Query 037842
Match_columns 78
No_of_seqs 198 out of 1821
Neff 9.3
Searched_HMMs 46136
Date Fri Mar 29 04:53:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037842.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037842hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03208 E3 ubiquitin-protein 99.7 6.1E-17 1.3E-21 96.3 6.2 66 7-72 10-91 (193)
2 KOG0317 Predicted E3 ubiquitin 99.6 6.3E-16 1.4E-20 96.0 4.1 62 6-67 230-291 (293)
3 KOG0823 Predicted E3 ubiquitin 99.6 1.9E-15 4.1E-20 91.5 5.3 62 12-73 44-108 (230)
4 PF15227 zf-C3HC4_4: zinc fing 99.6 8.3E-16 1.8E-20 71.7 2.5 38 18-55 1-42 (42)
5 KOG0320 Predicted E3 ubiquitin 99.6 1.3E-15 2.9E-20 89.1 3.8 58 12-69 128-187 (187)
6 PF13923 zf-C3HC4_2: Zinc fing 99.5 4.3E-15 9.4E-20 68.3 2.2 38 18-55 1-39 (39)
7 PF13920 zf-C3HC4_3: Zinc fing 99.5 7.9E-15 1.7E-19 70.7 2.7 46 15-60 2-48 (50)
8 smart00504 Ubox Modified RING 99.5 1.5E-14 3.2E-19 72.5 3.5 53 15-67 1-53 (63)
9 PF13639 zf-RING_2: Ring finge 99.5 7E-15 1.5E-19 69.2 1.2 40 17-56 2-44 (44)
10 TIGR00599 rad18 DNA repair pro 99.5 5.9E-14 1.3E-18 91.3 3.7 59 8-66 19-77 (397)
11 PHA02929 N1R/p28-like protein; 99.4 1E-13 2.2E-18 85.2 4.0 49 13-61 172-228 (238)
12 KOG0287 Postreplication repair 99.4 6.3E-14 1.4E-18 89.2 0.7 59 9-67 17-75 (442)
13 PF00097 zf-C3HC4: Zinc finger 99.4 4.6E-13 9.9E-18 61.9 2.4 38 18-55 1-41 (41)
14 cd00162 RING RING-finger (Real 99.3 2.2E-12 4.8E-17 59.9 3.1 42 17-58 1-44 (45)
15 KOG2164 Predicted E3 ubiquitin 99.3 1.2E-12 2.6E-17 86.6 2.6 60 15-74 186-250 (513)
16 PF04564 U-box: U-box domain; 99.3 5.5E-12 1.2E-16 65.1 3.3 55 13-67 2-57 (73)
17 PF14634 zf-RING_5: zinc-RING 99.2 7.9E-12 1.7E-16 58.7 3.2 41 17-57 1-44 (44)
18 COG5574 PEX10 RING-finger-cont 99.2 5.8E-12 1.3E-16 77.8 3.1 52 13-64 213-266 (271)
19 smart00184 RING Ring finger. E 99.2 1.3E-11 2.8E-16 55.5 3.5 38 18-55 1-39 (39)
20 COG5432 RAD18 RING-finger-cont 99.2 4.5E-12 9.8E-17 79.5 2.3 56 6-61 16-71 (391)
21 PF12678 zf-rbx1: RING-H2 zinc 99.2 1.2E-11 2.5E-16 63.9 3.1 41 16-56 20-73 (73)
22 PHA02926 zinc finger-like prot 99.2 6.7E-12 1.4E-16 76.1 1.8 51 11-61 166-231 (242)
23 PF13445 zf-RING_UBOX: RING-ty 99.2 1.5E-11 3.3E-16 57.5 1.8 30 18-48 1-34 (43)
24 KOG0978 E3 ubiquitin ligase in 99.2 1.1E-11 2.4E-16 85.0 1.6 56 14-69 642-698 (698)
25 KOG4628 Predicted E3 ubiquitin 99.1 4.3E-11 9.3E-16 76.8 3.7 45 16-60 230-278 (348)
26 PF14835 zf-RING_6: zf-RING of 99.1 5.2E-12 1.1E-16 63.1 -0.5 53 13-67 5-58 (65)
27 COG5243 HRD1 HRD ubiquitin lig 99.0 2.9E-10 6.4E-15 73.5 2.4 48 12-59 284-344 (491)
28 TIGR00570 cdk7 CDK-activating 99.0 5.6E-10 1.2E-14 70.8 3.6 57 15-71 3-65 (309)
29 KOG2177 Predicted E3 ubiquitin 99.0 3.1E-10 6.7E-15 70.0 1.9 48 9-56 7-54 (386)
30 KOG0802 E3 ubiquitin ligase [P 98.9 6.6E-10 1.4E-14 75.2 2.3 48 14-61 290-342 (543)
31 COG5540 RING-finger-containing 98.9 1.5E-09 3.2E-14 68.7 2.4 48 14-61 322-373 (374)
32 PF12861 zf-Apc11: Anaphase-pr 98.8 6.4E-09 1.4E-13 54.8 3.6 48 15-62 21-84 (85)
33 COG5152 Uncharacterized conser 98.8 5E-09 1.1E-13 62.9 2.5 52 9-60 190-241 (259)
34 KOG0824 Predicted E3 ubiquitin 98.7 1.2E-08 2.7E-13 64.3 2.4 51 14-64 6-57 (324)
35 KOG4265 Predicted E3 ubiquitin 98.6 3E-08 6.5E-13 63.7 3.4 48 13-60 288-336 (349)
36 KOG4159 Predicted E3 ubiquitin 98.6 2.2E-08 4.7E-13 65.7 2.3 51 10-60 79-129 (398)
37 KOG4172 Predicted E3 ubiquitin 98.6 1.5E-08 3.2E-13 49.1 0.7 45 16-60 8-54 (62)
38 KOG0311 Predicted E3 ubiquitin 98.5 8.8E-09 1.9E-13 66.1 -0.8 50 12-61 40-91 (381)
39 KOG1734 Predicted RING-contain 98.5 5.3E-08 1.1E-12 60.9 1.8 59 13-71 222-292 (328)
40 KOG2660 Locus-specific chromos 98.4 5.1E-08 1.1E-12 62.1 0.6 52 9-60 9-61 (331)
41 KOG2879 Predicted E3 ubiquitin 98.4 4.1E-07 8.8E-12 57.0 3.5 52 9-60 233-287 (298)
42 KOG0297 TNF receptor-associate 98.4 1.9E-07 4.1E-12 61.3 2.1 52 12-63 18-70 (391)
43 PF11789 zf-Nse: Zinc-finger o 98.4 2.8E-07 6.2E-12 45.4 2.1 43 12-54 8-53 (57)
44 COG5194 APC11 Component of SCF 98.3 4.9E-07 1.1E-11 47.0 2.7 46 16-61 21-82 (88)
45 KOG1813 Predicted E3 ubiquitin 98.3 2.6E-07 5.7E-12 58.3 1.3 46 15-60 241-286 (313)
46 KOG3039 Uncharacterized conser 98.3 1.5E-06 3.3E-11 53.9 4.0 62 14-75 220-285 (303)
47 KOG4692 Predicted E3 ubiquitin 98.2 1.5E-06 3.3E-11 56.4 3.4 52 10-61 417-468 (489)
48 KOG0828 Predicted E3 ubiquitin 98.2 7.7E-07 1.7E-11 59.7 1.9 49 13-61 569-635 (636)
49 PF11793 FANCL_C: FANCL C-term 98.2 2.6E-07 5.7E-12 47.3 -0.4 47 15-61 2-67 (70)
50 smart00744 RINGv The RING-vari 98.1 5.8E-06 1.3E-10 39.5 2.9 40 17-56 1-49 (49)
51 KOG0827 Predicted E3 ubiquitin 98.0 2.7E-06 5.8E-11 55.7 2.2 50 16-65 5-61 (465)
52 KOG0804 Cytoplasmic Zn-finger 98.0 3E-06 6.6E-11 56.2 2.3 51 8-60 168-222 (493)
53 KOG1039 Predicted E3 ubiquitin 98.0 3.6E-06 7.8E-11 54.5 2.5 49 12-60 158-221 (344)
54 KOG1645 RING-finger-containing 98.0 1.7E-06 3.6E-11 56.9 0.8 54 15-68 4-64 (463)
55 KOG0826 Predicted E3 ubiquitin 98.0 1.9E-06 4.1E-11 55.2 1.0 57 13-69 298-355 (357)
56 KOG1785 Tyrosine kinase negati 98.0 6.4E-06 1.4E-10 54.3 2.7 47 16-62 370-418 (563)
57 PF04641 Rtf2: Rtf2 RING-finge 97.9 1.7E-05 3.7E-10 49.7 4.3 58 12-70 110-171 (260)
58 KOG1493 Anaphase-promoting com 97.8 9.4E-06 2E-10 41.9 1.3 46 16-61 21-82 (84)
59 KOG1002 Nucleotide excision re 97.8 1.3E-05 2.9E-10 54.5 2.1 51 12-62 533-588 (791)
60 PF14570 zf-RING_4: RING/Ubox 97.8 2.9E-05 6.3E-10 36.9 2.4 42 18-59 1-47 (48)
61 KOG4275 Predicted E3 ubiquitin 97.7 4.1E-06 8.9E-11 53.1 -1.2 43 14-60 299-342 (350)
62 KOG0825 PHD Zn-finger protein 97.7 1E-05 2.2E-10 57.1 0.6 51 13-63 121-174 (1134)
63 COG5222 Uncharacterized conser 97.7 2.8E-05 6E-10 49.8 2.2 43 15-57 274-318 (427)
64 PF14447 Prok-RING_4: Prokaryo 97.7 1.5E-05 3.2E-10 38.8 0.6 47 15-63 7-53 (55)
65 COG5219 Uncharacterized conser 97.7 1.7E-05 3.7E-10 57.0 1.2 49 12-60 1466-1523(1525)
66 COG5175 MOT2 Transcriptional r 97.6 8.3E-05 1.8E-09 48.4 3.6 53 15-67 14-71 (480)
67 KOG1814 Predicted E3 ubiquitin 97.4 0.00011 2.3E-09 48.7 2.4 34 14-47 183-219 (445)
68 KOG2930 SCF ubiquitin ligase, 97.4 0.00012 2.6E-09 39.9 2.1 27 32-58 80-106 (114)
69 PF07800 DUF1644: Protein of u 97.3 0.0002 4.3E-09 41.9 2.4 52 14-65 1-96 (162)
70 KOG4367 Predicted Zn-finger pr 97.3 0.00017 3.6E-09 48.4 2.4 35 13-47 2-36 (699)
71 KOG1571 Predicted E3 ubiquitin 97.3 0.00017 3.6E-09 46.9 2.1 47 11-60 301-347 (355)
72 KOG4739 Uncharacterized protei 97.2 8.9E-05 1.9E-09 45.8 0.5 49 16-66 4-54 (233)
73 KOG2817 Predicted E3 ubiquitin 97.2 0.00028 6E-09 46.4 2.6 56 14-69 333-394 (394)
74 KOG1941 Acetylcholine receptor 97.2 0.00015 3.4E-09 47.8 1.4 44 14-57 364-413 (518)
75 COG5236 Uncharacterized conser 97.1 0.00061 1.3E-08 44.6 3.4 51 9-59 55-107 (493)
76 KOG1001 Helicase-like transcri 97.1 0.00018 3.8E-09 50.5 0.8 50 16-66 455-506 (674)
77 PF08746 zf-RING-like: RING-li 97.1 0.00076 1.6E-08 31.3 2.6 38 18-55 1-43 (43)
78 KOG3800 Predicted E3 ubiquitin 97.0 0.0006 1.3E-08 43.3 2.7 54 17-70 2-61 (300)
79 PF05290 Baculo_IE-1: Baculovi 96.9 0.00092 2E-08 38.1 2.6 50 14-63 79-135 (140)
80 KOG4185 Predicted E3 ubiquitin 96.7 0.00083 1.8E-08 42.6 1.6 44 16-59 4-54 (296)
81 KOG4445 Uncharacterized conser 96.7 0.0007 1.5E-08 43.4 1.1 49 14-62 114-188 (368)
82 PF10367 Vps39_2: Vacuolar sor 96.7 0.0004 8.6E-09 37.6 -0.1 32 12-43 75-108 (109)
83 KOG3002 Zn finger protein [Gen 96.6 0.0013 2.9E-08 42.2 1.9 46 12-60 45-91 (299)
84 KOG1815 Predicted E3 ubiquitin 96.2 0.0066 1.4E-07 40.8 3.6 58 13-70 68-136 (444)
85 COG5220 TFB3 Cdk activating ki 96.2 0.0017 3.6E-08 40.6 0.8 60 14-73 9-77 (314)
86 PHA02825 LAP/PHD finger-like p 96.2 0.0083 1.8E-07 35.2 3.4 51 11-62 4-61 (162)
87 KOG2114 Vacuolar assembly/sort 96.2 0.0035 7.5E-08 45.0 2.0 41 15-58 840-881 (933)
88 KOG2932 E3 ubiquitin ligase in 96.2 0.0026 5.7E-08 41.0 1.3 43 16-60 91-134 (389)
89 KOG3268 Predicted E3 ubiquitin 96.0 0.0069 1.5E-07 36.4 2.5 49 14-62 164-230 (234)
90 PF03854 zf-P11: P-11 zinc fin 95.9 0.0033 7.1E-08 29.7 0.6 35 27-61 12-47 (50)
91 KOG1812 Predicted E3 ubiquitin 95.8 0.0038 8.2E-08 41.3 0.9 53 14-66 145-209 (384)
92 KOG1940 Zn-finger protein [Gen 95.8 0.0066 1.4E-07 38.6 1.9 43 15-57 158-204 (276)
93 KOG3970 Predicted E3 ubiquitin 95.7 0.0099 2.1E-07 37.0 2.5 45 15-59 50-104 (299)
94 KOG0298 DEAD box-containing he 95.6 0.0019 4.1E-08 48.0 -1.0 45 13-57 1151-1196(1394)
95 KOG4362 Transcriptional regula 95.5 0.0038 8.2E-08 43.9 0.1 50 14-63 20-72 (684)
96 KOG1952 Transcription factor N 95.5 0.0088 1.9E-07 43.0 1.8 47 12-58 188-245 (950)
97 PHA03096 p28-like protein; Pro 95.5 0.011 2.3E-07 37.9 2.0 42 16-57 179-231 (284)
98 KOG1428 Inhibitor of type V ad 95.5 0.0061 1.3E-07 46.7 1.0 49 12-60 3483-3544(3738)
99 PF10272 Tmpp129: Putative tra 95.3 0.015 3.3E-07 38.2 2.4 33 33-65 311-356 (358)
100 KOG3899 Uncharacterized conser 95.2 0.022 4.7E-07 36.7 2.8 41 32-72 324-377 (381)
101 PHA02862 5L protein; Provision 95.0 0.026 5.7E-07 32.8 2.5 46 16-62 3-55 (156)
102 COG5109 Uncharacterized conser 94.9 0.02 4.3E-07 37.3 2.0 55 14-68 335-395 (396)
103 PF02891 zf-MIZ: MIZ/SP-RING z 94.9 0.028 6.1E-07 26.8 2.1 43 15-58 2-50 (50)
104 KOG3161 Predicted E3 ubiquitin 94.9 0.01 2.2E-07 41.7 0.8 42 10-53 6-51 (861)
105 KOG3113 Uncharacterized conser 94.8 0.061 1.3E-06 34.0 3.9 54 13-68 109-166 (293)
106 PF05883 Baculo_RING: Baculovi 94.4 0.026 5.7E-07 32.3 1.5 33 15-47 26-67 (134)
107 KOG0289 mRNA splicing factor [ 94.1 0.1 2.2E-06 35.3 4.0 60 17-76 2-62 (506)
108 KOG3579 Predicted E3 ubiquitin 93.5 0.032 6.9E-07 35.8 0.8 36 14-49 267-306 (352)
109 KOG3039 Uncharacterized conser 92.8 0.072 1.6E-06 33.6 1.6 36 12-47 40-75 (303)
110 KOG1100 Predicted E3 ubiquitin 92.7 0.035 7.5E-07 34.0 0.1 39 18-60 161-200 (207)
111 KOG0309 Conserved WD40 repeat- 92.4 0.09 2E-06 38.0 1.8 39 16-54 1029-1069(1081)
112 KOG1812 Predicted E3 ubiquitin 92.0 0.075 1.6E-06 35.3 1.1 40 15-54 306-350 (384)
113 KOG2034 Vacuolar sorting prote 91.7 0.12 2.7E-06 37.6 1.9 36 12-47 814-851 (911)
114 KOG4718 Non-SMC (structural ma 91.2 0.13 2.9E-06 31.7 1.4 45 14-58 180-225 (235)
115 PF06906 DUF1272: Protein of u 91.1 0.22 4.7E-06 24.4 1.8 45 17-63 7-55 (57)
116 COG5183 SSM4 Protein involved 91.1 0.46 1E-05 34.8 4.1 57 12-68 9-74 (1175)
117 PF12906 RINGv: RING-variant d 89.5 0.15 3.3E-06 23.8 0.6 38 18-55 1-47 (47)
118 PF14446 Prok-RING_1: Prokaryo 89.1 0.48 1.1E-05 23.0 2.1 31 14-44 4-38 (54)
119 PF07191 zinc-ribbons_6: zinc- 88.2 0.017 3.6E-07 29.5 -3.4 40 16-60 2-41 (70)
120 PF10571 UPF0547: Uncharacteri 88.0 0.24 5.3E-06 20.4 0.6 9 18-26 3-11 (26)
121 PF04216 FdhE: Protein involve 86.1 0.089 1.9E-06 33.5 -1.8 47 12-58 169-220 (290)
122 COG3813 Uncharacterized protei 84.9 0.66 1.4E-05 23.9 1.3 32 32-65 26-57 (84)
123 KOG0827 Predicted E3 ubiquitin 84.3 0.069 1.5E-06 35.7 -2.9 49 15-63 196-248 (465)
124 PF06844 DUF1244: Protein of u 83.8 0.76 1.6E-05 23.2 1.3 12 36-47 11-22 (68)
125 PRK03564 formate dehydrogenase 81.7 0.78 1.7E-05 29.9 1.1 45 13-57 185-234 (309)
126 KOG2979 Protein involved in DN 81.3 0.84 1.8E-05 29.0 1.1 40 15-54 176-218 (262)
127 PF01363 FYVE: FYVE zinc finge 81.3 0.3 6.6E-06 24.3 -0.7 32 13-44 7-42 (69)
128 PF10235 Cript: Microtubule-as 80.4 2.1 4.6E-05 22.9 2.3 37 15-60 44-80 (90)
129 PF05605 zf-Di19: Drought indu 80.3 1.3 2.9E-05 21.0 1.4 40 14-60 1-42 (54)
130 PF14569 zf-UDP: Zinc-binding 79.1 4.8 0.0001 21.1 3.3 48 14-61 8-63 (80)
131 KOG0269 WD40 repeat-containing 78.7 2.2 4.8E-05 31.1 2.6 45 16-60 780-828 (839)
132 smart00064 FYVE Protein presen 78.5 1.9 4.1E-05 21.3 1.7 33 15-47 10-46 (68)
133 PF10146 zf-C4H2: Zinc finger- 75.9 2.5 5.5E-05 26.4 2.0 28 37-64 196-223 (230)
134 cd00065 FYVE FYVE domain; Zinc 75.5 1.9 4.1E-05 20.4 1.2 32 16-47 3-38 (57)
135 PF04423 Rad50_zn_hook: Rad50 75.3 0.85 1.8E-05 21.8 -0.1 13 51-63 22-34 (54)
136 TIGR01562 FdhE formate dehydro 73.8 0.85 1.8E-05 29.6 -0.4 46 13-58 182-233 (305)
137 PF07975 C1_4: TFIIH C1-like d 73.6 3.9 8.5E-05 19.6 1.9 25 32-56 26-50 (51)
138 KOG2068 MOT2 transcription fac 73.0 3.3 7.1E-05 27.3 2.1 45 16-60 250-298 (327)
139 KOG3842 Adaptor protein Pellin 72.5 6 0.00013 26.2 3.1 61 11-71 337-426 (429)
140 PF13901 DUF4206: Domain of un 71.2 2.6 5.6E-05 25.7 1.3 38 15-57 152-197 (202)
141 PLN02248 cellulose synthase-li 70.5 6 0.00013 30.2 3.1 34 32-65 149-182 (1135)
142 KOG3053 Uncharacterized conser 70.3 3.3 7.1E-05 26.5 1.6 50 11-60 16-82 (293)
143 smart00132 LIM Zinc-binding do 70.2 2.7 5.9E-05 17.7 1.0 34 18-59 2-37 (39)
144 KOG0825 PHD Zn-finger protein 69.8 5.1 0.00011 29.7 2.6 45 15-59 96-153 (1134)
145 KOG0801 Predicted E3 ubiquitin 68.8 1.5 3.2E-05 26.2 -0.1 14 14-27 176-189 (205)
146 KOG1609 Protein involved in mR 68.5 9.3 0.0002 24.2 3.4 48 15-62 78-136 (323)
147 KOG4451 Uncharacterized conser 68.5 4.5 9.8E-05 25.5 1.9 27 37-63 251-277 (286)
148 PF13248 zf-ribbon_3: zinc-rib 68.4 0.57 1.2E-05 19.1 -1.4 7 51-57 18-24 (26)
149 smart00154 ZnF_AN1 AN1-like Zi 67.6 3.5 7.7E-05 18.4 1.0 22 18-39 1-24 (39)
150 KOG0824 Predicted E3 ubiquitin 66.3 1.6 3.4E-05 28.5 -0.4 47 13-59 103-150 (324)
151 COG4647 AcxC Acetone carboxyla 66.3 2.7 5.8E-05 24.2 0.6 21 20-40 62-82 (165)
152 KOG3799 Rab3 effector RIM1 and 65.9 4.5 9.7E-05 23.5 1.4 23 10-36 60-83 (169)
153 PF10497 zf-4CXXC_R1: Zinc-fin 65.4 3.8 8.2E-05 22.5 1.1 26 34-59 37-71 (105)
154 COG0068 HypF Hydrogenase matur 65.1 5.6 0.00012 29.0 2.0 49 12-60 98-184 (750)
155 PF14353 CpXC: CpXC protein 64.0 8 0.00017 21.5 2.3 45 16-60 2-49 (128)
156 smart00647 IBR In Between Ring 63.8 0.63 1.4E-05 22.4 -2.1 14 32-45 45-58 (64)
157 PF09538 FYDLN_acid: Protein o 63.0 5.9 0.00013 21.9 1.5 12 51-62 28-39 (108)
158 COG3492 Uncharacterized protei 62.7 5.4 0.00012 21.5 1.3 13 36-48 42-54 (104)
159 PF04710 Pellino: Pellino; In 61.2 2.7 5.9E-05 28.4 0.0 57 15-71 328-413 (416)
160 PF00412 LIM: LIM domain; Int 59.0 9.1 0.0002 17.8 1.7 28 16-43 27-55 (58)
161 PRK11595 DNA utilization prote 58.4 9.1 0.0002 23.6 2.0 38 17-59 7-44 (227)
162 KOG1829 Uncharacterized conser 57.0 3.6 7.8E-05 29.2 0.0 23 32-57 536-558 (580)
163 KOG2231 Predicted E3 ubiquitin 56.8 9.1 0.0002 27.7 1.9 44 17-60 2-52 (669)
164 PRK11088 rrmA 23S rRNA methylt 56.6 6.9 0.00015 24.6 1.2 22 16-37 3-27 (272)
165 PF14311 DUF4379: Domain of un 55.4 6.2 0.00013 18.7 0.7 23 32-55 33-55 (55)
166 smart00734 ZnF_Rad18 Rad18-lik 54.9 1.9 4.2E-05 17.5 -1.0 9 51-59 3-11 (26)
167 KOG2169 Zn-finger transcriptio 54.9 11 0.00024 27.0 2.1 52 13-64 304-360 (636)
168 KOG3005 GIY-YIG type nuclease 54.0 4.4 9.5E-05 26.0 0.1 51 16-66 183-249 (276)
169 KOG2066 Vacuolar assembly/sort 54.0 5.1 0.00011 29.5 0.4 35 15-49 784-825 (846)
170 PF13913 zf-C2HC_2: zinc-finge 53.7 3.5 7.7E-05 16.5 -0.3 14 51-64 4-17 (25)
171 smart00249 PHD PHD zinc finger 52.9 10 0.00023 16.4 1.3 27 18-44 2-31 (47)
172 TIGR00622 ssl1 transcription f 52.5 15 0.00033 20.5 2.0 41 16-56 56-110 (112)
173 KOG2807 RNA polymerase II tran 52.2 9.7 0.00021 25.3 1.4 42 15-56 330-374 (378)
174 PF07503 zf-HYPF: HypF finger; 50.9 20 0.00044 15.6 1.9 24 37-60 1-32 (35)
175 PF00628 PHD: PHD-finger; Int 50.5 4.2 9.1E-05 18.7 -0.3 29 17-45 1-32 (51)
176 cd00350 rubredoxin_like Rubred 50.4 14 0.0003 15.7 1.3 8 50-57 18-25 (33)
177 KOG0883 Cyclophilin type, U bo 49.9 18 0.00039 24.8 2.3 61 14-74 39-99 (518)
178 PF09986 DUF2225: Uncharacteri 49.8 7.5 0.00016 23.9 0.6 18 49-66 5-22 (214)
179 PF12773 DZR: Double zinc ribb 49.5 11 0.00024 17.3 1.1 11 50-60 30-40 (50)
180 PLN02189 cellulose synthase 49.2 15 0.00032 28.0 2.1 46 15-60 34-87 (1040)
181 TIGR02300 FYDLN_acid conserved 49.0 13 0.00029 21.2 1.5 13 50-62 27-39 (129)
182 PF06750 DiS_P_DiS: Bacterial 48.4 7.5 0.00016 20.7 0.4 12 49-60 58-69 (92)
183 PF01428 zf-AN1: AN1-like Zinc 48.3 9.3 0.0002 17.2 0.7 20 21-40 6-26 (43)
184 PLN02436 cellulose synthase A 48.3 26 0.00055 27.0 3.1 46 15-60 36-89 (1094)
185 KOG0802 E3 ubiquitin ligase [P 47.0 11 0.00024 26.3 1.2 47 14-64 478-524 (543)
186 PLN02915 cellulose synthase A 46.8 30 0.00066 26.5 3.3 50 11-60 11-68 (1044)
187 PF10083 DUF2321: Uncharacteri 46.4 15 0.00032 21.8 1.4 26 34-62 27-52 (158)
188 PF06221 zf-C2HC5: Putative zi 45.6 5.2 0.00011 19.6 -0.4 28 30-63 21-49 (57)
189 PF03119 DNA_ligase_ZBD: NAD-d 45.5 8.8 0.00019 15.8 0.3 10 51-60 1-10 (28)
190 PF13453 zf-TFIIB: Transcripti 45.3 10 0.00022 16.9 0.5 14 51-64 1-14 (41)
191 PF09889 DUF2116: Uncharacteri 44.8 13 0.00029 18.3 0.9 12 50-61 4-15 (59)
192 COG5627 MMS21 DNA repair prote 44.4 13 0.00027 23.7 1.0 46 14-59 188-238 (275)
193 smart00290 ZnF_UBP Ubiquitin C 44.3 15 0.00033 16.7 1.1 22 18-39 2-23 (50)
194 PRK06393 rpoE DNA-directed RNA 41.6 15 0.00032 18.5 0.8 25 38-64 8-32 (64)
195 KOG3476 Microtubule-associated 41.0 4.8 0.0001 21.5 -1.0 36 16-60 55-90 (100)
196 PF14369 zf-RING_3: zinc-finge 40.8 18 0.00038 15.7 0.9 10 17-26 23-32 (35)
197 PF02318 FYVE_2: FYVE-type zin 40.4 9.6 0.00021 21.1 0.1 44 14-58 53-103 (118)
198 TIGR00373 conserved hypothetic 39.4 30 0.00064 20.3 2.0 16 46-61 125-140 (158)
199 PLN02638 cellulose synthase A 39.1 47 0.001 25.7 3.3 47 14-60 16-70 (1079)
200 PF01485 IBR: IBR domain; Int 39.0 1.1 2.5E-05 21.5 -3.5 30 16-45 19-58 (64)
201 COG4306 Uncharacterized protei 38.3 28 0.00061 20.0 1.7 25 36-63 29-53 (160)
202 KOG1729 FYVE finger containing 37.8 13 0.00027 24.2 0.3 49 11-59 164-224 (288)
203 PRK04023 DNA polymerase II lar 37.7 23 0.0005 27.2 1.6 51 14-66 625-680 (1121)
204 PF06677 Auto_anti-p27: Sjogre 37.3 25 0.00053 16.0 1.1 19 43-61 11-29 (41)
205 KOG4218 Nuclear hormone recept 36.9 37 0.00079 23.0 2.3 17 12-28 12-28 (475)
206 PF08882 Acetone_carb_G: Aceto 35.5 16 0.00036 20.4 0.5 12 29-40 25-36 (112)
207 PF13894 zf-C2H2_4: C2H2-type 35.3 17 0.00037 13.2 0.4 9 18-26 3-11 (24)
208 PF06827 zf-FPG_IleRS: Zinc fi 35.1 5.1 0.00011 16.5 -1.3 11 17-27 3-13 (30)
209 PF00096 zf-C2H2: Zinc finger, 35.0 14 0.00031 13.7 0.1 9 18-26 3-11 (23)
210 PRK06266 transcription initiat 34.8 46 0.00099 20.0 2.3 16 46-61 133-148 (178)
211 KOG2462 C2H2-type Zn-finger pr 34.8 25 0.00055 22.7 1.3 50 13-62 159-228 (279)
212 COG3058 FdhE Uncharacterized p 33.7 28 0.00061 22.7 1.4 45 13-57 183-233 (308)
213 PLN02400 cellulose synthase 33.2 42 0.00092 25.9 2.3 45 15-60 36-89 (1085)
214 PRK08351 DNA-directed RNA poly 32.9 22 0.00048 17.6 0.7 12 48-59 14-25 (61)
215 COG2093 DNA-directed RNA polym 32.9 14 0.00029 18.6 -0.1 21 38-58 7-27 (64)
216 TIGR00143 hypF [NiFe] hydrogen 32.7 24 0.00052 25.8 1.0 49 12-60 65-151 (711)
217 PF13832 zf-HC5HC2H_2: PHD-zin 32.6 57 0.0012 17.4 2.3 32 13-44 53-87 (110)
218 PRK00418 DNA gyrase inhibitor; 32.5 20 0.00044 17.9 0.5 11 50-60 7-17 (62)
219 COG4098 comFA Superfamily II D 32.3 19 0.0004 24.5 0.4 31 13-43 37-68 (441)
220 KOG3362 Predicted BBOX Zn-fing 32.0 21 0.00046 20.9 0.6 29 14-43 117-146 (156)
221 PF09723 Zn-ribbon_8: Zinc rib 31.6 4.3 9.4E-05 18.3 -1.9 9 49-57 26-34 (42)
222 PF10013 DUF2256: Uncharacteri 30.8 27 0.00058 16.1 0.7 12 49-60 8-19 (42)
223 KOG1842 FYVE finger-containing 30.6 24 0.00051 24.6 0.7 34 11-44 176-213 (505)
224 PLN02195 cellulose synthase A 30.5 50 0.0011 25.2 2.3 44 16-60 7-59 (977)
225 TIGR02652 conserved hypothetic 29.8 22 0.00048 20.8 0.4 15 50-64 10-24 (163)
226 KOG2071 mRNA cleavage and poly 29.5 26 0.00057 25.0 0.8 34 13-46 511-557 (579)
227 PF09654 DUF2396: Protein of u 29.2 23 0.0005 20.7 0.4 15 50-64 7-21 (161)
228 KOG1818 Membrane trafficking a 28.8 24 0.00053 25.5 0.6 38 10-47 160-201 (634)
229 PF10186 Atg14: UV radiation r 28.8 44 0.00096 20.9 1.7 22 17-46 1-22 (302)
230 PF14169 YdjO: Cold-inducible 28.8 51 0.0011 16.3 1.6 11 50-60 40-50 (59)
231 PF15616 TerY-C: TerY-C metal 28.6 19 0.00042 20.6 0.0 42 14-61 76-117 (131)
232 PF12292 DUF3624: Protein of u 27.6 20 0.00043 18.7 -0.0 22 38-59 3-25 (77)
233 PF13465 zf-H2C2_2: Zinc-finge 27.4 45 0.00097 13.1 1.1 11 15-25 14-24 (26)
234 PF03884 DUF329: Domain of unk 27.3 22 0.00049 17.4 0.1 11 51-61 4-14 (57)
235 PF12874 zf-met: Zinc-finger o 27.1 23 0.0005 13.4 0.1 11 17-27 2-12 (25)
236 PF13834 DUF4193: Domain of un 27.1 12 0.00026 20.5 -1.0 31 11-41 66-98 (99)
237 KOG3475 60S ribosomal protein 26.0 40 0.00086 17.9 0.9 28 33-60 14-42 (92)
238 PRK00420 hypothetical protein; 25.7 54 0.0012 18.3 1.5 9 51-59 42-50 (112)
239 PF14471 DUF4428: Domain of un 25.7 83 0.0018 14.8 1.9 28 17-45 1-30 (51)
240 PF00643 zf-B_box: B-box zinc 25.6 50 0.0011 14.3 1.2 29 16-44 4-32 (42)
241 TIGR01206 lysW lysine biosynth 25.1 38 0.00083 16.3 0.7 8 52-59 25-32 (54)
242 KOG0006 E3 ubiquitin-protein l 24.9 58 0.0013 21.9 1.7 33 13-45 219-253 (446)
243 KOG1538 Uncharacterized conser 24.8 51 0.0011 24.5 1.5 24 37-60 1046-1077(1081)
244 COG3024 Uncharacterized protei 24.7 36 0.00078 17.1 0.6 13 49-61 7-19 (65)
245 KOG2113 Predicted RNA binding 24.4 63 0.0014 21.6 1.8 42 15-58 343-385 (394)
246 PRK11827 hypothetical protein; 24.3 36 0.00079 16.8 0.6 14 48-61 7-20 (60)
247 PF06170 DUF983: Protein of un 23.8 29 0.00063 18.3 0.2 19 44-62 3-21 (86)
248 PF13719 zinc_ribbon_5: zinc-r 23.8 32 0.0007 14.9 0.3 11 51-61 4-14 (37)
249 PF12132 DUF3587: Protein of u 23.6 58 0.0013 20.1 1.4 14 34-47 164-177 (199)
250 cd00729 rubredoxin_SM Rubredox 23.5 37 0.0008 14.5 0.5 9 50-58 19-27 (34)
251 PF13912 zf-C2H2_6: C2H2-type 22.8 38 0.00083 13.0 0.4 12 16-27 2-13 (27)
252 PF05502 Dynactin_p62: Dynacti 22.6 28 0.0006 24.2 -0.1 10 51-60 54-63 (483)
253 PF04296 DUF448: Protein of un 22.2 57 0.0012 16.7 1.1 22 50-71 2-23 (78)
254 PRK00398 rpoP DNA-directed RNA 22.0 39 0.00085 15.3 0.4 11 50-60 22-32 (46)
255 PF14205 Cys_rich_KTR: Cystein 21.8 33 0.00072 16.7 0.1 11 15-25 4-14 (55)
256 PF05715 zf-piccolo: Piccolo Z 21.1 50 0.0011 16.4 0.7 11 49-59 2-12 (61)
257 PF02148 zf-UBP: Zn-finger in 20.9 41 0.00089 16.3 0.4 23 18-40 1-24 (63)
258 PF12907 zf-met2: Zinc-binding 20.9 22 0.00047 16.1 -0.6 8 17-24 3-10 (40)
259 COG1655 Uncharacterized protei 20.6 65 0.0014 20.6 1.3 17 48-64 18-34 (267)
260 COG4338 Uncharacterized protei 20.5 35 0.00076 16.2 0.1 11 50-60 13-23 (54)
261 PF11023 DUF2614: Protein of u 20.4 22 0.00047 20.0 -0.8 16 46-61 82-97 (114)
262 PF13717 zinc_ribbon_4: zinc-r 20.1 44 0.00095 14.5 0.3 11 51-61 4-14 (36)
No 1
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.69 E-value=6.1e-17 Score=96.25 Aligned_cols=66 Identities=32% Similarity=0.671 Sum_probs=55.7
Q ss_pred CcccCCCcccccccccccccCceecCCCChhhHHhHHHHhhC----------------CCCcccccccccccceeeeccC
Q 037842 7 GAVVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL----------------QGKCPTCRTRMSVRSIRRIFFP 70 (78)
Q Consensus 7 ~~~~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~----------------~~~CP~C~~~~~~~~~~~~~~~ 70 (78)
.......+++.|+||++.+.+|+.++|||.||+.|+..|+.. ...||.|+..+...++.+++..
T Consensus 10 ~~~~~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygr 89 (193)
T PLN03208 10 TTLVDSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGR 89 (193)
T ss_pred ceeccCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeecc
Confidence 344455577999999999999999999999999999999742 2479999999999999998865
Q ss_pred CC
Q 037842 71 QL 72 (78)
Q Consensus 71 ~~ 72 (78)
+.
T Consensus 90 g~ 91 (193)
T PLN03208 90 GQ 91 (193)
T ss_pred CC
Confidence 54
No 2
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.61 E-value=6.3e-16 Score=96.04 Aligned_cols=62 Identities=31% Similarity=0.742 Sum_probs=54.0
Q ss_pred CCcccCCCcccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccccceeee
Q 037842 6 NGAVVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRI 67 (78)
Q Consensus 6 ~~~~~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~ 67 (78)
.......+....|.+|++...+|..++|||.||+.|+..|...+..||.||..+.+.+++-+
T Consensus 230 ~~~~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi~L 291 (293)
T KOG0317|consen 230 NSLSSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVICL 291 (293)
T ss_pred cCCccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCcceeee
Confidence 33444455668999999999999999999999999999999999999999999998887654
No 3
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.60 E-value=1.9e-15 Score=91.54 Aligned_cols=62 Identities=29% Similarity=0.729 Sum_probs=55.6
Q ss_pred CCcccccccccccccCceecCCCChhhHHhHHHHhhC---CCCcccccccccccceeeeccCCCC
Q 037842 12 GEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL---QGKCPTCRTRMSVRSIRRIFFPQLQ 73 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~---~~~CP~C~~~~~~~~~~~~~~~~~~ 73 (78)
....+.|.||++.-++|+.+.|||.||+.||.+|+.. ...||+|+..+..+.+.++|-.+..
T Consensus 44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~ 108 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSK 108 (230)
T ss_pred CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCC
Confidence 4567999999999999999999999999999999985 3468999999999999999987763
No 4
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.59 E-value=8.3e-16 Score=71.74 Aligned_cols=38 Identities=45% Similarity=1.050 Sum_probs=30.5
Q ss_pred cccccccccCceecCCCChhhHHhHHHHhhCC----CCcccc
Q 037842 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ----GKCPTC 55 (78)
Q Consensus 18 C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~----~~CP~C 55 (78)
|+||++.+.+|++++|||+||..|+.++++.. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999999999999999999998853 358876
No 5
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.59 E-value=1.3e-15 Score=89.10 Aligned_cols=58 Identities=48% Similarity=1.087 Sum_probs=51.3
Q ss_pred CCcccccccccccccCc--eecCCCChhhHHhHHHHhhCCCCcccccccccccceeeecc
Q 037842 12 GEVRFTCGICLDTMKEE--SSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFF 69 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~--~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~~~ 69 (78)
.+..+.||||++.+... +.+.|||+||+.|+...++....||.|++.++.+.+.++|+
T Consensus 128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~rI~L 187 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFHRIYL 187 (187)
T ss_pred cccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhheeccC
Confidence 44558999999998864 56799999999999999999999999999999999988874
No 6
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.53 E-value=4.3e-15 Score=68.28 Aligned_cols=38 Identities=47% Similarity=1.161 Sum_probs=33.5
Q ss_pred cccccccccCc-eecCCCChhhHHhHHHHhhCCCCcccc
Q 037842 18 CGICLDTMKEE-SSTKCGHVFCKSCIVDAIRLQGKCPTC 55 (78)
Q Consensus 18 C~iC~~~~~~~-~~~~CgH~fc~~C~~~~~~~~~~CP~C 55 (78)
|+||++.+.+| +.++|||.||+.|+.+|++.+..||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999999 578999999999999999998899987
No 7
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.52 E-value=7.9e-15 Score=70.72 Aligned_cols=46 Identities=30% Similarity=0.861 Sum_probs=41.2
Q ss_pred ccccccccccccCceecCCCCh-hhHHhHHHHhhCCCCccccccccc
Q 037842 15 RFTCGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~~~CgH~-fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
+..|.||++...+.+.++|||. ||..|+.+|+.....||+||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5789999999999999999999 999999999998899999998875
No 8
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.52 E-value=1.5e-14 Score=72.51 Aligned_cols=53 Identities=19% Similarity=0.329 Sum_probs=48.3
Q ss_pred ccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccccceeee
Q 037842 15 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRI 67 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~ 67 (78)
++.|+||.+.+.+|+.++|||+||+.|+..|+.....||.|+..+..+++.++
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~~ 53 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIPN 53 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhceeC
Confidence 36799999999999999999999999999999988899999999987777665
No 9
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.49 E-value=7e-15 Score=69.15 Aligned_cols=40 Identities=40% Similarity=1.028 Sum_probs=34.8
Q ss_pred ccccccccccC---ceecCCCChhhHHhHHHHhhCCCCccccc
Q 037842 17 TCGICLDTMKE---ESSTKCGHVFCKSCIVDAIRLQGKCPTCR 56 (78)
Q Consensus 17 ~C~iC~~~~~~---~~~~~CgH~fc~~C~~~~~~~~~~CP~C~ 56 (78)
.|+||++.+.. .+.++|||.||..|+.+|++.+..||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 59999999863 35679999999999999999999999996
No 10
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.45 E-value=5.9e-14 Score=91.34 Aligned_cols=59 Identities=31% Similarity=0.648 Sum_probs=51.2
Q ss_pred cccCCCcccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccccceee
Q 037842 8 AVVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRR 66 (78)
Q Consensus 8 ~~~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~ 66 (78)
.....+..+.|+||.+.+.+|++++|||.||..|+..|+.....||.|+..+....+..
T Consensus 19 ~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~ 77 (397)
T TIGR00599 19 SLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRS 77 (397)
T ss_pred cccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCcc
Confidence 34566778999999999999999999999999999999998889999999887655544
No 11
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.44 E-value=1e-13 Score=85.23 Aligned_cols=49 Identities=31% Similarity=0.737 Sum_probs=41.8
Q ss_pred CcccccccccccccCc--------eecCCCChhhHHhHHHHhhCCCCcccccccccc
Q 037842 13 EVRFTCGICLDTMKEE--------SSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSV 61 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~--------~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~ 61 (78)
.++..|+||++.+.++ +.++|+|.||..|+.+|+..+..||+||..+..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 4568999999987653 445899999999999999998999999998773
No 12
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=99.39 E-value=6.3e-14 Score=89.20 Aligned_cols=59 Identities=27% Similarity=0.660 Sum_probs=52.7
Q ss_pred ccCCCcccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccccceeee
Q 037842 9 VVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRI 67 (78)
Q Consensus 9 ~~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~ 67 (78)
....++.++|.||.++|..|++++|+|+||.-||..++..+..||.|+.++...+++.+
T Consensus 17 lk~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n 75 (442)
T KOG0287|consen 17 LKTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNN 75 (442)
T ss_pred hhhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhh
Confidence 44566779999999999999999999999999999999999999999999887666654
No 13
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.36 E-value=4.6e-13 Score=61.93 Aligned_cols=38 Identities=37% Similarity=1.003 Sum_probs=34.3
Q ss_pred cccccccccCce-ecCCCChhhHHhHHHHhh--CCCCcccc
Q 037842 18 CGICLDTMKEES-STKCGHVFCKSCIVDAIR--LQGKCPTC 55 (78)
Q Consensus 18 C~iC~~~~~~~~-~~~CgH~fc~~C~~~~~~--~~~~CP~C 55 (78)
|+||++.+.++. .++|||.||..|+.+|+. ....||.|
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 799999999998 889999999999999998 45579987
No 14
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.31 E-value=2.2e-12 Score=59.91 Aligned_cols=42 Identities=45% Similarity=1.073 Sum_probs=36.2
Q ss_pred ccccccccccCceecC-CCChhhHHhHHHHhhC-CCCccccccc
Q 037842 17 TCGICLDTMKEESSTK-CGHVFCKSCIVDAIRL-QGKCPTCRTR 58 (78)
Q Consensus 17 ~C~iC~~~~~~~~~~~-CgH~fc~~C~~~~~~~-~~~CP~C~~~ 58 (78)
.|+||++.+.+++.+. |||.||..|+..|+.. ...||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 4899999997776654 9999999999999987 6789999865
No 15
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=1.2e-12 Score=86.63 Aligned_cols=60 Identities=30% Similarity=0.794 Sum_probs=53.4
Q ss_pred ccccccccccccCceecCCCChhhHHhHHHHhhCC-----CCcccccccccccceeeeccCCCCC
Q 037842 15 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ-----GKCPTCRTRMSVRSIRRIFFPQLQP 74 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~-----~~CP~C~~~~~~~~~~~~~~~~~~~ 74 (78)
+..||||++...-|+.+.|||.||..||.+++... +.||+|+..+..+++...++...+.
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~qk 250 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQK 250 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccccc
Confidence 78999999999999999999999999999998743 4799999999999999988877643
No 16
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=99.26 E-value=5.5e-12 Score=65.13 Aligned_cols=55 Identities=22% Similarity=0.298 Sum_probs=44.9
Q ss_pred CcccccccccccccCceecCCCChhhHHhHHHHhhC-CCCcccccccccccceeee
Q 037842 13 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL-QGKCPTCRTRMSVRSIRRI 67 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~~~~~~~ 67 (78)
.+.+.|+|+.+.+.+|+.+++||+|.+.++..|+.. ...||.++..+...++..+
T Consensus 2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn 57 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPN 57 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-
T ss_pred CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceEC
Confidence 357899999999999999999999999999999998 7799999999988777664
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.25 E-value=7.9e-12 Score=58.72 Aligned_cols=41 Identities=37% Similarity=0.980 Sum_probs=34.4
Q ss_pred cccccccccc---CceecCCCChhhHHhHHHHhhCCCCcccccc
Q 037842 17 TCGICLDTMK---EESSTKCGHVFCKSCIVDAIRLQGKCPTCRT 57 (78)
Q Consensus 17 ~C~iC~~~~~---~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~ 57 (78)
.|++|.+.+. .+.+++|||+||..|+.........||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 4899999982 3577899999999999998856678999974
No 18
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=5.8e-12 Score=77.78 Aligned_cols=52 Identities=31% Similarity=0.788 Sum_probs=46.4
Q ss_pred CcccccccccccccCceecCCCChhhHHhHHH-HhhCCCC-cccccccccccce
Q 037842 13 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVD-AIRLQGK-CPTCRTRMSVRSI 64 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~-~~~~~~~-CP~C~~~~~~~~~ 64 (78)
..++.|+||++....|..++|||+||..|+.. |-.++.. ||.||+.+..+++
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 45789999999999999999999999999999 7776665 9999999887776
No 19
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.23 E-value=1.3e-11 Score=55.50 Aligned_cols=38 Identities=42% Similarity=1.108 Sum_probs=33.7
Q ss_pred cccccccccCceecCCCChhhHHhHHHHhh-CCCCcccc
Q 037842 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIR-LQGKCPTC 55 (78)
Q Consensus 18 C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~-~~~~CP~C 55 (78)
|+||++...+++.++|||.||..|+..|+. ....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999988888999999999999999998 45579876
No 20
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.23 E-value=4.5e-12 Score=79.54 Aligned_cols=56 Identities=29% Similarity=0.559 Sum_probs=49.1
Q ss_pred CCcccCCCcccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccc
Q 037842 6 NGAVVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSV 61 (78)
Q Consensus 6 ~~~~~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~ 61 (78)
+......+..+.|-||.+.+..|..++|||.||+-||.+++..+..||+||.....
T Consensus 16 IPSL~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 16 IPSLKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred CcchhcchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHh
Confidence 33445566778999999999999999999999999999999999999999988653
No 21
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.22 E-value=1.2e-11 Score=63.94 Aligned_cols=41 Identities=32% Similarity=0.843 Sum_probs=33.8
Q ss_pred cccccccccccCc------------e-ecCCCChhhHHhHHHHhhCCCCccccc
Q 037842 16 FTCGICLDTMKEE------------S-STKCGHVFCKSCIVDAIRLQGKCPTCR 56 (78)
Q Consensus 16 ~~C~iC~~~~~~~------------~-~~~CgH~fc~~C~~~~~~~~~~CP~C~ 56 (78)
..|+||++.+.++ + ..+|||.|+..||.+|+.....||+||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3499999998432 2 347999999999999999999999997
No 22
>PHA02926 zinc finger-like protein; Provisional
Probab=99.19 E-value=6.7e-12 Score=76.11 Aligned_cols=51 Identities=33% Similarity=0.724 Sum_probs=40.1
Q ss_pred CCCcccccccccccccC---------ceecCCCChhhHHhHHHHhhCC------CCcccccccccc
Q 037842 11 VGEVRFTCGICLDTMKE---------ESSTKCGHVFCKSCIVDAIRLQ------GKCPTCRTRMSV 61 (78)
Q Consensus 11 ~~~~~~~C~iC~~~~~~---------~~~~~CgH~fc~~C~~~~~~~~------~~CP~C~~~~~~ 61 (78)
....+..|+||++...+ ++..+|+|.||..|+..|...+ ..||+||..+..
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 44567899999997532 2455899999999999999742 359999998763
No 23
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.16 E-value=1.5e-11 Score=57.45 Aligned_cols=30 Identities=37% Similarity=0.926 Sum_probs=21.1
Q ss_pred cccccccccC----ceecCCCChhhHHhHHHHhhC
Q 037842 18 CGICLDTMKE----ESSTKCGHVFCKSCIVDAIRL 48 (78)
Q Consensus 18 C~iC~~~~~~----~~~~~CgH~fc~~C~~~~~~~ 48 (78)
|+||.+ +.+ |+.++|||+||..|++++...
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 899999 777 889999999999999999874
No 24
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=1.1e-11 Score=84.97 Aligned_cols=56 Identities=34% Similarity=0.831 Sum_probs=50.8
Q ss_pred cccccccccccccCceecCCCChhhHHhHHHHhh-CCCCcccccccccccceeeecc
Q 037842 14 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIR-LQGKCPTCRTRMSVRSIRRIFF 69 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~-~~~~CP~C~~~~~~~~~~~~~~ 69 (78)
.-+.|++|...+.+.+++.|||.||..|+...+. +++.||.|...|...++.++++
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~l 698 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIHL 698 (698)
T ss_pred hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccCC
Confidence 4588999999999999999999999999999877 4779999999999999998874
No 25
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.14 E-value=4.3e-11 Score=76.81 Aligned_cols=45 Identities=29% Similarity=0.699 Sum_probs=39.5
Q ss_pred cccccccccccCc---eecCCCChhhHHhHHHHhhCCCC-ccccccccc
Q 037842 16 FTCGICLDTMKEE---SSTKCGHVFCKSCIVDAIRLQGK-CPTCRTRMS 60 (78)
Q Consensus 16 ~~C~iC~~~~~~~---~~~~CgH~fc~~C~~~~~~~~~~-CP~C~~~~~ 60 (78)
..|+||++.+... ..|+|+|.||..|+..|+...+. ||+|+..+.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 4899999999975 46899999999999999998764 999998764
No 26
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.13 E-value=5.2e-12 Score=63.06 Aligned_cols=53 Identities=40% Similarity=0.872 Sum_probs=28.0
Q ss_pred CcccccccccccccCceec-CCCChhhHHhHHHHhhCCCCcccccccccccceeee
Q 037842 13 EVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRI 67 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~-~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~ 67 (78)
++.+.|++|.+.+.+|+.+ .|.|.||+.|+.+.+. ..||+|+.+...++++-+
T Consensus 5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~N 58 (65)
T PF14835_consen 5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQIN 58 (65)
T ss_dssp HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----
T ss_pred HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhh
Confidence 4567899999999999865 7999999999977554 359999999887777643
No 27
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=2.9e-10 Score=73.48 Aligned_cols=48 Identities=31% Similarity=0.750 Sum_probs=41.5
Q ss_pred CCcccccccccccccC-c------------eecCCCChhhHHhHHHHhhCCCCcccccccc
Q 037842 12 GEVRFTCGICLDTMKE-E------------SSTKCGHVFCKSCIVDAIRLQGKCPTCRTRM 59 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~-~------------~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~ 59 (78)
..++..|.||++.+.. + ..++|||.++..|++.|++++..||+||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 4567899999998443 2 5689999999999999999999999999985
No 28
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.97 E-value=5.6e-10 Score=70.79 Aligned_cols=57 Identities=30% Similarity=0.665 Sum_probs=44.4
Q ss_pred cccccccccc-ccCce---ec-CCCChhhHHhHHHHhhC-CCCcccccccccccceeeeccCC
Q 037842 15 RFTCGICLDT-MKEES---ST-KCGHVFCKSCIVDAIRL-QGKCPTCRTRMSVRSIRRIFFPQ 71 (78)
Q Consensus 15 ~~~C~iC~~~-~~~~~---~~-~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~~~~~~~~~~~ 71 (78)
+..||+|... +.+|. .+ +|||.||..|+...+.. ...||.|+..+..+++....|+.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q~F~D 65 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQLFED 65 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcccccccc
Confidence 4689999994 33442 23 69999999999997654 45899999999988887776665
No 29
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=3.1e-10 Score=70.00 Aligned_cols=48 Identities=35% Similarity=0.836 Sum_probs=42.3
Q ss_pred ccCCCcccccccccccccCceecCCCChhhHHhHHHHhhCCCCccccc
Q 037842 9 VVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCR 56 (78)
Q Consensus 9 ~~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~ 56 (78)
.....+.+.|+||++.+..|..++|||.||..|+..++.....||.||
T Consensus 7 ~~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 7 LEVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred hhhccccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccC
Confidence 445567899999999999998889999999999999888555899999
No 30
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=6.6e-10 Score=75.23 Aligned_cols=48 Identities=35% Similarity=0.735 Sum_probs=43.1
Q ss_pred cccccccccccccC-----ceecCCCChhhHHhHHHHhhCCCCcccccccccc
Q 037842 14 VRFTCGICLDTMKE-----ESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSV 61 (78)
Q Consensus 14 ~~~~C~iC~~~~~~-----~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~ 61 (78)
.+..|+||.+.+.. +..++|||.||..|+..|++++..||.||..+..
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLYD 342 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence 46789999999998 6889999999999999999999999999985543
No 31
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.5e-09 Score=68.68 Aligned_cols=48 Identities=27% Similarity=0.653 Sum_probs=40.2
Q ss_pred cccccccccccccCc---eecCCCChhhHHhHHHHhhC-CCCcccccccccc
Q 037842 14 VRFTCGICLDTMKEE---SSTKCGHVFCKSCIVDAIRL-QGKCPTCRTRMSV 61 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~---~~~~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~ 61 (78)
....|+||++.+... +.+||.|.|+..|+..|+.. +..||+||.++.+
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 347899999988743 56799999999999999984 6689999988763
No 32
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.81 E-value=6.4e-09 Score=54.83 Aligned_cols=48 Identities=31% Similarity=0.706 Sum_probs=37.1
Q ss_pred ccccccccccccC------------ceec-CCCChhhHHhHHHHhhC---CCCccccccccccc
Q 037842 15 RFTCGICLDTMKE------------ESST-KCGHVFCKSCIVDAIRL---QGKCPTCRTRMSVR 62 (78)
Q Consensus 15 ~~~C~iC~~~~~~------------~~~~-~CgH~fc~~C~~~~~~~---~~~CP~C~~~~~~~ 62 (78)
+..|.||...|.. |+.. .|+|.|+..||.+|+.. +..||+||+....+
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 5678888877762 2333 69999999999999985 45899999887543
No 33
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.76 E-value=5e-09 Score=62.94 Aligned_cols=52 Identities=27% Similarity=0.663 Sum_probs=44.5
Q ss_pred ccCCCcccccccccccccCceecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 9 VVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 9 ~~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
.....-.+.|.||.+.+..|+.+.|||.||..|..+-+.....|-+|.+...
T Consensus 190 ~~~e~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 190 GPGEKIPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred CCCCCCceeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 3334445899999999999999999999999999998888889999987653
No 34
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.67 E-value=1.2e-08 Score=64.31 Aligned_cols=51 Identities=25% Similarity=0.497 Sum_probs=43.5
Q ss_pred cccccccccccccCceecCCCChhhHHhHHHHhhC-CCCcccccccccccce
Q 037842 14 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL-QGKCPTCRTRMSVRSI 64 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~~~~ 64 (78)
....|+||+....-|+.+.|+|.||+-|+...... ++.|++||.+++..-+
T Consensus 6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~ 57 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTID 57 (324)
T ss_pred cCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchh
Confidence 35679999999999999999999999999987765 4569999999975433
No 35
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.64 E-value=3e-08 Score=63.71 Aligned_cols=48 Identities=27% Similarity=0.686 Sum_probs=42.8
Q ss_pred CcccccccccccccCceecCCCCh-hhHHhHHHHhhCCCCccccccccc
Q 037842 13 EVRFTCGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~~CgH~-fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
+...+|.||+...++.+.+||.|. .|..|.+...-+..+||+||+++.
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 446789999999999999999997 799999887777889999999876
No 36
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=2.2e-08 Score=65.71 Aligned_cols=51 Identities=27% Similarity=0.726 Sum_probs=45.8
Q ss_pred cCCCcccccccccccccCceecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 10 VVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 10 ~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
.....++.|.||...+..|+.++|||.||..|+.+.+.....||.||..+.
T Consensus 79 ~~~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 79 EEIRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred ccccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCcccccccc
Confidence 344678999999999999999999999999999998888889999998875
No 37
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=1.5e-08 Score=49.10 Aligned_cols=45 Identities=31% Similarity=0.809 Sum_probs=39.2
Q ss_pred cccccccccccCceecCCCCh-hhHHhHHHHhh-CCCCccccccccc
Q 037842 16 FTCGICLDTMKEESSTKCGHV-FCKSCIVDAIR-LQGKCPTCRTRMS 60 (78)
Q Consensus 16 ~~C~iC~~~~~~~~~~~CgH~-fc~~C~~~~~~-~~~~CP~C~~~~~ 60 (78)
.+|.||.+...+.+.-.|||. +|+.|-.+.++ ..+.||+||+++.
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 679999999999888899997 79999888777 4678999999875
No 38
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=8.8e-09 Score=66.14 Aligned_cols=50 Identities=38% Similarity=0.885 Sum_probs=42.3
Q ss_pred CCcccccccccccccCceec-CCCChhhHHhHHHHhhC-CCCcccccccccc
Q 037842 12 GEVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRL-QGKCPTCRTRMSV 61 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~~~-~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~ 61 (78)
...++.|+||++.+...+++ .|+|.||..||...++. ...||.||+.+..
T Consensus 40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVS 91 (381)
T ss_pred hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccc
Confidence 34568999999999988776 59999999999988876 4589999998754
No 39
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=5.3e-08 Score=60.88 Aligned_cols=59 Identities=19% Similarity=0.466 Sum_probs=45.7
Q ss_pred CcccccccccccccCc----------eecCCCChhhHHhHHHHhh--CCCCcccccccccccceeeeccCC
Q 037842 13 EVRFTCGICLDTMKEE----------SSTKCGHVFCKSCIVDAIR--LQGKCPTCRTRMSVRSIRRIFFPQ 71 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~----------~~~~CgH~fc~~C~~~~~~--~~~~CP~C~~~~~~~~~~~~~~~~ 71 (78)
.++..|+||-+.+... ..++|+|+|+..|+..|-. ++..||.|+..++.+...++...+
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnpWek 292 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNPWEK 292 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccCcccc
Confidence 3567899999876533 4679999999999999965 456899999999877766654443
No 40
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=98.44 E-value=5.1e-08 Score=62.13 Aligned_cols=52 Identities=31% Similarity=0.695 Sum_probs=45.1
Q ss_pred ccCCCcccccccccccccCceec-CCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 9 VVVGEVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 9 ~~~~~~~~~C~iC~~~~~~~~~~-~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
.........|.+|..++.++.++ .|-|+||++||..++.....||.|...+.
T Consensus 9 ~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih 61 (331)
T KOG2660|consen 9 LTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIH 61 (331)
T ss_pred hhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceecc
Confidence 34456678999999999999765 69999999999999999999999987764
No 41
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=4.1e-07 Score=56.97 Aligned_cols=52 Identities=25% Similarity=0.618 Sum_probs=42.7
Q ss_pred ccCCCcccccccccccccCceec-CCCChhhHHhHHHHhhC--CCCccccccccc
Q 037842 9 VVVGEVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRL--QGKCPTCRTRMS 60 (78)
Q Consensus 9 ~~~~~~~~~C~iC~~~~~~~~~~-~CgH~fc~~C~~~~~~~--~~~CP~C~~~~~ 60 (78)
......+.+|++|.+....|.++ +|||+||+.|+...... ...||.|..+..
T Consensus 233 ss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 233 SSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 33455678999999999999877 59999999999887664 358999988765
No 42
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=98.37 E-value=1.9e-07 Score=61.33 Aligned_cols=52 Identities=29% Similarity=0.879 Sum_probs=45.9
Q ss_pred CCcccccccccccccCceec-CCCChhhHHhHHHHhhCCCCcccccccccccc
Q 037842 12 GEVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRS 63 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~~~-~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~ 63 (78)
.++++.|++|...+.+|+.. .|||.||..|+..|+.....||.|+..+....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 56779999999999999984 99999999999999999889999987765443
No 43
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.36 E-value=2.8e-07 Score=45.41 Aligned_cols=43 Identities=33% Similarity=0.770 Sum_probs=30.1
Q ss_pred CCcccccccccccccCceec-CCCChhhHHhHHHHhhC--CCCccc
Q 037842 12 GEVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRL--QGKCPT 54 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~~~-~CgH~fc~~C~~~~~~~--~~~CP~ 54 (78)
....+.|||.+..+.+|+.. .|||+|-+..+..|+.. ...||.
T Consensus 8 ~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 44568999999999999875 89999999999999944 347998
No 44
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.34 E-value=4.9e-07 Score=46.99 Aligned_cols=46 Identities=26% Similarity=0.556 Sum_probs=35.9
Q ss_pred cccccccccccCc---------------eec-CCCChhhHHhHHHHhhCCCCcccccccccc
Q 037842 16 FTCGICLDTMKEE---------------SST-KCGHVFCKSCIVDAIRLQGKCPTCRTRMSV 61 (78)
Q Consensus 16 ~~C~iC~~~~~~~---------------~~~-~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~ 61 (78)
..|+||...+.++ +.. -|.|.|+..|+.+|+..++.||+++++...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 4577777665532 222 599999999999999999999999987654
No 45
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=2.6e-07 Score=58.28 Aligned_cols=46 Identities=33% Similarity=0.746 Sum_probs=41.4
Q ss_pred ccccccccccccCceecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 15 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
.+.|-||...+.+||.+.|||.||..|....+.....|.+|.+...
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccccccCCcceecccccc
Confidence 4679999999999999999999999999988888889999987653
No 46
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.26 E-value=1.5e-06 Score=53.89 Aligned_cols=62 Identities=23% Similarity=0.313 Sum_probs=54.3
Q ss_pred cccccccccccccCce----ecCCCChhhHHhHHHHhhCCCCcccccccccccceeeeccCCCCCC
Q 037842 14 VRFTCGICLDTMKEES----STKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFFPQLQPP 75 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~----~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~ 75 (78)
..+.||+|.+.+.|.+ .-+|||+++..|+...+.....||+|..++..++++.+.-.++-.+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~LqrGGTGfa 285 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIGLQRGGTGFA 285 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEeeeccccccc
Confidence 5689999999999863 3489999999999999999999999999999999999887766544
No 47
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=1.5e-06 Score=56.41 Aligned_cols=52 Identities=21% Similarity=0.418 Sum_probs=46.1
Q ss_pred cCCCcccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccc
Q 037842 10 VVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSV 61 (78)
Q Consensus 10 ~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~ 61 (78)
.+..++..|+||.-...+.+..||+|.-|+.|+.+.+.+.+.|-.|+..+..
T Consensus 417 lp~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CCCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 3445678999999998899999999999999999999999999999887764
No 48
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=7.7e-07 Score=59.69 Aligned_cols=49 Identities=24% Similarity=0.634 Sum_probs=38.6
Q ss_pred CcccccccccccccCc-----------------eecCCCChhhHHhHHHHhhC-CCCcccccccccc
Q 037842 13 EVRFTCGICLDTMKEE-----------------SSTKCGHVFCKSCIVDAIRL-QGKCPTCRTRMSV 61 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~-----------------~~~~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~ 61 (78)
+....|+||+..+.-. +.+||.|.|+..|+.+|+.. +-.||.||.++..
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 3457899999875421 23599999999999999995 5589999988753
No 49
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.18 E-value=2.6e-07 Score=47.27 Aligned_cols=47 Identities=28% Similarity=0.705 Sum_probs=23.6
Q ss_pred cccccccccccc-C---cee----cCCCChhhHHhHHHHhhC---C--------CCcccccccccc
Q 037842 15 RFTCGICLDTMK-E---ESS----TKCGHVFCKSCIVDAIRL---Q--------GKCPTCRTRMSV 61 (78)
Q Consensus 15 ~~~C~iC~~~~~-~---~~~----~~CgH~fc~~C~~~~~~~---~--------~~CP~C~~~~~~ 61 (78)
+..|+||...+. + |.. ..|+..|+..||.+|+.. . +.||.|+.++.-
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 467999999765 2 222 269999999999999873 1 259999988753
No 50
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.05 E-value=5.8e-06 Score=39.51 Aligned_cols=40 Identities=23% Similarity=0.579 Sum_probs=30.1
Q ss_pred ccccccc--cccCceecCCC-----ChhhHHhHHHHhhCC--CCccccc
Q 037842 17 TCGICLD--TMKEESSTKCG-----HVFCKSCIVDAIRLQ--GKCPTCR 56 (78)
Q Consensus 17 ~C~iC~~--~~~~~~~~~Cg-----H~fc~~C~~~~~~~~--~~CP~C~ 56 (78)
.|-||++ .-.++...||. |.++..|+.+|+..+ ..||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3789987 33345667874 789999999999754 3799884
No 51
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=2.7e-06 Score=55.67 Aligned_cols=50 Identities=26% Similarity=0.760 Sum_probs=37.1
Q ss_pred cccccccccccCce---ec-CCCChhhHHhHHHHhhC---CCCccccccccccccee
Q 037842 16 FTCGICLDTMKEES---ST-KCGHVFCKSCIVDAIRL---QGKCPTCRTRMSVRSIR 65 (78)
Q Consensus 16 ~~C~iC~~~~~~~~---~~-~CgH~fc~~C~~~~~~~---~~~CP~C~~~~~~~~~~ 65 (78)
..|.||.+.+.+.. .+ .|||+|+..|+..|+.. .+.||+|+..+..+.+.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~ 61 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA 61 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence 57999966544332 23 49999999999999985 35899999666655554
No 52
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.04 E-value=3e-06 Score=56.18 Aligned_cols=51 Identities=29% Similarity=0.572 Sum_probs=40.0
Q ss_pred cccCCCcccccccccccccCce----ecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 8 AVVVGEVRFTCGICLDTMKEES----STKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 8 ~~~~~~~~~~C~iC~~~~~~~~----~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
+.....+--+||||++.+...+ .+.|.|.|+-.|+..|.. ..||+||.-..
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~q~ 222 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYCQS 222 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhhcC
Confidence 3344556679999999998764 457999999999999965 46999987655
No 53
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=3.6e-06 Score=54.54 Aligned_cols=49 Identities=35% Similarity=0.805 Sum_probs=39.3
Q ss_pred CCcccccccccccccCce-----e---cCCCChhhHHhHHHHhh--C-----CCCccccccccc
Q 037842 12 GEVRFTCGICLDTMKEES-----S---TKCGHVFCKSCIVDAIR--L-----QGKCPTCRTRMS 60 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~-----~---~~CgH~fc~~C~~~~~~--~-----~~~CP~C~~~~~ 60 (78)
...+..|.||++...+.. . .+|.|.||..|+..|.. + .+.||.||....
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 355789999999877654 2 46999999999999984 3 368999998765
No 54
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=1.7e-06 Score=56.86 Aligned_cols=54 Identities=35% Similarity=0.752 Sum_probs=42.6
Q ss_pred ccccccccccccCc-----eecCCCChhhHHhHHHHhhC--CCCcccccccccccceeeec
Q 037842 15 RFTCGICLDTMKEE-----SSTKCGHVFCKSCIVDAIRL--QGKCPTCRTRMSVRSIRRIF 68 (78)
Q Consensus 15 ~~~C~iC~~~~~~~-----~~~~CgH~fc~~C~~~~~~~--~~~CP~C~~~~~~~~~~~~~ 68 (78)
...||||++.+.-+ +.+.|||.|-.+|+++|+.+ +..||.|......+.++..+
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e~ 64 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPEY 64 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHHH
Confidence 46899999998865 45689999999999999974 34799998877666555443
No 55
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=1.9e-06 Score=55.18 Aligned_cols=57 Identities=30% Similarity=0.587 Sum_probs=49.4
Q ss_pred CcccccccccccccCceecC-CCChhhHHhHHHHhhCCCCcccccccccccceeeecc
Q 037842 13 EVRFTCGICLDTMKEESSTK-CGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFF 69 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~~-CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~~~ 69 (78)
.+...||+|+....+|..+. -|-+||+.|+..++.+.+.||+-..+....++++++.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~l~rl~~ 355 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDHLIRLFN 355 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHHHHHHhc
Confidence 34578999999999997765 6999999999999999999999998888888877764
No 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.96 E-value=6.4e-06 Score=54.33 Aligned_cols=47 Identities=30% Similarity=0.705 Sum_probs=39.8
Q ss_pred cccccccccccCceecCCCChhhHHhHHHHhhC--CCCccccccccccc
Q 037842 16 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL--QGKCPTCRTRMSVR 62 (78)
Q Consensus 16 ~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~--~~~CP~C~~~~~~~ 62 (78)
..|.||.+.-.+..+-+|||..|..|+..|... ...||.||..++-.
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 468999998888777799999999999999864 34799999988643
No 57
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.94 E-value=1.7e-05 Score=49.65 Aligned_cols=58 Identities=24% Similarity=0.479 Sum_probs=46.8
Q ss_pred CCcccccccccccccCc----eecCCCChhhHHhHHHHhhCCCCcccccccccccceeeeccC
Q 037842 12 GEVRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFFP 70 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~----~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~~~~ 70 (78)
....+.|||....+... ...+|||+|...++...- ....||+|..++...+++.+.-+
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp~ 171 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNPP 171 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEEEecCC
Confidence 45679999999998653 234899999999998874 34579999999999998887544
No 58
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=9.4e-06 Score=41.94 Aligned_cols=46 Identities=35% Similarity=0.711 Sum_probs=35.0
Q ss_pred cccccccccccC------------ceec-CCCChhhHHhHHHHhhC---CCCcccccccccc
Q 037842 16 FTCGICLDTMKE------------ESST-KCGHVFCKSCIVDAIRL---QGKCPTCRTRMSV 61 (78)
Q Consensus 16 ~~C~iC~~~~~~------------~~~~-~CgH~fc~~C~~~~~~~---~~~CP~C~~~~~~ 61 (78)
..|.||.-.|.. |..+ .|.|.|+..|+.+|+.. +..||+||+....
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 377777776653 2333 59999999999999874 4589999987654
No 59
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.79 E-value=1.3e-05 Score=54.49 Aligned_cols=51 Identities=27% Similarity=0.775 Sum_probs=42.7
Q ss_pred CCcccccccccccccCceecCCCChhhHHhHHHHhhC-----CCCccccccccccc
Q 037842 12 GEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL-----QGKCPTCRTRMSVR 62 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~-----~~~CP~C~~~~~~~ 62 (78)
......|.+|.+.-.+++..+|.|.||+.|+.+|... ...||.|...+...
T Consensus 533 nk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred ccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 3456789999999999999999999999999888763 34799998877643
No 60
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.75 E-value=2.9e-05 Score=36.87 Aligned_cols=42 Identities=31% Similarity=0.872 Sum_probs=21.7
Q ss_pred cccccccccCc--eec--CCCChhhHHhHHHHhh-CCCCcccccccc
Q 037842 18 CGICLDTMKEE--SST--KCGHVFCKSCIVDAIR-LQGKCPTCRTRM 59 (78)
Q Consensus 18 C~iC~~~~~~~--~~~--~CgH~fc~~C~~~~~~-~~~~CP~C~~~~ 59 (78)
||+|.+.+... ... +||+..|..|+.+.+. ..+.||.||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 68888887433 233 6899999999999886 477999999864
No 61
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=4.1e-06 Score=53.10 Aligned_cols=43 Identities=33% Similarity=0.832 Sum_probs=35.5
Q ss_pred cccccccccccccCceecCCCCh-hhHHhHHHHhhCCCCccccccccc
Q 037842 14 VRFTCGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH~-fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
....|+||++...+-+.++|||. -|..|-.+. ..||+||+.+.
T Consensus 299 ~~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 299 TRRLCAICMDAPRDCVFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHHhcCCcceEEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 36789999999999999999995 588885443 37999998764
No 62
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.70 E-value=1e-05 Score=57.05 Aligned_cols=51 Identities=24% Similarity=0.525 Sum_probs=41.5
Q ss_pred CcccccccccccccCcee---cCCCChhhHHhHHHHhhCCCCcccccccccccc
Q 037842 13 EVRFTCGICLDTMKEESS---TKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRS 63 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~---~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~ 63 (78)
.....|++|+..+.+... ..|+|.||..|+..|.+....||+||..|..-.
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 345678999888776532 479999999999999999899999999886433
No 63
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.68 E-value=2.8e-05 Score=49.75 Aligned_cols=43 Identities=35% Similarity=0.869 Sum_probs=37.3
Q ss_pred ccccccccccccCceecC-CCChhhHHhHHHHhh-CCCCcccccc
Q 037842 15 RFTCGICLDTMKEESSTK-CGHVFCKSCIVDAIR-LQGKCPTCRT 57 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~~~-CgH~fc~~C~~~~~~-~~~~CP~C~~ 57 (78)
.+.|++|..++.+|+.++ |+|.||..|+...+. ....||.|..
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 389999999999999885 899999999987765 4568999965
No 64
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.67 E-value=1.5e-05 Score=38.79 Aligned_cols=47 Identities=23% Similarity=0.585 Sum_probs=35.3
Q ss_pred ccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccccc
Q 037842 15 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRS 63 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~ 63 (78)
...|-.|...-...+.++|||..|..|+..+ +-..||.|..++...+
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEccccccccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 4456666666666788899999999998643 3457999999887654
No 65
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.66 E-value=1.7e-05 Score=57.03 Aligned_cols=49 Identities=22% Similarity=0.621 Sum_probs=38.0
Q ss_pred CCccccccccccccc--C---ce--ecCCCChhhHHhHHHHhhC--CCCccccccccc
Q 037842 12 GEVRFTCGICLDTMK--E---ES--STKCGHVFCKSCIVDAIRL--QGKCPTCRTRMS 60 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~--~---~~--~~~CgH~fc~~C~~~~~~~--~~~CP~C~~~~~ 60 (78)
.+...+|+||...+. + |. -..|.|.|+..|+..|+.. ..+||.||..++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 445678999999876 2 22 2359999999999999986 458999997664
No 66
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.61 E-value=8.3e-05 Score=48.35 Aligned_cols=53 Identities=25% Similarity=0.693 Sum_probs=40.0
Q ss_pred ccccccccccccCc----eecCCCChhhHHhHHHHhhC-CCCcccccccccccceeee
Q 037842 15 RFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRL-QGKCPTCRTRMSVRSIRRI 67 (78)
Q Consensus 15 ~~~C~iC~~~~~~~----~~~~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~~~~~~~ 67 (78)
+..||+|++.+... .-.+||...|.-|+...... .+.||.||...+.++++..
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~ 71 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYV 71 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeEE
Confidence 33499999987754 22479999999998765543 5789999999887777643
No 67
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=0.00011 Score=48.65 Aligned_cols=34 Identities=38% Similarity=0.866 Sum_probs=28.9
Q ss_pred cccccccccccccCc---eecCCCChhhHHhHHHHhh
Q 037842 14 VRFTCGICLDTMKEE---SSTKCGHVFCKSCIVDAIR 47 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~---~~~~CgH~fc~~C~~~~~~ 47 (78)
..+.|.||++..... +.++|+|+||+.|+..|+.
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 357899999987763 4679999999999999986
No 68
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=0.00012 Score=39.95 Aligned_cols=27 Identities=26% Similarity=0.604 Sum_probs=24.7
Q ss_pred CCCChhhHHhHHHHhhCCCCccccccc
Q 037842 32 KCGHVFCKSCIVDAIRLQGKCPTCRTR 58 (78)
Q Consensus 32 ~CgH~fc~~C~~~~~~~~~~CP~C~~~ 58 (78)
.|.|.|+.-|+.+|++.+..||++.+.
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 599999999999999999999999654
No 69
>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=97.32 E-value=0.0002 Score=41.87 Aligned_cols=52 Identities=19% Similarity=0.501 Sum_probs=36.4
Q ss_pred cccccccccccccCceecCCC------------Chh-hHHhHHHHhhC-------------------------------C
Q 037842 14 VRFTCGICLDTMKEESSTKCG------------HVF-CKSCIVDAIRL-------------------------------Q 49 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~Cg------------H~f-c~~C~~~~~~~-------------------------------~ 49 (78)
++..||||++...+.|+|-|. ..| +..|+.++.+. .
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE 80 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence 467899999999999887432 211 56788877541 1
Q ss_pred CCccccccccccccee
Q 037842 50 GKCPTCRTRMSVRSIR 65 (78)
Q Consensus 50 ~~CP~C~~~~~~~~~~ 65 (78)
..||+||..+....+.
T Consensus 81 L~CPLCRG~V~GWtvv 96 (162)
T PF07800_consen 81 LACPLCRGEVKGWTVV 96 (162)
T ss_pred ccCccccCceeceEEc
Confidence 1399999998765554
No 70
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=97.32 E-value=0.00017 Score=48.41 Aligned_cols=35 Identities=23% Similarity=0.623 Sum_probs=31.6
Q ss_pred CcccccccccccccCceecCCCChhhHHhHHHHhh
Q 037842 13 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIR 47 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~ 47 (78)
++++.|+||...+++|++++|+|..|..|....+.
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence 56789999999999999999999999999986654
No 71
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=0.00017 Score=46.91 Aligned_cols=47 Identities=34% Similarity=0.716 Sum_probs=36.0
Q ss_pred CCCcccccccccccccCceecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 11 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 11 ~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
.......|.||.+...+.+.++|||+-| |..-... ...||+||+.+.
T Consensus 301 ~~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 301 ELPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred ccCCCCceEEecCCccceeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 3445578999999999999999999977 6554433 345999998765
No 72
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.25 E-value=8.9e-05 Score=45.79 Aligned_cols=49 Identities=27% Similarity=0.749 Sum_probs=33.2
Q ss_pred ccccccccccc-Cc-eecCCCChhhHHhHHHHhhCCCCcccccccccccceee
Q 037842 16 FTCGICLDTMK-EE-SSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRR 66 (78)
Q Consensus 16 ~~C~iC~~~~~-~~-~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~ 66 (78)
..|..|...-. ++ .++.|+|+||..|.... ....||.|++++....+..
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l~~ 54 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIRIIQLNR 54 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccC--Cccccccccceeeeeeccc
Confidence 45777766444 33 35689999999997533 2338999999876544443
No 73
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.00028 Score=46.43 Aligned_cols=56 Identities=21% Similarity=0.469 Sum_probs=43.2
Q ss_pred ccccccccccccc---CceecCCCChhhHHhHHHHhhCC---CCcccccccccccceeeecc
Q 037842 14 VRFTCGICLDTMK---EESSTKCGHVFCKSCIVDAIRLQ---GKCPTCRTRMSVRSIRRIFF 69 (78)
Q Consensus 14 ~~~~C~iC~~~~~---~~~~~~CgH~fc~~C~~~~~~~~---~~CP~C~~~~~~~~~~~~~~ 69 (78)
..+.|||=.+--. .|+.+.|||+.++.-+.+...+. .+||.|-......+.++++|
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~~kql~F 394 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASDTKQLYF 394 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHhcccccC
Confidence 4578998666433 36889999999999998877653 47999988877777777664
No 74
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.22 E-value=0.00015 Score=47.84 Aligned_cols=44 Identities=25% Similarity=0.810 Sum_probs=35.6
Q ss_pred cccccccccccccCc----eecCCCChhhHHhHHHHhhCC--CCcccccc
Q 037842 14 VRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQ--GKCPTCRT 57 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~----~~~~CgH~fc~~C~~~~~~~~--~~CP~C~~ 57 (78)
..+.|..|-+.+... -.++|.|+|+..|+..++.++ +.||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 457899999876532 357999999999999998764 48999983
No 75
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.13 E-value=0.00061 Score=44.57 Aligned_cols=51 Identities=31% Similarity=0.720 Sum_probs=41.6
Q ss_pred ccCCCcccccccccccccCceecCCCChhhHHhHHHH--hhCCCCcccccccc
Q 037842 9 VVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDA--IRLQGKCPTCRTRM 59 (78)
Q Consensus 9 ~~~~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~--~~~~~~CP~C~~~~ 59 (78)
....++...|.||.+.+.-...+||+|..|--|..+. +..++.|+.||..-
T Consensus 55 ddtDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 55 DDTDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 4456677899999999888888999999999998654 44678899998754
No 76
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=97.09 E-value=0.00018 Score=50.47 Aligned_cols=50 Identities=32% Similarity=0.790 Sum_probs=41.7
Q ss_pred cccccccccccCceecCCCChhhHHhHHHHhhCC--CCcccccccccccceee
Q 037842 16 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ--GKCPTCRTRMSVRSIRR 66 (78)
Q Consensus 16 ~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~--~~CP~C~~~~~~~~~~~ 66 (78)
..|.+|.+ ...++.+.|||.||..|+...+... ..||.|+..+..+.+..
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 78999999 7778889999999999999887753 37999998887665544
No 77
>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=97.07 E-value=0.00076 Score=31.29 Aligned_cols=38 Identities=24% Similarity=0.722 Sum_probs=24.0
Q ss_pred cccccccccCceecC---CCChhhHHhHHHHhhCCC--Ccccc
Q 037842 18 CGICLDTMKEESSTK---CGHVFCKSCIVDAIRLQG--KCPTC 55 (78)
Q Consensus 18 C~iC~~~~~~~~~~~---CgH~fc~~C~~~~~~~~~--~CP~C 55 (78)
|.+|.+.....+.-+ |+-.++..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 678888888776654 888999999999998755 69987
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=97.04 E-value=0.0006 Score=43.31 Aligned_cols=54 Identities=26% Similarity=0.659 Sum_probs=40.5
Q ss_pred cccccccc-ccCce--e--cCCCChhhHHhHHHHhhC-CCCcccccccccccceeeeccC
Q 037842 17 TCGICLDT-MKEES--S--TKCGHVFCKSCIVDAIRL-QGKCPTCRTRMSVRSIRRIFFP 70 (78)
Q Consensus 17 ~C~iC~~~-~~~~~--~--~~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~~~~~~~~~~ 70 (78)
.||+|... +.+|. + -+|||..|.+|+...+.. ...||.|...+....++...|.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q~fE 61 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQTFE 61 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccchhhcc
Confidence 58888863 55552 1 279999999999998775 5689999988877776665554
No 79
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.94 E-value=0.00092 Score=38.10 Aligned_cols=50 Identities=32% Similarity=0.755 Sum_probs=40.9
Q ss_pred cccccccccccccCceecC----CCChhhHHhHHHHhhC---CCCcccccccccccc
Q 037842 14 VRFTCGICLDTMKEESSTK----CGHVFCKSCIVDAIRL---QGKCPTCRTRMSVRS 63 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~----CgH~fc~~C~~~~~~~---~~~CP~C~~~~~~~~ 63 (78)
.-++|.||.+...+...+. ||-..|..|....|+. ...||+|+.++....
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 5689999999988887762 9999999999887775 357999999887543
No 80
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.74 E-value=0.00083 Score=42.56 Aligned_cols=44 Identities=30% Similarity=0.745 Sum_probs=35.4
Q ss_pred cccccccccccC------ceecCCCChhhHHhHHHHhhCCC-Ccccccccc
Q 037842 16 FTCGICLDTMKE------ESSTKCGHVFCKSCIVDAIRLQG-KCPTCRTRM 59 (78)
Q Consensus 16 ~~C~iC~~~~~~------~~~~~CgH~fc~~C~~~~~~~~~-~CP~C~~~~ 59 (78)
..|-||.+.+.. |..+.|||.+|..|+...+.... .||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 568899888774 45678999999999988777643 689999884
No 81
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.71 E-value=0.0007 Score=43.43 Aligned_cols=49 Identities=27% Similarity=0.640 Sum_probs=37.8
Q ss_pred cccccccccccccCc---eecCCCChhhHHhHHHHhhC-----------------------CCCccccccccccc
Q 037842 14 VRFTCGICLDTMKEE---SSTKCGHVFCKSCIVDAIRL-----------------------QGKCPTCRTRMSVR 62 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~---~~~~CgH~fc~~C~~~~~~~-----------------------~~~CP~C~~~~~~~ 62 (78)
....|.||+.-|.+. ..++|.|.|+..|+.+++.. ...||+||..+..+
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 356799999988764 35689999999999998751 11499999988643
No 82
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.69 E-value=0.0004 Score=37.58 Aligned_cols=32 Identities=28% Similarity=0.543 Sum_probs=26.2
Q ss_pred CCcccccccccccccCce--ecCCCChhhHHhHH
Q 037842 12 GEVRFTCGICLDTMKEES--STKCGHVFCKSCIV 43 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~--~~~CgH~fc~~C~~ 43 (78)
.+++..|++|...+.+.. ..||||.||..|+.
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 455678999999999874 35999999999975
No 83
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=96.63 E-value=0.0013 Score=42.16 Aligned_cols=46 Identities=28% Similarity=0.748 Sum_probs=37.3
Q ss_pred CCcccccccccccccCce-ecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 12 GEVRFTCGICLDTMKEES-STKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~-~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
..+-+.||||.+.+..|+ +-.=||..|..|-. +....||.|+.++.
T Consensus 45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred chhhccCchhhccCcccceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 445689999999999885 45789999999965 33457999999886
No 84
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.0066 Score=40.81 Aligned_cols=58 Identities=24% Similarity=0.660 Sum_probs=42.4
Q ss_pred CcccccccccccccC-ceecCCCChhhHHhHHHHhhCC--------CCccc--ccccccccceeeeccC
Q 037842 13 EVRFTCGICLDTMKE-ESSTKCGHVFCKSCIVDAIRLQ--------GKCPT--CRTRMSVRSIRRIFFP 70 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~-~~~~~CgH~fc~~C~~~~~~~~--------~~CP~--C~~~~~~~~~~~~~~~ 70 (78)
.....|.||.+.+.. .+.+.|||.||..|+..++..+ ..||. |...+....+..+.-+
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s~ 136 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVSD 136 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecCC
Confidence 445789999999886 5567899999999999998742 24655 7766666665555433
No 85
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=96.25 E-value=0.0017 Score=40.61 Aligned_cols=60 Identities=18% Similarity=0.451 Sum_probs=42.9
Q ss_pred ccccccccccc-ccCc-e-e-c-C-CCChhhHHhHHHHhhCC-CCcc--cccccccccceeeeccCCCC
Q 037842 14 VRFTCGICLDT-MKEE-S-S-T-K-CGHVFCKSCIVDAIRLQ-GKCP--TCRTRMSVRSIRRIFFPQLQ 73 (78)
Q Consensus 14 ~~~~C~iC~~~-~~~~-~-~-~-~-CgH~fc~~C~~~~~~~~-~~CP--~C~~~~~~~~~~~~~~~~~~ 73 (78)
.+..||+|... +-+| + . + | |-|.+|.+|+.+.+... ..|| -|.+-+....++...|....
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf~~qtFeD~~ 77 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKFIKQTFEDIT 77 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcccccccchhh
Confidence 45689999874 4455 2 2 2 4 99999999999998864 4899 58877766666666555443
No 86
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.21 E-value=0.0083 Score=35.24 Aligned_cols=51 Identities=22% Similarity=0.514 Sum_probs=36.4
Q ss_pred CCCcccccccccccccCceecCC--CC---hhhHHhHHHHhhCC--CCccccccccccc
Q 037842 11 VGEVRFTCGICLDTMKEESSTKC--GH---VFCKSCIVDAIRLQ--GKCPTCRTRMSVR 62 (78)
Q Consensus 11 ~~~~~~~C~iC~~~~~~~~~~~C--gH---~fc~~C~~~~~~~~--~~CP~C~~~~~~~ 62 (78)
.+..+..|-||.+...+ ..-+| .. ..+..|+++|+..+ ..|+.|+.++...
T Consensus 4 ~s~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 4 VSLMDKCCWICKDEYDV-VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred cCCCCCeeEecCCCCCC-ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 34556789999987542 23354 33 34999999999864 4799999887644
No 87
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.17 E-value=0.0035 Score=44.98 Aligned_cols=41 Identities=27% Similarity=0.672 Sum_probs=34.2
Q ss_pred ccccccccccccCce-ecCCCChhhHHhHHHHhhCCCCccccccc
Q 037842 15 RFTCGICLDTMKEES-STKCGHVFCKSCIVDAIRLQGKCPTCRTR 58 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~-~~~CgH~fc~~C~~~~~~~~~~CP~C~~~ 58 (78)
.-.|..|...+.-|+ ...|||.|+..|+. .+...||.|+..
T Consensus 840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccchh
Confidence 357999999999884 57999999999997 445689999763
No 88
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=96.17 E-value=0.0026 Score=41.04 Aligned_cols=43 Identities=28% Similarity=0.605 Sum_probs=30.4
Q ss_pred cccccccccccCc-eecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 16 FTCGICLDTMKEE-SSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 16 ~~C~iC~~~~~~~-~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
..|.-|-..+... .+++|.|+||.+|.. ....+.||.|...+.
T Consensus 91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr--~~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYGRMIPCKHVFCLECAR--SDSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCcceeeecccccchhhhhhhhh--cCccccCcCcccHHH
Confidence 4566666655443 567999999999975 344668999976653
No 89
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.01 E-value=0.0069 Score=36.37 Aligned_cols=49 Identities=29% Similarity=0.725 Sum_probs=34.2
Q ss_pred cccccccccccccCce-------ecCCCChhhHHhHHHHhhC-----------CCCccccccccccc
Q 037842 14 VRFTCGICLDTMKEES-------STKCGHVFCKSCIVDAIRL-----------QGKCPTCRTRMSVR 62 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~-------~~~CgH~fc~~C~~~~~~~-----------~~~CP~C~~~~~~~ 62 (78)
.-..|.||..+--+.. -..||..|+.-|+..|++. -+.||.|..++..+
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 3345677766543321 2479999999999999973 13699998887643
No 90
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.87 E-value=0.0033 Score=29.72 Aligned_cols=35 Identities=23% Similarity=0.729 Sum_probs=23.5
Q ss_pred CceecCCC-ChhhHHhHHHHhhCCCCcccccccccc
Q 037842 27 EESSTKCG-HVFCKSCIVDAIRLQGKCPTCRTRMSV 61 (78)
Q Consensus 27 ~~~~~~Cg-H~fc~~C~~~~~~~~~~CP~C~~~~~~ 61 (78)
+.-.+.|. |-.|..|+...+.....||+|..+++.
T Consensus 12 ~k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 12 NKGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred CCCeeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 33456675 778999999988888899999988764
No 91
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.80 E-value=0.0038 Score=41.33 Aligned_cols=53 Identities=40% Similarity=0.928 Sum_probs=35.2
Q ss_pred cccccccccccccCc----eecCCCChhhHHhHHHHhhCC------CCccc--ccccccccceee
Q 037842 14 VRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQ------GKCPT--CRTRMSVRSIRR 66 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~----~~~~CgH~fc~~C~~~~~~~~------~~CP~--C~~~~~~~~~~~ 66 (78)
....|.||....... ....|+|.||..|+.+++..+ ..||. |...+.......
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~~ 209 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCRK 209 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHhh
Confidence 467899999433322 235799999999999988742 25765 655555444333
No 92
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.78 E-value=0.0066 Score=38.58 Aligned_cols=43 Identities=30% Similarity=0.696 Sum_probs=35.4
Q ss_pred ccccccccccccC----ceecCCCChhhHHhHHHHhhCCCCcccccc
Q 037842 15 RFTCGICLDTMKE----ESSTKCGHVFCKSCIVDAIRLQGKCPTCRT 57 (78)
Q Consensus 15 ~~~C~iC~~~~~~----~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~ 57 (78)
...||||.+.+.. +..++|||..+..|+.........||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3459999997654 356799999999999998877789999988
No 93
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.75 E-value=0.0099 Score=36.96 Aligned_cols=45 Identities=20% Similarity=0.561 Sum_probs=35.9
Q ss_pred ccccccccccccCc--eecCCCChhhHHhHHHHhhC--------CCCcccccccc
Q 037842 15 RFTCGICLDTMKEE--SSTKCGHVFCKSCIVDAIRL--------QGKCPTCRTRM 59 (78)
Q Consensus 15 ~~~C~iC~~~~~~~--~~~~CgH~fc~~C~~~~~~~--------~~~CP~C~~~~ 59 (78)
.-.|.+|...+... +.+.|-|.|+++|+..|..+ ...||.|...+
T Consensus 50 ~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 45688999888754 66789999999999998763 23699998775
No 94
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=95.65 E-value=0.0019 Score=47.99 Aligned_cols=45 Identities=31% Similarity=0.777 Sum_probs=39.1
Q ss_pred CcccccccccccccC-ceecCCCChhhHHhHHHHhhCCCCcccccc
Q 037842 13 EVRFTCGICLDTMKE-ESSTKCGHVFCKSCIVDAIRLQGKCPTCRT 57 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~-~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~ 57 (78)
.....|.||.+.+.+ .....|||.+|..|...|+..+..||.|..
T Consensus 1151 ~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred hcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 355689999999994 566789999999999999999999999963
No 95
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=95.52 E-value=0.0038 Score=43.89 Aligned_cols=50 Identities=34% Similarity=0.750 Sum_probs=40.5
Q ss_pred cccccccccccccCceecCCCChhhHHhHHHHhhCC---CCcccccccccccc
Q 037842 14 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ---GKCPTCRTRMSVRS 63 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~---~~CP~C~~~~~~~~ 63 (78)
..+.|+||...+..|+.+.|.|.||..|+...+... ..||+|+..+....
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 457899999999999999999999999998766543 47999986655433
No 96
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.50 E-value=0.0088 Score=43.04 Aligned_cols=47 Identities=30% Similarity=0.740 Sum_probs=35.6
Q ss_pred CCcccccccccccccCcee----cCCCChhhHHhHHHHhhCC-------CCccccccc
Q 037842 12 GEVRFTCGICLDTMKEESS----TKCGHVFCKSCIVDAIRLQ-------GKCPTCRTR 58 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~~----~~CgH~fc~~C~~~~~~~~-------~~CP~C~~~ 58 (78)
....+.|.||.+.+..... ..|-|+|+..||..|-.+. -.||.|...
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 3456899999998875422 2689999999999997741 169999843
No 97
>PHA03096 p28-like protein; Provisional
Probab=95.49 E-value=0.011 Score=37.86 Aligned_cols=42 Identities=29% Similarity=0.457 Sum_probs=29.5
Q ss_pred cccccccccccCc--------eecCCCChhhHHhHHHHhhCC---CCcccccc
Q 037842 16 FTCGICLDTMKEE--------SSTKCGHVFCKSCIVDAIRLQ---GKCPTCRT 57 (78)
Q Consensus 16 ~~C~iC~~~~~~~--------~~~~CgH~fc~~C~~~~~~~~---~~CP~C~~ 57 (78)
..|.||++..... ....|.|.||..|+..|.... ..||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 5799999975532 233699999999999998742 24444443
No 98
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.46 E-value=0.0061 Score=46.68 Aligned_cols=49 Identities=20% Similarity=0.588 Sum_probs=36.8
Q ss_pred CCcccccccccccccC---ceecCCCChhhHHhHHHHhhCC----------CCccccccccc
Q 037842 12 GEVRFTCGICLDTMKE---ESSTKCGHVFCKSCIVDAIRLQ----------GKCPTCRTRMS 60 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~---~~~~~CgH~fc~~C~~~~~~~~----------~~CP~C~~~~~ 60 (78)
-+.+..|.||+..--. .+.+.|+|.|+..|..+.+.+. ..||+|..++.
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 3456689999875332 2678999999999998876642 15999988875
No 99
>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=95.30 E-value=0.015 Score=38.24 Aligned_cols=33 Identities=24% Similarity=0.748 Sum_probs=25.6
Q ss_pred CCChhhHHhHHHHhhC-------------CCCccccccccccccee
Q 037842 33 CGHVFCKSCIVDAIRL-------------QGKCPTCRTRMSVRSIR 65 (78)
Q Consensus 33 CgH~fc~~C~~~~~~~-------------~~~CP~C~~~~~~~~~~ 65 (78)
|....|..|+.+|+.. +..||.||+.+-..|+.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV~ 356 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDVC 356 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeeee
Confidence 5667799999998863 23699999998877654
No 100
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.22 E-value=0.022 Score=36.72 Aligned_cols=41 Identities=27% Similarity=0.778 Sum_probs=31.3
Q ss_pred CCCChhhHHhHHHHhhC-------------CCCcccccccccccceeeeccCCC
Q 037842 32 KCGHVFCKSCIVDAIRL-------------QGKCPTCRTRMSVRSIRRIFFPQL 72 (78)
Q Consensus 32 ~CgH~fc~~C~~~~~~~-------------~~~CP~C~~~~~~~~~~~~~~~~~ 72 (78)
-|....|.+|+.+|+.. +..||.||+.+-..++.-+-+.-.
T Consensus 324 ~crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v~~~~~ 377 (381)
T KOG3899|consen 324 ICRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCVDFDYI 377 (381)
T ss_pred ccccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEEEeeee
Confidence 36778899999998752 336999999998888876655443
No 101
>PHA02862 5L protein; Provisional
Probab=95.03 E-value=0.026 Score=32.75 Aligned_cols=46 Identities=28% Similarity=0.611 Sum_probs=33.2
Q ss_pred cccccccccccCceecCCCC-----hhhHHhHHHHhhC--CCCccccccccccc
Q 037842 16 FTCGICLDTMKEESSTKCGH-----VFCKSCIVDAIRL--QGKCPTCRTRMSVR 62 (78)
Q Consensus 16 ~~C~iC~~~~~~~~~~~CgH-----~fc~~C~~~~~~~--~~~CP~C~~~~~~~ 62 (78)
..|=||.+.-.+. .-||.- .-|..|+.+|+.. +..|+.|+.++..+
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 4688999876544 345433 3589999999975 44799999887543
No 102
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.95 E-value=0.02 Score=37.25 Aligned_cols=55 Identities=24% Similarity=0.394 Sum_probs=39.0
Q ss_pred ccccccccccccc---CceecCCCChhhHHhHHHHhhCC---CCcccccccccccceeeec
Q 037842 14 VRFTCGICLDTMK---EESSTKCGHVFCKSCIVDAIRLQ---GKCPTCRTRMSVRSIRRIF 68 (78)
Q Consensus 14 ~~~~C~iC~~~~~---~~~~~~CgH~fc~~C~~~~~~~~---~~CP~C~~~~~~~~~~~~~ 68 (78)
.-+.||+=.+.-. .|+++.|||+.-..-+.+..++. ..||.|-......++.+.+
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~~~~~~rvr 395 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSKYENILRVR 395 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchhhhhhhccc
Confidence 3478888666433 36899999999988887765542 3799997766666665544
No 103
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=94.93 E-value=0.028 Score=26.78 Aligned_cols=43 Identities=19% Similarity=0.560 Sum_probs=21.4
Q ss_pred ccccccccccccCceec-CCCChhhHHhHHHHhh---C--CCCccccccc
Q 037842 15 RFTCGICLDTMKEESST-KCGHVFCKSCIVDAIR---L--QGKCPTCRTR 58 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~~-~CgH~fc~~C~~~~~~---~--~~~CP~C~~~ 58 (78)
.+.||+-...+..|+.. .|.|.-|.+ +..|+. . .-.||+|.++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 36799999999999865 799986643 223333 2 2269999753
No 104
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.91 E-value=0.01 Score=41.75 Aligned_cols=42 Identities=31% Similarity=0.728 Sum_probs=32.1
Q ss_pred cCCCccccccccccccc----CceecCCCChhhHHhHHHHhhCCCCcc
Q 037842 10 VVGEVRFTCGICLDTMK----EESSTKCGHVFCKSCIVDAIRLQGKCP 53 (78)
Q Consensus 10 ~~~~~~~~C~iC~~~~~----~~~~~~CgH~fc~~C~~~~~~~~~~CP 53 (78)
....+-+.|+||+..+. .|+.+.|||+.|..|+...... .||
T Consensus 6 ~~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~--scp 51 (861)
T KOG3161|consen 6 LKWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA--SCP 51 (861)
T ss_pred hhhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc--cCC
Confidence 34456678999988766 4688899999999999876554 455
No 105
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.80 E-value=0.061 Score=34.00 Aligned_cols=54 Identities=19% Similarity=0.389 Sum_probs=41.2
Q ss_pred CcccccccccccccCc----eecCCCChhhHHhHHHHhhCCCCcccccccccccceeeec
Q 037842 13 EVRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIF 68 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~----~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~~ 68 (78)
...+.|||-.-.+... ....|||+|-..-+.+.- ...|+.|.+.+...+++.+-
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik--as~C~~C~a~y~~~dvIvlN 166 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK--ASVCHVCGAAYQEDDVIVLN 166 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHhh--hccccccCCcccccCeEeeC
Confidence 4558899987777765 334899999988776643 56899999999888877653
No 106
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=94.41 E-value=0.026 Score=32.28 Aligned_cols=33 Identities=27% Similarity=0.619 Sum_probs=25.8
Q ss_pred ccccccccccccC--ce-ecCCC------ChhhHHhHHHHhh
Q 037842 15 RFTCGICLDTMKE--ES-STKCG------HVFCKSCIVDAIR 47 (78)
Q Consensus 15 ~~~C~iC~~~~~~--~~-~~~Cg------H~fc~~C~~~~~~ 47 (78)
..+|.||++.+.+ .+ .+++| |.||..|+.+|..
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 5789999999887 43 34554 6699999999954
No 107
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=94.10 E-value=0.1 Score=35.35 Aligned_cols=60 Identities=28% Similarity=0.401 Sum_probs=52.2
Q ss_pred ccccccccccCceecC-CCChhhHHhHHHHhhCCCCcccccccccccceeeeccCCCCCCC
Q 037842 17 TCGICLDTMKEESSTK-CGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFFPQLQPPA 76 (78)
Q Consensus 17 ~C~iC~~~~~~~~~~~-CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~~~ 76 (78)
.|+|--+..+.|+.-+ -||+|=++-+++++...+++|+-..++..+++.++..+....|.
T Consensus 2 ~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G~DPIt~~pLs~eelV~Ik~~~~v~pk 62 (506)
T KOG0289|consen 2 VCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETGKDPITNEPLSIEELVEIKVPAQVRPK 62 (506)
T ss_pred eecccCCCCCCccccccccchHHHHHHHHHHHHcCCCCCCCCcCCHHHeeeccccccccCC
Confidence 5888889999998764 99999999999999999999999999999999998777665443
No 108
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.47 E-value=0.032 Score=35.83 Aligned_cols=36 Identities=25% Similarity=0.761 Sum_probs=30.2
Q ss_pred cccccccccccccCceecCC----CChhhHHhHHHHhhCC
Q 037842 14 VRFTCGICLDTMKEESSTKC----GHVFCKSCIVDAIRLQ 49 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~C----gH~fc~~C~~~~~~~~ 49 (78)
..+.|.+|.+.+++...+.| .|.||..|-.+.++.+
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 34889999999999876655 7999999999988854
No 109
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.78 E-value=0.072 Score=33.64 Aligned_cols=36 Identities=19% Similarity=0.254 Sum_probs=31.1
Q ss_pred CCcccccccccccccCceecCCCChhhHHhHHHHhh
Q 037842 12 GEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIR 47 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~ 47 (78)
..+-.-|.+|+....+|+..+=||.|++.||.+++.
T Consensus 40 iK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred cCCcceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 334456789999999999999999999999988875
No 110
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.67 E-value=0.035 Score=34.00 Aligned_cols=39 Identities=26% Similarity=0.628 Sum_probs=29.7
Q ss_pred cccccccccCceecCCCCh-hhHHhHHHHhhCCCCccccccccc
Q 037842 18 CGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 18 C~iC~~~~~~~~~~~CgH~-fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
|-.|.+.-.....+||.|. +|..|-.. ...||+|+....
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 8888887777677899985 78888543 346999987654
No 111
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.37 E-value=0.09 Score=37.97 Aligned_cols=39 Identities=36% Similarity=0.808 Sum_probs=30.8
Q ss_pred cccccccccccCce--ecCCCChhhHHhHHHHhhCCCCccc
Q 037842 16 FTCGICLDTMKEES--STKCGHVFCKSCIVDAIRLQGKCPT 54 (78)
Q Consensus 16 ~~C~iC~~~~~~~~--~~~CgH~fc~~C~~~~~~~~~~CP~ 54 (78)
+.|++|.-.+.... -..|+|+.+.+|...|+.....||.
T Consensus 1029 ~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeeEeeEeeccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 55777766555442 2479999999999999999889987
No 112
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.04 E-value=0.075 Score=35.34 Aligned_cols=40 Identities=28% Similarity=0.548 Sum_probs=30.8
Q ss_pred ccccccccccccCc-----eecCCCChhhHHhHHHHhhCCCCccc
Q 037842 15 RFTCGICLDTMKEE-----SSTKCGHVFCKSCIVDAIRLQGKCPT 54 (78)
Q Consensus 15 ~~~C~iC~~~~~~~-----~~~~CgH~fc~~C~~~~~~~~~~CP~ 54 (78)
-..|+.|...+... ++-.|||-||+.|...|...+..|..
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~ 350 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYE 350 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccC
Confidence 46799999876532 44569999999999999887776644
No 113
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.74 E-value=0.12 Score=37.56 Aligned_cols=36 Identities=22% Similarity=0.503 Sum_probs=27.4
Q ss_pred CCcccccccccccccC-c-eecCCCChhhHHhHHHHhh
Q 037842 12 GEVRFTCGICLDTMKE-E-SSTKCGHVFCKSCIVDAIR 47 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~-~-~~~~CgH~fc~~C~~~~~~ 47 (78)
.+....|.+|...+.. | +..+|||.|++.|+.+...
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 3455689999987654 4 3459999999999987654
No 114
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=91.20 E-value=0.13 Score=31.67 Aligned_cols=45 Identities=18% Similarity=0.491 Sum_probs=37.0
Q ss_pred cccccccccccccCceec-CCCChhhHHhHHHHhhCCCCccccccc
Q 037842 14 VRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRLQGKCPTCRTR 58 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~-~CgH~fc~~C~~~~~~~~~~CP~C~~~ 58 (78)
.-..|.+|.......+.. +|+-.++..|+..++.....||.|.--
T Consensus 180 nlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~ 225 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDL 225 (235)
T ss_pred HHHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchhcc
Confidence 346799999988776654 688889999999999998899999543
No 115
>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=91.09 E-value=0.22 Score=24.37 Aligned_cols=45 Identities=27% Similarity=0.745 Sum_probs=29.2
Q ss_pred ccccccccccCce--ecCC--CChhhHHhHHHHhhCCCCcccccccccccc
Q 037842 17 TCGICLDTMKEES--STKC--GHVFCKSCIVDAIRLQGKCPTCRTRMSVRS 63 (78)
Q Consensus 17 ~C~iC~~~~~~~~--~~~C--gH~fc~~C~~~~~~~~~~CP~C~~~~~~~~ 63 (78)
.|-.|-..+.... ..-| ..+||..|....+ ...||.|...+..+-
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 3555666554322 2223 3479999998876 457999998876543
No 116
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.05 E-value=0.46 Score=34.84 Aligned_cols=57 Identities=18% Similarity=0.399 Sum_probs=40.6
Q ss_pred CCccccccccccccc--CceecCCCCh-----hhHHhHHHHhhC--CCCcccccccccccceeeec
Q 037842 12 GEVRFTCGICLDTMK--EESSTKCGHV-----FCKSCIVDAIRL--QGKCPTCRTRMSVRSIRRIF 68 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~--~~~~~~CgH~-----fc~~C~~~~~~~--~~~CP~C~~~~~~~~~~~~~ 68 (78)
.+++..|-||...-. +|..-||..+ .+..|+.+|+.. ..+|-+|+.++.-+++-..-
T Consensus 9 N~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e~ 74 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKED 74 (1175)
T ss_pred CccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecccC
Confidence 445689999987533 4555566543 689999999985 45899999988766654433
No 117
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=89.45 E-value=0.15 Score=23.85 Aligned_cols=38 Identities=34% Similarity=0.718 Sum_probs=22.3
Q ss_pred cccccccccC--ceecCCCC-----hhhHHhHHHHhhC--CCCcccc
Q 037842 18 CGICLDTMKE--ESSTKCGH-----VFCKSCIVDAIRL--QGKCPTC 55 (78)
Q Consensus 18 C~iC~~~~~~--~~~~~CgH-----~fc~~C~~~~~~~--~~~CP~C 55 (78)
|-||++...+ +...+|+- ..+..|+.+|+.. ...|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 5677776553 34556542 3588999999984 3467766
No 118
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=89.10 E-value=0.48 Score=23.00 Aligned_cols=31 Identities=19% Similarity=0.603 Sum_probs=23.4
Q ss_pred ccccccccccccc--Ccee-c-CCCChhhHHhHHH
Q 037842 14 VRFTCGICLDTMK--EESS-T-KCGHVFCKSCIVD 44 (78)
Q Consensus 14 ~~~~C~iC~~~~~--~~~~-~-~CgH~fc~~C~~~ 44 (78)
....|++|.+.|. +.+. - .||-.+++.|+..
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 3467999999994 4433 3 5999999999754
No 119
>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=88.23 E-value=0.017 Score=29.54 Aligned_cols=40 Identities=28% Similarity=0.701 Sum_probs=20.8
Q ss_pred cccccccccccCceecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 16 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 16 ~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
+.||.|...+.-. =++.+|..|-..+ .....||.|..++.
T Consensus 2 ~~CP~C~~~L~~~----~~~~~C~~C~~~~-~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQ----GGHYHCEACQKDY-KKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEE----TTEEEETTT--EE-EEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEe----CCEEECccccccc-eecccCCCcccHHH
Confidence 5799998876532 1677777776543 33457899887764
No 120
>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=87.99 E-value=0.24 Score=20.38 Aligned_cols=9 Identities=22% Similarity=0.552 Sum_probs=4.6
Q ss_pred ccccccccc
Q 037842 18 CGICLDTMK 26 (78)
Q Consensus 18 C~iC~~~~~ 26 (78)
||-|...+.
T Consensus 3 CP~C~~~V~ 11 (26)
T PF10571_consen 3 CPECGAEVP 11 (26)
T ss_pred CCCCcCCch
Confidence 555555443
No 121
>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=86.05 E-value=0.089 Score=33.52 Aligned_cols=47 Identities=21% Similarity=0.311 Sum_probs=23.6
Q ss_pred CCcccccccccccccCceecC-----CCChhhHHhHHHHhhCCCCccccccc
Q 037842 12 GEVRFTCGICLDTMKEESSTK-----CGHVFCKSCIVDAIRLQGKCPTCRTR 58 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~~~~-----CgH~fc~~C~~~~~~~~~~CP~C~~~ 58 (78)
.+....||||-....-.+... =.+.+|..|-..|......||.|...
T Consensus 169 ~w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 169 GWQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 445679999999766544432 24567889999998888899999654
No 122
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=84.87 E-value=0.66 Score=23.92 Aligned_cols=32 Identities=31% Similarity=0.825 Sum_probs=23.2
Q ss_pred CCCChhhHHhHHHHhhCCCCccccccccccccee
Q 037842 32 KCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIR 65 (78)
Q Consensus 32 ~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~ 65 (78)
.-.++||..|....+. +.||.|...+..+.++
T Consensus 26 tfEcTFCadCae~~l~--g~CPnCGGelv~RP~R 57 (84)
T COG3813 26 TFECTFCADCAENRLH--GLCPNCGGELVARPIR 57 (84)
T ss_pred EEeeehhHhHHHHhhc--CcCCCCCchhhcCcCC
Confidence 3457899999986554 5799998887654443
No 123
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.29 E-value=0.069 Score=35.67 Aligned_cols=49 Identities=22% Similarity=0.567 Sum_probs=39.8
Q ss_pred ccccccccccccCc----eecCCCChhhHHhHHHHhhCCCCcccccccccccc
Q 037842 15 RFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRS 63 (78)
Q Consensus 15 ~~~C~iC~~~~~~~----~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~ 63 (78)
...+.||...+..- ..+.|||.+...++..|+.....+|.|+..+....
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKNG 248 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhhh
Confidence 35688988877643 35689999999999999999889999998886543
No 124
>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=83.83 E-value=0.76 Score=23.22 Aligned_cols=12 Identities=33% Similarity=0.916 Sum_probs=8.8
Q ss_pred hhhHHhHHHHhh
Q 037842 36 VFCKSCIVDAIR 47 (78)
Q Consensus 36 ~fc~~C~~~~~~ 47 (78)
.||+.|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999987
No 125
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=81.68 E-value=0.78 Score=29.87 Aligned_cols=45 Identities=20% Similarity=0.389 Sum_probs=32.7
Q ss_pred CcccccccccccccCcee-c--CC--CChhhHHhHHHHhhCCCCcccccc
Q 037842 13 EVRFTCGICLDTMKEESS-T--KC--GHVFCKSCIVDAIRLQGKCPTCRT 57 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~-~--~C--gH~fc~~C~~~~~~~~~~CP~C~~ 57 (78)
+....||+|-....-.+. . .= .+.+|..|-..|......||.|..
T Consensus 185 ~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 185 EQRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred cCCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 356899999997654432 1 22 345688898899888889999975
No 126
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=81.26 E-value=0.84 Score=28.98 Aligned_cols=40 Identities=23% Similarity=0.404 Sum_probs=33.0
Q ss_pred ccccccccccccCcee-cCCCChhhHHhHHHHhhC--CCCccc
Q 037842 15 RFTCGICLDTMKEESS-TKCGHVFCKSCIVDAIRL--QGKCPT 54 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~-~~CgH~fc~~C~~~~~~~--~~~CP~ 54 (78)
.++||+=...+.+|+. ..|||+|=+.-+..++.. ...||+
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeeccc
Confidence 4789998889999965 479999999999888876 346887
No 127
>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=81.25 E-value=0.3 Score=24.30 Aligned_cols=32 Identities=28% Similarity=0.583 Sum_probs=16.1
Q ss_pred CcccccccccccccCce---e-cCCCChhhHHhHHH
Q 037842 13 EVRFTCGICLDTMKEES---S-TKCGHVFCKSCIVD 44 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~---~-~~CgH~fc~~C~~~ 44 (78)
.+...|.+|...|.--. . -.||++||..|...
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 44578999999885321 1 26999999888754
No 128
>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=80.40 E-value=2.1 Score=22.94 Aligned_cols=37 Identities=24% Similarity=0.779 Sum_probs=27.1
Q ss_pred ccccccccccccCceecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 15 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
...|-||...+..+ ||.||..|.. .++.|.+|...+.
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAY----kkGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAY----KKGICAMCGKKIL 80 (90)
T ss_pred CccccccccccccC-----CCccChhhhc----ccCcccccCCeec
Confidence 34688887766543 7889999953 3568999998874
No 129
>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=80.27 E-value=1.3 Score=21.04 Aligned_cols=40 Identities=25% Similarity=0.557 Sum_probs=21.6
Q ss_pred cccccccccccccCceecCCCChhhHHhHHHHhhC--CCCccccccccc
Q 037842 14 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL--QGKCPTCRTRMS 60 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~--~~~CP~C~~~~~ 60 (78)
+.+.||.|.+.+... .+..-+....... ...||+|...+.
T Consensus 1 ~~f~CP~C~~~~~~~-------~L~~H~~~~H~~~~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 1 DSFTCPYCGKGFSES-------SLVEHCEDEHRSESKNVVCPICSSRVT 42 (54)
T ss_pred CCcCCCCCCCccCHH-------HHHHHHHhHCcCCCCCccCCCchhhhh
Confidence 357899999854432 1222233222222 346999986544
No 130
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=79.14 E-value=4.8 Score=21.07 Aligned_cols=48 Identities=25% Similarity=0.554 Sum_probs=19.0
Q ss_pred cccccccccccccCc----eec---CCCChhhHHhHHHHhhC-CCCcccccccccc
Q 037842 14 VRFTCGICLDTMKEE----SST---KCGHVFCKSCIVDAIRL-QGKCPTCRTRMSV 61 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~----~~~---~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~ 61 (78)
....|.||-+.+... +.. .|+--.|+.|+.--.+. ...||.|+.....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 456799999876522 222 57878899998754443 4579999977654
No 131
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=78.71 E-value=2.2 Score=31.07 Aligned_cols=45 Identities=18% Similarity=0.294 Sum_probs=33.3
Q ss_pred cccccccccccCceec--CCCChhhHHhHHHHhhCCCCccc--cccccc
Q 037842 16 FTCGICLDTMKEESST--KCGHVFCKSCIVDAIRLQGKCPT--CRTRMS 60 (78)
Q Consensus 16 ~~C~iC~~~~~~~~~~--~CgH~fc~~C~~~~~~~~~~CP~--C~~~~~ 60 (78)
..|.+|...+.....- .|||.-+..++..|+.....||. |.....
T Consensus 780 ~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~c~ 828 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPHLCH 828 (839)
T ss_pred cCceeecceeeeeEeecccccccccHHHHHHHHhcCCCCccccCCcccc
Confidence 4677887777654332 59999999999999998887766 654443
No 132
>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 PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=75.90 E-value=2.5 Score=26.40 Aligned_cols=28 Identities=29% Similarity=0.622 Sum_probs=22.7
Q ss_pred hhHHhHHHHhhCCCCcccccccccccce
Q 037842 37 FCKSCIVDAIRLQGKCPTCRTRMSVRSI 64 (78)
Q Consensus 37 fc~~C~~~~~~~~~~CP~C~~~~~~~~~ 64 (78)
-|.+|.+..-++...||+|+.....++-
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrnp 223 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRNP 223 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCCC
Confidence 4899999888888999999887765543
No 134
>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=75.50 E-value=1.9 Score=20.42 Aligned_cols=32 Identities=25% Similarity=0.658 Sum_probs=21.5
Q ss_pred cccccccccccCce----ecCCCChhhHHhHHHHhh
Q 037842 16 FTCGICLDTMKEES----STKCGHVFCKSCIVDAIR 47 (78)
Q Consensus 16 ~~C~iC~~~~~~~~----~~~CgH~fc~~C~~~~~~ 47 (78)
..|.+|...|..-. -..||++||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 35788877665421 236999999999865433
No 135
>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=75.28 E-value=0.85 Score=21.76 Aligned_cols=13 Identities=23% Similarity=0.667 Sum_probs=7.0
Q ss_pred Ccccccccccccc
Q 037842 51 KCPTCRTRMSVRS 63 (78)
Q Consensus 51 ~CP~C~~~~~~~~ 63 (78)
.||+|..++...+
T Consensus 22 ~CPlC~r~l~~e~ 34 (54)
T PF04423_consen 22 CCPLCGRPLDEEH 34 (54)
T ss_dssp E-TTT--EE-HHH
T ss_pred cCCCCCCCCCHHH
Confidence 7999999987544
No 136
>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=73.76 E-value=0.85 Score=29.65 Aligned_cols=46 Identities=22% Similarity=0.435 Sum_probs=32.6
Q ss_pred CcccccccccccccCceec----CCC--ChhhHHhHHHHhhCCCCccccccc
Q 037842 13 EVRFTCGICLDTMKEESST----KCG--HVFCKSCIVDAIRLQGKCPTCRTR 58 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~----~Cg--H~fc~~C~~~~~~~~~~CP~C~~~ 58 (78)
+....||+|-....-.+.. .=| +.+|..|-..|......||.|...
T Consensus 182 ~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 182 ESRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 3456899999976443221 123 456888989998888899999763
No 137
>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=73.62 E-value=3.9 Score=19.58 Aligned_cols=25 Identities=36% Similarity=0.801 Sum_probs=12.4
Q ss_pred CCCChhhHHhHHHHhhCCCCccccc
Q 037842 32 KCGHVFCKSCIVDAIRLQGKCPTCR 56 (78)
Q Consensus 32 ~CgH~fc~~C~~~~~~~~~~CP~C~ 56 (78)
.|++.||.+|=.=.-..--+||-|.
T Consensus 26 ~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCccccCcChhhhccccCCcCCC
Confidence 5899999999532112234788773
No 138
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=73.05 E-value=3.3 Score=27.27 Aligned_cols=45 Identities=27% Similarity=0.679 Sum_probs=35.0
Q ss_pred cccccccccccCc--ee--cCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 16 FTCGICLDTMKEE--SS--TKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 16 ~~C~iC~~~~~~~--~~--~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
-.|+||.+..... .. .+||+..|..|+.........||.||.+..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 5799999976432 23 368998899999888888889999996654
No 139
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=72.54 E-value=6 Score=26.24 Aligned_cols=61 Identities=20% Similarity=0.484 Sum_probs=36.4
Q ss_pred CCCccccccccccccc--------------C---c--eecCCCChhhHHhHHHHhhC---------CCCcccccccccc-
Q 037842 11 VGEVRFTCGICLDTMK--------------E---E--SSTKCGHVFCKSCIVDAIRL---------QGKCPTCRTRMSV- 61 (78)
Q Consensus 11 ~~~~~~~C~iC~~~~~--------------~---~--~~~~CgH~fc~~C~~~~~~~---------~~~CP~C~~~~~~- 61 (78)
....+..||+|+..-. + | ...+|||+.-.+=..-|... ...||.|...+.-
T Consensus 337 ~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 337 TGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 3445678999986411 1 1 22489997555544444431 2259999888764
Q ss_pred cceeeeccCC
Q 037842 62 RSIRRIFFPQ 71 (78)
Q Consensus 62 ~~~~~~~~~~ 71 (78)
....+++|.+
T Consensus 417 ~~~ikliFq~ 426 (429)
T KOG3842|consen 417 QGYIKLIFQG 426 (429)
T ss_pred CceEEEEEec
Confidence 4456666554
No 140
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=71.15 E-value=2.6 Score=25.66 Aligned_cols=38 Identities=37% Similarity=0.827 Sum_probs=25.8
Q ss_pred cccccccccc-ccCc-----e-e-cCCCChhhHHhHHHHhhCCCCcccccc
Q 037842 15 RFTCGICLDT-MKEE-----S-S-TKCGHVFCKSCIVDAIRLQGKCPTCRT 57 (78)
Q Consensus 15 ~~~C~iC~~~-~~~~-----~-~-~~CgH~fc~~C~~~~~~~~~~CP~C~~ 57 (78)
.+.|.+|.+. +.-| + . -.|+.+|+..|+.+ ..||.|..
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 5778889863 2222 1 1 16999999999762 57999954
No 141
>PLN02248 cellulose synthase-like protein
Probab=70.55 E-value=6 Score=30.22 Aligned_cols=34 Identities=32% Similarity=0.967 Sum_probs=28.4
Q ss_pred CCCChhhHHhHHHHhhCCCCccccccccccccee
Q 037842 32 KCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIR 65 (78)
Q Consensus 32 ~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~ 65 (78)
.|+...|++|....+...+.||-|+.+....++.
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKVTDLD 182 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccccccc
Confidence 5888899999999999888999999888654443
No 142
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.33 E-value=3.3 Score=26.52 Aligned_cols=50 Identities=26% Similarity=0.531 Sum_probs=34.1
Q ss_pred CCCcccccccccccccCcee----cCCC-----ChhhHHhHHHHhhCCC--------Cccccccccc
Q 037842 11 VGEVRFTCGICLDTMKEESS----TKCG-----HVFCKSCIVDAIRLQG--------KCPTCRTRMS 60 (78)
Q Consensus 11 ~~~~~~~C~iC~~~~~~~~~----~~Cg-----H~fc~~C~~~~~~~~~--------~CP~C~~~~~ 60 (78)
..+.+..|-||+..-++-.. -||. |=.+.+|+.+|+..+. .||.|+....
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 34556789999997665422 2543 3368999999987422 5999987643
No 143
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=70.25 E-value=2.7 Score=17.74 Aligned_cols=34 Identities=24% Similarity=0.650 Sum_probs=17.7
Q ss_pred cccccccccCc--eecCCCChhhHHhHHHHhhCCCCcccccccc
Q 037842 18 CGICLDTMKEE--SSTKCGHVFCKSCIVDAIRLQGKCPTCRTRM 59 (78)
Q Consensus 18 C~iC~~~~~~~--~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~ 59 (78)
|..|.+.+... ....=+..|+..|+ .|..|+.++
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccCC--------CCcccCCcC
Confidence 66677766653 22233455555553 455665543
No 144
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=69.80 E-value=5.1 Score=29.72 Aligned_cols=45 Identities=11% Similarity=0.171 Sum_probs=30.2
Q ss_pred ccccccccccccCce----ec---CCCChhhHHhHHHHhhC----CC--Ccccccccc
Q 037842 15 RFTCGICLDTMKEES----ST---KCGHVFCKSCIVDAIRL----QG--KCPTCRTRM 59 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~----~~---~CgH~fc~~C~~~~~~~----~~--~CP~C~~~~ 59 (78)
...|.+|...+.+++ .. .|+|.||..||..|..+ .. .|+.|..-+
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 356777777666632 23 49999999999999874 12 456665544
No 145
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.76 E-value=1.5 Score=26.23 Aligned_cols=14 Identities=29% Similarity=0.688 Sum_probs=7.7
Q ss_pred cccccccccccccC
Q 037842 14 VRFTCGICLDTMKE 27 (78)
Q Consensus 14 ~~~~C~iC~~~~~~ 27 (78)
+.-+|.||++.+..
T Consensus 176 dkGECvICLEdL~~ 189 (205)
T KOG0801|consen 176 DKGECVICLEDLEA 189 (205)
T ss_pred cCCcEEEEhhhccC
Confidence 34456666665553
No 146
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=68.51 E-value=9.3 Score=24.21 Aligned_cols=48 Identities=19% Similarity=0.409 Sum_probs=33.4
Q ss_pred ccccccccccccC----ceecCCC-----ChhhHHhHHHHhhC--CCCccccccccccc
Q 037842 15 RFTCGICLDTMKE----ESSTKCG-----HVFCKSCIVDAIRL--QGKCPTCRTRMSVR 62 (78)
Q Consensus 15 ~~~C~iC~~~~~~----~~~~~Cg-----H~fc~~C~~~~~~~--~~~CP~C~~~~~~~ 62 (78)
...|-||...... +...+|. ...+..|+..|... ...|..|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4679999986553 3445553 23589999999984 45799998766543
No 147
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=68.50 E-value=4.5 Score=25.52 Aligned_cols=27 Identities=30% Similarity=0.661 Sum_probs=21.7
Q ss_pred hhHHhHHHHhhCCCCcccccccccccc
Q 037842 37 FCKSCIVDAIRLQGKCPTCRTRMSVRS 63 (78)
Q Consensus 37 fc~~C~~~~~~~~~~CP~C~~~~~~~~ 63 (78)
.|..|.+..-++...||+|+.....++
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSrN 277 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSRN 277 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccCC
Confidence 488898888888889999988765544
No 148
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=68.38 E-value=0.57 Score=19.07 Aligned_cols=7 Identities=43% Similarity=1.303 Sum_probs=3.0
Q ss_pred Ccccccc
Q 037842 51 KCPTCRT 57 (78)
Q Consensus 51 ~CP~C~~ 57 (78)
.||.|..
T Consensus 18 fC~~CG~ 24 (26)
T PF13248_consen 18 FCPNCGA 24 (26)
T ss_pred cChhhCC
Confidence 3444443
No 149
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=67.56 E-value=3.5 Score=18.43 Aligned_cols=22 Identities=27% Similarity=0.847 Sum_probs=12.6
Q ss_pred cccccccccC-ceecC-CCChhhH
Q 037842 18 CGICLDTMKE-ESSTK-CGHVFCK 39 (78)
Q Consensus 18 C~iC~~~~~~-~~~~~-CgH~fc~ 39 (78)
|.+|...... |..-. |+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 4455554444 55554 7777775
No 150
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.33 E-value=1.6 Score=28.48 Aligned_cols=47 Identities=26% Similarity=0.673 Sum_probs=36.4
Q ss_pred CcccccccccccccCceec-CCCChhhHHhHHHHhhCCCCcccccccc
Q 037842 13 EVRFTCGICLDTMKEESST-KCGHVFCKSCIVDAIRLQGKCPTCRTRM 59 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~-~CgH~fc~~C~~~~~~~~~~CP~C~~~~ 59 (78)
.++..|-+|...+.-|... .|+|.||+-|...|......||.|+...
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 3456788888888777655 5999999999988888777787776554
No 151
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=66.31 E-value=2.7 Score=24.22 Aligned_cols=21 Identities=33% Similarity=0.653 Sum_probs=13.8
Q ss_pred cccccccCceecCCCChhhHH
Q 037842 20 ICLDTMKEESSTKCGHVFCKS 40 (78)
Q Consensus 20 iC~~~~~~~~~~~CgH~fc~~ 40 (78)
||.+.-...+...|||.||..
T Consensus 62 i~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEecccccEEEEeccccccCh
Confidence 455544444456899999863
No 152
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.91 E-value=4.5 Score=23.49 Aligned_cols=23 Identities=39% Similarity=0.712 Sum_probs=15.8
Q ss_pred cCCCccccccccccc-ccCceecCCCCh
Q 037842 10 VVGEVRFTCGICLDT-MKEESSTKCGHV 36 (78)
Q Consensus 10 ~~~~~~~~C~iC~~~-~~~~~~~~CgH~ 36 (78)
....++..|.||... |.+ .|||.
T Consensus 60 aGv~ddatC~IC~KTKFAD----G~GH~ 83 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFAD----GCGHN 83 (169)
T ss_pred cccCcCcchhhhhhccccc----ccCcc
Confidence 345678899999985 333 47774
No 153
>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=65.42 E-value=3.8 Score=22.47 Aligned_cols=26 Identities=31% Similarity=0.692 Sum_probs=18.6
Q ss_pred CChhhHHhHHHHhhC---------CCCcccccccc
Q 037842 34 GHVFCKSCIVDAIRL---------QGKCPTCRTRM 59 (78)
Q Consensus 34 gH~fc~~C~~~~~~~---------~~~CP~C~~~~ 59 (78)
.-.||..||...+.. .-.||.||..-
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 667999999877653 12599987643
No 154
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=65.09 E-value=5.6 Score=28.97 Aligned_cols=49 Identities=27% Similarity=0.562 Sum_probs=34.0
Q ss_pred CCcccccccccccccCce----------ecCCCChh--------------------hHHhHHHHhhC--------CCCcc
Q 037842 12 GEVRFTCGICLDTMKEES----------STKCGHVF--------------------CKSCIVDAIRL--------QGKCP 53 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~----------~~~CgH~f--------------------c~~C~~~~~~~--------~~~CP 53 (78)
..+-..|.-|++.+.+|. -+.||..| |..|..+|... ...||
T Consensus 98 ~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp 177 (750)
T COG0068 98 PPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACP 177 (750)
T ss_pred CCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCc
Confidence 445678999999988762 24677776 88888877542 22589
Q ss_pred ccccccc
Q 037842 54 TCRTRMS 60 (78)
Q Consensus 54 ~C~~~~~ 60 (78)
.|.-.+.
T Consensus 178 ~CGP~~~ 184 (750)
T COG0068 178 KCGPHLF 184 (750)
T ss_pred ccCCCeE
Confidence 9975543
No 155
>PF14353 CpXC: CpXC protein
Probab=64.04 E-value=8 Score=21.53 Aligned_cols=45 Identities=18% Similarity=0.222 Sum_probs=22.1
Q ss_pred cccccccccccCceecCCCChhhHHhHHHHhhC---CCCccccccccc
Q 037842 16 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL---QGKCPTCRTRMS 60 (78)
Q Consensus 16 ~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~---~~~CP~C~~~~~ 60 (78)
.+||-|...+.-.+-..-.-..-..=....+.. ...||.|+..+.
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFR 49 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCcee
Confidence 568888887665432211110111112222222 237999988874
No 156
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=63.77 E-value=0.63 Score=22.44 Aligned_cols=14 Identities=50% Similarity=1.039 Sum_probs=11.9
Q ss_pred CCCChhhHHhHHHH
Q 037842 32 KCGHVFCKSCIVDA 45 (78)
Q Consensus 32 ~CgH~fc~~C~~~~ 45 (78)
.|++.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 68999999997766
No 157
>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=62.99 E-value=5.9 Score=21.89 Aligned_cols=12 Identities=33% Similarity=0.875 Sum_probs=9.7
Q ss_pred Cccccccccccc
Q 037842 51 KCPTCRTRMSVR 62 (78)
Q Consensus 51 ~CP~C~~~~~~~ 62 (78)
.||.|...+...
T Consensus 28 vCP~CG~~~~~~ 39 (108)
T PF09538_consen 28 VCPKCGTEFPPE 39 (108)
T ss_pred cCCCCCCccCcc
Confidence 699998888766
No 158
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.66 E-value=5.4 Score=21.53 Aligned_cols=13 Identities=31% Similarity=0.818 Sum_probs=11.2
Q ss_pred hhhHHhHHHHhhC
Q 037842 36 VFCKSCIVDAIRL 48 (78)
Q Consensus 36 ~fc~~C~~~~~~~ 48 (78)
.||+.|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999873
No 159
>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=61.24 E-value=2.7 Score=28.40 Aligned_cols=57 Identities=23% Similarity=0.501 Sum_probs=0.0
Q ss_pred cccccccccccc--------------C---c--eecCCCChhhHHhHHHHhhC---------CCCcccccccccc-ccee
Q 037842 15 RFTCGICLDTMK--------------E---E--SSTKCGHVFCKSCIVDAIRL---------QGKCPTCRTRMSV-RSIR 65 (78)
Q Consensus 15 ~~~C~iC~~~~~--------------~---~--~~~~CgH~fc~~C~~~~~~~---------~~~CP~C~~~~~~-~~~~ 65 (78)
...||+|+..-. + | ...||||+.-.+-..-|... ...||.|..++.. ....
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~~g~v 407 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGEQGYV 407 (416)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccCCCCce
Confidence 678999996411 1 1 23489998766666555441 2369999999874 5577
Q ss_pred eeccCC
Q 037842 66 RIFFPQ 71 (78)
Q Consensus 66 ~~~~~~ 71 (78)
+++|++
T Consensus 408 rLiFQ~ 413 (416)
T PF04710_consen 408 RLIFQD 413 (416)
T ss_dssp ------
T ss_pred EEEEeC
Confidence 777764
No 160
>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=59.02 E-value=9.1 Score=17.85 Aligned_cols=28 Identities=29% Similarity=0.718 Sum_probs=11.9
Q ss_pred cccccccccccCc-eecCCCChhhHHhHH
Q 037842 16 FTCGICLDTMKEE-SSTKCGHVFCKSCIV 43 (78)
Q Consensus 16 ~~C~iC~~~~~~~-~~~~CgH~fc~~C~~ 43 (78)
+.|..|...+... ....=|..||..|..
T Consensus 27 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~ 55 (58)
T PF00412_consen 27 FKCSKCGKPLNDGDFYEKDGKPYCKDCYQ 55 (58)
T ss_dssp SBETTTTCBTTTSSEEEETTEEEEHHHHH
T ss_pred cccCCCCCccCCCeeEeECCEEECHHHHh
Confidence 4445555444433 222333444444443
No 161
>PRK11595 DNA utilization protein GntX; Provisional
Probab=58.42 E-value=9.1 Score=23.56 Aligned_cols=38 Identities=21% Similarity=0.468 Sum_probs=21.2
Q ss_pred ccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccc
Q 037842 17 TCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRM 59 (78)
Q Consensus 17 ~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~ 59 (78)
.|.+|...+... ....|..|...+......|+.|..+.
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhCCcccCcCccCCCcC
Confidence 578887765321 12367777665432234577776553
No 162
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=57.02 E-value=3.6 Score=29.15 Aligned_cols=23 Identities=35% Similarity=0.798 Sum_probs=17.3
Q ss_pred CCCChhhHHhHHHHhhCCCCcccccc
Q 037842 32 KCGHVFCKSCIVDAIRLQGKCPTCRT 57 (78)
Q Consensus 32 ~CgH~fc~~C~~~~~~~~~~CP~C~~ 57 (78)
.|++.||..|+.+ ....||.|-.
T Consensus 536 ~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 536 TCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred HHHHHHHHHHHhc---cCCCCCchHH
Confidence 6999999999754 2334999943
No 163
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.80 E-value=9.1 Score=27.68 Aligned_cols=44 Identities=30% Similarity=0.745 Sum_probs=33.0
Q ss_pred ccccccccccCceecCCCC-hhhHHhHHHHhhC------CCCccccccccc
Q 037842 17 TCGICLDTMKEESSTKCGH-VFCKSCIVDAIRL------QGKCPTCRTRMS 60 (78)
Q Consensus 17 ~C~iC~~~~~~~~~~~CgH-~fc~~C~~~~~~~------~~~CP~C~~~~~ 60 (78)
.|+||.....-...-+||| ..|..|..+.... ...||.|+..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 4889988877666678999 8999999876442 224799987654
No 164
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=56.60 E-value=6.9 Score=24.55 Aligned_cols=22 Identities=18% Similarity=0.486 Sum_probs=15.5
Q ss_pred cccccccccccC---ceecCCCChh
Q 037842 16 FTCGICLDTMKE---ESSTKCGHVF 37 (78)
Q Consensus 16 ~~C~iC~~~~~~---~~~~~CgH~f 37 (78)
+.||+|...+.. ....+.||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 689999998862 2334567876
No 165
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=55.39 E-value=6.2 Score=18.74 Aligned_cols=23 Identities=43% Similarity=0.821 Sum_probs=11.1
Q ss_pred CCCChhhHHhHHHHhhCCCCcccc
Q 037842 32 KCGHVFCKSCIVDAIRLQGKCPTC 55 (78)
Q Consensus 32 ~CgH~fc~~C~~~~~~~~~~CP~C 55 (78)
.|||.|=..=- ........||.|
T Consensus 33 ~Cgh~w~~~v~-~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVN-DRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccHh-hhccCCCCCCCC
Confidence 36665543321 122344568876
No 166
>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=54.93 E-value=1.9 Score=17.55 Aligned_cols=9 Identities=33% Similarity=1.135 Sum_probs=4.9
Q ss_pred Ccccccccc
Q 037842 51 KCPTCRTRM 59 (78)
Q Consensus 51 ~CP~C~~~~ 59 (78)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 366665554
No 167
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=54.92 E-value=11 Score=27.00 Aligned_cols=52 Identities=17% Similarity=0.428 Sum_probs=31.6
Q ss_pred CcccccccccccccCcee-cCCCChhhHHhHHHHhhC--C--CCcccccccccccce
Q 037842 13 EVRFTCGICLDTMKEESS-TKCGHVFCKSCIVDAIRL--Q--GKCPTCRTRMSVRSI 64 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~-~~CgH~fc~~C~~~~~~~--~--~~CP~C~~~~~~~~~ 64 (78)
.-.+.|+|....+.-|.. ..|+|.-|.+-..-...+ + -.||+|.+....+++
T Consensus 304 ~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l 360 (636)
T KOG2169|consen 304 RVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGL 360 (636)
T ss_pred eeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccch
Confidence 345789988887776643 578886665433211111 1 169999888765544
No 168
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=54.01 E-value=4.4 Score=26.02 Aligned_cols=51 Identities=22% Similarity=0.600 Sum_probs=34.5
Q ss_pred cccccccccccCc--eec-----CCCChhhHHhHHHHhhC---------CCCcccccccccccceee
Q 037842 16 FTCGICLDTMKEE--SST-----KCGHVFCKSCIVDAIRL---------QGKCPTCRTRMSVRSIRR 66 (78)
Q Consensus 16 ~~C~iC~~~~~~~--~~~-----~CgH~fc~~C~~~~~~~---------~~~CP~C~~~~~~~~~~~ 66 (78)
..|-+|.+.+.+. ..+ .|+-.++..|+...+.. .+.||.|++-+.-.++..
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w~~lv~ 249 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSWTTLVD 249 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeHHHHHH
Confidence 5789999888432 222 48888899999885432 347999988665444444
No 169
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.00 E-value=5.1 Score=29.46 Aligned_cols=35 Identities=20% Similarity=0.503 Sum_probs=25.6
Q ss_pred ccccccccccccC-------ceecCCCChhhHHhHHHHhhCC
Q 037842 15 RFTCGICLDTMKE-------ESSTKCGHVFCKSCIVDAIRLQ 49 (78)
Q Consensus 15 ~~~C~iC~~~~~~-------~~~~~CgH~fc~~C~~~~~~~~ 49 (78)
+.+|..|.+.... -+...|||.|+..|+.....+.
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~ 825 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN 825 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc
Confidence 3478888886552 2456899999999997766544
No 170
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=53.70 E-value=3.5 Score=16.50 Aligned_cols=14 Identities=21% Similarity=0.807 Sum_probs=8.8
Q ss_pred Ccccccccccccce
Q 037842 51 KCPTCRTRMSVRSI 64 (78)
Q Consensus 51 ~CP~C~~~~~~~~~ 64 (78)
.||.|...+..+.+
T Consensus 4 ~C~~CgR~F~~~~l 17 (25)
T PF13913_consen 4 PCPICGRKFNPDRL 17 (25)
T ss_pred cCCCCCCEECHHHH
Confidence 57777777655443
No 171
>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 TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=52.50 E-value=15 Score=20.51 Aligned_cols=41 Identities=27% Similarity=0.521 Sum_probs=27.2
Q ss_pred cccccccccccCce--------------ecCCCChhhHHhHHHHhhCCCCccccc
Q 037842 16 FTCGICLDTMKEES--------------STKCGHVFCKSCIVDAIRLQGKCPTCR 56 (78)
Q Consensus 16 ~~C~iC~~~~~~~~--------------~~~CgH~fc~~C~~~~~~~~~~CP~C~ 56 (78)
..|--|...|..+. -..|++.||.+|-.=+-..-.+||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 45888888776431 126899999988654444445788884
No 173
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=52.15 E-value=9.7 Score=25.32 Aligned_cols=42 Identities=26% Similarity=0.555 Sum_probs=25.4
Q ss_pred ccccccccccccCc--eec-CCCChhhHHhHHHHhhCCCCccccc
Q 037842 15 RFTCGICLDTMKEE--SST-KCGHVFCKSCIVDAIRLQGKCPTCR 56 (78)
Q Consensus 15 ~~~C~iC~~~~~~~--~~~-~CgH~fc~~C~~~~~~~~~~CP~C~ 56 (78)
...|-.|.+..... ... .|.+.||.+|-.=.-..--.||-|.
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcC
Confidence 34588885554433 222 6889999988542222334688885
No 174
>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=50.93 E-value=20 Score=15.64 Aligned_cols=24 Identities=25% Similarity=0.711 Sum_probs=11.5
Q ss_pred hhHHhHHHHhhCC--------CCccccccccc
Q 037842 37 FCKSCIVDAIRLQ--------GKCPTCRTRMS 60 (78)
Q Consensus 37 fc~~C~~~~~~~~--------~~CP~C~~~~~ 60 (78)
+|..|+.++.... ..|+.|.-.+.
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 3667777665421 25888865443
No 175
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=50.55 E-value=4.2 Score=18.70 Aligned_cols=29 Identities=14% Similarity=0.517 Sum_probs=17.7
Q ss_pred ccccccccccCceec---CCCChhhHHhHHHH
Q 037842 17 TCGICLDTMKEESST---KCGHVFCKSCIVDA 45 (78)
Q Consensus 17 ~C~iC~~~~~~~~~~---~CgH~fc~~C~~~~ 45 (78)
.|.||.....+..++ .|+..|+..|+...
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~ 32 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPP 32 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSS
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCC
Confidence 377888744433333 57777888887543
No 176
>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=50.36 E-value=14 Score=15.70 Aligned_cols=8 Identities=38% Similarity=1.020 Sum_probs=5.5
Q ss_pred CCcccccc
Q 037842 50 GKCPTCRT 57 (78)
Q Consensus 50 ~~CP~C~~ 57 (78)
..||.|..
T Consensus 18 ~~CP~Cg~ 25 (33)
T cd00350 18 WVCPVCGA 25 (33)
T ss_pred CcCcCCCC
Confidence 36888865
No 177
>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=49.85 E-value=18 Score=24.84 Aligned_cols=61 Identities=16% Similarity=0.277 Sum_probs=51.5
Q ss_pred cccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccccceeeeccCCCCC
Q 037842 14 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFFPQLQP 74 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~~~~~~~~~ 74 (78)
.-..|.+=+-.|..|+-+.=|.+|=..-|..|++..+.=|.-.+++..++++.+.|.+.+.
T Consensus 39 P~~hC~lt~~Pfe~PvC~~dg~vFd~~~Ivp~lkk~g~nP~tG~kl~~~dLIkL~F~Kns~ 99 (518)
T KOG0883|consen 39 PFNHCSLTMLPFEDPVCTVDGTVFDLTAIVPWLKKHGTNPITGQKLDGKDLIKLKFHKNSE 99 (518)
T ss_pred ChhhceeccccccCcccccCCcEEeeehhhHHHHHcCCCCCCCCccccccceeeeeccCCC
Confidence 3457888888999999888899999999999999888778888889888888887766543
No 178
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=49.77 E-value=7.5 Score=23.88 Aligned_cols=18 Identities=22% Similarity=0.728 Sum_probs=12.3
Q ss_pred CCCcccccccccccceee
Q 037842 49 QGKCPTCRTRMSVRSIRR 66 (78)
Q Consensus 49 ~~~CP~C~~~~~~~~~~~ 66 (78)
+..||+|...+..+.++.
T Consensus 5 ~~~CPvC~~~F~~~~vrs 22 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVRS 22 (214)
T ss_pred ceECCCCCCeeeeeEEEc
Confidence 457888888877655544
No 179
>PF12773 DZR: Double zinc ribbon
Probab=49.47 E-value=11 Score=17.26 Aligned_cols=11 Identities=27% Similarity=0.791 Sum_probs=6.8
Q ss_pred CCccccccccc
Q 037842 50 GKCPTCRTRMS 60 (78)
Q Consensus 50 ~~CP~C~~~~~ 60 (78)
..||.|...+.
T Consensus 30 ~~C~~Cg~~~~ 40 (50)
T PF12773_consen 30 KICPNCGAENP 40 (50)
T ss_pred CCCcCCcCCCc
Confidence 45777766543
No 180
>PLN02189 cellulose synthase
Probab=49.15 E-value=15 Score=28.02 Aligned_cols=46 Identities=30% Similarity=0.716 Sum_probs=32.0
Q ss_pred ccccccccccccCc------eec-CCCChhhHHhHHHHhhC-CCCccccccccc
Q 037842 15 RFTCGICLDTMKEE------SST-KCGHVFCKSCIVDAIRL-QGKCPTCRTRMS 60 (78)
Q Consensus 15 ~~~C~iC~~~~~~~------~~~-~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~ 60 (78)
...|.||.+.+... +.. .|+--.|..|++--.+. +..||.|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 45899999986521 222 47877899999533332 457999998876
No 181
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=48.96 E-value=13 Score=21.24 Aligned_cols=13 Identities=8% Similarity=0.133 Sum_probs=9.4
Q ss_pred CCccccccccccc
Q 037842 50 GKCPTCRTRMSVR 62 (78)
Q Consensus 50 ~~CP~C~~~~~~~ 62 (78)
..||.|...+...
T Consensus 27 ~vcP~cg~~~~~~ 39 (129)
T TIGR02300 27 AVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCCccCcc
Confidence 4789998776554
No 182
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=48.42 E-value=7.5 Score=20.74 Aligned_cols=12 Identities=25% Similarity=0.905 Sum_probs=6.2
Q ss_pred CCCccccccccc
Q 037842 49 QGKCPTCRTRMS 60 (78)
Q Consensus 49 ~~~CP~C~~~~~ 60 (78)
+++|..|++++.
T Consensus 58 rGrCr~C~~~I~ 69 (92)
T PF06750_consen 58 RGRCRYCGAPIP 69 (92)
T ss_pred CCCCcccCCCCC
Confidence 445555555544
No 183
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=48.34 E-value=9.3 Score=17.25 Aligned_cols=20 Identities=30% Similarity=0.577 Sum_probs=9.1
Q ss_pred ccccccCceecC-CCChhhHH
Q 037842 21 CLDTMKEESSTK-CGHVFCKS 40 (78)
Q Consensus 21 C~~~~~~~~~~~-CgH~fc~~ 40 (78)
|......|+.-+ |+..||..
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLK 26 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TT
T ss_pred CcCccCCCeECCCCCcccCcc
Confidence 555555555554 78878753
No 184
>PLN02436 cellulose synthase A
Probab=48.30 E-value=26 Score=26.99 Aligned_cols=46 Identities=30% Similarity=0.702 Sum_probs=32.0
Q ss_pred ccccccccccccCc------eec-CCCChhhHHhHHHHhhC-CCCccccccccc
Q 037842 15 RFTCGICLDTMKEE------SST-KCGHVFCKSCIVDAIRL-QGKCPTCRTRMS 60 (78)
Q Consensus 15 ~~~C~iC~~~~~~~------~~~-~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~ 60 (78)
...|.||-+.+... +.. .|+--.|..|++--.+. ...||.|+....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 45899999986532 222 47877899999533332 457999998876
No 185
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.01 E-value=11 Score=26.31 Aligned_cols=47 Identities=28% Similarity=0.577 Sum_probs=33.5
Q ss_pred cccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccccce
Q 037842 14 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSI 64 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~~~~ 64 (78)
....|.+|.... .....+|. ...|+..|...+..||.|+..+..++.
T Consensus 478 ~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 478 PNDVCAICYQEM-SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred ccCcchHHHHHH-Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 445688888877 33444566 467788888888899999887765443
No 186
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=46.76 E-value=30 Score=26.51 Aligned_cols=50 Identities=28% Similarity=0.554 Sum_probs=33.7
Q ss_pred CCCcccccccccccccCc------eec-CCCChhhHHhHHHHhh-CCCCccccccccc
Q 037842 11 VGEVRFTCGICLDTMKEE------SST-KCGHVFCKSCIVDAIR-LQGKCPTCRTRMS 60 (78)
Q Consensus 11 ~~~~~~~C~iC~~~~~~~------~~~-~CgH~fc~~C~~~~~~-~~~~CP~C~~~~~ 60 (78)
..-....|.||-+.+... +.. .|+--.|+.|++--.+ ....||.|+....
T Consensus 11 ~~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 11 QSADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cCCCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 333567899999976532 222 5887899999943222 2457999988776
No 187
>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=46.42 E-value=15 Score=21.78 Aligned_cols=26 Identities=31% Similarity=0.765 Sum_probs=19.5
Q ss_pred CChhhHHhHHHHhhCCCCccccccccccc
Q 037842 34 GHVFCKSCIVDAIRLQGKCPTCRTRMSVR 62 (78)
Q Consensus 34 gH~fc~~C~~~~~~~~~~CP~C~~~~~~~ 62 (78)
.+.||.+|-..... .||.|..++.-.
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 45699999877654 699998887643
No 188
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=45.60 E-value=5.2 Score=19.60 Aligned_cols=28 Identities=29% Similarity=0.742 Sum_probs=19.4
Q ss_pred ecCCCChhhHHhHHHHhhC-CCCcccccccccccc
Q 037842 30 STKCGHVFCKSCIVDAIRL-QGKCPTCRTRMSVRS 63 (78)
Q Consensus 30 ~~~CgH~fc~~C~~~~~~~-~~~CP~C~~~~~~~~ 63 (78)
-+.||-+.|. ... .+.|+.|..++...+
T Consensus 21 Cl~CGkIiC~------~Eg~~~pC~fCg~~l~~~~ 49 (57)
T PF06221_consen 21 CLNCGKIICE------QEGPLGPCPFCGTPLLSSE 49 (57)
T ss_pred ccccChhhcc------cccCcCcCCCCCCcccCHH
Confidence 3578888885 233 468999988775443
No 189
>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=45.54 E-value=8.8 Score=15.84 Aligned_cols=10 Identities=30% Similarity=1.188 Sum_probs=5.0
Q ss_pred Cccccccccc
Q 037842 51 KCPTCRTRMS 60 (78)
Q Consensus 51 ~CP~C~~~~~ 60 (78)
.||.|...+.
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 4888877765
No 190
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=45.34 E-value=10 Score=16.87 Aligned_cols=14 Identities=36% Similarity=0.888 Sum_probs=8.7
Q ss_pred Ccccccccccccce
Q 037842 51 KCPTCRTRMSVRSI 64 (78)
Q Consensus 51 ~CP~C~~~~~~~~~ 64 (78)
+||.|+..+....+
T Consensus 1 ~CP~C~~~l~~~~~ 14 (41)
T PF13453_consen 1 KCPRCGTELEPVRL 14 (41)
T ss_pred CcCCCCcccceEEE
Confidence 48888776554333
No 191
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=44.78 E-value=13 Score=18.29 Aligned_cols=12 Identities=25% Similarity=0.816 Sum_probs=7.7
Q ss_pred CCcccccccccc
Q 037842 50 GKCPTCRTRMSV 61 (78)
Q Consensus 50 ~~CP~C~~~~~~ 61 (78)
+.||.|+.++..
T Consensus 4 kHC~~CG~~Ip~ 15 (59)
T PF09889_consen 4 KHCPVCGKPIPP 15 (59)
T ss_pred CcCCcCCCcCCc
Confidence 457777766654
No 192
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=44.43 E-value=13 Score=23.71 Aligned_cols=46 Identities=22% Similarity=0.382 Sum_probs=33.9
Q ss_pred cccccccccccccCcee-cCCCChhhHHhHHHHhhC--CCCccc--ccccc
Q 037842 14 VRFTCGICLDTMKEESS-TKCGHVFCKSCIVDAIRL--QGKCPT--CRTRM 59 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~-~~CgH~fc~~C~~~~~~~--~~~CP~--C~~~~ 59 (78)
-+.+|||-+....-|+. ..|.|.|=.+-+..++.. .+.||. |.+.+
T Consensus 188 ~~nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~ 238 (275)
T COG5627 188 LSNRCPITLNPDFYPILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKE 238 (275)
T ss_pred hcccCCcccCcchhHHHHhhhcccccHHHHHHHhcCCceeecchhhcchhe
Confidence 35789998888877765 479999999888887773 446775 64433
No 193
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=44.26 E-value=15 Score=16.73 Aligned_cols=22 Identities=27% Similarity=0.575 Sum_probs=12.7
Q ss_pred cccccccccCceecCCCChhhH
Q 037842 18 CGICLDTMKEESSTKCGHVFCK 39 (78)
Q Consensus 18 C~iC~~~~~~~~~~~CgH~fc~ 39 (78)
|..|...-..-+-+.|++++|.
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~ 23 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCG 23 (50)
T ss_pred cccCCCcCCeEEecCCCCcccC
Confidence 5556544332244678888874
No 194
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=41.62 E-value=15 Score=18.46 Aligned_cols=25 Identities=20% Similarity=0.535 Sum_probs=14.0
Q ss_pred hHHhHHHHhhCCCCcccccccccccce
Q 037842 38 CKSCIVDAIRLQGKCPTCRTRMSVRSI 64 (78)
Q Consensus 38 c~~C~~~~~~~~~~CP~C~~~~~~~~~ 64 (78)
|..|- ++.....||.|...-...++
T Consensus 8 C~~C~--~i~~~~~Cp~Cgs~~~S~~w 32 (64)
T PRK06393 8 CKKCK--RLTPEKTCPVHGDEKTTTEW 32 (64)
T ss_pred HhhCC--cccCCCcCCCCCCCcCCcCc
Confidence 44453 23344579999876544333
No 195
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=41.04 E-value=4.8 Score=21.50 Aligned_cols=36 Identities=25% Similarity=0.806 Sum_probs=25.4
Q ss_pred cccccccccccCceecCCCChhhHHhHHHHhhCCCCccccccccc
Q 037842 16 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60 (78)
Q Consensus 16 ~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~ 60 (78)
..|-||...+..| |..||..|.. +++.|-+|.+.+.
T Consensus 55 ~kC~iCk~~vHQ~-----GshYC~tCAY----~KgiCAMCGKki~ 90 (100)
T KOG3476|consen 55 AKCRICKQLVHQP-----GSHYCQTCAY----KKGICAMCGKKIL 90 (100)
T ss_pred chhHHHHHHhcCC-----cchhHhHhhh----hhhHHHHhhhHhh
Confidence 4677888777665 5568888864 3457888877664
No 196
>PF14369 zf-RING_3: zinc-finger
Probab=40.83 E-value=18 Score=15.74 Aligned_cols=10 Identities=20% Similarity=0.554 Sum_probs=5.6
Q ss_pred cccccccccc
Q 037842 17 TCGICLDTMK 26 (78)
Q Consensus 17 ~C~iC~~~~~ 26 (78)
.||.|...|.
T Consensus 23 ~CP~C~~gFv 32 (35)
T PF14369_consen 23 ACPRCHGGFV 32 (35)
T ss_pred CCcCCCCcEe
Confidence 4666665543
No 197
>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=40.42 E-value=9.6 Score=21.11 Aligned_cols=44 Identities=23% Similarity=0.548 Sum_probs=26.0
Q ss_pred ccccccccccccc---Cc-e-ecCCCChhhHHhHHHHhhCCC--Cccccccc
Q 037842 14 VRFTCGICLDTMK---EE-S-STKCGHVFCKSCIVDAIRLQG--KCPTCRTR 58 (78)
Q Consensus 14 ~~~~C~iC~~~~~---~~-~-~~~CgH~fc~~C~~~~~~~~~--~CP~C~~~ 58 (78)
....|.+|...|. +. . -..|+|.+|..|-.. ..+.. .|-+|...
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHHH
Confidence 4568999988643 22 2 237999999988643 11111 47777553
No 198
>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=39.36 E-value=30 Score=20.27 Aligned_cols=16 Identities=25% Similarity=0.688 Sum_probs=11.6
Q ss_pred hhCCCCcccccccccc
Q 037842 46 IRLQGKCPTCRTRMSV 61 (78)
Q Consensus 46 ~~~~~~CP~C~~~~~~ 61 (78)
+.....||.|+..+..
T Consensus 125 ~~~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 125 MELNFTCPRCGAMLDY 140 (158)
T ss_pred HHcCCcCCCCCCEeee
Confidence 3346789999988753
No 199
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=39.09 E-value=47 Score=25.67 Aligned_cols=47 Identities=23% Similarity=0.599 Sum_probs=32.2
Q ss_pred cccccccccccccCc------eec-CCCChhhHHhHHHHhh-CCCCccccccccc
Q 037842 14 VRFTCGICLDTMKEE------SST-KCGHVFCKSCIVDAIR-LQGKCPTCRTRMS 60 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~------~~~-~CgH~fc~~C~~~~~~-~~~~CP~C~~~~~ 60 (78)
....|.||-+.+... +.. .|+--.|+.|.+--.+ ....||.|+...+
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 345899999986532 222 5887889999943222 2457999988876
No 200
>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=38.98 E-value=1.1 Score=21.46 Aligned_cols=30 Identities=23% Similarity=0.497 Sum_probs=16.1
Q ss_pred ccccc--ccccccCc-------eecC-CCChhhHHhHHHH
Q 037842 16 FTCGI--CLDTMKEE-------SSTK-CGHVFCKSCIVDA 45 (78)
Q Consensus 16 ~~C~i--C~~~~~~~-------~~~~-CgH~fc~~C~~~~ 45 (78)
..||- |...+... +.-+ |++.||..|...|
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 47876 77765532 2334 9999998886654
No 201
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.28 E-value=28 Score=20.03 Aligned_cols=25 Identities=28% Similarity=0.753 Sum_probs=17.0
Q ss_pred hhhHHhHHHHhhCCCCcccccccccccc
Q 037842 36 VFCKSCIVDAIRLQGKCPTCRTRMSVRS 63 (78)
Q Consensus 36 ~fc~~C~~~~~~~~~~CP~C~~~~~~~~ 63 (78)
.||..|-..... +||.|..++.-..
T Consensus 29 afcskcgeati~---qcp~csasirgd~ 53 (160)
T COG4306 29 AFCSKCGEATIT---QCPICSASIRGDY 53 (160)
T ss_pred HHHhhhchHHHh---cCCccCCcccccc
Confidence 478888665543 6899988776443
No 202
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=37.82 E-value=13 Score=24.18 Aligned_cols=49 Identities=18% Similarity=0.480 Sum_probs=30.5
Q ss_pred CCCcccccccccc-cccCc---e-ecCCCChhhHHhHHHHhhC-------CCCcccccccc
Q 037842 11 VGEVRFTCGICLD-TMKEE---S-STKCGHVFCKSCIVDAIRL-------QGKCPTCRTRM 59 (78)
Q Consensus 11 ~~~~~~~C~iC~~-~~~~~---~-~~~CgH~fc~~C~~~~~~~-------~~~CP~C~~~~ 59 (78)
++.+...|.+|.. .|..- . --.||++||..|-...+.. .+.|..|=..+
T Consensus 164 PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 164 PDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred CcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 4456688999998 33321 1 1379999999887653221 12577775544
No 203
>PRK04023 DNA polymerase II large subunit; Validated
Probab=37.66 E-value=23 Score=27.16 Aligned_cols=51 Identities=22% Similarity=0.361 Sum_probs=31.2
Q ss_pred cccccccccccccCceecCCCC-----hhhHHhHHHHhhCCCCcccccccccccceee
Q 037842 14 VRFTCGICLDTMKEESSTKCGH-----VFCKSCIVDAIRLQGKCPTCRTRMSVRSIRR 66 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH-----~fc~~C~~~~~~~~~~CP~C~~~~~~~~~~~ 66 (78)
....|+-|-.......--.||. .||..|- .......||.|...........
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG--~~~~~y~CPKCG~El~~~s~~~ 680 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCG--IEVEEDECEKCGREPTPYSKRK 680 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCCCCcceeCcccc--CcCCCCcCCCCCCCCCccceEE
Confidence 4567888888752222224874 4899883 3333457999988876544333
No 204
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=37.25 E-value=25 Score=15.96 Aligned_cols=19 Identities=26% Similarity=0.492 Sum_probs=12.1
Q ss_pred HHHhhCCCCcccccccccc
Q 037842 43 VDAIRLQGKCPTCRTRMSV 61 (78)
Q Consensus 43 ~~~~~~~~~CP~C~~~~~~ 61 (78)
+.|-.-...||.|..++-.
T Consensus 11 ~G~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 11 QGWTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HhHhHhcCccCCCCCeeEE
Confidence 4454455679999776643
No 205
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=36.88 E-value=37 Score=23.02 Aligned_cols=17 Identities=18% Similarity=0.405 Sum_probs=12.5
Q ss_pred CCcccccccccccccCc
Q 037842 12 GEVRFTCGICLDTMKEE 28 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~ 28 (78)
...+..||+|-+....-
T Consensus 12 edl~ElCPVCGDkVSGY 28 (475)
T KOG4218|consen 12 EDLGELCPVCGDKVSGY 28 (475)
T ss_pred cccccccccccCccccc
Confidence 44567899999987653
No 206
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=35.55 E-value=16 Score=20.36 Aligned_cols=12 Identities=42% Similarity=1.149 Sum_probs=9.0
Q ss_pred eecCCCChhhHH
Q 037842 29 SSTKCGHVFCKS 40 (78)
Q Consensus 29 ~~~~CgH~fc~~ 40 (78)
+...|||.||..
T Consensus 25 vkc~CGh~f~d~ 36 (112)
T PF08882_consen 25 VKCDCGHEFCDA 36 (112)
T ss_pred eeccCCCeecCh
Confidence 445799999963
No 207
>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=35.35 E-value=17 Score=13.16 Aligned_cols=9 Identities=33% Similarity=1.010 Sum_probs=3.0
Q ss_pred ccccccccc
Q 037842 18 CGICLDTMK 26 (78)
Q Consensus 18 C~iC~~~~~ 26 (78)
|++|...+.
T Consensus 3 C~~C~~~~~ 11 (24)
T PF13894_consen 3 CPICGKSFR 11 (24)
T ss_dssp -SSTS-EES
T ss_pred CcCCCCcCC
Confidence 444444433
No 208
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=35.06 E-value=5.1 Score=16.54 Aligned_cols=11 Identities=18% Similarity=0.761 Sum_probs=4.2
Q ss_pred ccccccccccC
Q 037842 17 TCGICLDTMKE 27 (78)
Q Consensus 17 ~C~iC~~~~~~ 27 (78)
.|+.|...+.+
T Consensus 3 ~C~rC~~~~~~ 13 (30)
T PF06827_consen 3 KCPRCWNYIED 13 (30)
T ss_dssp B-TTT--BBEE
T ss_pred cCccCCCcceE
Confidence 35666665543
No 209
>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=35.03 E-value=14 Score=13.72 Aligned_cols=9 Identities=33% Similarity=0.914 Sum_probs=4.1
Q ss_pred ccccccccc
Q 037842 18 CGICLDTMK 26 (78)
Q Consensus 18 C~iC~~~~~ 26 (78)
|++|...+.
T Consensus 3 C~~C~~~f~ 11 (23)
T PF00096_consen 3 CPICGKSFS 11 (23)
T ss_dssp ETTTTEEES
T ss_pred CCCCCCccC
Confidence 444444443
No 210
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=34.84 E-value=46 Score=19.95 Aligned_cols=16 Identities=19% Similarity=0.590 Sum_probs=11.7
Q ss_pred hhCCCCcccccccccc
Q 037842 46 IRLQGKCPTCRTRMSV 61 (78)
Q Consensus 46 ~~~~~~CP~C~~~~~~ 61 (78)
+.....||.|...+..
T Consensus 133 ~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 133 MEYGFRCPQCGEMLEE 148 (178)
T ss_pred hhcCCcCCCCCCCCee
Confidence 3456789999988753
No 211
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=34.83 E-value=25 Score=22.74 Aligned_cols=50 Identities=18% Similarity=0.409 Sum_probs=29.1
Q ss_pred CcccccccccccccCc---------eecCCCChhhHHhHH-HHhhC----------CCCccccccccccc
Q 037842 13 EVRFTCGICLDTMKEE---------SSTKCGHVFCKSCIV-DAIRL----------QGKCPTCRTRMSVR 62 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~---------~~~~CgH~fc~~C~~-~~~~~----------~~~CP~C~~~~~~~ 62 (78)
...+.|.+|-..+..- -.++|.-.+|.+=+. .|+.+ ...||.|++.|.++
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADR 228 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADR 228 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcch
Confidence 3457788888776632 123555555554443 45542 22688888887643
No 212
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=33.71 E-value=28 Score=22.73 Aligned_cols=45 Identities=22% Similarity=0.437 Sum_probs=30.0
Q ss_pred CcccccccccccccCceec----CCCCh--hhHHhHHHHhhCCCCcccccc
Q 037842 13 EVRFTCGICLDTMKEESST----KCGHV--FCKSCIVDAIRLQGKCPTCRT 57 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~----~CgH~--fc~~C~~~~~~~~~~CP~C~~ 57 (78)
+.-..||+|-......+.. .=|-. -|.-|...|.....+|-.|..
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR~KC~nC~~ 233 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVRVKCSNCEQ 233 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHHHHhccccc
Confidence 3445899999976654332 23333 488899999876667777754
No 213
>PLN02400 cellulose synthase
Probab=33.20 E-value=42 Score=25.90 Aligned_cols=45 Identities=29% Similarity=0.660 Sum_probs=31.5
Q ss_pred ccccccccccccCc------eec-CCCChhhHHhHHHHhhC--CCCccccccccc
Q 037842 15 RFTCGICLDTMKEE------SST-KCGHVFCKSCIVDAIRL--QGKCPTCRTRMS 60 (78)
Q Consensus 15 ~~~C~iC~~~~~~~------~~~-~CgH~fc~~C~~~~~~~--~~~CP~C~~~~~ 60 (78)
...|.||-+.+... +.. .|+--.|+.|.+ +-.+ ...||.|+...+
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-YERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-YERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhh-eecccCCccCcccCCccc
Confidence 45899999986532 222 578778999984 3332 447999988876
No 214
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=32.94 E-value=22 Score=17.64 Aligned_cols=12 Identities=33% Similarity=0.999 Sum_probs=8.3
Q ss_pred CCCCcccccccc
Q 037842 48 LQGKCPTCRTRM 59 (78)
Q Consensus 48 ~~~~CP~C~~~~ 59 (78)
....||.|....
T Consensus 14 ~~~~CP~Cgs~~ 25 (61)
T PRK08351 14 TEDRCPVCGSRD 25 (61)
T ss_pred CCCcCCCCcCCc
Confidence 344799997655
No 215
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=32.93 E-value=14 Score=18.56 Aligned_cols=21 Identities=29% Similarity=0.657 Sum_probs=11.2
Q ss_pred hHHhHHHHhhCCCCccccccc
Q 037842 38 CKSCIVDAIRLQGKCPTCRTR 58 (78)
Q Consensus 38 c~~C~~~~~~~~~~CP~C~~~ 58 (78)
|..|..-.-.....||.|...
T Consensus 7 C~~Ck~l~~~d~e~CP~Cgs~ 27 (64)
T COG2093 7 CKNCKRLTPEDTEICPVCGST 27 (64)
T ss_pred HhhccccCCCCCccCCCCCCc
Confidence 455532212223459999876
No 216
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=32.66 E-value=24 Score=25.77 Aligned_cols=49 Identities=29% Similarity=0.666 Sum_probs=34.5
Q ss_pred CCcccccccccccccCce----------ecCCCChh--------------------hHHhHHHHhhC--------CCCcc
Q 037842 12 GEVRFTCGICLDTMKEES----------STKCGHVF--------------------CKSCIVDAIRL--------QGKCP 53 (78)
Q Consensus 12 ~~~~~~C~iC~~~~~~~~----------~~~CgH~f--------------------c~~C~~~~~~~--------~~~CP 53 (78)
..+-..|.-|+..+.+|. -+.||..| |..|..++... ...||
T Consensus 65 ppD~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~~~C~ 144 (711)
T TIGR00143 65 PADVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQPIACP 144 (711)
T ss_pred CCchhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCCccCC
Confidence 346678999999988762 13577765 99999887552 12599
Q ss_pred ccccccc
Q 037842 54 TCRTRMS 60 (78)
Q Consensus 54 ~C~~~~~ 60 (78)
.|.-.+.
T Consensus 145 ~Cgp~l~ 151 (711)
T TIGR00143 145 RCGPQLN 151 (711)
T ss_pred CCCcEEE
Confidence 9976664
No 217
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=32.57 E-value=57 Score=17.44 Aligned_cols=32 Identities=19% Similarity=0.496 Sum_probs=21.6
Q ss_pred CcccccccccccccCcee---cCCCChhhHHhHHH
Q 037842 13 EVRFTCGICLDTMKEESS---TKCGHVFCKSCIVD 44 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~---~~CgH~fc~~C~~~ 44 (78)
.....|.||.......+. ..|...|+..|...
T Consensus 53 ~~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 53 RFKLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred hcCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 356899999998332222 23777899888754
No 218
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=32.54 E-value=20 Score=17.86 Aligned_cols=11 Identities=36% Similarity=0.927 Sum_probs=8.8
Q ss_pred CCccccccccc
Q 037842 50 GKCPTCRTRMS 60 (78)
Q Consensus 50 ~~CP~C~~~~~ 60 (78)
..||.|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 47999998863
No 219
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=32.27 E-value=19 Score=24.49 Aligned_cols=31 Identities=19% Similarity=0.803 Sum_probs=23.8
Q ss_pred Ccccccccccc-cccCceecCCCChhhHHhHH
Q 037842 13 EVRFTCGICLD-TMKEESSTKCGHVFCKSCIV 43 (78)
Q Consensus 13 ~~~~~C~iC~~-~~~~~~~~~CgH~fc~~C~~ 43 (78)
...+.|.-|.. ....-..++||-.||..|+.
T Consensus 37 ~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~ 68 (441)
T COG4098 37 NGKYRCNRCGNTHIELFAKLPCGCLYCRNCLM 68 (441)
T ss_pred cCcEEehhcCCcchhhhcccccceEeehhhhh
Confidence 34578988884 45555778999999999985
No 220
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=31.96 E-value=21 Score=20.93 Aligned_cols=29 Identities=28% Similarity=0.749 Sum_probs=19.3
Q ss_pred cccccccccccccCceecCCCChhhH-HhHH
Q 037842 14 VRFTCGICLDTMKEESSTKCGHVFCK-SCIV 43 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH~fc~-~C~~ 43 (78)
.-..|+||- ++....-+.||..||. .|+.
T Consensus 117 ~r~fCaVCG-~~S~ysC~~CG~kyCsv~C~~ 146 (156)
T KOG3362|consen 117 LRKFCAVCG-YDSKYSCVNCGTKYCSVRCLK 146 (156)
T ss_pred cchhhhhcC-CCchhHHHhcCCceeechhhh
Confidence 446799998 4444455689988875 3543
No 221
>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=31.61 E-value=4.3 Score=18.32 Aligned_cols=9 Identities=33% Similarity=0.995 Sum_probs=6.5
Q ss_pred CCCcccccc
Q 037842 49 QGKCPTCRT 57 (78)
Q Consensus 49 ~~~CP~C~~ 57 (78)
...||.|+.
T Consensus 26 ~~~CP~Cg~ 34 (42)
T PF09723_consen 26 PVPCPECGS 34 (42)
T ss_pred CCcCCCCCC
Confidence 346999976
No 222
>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=30.77 E-value=27 Score=16.06 Aligned_cols=12 Identities=25% Similarity=0.794 Sum_probs=8.5
Q ss_pred CCCccccccccc
Q 037842 49 QGKCPTCRTRMS 60 (78)
Q Consensus 49 ~~~CP~C~~~~~ 60 (78)
.+.||+|..+|.
T Consensus 8 ~K~C~~C~rpf~ 19 (42)
T PF10013_consen 8 SKICPVCGRPFT 19 (42)
T ss_pred CCcCcccCCcch
Confidence 356888887775
No 223
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=30.56 E-value=24 Score=24.56 Aligned_cols=34 Identities=21% Similarity=0.468 Sum_probs=25.0
Q ss_pred CCCcccccccccccccCcee----cCCCChhhHHhHHH
Q 037842 11 VGEVRFTCGICLDTMKEESS----TKCGHVFCKSCIVD 44 (78)
Q Consensus 11 ~~~~~~~C~iC~~~~~~~~~----~~CgH~fc~~C~~~ 44 (78)
.......||+|.+.|..... --||-+.|..|..-
T Consensus 176 DDs~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~ 213 (505)
T KOG1842|consen 176 DDSSVQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKF 213 (505)
T ss_pred CCCcccccccccchhhhHHHhhhhhhcchHHHHHHHHh
Confidence 34456789999998875422 25999999999753
No 224
>PLN02195 cellulose synthase A
Probab=30.50 E-value=50 Score=25.25 Aligned_cols=44 Identities=18% Similarity=0.465 Sum_probs=31.2
Q ss_pred cccccccccccC-----c-eec-CCCChhhHHhHHHHhhC--CCCccccccccc
Q 037842 16 FTCGICLDTMKE-----E-SST-KCGHVFCKSCIVDAIRL--QGKCPTCRTRMS 60 (78)
Q Consensus 16 ~~C~iC~~~~~~-----~-~~~-~CgH~fc~~C~~~~~~~--~~~CP~C~~~~~ 60 (78)
..|.||-+.+.. + +.. .|+--.|+.|.+ +-++ ...||.|+....
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCye-yer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLE-YEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhh-hhhhcCCccCCccCCccc
Confidence 479999996552 2 222 588889999994 4332 457999998887
No 225
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=29.81 E-value=22 Score=20.82 Aligned_cols=15 Identities=27% Similarity=0.857 Sum_probs=9.3
Q ss_pred CCcccccccccccce
Q 037842 50 GKCPTCRTRMSVRSI 64 (78)
Q Consensus 50 ~~CP~C~~~~~~~~~ 64 (78)
..||.||+.+..-.+
T Consensus 10 i~CPhCRQ~ipALtL 24 (163)
T TIGR02652 10 IRCPHCRQNIPALTL 24 (163)
T ss_pred CcCchhhcccchhee
Confidence 467778777654433
No 226
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=29.51 E-value=26 Score=25.02 Aligned_cols=34 Identities=21% Similarity=0.525 Sum_probs=25.0
Q ss_pred CcccccccccccccCc-------------eecCCCChhhHHhHHHHh
Q 037842 13 EVRFTCGICLDTMKEE-------------SSTKCGHVFCKSCIVDAI 46 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~-------------~~~~CgH~fc~~C~~~~~ 46 (78)
+....|+||.+.|... +-+.-|-.||..|+....
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 5678899999987742 333468889999987654
No 227
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=29.24 E-value=23 Score=20.71 Aligned_cols=15 Identities=27% Similarity=0.820 Sum_probs=9.0
Q ss_pred CCcccccccccccce
Q 037842 50 GKCPTCRTRMSVRSI 64 (78)
Q Consensus 50 ~~CP~C~~~~~~~~~ 64 (78)
..||.||+.+..-.+
T Consensus 7 i~CPhCRq~ipALtL 21 (161)
T PF09654_consen 7 IQCPHCRQTIPALTL 21 (161)
T ss_pred CcCchhhcccchhee
Confidence 357777776654333
No 228
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=28.83 E-value=24 Score=25.46 Aligned_cols=38 Identities=21% Similarity=0.387 Sum_probs=27.1
Q ss_pred cCCCcccccccccccccCc----eecCCCChhhHHhHHHHhh
Q 037842 10 VVGEVRFTCGICLDTMKEE----SSTKCGHVFCKSCIVDAIR 47 (78)
Q Consensus 10 ~~~~~~~~C~iC~~~~~~~----~~~~CgH~fc~~C~~~~~~ 47 (78)
....+...|-.|...|..- ....||-+||..|....+.
T Consensus 160 pdW~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~ 201 (634)
T KOG1818|consen 160 PDWIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLT 201 (634)
T ss_pred cccccccccceeeeeeeeccccccccccchhhccCccccccC
Confidence 3445567898888877643 2347999999999876554
No 229
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=28.81 E-value=44 Score=20.89 Aligned_cols=22 Identities=23% Similarity=0.840 Sum_probs=14.7
Q ss_pred ccccccccccCceecCCCChhhHHhHHHHh
Q 037842 17 TCGICLDTMKEESSTKCGHVFCKSCIVDAI 46 (78)
Q Consensus 17 ~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~ 46 (78)
.|+||. ..-.+.+|..|+...+
T Consensus 1 ~C~iC~--------~~~~~~~C~~C~~~~L 22 (302)
T PF10186_consen 1 QCPICH--------NSRRRFYCANCVNNRL 22 (302)
T ss_pred CCCCCC--------CCCCCeECHHHHHHHH
Confidence 488888 2344567888887653
No 230
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=28.77 E-value=51 Score=16.25 Aligned_cols=11 Identities=36% Similarity=0.987 Sum_probs=6.0
Q ss_pred CCccccccccc
Q 037842 50 GKCPTCRTRMS 60 (78)
Q Consensus 50 ~~CP~C~~~~~ 60 (78)
..||+|..+..
T Consensus 40 p~CPlC~s~M~ 50 (59)
T PF14169_consen 40 PVCPLCKSPMV 50 (59)
T ss_pred ccCCCcCCccc
Confidence 45666655543
No 231
>PF15616 TerY-C: TerY-C metal binding domain
Probab=28.56 E-value=19 Score=20.63 Aligned_cols=42 Identities=24% Similarity=0.452 Sum_probs=27.8
Q ss_pred cccccccccccccCceecCCCChhhHHhHHHHhhCCCCcccccccccc
Q 037842 14 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSV 61 (78)
Q Consensus 14 ~~~~C~iC~~~~~~~~~~~CgH~fc~~C~~~~~~~~~~CP~C~~~~~~ 61 (78)
..-.||-|-..+.-. .-.||++||..= .....||-|......
T Consensus 76 g~PgCP~CGn~~~fa-~C~CGkl~Ci~g-----~~~~~CPwCg~~g~~ 117 (131)
T PF15616_consen 76 GAPGCPHCGNQYAFA-VCGCGKLFCIDG-----EGEVTCPWCGNEGSF 117 (131)
T ss_pred CCCCCCCCcChhcEE-EecCCCEEEeCC-----CCCEECCCCCCeeee
Confidence 336788888765432 338999999531 224579999877654
No 232
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=27.57 E-value=20 Score=18.72 Aligned_cols=22 Identities=23% Similarity=0.672 Sum_probs=15.1
Q ss_pred hHHhHHHHhhC-CCCcccccccc
Q 037842 38 CKSCIVDAIRL-QGKCPTCRTRM 59 (78)
Q Consensus 38 c~~C~~~~~~~-~~~CP~C~~~~ 59 (78)
|..|.+.|+.+ -+.|..|-..+
T Consensus 3 C~~C~~~~F~~KiGRC~rCM~QL 25 (77)
T PF12292_consen 3 CNDCQESWFWQKIGRCQRCMWQL 25 (77)
T ss_pred hhhHHHHHHHHHhccHHHHHHHH
Confidence 66788787765 45788885544
No 233
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=27.43 E-value=45 Score=13.08 Aligned_cols=11 Identities=18% Similarity=0.733 Sum_probs=5.9
Q ss_pred ccccccccccc
Q 037842 15 RFTCGICLDTM 25 (78)
Q Consensus 15 ~~~C~iC~~~~ 25 (78)
.+.|++|...|
T Consensus 14 ~~~C~~C~k~F 24 (26)
T PF13465_consen 14 PYKCPYCGKSF 24 (26)
T ss_dssp SEEESSSSEEE
T ss_pred CCCCCCCcCee
Confidence 35566665543
No 234
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=27.34 E-value=22 Score=17.36 Aligned_cols=11 Identities=36% Similarity=0.927 Sum_probs=5.4
Q ss_pred Ccccccccccc
Q 037842 51 KCPTCRTRMSV 61 (78)
Q Consensus 51 ~CP~C~~~~~~ 61 (78)
.||.|++.+..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 69999887754
No 235
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=27.14 E-value=23 Score=13.40 Aligned_cols=11 Identities=27% Similarity=0.791 Sum_probs=5.9
Q ss_pred ccccccccccC
Q 037842 17 TCGICLDTMKE 27 (78)
Q Consensus 17 ~C~iC~~~~~~ 27 (78)
.|.+|...+.+
T Consensus 2 ~C~~C~~~f~s 12 (25)
T PF12874_consen 2 YCDICNKSFSS 12 (25)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCCcCC
Confidence 45666555544
No 236
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=27.05 E-value=12 Score=20.48 Aligned_cols=31 Identities=26% Similarity=0.599 Sum_probs=16.2
Q ss_pred CCCcccccccccccccCceec--CCCChhhHHh
Q 037842 11 VGEVRFTCGICLDTMKEESST--KCGHVFCKSC 41 (78)
Q Consensus 11 ~~~~~~~C~iC~~~~~~~~~~--~CgH~fc~~C 41 (78)
.-.++++|.-|+-......+. .=|+.+|..|
T Consensus 66 ~q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 66 KQADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 344667788777654432211 2255555554
No 237
>KOG3475 consensus 60S ribosomal protein L37 [Translation, ribosomal structure and biogenesis]
Probab=26.03 E-value=40 Score=17.94 Aligned_cols=28 Identities=18% Similarity=0.563 Sum_probs=20.3
Q ss_pred CCChhhHHhHHHHhh-CCCCccccccccc
Q 037842 33 CGHVFCKSCIVDAIR-LQGKCPTCRTRMS 60 (78)
Q Consensus 33 CgH~fc~~C~~~~~~-~~~~CP~C~~~~~ 60 (78)
=.|..|..|-.+.+. ++..|..|..+-.
T Consensus 14 kshtlC~RCG~~syH~QKstC~~CGYpaa 42 (92)
T KOG3475|consen 14 KSHTLCRRCGRRSYHIQKSTCSSCGYPAA 42 (92)
T ss_pred cchHHHHHhCchhhhhhcccccccCCcch
Confidence 357889999877665 4568988877653
No 238
>PRK00420 hypothetical protein; Validated
Probab=25.68 E-value=54 Score=18.31 Aligned_cols=9 Identities=22% Similarity=0.482 Sum_probs=5.5
Q ss_pred Ccccccccc
Q 037842 51 KCPTCRTRM 59 (78)
Q Consensus 51 ~CP~C~~~~ 59 (78)
.||.|...+
T Consensus 42 ~Cp~Cg~~~ 50 (112)
T PRK00420 42 VCPVHGKVY 50 (112)
T ss_pred ECCCCCCee
Confidence 577776544
No 239
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=25.67 E-value=83 Score=14.81 Aligned_cols=28 Identities=29% Similarity=0.632 Sum_probs=18.0
Q ss_pred ccccccccccC--ceecCCCChhhHHhHHHH
Q 037842 17 TCGICLDTMKE--ESSTKCGHVFCKSCIVDA 45 (78)
Q Consensus 17 ~C~iC~~~~~~--~~~~~CgH~fc~~C~~~~ 45 (78)
.|+||-+.+.- .+.+.=| ..|.+|+...
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 37888876542 2445555 5788888764
No 240
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=25.65 E-value=50 Score=14.27 Aligned_cols=29 Identities=17% Similarity=0.371 Sum_probs=16.1
Q ss_pred cccccccccccCceecCCCChhhHHhHHH
Q 037842 16 FTCGICLDTMKEESSTKCGHVFCKSCIVD 44 (78)
Q Consensus 16 ~~C~iC~~~~~~~~~~~CgH~fc~~C~~~ 44 (78)
..|..+.+....-.=..|+-.+|..|...
T Consensus 4 ~~C~~H~~~~~~~~C~~C~~~~C~~C~~~ 32 (42)
T PF00643_consen 4 PKCPEHPEEPLSLFCEDCNEPLCSECTVS 32 (42)
T ss_dssp SB-SSTTTSBEEEEETTTTEEEEHHHHHT
T ss_pred ccCccCCccceEEEecCCCCccCccCCCC
Confidence 34655555322222346788888888753
No 241
>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=25.05 E-value=38 Score=16.30 Aligned_cols=8 Identities=25% Similarity=1.041 Sum_probs=3.8
Q ss_pred cccccccc
Q 037842 52 CPTCRTRM 59 (78)
Q Consensus 52 CP~C~~~~ 59 (78)
||.|+..+
T Consensus 25 Cp~CGael 32 (54)
T TIGR01206 25 CDECGAEL 32 (54)
T ss_pred CCCCCCEE
Confidence 55554443
No 242
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=24.86 E-value=58 Score=21.88 Aligned_cols=33 Identities=27% Similarity=0.494 Sum_probs=23.4
Q ss_pred CcccccccccccccCceecCCC--ChhhHHhHHHH
Q 037842 13 EVRFTCGICLDTMKEESSTKCG--HVFCKSCIVDA 45 (78)
Q Consensus 13 ~~~~~C~iC~~~~~~~~~~~Cg--H~fc~~C~~~~ 45 (78)
.....|..|.+.-.....++|. |+.|..|+.-|
T Consensus 219 ~~ni~C~~Ctdv~~~vlvf~Cns~HvtC~dCFr~y 253 (446)
T KOG0006|consen 219 SRNITCITCTDVRSPVLVFQCNSRHVTCLDCFRLY 253 (446)
T ss_pred cccceeEEecCCccceEEEecCCceeehHHhhhhH
Confidence 3457788887765444456777 99999998754
No 243
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=24.77 E-value=51 Score=24.54 Aligned_cols=24 Identities=38% Similarity=0.800 Sum_probs=15.5
Q ss_pred hhHHhHHHHh--------hCCCCccccccccc
Q 037842 37 FCKSCIVDAI--------RLQGKCPTCRTRMS 60 (78)
Q Consensus 37 fc~~C~~~~~--------~~~~~CP~C~~~~~ 60 (78)
+|..|+.-+. .+++.||.||.+..
T Consensus 1046 ~Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1046 MCPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred hCchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 4666654432 25778999987654
No 244
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.70 E-value=36 Score=17.12 Aligned_cols=13 Identities=31% Similarity=0.652 Sum_probs=9.6
Q ss_pred CCCcccccccccc
Q 037842 49 QGKCPTCRTRMSV 61 (78)
Q Consensus 49 ~~~CP~C~~~~~~ 61 (78)
...||.|.+++.-
T Consensus 7 ~v~CP~Cgkpv~w 19 (65)
T COG3024 7 TVPCPTCGKPVVW 19 (65)
T ss_pred cccCCCCCCcccc
Confidence 4579999888753
No 245
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=24.42 E-value=63 Score=21.64 Aligned_cols=42 Identities=7% Similarity=-0.147 Sum_probs=30.0
Q ss_pred ccccccccccccCceecCCCCh-hhHHhHHHHhhCCCCccccccc
Q 037842 15 RFTCGICLDTMKEESSTKCGHV-FCKSCIVDAIRLQGKCPTCRTR 58 (78)
Q Consensus 15 ~~~C~iC~~~~~~~~~~~CgH~-fc~~C~~~~~~~~~~CP~C~~~ 58 (78)
.+.|-.|-..+...+..+|+|. ||..|.. +.....||.|...
T Consensus 343 ~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 343 SLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred hcccccccCceeeeEeecCCcccChhhhhh--cccCCcccccccc
Confidence 4567777776666666789985 7888875 4445689999654
No 246
>PRK11827 hypothetical protein; Provisional
Probab=24.31 E-value=36 Score=16.81 Aligned_cols=14 Identities=21% Similarity=0.508 Sum_probs=9.9
Q ss_pred CCCCcccccccccc
Q 037842 48 LQGKCPTCRTRMSV 61 (78)
Q Consensus 48 ~~~~CP~C~~~~~~ 61 (78)
.--.||.|+.++..
T Consensus 7 eILaCP~ckg~L~~ 20 (60)
T PRK11827 7 EIIACPVCNGKLWY 20 (60)
T ss_pred hheECCCCCCcCeE
Confidence 33469999888754
No 247
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=23.79 E-value=29 Score=18.31 Aligned_cols=19 Identities=21% Similarity=0.583 Sum_probs=13.1
Q ss_pred HHhhCCCCccccccccccc
Q 037842 44 DAIRLQGKCPTCRTRMSVR 62 (78)
Q Consensus 44 ~~~~~~~~CP~C~~~~~~~ 62 (78)
++++-...|+.|...+...
T Consensus 3 g~Lk~~~~C~~CG~d~~~~ 21 (86)
T PF06170_consen 3 GYLKVAPRCPHCGLDYSHA 21 (86)
T ss_pred ccccCCCcccccCCccccC
Confidence 3455567899998877643
No 248
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=23.78 E-value=32 Score=14.94 Aligned_cols=11 Identities=55% Similarity=1.352 Sum_probs=7.7
Q ss_pred Ccccccccccc
Q 037842 51 KCPTCRTRMSV 61 (78)
Q Consensus 51 ~CP~C~~~~~~ 61 (78)
.||.|...+..
T Consensus 4 ~CP~C~~~f~v 14 (37)
T PF13719_consen 4 TCPNCQTRFRV 14 (37)
T ss_pred ECCCCCceEEc
Confidence 58888776653
No 249
>PF12132 DUF3587: Protein of unknown function (DUF3587); InterPro: IPR021982 This entry is represented by Hyposoter fugitivus ichnovirus, Gp7; it is a family of uncharacterised viral proteins.
Probab=23.56 E-value=58 Score=20.08 Aligned_cols=14 Identities=14% Similarity=0.365 Sum_probs=11.8
Q ss_pred CChhhHHhHHHHhh
Q 037842 34 GHVFCKSCIVDAIR 47 (78)
Q Consensus 34 gH~fc~~C~~~~~~ 47 (78)
-|.||...+..|+.
T Consensus 164 fHHyCs~HV~~WL~ 177 (199)
T PF12132_consen 164 FHHYCSQHVNSWLN 177 (199)
T ss_pred cChhhHHHHHHHHH
Confidence 46799999999986
No 250
>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=23.48 E-value=37 Score=14.52 Aligned_cols=9 Identities=44% Similarity=1.150 Sum_probs=6.6
Q ss_pred CCccccccc
Q 037842 50 GKCPTCRTR 58 (78)
Q Consensus 50 ~~CP~C~~~ 58 (78)
..||+|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 479999764
No 251
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=22.85 E-value=38 Score=13.02 Aligned_cols=12 Identities=33% Similarity=0.772 Sum_probs=6.9
Q ss_pred cccccccccccC
Q 037842 16 FTCGICLDTMKE 27 (78)
Q Consensus 16 ~~C~iC~~~~~~ 27 (78)
+.|.+|...|..
T Consensus 2 ~~C~~C~~~F~~ 13 (27)
T PF13912_consen 2 FECDECGKTFSS 13 (27)
T ss_dssp EEETTTTEEESS
T ss_pred CCCCccCCccCC
Confidence 356666666554
No 252
>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=22.62 E-value=28 Score=24.23 Aligned_cols=10 Identities=40% Similarity=1.095 Sum_probs=6.7
Q ss_pred Cccccccccc
Q 037842 51 KCPTCRTRMS 60 (78)
Q Consensus 51 ~CP~C~~~~~ 60 (78)
.||.|...+.
T Consensus 54 ~CP~C~~~L~ 63 (483)
T PF05502_consen 54 DCPICFSPLS 63 (483)
T ss_pred cCCCCCCcce
Confidence 4788876654
No 253
>PF04296 DUF448: Protein of unknown function (DUF448); InterPro: IPR007393 This entry represents a group of uncharacterised proteins. Some member sequences retain zinc-binding residues. The structure of the hypothetical cytosolic protein SP0554 from Streptococcus pneumoniae revealed an alpha+beta fold that could have evolved from a glucocorticoid receptor-like zinc finger domain [].; PDB: 1G2R_A.
Probab=22.24 E-value=57 Score=16.66 Aligned_cols=22 Identities=23% Similarity=0.548 Sum_probs=11.5
Q ss_pred CCcccccccccccceeeeccCC
Q 037842 50 GKCPTCRTRMSVRSIRRIFFPQ 71 (78)
Q Consensus 50 ~~CP~C~~~~~~~~~~~~~~~~ 71 (78)
+.|-.|+.....+++.++...+
T Consensus 2 R~Cv~cr~~~~k~~LlR~v~~~ 23 (78)
T PF04296_consen 2 RTCVVCRKRFPKKELLRFVRTP 23 (78)
T ss_dssp -B-TTT--B--GGGEEEEEE-T
T ss_pred CeecccCCCcChHHcEEEEEeC
Confidence 4688898888888888876543
No 254
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=22.01 E-value=39 Score=15.26 Aligned_cols=11 Identities=36% Similarity=0.918 Sum_probs=8.2
Q ss_pred CCccccccccc
Q 037842 50 GKCPTCRTRMS 60 (78)
Q Consensus 50 ~~CP~C~~~~~ 60 (78)
..||.|+..+.
T Consensus 22 ~~Cp~CG~~~~ 32 (46)
T PRK00398 22 VRCPYCGYRIL 32 (46)
T ss_pred eECCCCCCeEE
Confidence 46899987765
No 255
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=21.82 E-value=33 Score=16.68 Aligned_cols=11 Identities=27% Similarity=0.631 Sum_probs=7.4
Q ss_pred ccccccccccc
Q 037842 15 RFTCGICLDTM 25 (78)
Q Consensus 15 ~~~C~iC~~~~ 25 (78)
-+.||+|..--
T Consensus 4 Wi~CP~CgnKT 14 (55)
T PF14205_consen 4 WILCPICGNKT 14 (55)
T ss_pred EEECCCCCCcc
Confidence 35788888643
No 256
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=21.07 E-value=50 Score=16.39 Aligned_cols=11 Identities=36% Similarity=1.117 Sum_probs=7.6
Q ss_pred CCCcccccccc
Q 037842 49 QGKCPTCRTRM 59 (78)
Q Consensus 49 ~~~CP~C~~~~ 59 (78)
+..||+|+..+
T Consensus 2 k~~CPlCkt~~ 12 (61)
T PF05715_consen 2 KSLCPLCKTTL 12 (61)
T ss_pred CccCCcccchh
Confidence 34688887665
No 257
>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=20.93 E-value=41 Score=16.29 Aligned_cols=23 Identities=30% Similarity=0.612 Sum_probs=11.9
Q ss_pred cccccccccCc-eecCCCChhhHH
Q 037842 18 CGICLDTMKEE-SSTKCGHVFCKS 40 (78)
Q Consensus 18 C~iC~~~~~~~-~~~~CgH~fc~~ 40 (78)
|..|...-.+. +-+.||+.+|..
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGR 24 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETT
T ss_pred CCCCCCcCCceEEeCCCCcccccC
Confidence 44565441122 346899998875
No 258
>PF12907 zf-met2: Zinc-binding
Probab=20.91 E-value=22 Score=16.12 Aligned_cols=8 Identities=50% Similarity=1.103 Sum_probs=4.3
Q ss_pred cccccccc
Q 037842 17 TCGICLDT 24 (78)
Q Consensus 17 ~C~iC~~~ 24 (78)
.|.||+..
T Consensus 3 ~C~iC~qt 10 (40)
T PF12907_consen 3 ICKICRQT 10 (40)
T ss_pred CcHHhhHH
Confidence 45566543
No 259
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.60 E-value=65 Score=20.57 Aligned_cols=17 Identities=24% Similarity=0.675 Sum_probs=12.2
Q ss_pred CCCCcccccccccccce
Q 037842 48 LQGKCPTCRTRMSVRSI 64 (78)
Q Consensus 48 ~~~~CP~C~~~~~~~~~ 64 (78)
....||+|...+..+.+
T Consensus 18 k~ieCPvC~tkFkkeev 34 (267)
T COG1655 18 KTIECPVCNTKFKKEEV 34 (267)
T ss_pred ceeccCcccchhhhhhe
Confidence 34579999888875544
No 260
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.46 E-value=35 Score=16.21 Aligned_cols=11 Identities=36% Similarity=0.957 Sum_probs=8.1
Q ss_pred CCccccccccc
Q 037842 50 GKCPTCRTRMS 60 (78)
Q Consensus 50 ~~CP~C~~~~~ 60 (78)
+.||+|..+|.
T Consensus 13 KICpvCqRPFs 23 (54)
T COG4338 13 KICPVCQRPFS 23 (54)
T ss_pred hhhhhhcCchH
Confidence 46888887774
No 261
>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=20.43 E-value=22 Score=19.96 Aligned_cols=16 Identities=13% Similarity=0.540 Sum_probs=11.4
Q ss_pred hhCCCCcccccccccc
Q 037842 46 IRLQGKCPTCRTRMSV 61 (78)
Q Consensus 46 ~~~~~~CP~C~~~~~~ 61 (78)
+.+...|+.|+++++.
T Consensus 82 LGr~D~CM~C~~pLTL 97 (114)
T PF11023_consen 82 LGRVDACMHCKEPLTL 97 (114)
T ss_pred hchhhccCcCCCcCcc
Confidence 3344579999998864
No 262
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=20.12 E-value=44 Score=14.47 Aligned_cols=11 Identities=27% Similarity=1.183 Sum_probs=7.7
Q ss_pred Ccccccccccc
Q 037842 51 KCPTCRTRMSV 61 (78)
Q Consensus 51 ~CP~C~~~~~~ 61 (78)
.||.|.+.+..
T Consensus 4 ~Cp~C~~~y~i 14 (36)
T PF13717_consen 4 TCPNCQAKYEI 14 (36)
T ss_pred ECCCCCCEEeC
Confidence 58888777653
Done!