhHHHHHHHHHHHHHHhhhccchhhhcccccCCCC----C--CCCCCCCcccccccCCCCCCC
Q 023268 161 LVYGTPNMNRAVSFEYMNRQLVWNEFSEMLLLLLPLLNSSTVKGLFGPFSKD----K--SSSSEEDVTTCPICQASPTTP 234 (284)
Q Consensus 161 ~~~~~~~~~~~~~~~~lnr~l~w~~~~e~l~~~l~~~~~~~~~~~l~~~~~~----~--~~~~~~~~~~C~iC~~~~~~p 234 (284)
+++..+...|.++||||||||+||+|.|++.+++|+++.+++++.++++..+ + .++....+.+||+|.+.+++|
T Consensus 173 si~~~~~~~R~ig~eY~NReLlW~~F~e~ll~~lp~I~~~k~r~~l~sw~~~l~~ap~~sss~~t~~~~C~~Cg~~PtiP 252 (298)
T KOG2879|consen 173 SILHFPYFNRSIGYEYQNRELLWNAFREVLLLTLPFINFRKLRRVLKSWKLDLDRAPKFSSSTGTSDTECPVCGEPPTIP 252 (298)
T ss_pred hhhhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCCcccccccCCceeeccCCCCCCC
Confidence 9999999999999999999999999999999999999999988866655443 2 234557889999999999999
Q ss_pred CeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccccccCCC
Q 023268 235 FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVINP 279 (284)
Q Consensus 235 ~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~~~~ 279 (284)
++..+|||+|||+|+.+....+..+.||.|+.++..+++.++.+|
T Consensus 253 ~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq~sgv~~~ 297 (298)
T KOG2879|consen 253 HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQASGVKSP 297 (298)
T ss_pred eeeccccceeehhhhhhhhcchhhcccCccCCCCcchhhccCCCC
Confidence 988889999999999998876667999999999999998888654
No 2
>PF04757 Pex2_Pex12: Pex2 / Pex12 amino terminal region; InterPro: IPR006845 This region is the N-terminal part of a number of peroxisomal biogenesis proteins, including Pex2, Pex10 and Pex12, which contain two predicted transmembrane segments. The majority of these proteins have a C-terminal ring finger domain IPR001841 from INTERPRO.; GO: 0007031 peroxisome organization, 0005778 peroxisomal membrane
Probab=100.00 E-value=9.1e-33 Score=240.80 Aligned_cols=194 Identities=29% Similarity=0.454 Sum_probs=166.6
Q ss_pred ChhHHHHHHHHHHHhcC----CCccccChHHHHHHHHHHHHHHhhccCCCCcchhccCceeccchhhhhhhhhccCCCCC
Q 023268 1 MSAMLKEQLVKVFSLMK----PGMLFQYEPELDAFLEFLIWRFSIWVDKPTPGNALMNLRYRDERAVETRAKVRTGLEGP 76 (284)
Q Consensus 1 ~~~~l~~~l~~v~~~~~----p~~~~~~~~El~lll~~l~~~~t~~~~~~T~Ge~~~~L~~~~~~~~~~~~~~~~~~~~~ 76 (284)
+.++|++++.++++.+. ++++.+|++|++++++++|+.+|++++++||||+||||+|++....+. .+.
T Consensus 4 l~~~L~~~l~~i~~~l~~~~~~~~~~~~~~Ei~~ll~~l~~~~tl~~~~~T~gE~~~~L~r~~~~~~~~--------~~~ 75 (229)
T PF04757_consen 4 LESLLKPALSYILQYLAQPRGPRRLLRYFDEIFLLLKLLYESLTLLRGNQTFGEEFYGLKRVNSRSSSR--------ERR 75 (229)
T ss_pred HHHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHhcCCCcHHHHhhCeEEeecccccc--------ccC
Confidence 46889999999999886 789999999999999999999999999999999999999998543210 134
Q ss_pred CCchhHHHHHHHHHHhhhhHHHHHHhHHhhhhcCCCCC--------------chHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023268 77 GLTNAQKIWYCIATVGGQYLWARLQSFSAFRRWGDSEQ--------------RPLARRAWILIQRIEALYKAASFGNLLI 142 (284)
Q Consensus 77 ~ls~~~r~~~~l~~v~~pYl~~kl~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~l~~~~~~~~l~~~~~ 142 (284)
.|+.++|++++++.|++||+++|+++.+....+..... ..+++.+++++|++++++++++++|+++
T Consensus 76 ~ls~~~r~~~l~~~vl~PYl~~Kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (229)
T PF04757_consen 76 PLSRRQRLLSLLLLVLGPYLKEKLDSLLERLSERSAESISSRSARARRARLKSKLKRRFVKLYPYLNALYELLNLLHLLL 155 (229)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999999999999999999987643322111 1346778899999999999999999999
Q ss_pred HhhcCC-CCCHHHHHHhceeecCCC-CCcccchhhhhhhHHHHHHHHHHHHHHhhhccchhh
Q 023268 143 FLYTGR-YRNLIERALRARLVYGTP-NMNRAVSFEYMNRQLVWNEFSEMLLLLLPLLNSSTV 202 (284)
Q Consensus 143 Fl~~g~-y~sl~~Rllglr~~~~~~-~~~~~~~~~~lnr~l~w~~~~e~l~~~l~~~~~~~~ 202 (284)
||++|. |+||++|++||+|++.++ +..++.+|+++|++++|+.+++++.+++|.+....+
T Consensus 156 Fl~~g~~y~s~~~rllgi~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~ 217 (229)
T PF04757_consen 156 FLLGGTPYYSPSKRLLGIRYVRLSPSDLQRNPSYEFLGRQLLWQLLSEFLLFLLPLLLPRSL 217 (229)
T ss_pred HHhCCCCCCCHHHHHhCcEEEECCccchhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999 999999999999999954 445669999999999999999999999888775443
No 3
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.8e-33 Score=239.32 Aligned_cols=244 Identities=19% Similarity=0.284 Sum_probs=171.3
Q ss_pred hHHHHHHHHHHHh-cCCCccccChHHHHHHHHHHHHHHhhccCCCCcchhccCceeccchhhhhhhhhccCCCCCCCchh
Q 023268 3 AMLKEQLVKVFSL-MKPGMLFQYEPELDAFLEFLIWRFSIWVDKPTPGNALMNLRYRDERAVETRAKVRTGLEGPGLTNA 81 (284)
Q Consensus 3 ~~l~~~l~~v~~~-~~p~~~~~~~~El~lll~~l~~~~t~~~~~~T~Ge~~~~L~~~~~~~~~~~~~~~~~~~~~~ls~~ 81 (284)
+.+.++++++.+. .+|+.|++|+.|+..+++.+|+.+++..+++|+||||.++.+++..... .++..
T Consensus 24 ~~l~~~~s~~~~~lag~r~~i~~~~~l~~~a~~ly~~~at~~~~~tlgEEy~~i~~~~~~~~~------------~pssl 91 (293)
T KOG0317|consen 24 GYLISSLSGLSRTLAGPRAWIRYRKELVLIAEVLYFGFATDARYQTLGEEYVSIIESNPLRLR------------LPSSL 91 (293)
T ss_pred hhhhhhhHhHhhhhcchHHHHhhccchhhhhchhhheeehhccccccchhhhhhheecCCccc------------cCchh
Confidence 4678899999995 5788999999999999999999999999999999999999999875421 57777
Q ss_pred HHHHHHHHHHhhhhHHHHHHhHHhhhhcCCCC-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHhce
Q 023268 82 QKIWYCIATVGGQYLWARLQSFSAFRRWGDSE-QRPLARRAWILIQRIEALYKAASFGNLLIFLYTGRYRNLIERALRAR 160 (284)
Q Consensus 82 ~r~~~~l~~v~~pYl~~kl~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~l~~~~~Fl~~g~y~sl~~Rllglr 160 (284)
+++.+++++.+.||+.+|+.+.+......+.. .+..++.+ ++... ....+|..+||++|.||++++|++||+
T Consensus 92 ~~~~~v~~~~v~~~~~~~l~~~l~q~l~~~~~i~p~~~~~~------l~~l~-~v~~~h~~lFY~~g~~y~IskRltgI~ 164 (293)
T KOG0317|consen 92 RRIVFVASHLVLPLLLDKLTKKLMQALQSSSEILPQARRNF------LRGLF-AVLRAHKALFYINGSFYSISKRLTGIR 164 (293)
T ss_pred hhHHHHHHHHHHHHHhHHHHHHHHHhhccCcccccHHHHHH------hhhHH-HHHHHhhheEEecCchHHHHHhhccce
Confidence 88888888889999999988876642211100 11111122 22333 677889999999999999999999999
Q ss_pred eecCCCCC----cccchhhhhhhHHHHHHHHHHHHHHhh-hccchhhhc-----cccc-----C---CCCCCCCCCCCcc
Q 023268 161 LVYGTPNM----NRAVSFEYMNRQLVWNEFSEMLLLLLP-LLNSSTVKG-----LFGP-----F---SKDKSSSSEEDVT 222 (284)
Q Consensus 161 ~~~~~~~~----~~~~~~~~lnr~l~w~~~~e~l~~~l~-~~~~~~~~~-----~l~~-----~---~~~~~~~~~~~~~ 222 (284)
|+++.... +....|..++.. .+.+++..+.+ +.+.....+ .... . .+...+...+...
T Consensus 165 yv~~~~~~~~~~~~~q~y~iLg~I----~L~ql~~slg~r~~~s~~q~~~s~~e~~~e~~~~~~~~~~s~~~~~i~~a~~ 240 (293)
T KOG0317|consen 165 YVLARTLKGHEANASQPYKILGYI----LLIQLLLSLGSRLYASFLQHKRSSTESIEESKLNHSKLEDSNSLSSIPEATR 240 (293)
T ss_pred EEEEecccccccccccceeeechh----hHHHHHHhhhhHHHHHHHhcccccccccccccccccchhhccCCccCCCCCC
Confidence 99985321 222344444433 23343322211 110100000 0000 0 0011223456789
Q ss_pred cccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccc
Q 023268 223 TCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQ 272 (284)
Q Consensus 223 ~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~ 272 (284)
+|.+|++.+.+| ..++|||+|||.||.+|..+ ..+||+||++++..+
T Consensus 241 kC~LCLe~~~~p-SaTpCGHiFCWsCI~~w~~e--k~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 241 KCSLCLENRSNP-SATPCGHIFCWSCILEWCSE--KAECPLCREKFQPSK 287 (293)
T ss_pred ceEEEecCCCCC-CcCcCcchHHHHHHHHHHcc--ccCCCcccccCCCcc
Confidence 999999999999 57899999999999999985 558999999987544
No 4
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=4.9e-31 Score=230.52 Aligned_cols=266 Identities=15% Similarity=0.135 Sum_probs=196.5
Q ss_pred HHHHHHHH---HHHhcCCC---ccccChHHHHHHHHHHHHHHhhccCCCCcchhccCceeccchhhhhhhhhccCCCCCC
Q 023268 4 MLKEQLVK---VFSLMKPG---MLFQYEPELDAFLEFLIWRFSIWVDKPTPGNALMNLRYRDERAVETRAKVRTGLEGPG 77 (284)
Q Consensus 4 ~l~~~l~~---v~~~~~p~---~~~~~~~El~lll~~l~~~~t~~~~~~T~Ge~~~~L~~~~~~~~~~~~~~~~~~~~~~ 77 (284)
+|+-.+.. +++.++|+ .+++|++|++.+++++++.+++...++||+|.||||++...+++.. ..++++.+
T Consensus 29 ~lrpAL~~ll~~~A~~~~~~~~~l~r~fdE~f~~l~liLq~hyLr~~~sSF~E~fYgLqr~ss~drl~----se~~~~~~ 104 (357)
T KOG0826|consen 29 LLRPALQYLLKYFALRPPRYLLRLLRYFDEWFQALDLILQWHYLRTYNSSFIESFYGLQRISSRDRLT----SEWPQGLG 104 (357)
T ss_pred hhHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHhhhhhhhhhcccccc----ccccCCCC
Confidence 44444444 45556675 6789999999999999999999999999999999999987765421 12456778
Q ss_pred CchhHHHHHHHHHHhhhhHHHHHHhHHhhhh----cCC-CCC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-CCCC
Q 023268 78 LTNAQKIWYCIATVGGQYLWARLQSFSAFRR----WGD-SEQ-RPLARRAWILIQRIEALYKAASFGNLLIFLYT-GRYR 150 (284)
Q Consensus 78 ls~~~r~~~~l~~v~~pYl~~kl~~~~~~~~----~~~-~~~-~~~~~~~~~~~~~l~~~~~~~~l~~~~~Fl~~-g~y~ 150 (284)
+.++||+++++++|++||+..||+..+++.+ |.+ +.. ...++.|..++|+++.++++..+++.+.|+.+ ...+
T Consensus 105 l~krQr~~s~~~lv~lPYv~~KL~~i~~k~~e~~~~~S~e~~~~~~~~aF~~~~p~i~~a~els~lvq~l~yIlkrs~~h 184 (357)
T KOG0826|consen 105 LNKRQRIVSFLFLVILPYVEAKLDEIYEKLRENNEFSSDETENKRPKRAFLRIYPFIKMALELSKLVQQLRYILKRSSHH 184 (357)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCchhhhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 9999999999999999999999999988643 211 111 12246678999999999999999999999995 8999
Q ss_pred CHHHHHHhceeecCCCCCc-------------ccchh-------h--hhhhHH--------HHHHHHHHHHHHhhhccch
Q 023268 151 NLIERALRARLVYGTPNMN-------------RAVSF-------E--YMNRQL--------VWNEFSEMLLLLLPLLNSS 200 (284)
Q Consensus 151 sl~~Rllglr~~~~~~~~~-------------~~~~~-------~--~lnr~l--------~w~~~~e~l~~~l~~~~~~ 200 (284)
||+.++.|+.+...+|.+. ..... + .+|+.. .-..++...+|++++++||
T Consensus 185 SPll~lsgv~L~~lt~~dl~a~~~gp~e~~~~~q~~r~t~~e~i~l~~qgaL~~~~~~v~~~~stgl~~~vFflqfldWW 264 (357)
T KOG0826|consen 185 SPLLYLSGVQLGTLTPEDLQALEHGPAELSMMDQPARKTVSEKIFLLMQGALKKAVRGVAFSLSTGLSVGVFFLQFLDWW 264 (357)
T ss_pred cHHHHHhhcccccccHHHHHHhhccccccchhhhhhhhhhhhhHHHHHHhHHHHHHhhHHHHHHhhHHHHHHHHHHHHHH
Confidence 9999999999997776321 00001 0 011110 1123556778889999987
Q ss_pred hhhc---cccc-CCCCC--C---------CCCCCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCC
Q 023268 201 TVKG---LFGP-FSKDK--S---------SSSEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCN 265 (284)
Q Consensus 201 ~~~~---~l~~-~~~~~--~---------~~~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~ 265 (284)
.... .+++ ...+. | ...+.+...||+|.+...||++....|.+|||.|+.+++.+ ...||+.+
T Consensus 265 yssd~~~~~k~~l~~p~PpPPh~~~~se~e~l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~--~~~CPVT~ 342 (357)
T KOG0826|consen 265 YSSDNQRKIKSTLDPPIPPPPHKQYNSESELLPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN--YGHCPVTG 342 (357)
T ss_pred hcchHHHhhccCCCCCCCcCChhhcccccccCCCccccChhHHhccCCCceEEecceEEeHHHHHHHHHh--cCCCCccC
Confidence 6422 2222 11111 1 11345789999999999999988888999999999999984 56999999
Q ss_pred cCcccccccc
Q 023268 266 EPVIAMQRHG 275 (284)
Q Consensus 266 ~~~~~~~~~~ 275 (284)
.|..-.+-.+
T Consensus 343 ~p~~v~~l~r 352 (357)
T KOG0826|consen 343 YPASVDHLIR 352 (357)
T ss_pred CcchHHHHHH
Confidence 9887444333
No 5
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.17 E-value=2.1e-11 Score=77.52 Aligned_cols=40 Identities=38% Similarity=1.016 Sum_probs=31.2
Q ss_pred ccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCC--CccCCC
Q 023268 224 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPS--FRCSRC 264 (284)
Q Consensus 224 C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~--~~CP~C 264 (284)
||||++.+++| ++++|||+||..||..+++..+. ..||.|
T Consensus 1 CpiC~~~~~~P-v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP-VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE-EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc-cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999 78999999999999999976432 589987
No 6
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.10 E-value=8.6e-11 Score=97.96 Aligned_cols=53 Identities=23% Similarity=0.560 Sum_probs=44.0
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhc--------------CCCCccCCCCcCcccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAA--------------SPSFRCSRCNEPVIAM 271 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~--------------~~~~~CP~C~~~~~~~ 271 (284)
..++..|+||.+..++| +.++|||.||+.||..|+.. .....||+|+.++..-
T Consensus 15 ~~~~~~CpICld~~~dP-VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 15 SGGDFDCNICLDQVRDP-VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred CCCccCCccCCCcCCCc-EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 34678999999999999 56899999999999998742 1246899999999753
No 7
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.09 E-value=8.2e-11 Score=99.80 Aligned_cols=55 Identities=24% Similarity=0.527 Sum_probs=46.0
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcC-CCCccCCCCcCcccccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAAS-PSFRCSRCNEPVIAMQR 273 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~C~~~~~~~~~ 273 (284)
......|-||++..++| +.+.|||.|||.||.+|+... ....||+|+..++.-+-
T Consensus 44 ~~~~FdCNICLd~akdP-VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP-VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCCceeeeeeccccCCC-EEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 45678999999999999 567999999999999999864 45678999998875433
No 8
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.01 E-value=1.9e-10 Score=71.97 Aligned_cols=39 Identities=31% Similarity=0.911 Sum_probs=33.7
Q ss_pred ccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCC
Q 023268 224 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRC 264 (284)
Q Consensus 224 C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 264 (284)
|+||.+.+.+|++.++|||+||+.|+.++++. ...||.|
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 89999999999767999999999999999886 4799987
No 9
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=5.2e-10 Score=91.10 Aligned_cols=57 Identities=26% Similarity=0.707 Sum_probs=45.9
Q ss_pred CCCCcccccccCCCCC--CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 217 SEEDVTTCPICQASPT--TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 217 ~~~~~~~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
..+...+||||++... -| +.+.|||+||..||...++. ...||.|++.+...+-+++
T Consensus 127 ~~~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~--~~~CP~C~kkIt~k~~~rI 185 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKN--TNKCPTCRKKITHKQFHRI 185 (187)
T ss_pred ccccccCCCceecchhhccc-cccccchhHHHHHHHHHHHh--CCCCCCcccccchhhheec
Confidence 3456799999998765 45 56899999999999999885 4699999998876655544
No 10
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.89 E-value=1.2e-09 Score=69.01 Aligned_cols=41 Identities=41% Similarity=0.994 Sum_probs=36.9
Q ss_pred ccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCC
Q 023268 224 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRC 264 (284)
Q Consensus 224 C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 264 (284)
|+||.+...+|...++|||.||..|+.+++.......||.|
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 89999999999548999999999999999986567889998
No 11
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.88 E-value=2.3e-09 Score=74.19 Aligned_cols=45 Identities=18% Similarity=0.275 Sum_probs=40.6
Q ss_pred ccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 222 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 222 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
..||||.+...+| +.++|||+||..||.+++.. ...||.|+.++.
T Consensus 2 ~~Cpi~~~~~~~P-v~~~~G~v~~~~~i~~~~~~--~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP-VILPSGQTYERRAIEKWLLS--HGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC-EECCCCCEEeHHHHHHHHHH--CCCCCCCcCCCC
Confidence 5799999999999 56899999999999999986 568999999875
No 12
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.87 E-value=1.7e-09 Score=71.51 Aligned_cols=47 Identities=30% Similarity=0.781 Sum_probs=40.0
Q ss_pred cccccccCCCCCCCCeeccCcCc-ccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 221 VTTCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
+..|+||.+...++ +..+|||. ||..|+..+.. ....||.||+++..
T Consensus 2 ~~~C~iC~~~~~~~-~~~pCgH~~~C~~C~~~~~~--~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRDV-VLLPCGHLCFCEECAERLLK--RKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSSE-EEETTCEEEEEHHHHHHHHH--TTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCce-EEeCCCChHHHHHHhHHhcc--cCCCCCcCChhhcC
Confidence 56899999999998 67899999 99999999987 36799999999864
No 13
>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=98.78 E-value=2.5e-09 Score=68.70 Aligned_cols=41 Identities=27% Similarity=0.718 Sum_probs=33.7
Q ss_pred cccccCCCCC--CCCeeccCcCcccHHHHHHHHhcCCCCccCCCC
Q 023268 223 TCPICQASPT--TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCN 265 (284)
Q Consensus 223 ~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~ 265 (284)
.|+||++... +..+.++|||.||..|+.+|++. ...||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~--~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR--NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH--SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh--CCcCCccC
Confidence 6999998763 44467899999999999999986 45999996
No 14
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.77 E-value=5.2e-09 Score=90.87 Aligned_cols=56 Identities=20% Similarity=0.500 Sum_probs=44.4
Q ss_pred CCcccccccCCCCCCC-------CeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 219 EDVTTCPICQASPTTP-------FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p-------~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
.++..|+||++...++ .+.++|||.||..||..|... ...||+||.++..+.+.+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~--~~tCPlCR~~~~~v~~~r~ 234 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE--KNTCPVCRTPFISVIKSRF 234 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc--CCCCCCCCCEeeEEeeeee
Confidence 3467999999976543 145689999999999999874 5699999999987766554
No 15
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=4.5e-09 Score=90.74 Aligned_cols=51 Identities=25% Similarity=0.568 Sum_probs=41.9
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.+.+.+|+||.+.+.+| ..++|||+||+.||...+..+..-.||+||+.+.
T Consensus 212 p~~d~kC~lC~e~~~~p-s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 212 PLADYKCFLCLEEPEVP-SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred cccccceeeeecccCCc-ccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 36689999999999999 5789999999999999443333345999999876
No 16
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.69 E-value=1.5e-08 Score=64.46 Aligned_cols=45 Identities=31% Similarity=0.854 Sum_probs=37.8
Q ss_pred cccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCc
Q 023268 223 TCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 268 (284)
Q Consensus 223 ~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~ 268 (284)
.|+||.+...++....+|||.||..|+..+... ....||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~-~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKS-GKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHh-CcCCCCCCCCcC
Confidence 499999998888666679999999999999875 356899998753
No 17
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=9.3e-09 Score=96.28 Aligned_cols=49 Identities=27% Similarity=0.661 Sum_probs=42.8
Q ss_pred cccccccCCCCCCCCeeccCcCcccHHHHHHHHhcC---CCCccCCCCcCccc
Q 023268 221 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAAS---PSFRCSRCNEPVIA 270 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---~~~~CP~C~~~~~~ 270 (284)
+..||||++.+.-|. .+.|||+||+.||..++... ....||+|+..+..
T Consensus 186 ~~~CPICL~~~~~p~-~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPV-RTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCccc-ccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 789999999999994 56799999999999999753 35789999998875
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=98.62 E-value=2.7e-08 Score=84.10 Aligned_cols=57 Identities=19% Similarity=0.424 Sum_probs=44.8
Q ss_pred CcccccccCCCCCC---------CCeeccCcCcccHHHHHHHHhcC----CCCccCCCCcCcccccccccC
Q 023268 220 DVTTCPICQASPTT---------PFLALPCQHRYCYYCLRTRCAAS----PSFRCSRCNEPVIAMQRHGVI 277 (284)
Q Consensus 220 ~~~~C~iC~~~~~~---------p~~~~~CgH~fC~~Ci~~~~~~~----~~~~CP~C~~~~~~~~~~~~~ 277 (284)
.+..|+||++.... + +..+|+|.||..||..|.... ....||.||..+..+.+.+++
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFG-IL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf~ 238 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFG-LLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKFY 238 (242)
T ss_pred CCCCCccCcccccccccccccccc-ccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeeccccce
Confidence 45789999986422 3 467999999999999998742 135699999999888777765
No 19
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.61 E-value=2.6e-08 Score=92.54 Aligned_cols=51 Identities=22% Similarity=0.582 Sum_probs=44.0
Q ss_pred CCCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 217 SEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 217 ~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
..+....|+||.+.+.+| +.++|||.||..||..++.. ...||.|+.++..
T Consensus 22 ~Le~~l~C~IC~d~~~~P-vitpCgH~FCs~CI~~~l~~--~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVP-VLTSCSHTFCSLCIRRCLSN--QPKCPLCRAEDQE 72 (397)
T ss_pred ccccccCCCcCchhhhCc-cCCCCCCchhHHHHHHHHhC--CCCCCCCCCcccc
Confidence 356778999999999999 56899999999999999875 3489999998763
No 20
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.56 E-value=3.6e-08 Score=62.70 Aligned_cols=37 Identities=43% Similarity=1.093 Sum_probs=22.4
Q ss_pred ccccCCCCCC----CCeeccCcCcccHHHHHHHHhcC--CCCccC
Q 023268 224 CPICQASPTT----PFLALPCQHRYCYYCLRTRCAAS--PSFRCS 262 (284)
Q Consensus 224 C~iC~~~~~~----p~~~~~CgH~fC~~Ci~~~~~~~--~~~~CP 262 (284)
||||.+ ..+ | +.++|||+||..|+....+.+ ..+.||
T Consensus 1 CpIc~e-~~~~~n~P-~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPP-MVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-E-EE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCC-EEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 676 8 568899999999999998854 467787
No 21
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.53 E-value=3e-08 Score=67.58 Aligned_cols=47 Identities=26% Similarity=0.663 Sum_probs=25.7
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
+..+|++|.+....|+....|.|+||..||.+.+. ..||+|+.|...
T Consensus 6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~----~~CPvC~~Paw~ 52 (65)
T PF14835_consen 6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG----SECPVCHTPAWI 52 (65)
T ss_dssp HTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT----TB-SSS--B-S-
T ss_pred HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC----CCCCCcCChHHH
Confidence 34689999999999966789999999999987653 469999999853
No 22
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.53 E-value=3.1e-08 Score=86.39 Aligned_cols=51 Identities=24% Similarity=0.618 Sum_probs=43.7
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAM 271 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~ 271 (284)
......|.||...+..| ..++|||.||+.||..++.. ...||+|+.+....
T Consensus 22 LDs~lrC~IC~~~i~ip-~~TtCgHtFCslCIR~hL~~--qp~CP~Cr~~~~es 72 (391)
T COG5432 22 LDSMLRCRICDCRISIP-CETTCGHTFCSLCIRRHLGT--QPFCPVCREDPCES 72 (391)
T ss_pred chhHHHhhhhhheeecc-eecccccchhHHHHHHHhcC--CCCCccccccHHhh
Confidence 34568999999999999 56899999999999999975 46999999987643
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.49 E-value=1.2e-07 Score=58.12 Aligned_cols=39 Identities=36% Similarity=0.982 Sum_probs=33.4
Q ss_pred ccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCC
Q 023268 224 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRC 264 (284)
Q Consensus 224 C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 264 (284)
|+||.+...++ +.++|||.||+.|+..+... ....||.|
T Consensus 1 C~iC~~~~~~~-~~~~C~H~~c~~C~~~~~~~-~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDP-VVLPCGHTFCRSCIRKWLKS-GNNTCPIC 39 (39)
T ss_pred CCcCccCCCCc-EEecCCChHHHHHHHHHHHh-CcCCCCCC
Confidence 78999988888 67899999999999999873 35679987
No 24
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.47 E-value=3.8e-08 Score=87.56 Aligned_cols=51 Identities=27% Similarity=0.667 Sum_probs=44.3
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAM 271 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~ 271 (284)
..+-++|.||.+.+..| +.++|||.||..||..++.. .+.||.|..++.+.
T Consensus 20 lD~lLRC~IC~eyf~ip-~itpCsHtfCSlCIR~~L~~--~p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 20 LDDLLRCGICFEYFNIP-MITPCSHTFCSLCIRKFLSY--KPQCPTCCVTVTES 70 (442)
T ss_pred hHHHHHHhHHHHHhcCc-eeccccchHHHHHHHHHhcc--CCCCCceecccchh
Confidence 45678999999999999 56899999999999999985 56999999888653
No 25
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=5.3e-08 Score=95.28 Aligned_cols=55 Identities=24% Similarity=0.641 Sum_probs=47.4
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
.-.+||+|...+++. +++.|||+||+.|+.+..... .-.||.|+.+|...|-+.+
T Consensus 642 ~~LkCs~Cn~R~Kd~-vI~kC~H~FC~~Cvq~r~etR-qRKCP~Cn~aFganDv~~I 696 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA-VITKCGHVFCEECVQTRYETR-QRKCPKCNAAFGANDVHRI 696 (698)
T ss_pred hceeCCCccCchhhH-HHHhcchHHHHHHHHHHHHHh-cCCCCCCCCCCCccccccc
Confidence 568999999999998 678999999999999988764 3589999999988776654
No 26
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.45 E-value=1.5e-07 Score=60.30 Aligned_cols=42 Identities=26% Similarity=0.615 Sum_probs=33.6
Q ss_pred cccccCCCC--CCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCc
Q 023268 223 TCPICQASP--TTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 266 (284)
Q Consensus 223 ~C~iC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~ 266 (284)
.|++|.+.. ..+...++|||+||..|+.... +....||+|++
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 489998877 3333678999999999999877 34679999984
No 27
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.43 E-value=1.7e-07 Score=66.92 Aligned_cols=49 Identities=20% Similarity=0.272 Sum_probs=38.8
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
+.+.||||.+...+| +.++|||+|+..||..|+.. ....||.|++++..
T Consensus 3 ~~f~CpIt~~lM~dP-Vi~~~G~tyer~~I~~~l~~-~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRDP-VILPSGHTYERSAIERWLEQ-NGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SSE-EEETTSEEEEHHHHHHHHCT-TSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhCc-eeCCcCCEEcHHHHHHHHHc-CCCCCCCCCCcCCc
Confidence 568999999999999 57899999999999999986 35799999998874
No 28
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=1.2e-07 Score=84.93 Aligned_cols=58 Identities=19% Similarity=0.580 Sum_probs=51.0
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccccccC
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVI 277 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~~ 277 (284)
.....|+||++.++...++..|+|.||..||...++.+ +..||.||+.+..-+.++.+
T Consensus 41 ~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~g-n~ecptcRk~l~SkrsLr~D 98 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSG-NNECPTCRKKLVSKRSLRID 98 (381)
T ss_pred hhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhc-CCCCchHHhhccccccCCCC
Confidence 35689999999999988889999999999999988864 67999999999887777765
No 29
>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=98.13 E-value=2.3e-06 Score=76.70 Aligned_cols=50 Identities=26% Similarity=0.612 Sum_probs=37.4
Q ss_pred CcccccccCCC-CCCCC---eeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 220 DVTTCPICQAS-PTTPF---LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 220 ~~~~C~iC~~~-~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
++..||+|... ..+|- ...+|||.||..|+...+.. +...||.|+.++..
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~-~~~~CP~C~~~lrk 55 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-GSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC-CCCCCCCCCCccch
Confidence 35689999873 33442 22379999999999998765 34699999988763
No 30
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.13 E-value=1.3e-06 Score=59.06 Aligned_cols=46 Identities=20% Similarity=0.288 Sum_probs=33.8
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCC
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRC 264 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 264 (284)
....+|||....+++|+....|||+|....|.+++.......||+-
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~ 54 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVA 54 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCC
Confidence 3468999999999999877899999999999999966667899994
No 31
>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=98.13 E-value=2.4e-06 Score=60.93 Aligned_cols=42 Identities=24% Similarity=0.691 Sum_probs=32.3
Q ss_pred ccccccCCCCC------------CCCeeccCcCcccHHHHHHHHhcCCCCccCCCC
Q 023268 222 TTCPICQASPT------------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCN 265 (284)
Q Consensus 222 ~~C~iC~~~~~------------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~ 265 (284)
..|+||++.+. -+.+..+|||.|...||..|+.. ...||+||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~--~~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ--NNTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT--SSB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc--CCcCCCCC
Confidence 34999998773 33345689999999999999975 44999997
No 32
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=1.3e-06 Score=77.04 Aligned_cols=48 Identities=27% Similarity=0.766 Sum_probs=41.9
Q ss_pred cccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 221 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
...|+||+....-| +.+.|+|.|||-||......+ ...|++||.++.+
T Consensus 7 ~~eC~IC~nt~n~P-v~l~C~HkFCyiCiKGsy~nd-k~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNTGNCP-VNLYCFHKFCYICIKGSYKND-KKTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeeccCCcC-ccccccchhhhhhhcchhhcC-CCCCceecCCCCc
Confidence 45799999999999 689999999999999887764 4679999999864
No 33
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=1.8e-06 Score=77.11 Aligned_cols=46 Identities=33% Similarity=0.817 Sum_probs=41.1
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 266 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~ 266 (284)
..+...|+||.+.+..| ++++|||.||..|+...+. ....||.|+.
T Consensus 10 ~~~~~~C~iC~~~~~~p-~~l~C~H~~c~~C~~~~~~--~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP-VLLPCGHNFCRACLTRSWE--GPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC-ccccccchHhHHHHHHhcC--CCcCCcccCC
Confidence 45788999999999999 7899999999999999887 4589999993
No 34
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=2.5e-06 Score=55.84 Aligned_cols=48 Identities=27% Similarity=0.597 Sum_probs=40.9
Q ss_pred cccccccCCCCCCCCeeccCcCc-ccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 221 VTTCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
+.+|.||.+.+.+. +...|||. .||.|-...++. ....||+||+++..
T Consensus 7 ~dECTICye~pvds-VlYtCGHMCmCy~Cg~rl~~~-~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 7 SDECTICYEHPVDS-VLYTCGHMCMCYACGLRLKKA-LHGCCPICRAPIKD 55 (62)
T ss_pred ccceeeeccCcchH-HHHHcchHHhHHHHHHHHHHc-cCCcCcchhhHHHH
Confidence 47899999999999 67899996 699999887765 46799999999864
No 35
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=2.4e-05 Score=70.90 Aligned_cols=49 Identities=35% Similarity=0.686 Sum_probs=40.5
Q ss_pred CCCcccccccCCCCC-------------CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 218 EEDVTTCPICQASPT-------------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~-------------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
..++..|.||++... .| ..++|||.+-..|+..|+.. ...||.||.|+.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~p-KrLpCGHilHl~CLknW~ER--qQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTP-KRLPCGHILHLHCLKNWLER--QQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCc-ccccccceeeHHHHHHHHHh--ccCCCcccCccc
Confidence 457899999998632 45 56899999999999999986 459999999965
No 36
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.72 E-value=1.7e-05 Score=69.87 Aligned_cols=51 Identities=24% Similarity=0.708 Sum_probs=43.0
Q ss_pred cccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccc
Q 023268 221 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQ 272 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~ 272 (284)
.++|++|.....+|+.+.+|||.||..||...+.. ..+.||.|...-.-++
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~d-sDf~CpnC~rkdvlld 324 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLD-SDFKCPNCSRKDVLLD 324 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhhhh-ccccCCCcccccchhh
Confidence 48999999999999887899999999999988765 4789999987544333
No 37
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.70 E-value=1.3e-05 Score=66.50 Aligned_cols=49 Identities=20% Similarity=0.577 Sum_probs=41.4
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
.-...|.||.+....| +.+.|||.||..|.....+. ...|-+|++...+
T Consensus 194 ~IPF~C~iCKkdy~sp-vvt~CGH~FC~~Cai~~y~k--g~~C~~Cgk~t~G 242 (259)
T COG5152 194 KIPFLCGICKKDYESP-VVTECGHSFCSLCAIRKYQK--GDECGVCGKATYG 242 (259)
T ss_pred CCceeehhchhhccch-hhhhcchhHHHHHHHHHhcc--CCcceecchhhcc
Confidence 4468999999999999 46799999999999988774 5699999986643
No 38
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=2.6e-05 Score=68.87 Aligned_cols=49 Identities=24% Similarity=0.571 Sum_probs=40.9
Q ss_pred CcccccccCCCCC--CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 220 DVTTCPICQASPT--TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 220 ~~~~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
....|+||++..+ +-++.+||.|.|-..|+.+|+.. -...||+||.++.
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~-y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG-YSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhh-hcccCCccCCCCC
Confidence 4588999998764 45677999999999999999973 3569999999876
No 39
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.65 E-value=1.3e-05 Score=71.76 Aligned_cols=52 Identities=19% Similarity=0.452 Sum_probs=45.5
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQ 272 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~ 272 (284)
.+-..|.+|...+.++.+++.|-|.||..||..++.. ...||.|+..+.+-.
T Consensus 13 n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~--~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE--SKYCPTCDIVIHKTH 64 (331)
T ss_pred ccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH--hccCCccceeccCcc
Confidence 4567899999999999888999999999999999986 679999998876543
No 40
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=4.1e-05 Score=69.81 Aligned_cols=49 Identities=22% Similarity=0.577 Sum_probs=40.6
Q ss_pred ccccccCCCCC--CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccc
Q 023268 222 TTCPICQASPT--TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAM 271 (284)
Q Consensus 222 ~~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~ 271 (284)
..|+||++..+ +-...+||+|.|-..||..|+.+. +..||+|+..+..-
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~-r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT-RTFCPVCKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc-CccCCCCCCcCCCC
Confidence 59999999776 444679999999999999999864 46799999977543
No 41
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.58 E-value=2.8e-05 Score=70.96 Aligned_cols=55 Identities=20% Similarity=0.417 Sum_probs=47.2
Q ss_pred ccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccccccC
Q 023268 222 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVI 277 (284)
Q Consensus 222 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~~ 277 (284)
..|.||.+.-++- .+-+|||..|-.|+..|..++++..||.||..+++-.+..++
T Consensus 370 eLCKICaendKdv-kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid 424 (563)
T KOG1785|consen 370 ELCKICAENDKDV-KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIID 424 (563)
T ss_pred HHHHHhhccCCCc-ccccccchHHHHHHHhhcccCCCCCCCceeeEeccccceeee
Confidence 5689999988877 567999999999999998776678999999999887776665
No 42
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=4.6e-05 Score=74.69 Aligned_cols=47 Identities=28% Similarity=0.600 Sum_probs=40.6
Q ss_pred CCcccccccCCCCCC-----CCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCc
Q 023268 219 EDVTTCPICQASPTT-----PFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 268 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~-----p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~ 268 (284)
..+..|+||.+.... | ..++|||.||-.|+..|++. ...||.||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~-~rL~C~Hifh~~CL~~W~er--~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITP-KRLPCGHIFHDSCLRSWFER--QQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhcccccccc-ceeecccchHHHHHHHHHHH--hCcCCcchhhh
Confidence 347899999998887 6 56899999999999999987 45999999844
No 43
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.50 E-value=4.9e-05 Score=71.42 Aligned_cols=57 Identities=25% Similarity=0.606 Sum_probs=48.0
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
.+++..|++|.....+|..++.|||.||..|+..+... ...||.|+.+....+....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~--~~~cp~~~~~~~~~~~~~~ 74 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN--HQKCPVCRQELTQAEELPV 74 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhcc--CcCCcccccccchhhccCc
Confidence 56779999999999999654699999999999999886 5799999888876655543
No 44
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=3.9e-05 Score=67.61 Aligned_cols=49 Identities=20% Similarity=0.439 Sum_probs=41.8
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
.-...|-||.+.+.+|+ .+.|||.||..|.....+. +..|++|++...+
T Consensus 239 ~~Pf~c~icr~~f~~pV-vt~c~h~fc~~ca~~~~qk--~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 239 LLPFKCFICRKYFYRPV-VTKCGHYFCEVCALKPYQK--GEKCYVCSQQTHG 287 (313)
T ss_pred cCCccccccccccccch-hhcCCceeehhhhcccccc--CCcceeccccccc
Confidence 34678999999999995 5799999999999988874 4699999988764
No 45
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=8.4e-05 Score=69.38 Aligned_cols=50 Identities=22% Similarity=0.663 Sum_probs=42.9
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
...+..|.+|....-.| ++++|||.||..|+...+. ....||.|+.++..
T Consensus 81 ~~sef~c~vc~~~l~~p-v~tpcghs~c~~Cl~r~ld--~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPP-VVTPCGHSFCLECLDRSLD--QETECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCCC-ccccccccccHHHHHHHhc--cCCCCccccccccc
Confidence 36789999999999999 4679999999999998665 35799999998875
No 46
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=0.00074 Score=58.91 Aligned_cols=132 Identities=17% Similarity=0.377 Sum_probs=75.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHhceeecCCCCCcccchhhhh--hhHHHH----HHHHHHHHHHhhh
Q 023268 123 ILIQRIEALYKAASFGNLLIFLYTGRYRNLIERALRARLVYGTPNMNRAVSFEYM--NRQLVW----NEFSEMLLLLLPL 196 (284)
Q Consensus 123 ~~~~~l~~~~~~~~l~~~~~Fl~~g~y~sl~~Rllglr~~~~~~~~~~~~~~~~l--nr~l~w----~~~~e~l~~~l~~ 196 (284)
-+|.++..++++..++-++-|+ -+.--++|+.+.+.-++.. ..+|..+ -=.+.. +.+.|+.
T Consensus 135 lVYkwFl~lyklSy~~g~vGyl------~im~~~~g~n~~F~~~~~~-~md~gi~~lfyglYyGvlgRdfa~ic------ 201 (328)
T KOG1734|consen 135 LVYKWFLFLYKLSYLLGVVGYL------AIMFAQFGLNFTFFYLKTT-YMDFGISFLFYGLYYGVLGRDFAEIC------ 201 (328)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH------HHHHHHhceeeEEeecchh-HhhhhHHHHHHHHHHHhhhhHHHHHH------
Confidence 3566666666666666665555 4566788999987644321 1111110 000000 0011111
Q ss_pred ccchhhhcccccCCCCCCCCCCCCcccccccCCCCC----------CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCc
Q 023268 197 LNSSTVKGLFGPFSKDKSSSSEEDVTTCPICQASPT----------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 266 (284)
Q Consensus 197 ~~~~~~~~~l~~~~~~~~~~~~~~~~~C~iC~~~~~----------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~ 266 (284)
.+++...++=++.+--+..-.++..|++|.+... |.+ .+.|+|+|--.||..|.--+.+..||-|.+
T Consensus 202 --sd~mAs~iGfYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty-~LsCnHvFHEfCIrGWcivGKkqtCPYCKe 278 (328)
T KOG1734|consen 202 --SDYMASTIGFYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTY-KLSCNHVFHEFCIRGWCIVGKKQTCPYCKE 278 (328)
T ss_pred --HHHHHHHhcccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhhe-eeecccchHHHhhhhheeecCCCCCchHHH
Confidence 1111112222222222223456789999976432 554 589999999999999998777889999998
Q ss_pred Cccc
Q 023268 267 PVIA 270 (284)
Q Consensus 267 ~~~~ 270 (284)
.+.-
T Consensus 279 kVdl 282 (328)
T KOG1734|consen 279 KVDL 282 (328)
T ss_pred HhhH
Confidence 8753
No 47
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.37 E-value=0.0002 Score=52.02 Aligned_cols=36 Identities=19% Similarity=0.525 Sum_probs=30.2
Q ss_pred CCeeccCcCcccHHHHHHHHhcC-CCCccCCCCcCcc
Q 023268 234 PFLALPCQHRYCYYCLRTRCAAS-PSFRCSRCNEPVI 269 (284)
Q Consensus 234 p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~C~~~~~ 269 (284)
|.+.-.|+|.|-..||.+|+.++ ....||.||++..
T Consensus 46 plv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 46 PLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred ceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 55566899999999999999864 4679999999865
No 48
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00016 Score=65.15 Aligned_cols=48 Identities=38% Similarity=0.856 Sum_probs=42.6
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.++..||||...+.++ +..||+|.-||.||..++.+ .+.|-.|+..+.
T Consensus 420 sEd~lCpICyA~pi~A-vf~PC~H~SC~~CI~qHlmN--~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINA-VFAPCSHRSCYGCITQHLMN--CKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchh-hccCCCCchHHHHHHHHHhc--CCeeeEecceee
Confidence 5678999999999999 67899999999999999985 568999988776
No 49
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.22 E-value=0.00015 Score=68.59 Aligned_cols=52 Identities=15% Similarity=0.602 Sum_probs=43.3
Q ss_pred CCCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhc---CCCCccCCCCcCcc
Q 023268 217 SEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAA---SPSFRCSRCNEPVI 269 (284)
Q Consensus 217 ~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~---~~~~~CP~C~~~~~ 269 (284)
.......|.+|.++..++. ...|.|.||..|+.+++.. +.+..||.|..+++
T Consensus 532 enk~~~~C~lc~d~aed~i-~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDYI-ESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred cccCceeecccCChhhhhH-hhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 3456789999999999994 5799999999999888763 34689999988775
No 50
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.18 E-value=0.00028 Score=63.99 Aligned_cols=55 Identities=25% Similarity=0.595 Sum_probs=43.5
Q ss_pred CCcccccccCCCCCCCCeeccCcCc-ccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
+...+|.||+...++- +.+||.|. .|..|.....-+ ...||+||+++..+=+..+
T Consensus 288 ~~gkeCVIClse~rdt-~vLPCRHLCLCs~Ca~~Lr~q--~n~CPICRqpi~~ll~i~~ 343 (349)
T KOG4265|consen 288 ESGKECVICLSESRDT-VVLPCRHLCLCSGCAKSLRYQ--TNNCPICRQPIEELLEIYV 343 (349)
T ss_pred cCCCeeEEEecCCcce-EEecchhhehhHhHHHHHHHh--hcCCCccccchHhhheecc
Confidence 4578999999999999 57899997 489998765432 4589999999987655544
No 51
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.84 E-value=0.0034 Score=59.19 Aligned_cols=52 Identities=21% Similarity=0.535 Sum_probs=39.8
Q ss_pred CCCcccccccCCCCC----------------CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 218 EEDVTTCPICQASPT----------------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~----------------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
.+....|+||+.... .-|..+||.|+|-..|+..|+.. -+-.||+||.++..
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~-ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT-YKLICPVCRCPLPP 635 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh-hcccCCccCCCCCC
Confidence 456789999987432 11355799999999999999963 23589999998864
No 52
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.63 E-value=0.0012 Score=43.79 Aligned_cols=47 Identities=26% Similarity=0.506 Sum_probs=36.4
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccc
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAM 271 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~ 271 (284)
....|-.|....+.. +.++|||.-|..|.... ....||.|+.++..-
T Consensus 6 ~~~~~~~~~~~~~~~-~~~pCgH~I~~~~f~~~----rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKG-TVLPCGHLICDNCFPGE----RYNGCPFCGTPFEFD 52 (55)
T ss_pred cceeEEEcccccccc-ccccccceeeccccChh----hccCCCCCCCcccCC
Confidence 345688888887777 56899999999997532 356899999988643
No 53
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.50 E-value=0.0015 Score=59.90 Aligned_cols=56 Identities=23% Similarity=0.542 Sum_probs=42.7
Q ss_pred CCcccccccCCCCCCCC-------eeccCcCcccHHHHHHHHhcCC-----CCccCCCCcCccccccc
Q 023268 219 EDVTTCPICQASPTTPF-------LALPCQHRYCYYCLRTRCAASP-----SFRCSRCNEPVIAMQRH 274 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~-------~~~~CgH~fC~~Ci~~~~~~~~-----~~~CP~C~~~~~~~~~~ 274 (284)
..+..|.||++...... ...+|.|.||-.||..|-.... ...||.||.+....-+.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS 226 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPS 226 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccc
Confidence 45789999999877652 1267999999999999985433 57999999887654443
No 54
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=96.50 E-value=0.00073 Score=60.02 Aligned_cols=50 Identities=24% Similarity=0.594 Sum_probs=38.9
Q ss_pred cccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccccc
Q 023268 221 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRH 274 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~ 274 (284)
...|.-|-..+..=-..++|.|+||++|... ++.+.||.|..++..++..
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~----~~dK~Cp~C~d~VqrIeq~ 139 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARS----DSDKICPLCDDRVQRIEQI 139 (389)
T ss_pred eEeecccCCcceeeecccccchhhhhhhhhc----CccccCcCcccHHHHHHHh
Confidence 5678889877665445689999999999764 2467999999998776554
No 55
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.41 E-value=0.0021 Score=58.47 Aligned_cols=47 Identities=21% Similarity=0.584 Sum_probs=37.2
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
......|.+|.+.+.+. +-.+|||+.| |..-... ...||+||+.+..
T Consensus 302 ~~~p~lcVVcl~e~~~~-~fvpcGh~cc--ct~cs~~---l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKSA-VFVPCGHVCC--CTLCSKH---LPQCPVCRQRIRL 348 (355)
T ss_pred cCCCCceEEecCCccce-eeecCCcEEE--chHHHhh---CCCCchhHHHHHH
Confidence 34567899999999997 7899999988 7765443 4579999988754
No 56
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.16 E-value=0.0042 Score=53.61 Aligned_cols=56 Identities=14% Similarity=0.225 Sum_probs=45.0
Q ss_pred CcccccccCCCCCCCC---eeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccccccC
Q 023268 220 DVTTCPICQASPTTPF---LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVI 277 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~~ 277 (284)
....||+|.+.++|.+ +..+|||++|+.|....+.. ...||+|+.+.+.-+-.++.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~--D~v~pv~d~plkdrdiI~Lq 278 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK--DMVDPVTDKPLKDRDIIGLQ 278 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc--cccccCCCCcCcccceEeee
Confidence 5688999999887642 34689999999999988874 56999999999876655554
No 57
>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=96.15 E-value=0.0028 Score=41.62 Aligned_cols=47 Identities=23% Similarity=0.635 Sum_probs=25.2
Q ss_pred cccccccCCCCCCCCeeccCcCcccHHH--HHHHHhcCCCCccCCCCcC
Q 023268 221 VTTCPICQASPTTPFLALPCQHRYCYYC--LRTRCAASPSFRCSRCNEP 267 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~fC~~C--i~~~~~~~~~~~CP~C~~~ 267 (284)
.+.||+.......|.....|.|.-|.+= ..+...+.+.+.||.|+++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 3689999999999998999999988754 2222333457999999874
No 58
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.03 E-value=0.0019 Score=64.51 Aligned_cols=52 Identities=21% Similarity=0.485 Sum_probs=43.6
Q ss_pred ccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccccc
Q 023268 222 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHG 275 (284)
Q Consensus 222 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~ 275 (284)
..|.+|.+ ...+ +.+.|||.||..|+...+...+...||.|+..+...+-++
T Consensus 455 ~~c~ic~~-~~~~-~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD-LDSF-FITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc-cccc-eeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 79999999 6666 6789999999999999998766668999999887655544
No 59
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.02 E-value=0.0073 Score=53.71 Aligned_cols=56 Identities=18% Similarity=0.324 Sum_probs=41.8
Q ss_pred CCCcccccccCCCCCC--C-CeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 218 EEDVTTCPICQASPTT--P-FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~--p-~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
......|||....+.. + +...+|||+|++.++.+.- ....||+|+.++..-|-+-+
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k---~~~~Cp~c~~~f~~~DiI~L 168 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK---KSKKCPVCGKPFTEEDIIPL 168 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc---ccccccccCCccccCCEEEe
Confidence 4667899999877642 2 2346999999999999863 24579999999986554433
No 60
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.93 E-value=0.0038 Score=57.62 Aligned_cols=50 Identities=30% Similarity=0.617 Sum_probs=41.0
Q ss_pred CcccccccCCCCCCC----CeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 220 DVTTCPICQASPTTP----FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
....||||.+..+.| .+.+.|||.|-..||+.|+.+.....||.|..+..
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 457899999977755 35689999999999999997555789999987664
No 61
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=95.89 E-value=0.0035 Score=57.51 Aligned_cols=66 Identities=24% Similarity=0.426 Sum_probs=49.9
Q ss_pred CCcccccccCCCCC---CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccc-ccccCCCCCCCC
Q 023268 219 EDVTTCPICQASPT---TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQ-RHGVINPKISSQ 284 (284)
Q Consensus 219 ~~~~~C~iC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~-~~~~~~~~~~~~ 284 (284)
+-...|..|.+..- .....+||.|+|--.|+.+.+.+.....||.||+-...+. +..+..|+.+++
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrSs~~rpgfvgs~~Vese 432 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRSSMKRPGFVGSVPVESE 432 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHhhccCCCCcCCCccccc
Confidence 44688999987432 2235689999999999999998777789999997766666 555557766653
No 62
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=95.72 E-value=0.0053 Score=57.29 Aligned_cols=48 Identities=23% Similarity=0.573 Sum_probs=38.1
Q ss_pred CCCcccccccCCCCCCC---CeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 218 EEDVTTCPICQASPTTP---FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
..+--+||+|++..... ..++.|.|.|=..|+..|. ...||+||...+
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~----~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW----DSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhcc----cCcChhhhhhcC
Confidence 45667999998865543 3678999999999999987 469999997554
No 63
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.71 E-value=0.0039 Score=53.90 Aligned_cols=44 Identities=25% Similarity=0.730 Sum_probs=33.0
Q ss_pred ccccccCC-CCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 222 TTCPICQA-SPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 222 ~~C~iC~~-~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
..|-.|.. ...+|.-.+.|+|+||-.|..... ...||.|++++.
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~----~~~C~lCkk~ir 48 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS----PDVCPLCKKSIR 48 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCC----ccccccccceee
Confidence 45777744 336787789999999999986533 239999999965
No 64
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=95.48 E-value=0.0081 Score=55.86 Aligned_cols=43 Identities=30% Similarity=0.748 Sum_probs=35.5
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccC
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCS 262 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP 262 (284)
+++.+|++|.....+| ++++|||..|.-|......+.+..+-|
T Consensus 2 eeelkc~vc~~f~~ep-iil~c~h~lc~~ca~~~~~~tp~~~sp 44 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREP-IILPCSHNLCQACARNILVQTPESESP 44 (699)
T ss_pred cccccCceehhhccCc-eEeecccHHHHHHHHhhcccCCCCCCc
Confidence 5789999999999999 679999999999999877654444444
No 65
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.22 E-value=0.01 Score=60.10 Aligned_cols=51 Identities=22% Similarity=0.518 Sum_probs=39.6
Q ss_pred CCcccccccCCCC-----CCCC-eeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 219 EDVTTCPICQASP-----TTPF-LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 219 ~~~~~C~iC~~~~-----~~p~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
..-..|+||.... +-|. +...|.|.|--.|+.+|.++..+.+||+||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 4568999996422 2221 2467999999999999999888899999997765
No 66
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=95.20 E-value=0.023 Score=37.03 Aligned_cols=42 Identities=26% Similarity=0.618 Sum_probs=33.1
Q ss_pred cccccCC--CCCCCCeeccCc-----CcccHHHHHHHHhcCCCCccCCCC
Q 023268 223 TCPICQA--SPTTPFLALPCQ-----HRYCYYCLRTRCAASPSFRCSRCN 265 (284)
Q Consensus 223 ~C~iC~~--~~~~p~~~~~Cg-----H~fC~~Ci~~~~~~~~~~~CP~C~ 265 (284)
.|.||.+ ...+|. ..||. |.+=..|+..|+.......||+|+
T Consensus 1 ~CrIC~~~~~~~~~l-~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPL-VSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCee-EeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4889986 566774 56885 668899999999876667999995
No 67
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.08 E-value=0.0041 Score=61.63 Aligned_cols=55 Identities=15% Similarity=0.253 Sum_probs=37.9
Q ss_pred CcccccccCCCCCCCC--eeccCcCcccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 220 DVTTCPICQASPTTPF--LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~--~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
....||+|.....+-. .-..|+|.||-.|+..|... ...||+|+..+..++...-
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~--aqTCPiDR~EF~~v~V~eS 178 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC--AQTCPVDRGEFGEVKVLES 178 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh--cccCchhhhhhheeeeecc
Confidence 3467888864322110 12579999999999999875 4589999998877665443
No 68
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.02 E-value=0.0034 Score=55.49 Aligned_cols=45 Identities=24% Similarity=0.608 Sum_probs=35.9
Q ss_pred cccccccCCCCCCCCeeccCcC-cccHHHHHHHHhcCCCCccCCCCcCccccc
Q 023268 221 VTTCPICQASPTTPFLALPCQH-RYCYYCLRTRCAASPSFRCSRCNEPVIAMQ 272 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~ 272 (284)
...|.||++.+.+- +.++||| +-|+.|-.. -..||+||+.+....
T Consensus 300 ~~LC~ICmDaP~DC-vfLeCGHmVtCt~CGkr------m~eCPICRqyi~rvv 345 (350)
T KOG4275|consen 300 RRLCAICMDAPRDC-VFLECGHMVTCTKCGKR------MNECPICRQYIVRVV 345 (350)
T ss_pred HHHHHHHhcCCcce-EEeecCcEEeehhhccc------cccCchHHHHHHHHH
Confidence 67899999999998 6899999 468888542 238999999876543
No 69
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.87 E-value=0.028 Score=36.36 Aligned_cols=41 Identities=29% Similarity=0.829 Sum_probs=20.9
Q ss_pred ccccCCCCC------CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCc
Q 023268 224 CPICQASPT------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 268 (284)
Q Consensus 224 C~iC~~~~~------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~ 268 (284)
||+|.+... .| =+||+..|..|....... +...||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~P---C~Cgf~IC~~C~~~i~~~-~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYP---CECGFQICRFCYHDILEN-EGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--S---STTS----HHHHHHHTTS-S-SB-TTT--B-
T ss_pred CCCcccccccCCCcccc---CcCCCcHHHHHHHHHHhc-cCCCCCCCCCCC
Confidence 788876542 34 279999999999877653 467999999864
No 70
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.40 E-value=0.026 Score=50.99 Aligned_cols=46 Identities=24% Similarity=0.652 Sum_probs=33.9
Q ss_pred CcccccccCCCCC------CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 220 DVTTCPICQASPT------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 220 ~~~~C~iC~~~~~------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
++..||+|.+... .| -+||+..|..|.... +++-+.+||-||+...
T Consensus 13 eed~cplcie~mditdknf~p---c~cgy~ic~fc~~~i-rq~lngrcpacrr~y~ 64 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFP---CPCGYQICQFCYNNI-RQNLNGRCPACRRKYD 64 (480)
T ss_pred ccccCcccccccccccCCccc---CCcccHHHHHHHHHH-HhhccCCChHhhhhcc
Confidence 3445999998654 34 379999999998654 3335679999998764
No 71
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=94.18 E-value=0.015 Score=40.93 Aligned_cols=50 Identities=20% Similarity=0.460 Sum_probs=23.9
Q ss_pred cccccccCCCCC----CCCee---ccCcCcccHHHHHHHHhcC--C-------CCccCCCCcCccc
Q 023268 221 VTTCPICQASPT----TPFLA---LPCQHRYCYYCLRTRCAAS--P-------SFRCSRCNEPVIA 270 (284)
Q Consensus 221 ~~~C~iC~~~~~----~p~~~---~~CgH~fC~~Ci~~~~~~~--~-------~~~CP~C~~~~~~ 270 (284)
+..|+||.+... .|.+. ..|+..|=..|+.+|+... . ...||.|+++++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 467999987543 23111 2688888899999998741 1 2469999998863
No 72
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.18 E-value=0.033 Score=50.52 Aligned_cols=53 Identities=26% Similarity=0.529 Sum_probs=40.3
Q ss_pred CCCCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 216 SSEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 216 ~~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
+..++...|.||.+..+-. ..+||+|..|-.|....-.--..+.||.|+..-.
T Consensus 56 dtDEen~~C~ICA~~~TYs-~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 56 DTDEENMNCQICAGSTTYS-ARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccceeEEecCCceEE-EeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 4567889999999988877 4589999999999875322113579999997653
No 73
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.86 E-value=0.035 Score=51.10 Aligned_cols=45 Identities=24% Similarity=0.492 Sum_probs=33.2
Q ss_pred cccccccCCCCCC---CCeeccCcCcccHHHHHHHHhcCCC-CccCCCC
Q 023268 221 VTTCPICQASPTT---PFLALPCQHRYCYYCLRTRCAASPS-FRCSRCN 265 (284)
Q Consensus 221 ~~~C~iC~~~~~~---p~~~~~CgH~fC~~Ci~~~~~~~~~-~~CP~C~ 265 (284)
...|.||.+...+ -..+-.|||+|--.|+..|+...+. -.||.|+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 3579999654332 1112359999999999999987665 4899998
No 74
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.03 E-value=0.099 Score=41.12 Aligned_cols=50 Identities=18% Similarity=0.408 Sum_probs=39.8
Q ss_pred CcccccccCCCCC-----CCCeeccCcCcccHHHHHHHHhc-CCCCccCCCCcCcccc
Q 023268 220 DVTTCPICQASPT-----TPFLALPCQHRYCYYCLRTRCAA-SPSFRCSRCNEPVIAM 271 (284)
Q Consensus 220 ~~~~C~iC~~~~~-----~p~~~~~CgH~fC~~Ci~~~~~~-~~~~~CP~C~~~~~~~ 271 (284)
.-.+|-||.+... .| - -+||...|.-|-...|+. ...+.||+|+..+.+.
T Consensus 79 ~lYeCnIC~etS~ee~FLKP-n-eCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKP-N-ECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCc-c-cccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 4578999998655 56 2 589999999999998874 3468999999988754
No 75
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.38 E-value=0.097 Score=47.26 Aligned_cols=45 Identities=27% Similarity=0.641 Sum_probs=35.6
Q ss_pred ccccccCCCC------CCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCc
Q 023268 222 TTCPICQASP------TTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 268 (284)
Q Consensus 222 ~~C~iC~~~~------~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~ 268 (284)
..|-||.+.. ..| ..+.|||.+|..|+...... ....||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p-~~l~c~h~~c~~c~~~l~~~-~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIP-RVLKCGHTICQNCASKLLGN-SRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCC-cccccCceehHhHHHHHhcC-ceeeccCCCCcc
Confidence 4688887643 367 46789999999999987765 457889999985
No 76
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.96 E-value=0.085 Score=53.15 Aligned_cols=43 Identities=28% Similarity=0.768 Sum_probs=37.6
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcC
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEP 267 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~ 267 (284)
...+|..|......|.|...|||.|-..|+. +....||.|...
T Consensus 839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e-----~~~~~CP~C~~e 881 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE-----DKEDKCPKCLPE 881 (933)
T ss_pred eeeeecccCCccccceeeeecccHHHHHhhc-----cCcccCCccchh
Confidence 4579999999999999999999999999997 245799999873
No 77
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=91.43 E-value=0.061 Score=38.03 Aligned_cols=36 Identities=17% Similarity=0.381 Sum_probs=28.3
Q ss_pred CCeeccCcCcccHHHHHHHHhcC-CCCccCCCCcCcc
Q 023268 234 PFLALPCQHRYCYYCLRTRCAAS-PSFRCSRCNEPVI 269 (284)
Q Consensus 234 p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~C~~~~~ 269 (284)
|.+.--|.|.|=-.||.+|+... ....||.||+..+
T Consensus 45 PLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 45 PLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred ccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 54445789999999999998753 3468999998765
No 78
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=91.38 E-value=0.15 Score=45.25 Aligned_cols=46 Identities=24% Similarity=0.600 Sum_probs=33.5
Q ss_pred cccccCC-CCCCCC---eeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 223 TCPICQA-SPTTPF---LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 223 ~C~iC~~-~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.||.|.. ...+|- ...+|||..|-.|+......+ ...||.|...+-
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g-~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLG-PAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcC-CCCCCcccchhh
Confidence 5899964 233441 234999999999998877764 479999987654
No 79
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.14 E-value=0.18 Score=43.75 Aligned_cols=37 Identities=11% Similarity=0.089 Sum_probs=31.8
Q ss_pred CCCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHh
Q 023268 217 SEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCA 254 (284)
Q Consensus 217 ~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~ 254 (284)
...+-..|++|+++..+| +..+=||+||..||.+++.
T Consensus 39 siK~FdcCsLtLqPc~dP-vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRDP-VITPDGYLFDREAILEYIL 75 (303)
T ss_pred ccCCcceeeeecccccCC-ccCCCCeeeeHHHHHHHHH
Confidence 345667899999999999 5689999999999998875
No 80
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.80 E-value=0.17 Score=45.79 Aligned_cols=48 Identities=27% Similarity=0.732 Sum_probs=39.1
Q ss_pred CCCcccccccCCCCCCCCeeccC--cCcccHHHHHHHHhcCCCCccCCCCcCccccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPC--QHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQ 272 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~C--gH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~ 272 (284)
..+-..||+|.+....|. ..| ||.-|..|-.+. ...||.|+.++..++
T Consensus 45 ~~~lleCPvC~~~l~~Pi--~QC~nGHlaCssC~~~~-----~~~CP~Cr~~~g~~R 94 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPI--FQCDNGHLACSSCRTKV-----SNKCPTCRLPIGNIR 94 (299)
T ss_pred chhhccCchhhccCcccc--eecCCCcEehhhhhhhh-----cccCCccccccccHH
Confidence 356789999999999993 577 899999997632 458999999998654
No 81
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.34 E-value=0.16 Score=47.18 Aligned_cols=35 Identities=31% Similarity=0.730 Sum_probs=27.2
Q ss_pred CcccccccCCCC--CCCCeeccCcCcccHHHHHHHHh
Q 023268 220 DVTTCPICQASP--TTPFLALPCQHRYCYYCLRTRCA 254 (284)
Q Consensus 220 ~~~~C~iC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~ 254 (284)
....|.||.+.. +.-..-++|+|+||..|..++..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHH
Confidence 347899997643 34445689999999999999875
No 82
>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=90.13 E-value=0.29 Score=39.80 Aligned_cols=20 Identities=40% Similarity=0.959 Sum_probs=15.7
Q ss_pred CcccccccCCCCCCCCeeccC
Q 023268 220 DVTTCPICQASPTTPFLALPC 240 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~C 240 (284)
++..||||++.+.|+ |.+-|
T Consensus 1 ed~~CpICme~PHNA-VLLlC 20 (162)
T PF07800_consen 1 EDVTCPICMEHPHNA-VLLLC 20 (162)
T ss_pred CCccCceeccCCCce-EEEEe
Confidence 357899999999998 45554
No 83
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=89.42 E-value=0.36 Score=34.52 Aligned_cols=34 Identities=15% Similarity=0.272 Sum_probs=27.9
Q ss_pred CCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 234 PFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 234 p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
|.+--.|.|.|=-.||..|+.. ...||+++++..
T Consensus 48 ~v~wG~CnHaFH~HCI~rWL~T--k~~CPld~q~w~ 81 (88)
T COG5194 48 PVVWGVCNHAFHDHCIYRWLDT--KGVCPLDRQTWV 81 (88)
T ss_pred eEEEEecchHHHHHHHHHHHhh--CCCCCCCCceeE
Confidence 3334569999999999999986 569999998876
No 84
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.87 E-value=2.7 Score=39.21 Aligned_cols=51 Identities=24% Similarity=0.490 Sum_probs=35.7
Q ss_pred CCcccccccCCCC--CCCCeeccCcCcccHHHHHHHHhcCC-CCccCCCCcCcc
Q 023268 219 EDVTTCPICQASP--TTPFLALPCQHRYCYYCLRTRCAASP-SFRCSRCNEPVI 269 (284)
Q Consensus 219 ~~~~~C~iC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~-~~~CP~C~~~~~ 269 (284)
...+.|||=.+-- .||=..+.|||+-|..-+.....++. .+.||-|.....
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~ 385 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQL 385 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccC
Confidence 4568999854322 24336789999999999987655431 389999976543
No 85
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.59 E-value=0.38 Score=41.27 Aligned_cols=49 Identities=22% Similarity=0.653 Sum_probs=37.7
Q ss_pred CcccccccCCCCC--CCCeeccCcCcccHHHHHHHHhcC------CCCccCCCCcCcc
Q 023268 220 DVTTCPICQASPT--TPFLALPCQHRYCYYCLRTRCAAS------PSFRCSRCNEPVI 269 (284)
Q Consensus 220 ~~~~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~------~~~~CP~C~~~~~ 269 (284)
..-.|.+|.-... +. +.+.|-|+|-|.|+.++..+- .+..||.|..++-
T Consensus 49 Y~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 3457999976554 33 558999999999999987642 3679999998774
No 86
>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=88.39 E-value=0.22 Score=37.53 Aligned_cols=33 Identities=27% Similarity=0.776 Sum_probs=26.1
Q ss_pred CCCcccccccCCCCC-CCCeeccCcCcccHHHHH
Q 023268 218 EEDVTTCPICQASPT-TPFLALPCQHRYCYYCLR 250 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~-~p~~~~~CgH~fC~~Ci~ 250 (284)
..++..|++|.+.+. .+.+..||||++.+.|+.
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 355778999988776 455568999999999974
No 87
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=87.87 E-value=0.83 Score=37.19 Aligned_cols=51 Identities=22% Similarity=0.322 Sum_probs=36.5
Q ss_pred CCCCcccccccCCCCCCCCeeccCcCcc-----cHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 217 SEEDVTTCPICQASPTTPFLALPCQHRY-----CYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 217 ~~~~~~~C~iC~~~~~~p~~~~~CgH~f-----C~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
....+..|-||.+... +. ..||...- =..|+..|+..++...|+.|+.+..
T Consensus 4 ~s~~~~~CRIC~~~~~-~~-~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 4 VSLMDKCCWICKDEYD-VV-TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred cCCCCCeeEecCCCCC-Cc-cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 3456778999987653 21 23453322 3799999999877889999999885
No 88
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.77 E-value=0.45 Score=48.43 Aligned_cols=37 Identities=27% Similarity=0.598 Sum_probs=31.2
Q ss_pred CCCcccccccCCCC-CCCCeeccCcCcccHHHHHHHHh
Q 023268 218 EEDVTTCPICQASP-TTPFLALPCQHRYCYYCLRTRCA 254 (284)
Q Consensus 218 ~~~~~~C~iC~~~~-~~p~~~~~CgH~fC~~Ci~~~~~ 254 (284)
.++...|.+|..++ ..|....+|||-|-+.|+.....
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 46788999997654 57888899999999999998765
No 89
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=85.14 E-value=0.6 Score=35.07 Aligned_cols=29 Identities=17% Similarity=0.457 Sum_probs=24.8
Q ss_pred cCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 239 PCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 239 ~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.|.|.|=..||..|+++ +..||+|.++-.
T Consensus 80 ~CNHaFH~hCisrWlkt--r~vCPLdn~eW~ 108 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKT--RNVCPLDNKEWV 108 (114)
T ss_pred ecchHHHHHHHHHHHhh--cCcCCCcCccee
Confidence 59999999999999986 569999987543
No 90
>PHA03096 p28-like protein; Provisional
Probab=85.12 E-value=0.5 Score=42.53 Aligned_cols=46 Identities=17% Similarity=0.351 Sum_probs=30.8
Q ss_pred ccccccCCCCC--------CCCeeccCcCcccHHHHHHHHhcC-C---CCccCCCCcCc
Q 023268 222 TTCPICQASPT--------TPFLALPCQHRYCYYCLRTRCAAS-P---SFRCSRCNEPV 268 (284)
Q Consensus 222 ~~C~iC~~~~~--------~p~~~~~CgH~fC~~Ci~~~~~~~-~---~~~CP~C~~~~ 268 (284)
-.|.||++... .- ....|.|.||-.|+..|.... . ...||.|+..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fg-il~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYG-ILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhcccccccc-ccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 47999987433 22 346899999999999987642 1 23455555443
No 91
>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=84.79 E-value=0.073 Score=37.22 Aligned_cols=46 Identities=26% Similarity=0.548 Sum_probs=27.6
Q ss_pred ccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccccc
Q 023268 222 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHG 275 (284)
Q Consensus 222 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~ 275 (284)
..||.|...+. + .=|+.+|..|-..+.. ...||.|++++..++-=|
T Consensus 2 ~~CP~C~~~L~-~----~~~~~~C~~C~~~~~~---~a~CPdC~~~Le~LkACG 47 (70)
T PF07191_consen 2 NTCPKCQQELE-W----QGGHYHCEACQKDYKK---EAFCPDCGQPLEVLKACG 47 (70)
T ss_dssp -B-SSS-SBEE-E----ETTEEEETTT--EEEE---EEE-TTT-SB-EEEEETT
T ss_pred CcCCCCCCccE-E----eCCEEECcccccccee---cccCCCcccHHHHHHHhc
Confidence 57999997633 2 2289999999886654 468999999998776555
No 92
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.78 E-value=0.56 Score=41.63 Aligned_cols=50 Identities=18% Similarity=0.538 Sum_probs=37.1
Q ss_pred CCcccccccCCCCCCCCeeccC----cCcccHHHHHHHHhcC---------CCCccCCCCcCcc
Q 023268 219 EDVTTCPICQASPTTPFLALPC----QHRYCYYCLRTRCAAS---------PSFRCSRCNEPVI 269 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~C----gH~fC~~Ci~~~~~~~---------~~~~CP~C~~~~~ 269 (284)
...+.|.+|++.+.+.+ -..| .|.||..|-.+.++.. ..-.||+-+..+.
T Consensus 266 ~apLcCTLC~ERLEDTH-FVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~vP 328 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTH-FVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNVP 328 (352)
T ss_pred CCceeehhhhhhhccCc-eeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCccc
Confidence 45689999999888774 3456 7999999999988752 1346777766554
No 93
>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=84.56 E-value=0.34 Score=41.92 Aligned_cols=49 Identities=24% Similarity=0.745 Sum_probs=35.1
Q ss_pred CCcccccccCCCC-CCC----CeeccCcCcccHHHHHHHHhcCCCCccC--CCCcCc
Q 023268 219 EDVTTCPICQASP-TTP----FLALPCQHRYCYYCLRTRCAASPSFRCS--RCNEPV 268 (284)
Q Consensus 219 ~~~~~C~iC~~~~-~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP--~C~~~~ 268 (284)
..+..||+|.... -+| ++...|-|..|-+|+...++.++ ..|| -|++-+
T Consensus 8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~Gp-AqCP~~gC~kIL 63 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGP-AQCPYKGCGKIL 63 (314)
T ss_pred hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCC-CCCCCccHHHHH
Confidence 3467999997532 344 12235999999999999888754 6898 887644
No 94
>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=83.68 E-value=0.9 Score=29.81 Aligned_cols=29 Identities=17% Similarity=0.612 Sum_probs=15.5
Q ss_pred CeeccCcCcccHHHHHHHHhcCCCCccCCCC
Q 023268 235 FLALPCQHRYCYYCLRTRCAASPSFRCSRCN 265 (284)
Q Consensus 235 ~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~ 265 (284)
+.-..|++.||.+|=. ...+.-..||-|.
T Consensus 22 y~C~~C~~~FC~dCD~--fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDV--FIHETLHNCPGCE 50 (51)
T ss_dssp E--TTTT--B-HHHHH--TTTTTS-SSSTT-
T ss_pred EECCCCCCccccCcCh--hhhccccCCcCCC
Confidence 5567899999999943 2223457899884
No 95
>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=83.40 E-value=1.5 Score=33.32 Aligned_cols=27 Identities=30% Similarity=0.926 Sum_probs=21.2
Q ss_pred cCcccHHHHHHHHhc-------CCCCccCCCCcC
Q 023268 241 QHRYCYYCLRTRCAA-------SPSFRCSRCNEP 267 (284)
Q Consensus 241 gH~fC~~Ci~~~~~~-------~~~~~CP~C~~~ 267 (284)
.-.||+.|+..+..+ ++.+.||.|+.-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 778999998876542 457999999873
No 96
>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=83.13 E-value=1.3 Score=27.92 Aligned_cols=41 Identities=20% Similarity=0.468 Sum_probs=21.7
Q ss_pred ccccCCCCCCCCeec--cCcCcccHHHHHHHHhcCCCCccCCC
Q 023268 224 CPICQASPTTPFLAL--PCQHRYCYYCLRTRCAASPSFRCSRC 264 (284)
Q Consensus 224 C~iC~~~~~~p~~~~--~CgH~fC~~Ci~~~~~~~~~~~CP~C 264 (284)
|.+|.+..+.-..-. .|+-.+=..|+..+++......||.|
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 567777666542222 47777888999999986555579987
No 97
>PRK04023 DNA polymerase II large subunit; Validated
Probab=83.09 E-value=0.72 Score=47.78 Aligned_cols=54 Identities=17% Similarity=0.344 Sum_probs=36.8
Q ss_pred CCCcccccccCCCCCCCCeeccCcC-----cccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQH-----RYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH-----~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
......|+-|....... ....||. .||..|-.. .....||.|+.....-....+
T Consensus 623 EVg~RfCpsCG~~t~~f-rCP~CG~~Te~i~fCP~CG~~----~~~y~CPKCG~El~~~s~~~i 681 (1121)
T PRK04023 623 EIGRRKCPSCGKETFYR-RCPFCGTHTEPVYRCPRCGIE----VEEDECEKCGREPTPYSKRKI 681 (1121)
T ss_pred cccCccCCCCCCcCCcc-cCCCCCCCCCcceeCccccCc----CCCCcCCCCCCCCCccceEEe
Confidence 34568999998765433 4567985 599999332 124579999998876555443
No 98
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=82.29 E-value=0.32 Score=48.38 Aligned_cols=47 Identities=26% Similarity=0.712 Sum_probs=39.0
Q ss_pred cccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCC-CCccCCCCcCc
Q 023268 221 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASP-SFRCSRCNEPV 268 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~-~~~CP~C~~~~ 268 (284)
...|+||......| +.+.|-|.||..|+...+.... ...||+|+..+
T Consensus 21 ~lEc~ic~~~~~~p-~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 21 ILECPICLEHVKEP-SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hccCCceeEEeecc-chhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 56899999999999 6789999999999987665432 67899998554
No 99
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.09 E-value=0.47 Score=46.63 Aligned_cols=38 Identities=26% Similarity=0.602 Sum_probs=28.6
Q ss_pred CcccccccCCCC----CCCCeeccCcCcccHHHHHHHHhcCCCCccC
Q 023268 220 DVTTCPICQASP----TTPFLALPCQHRYCYYCLRTRCAASPSFRCS 262 (284)
Q Consensus 220 ~~~~C~iC~~~~----~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP 262 (284)
+-..|+||...+ ..| +.+.|||+.|..|+..-- +..||
T Consensus 10 ~~l~c~ic~n~f~~~~~~P-vsl~cghtic~~c~~~ly----n~scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEP-VSLQCGHTICGHCVQLLY----NASCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCc-ccccccchHHHHHHHhHh----hccCC
Confidence 346799995533 368 679999999999998654 45788
No 100
>PHA02862 5L protein; Provisional
Probab=81.64 E-value=1.6 Score=35.00 Aligned_cols=46 Identities=17% Similarity=0.274 Sum_probs=32.8
Q ss_pred ccccccCCCCCCCCeeccCcC-----cccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 222 TTCPICQASPTTPFLALPCQH-----RYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 222 ~~C~iC~~~~~~p~~~~~CgH-----~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
..|-||.+.-... ..||.. .--..|+..|+....+..|+.|+.+..
T Consensus 3 diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 5789998764433 235542 223689999998777889999998874
No 101
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=81.53 E-value=1 Score=39.53 Aligned_cols=48 Identities=17% Similarity=0.236 Sum_probs=40.5
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcC
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEP 267 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~ 267 (284)
-+.+||+-..+..+|.+...|||+|=.+-|...........||+=+.+
T Consensus 175 fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 175 FSNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred hcccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 468999999999999999999999999999988765446788886655
No 102
>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=81.25 E-value=1.2 Score=28.61 Aligned_cols=45 Identities=24% Similarity=0.476 Sum_probs=24.9
Q ss_pred ccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 222 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 222 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
..|.-|.-..++= ...-.|-.|-.|+...+.. ...||+|+++++.
T Consensus 3 ~nCKsCWf~~k~L--i~C~dHYLCl~CLt~ml~~--s~~C~iC~~~LPt 47 (50)
T PF03854_consen 3 YNCKSCWFANKGL--IKCSDHYLCLNCLTLMLSR--SDRCPICGKPLPT 47 (50)
T ss_dssp ----SS-S--SSE--EE-SS-EEEHHHHHHT-SS--SSEETTTTEE---
T ss_pred ccChhhhhcCCCe--eeecchhHHHHHHHHHhcc--ccCCCcccCcCcc
Confidence 4577787655554 3356888999999887764 4699999998863
No 103
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.38 E-value=1.1 Score=42.11 Aligned_cols=43 Identities=28% Similarity=0.712 Sum_probs=29.7
Q ss_pred CcccccccC-CCCCC---CCeeccCcCcccHHHHHHHHhc----CCCCccCC
Q 023268 220 DVTTCPICQ-ASPTT---PFLALPCQHRYCYYCLRTRCAA----SPSFRCSR 263 (284)
Q Consensus 220 ~~~~C~iC~-~~~~~---p~~~~~CgH~fC~~Ci~~~~~~----~~~~~CP~ 263 (284)
....|.||. +.+.. -. ...|+|.||..|...++.. +....||.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~ 195 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH 195 (384)
T ss_pred ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence 467899998 44332 22 3679999999999998873 23455643
No 104
>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=78.68 E-value=0.31 Score=44.03 Aligned_cols=49 Identities=18% Similarity=0.355 Sum_probs=24.7
Q ss_pred CCcccccccCCCCCCCCeec----cCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 219 EDVTTCPICQASPTTPFLAL----PCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~----~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.....||+|...+....+.- .-.|.+|..|-.+|-- ....||.|+..-.
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~--~R~~Cp~Cg~~~~ 222 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRF--VRIKCPYCGNTDH 222 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE----TTS-TTT---SS
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeee--cCCCCcCCCCCCC
Confidence 34579999999877553322 1357899999998865 3578999998643
No 105
>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=78.47 E-value=2.8 Score=38.97 Aligned_cols=33 Identities=18% Similarity=0.596 Sum_probs=23.9
Q ss_pred CcCcccHHHHHHHHhcC-----------CCCccCCCCcCccccc
Q 023268 240 CQHRYCYYCLRTRCAAS-----------PSFRCSRCNEPVIAMQ 272 (284)
Q Consensus 240 CgH~fC~~Ci~~~~~~~-----------~~~~CP~C~~~~~~~~ 272 (284)
|...-|-.|+..|+.+. ++..||.||+++.-.|
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 33444679999998641 3678999999987554
No 106
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.50 E-value=0.86 Score=35.93 Aligned_cols=47 Identities=32% Similarity=0.684 Sum_probs=30.2
Q ss_pred CCCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhc----------CCCCccCCCCcCc
Q 023268 217 SEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAA----------SPSFRCSRCNEPV 268 (284)
Q Consensus 217 ~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~----------~~~~~CP~C~~~~ 268 (284)
...++..|.||+..-- ...||| -|.+|-...... +-.+.|-.|+...
T Consensus 61 Gv~ddatC~IC~KTKF----ADG~GH-~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKF----ADGCGH-NCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred ccCcCcchhhhhhccc----ccccCc-ccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 3567889999997432 468999 577776654432 1135677776554
No 107
>PF15616 TerY-C: TerY-C metal binding domain
Probab=77.11 E-value=1.2 Score=35.22 Aligned_cols=43 Identities=16% Similarity=0.435 Sum_probs=32.4
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
+...-.||.|.....-. +. .||.++|+. ..+...||-|++...
T Consensus 74 L~g~PgCP~CGn~~~fa-~C-~CGkl~Ci~-------g~~~~~CPwCg~~g~ 116 (131)
T PF15616_consen 74 LIGAPGCPHCGNQYAFA-VC-GCGKLFCID-------GEGEVTCPWCGNEGS 116 (131)
T ss_pred hcCCCCCCCCcChhcEE-Ee-cCCCEEEeC-------CCCCEECCCCCCeee
Confidence 44568899999876665 44 899999972 224679999998764
No 108
>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=76.73 E-value=1.5 Score=28.95 Aligned_cols=41 Identities=22% Similarity=0.446 Sum_probs=26.1
Q ss_pred cccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 221 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
...||.|.+..... . ++.-|............||+|...+.
T Consensus 2 ~f~CP~C~~~~~~~--~------L~~H~~~~H~~~~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 2 SFTCPYCGKGFSES--S------LVEHCEDEHRSESKNVVCPICSSRVT 42 (54)
T ss_pred CcCCCCCCCccCHH--H------HHHHHHhHCcCCCCCccCCCchhhhh
Confidence 57899998843322 1 44556665555444678999987543
No 109
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.14 E-value=1.4 Score=39.26 Aligned_cols=45 Identities=24% Similarity=0.396 Sum_probs=32.8
Q ss_pred cCcCcccHHHHHHHHhc-----------CCCCccCCCCcCcccccccccCCCCCCC
Q 023268 239 PCQHRYCYYCLRTRCAA-----------SPSFRCSRCNEPVIAMQRHGVINPKISS 283 (284)
Q Consensus 239 ~CgH~fC~~Ci~~~~~~-----------~~~~~CP~C~~~~~~~~~~~~~~~~~~~ 283 (284)
-|...-|..|+..|... .++..||.||+.+.-.|-+-++..-+|.
T Consensus 324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v~~~~~se 379 (381)
T KOG3899|consen 324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCVDFDYISE 379 (381)
T ss_pred ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEEEeeeecc
Confidence 35666778999988752 2467899999999877777766554553
No 110
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=75.91 E-value=0.61 Score=49.33 Aligned_cols=44 Identities=27% Similarity=0.424 Sum_probs=36.0
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCC
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCN 265 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~ 265 (284)
+...|++|.+...+--....|||-+|..|...|... .-.||.|.
T Consensus 1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~--~s~~~~~k 1195 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYA--SSRCPICK 1195 (1394)
T ss_pred cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHH--hccCcchh
Confidence 345899999988744356799999999999999875 45899997
No 111
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=75.63 E-value=4 Score=29.13 Aligned_cols=51 Identities=18% Similarity=0.413 Sum_probs=21.1
Q ss_pred CCcccccccCCCCC-----CCCe-eccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 219 EDVTTCPICQASPT-----TPFL-ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 219 ~~~~~C~iC~~~~~-----~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
...-.|.||.+..- ++.+ ...|+.-.|..|..--.+ +.+..||.|+.+...
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErk-eg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERK-EGNQVCPQCKTRYKR 63 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHH-TS-SB-TTT--B---
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhh-cCcccccccCCCccc
Confidence 34568999987432 2322 368999999999875444 457899999977653
No 112
>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=74.55 E-value=1.8 Score=31.94 Aligned_cols=38 Identities=21% Similarity=0.620 Sum_probs=28.2
Q ss_pred cccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 221 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
...|.+|...... =||.||..|... ...|.+|+..+..
T Consensus 44 ~~~C~~CK~~v~q------~g~~YCq~CAYk------kGiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKVHQ------PGAKYCQTCAYK------KGICAMCGKKILD 81 (90)
T ss_pred Ccccccccccccc------CCCccChhhhcc------cCcccccCCeecc
Confidence 5689999864333 277899999652 4699999998853
No 113
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=73.87 E-value=2.4 Score=44.54 Aligned_cols=49 Identities=20% Similarity=0.467 Sum_probs=37.1
Q ss_pred CcccccccCCCCC-----CCC-eeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 220 DVTTCPICQASPT-----TPF-LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 220 ~~~~C~iC~~~~~-----~p~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
....|.||.+..- +|. +.-.||.--|..|. ++=..+++..||.|+.+..
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCchh
Confidence 4558999998632 232 34689999999998 4555567889999999886
No 114
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=73.83 E-value=1.2 Score=40.54 Aligned_cols=54 Identities=17% Similarity=0.471 Sum_probs=36.6
Q ss_pred CcccccccCCCCCCCCee----ccCcCcccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 220 DVTTCPICQASPTTPFLA----LPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~----~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
....||+|...+...++. -.=.|.+|..|-.+|--. ...||.|+.. ..+.-+++
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~--R~~C~~Cg~~-~~l~y~~~ 243 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVV--RVKCSNCEQS-GKLHYWSL 243 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccccc--CccCCCCCCC-Cceeeeee
Confidence 568999999887644221 233567899998888753 6799999973 33444444
No 115
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.49 E-value=2.4 Score=40.72 Aligned_cols=37 Identities=24% Similarity=0.539 Sum_probs=30.5
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAA 255 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~ 255 (284)
.....|.||.+..........|||.||..|+..++..
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhh
Confidence 4568899998877653367899999999999998875
No 116
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=73.33 E-value=1.5 Score=47.16 Aligned_cols=52 Identities=21% Similarity=0.501 Sum_probs=39.0
Q ss_pred CCcccccccCC--CCCCCCeeccCcCcccHHHHHHHHhcC--------CCCccCCCCcCccc
Q 023268 219 EDVTTCPICQA--SPTTPFLALPCQHRYCYYCLRTRCAAS--------PSFRCSRCNEPVIA 270 (284)
Q Consensus 219 ~~~~~C~iC~~--~~~~p~~~~~CgH~fC~~Ci~~~~~~~--------~~~~CP~C~~~~~~ 270 (284)
..+..|.||.- ....|...+.|+|.|-..|....+.+. .-..||+|..++..
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 45678999943 345787889999999999988766531 13579999988854
No 117
>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=73.31 E-value=1.1 Score=40.73 Aligned_cols=54 Identities=20% Similarity=0.482 Sum_probs=36.9
Q ss_pred CcccccccCCCCCCCCeec-----cCcCcccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 220 DVTTCPICQASPTTPFLAL-----PCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~-----~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
....||+|...+...++.. .=.+.+|..|-.+|-.. ...||.|+.. ..+.-+++
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~--R~~C~~Cg~~-~~l~y~~~ 241 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV--RVKCSHCEES-KHLAYLSL 241 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc--CccCCCCCCC-CceeeEee
Confidence 4568999999876542211 22378899999888763 6799999985 33544444
No 118
>PLN02436 cellulose synthase A
Probab=72.78 E-value=2.5 Score=44.39 Aligned_cols=50 Identities=22% Similarity=0.497 Sum_probs=37.2
Q ss_pred CcccccccCCCCC-----CCCe-eccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 220 DVTTCPICQASPT-----TPFL-ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 220 ~~~~C~iC~~~~~-----~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
....|.||.+..- +|.+ .-.||.--|..|. ++-.++++..||.|+.+...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cy-eyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCY-EYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchhh
Confidence 4568999998642 2332 3579999999999 45555568899999998873
No 119
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=72.63 E-value=2.3 Score=42.76 Aligned_cols=56 Identities=20% Similarity=0.466 Sum_probs=41.3
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhc--CCCCccCCCCcCcccccccc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAA--SPSFRCSRCNEPVIAMQRHG 275 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~--~~~~~CP~C~~~~~~~~~~~ 275 (284)
.-.+.|+++....+-|.....|+|.=|.+-..--..+ .+.|.||+|.+.+. .+.+-
T Consensus 304 ~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~-~e~l~ 361 (636)
T KOG2169|consen 304 RVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAP-FEGLI 361 (636)
T ss_pred eeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCcccc-ccchh
Confidence 4568999999888888888899998887665432222 36899999988775 44443
No 120
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=71.50 E-value=3.9 Score=42.95 Aligned_cols=51 Identities=24% Similarity=0.518 Sum_probs=37.8
Q ss_pred CCcccccccCCCCC-----CCC-eeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 219 EDVTTCPICQASPT-----TPF-LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 219 ~~~~~C~iC~~~~~-----~p~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
-+...|.||.+..- +|. +.-.|+.--|..|. ++-..+++..||.|+.+...
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cy-eye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCY-EYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCchhh
Confidence 45678999988532 232 23689999999999 45555567899999998874
No 121
>PLN02189 cellulose synthase
Probab=71.22 E-value=3 Score=43.71 Aligned_cols=50 Identities=20% Similarity=0.439 Sum_probs=37.1
Q ss_pred CcccccccCCCCC-----CCCe-eccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 220 DVTTCPICQASPT-----TPFL-ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 220 ~~~~C~iC~~~~~-----~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
....|.||.+..- +|.+ .-.||.--|..|. ++-.++++..||.|+.+...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cy-eyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCY-EYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchhh
Confidence 4558999988643 2333 3569999999998 45555568899999998873
No 122
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.14 E-value=2.9 Score=29.30 Aligned_cols=25 Identities=20% Similarity=0.618 Sum_probs=20.9
Q ss_pred cCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 241 QHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 241 gH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.+.||-+|....+ ...||.|+..+.
T Consensus 28 EcTFCadCae~~l----~g~CPnCGGelv 52 (84)
T COG3813 28 ECTFCADCAENRL----HGLCPNCGGELV 52 (84)
T ss_pred eeehhHhHHHHhh----cCcCCCCCchhh
Confidence 5789999998877 459999998775
No 123
>PF06271 RDD: RDD family; InterPro: IPR010432 This domain contains three highly conserved amino acids: one arginine and two aspartates, hence the name of RDD domain. This region contains two predicted transmembrane regions. The arginine occurs at the N terminus of the first helix and the first aspartate occurs in the middle of this helix. The molecular function of this region is unknown. However this region may be involved in transport of an as yet unknown set of ligands.
Probab=70.58 E-value=29 Score=26.62 Aligned_cols=31 Identities=23% Similarity=0.271 Sum_probs=23.2
Q ss_pred HHHHHHHHHhhccCCCCcchhccCceeccch
Q 023268 31 FLEFLIWRFSIWVDKPTPGNALMNLRYRDER 61 (284)
Q Consensus 31 ll~~l~~~~t~~~~~~T~Ge~~~~L~~~~~~ 61 (284)
+.-++|+......+++|+|....|++-++.+
T Consensus 56 ~~~~~~~~~~~~~~G~T~Gk~~~~lrvv~~~ 86 (137)
T PF06271_consen 56 LVFFYYFIVPWARKGQTLGKRLLGLRVVDKD 86 (137)
T ss_pred HHHHHHHHHHHhcCCCCcccccCceEEEecC
Confidence 4444445556667899999999999988744
No 124
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=70.35 E-value=2 Score=38.63 Aligned_cols=52 Identities=23% Similarity=0.510 Sum_probs=36.3
Q ss_pred CCCcccccccCCCCC-CC-CeeccCcCcccHHHHHHHHhc---------------------CCCCccCCCCcCcc
Q 023268 218 EEDVTTCPICQASPT-TP-FLALPCQHRYCYYCLRTRCAA---------------------SPSFRCSRCNEPVI 269 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~-~p-~~~~~CgH~fC~~Ci~~~~~~---------------------~~~~~CP~C~~~~~ 269 (284)
......|.||+--+. .| .+.++|-|-+-..|+..++.. ...-.||+|+.++.
T Consensus 112 n~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 345567888865433 22 455799999999999877652 01345999999986
No 125
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.99 E-value=1.9 Score=40.54 Aligned_cols=35 Identities=23% Similarity=0.593 Sum_probs=25.9
Q ss_pred CcccccccCCCCC-----CCCeeccCcCcccHHHHHHHHhc
Q 023268 220 DVTTCPICQASPT-----TPFLALPCQHRYCYYCLRTRCAA 255 (284)
Q Consensus 220 ~~~~C~iC~~~~~-----~p~~~~~CgH~fC~~Ci~~~~~~ 255 (284)
.-..||.|..... +..+.. |||-|||.|..+|...
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~ 344 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTH 344 (384)
T ss_pred hcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhC
Confidence 3578999976433 564555 9999999999887653
No 126
>PLN02195 cellulose synthase A
Probab=69.36 E-value=4.2 Score=42.43 Aligned_cols=48 Identities=23% Similarity=0.479 Sum_probs=36.2
Q ss_pred cccccccCCCCC-----CCC-eeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 221 VTTCPICQASPT-----TPF-LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 221 ~~~C~iC~~~~~-----~p~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
...|.||.+... +|. +.-.||.--|..|. ++=..+++..||.|+.+..
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCccc
Confidence 457999987432 333 23689999999998 5655567889999999887
No 127
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=68.61 E-value=4.4 Score=41.22 Aligned_cols=56 Identities=23% Similarity=0.430 Sum_probs=39.0
Q ss_pred CCcccccccCC--CCCCCCeeccCcCc-----ccHHHHHHHHhcCCCCccCCCCcCcccccccc
Q 023268 219 EDVTTCPICQA--SPTTPFLALPCQHR-----YCYYCLRTRCAASPSFRCSRCNEPVIAMQRHG 275 (284)
Q Consensus 219 ~~~~~C~iC~~--~~~~p~~~~~CgH~-----fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~ 275 (284)
+++..|.||.- .+.+|. .-||... .-..|+.+|+..+.+..|-.|..+++--+-..
T Consensus 10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~ 72 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYK 72 (1175)
T ss_pred ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecc
Confidence 46689999853 445663 3455432 23589999998777889999999887544433
No 128
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=67.66 E-value=3.1 Score=42.14 Aligned_cols=49 Identities=20% Similarity=0.379 Sum_probs=32.9
Q ss_pred CcccccccCCCCC--------CCCeeccCcCcccHHHHHHHHhc----CCCCccCCCCcCccc
Q 023268 220 DVTTCPICQASPT--------TPFLALPCQHRYCYYCLRTRCAA----SPSFRCSRCNEPVIA 270 (284)
Q Consensus 220 ~~~~C~iC~~~~~--------~p~~~~~CgH~fC~~Ci~~~~~~----~~~~~CP~C~~~~~~ 270 (284)
+...|.+|..... .| ...|+|.+|+.||..|..+ .....|+.|..-+..
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P--~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~s 155 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICP--VQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGS 155 (1134)
T ss_pred cccccchhheecCCcccccCcCc--hhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhh
Confidence 4456666654333 34 2459999999999998764 235678888776644
No 129
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=67.39 E-value=4 Score=41.68 Aligned_cols=51 Identities=20% Similarity=0.569 Sum_probs=37.4
Q ss_pred CCcccccccCCCCC--CC-CeeccCcCcccHHHHHHHHhc-----CCCCccCCCCcCcc
Q 023268 219 EDVTTCPICQASPT--TP-FLALPCQHRYCYYCLRTRCAA-----SPSFRCSRCNEPVI 269 (284)
Q Consensus 219 ~~~~~C~iC~~~~~--~p-~~~~~CgH~fC~~Ci~~~~~~-----~~~~~CP~C~~~~~ 269 (284)
.+...|.||.+.+. .| +....|-|+|=..||.+|..+ +..|.||.|.....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 46789999988654 33 222457899999999999874 24799999985443
No 130
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=67.26 E-value=1.8 Score=40.38 Aligned_cols=39 Identities=21% Similarity=0.330 Sum_probs=0.0
Q ss_pred CCCCCeeccCcCcccHHHHHHHHhcC-CCCccCCCCcCcc
Q 023268 231 PTTPFLALPCQHRYCYYCLRTRCAAS-PSFRCSRCNEPVI 269 (284)
Q Consensus 231 ~~~p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~C~~~~~ 269 (284)
-+.|++-+.|||++=|.=....-..+ ....||+|+.+-.
T Consensus 300 ~~qP~VYl~CGHVhG~h~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 300 ERQPWVYLNCGHVHGYHNWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp ----------------------------------------
T ss_pred ccCceeeccccceeeecccccccccccccccCCCccccCC
Confidence 45899999999999884332211111 2568999997654
No 131
>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=67.26 E-value=5.1 Score=26.70 Aligned_cols=43 Identities=21% Similarity=0.536 Sum_probs=27.5
Q ss_pred cccccCCCCCC-CCeeccC--cCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 223 TCPICQASPTT-PFLALPC--QHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 223 ~C~iC~~~~~~-p~~~~~C--gH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.|-.|...+.. ...+.-| ...||..|....+ ...||.|+..+.
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l----~~~CPNCgGelv 52 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML----NGVCPNCGGELV 52 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh----cCcCcCCCCccc
Confidence 46566543321 1123345 4579999998876 358999998775
No 132
>PLN02400 cellulose synthase
Probab=67.06 E-value=3.4 Score=43.55 Aligned_cols=51 Identities=18% Similarity=0.375 Sum_probs=37.5
Q ss_pred CCcccccccCCCCC-----CCC-eeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 219 EDVTTCPICQASPT-----TPF-LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 219 ~~~~~C~iC~~~~~-----~p~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
.....|.||.+..- +|. +...|+.--|..|- ++=..+++..||.|+.....
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY-EYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCY-EYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchh-heecccCCccCcccCCcccc
Confidence 34568999998633 232 34689999999998 45555568899999998874
No 133
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=66.85 E-value=5.8 Score=35.96 Aligned_cols=52 Identities=17% Similarity=0.371 Sum_probs=32.0
Q ss_pred CCCcccccccCCCCC------------------CCCeeccCcCcccHHHHHHHHhcC--------CCCccCCCCcCccc
Q 023268 218 EEDVTTCPICQASPT------------------TPFLALPCQHRYCYYCLRTRCAAS--------PSFRCSRCNEPVIA 270 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~------------------~p~~~~~CgH~fC~~Ci~~~~~~~--------~~~~CP~C~~~~~~ 270 (284)
...+.+||+|...-. ..+.-.||||+ |..=-..+|.+- -...||.|...+..
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv-~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHV-CSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccc-cchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 345789999975211 11234799994 554444555541 14679999887653
No 134
>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=65.70 E-value=4 Score=22.78 Aligned_cols=10 Identities=20% Similarity=0.487 Sum_probs=5.3
Q ss_pred CccCCCCcCc
Q 023268 259 FRCSRCNEPV 268 (284)
Q Consensus 259 ~~CP~C~~~~ 268 (284)
..||.|+..+
T Consensus 15 ~~Cp~CG~~F 24 (26)
T PF10571_consen 15 KFCPHCGYDF 24 (26)
T ss_pred CcCCCCCCCC
Confidence 3555555544
No 135
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=65.37 E-value=7 Score=36.98 Aligned_cols=46 Identities=20% Similarity=0.275 Sum_probs=41.8
Q ss_pred cccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 223 TCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 223 ~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
.|.|-.+.+..|++....||+|=..-|++++.. +..||+.+++++.
T Consensus 2 ~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e--~G~DPIt~~pLs~ 47 (506)
T KOG0289|consen 2 VCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAE--TGKDPITNEPLSI 47 (506)
T ss_pred eecccCCCCCCccccccccchHHHHHHHHHHHH--cCCCCCCCCcCCH
Confidence 599999999999999999999999999999984 6699999999864
No 136
>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=65.27 E-value=2.3 Score=33.69 Aligned_cols=33 Identities=15% Similarity=0.345 Sum_probs=25.5
Q ss_pred cccccccCCCCCC--CCeeccCc------CcccHHHHHHHH
Q 023268 221 VTTCPICQASPTT--PFLALPCQ------HRYCYYCLRTRC 253 (284)
Q Consensus 221 ~~~C~iC~~~~~~--p~~~~~Cg------H~fC~~Ci~~~~ 253 (284)
...|.||.+...+ -++..+|| |.||..|+..|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 5689999987765 44555665 679999999884
No 137
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=63.96 E-value=7.1 Score=30.04 Aligned_cols=43 Identities=21% Similarity=0.495 Sum_probs=30.1
Q ss_pred cccccccCCCCCCC-------------CeeccCcCcccHHHHHHHHhcCCCCccCCCC
Q 023268 221 VTTCPICQASPTTP-------------FLALPCQHRYCYYCLRTRCAASPSFRCSRCN 265 (284)
Q Consensus 221 ~~~C~iC~~~~~~p-------------~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~ 265 (284)
...|--|+..+..+ +....|++.||.+|=.=... .-..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe--~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHE--SLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhh--hccCCcCCC
Confidence 35699998866543 44678999999999543322 356899996
No 138
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=62.79 E-value=6.5 Score=35.86 Aligned_cols=47 Identities=34% Similarity=0.843 Sum_probs=34.8
Q ss_pred cccccccCCCC---CCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 221 VTTCPICQASP---TTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 221 ~~~C~iC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
...||+|.+.. ..+..-.+||+.-|..|..+... +...||.|+++..
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~--~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISD--GDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccc--cCCCCCccCCccc
Confidence 46899998744 22223358999999999988765 4679999997664
No 139
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.91 E-value=2.8 Score=35.98 Aligned_cols=40 Identities=33% Similarity=0.727 Sum_probs=30.0
Q ss_pred ccccCCCCCCCCeeccCcCc-ccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 224 CPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 224 C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
|..|.+....- ...||.|. +|..|-.. ...||+|+.+...
T Consensus 161 Cr~C~~~~~~V-lllPCrHl~lC~~C~~~------~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGEREATV-LLLPCRHLCLCGICDES------LRICPICRSPKTS 201 (207)
T ss_pred ceecCcCCceE-EeecccceEeccccccc------CccCCCCcChhhc
Confidence 99999877775 67899774 67778542 3479999887653
No 140
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=60.50 E-value=6.3 Score=35.71 Aligned_cols=51 Identities=24% Similarity=0.428 Sum_probs=35.3
Q ss_pred CCcccccccCCCC--CCCCeeccCcCcccHHHHHHHHhcC-CCCccCCCCcCcc
Q 023268 219 EDVTTCPICQASP--TTPFLALPCQHRYCYYCLRTRCAAS-PSFRCSRCNEPVI 269 (284)
Q Consensus 219 ~~~~~C~iC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~C~~~~~ 269 (284)
..-..||+=.+.- .||-+.+.|||+.-..-+....+++ -.+.||-|.....
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~ 387 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSK 387 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchh
Confidence 4568899744322 2443679999999998887655543 2689999976543
No 141
>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=60.02 E-value=2.9 Score=42.73 Aligned_cols=53 Identities=15% Similarity=0.358 Sum_probs=0.0
Q ss_pred CCcccccccCCCCCCCCeeccCcCc-----ccHHHHHHHHhcCCCCccCCCCcCccccccccc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHR-----YCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~-----fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~~ 276 (284)
.....||-|...-... .+..||.. +|..|-...- ...||.|+..........+
T Consensus 653 i~~r~Cp~Cg~~t~~~-~Cp~CG~~T~~~~~Cp~C~~~~~----~~~C~~C~~~~~~~~~~~i 710 (900)
T PF03833_consen 653 IGRRRCPKCGKETFYN-RCPECGSHTEPVYVCPDCGIEVE----EDECPKCGRETTSYSKQKI 710 (900)
T ss_dssp ---------------------------------------------------------------
T ss_pred eecccCcccCCcchhh-cCcccCCccccceeccccccccC----ccccccccccCcccceeec
Confidence 3568899998765544 44568866 8999987543 3489999998876555444
No 142
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.36 E-value=5.9 Score=39.53 Aligned_cols=41 Identities=22% Similarity=0.463 Sum_probs=29.0
Q ss_pred cccccccCCCCC----CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcC
Q 023268 221 VTTCPICQASPT----TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEP 267 (284)
Q Consensus 221 ~~~C~iC~~~~~----~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~ 267 (284)
...|.+|+.+-. .+ .++.|+-.||+.|..+.- ..||+|+-.
T Consensus 654 ~r~C~vcq~pedse~~v~-rt~~C~~~~C~~c~~~~~-----~~~~vC~~~ 698 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVC-RTTFCYTPYCVACSLDYA-----SISEVCGPD 698 (717)
T ss_pred HHHHHHhcCCcCcccccc-CccccCCcchHhhhhhhh-----ccCcccCch
Confidence 467888875432 23 456899999999987653 379999754
No 143
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=59.01 E-value=5.8 Score=35.50 Aligned_cols=42 Identities=24% Similarity=0.626 Sum_probs=33.3
Q ss_pred ccccccCCCC----CCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCc
Q 023268 222 TTCPICQASP----TTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 266 (284)
Q Consensus 222 ~~C~iC~~~~----~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~ 266 (284)
..||+|.+.. ..| ...+|||.-=..|+...... +..||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~-~~~~CgH~~h~~cf~e~~~~--~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDA-GVLKCGHYMHSRCFEEMICE--GYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccC-CccCcccchHHHHHHHHhcc--CCCCCcccc
Confidence 4499998743 345 45899999989999988764 389999988
No 144
>PF12773 DZR: Double zinc ribbon
Probab=56.56 E-value=9.8 Score=24.31 Aligned_cols=28 Identities=14% Similarity=0.343 Sum_probs=15.3
Q ss_pred CcccHHHHHHHHh-cCCCCccCCCCcCcc
Q 023268 242 HRYCYYCLRTRCA-ASPSFRCSRCNEPVI 269 (284)
Q Consensus 242 H~fC~~Ci~~~~~-~~~~~~CP~C~~~~~ 269 (284)
..||..|=..... ......||.|++.+.
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENP 40 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCc
Confidence 3466666544331 123467888887654
No 145
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=56.46 E-value=6.8 Score=29.44 Aligned_cols=29 Identities=14% Similarity=0.280 Sum_probs=19.5
Q ss_pred CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcC
Q 023268 233 TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEP 267 (284)
Q Consensus 233 ~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~ 267 (284)
.|+..+.|||+|=.- ...+. ..||.|+-.
T Consensus 1 MpH~CtrCG~vf~~g--~~~il----~GCp~CG~n 29 (112)
T COG3364 1 MPHQCTRCGEVFDDG--SEEIL----SGCPKCGCN 29 (112)
T ss_pred CCceecccccccccc--cHHHH----ccCccccch
Confidence 367788999998763 22222 379999854
No 146
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=56.35 E-value=8.3 Score=33.89 Aligned_cols=52 Identities=12% Similarity=0.163 Sum_probs=35.9
Q ss_pred CCCcccccccCCCCCCC---CeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccc
Q 023268 218 EEDVTTCPICQASPTTP---FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQR 273 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~ 273 (284)
......|||-.-....- ....+|||+|-+.-+.+.- ...|++|++....-|-
T Consensus 108 ~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik----as~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 108 QRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK----ASVCHVCGAAYQEDDV 162 (293)
T ss_pred ccceeecccccceecceEEEEEEeccceeccHHHHHHhh----hccccccCCcccccCe
Confidence 34568899865433211 1457999999998877644 3589999998875443
No 147
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=54.11 E-value=6.2 Score=42.22 Aligned_cols=55 Identities=22% Similarity=0.453 Sum_probs=35.1
Q ss_pred cccccccCCCCCCCCeeccCcCcc-----cHHHHHHHHhc-CCCCccCCCCcCccccccccc
Q 023268 221 VTTCPICQASPTTPFLALPCQHRY-----CYYCLRTRCAA-SPSFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~f-----C~~Ci~~~~~~-~~~~~CP~C~~~~~~~~~~~~ 276 (284)
..+||-|....... .+..||... |..|=.+.... .....||.|+.+........+
T Consensus 667 ~rkCPkCG~~t~~~-fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~~~~~~i 727 (1337)
T PRK14714 667 RRRCPSCGTETYEN-RCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTPYQRRTI 727 (1337)
T ss_pred EEECCCCCCccccc-cCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccccceEEe
Confidence 48999998754444 466788664 88886543211 013479999988876555443
No 148
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=53.74 E-value=6.4 Score=33.66 Aligned_cols=48 Identities=17% Similarity=0.427 Sum_probs=34.9
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.-..|.+|......-...-.||-.|-..|+.++..+ ...||.|+.-.+
T Consensus 180 nlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~--~~~cphc~d~w~ 227 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQR--RDICPHCGDLWT 227 (235)
T ss_pred HHHHHhHhHHHhheeeccCcccchhhhHHHHHHhcc--cCcCCchhcccC
Confidence 346899999877655334456666677899999986 569999976544
No 149
>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 KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=51.77 E-value=11 Score=34.31 Aligned_cols=45 Identities=18% Similarity=0.480 Sum_probs=30.2
Q ss_pred CcccccccCCCC--CCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCc
Q 023268 220 DVTTCPICQASP--TTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 266 (284)
Q Consensus 220 ~~~~C~iC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~ 266 (284)
....|-.|.+.. ...|+.-.|.++||.+|=.=.. +.-..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iH--esLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIH--ESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHH--hhhhcCCCcCC
Confidence 445699995543 3455667899999999954222 23468999973
No 151
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.43 E-value=14 Score=30.81 Aligned_cols=51 Identities=22% Similarity=0.568 Sum_probs=35.2
Q ss_pred CCcccccccCCC------CCCCCeeccCcCcccHHHHHHHHhc----CC-----CCccCCCCcCcc
Q 023268 219 EDVTTCPICQAS------PTTPFLALPCQHRYCYYCLRTRCAA----SP-----SFRCSRCNEPVI 269 (284)
Q Consensus 219 ~~~~~C~iC~~~------~~~p~~~~~CgH~fC~~Ci~~~~~~----~~-----~~~CP~C~~~~~ 269 (284)
+....|.||... +...+....||..|-.-|+.+|+.. .. -.+||.|..|+.
T Consensus 163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 445668888542 1122234689999999999999873 11 358999999885
No 152
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.59 E-value=5.2 Score=36.04 Aligned_cols=49 Identities=29% Similarity=0.684 Sum_probs=38.6
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.+...|-+|...++-|...-.|.|-||+.|-..+... ...||.|+....
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~--~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAM--GNDCPDCRGKIS 151 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhh--hhccchhhcCcC
Confidence 4567899999999999766779999999999888765 346777765543
No 153
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=49.16 E-value=10 Score=25.62 Aligned_cols=14 Identities=29% Similarity=0.859 Sum_probs=10.5
Q ss_pred CCCccCCCCcCccc
Q 023268 257 PSFRCSRCNEPVIA 270 (284)
Q Consensus 257 ~~~~CP~C~~~~~~ 270 (284)
+...||.||+++..
T Consensus 2 ~HkHC~~CG~~Ip~ 15 (59)
T PF09889_consen 2 PHKHCPVCGKPIPP 15 (59)
T ss_pred CCCcCCcCCCcCCc
Confidence 35689999988863
No 154
>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=48.48 E-value=1.7 Score=33.74 Aligned_cols=46 Identities=22% Similarity=0.536 Sum_probs=30.4
Q ss_pred CcccccccCCCCC----CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCc
Q 023268 220 DVTTCPICQASPT----TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 266 (284)
Q Consensus 220 ~~~~C~iC~~~~~----~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~ 266 (284)
+...|.+|...+. .......|+|..|..|-.. ...+..+.|.+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 5678999987532 2335678999999999654 22235678888865
No 155
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=48.13 E-value=6.8 Score=26.72 Aligned_cols=30 Identities=20% Similarity=0.459 Sum_probs=16.7
Q ss_pred ccHHHHHHHHhcCCCCccCCCCcCcccccccc
Q 023268 244 YCYYCLRTRCAASPSFRCSRCNEPVIAMQRHG 275 (284)
Q Consensus 244 fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~~~ 275 (284)
-|..|. ++..+....||+|+.+-..-+..|
T Consensus 6 AC~~Ck--~l~~~d~e~CP~Cgs~~~te~W~G 35 (64)
T COG2093 6 ACKNCK--RLTPEDTEICPVCGSTDLTEEWFG 35 (64)
T ss_pred HHhhcc--ccCCCCCccCCCCCCcccchhhcc
Confidence 356663 333334456999998744333333
No 156
>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=47.40 E-value=2.6 Score=24.84 Aligned_cols=15 Identities=20% Similarity=0.609 Sum_probs=10.7
Q ss_pred CCCccCCCCcCcccc
Q 023268 257 PSFRCSRCNEPVIAM 271 (284)
Q Consensus 257 ~~~~CP~C~~~~~~~ 271 (284)
..+.||.|+.+-..+
T Consensus 16 ~~~~CP~Cg~~~~~F 30 (33)
T cd00350 16 APWVCPVCGAPKDKF 30 (33)
T ss_pred CCCcCcCCCCcHHHc
Confidence 367999999865433
No 157
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=46.55 E-value=2.5 Score=30.67 Aligned_cols=38 Identities=24% Similarity=0.689 Sum_probs=29.3
Q ss_pred cccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 221 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 221 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
...|.||.....+| |..||..|... ...|.+|++.+..
T Consensus 54 ~~kC~iCk~~vHQ~------GshYC~tCAY~------KgiCAMCGKki~n 91 (100)
T KOG3476|consen 54 LAKCRICKQLVHQP------GSHYCQTCAYK------KGICAMCGKKILN 91 (100)
T ss_pred cchhHHHHHHhcCC------cchhHhHhhhh------hhHHHHhhhHhhc
Confidence 47899998877666 44599999763 4589999998764
No 158
>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=46.46 E-value=16 Score=23.84 Aligned_cols=33 Identities=21% Similarity=0.465 Sum_probs=22.5
Q ss_pred ccccccCCCCC---CCCeeccCcCcccHHHHHHHHh
Q 023268 222 TTCPICQASPT---TPFLALPCQHRYCYYCLRTRCA 254 (284)
Q Consensus 222 ~~C~iC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~ 254 (284)
..|..|...+. ..+.-..||++||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 46888865432 2224578999999999876543
No 159
>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=46.33 E-value=6.7 Score=25.76 Aligned_cols=13 Identities=23% Similarity=0.468 Sum_probs=6.4
Q ss_pred CccCCCCcCcccc
Q 023268 259 FRCSRCNEPVIAM 271 (284)
Q Consensus 259 ~~CP~C~~~~~~~ 271 (284)
..||+|+.++..=
T Consensus 21 ~~CPlC~r~l~~e 33 (54)
T PF04423_consen 21 GCCPLCGRPLDEE 33 (54)
T ss_dssp EE-TTT--EE-HH
T ss_pred CcCCCCCCCCCHH
Confidence 3899998887643
No 160
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=45.22 E-value=13 Score=23.69 Aligned_cols=20 Identities=25% Similarity=0.488 Sum_probs=14.2
Q ss_pred cHHHHHHHHhcCCCCccCCC
Q 023268 245 CYYCLRTRCAASPSFRCSRC 264 (284)
Q Consensus 245 C~~Ci~~~~~~~~~~~CP~C 264 (284)
=..|+..|+.......|++|
T Consensus 28 H~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 28 HRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ECCHHHHHHHHHT-SB-TTT
T ss_pred HHHHHHHHHHhcCCCcCCCC
Confidence 35799999987666789887
No 161
>PF15200 KRTDAP: Keratinocyte differentiation-associated
Probab=44.79 E-value=30 Score=24.25 Aligned_cols=23 Identities=26% Similarity=0.426 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHhhhccchhhhc
Q 023268 182 VWNEFSEMLLLLLPLLNSSTVKG 204 (284)
Q Consensus 182 ~w~~~~e~l~~~l~~~~~~~~~~ 204 (284)
-||++.|.+.--+|++||..+-+
T Consensus 43 NWHalfe~iK~kLPFlNWdafPK 65 (77)
T PF15200_consen 43 NWHALFEAIKRKLPFLNWDAFPK 65 (77)
T ss_pred hHHHHHHHHHHhCcccchhhhhh
Confidence 49999999999999999976544
No 162
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=44.75 E-value=3.9 Score=22.07 Aligned_cols=9 Identities=33% Similarity=0.929 Sum_probs=4.9
Q ss_pred CccCCCCcC
Q 023268 259 FRCSRCNEP 267 (284)
Q Consensus 259 ~~CP~C~~~ 267 (284)
.-||.|+.+
T Consensus 14 ~fC~~CG~~ 22 (23)
T PF13240_consen 14 KFCPNCGTP 22 (23)
T ss_pred cchhhhCCc
Confidence 346666554
No 163
>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=44.14 E-value=4.9 Score=27.63 Aligned_cols=35 Identities=20% Similarity=0.466 Sum_probs=18.1
Q ss_pred CCcccccccCCCCC---CCCeeccCcCcccHHHHHHHH
Q 023268 219 EDVTTCPICQASPT---TPFLALPCQHRYCYYCLRTRC 253 (284)
Q Consensus 219 ~~~~~C~iC~~~~~---~p~~~~~CgH~fC~~Ci~~~~ 253 (284)
.+...|.+|...+. ..+.-..||++||..|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34578999987653 334457899999999986544
No 164
>PF14353 CpXC: CpXC protein
Probab=44.12 E-value=16 Score=28.45 Aligned_cols=12 Identities=33% Similarity=0.836 Sum_probs=9.9
Q ss_pred CCccCCCCcCcc
Q 023268 258 SFRCSRCNEPVI 269 (284)
Q Consensus 258 ~~~CP~C~~~~~ 269 (284)
...||.|++.+.
T Consensus 38 ~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 38 SFTCPSCGHKFR 49 (128)
T ss_pred EEECCCCCCcee
Confidence 578999998775
No 165
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.90 E-value=22 Score=35.76 Aligned_cols=46 Identities=28% Similarity=0.504 Sum_probs=34.6
Q ss_pred cccccCCCCCCCCeeccCcC-cccHHHHHHHHhcCC----CCccCCCCcCcc
Q 023268 223 TCPICQASPTTPFLALPCQH-RYCYYCLRTRCAASP----SFRCSRCNEPVI 269 (284)
Q Consensus 223 ~C~iC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~~~----~~~CP~C~~~~~ 269 (284)
.|+||...+.-+ ..-.||| .-|-.|.....-... ...||+|+..+.
T Consensus 2 ~c~ic~~s~~~~-~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFV-GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCcccc-ccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 599998877766 4579999 999999886543222 457899998665
No 166
>PF04088 Peroxin-13_N: Peroxin 13, N-terminal region; InterPro: IPR007223 Peroxin-13 is a component of the peroxisomal translocation machinery with Peroxin-14 and Peroxin-17. Both termini of Peroxin-13 are oriented to the cytosol. It is required for peroxisomal association of peroxin-14 []. The proteins also contain an SH3 domain (IPR001452 from INTERPRO).; GO: 0016560 protein import into peroxisome matrix, docking, 0005777 peroxisome, 0016021 integral to membrane
Probab=43.63 E-value=28 Score=28.51 Aligned_cols=26 Identities=23% Similarity=0.316 Sum_probs=20.6
Q ss_pred CCCchhHHHHHHHHHHhhhhHHHHHH
Q 023268 76 PGLTNAQKIWYCIATVGGQYLWARLQ 101 (284)
Q Consensus 76 ~~ls~~~r~~~~l~~v~~pYl~~kl~ 101 (284)
+.+|.+--++++++.+++|||..|+-
T Consensus 132 ~~~s~~PlllF~~~v~G~PyLi~Kli 157 (158)
T PF04088_consen 132 PKPSSKPLLLFLAAVFGLPYLIWKLI 157 (158)
T ss_pred CCCCcccHHHHHHHHHHHHHHHHHHh
Confidence 35666667788888899999999974
No 167
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=42.95 E-value=5.2 Score=36.07 Aligned_cols=50 Identities=26% Similarity=0.501 Sum_probs=32.6
Q ss_pred CCcccccccCC-CCC---CCCeeccCcCcccHHHHHHHHhc-----CCCCccCCCCcCc
Q 023268 219 EDVTTCPICQA-SPT---TPFLALPCQHRYCYYCLRTRCAA-----SPSFRCSRCNEPV 268 (284)
Q Consensus 219 ~~~~~C~iC~~-~~~---~p~~~~~CgH~fC~~Ci~~~~~~-----~~~~~CP~C~~~~ 268 (284)
.+...|.+|.. .++ --+....||++||..|-.....- ++...|+.|=...
T Consensus 166 ~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 166 SEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred ccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 46789999987 333 22335789999999998763321 2233677775444
No 168
>PRK11595 DNA utilization protein GntX; Provisional
Probab=40.55 E-value=24 Score=30.48 Aligned_cols=39 Identities=21% Similarity=0.512 Sum_probs=24.3
Q ss_pred ccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCc
Q 023268 222 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 268 (284)
Q Consensus 222 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~ 268 (284)
..|.+|.+....+ +...|..|....... ...||.|+.+.
T Consensus 6 ~~C~~C~~~~~~~------~~~lC~~C~~~l~~~--~~~C~~Cg~~~ 44 (227)
T PRK11595 6 GLCWLCRMPLALS------HWGICSVCSRALRTL--KTCCPQCGLPA 44 (227)
T ss_pred CcCccCCCccCCC------CCcccHHHHhhCCcc--cCcCccCCCcC
Confidence 4699998754322 123788887764321 24788888765
No 169
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=39.83 E-value=18 Score=29.05 Aligned_cols=43 Identities=23% Similarity=0.411 Sum_probs=24.3
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQR 273 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~ 273 (284)
......||-|......- . ..........+.||.|+.++...+.
T Consensus 96 ~~~~Y~Cp~C~~~y~~~-e------------a~~~~d~~~~f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 96 NNAYYKCPNCQSKYTFL-E------------ANQLLDMDGTFTCPRCGEELEEDDN 138 (147)
T ss_pred CCcEEECcCCCCEeeHH-H------------HHHhcCCCCcEECCCCCCEEEEcCc
Confidence 45678899887543311 0 1111011234899999998865443
No 170
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=38.96 E-value=18 Score=24.52 Aligned_cols=32 Identities=19% Similarity=0.440 Sum_probs=22.3
Q ss_pred ccccCCCCCCCCeeccCcCcccHH----HHHHHHhc
Q 023268 224 CPICQASPTTPFLALPCQHRYCYY----CLRTRCAA 255 (284)
Q Consensus 224 C~iC~~~~~~p~~~~~CgH~fC~~----Ci~~~~~~ 255 (284)
|..|.....+.++-+.||+++|.. ....+.++
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~~ 36 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGRYSNGHALKHYKE 36 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETTTSTSHHHHHHHH
T ss_pred CCCCCCcCCceEEeCCCCcccccCCcCcHHHHhhcc
Confidence 566765556777889999999996 66666653
No 171
>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=38.04 E-value=19 Score=29.29 Aligned_cols=26 Identities=19% Similarity=0.682 Sum_probs=20.7
Q ss_pred cCcccHHHHHHHHhcCCCCccCCCCcCcccc
Q 023268 241 QHRYCYYCLRTRCAASPSFRCSRCNEPVIAM 271 (284)
Q Consensus 241 gH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~ 271 (284)
-+.||..|=.+.+. .||.|+.++.+-
T Consensus 27 ~~~fC~kCG~~tI~-----~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 27 REKFCSKCGAKTIT-----SCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHHhhHHHHH-----HCcCCCCCCCCc
Confidence 46799999887764 799999998753
No 172
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=37.02 E-value=22 Score=36.37 Aligned_cols=32 Identities=25% Similarity=0.730 Sum_probs=24.6
Q ss_pred ccccccCCCCC--------CCCeeccCcCcccHHHHHHHH
Q 023268 222 TTCPICQASPT--------TPFLALPCQHRYCYYCLRTRC 253 (284)
Q Consensus 222 ~~C~iC~~~~~--------~p~~~~~CgH~fC~~Ci~~~~ 253 (284)
..|..|...+. ..+..-.||.+||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 56999988773 344568999999999986543
No 173
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=36.97 E-value=6.9 Score=26.09 Aligned_cols=15 Identities=20% Similarity=0.758 Sum_probs=12.5
Q ss_pred cCcCcccHHHHHHHH
Q 023268 239 PCQHRYCYYCLRTRC 253 (284)
Q Consensus 239 ~CgH~fC~~Ci~~~~ 253 (284)
.||+.||+.|-.+|.
T Consensus 45 ~C~~~fC~~C~~~~H 59 (64)
T smart00647 45 KCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCeECCCCCCcCC
Confidence 689999999987664
No 174
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=36.34 E-value=25 Score=31.49 Aligned_cols=47 Identities=21% Similarity=0.590 Sum_probs=32.6
Q ss_pred CCcccccccCCCCCCCCeecc-----CcCcccHHHHHHHHhcCCCCccCCCCcC
Q 023268 219 EDVTTCPICQASPTTPFLALP-----CQHRYCYYCLRTRCAASPSFRCSRCNEP 267 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~-----CgH~fC~~Ci~~~~~~~~~~~CP~C~~~ 267 (284)
+....||+|...+...++... =...-|.-|..+|..- ...|..|+..
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~V--R~KC~nC~~t 234 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYV--RVKCSNCEQS 234 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHH--HHHhcccccc
Confidence 556799999998776543322 2245699999998763 4578888753
No 175
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=36.12 E-value=23 Score=35.81 Aligned_cols=55 Identities=20% Similarity=0.524 Sum_probs=34.6
Q ss_pred CCCCcccccccCCCCCCC---------CeeccCcCcc--------------------cHHHHHHHHhcC------CCCcc
Q 023268 217 SEEDVTTCPICQASPTTP---------FLALPCQHRY--------------------CYYCLRTRCAAS------PSFRC 261 (284)
Q Consensus 217 ~~~~~~~C~iC~~~~~~p---------~~~~~CgH~f--------------------C~~Ci~~~~~~~------~~~~C 261 (284)
.+.|...|+-|++...+| ...+.||..| |..|-.++-.-. +...|
T Consensus 97 I~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aC 176 (750)
T COG0068 97 IPPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIAC 176 (750)
T ss_pred cCCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccC
Confidence 345667788887644332 1235677665 999988765311 24689
Q ss_pred CCCCcCcccc
Q 023268 262 SRCNEPVIAM 271 (284)
Q Consensus 262 P~C~~~~~~~ 271 (284)
|.|+-.+.-.
T Consensus 177 p~CGP~~~l~ 186 (750)
T COG0068 177 PKCGPHLFLV 186 (750)
T ss_pred cccCCCeEEE
Confidence 9998766543
No 176
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=35.95 E-value=12 Score=38.35 Aligned_cols=58 Identities=16% Similarity=0.244 Sum_probs=38.3
Q ss_pred CCCcccccccCCCCCC-CCeeccCcCcccHHHHHHHH----hcCCCCccCCCCcCcccccccc
Q 023268 218 EEDVTTCPICQASPTT-PFLALPCQHRYCYYCLRTRC----AASPSFRCSRCNEPVIAMQRHG 275 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~-p~~~~~CgH~fC~~Ci~~~~----~~~~~~~CP~C~~~~~~~~~~~ 275 (284)
......|..|.....| -.+...||+.+|-.|+..|- ..+....|+.|+......+.+.
T Consensus 226 ~g~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C~~~q~h~ 288 (889)
T KOG1356|consen 226 KGIREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKCNKGQCHA 288 (889)
T ss_pred cCcchhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhcCCccccc
Confidence 3456788999876654 55678999999999999883 1122345666665554444443
No 177
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=35.03 E-value=22 Score=22.26 Aligned_cols=14 Identities=36% Similarity=0.710 Sum_probs=11.1
Q ss_pred CCCccCCCCcCccc
Q 023268 257 PSFRCSRCNEPVIA 270 (284)
Q Consensus 257 ~~~~CP~C~~~~~~ 270 (284)
+...||+|+.+++.
T Consensus 7 p~K~C~~C~rpf~W 20 (42)
T PF10013_consen 7 PSKICPVCGRPFTW 20 (42)
T ss_pred CCCcCcccCCcchH
Confidence 45789999998864
No 178
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=34.86 E-value=12 Score=34.15 Aligned_cols=35 Identities=23% Similarity=0.557 Sum_probs=23.5
Q ss_pred CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 233 TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 233 ~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.| .+..=|-.+|+.|-.+... .+...|+.|...+.
T Consensus 322 ip-~~~~~~~~~Cf~C~~~~~~-~~~y~C~~Ck~~FC 356 (378)
T KOG2807|consen 322 IP-ETEYNGSRFCFACQGELLS-SGRYRCESCKNVFC 356 (378)
T ss_pred cc-ccccCCCcceeeeccccCC-CCcEEchhccceee
Confidence 45 3445577889999444333 35789999988764
No 179
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=34.56 E-value=18 Score=33.60 Aligned_cols=33 Identities=33% Similarity=0.712 Sum_probs=24.5
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHH
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLR 250 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~ 250 (284)
......|--|...-..-...++||..||..|+.
T Consensus 36 ~~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~ 68 (441)
T COG4098 36 ENGKYRCNRCGNTHIELFAKLPCGCLYCRNCLM 68 (441)
T ss_pred ccCcEEehhcCCcchhhhcccccceEeehhhhh
Confidence 345678999985443333568999999999986
No 180
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.53 E-value=22 Score=27.79 Aligned_cols=23 Identities=17% Similarity=0.644 Sum_probs=15.3
Q ss_pred cccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 243 RYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 243 ~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
.||..|-...+. .||.|..++..
T Consensus 29 afcskcgeati~-----qcp~csasirg 51 (160)
T COG4306 29 AFCSKCGEATIT-----QCPICSASIRG 51 (160)
T ss_pred HHHhhhchHHHh-----cCCccCCcccc
Confidence 577777665543 67777777654
No 181
>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=33.12 E-value=14 Score=22.95 Aligned_cols=26 Identities=15% Similarity=0.460 Sum_probs=15.3
Q ss_pred ccCcCcccHHHHHHHHhcCCCCccCCCCc
Q 023268 238 LPCQHRYCYYCLRTRCAASPSFRCSRCNE 266 (284)
Q Consensus 238 ~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~ 266 (284)
..|||.|=-.. .........||.|+.
T Consensus 9 ~~Cg~~fe~~~---~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 9 EECGHEFEVLQ---SISEDDPVPCPECGS 34 (42)
T ss_pred CCCCCEEEEEE---EcCCCCCCcCCCCCC
Confidence 45676665422 112234678999998
No 182
>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=32.92 E-value=32 Score=28.07 Aligned_cols=39 Identities=18% Similarity=0.307 Sum_probs=24.7
Q ss_pred CCCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccc
Q 023268 217 SEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQR 273 (284)
Q Consensus 217 ~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~ 273 (284)
.......||.|....+.- +.+. ..+.||.|+.++...|.
T Consensus 105 ~~~~~Y~Cp~c~~r~tf~----------------eA~~--~~F~Cp~Cg~~L~~~dn 143 (158)
T TIGR00373 105 TNNMFFICPNMCVRFTFN----------------EAME--LNFTCPRCGAMLDYLDN 143 (158)
T ss_pred cCCCeEECCCCCcEeeHH----------------HHHH--cCCcCCCCCCEeeeccC
Confidence 345678899887433311 1122 26999999998876554
No 183
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=32.74 E-value=8.5 Score=21.26 Aligned_cols=9 Identities=22% Similarity=0.630 Sum_probs=4.6
Q ss_pred CccCCCCcC
Q 023268 259 FRCSRCNEP 267 (284)
Q Consensus 259 ~~CP~C~~~ 267 (284)
.-||.|+++
T Consensus 17 ~fC~~CG~~ 25 (26)
T PF13248_consen 17 KFCPNCGAK 25 (26)
T ss_pred ccChhhCCC
Confidence 345555543
No 184
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=32.63 E-value=10 Score=29.14 Aligned_cols=11 Identities=18% Similarity=0.655 Sum_probs=7.9
Q ss_pred CCccCCCCcCc
Q 023268 258 SFRCSRCNEPV 268 (284)
Q Consensus 258 ~~~CP~C~~~~ 268 (284)
...||.|+..-
T Consensus 86 ~~~CP~Cgs~~ 96 (113)
T PRK12380 86 DAQCPHCHGER 96 (113)
T ss_pred CccCcCCCCCC
Confidence 45699998653
No 185
>COG4229 Predicted enolase-phosphatase [Energy production and conversion]
Probab=32.19 E-value=2.2e+02 Score=24.15 Aligned_cols=74 Identities=9% Similarity=-0.001 Sum_probs=42.2
Q ss_pred HHHHHHHhhhhHHHHHHhHHhhhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH-HHhhcCCCCCHHHHHHhceee
Q 023268 85 WYCIATVGGQYLWARLQSFSAFRRWGDSEQRPLARRAWILIQRIEALYKAASFGNLL-IFLYTGRYRNLIERALRARLV 162 (284)
Q Consensus 85 ~~~l~~v~~pYl~~kl~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~l~~~~-~Fl~~g~y~sl~~Rllglr~~ 162 (284)
++++--|+.||..+|+.+++.. .+.+ +.+++.+-.+.+-.......=.+++++ -....++-.++++-+-|+-..
T Consensus 18 iSFVkdvlFPYa~~~lp~fv~e-~~e~---~~v~~~v~~v~~e~g~~~s~E~lva~~~~wiaed~K~t~lK~lQG~iWa 92 (229)
T COG4229 18 ISFVKDVLFPYAARKLPDFVRE-NTED---SEVKKIVDEVLSEFGIANSEEALVALLLEWIAEDSKDTPLKALQGMIWA 92 (229)
T ss_pred hhHHHhhhhHHHHHHhHHHHHh-hccC---ChhhHHHHHHHHHhCccchHHHHHHHHHHHHhcccccchHHHHHhHHHH
Confidence 5677789999999999999763 2322 222222222222222222122333333 344468888888888887654
No 186
>PRK12496 hypothetical protein; Provisional
Probab=32.01 E-value=13 Score=30.70 Aligned_cols=12 Identities=33% Similarity=0.645 Sum_probs=8.8
Q ss_pred CccCCCCcCccc
Q 023268 259 FRCSRCNEPVIA 270 (284)
Q Consensus 259 ~~CP~C~~~~~~ 270 (284)
..||.||.++..
T Consensus 144 ~~C~~CG~~~~r 155 (164)
T PRK12496 144 DVCEICGSPVKR 155 (164)
T ss_pred CcCCCCCChhhh
Confidence 468999887753
No 187
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=31.83 E-value=19 Score=29.07 Aligned_cols=26 Identities=19% Similarity=0.381 Sum_probs=17.8
Q ss_pred HHhcCCCCccCCCCcCcccccccccCC
Q 023268 252 RCAASPSFRCSRCNEPVIAMQRHGVIN 278 (284)
Q Consensus 252 ~~~~~~~~~CP~C~~~~~~~~~~~~~~ 278 (284)
|+..++.+.||.|++.++ +...+..+
T Consensus 127 wl~Kge~~rc~eCG~~fk-L~~v~~~~ 152 (153)
T KOG3352|consen 127 WLEKGETQRCPECGHYFK-LVPVGPVN 152 (153)
T ss_pred EEEcCCcccCCcccceEE-eeecCCCC
Confidence 344556789999999887 55555533
No 188
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.67 E-value=21 Score=33.61 Aligned_cols=35 Identities=17% Similarity=0.581 Sum_probs=25.8
Q ss_pred CCcccccccCCCCC-----CCCeeccCcCcccHHHHHHHH
Q 023268 219 EDVTTCPICQASPT-----TPFLALPCQHRYCYYCLRTRC 253 (284)
Q Consensus 219 ~~~~~C~iC~~~~~-----~p~~~~~CgH~fC~~Ci~~~~ 253 (284)
.+.-.||-|.-... |-+..+.|||.|||-|-...-
T Consensus 366 ~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~ 405 (445)
T KOG1814|consen 366 SNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLY 405 (445)
T ss_pred hcCCCCCcccceeecCCCccceeeccccccceeehhhhcC
Confidence 35678998876543 445678999999999987544
No 189
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=31.36 E-value=42 Score=27.98 Aligned_cols=38 Identities=24% Similarity=0.460 Sum_probs=24.6
Q ss_pred CCCcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcccccc
Q 023268 218 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQR 273 (284)
Q Consensus 218 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~ 273 (284)
......||.|....+-- +.+. ..+.||.|+.++...+.
T Consensus 114 ~~~~Y~Cp~C~~rytf~----------------eA~~--~~F~Cp~Cg~~L~~~dn 151 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFD----------------EAME--YGFRCPQCGEMLEEYDN 151 (178)
T ss_pred CCCEEECCCCCcEEeHH----------------HHhh--cCCcCCCCCCCCeeccc
Confidence 45678899887533311 1122 36999999999876553
No 190
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=30.68 E-value=18 Score=32.91 Aligned_cols=36 Identities=19% Similarity=0.350 Sum_probs=24.9
Q ss_pred CCCCCeeccCcCcccHHHHHHHHhcC----CCCccCCCCcCcc
Q 023268 231 PTTPFLALPCQHRYCYYCLRTRCAAS----PSFRCSRCNEPVI 269 (284)
Q Consensus 231 ~~~p~~~~~CgH~fC~~Ci~~~~~~~----~~~~CP~C~~~~~ 269 (284)
.++|++-+.|||+--| ..|-..+ ...+||+|+..-.
T Consensus 313 ~~QP~vYl~CGHV~G~---H~WG~~e~~g~~~r~CPmC~~~gp 352 (429)
T KOG3842|consen 313 EKQPWVYLNCGHVHGY---HNWGVRENTGQRERECPMCRVVGP 352 (429)
T ss_pred ccCCeEEEeccccccc---cccccccccCcccCcCCeeeeecc
Confidence 3479999999998876 3343321 2468999987544
No 191
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=30.65 E-value=32 Score=31.29 Aligned_cols=50 Identities=6% Similarity=-0.146 Sum_probs=35.5
Q ss_pred CCcccccccCCCCCCCCeeccCcCc-ccHHHHHHHHhcCCCCccCCCCcCcccccc
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIAMQR 273 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~C~~~~~~~~~ 273 (284)
....+|-.|.+..... .-.+|||. ||-.|.... ....||.|........|
T Consensus 341 ~s~~~~~~~~~~~~st-~~~~~~~n~~~~~~a~~s----~~~~~~~c~~~~~~~~~ 391 (394)
T KOG2113|consen 341 MSSLKGTSAGFGLLST-IWSGGNMNLSPGSLASAS----ASPTSSTCDHNDHTLVP 391 (394)
T ss_pred hhhcccccccCceeee-EeecCCcccChhhhhhcc----cCCccccccccceeeee
Confidence 4568899998766555 45799985 788887632 35799999886654433
No 192
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=30.63 E-value=11 Score=29.00 Aligned_cols=11 Identities=27% Similarity=1.005 Sum_probs=8.2
Q ss_pred CCccCCCCcCc
Q 023268 258 SFRCSRCNEPV 268 (284)
Q Consensus 258 ~~~CP~C~~~~ 268 (284)
...||.|+.+-
T Consensus 86 ~~~CP~Cgs~~ 96 (115)
T TIGR00100 86 LYRCPKCHGIM 96 (115)
T ss_pred CccCcCCcCCC
Confidence 45799998754
No 193
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.62 E-value=15 Score=35.23 Aligned_cols=34 Identities=24% Similarity=0.761 Sum_probs=21.5
Q ss_pred cccccccCCCCCCC-------CeeccCcCcccHHHHHHHHh
Q 023268 221 VTTCPICQASPTTP-------FLALPCQHRYCYYCLRTRCA 254 (284)
Q Consensus 221 ~~~C~iC~~~~~~p-------~~~~~CgH~fC~~Ci~~~~~ 254 (284)
.-.||.|..+...- ....+|.|.|||.|+..|..
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~ 266 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSD 266 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeeccccc
Confidence 34499997654311 11124999999999665544
No 194
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=30.46 E-value=20 Score=31.94 Aligned_cols=12 Identities=25% Similarity=0.899 Sum_probs=8.8
Q ss_pred CCccCCCCcCcc
Q 023268 258 SFRCSRCNEPVI 269 (284)
Q Consensus 258 ~~~CP~C~~~~~ 269 (284)
-+.||.|++.+.
T Consensus 215 PF~C~hC~kAFA 226 (279)
T KOG2462|consen 215 PFSCPHCGKAFA 226 (279)
T ss_pred CccCCcccchhc
Confidence 477888887764
No 195
>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=30.02 E-value=21 Score=20.18 Aligned_cols=10 Identities=20% Similarity=0.870 Sum_probs=5.7
Q ss_pred ccCCCCcCcc
Q 023268 260 RCSRCNEPVI 269 (284)
Q Consensus 260 ~CP~C~~~~~ 269 (284)
.||.|+.++.
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 5999998886
No 196
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=29.61 E-value=12 Score=19.12 Aligned_cols=12 Identities=17% Similarity=0.609 Sum_probs=6.3
Q ss_pred ccCCCCcCcccc
Q 023268 260 RCSRCNEPVIAM 271 (284)
Q Consensus 260 ~CP~C~~~~~~~ 271 (284)
.||.|+..+...
T Consensus 2 ~C~~C~~~~~~~ 13 (24)
T PF13894_consen 2 QCPICGKSFRSK 13 (24)
T ss_dssp E-SSTS-EESSH
T ss_pred CCcCCCCcCCcH
Confidence 577777766543
No 197
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=29.34 E-value=18 Score=27.77 Aligned_cols=11 Identities=36% Similarity=0.917 Sum_probs=9.6
Q ss_pred CccCCCCcCcc
Q 023268 259 FRCSRCNEPVI 269 (284)
Q Consensus 259 ~~CP~C~~~~~ 269 (284)
..|+.|++|++
T Consensus 86 D~CM~C~~pLT 96 (114)
T PF11023_consen 86 DACMHCKEPLT 96 (114)
T ss_pred hccCcCCCcCc
Confidence 48999999987
No 198
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=29.26 E-value=35 Score=34.79 Aligned_cols=42 Identities=17% Similarity=0.332 Sum_probs=28.7
Q ss_pred CcccccccCCCCC-CCCeeccCcCcccHHHHHHHHhcCCCCccCC
Q 023268 220 DVTTCPICQASPT-TPFLALPCQHRYCYYCLRTRCAASPSFRCSR 263 (284)
Q Consensus 220 ~~~~C~iC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~ 263 (284)
....|.+|.-... -......|||+.--+|..+|+..+. .||.
T Consensus 1027 ~~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd--~Cps 1069 (1081)
T KOG0309|consen 1027 FTFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGD--VCPS 1069 (1081)
T ss_pred ceeeeeeEeeEeeccchhhccccccccHHHHHHHHhcCC--cCCC
Confidence 3455777743222 2224568999999999999999754 7774
No 199
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=29.12 E-value=38 Score=20.70 Aligned_cols=23 Identities=22% Similarity=0.616 Sum_probs=14.6
Q ss_pred ccccCCCCCC-CCeeccCcCcccH
Q 023268 224 CPICQASPTT-PFLALPCQHRYCY 246 (284)
Q Consensus 224 C~iC~~~~~~-p~~~~~CgH~fC~ 246 (284)
|.+|.+.... |..-.-|+.+||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 5567654444 7555558888885
No 200
>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=29.04 E-value=39 Score=25.82 Aligned_cols=9 Identities=56% Similarity=1.139 Sum_probs=4.9
Q ss_pred cccccccCC
Q 023268 221 VTTCPICQA 229 (284)
Q Consensus 221 ~~~C~iC~~ 229 (284)
...|+-|..
T Consensus 9 KR~Cp~CG~ 17 (108)
T PF09538_consen 9 KRTCPSCGA 17 (108)
T ss_pred cccCCCCcc
Confidence 345666653
No 201
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=28.63 E-value=21 Score=28.61 Aligned_cols=32 Identities=25% Similarity=0.726 Sum_probs=22.4
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccH-HHHHHH
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCY-YCLRTR 252 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~-~Ci~~~ 252 (284)
..-..|+||.- .-++....||..||. .|...+
T Consensus 116 P~r~fCaVCG~--~S~ysC~~CG~kyCsv~C~~~H 148 (156)
T KOG3362|consen 116 PLRKFCAVCGY--DSKYSCVNCGTKYCSVRCLKTH 148 (156)
T ss_pred CcchhhhhcCC--CchhHHHhcCCceeechhhhhc
Confidence 34568999993 334456899999996 566543
No 202
>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=28.50 E-value=41 Score=30.75 Aligned_cols=56 Identities=16% Similarity=0.460 Sum_probs=36.6
Q ss_pred CCcccccccCCCCC----------CCCeeccCcCcccHHHHHHHHhc-----CCCCccCCCCcCcccccccccC
Q 023268 219 EDVTTCPICQASPT----------TPFLALPCQHRYCYYCLRTRCAA-----SPSFRCSRCNEPVIAMQRHGVI 277 (284)
Q Consensus 219 ~~~~~C~iC~~~~~----------~p~~~~~CgH~fC~~Ci~~~~~~-----~~~~~CP~C~~~~~~~~~~~~~ 277 (284)
.....|..|....+ .|..+..|| =.+|+.+..+. ++.+.||.|+..-..-++..+.
T Consensus 233 ~srlqC~~C~~TStT~a~fs~l~vp~~~v~~~~---l~eC~~~f~~~e~L~g~d~W~CpkC~~k~ss~K~~~I~ 303 (415)
T COG5533 233 KSRLQCEACNYTSTTIAMFSTLLVPPYEVVQLG---LQECIDRFYEEEKLEGKDAWRCPKCGRKESSRKRMEIL 303 (415)
T ss_pred hhhhhhhhcCCceeEEeccceeeeccchheeec---HHHHHHHhhhHHhhcCcccccCchhcccccchheEEEE
Confidence 34688999976433 222334566 47888876543 3579999999887766665554
No 203
>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=28.29 E-value=28 Score=19.25 Aligned_cols=9 Identities=33% Similarity=0.855 Sum_probs=7.4
Q ss_pred ccCCCCcCc
Q 023268 260 RCSRCNEPV 268 (284)
Q Consensus 260 ~CP~C~~~~ 268 (284)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 699998876
No 204
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=28.03 E-value=27 Score=22.75 Aligned_cols=14 Identities=14% Similarity=0.378 Sum_probs=10.0
Q ss_pred CCCccCCCCcCccc
Q 023268 257 PSFRCSRCNEPVIA 270 (284)
Q Consensus 257 ~~~~CP~C~~~~~~ 270 (284)
..+.||+|+.+-..
T Consensus 33 ~~w~CP~C~a~K~~ 46 (50)
T cd00730 33 DDWVCPVCGAGKDD 46 (50)
T ss_pred CCCCCCCCCCcHHH
Confidence 36889999876443
No 205
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=28.03 E-value=18 Score=33.98 Aligned_cols=12 Identities=17% Similarity=0.578 Sum_probs=9.4
Q ss_pred CCccCCCCcCccc
Q 023268 258 SFRCSRCNEPVIA 270 (284)
Q Consensus 258 ~~~CP~C~~~~~~ 270 (284)
.+.|| |+.+++.
T Consensus 259 ~~~Cp-CG~~i~~ 270 (374)
T TIGR00375 259 CANCP-CGGRIKK 270 (374)
T ss_pred CCCCC-CCCccee
Confidence 47899 9998753
No 206
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=27.68 E-value=22 Score=23.51 Aligned_cols=31 Identities=19% Similarity=0.577 Sum_probs=16.5
Q ss_pred ccccc--cCCCCC-----CC--CeeccCcCcccHHHHHHH
Q 023268 222 TTCPI--CQASPT-----TP--FLALPCQHRYCYYCLRTR 252 (284)
Q Consensus 222 ~~C~i--C~~~~~-----~p--~~~~~CgH~fC~~Ci~~~ 252 (284)
..||- |..... +. +.-..|++.||+.|-..|
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 47766 764322 11 334459999999987655
No 207
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=27.64 E-value=26 Score=22.72 Aligned_cols=15 Identities=20% Similarity=0.756 Sum_probs=11.2
Q ss_pred CCCCccCCCCcCccc
Q 023268 256 SPSFRCSRCNEPVIA 270 (284)
Q Consensus 256 ~~~~~CP~C~~~~~~ 270 (284)
.....||.|+..+--
T Consensus 22 ~~~irCp~Cg~rIl~ 36 (49)
T COG1996 22 TRGIRCPYCGSRILV 36 (49)
T ss_pred cCceeCCCCCcEEEE
Confidence 346789999987753
No 208
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=27.38 E-value=7 Score=30.05 Aligned_cols=11 Identities=45% Similarity=1.232 Sum_probs=6.9
Q ss_pred CCccCCCCcCc
Q 023268 258 SFRCSRCNEPV 268 (284)
Q Consensus 258 ~~~CP~C~~~~ 268 (284)
...||.|+..-
T Consensus 86 ~~~CP~Cgs~~ 96 (113)
T PF01155_consen 86 DFSCPRCGSPD 96 (113)
T ss_dssp CHH-SSSSSS-
T ss_pred CCCCcCCcCCC
Confidence 35699999864
No 209
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=27.11 E-value=86 Score=20.80 Aligned_cols=43 Identities=19% Similarity=0.481 Sum_probs=29.2
Q ss_pred CcccccccCCCCC--C-CCeeccCcCcccHHHHHHHHhcCCCCccCC--CCcCc
Q 023268 220 DVTTCPICQASPT--T-PFLALPCQHRYCYYCLRTRCAASPSFRCSR--CNEPV 268 (284)
Q Consensus 220 ~~~~C~iC~~~~~--~-p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~--C~~~~ 268 (284)
....|++|.+.++ + -++...||-.|=..|... ...|-. |+.+.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~------~g~C~~~~c~~~~ 51 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK------AGGCINYSCGTGF 51 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh------CCceEeccCCCCc
Confidence 3568999998873 3 334578998888888653 346655 65544
No 210
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=27.00 E-value=41 Score=21.24 Aligned_cols=25 Identities=24% Similarity=0.599 Sum_probs=17.3
Q ss_pred cccccCCCCCCCCeeccCcCcccHHH
Q 023268 223 TCPICQASPTTPFLALPCQHRYCYYC 248 (284)
Q Consensus 223 ~C~iC~~~~~~p~~~~~CgH~fC~~C 248 (284)
+|..|.... +-++.+.|++++|..-
T Consensus 1 ~C~~C~~~~-~l~~CL~C~~~~c~~~ 25 (50)
T smart00290 1 RCSVCGTIE-NLWLCLTCGQVGCGRY 25 (50)
T ss_pred CcccCCCcC-CeEEecCCCCcccCCC
Confidence 477787544 3456788999999543
No 211
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=26.91 E-value=31 Score=30.49 Aligned_cols=23 Identities=26% Similarity=0.681 Sum_probs=14.3
Q ss_pred ccccccCCCCCCCCeeccC--cCcc
Q 023268 222 TTCPICQASPTTPFLALPC--QHRY 244 (284)
Q Consensus 222 ~~C~iC~~~~~~p~~~~~C--gH~f 244 (284)
..||+|.+.....-....| ||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 5799999877521123444 6666
No 212
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.84 E-value=30 Score=24.63 Aligned_cols=34 Identities=15% Similarity=0.435 Sum_probs=22.9
Q ss_pred CCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 234 PFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 234 p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
.|..+.|||.|= +.+.+..++...||.|+.++..
T Consensus 12 ~Y~c~~cg~~~d---vvq~~~ddplt~ce~c~a~~kk 45 (82)
T COG2331 12 SYECTECGNRFD---VVQAMTDDPLTTCEECGARLKK 45 (82)
T ss_pred EEeecccchHHH---HHHhcccCccccChhhChHHHH
Confidence 345678888653 3445555567799999997753
No 213
>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=26.69 E-value=64 Score=19.29 Aligned_cols=26 Identities=23% Similarity=0.543 Sum_probs=13.6
Q ss_pred ccHHHHHHHHhcC------CCCccCCCCcCcc
Q 023268 244 YCYYCLRTRCAAS------PSFRCSRCNEPVI 269 (284)
Q Consensus 244 fC~~Ci~~~~~~~------~~~~CP~C~~~~~ 269 (284)
.|..|..++.... +...|+.|+-.++
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 3677777764321 3468999987665
No 214
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=26.69 E-value=34 Score=27.08 Aligned_cols=29 Identities=14% Similarity=0.244 Sum_probs=17.6
Q ss_pred CCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCc
Q 023268 234 PFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 268 (284)
Q Consensus 234 p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~ 268 (284)
|+..+.||++|=-.=.. + ...||.|+-.-
T Consensus 1 PH~Ct~Cg~~f~dgs~e--i----l~GCP~CGg~k 29 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGSKE--I----LSGCPECGGNK 29 (131)
T ss_pred CcccCcCCCCcCCCcHH--H----HccCcccCCcc
Confidence 45667888877532111 1 34799998654
No 215
>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=26.65 E-value=12 Score=21.73 Aligned_cols=25 Identities=32% Similarity=0.664 Sum_probs=10.9
Q ss_pred CcccHHHHHHHHhc--CCCCccCCCCc
Q 023268 242 HRYCYYCLRTRCAA--SPSFRCSRCNE 266 (284)
Q Consensus 242 H~fC~~Ci~~~~~~--~~~~~CP~C~~ 266 (284)
|.||..|=...... +....||.|+.
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 56666665544332 12456777765
No 216
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=26.44 E-value=42 Score=31.87 Aligned_cols=46 Identities=28% Similarity=0.625 Sum_probs=35.7
Q ss_pred CcccccccCCCCC-CCCeeccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 220 DVTTCPICQASPT-TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 220 ~~~~C~iC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
.-++|.+|.+-+. .|.+...-..++|-.|..+.+. ..|-+|..+|.
T Consensus 359 ~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfA----PrCs~C~~PI~ 405 (468)
T KOG1701|consen 359 GCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFA----PRCSVCGNPIL 405 (468)
T ss_pred CceEEEEeccccCCccccccCCCceeeehhhhhhcC----cchhhccCCcc
Confidence 4678888876553 6766678889999999887663 68999999885
No 217
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=26.43 E-value=22 Score=27.27 Aligned_cols=30 Identities=20% Similarity=0.392 Sum_probs=23.0
Q ss_pred CCcccccccCCCCCCCCeeccCcCcccHHHHHH
Q 023268 219 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRT 251 (284)
Q Consensus 219 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~ 251 (284)
.....|+-|.....-| .+|++.+|..|-..
T Consensus 40 ~~~~~C~~Cg~~~~~~---~SCk~R~CP~C~~~ 69 (111)
T PF14319_consen 40 FHRYRCEDCGHEKIVY---NSCKNRHCPSCQAK 69 (111)
T ss_pred cceeecCCCCceEEec---CcccCcCCCCCCCh
Confidence 3457899998877655 58999999999654
No 218
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=25.72 E-value=36 Score=21.83 Aligned_cols=11 Identities=27% Similarity=0.933 Sum_probs=6.9
Q ss_pred CCCccCCCCcC
Q 023268 257 PSFRCSRCNEP 267 (284)
Q Consensus 257 ~~~~CP~C~~~ 267 (284)
..+.||+|+.+
T Consensus 33 ~~w~CP~C~a~ 43 (47)
T PF00301_consen 33 DDWVCPVCGAP 43 (47)
T ss_dssp TT-B-TTTSSB
T ss_pred CCCcCcCCCCc
Confidence 46889999875
No 219
>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=25.61 E-value=9.8 Score=22.57 Aligned_cols=13 Identities=23% Similarity=0.631 Sum_probs=9.5
Q ss_pred CccCCCCcCcccc
Q 023268 259 FRCSRCNEPVIAM 271 (284)
Q Consensus 259 ~~CP~C~~~~~~~ 271 (284)
..||+|+.+-..+
T Consensus 19 ~~CP~Cg~~~~~F 31 (34)
T cd00729 19 EKCPICGAPKEKF 31 (34)
T ss_pred CcCcCCCCchHHc
Confidence 5899999865443
No 220
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=25.42 E-value=57 Score=21.74 Aligned_cols=12 Identities=33% Similarity=0.958 Sum_probs=7.6
Q ss_pred CCccCCCCcCcc
Q 023268 258 SFRCSRCNEPVI 269 (284)
Q Consensus 258 ~~~CP~C~~~~~ 269 (284)
.+.||.||-|.-
T Consensus 14 ~~~Cp~cGipth 25 (55)
T PF13824_consen 14 NFECPDCGIPTH 25 (55)
T ss_pred CCcCCCCCCcCc
Confidence 466777776653
No 221
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=24.96 E-value=23 Score=27.36 Aligned_cols=9 Identities=22% Similarity=0.833 Sum_probs=7.1
Q ss_pred ccCCCCcCc
Q 023268 260 RCSRCNEPV 268 (284)
Q Consensus 260 ~CP~C~~~~ 268 (284)
.||.|+.+.
T Consensus 90 ~CP~Cgs~~ 98 (117)
T PRK00564 90 VCEKCHSKN 98 (117)
T ss_pred cCcCCCCCc
Confidence 599999764
No 222
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=24.79 E-value=35 Score=27.26 Aligned_cols=11 Identities=18% Similarity=0.664 Sum_probs=6.9
Q ss_pred CCccCCCCcCc
Q 023268 258 SFRCSRCNEPV 268 (284)
Q Consensus 258 ~~~CP~C~~~~ 268 (284)
...||.|+.+.
T Consensus 43 r~~Cp~C~~~~ 53 (140)
T COG1545 43 RAYCPKCGSET 53 (140)
T ss_pred cccCCCCCCCC
Confidence 44677777664
No 223
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=24.50 E-value=72 Score=32.29 Aligned_cols=13 Identities=15% Similarity=0.468 Sum_probs=8.0
Q ss_pred CCccCCCCcCccc
Q 023268 258 SFRCSRCNEPVIA 270 (284)
Q Consensus 258 ~~~CP~C~~~~~~ 270 (284)
...||.|+.+...
T Consensus 41 ~~fC~~CG~~~~~ 53 (645)
T PRK14559 41 EAHCPNCGAETGT 53 (645)
T ss_pred cccccccCCcccc
Confidence 3467777766654
No 224
>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=24.19 E-value=22 Score=18.33 Aligned_cols=11 Identities=18% Similarity=0.761 Sum_probs=8.1
Q ss_pred ccCCCCcCccc
Q 023268 260 RCSRCNEPVIA 270 (284)
Q Consensus 260 ~CP~C~~~~~~ 270 (284)
.||.|++.+..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 58888877764
No 225
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=23.82 E-value=19 Score=27.73 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=7.5
Q ss_pred CccCCCCcCc
Q 023268 259 FRCSRCNEPV 268 (284)
Q Consensus 259 ~~CP~C~~~~ 268 (284)
..||.|+..-
T Consensus 88 ~~CP~Cgs~~ 97 (114)
T PRK03681 88 RRCPQCHGDM 97 (114)
T ss_pred CcCcCcCCCC
Confidence 5699998653
No 226
>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=23.71 E-value=49 Score=22.86 Aligned_cols=13 Identities=23% Similarity=0.644 Sum_probs=9.1
Q ss_pred cccHHHHHHHHhc
Q 023268 243 RYCYYCLRTRCAA 255 (284)
Q Consensus 243 ~fC~~Ci~~~~~~ 255 (284)
-||..|+..|...
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999863
No 227
>PHA00626 hypothetical protein
Probab=23.54 E-value=58 Score=21.77 Aligned_cols=12 Identities=17% Similarity=0.515 Sum_probs=5.9
Q ss_pred CCccCCCCcCcc
Q 023268 258 SFRCSRCNEPVI 269 (284)
Q Consensus 258 ~~~CP~C~~~~~ 269 (284)
...||.|+..++
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 345555555443
No 228
>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 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=23.18 E-value=36 Score=18.63 Aligned_cols=9 Identities=33% Similarity=0.988 Sum_probs=6.6
Q ss_pred CCccCCCCc
Q 023268 258 SFRCSRCNE 266 (284)
Q Consensus 258 ~~~CP~C~~ 266 (284)
.+.||.|+.
T Consensus 16 ~f~CPnCG~ 24 (24)
T PF07754_consen 16 PFPCPNCGF 24 (24)
T ss_pred eEeCCCCCC
Confidence 578888873
No 230
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.13 E-value=24 Score=22.72 Aligned_cols=13 Identities=23% Similarity=0.503 Sum_probs=9.6
Q ss_pred CCccCCCCcCccc
Q 023268 258 SFRCSRCNEPVIA 270 (284)
Q Consensus 258 ~~~CP~C~~~~~~ 270 (284)
.+.||+|+.|+..
T Consensus 12 ~KICpvCqRPFsW 24 (54)
T COG4338 12 DKICPVCQRPFSW 24 (54)
T ss_pred hhhhhhhcCchHH
Confidence 4678888888754
No 231
>PLN02248 cellulose synthase-like protein
Probab=23.05 E-value=75 Score=34.06 Aligned_cols=30 Identities=23% Similarity=0.579 Sum_probs=26.0
Q ss_pred cCcCcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 239 PCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 239 ~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
.|++..|.+|....+.. ...||-|.++...
T Consensus 149 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 178 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKS--GGICPGCKEPYKV 178 (1135)
T ss_pred cccchhHHhHhhhhhhc--CCCCCCCcccccc
Confidence 79999999999998875 4699999998854
No 232
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=23.01 E-value=50 Score=22.27 Aligned_cols=14 Identities=21% Similarity=0.655 Sum_probs=10.8
Q ss_pred CCCccCCCCcCccc
Q 023268 257 PSFRCSRCNEPVIA 270 (284)
Q Consensus 257 ~~~~CP~C~~~~~~ 270 (284)
+...|++|++++..
T Consensus 7 PH~HC~VCg~aIp~ 20 (64)
T COG4068 7 PHRHCVVCGKAIPP 20 (64)
T ss_pred CCccccccCCcCCC
Confidence 45689999988863
No 233
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=23.01 E-value=45 Score=29.12 Aligned_cols=44 Identities=20% Similarity=0.359 Sum_probs=35.9
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHHHHhcCCCCccCC
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSR 263 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~ 263 (284)
-+.+|||-.++..-|.....|.|.|=.+-|...++......||+
T Consensus 188 ~~nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 188 LSNRCPITLNPDFYPILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred hcccCCcccCcchhHHHHhhhcccccHHHHHHHhcCCceeecch
Confidence 46899998888888877789999999999998887544556765
No 234
>PRK01343 zinc-binding protein; Provisional
Probab=22.94 E-value=63 Score=21.70 Aligned_cols=16 Identities=25% Similarity=0.542 Sum_probs=12.1
Q ss_pred CcccccccCCCCCCCC
Q 023268 220 DVTTCPICQASPTTPF 235 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~ 235 (284)
....||+|......++
T Consensus 8 p~~~CP~C~k~~~~~~ 23 (57)
T PRK01343 8 PTRPCPECGKPSTREA 23 (57)
T ss_pred CCCcCCCCCCcCcCCC
Confidence 4578999998776654
No 235
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=22.88 E-value=20 Score=29.58 Aligned_cols=15 Identities=20% Similarity=0.490 Sum_probs=10.6
Q ss_pred CCccCCCCcCccccc
Q 023268 258 SFRCSRCNEPVIAMQ 272 (284)
Q Consensus 258 ~~~CP~C~~~~~~~~ 272 (284)
...||+|+.+-..+.
T Consensus 149 P~~CPiCga~k~~F~ 163 (166)
T COG1592 149 PEVCPICGAPKEKFE 163 (166)
T ss_pred CCcCCCCCChHHHhh
Confidence 468999998755443
No 236
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=22.59 E-value=39 Score=23.23 Aligned_cols=19 Identities=11% Similarity=0.218 Sum_probs=12.8
Q ss_pred CCccCCCCcCccccccccc
Q 023268 258 SFRCSRCNEPVIAMQRHGV 276 (284)
Q Consensus 258 ~~~CP~C~~~~~~~~~~~~ 276 (284)
...||.|+.....-+..|+
T Consensus 17 ~~~Cp~Cgs~~~S~~w~G~ 35 (64)
T PRK06393 17 EKTCPVHGDEKTTTEWFGF 35 (64)
T ss_pred CCcCCCCCCCcCCcCcceE
Confidence 3489999987655555444
No 237
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=22.46 E-value=25 Score=34.03 Aligned_cols=33 Identities=24% Similarity=0.470 Sum_probs=22.1
Q ss_pred CCcccccccCCCCC---CCCeeccCcCcccHHHHHH
Q 023268 219 EDVTTCPICQASPT---TPFLALPCQHRYCYYCLRT 251 (284)
Q Consensus 219 ~~~~~C~iC~~~~~---~p~~~~~CgH~fC~~Ci~~ 251 (284)
++...|..|+-++. ..+....||.+||..|-..
T Consensus 899 ~~a~~cmacq~pf~afrrrhhcrncggifcg~cs~a 934 (990)
T KOG1819|consen 899 EDAEQCMACQMPFNAFRRRHHCRNCGGIFCGKCSCA 934 (990)
T ss_pred CcchhhhhccCcHHHHHHhhhhcccCceeecccccC
Confidence 45567777775433 2234578999999998654
No 238
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=22.37 E-value=29 Score=20.89 Aligned_cols=13 Identities=46% Similarity=0.933 Sum_probs=8.2
Q ss_pred ccccccCCCCCCC
Q 023268 222 TTCPICQASPTTP 234 (284)
Q Consensus 222 ~~C~iC~~~~~~p 234 (284)
..||-|...+..|
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 3577777665544
No 239
>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=22.09 E-value=39 Score=32.91 Aligned_cols=48 Identities=21% Similarity=0.456 Sum_probs=23.8
Q ss_pred ccccccCCCCCCCCeeccCcCcccHHHHHHHHhcC----------CCCccCCCCcCcc
Q 023268 222 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAAS----------PSFRCSRCNEPVI 269 (284)
Q Consensus 222 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~----------~~~~CP~C~~~~~ 269 (284)
..|..|......-.+.-.=-..||..|+...-..+ .=+.||.|..++.
T Consensus 6 ~fC~~C~~irc~~c~~~Ei~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf~CP~C~~~L~ 63 (483)
T PF05502_consen 6 YFCEHCHKIRCPRCVSEEIDSYYCPNCLFEVPSSEARSEKNRCSRNCFDCPICFSPLS 63 (483)
T ss_pred eecccccccCChhhcccccceeECccccccCChhhheeccceeccccccCCCCCCcce
Confidence 34555554433222222223346666665443210 1267999988876
No 240
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=21.92 E-value=57 Score=29.18 Aligned_cols=50 Identities=22% Similarity=0.458 Sum_probs=33.0
Q ss_pred CcccccccCCCCCC----CCeeccCc-----CcccHHHHHHHHhcCCCCccCCCCcCccc
Q 023268 220 DVTTCPICQASPTT----PFLALPCQ-----HRYCYYCLRTRCAASPSFRCSRCNEPVIA 270 (284)
Q Consensus 220 ~~~~C~iC~~~~~~----p~~~~~Cg-----H~fC~~Ci~~~~~~~~~~~CP~C~~~~~~ 270 (284)
+...|.||...... + ...+|. ...=..|+..|....++..|..|......
T Consensus 77 ~~~~cRIc~~~~~~~~~~~-l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLL-LISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCCcEEEEecccccccccc-cccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 35789999873321 2 223442 22237899999987778899999886653
No 241
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=21.51 E-value=41 Score=18.32 Aligned_cols=11 Identities=18% Similarity=0.537 Sum_probs=8.8
Q ss_pred CccCCCCcCcc
Q 023268 259 FRCSRCNEPVI 269 (284)
Q Consensus 259 ~~CP~C~~~~~ 269 (284)
..||.|+..+.
T Consensus 3 ~~C~~CgR~F~ 13 (25)
T PF13913_consen 3 VPCPICGRKFN 13 (25)
T ss_pred CcCCCCCCEEC
Confidence 47999998874
No 242
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=21.49 E-value=26 Score=30.11 Aligned_cols=15 Identities=33% Similarity=0.698 Sum_probs=11.3
Q ss_pred CcccccccCCCCCCC
Q 023268 220 DVTTCPICQASPTTP 234 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p 234 (284)
....||+|...++..
T Consensus 4 k~~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 4 KKITCPVCGKEFKTK 18 (214)
T ss_pred CceECCCCCCeeeee
Confidence 457899999876644
No 243
>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=21.35 E-value=87 Score=20.08 Aligned_cols=32 Identities=16% Similarity=0.339 Sum_probs=23.4
Q ss_pred CcccccccCCCCCCCCeeccCcCcccHHHHHH
Q 023268 220 DVTTCPICQASPTTPFLALPCQHRYCYYCLRT 251 (284)
Q Consensus 220 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~ 251 (284)
+-..|..|...+........=|..||..|..+
T Consensus 25 ~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp TTSBETTTTCBTTTSSEEEETTEEEEHHHHHH
T ss_pred cccccCCCCCccCCCeeEeECCEEECHHHHhh
Confidence 46788999887765533456778899988765
No 244
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=21.11 E-value=24 Score=31.63 Aligned_cols=8 Identities=25% Similarity=0.675 Sum_probs=4.9
Q ss_pred ccccccCC
Q 023268 222 TTCPICQA 229 (284)
Q Consensus 222 ~~C~iC~~ 229 (284)
.-|+-|..
T Consensus 112 RFCg~CG~ 119 (279)
T COG2816 112 RFCGRCGT 119 (279)
T ss_pred cCCCCCCC
Confidence 35777764
No 245
>PRK00420 hypothetical protein; Validated
Probab=21.07 E-value=21 Score=27.46 Aligned_cols=10 Identities=30% Similarity=0.979 Sum_probs=7.2
Q ss_pred ccccccCCCC
Q 023268 222 TTCPICQASP 231 (284)
Q Consensus 222 ~~C~iC~~~~ 231 (284)
..||.|..++
T Consensus 24 ~~CP~Cg~pL 33 (112)
T PRK00420 24 KHCPVCGLPL 33 (112)
T ss_pred CCCCCCCCcc
Confidence 5799998543
No 246
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=21.02 E-value=19 Score=27.85 Aligned_cols=11 Identities=27% Similarity=0.975 Sum_probs=7.7
Q ss_pred CCccCCCCcCc
Q 023268 258 SFRCSRCNEPV 268 (284)
Q Consensus 258 ~~~CP~C~~~~ 268 (284)
...||.|+..-
T Consensus 86 ~~~CP~C~s~~ 96 (115)
T COG0375 86 DYRCPKCGSIN 96 (115)
T ss_pred eeECCCCCCCc
Confidence 44599998654
No 247
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=20.65 E-value=44 Score=22.16 Aligned_cols=11 Identities=27% Similarity=0.933 Sum_probs=7.9
Q ss_pred CccCCCCcCcc
Q 023268 259 FRCSRCNEPVI 269 (284)
Q Consensus 259 ~~CP~C~~~~~ 269 (284)
+.||.|++.+.
T Consensus 3 ~~CP~CG~~ie 13 (54)
T TIGR01206 3 FECPDCGAEIE 13 (54)
T ss_pred cCCCCCCCEEe
Confidence 57888887664
No 248
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=20.50 E-value=1.1e+02 Score=25.20 Aligned_cols=32 Identities=16% Similarity=0.300 Sum_probs=19.4
Q ss_pred ccCcCcccHHHHHHHHhcCCCCccCCCCcCcc
Q 023268 238 LPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269 (284)
Q Consensus 238 ~~CgH~fC~~Ci~~~~~~~~~~~CP~C~~~~~ 269 (284)
..|++.+-..-+...........||.|+..+.
T Consensus 109 ~~C~~~~~~~~~~~~~~~~~~~~C~~C~~~lr 140 (178)
T PF02146_consen 109 SKCGKEYDREDIVDSIDEEEPPRCPKCGGLLR 140 (178)
T ss_dssp TTTSBEEEGHHHHHHHHTTSSCBCTTTSCBEE
T ss_pred cCCCccccchhhcccccccccccccccCccCC
Confidence 34555555544444444445579999998653
No 249
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=20.40 E-value=23 Score=23.28 Aligned_cols=9 Identities=56% Similarity=1.324 Sum_probs=2.4
Q ss_pred CcccccccC
Q 023268 220 DVTTCPICQ 228 (284)
Q Consensus 220 ~~~~C~iC~ 228 (284)
....||+|.
T Consensus 23 ~PatCP~C~ 31 (54)
T PF09237_consen 23 QPATCPICG 31 (54)
T ss_dssp --EE-TTT-
T ss_pred CCCCCCcch
Confidence 334445444
No 250
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=20.25 E-value=43 Score=29.26 Aligned_cols=51 Identities=20% Similarity=0.365 Sum_probs=34.3
Q ss_pred ccccc--ccCCCCCCCCeeccCcCcccHHHHH--------HHHhcCCCCccCCCCcCcccc
Q 023268 221 VTTCP--ICQASPTTPFLALPCQHRYCYYCLR--------TRCAASPSFRCSRCNEPVIAM 271 (284)
Q Consensus 221 ~~~C~--iC~~~~~~p~~~~~CgH~fC~~Ci~--------~~~~~~~~~~CP~C~~~~~~~ 271 (284)
.-.|. .|.+.=--|.....|+++||..=.. ..........||.|..++...
T Consensus 8 GkHCs~~~CkqlDFLPf~Cd~C~~~FC~eHrsye~H~Cp~~~~~~~~v~icp~cs~pv~~~ 68 (250)
T KOG3183|consen 8 GKHCSVPYCKQLDFLPFKCDGCSGIFCLEHRSYESHHCPKGLRIDVQVPICPLCSKPVPTK 68 (250)
T ss_pred ccccCcchhhhccccceeeCCccchhhhccchHhhcCCCcccccceeecccCCCCCCCCCC
Confidence 34576 7888777888889999999973211 000011357899999988754
Done!