Query 022989
Match_columns 289
No_of_seqs 258 out of 1446
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 07:38:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022989.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022989hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1161 Protein involved in va 99.9 2.8E-27 6E-32 211.9 13.4 136 1-170 1-147 (310)
2 PF03105 SPX: SPX domain; Int 99.9 3E-25 6.6E-30 199.3 12.5 163 1-168 1-273 (275)
3 KOG1162 Predicted small molecu 99.9 9.1E-22 2E-26 191.5 11.7 148 1-170 1-177 (617)
4 COG5036 SPX domain-containing 99.8 6.3E-20 1.4E-24 168.4 10.7 151 1-184 1-155 (509)
5 COG5408 SPX domain-containing 99.3 8.8E-12 1.9E-16 112.0 10.8 90 1-95 1-99 (296)
6 PF15227 zf-C3HC4_4: zinc fing 99.3 3.4E-12 7.5E-17 82.7 3.5 42 234-282 1-42 (42)
7 PLN03208 E3 ubiquitin-protein 99.1 7E-11 1.5E-15 100.3 4.3 60 229-288 16-80 (193)
8 KOG0317 Predicted E3 ubiquitin 99.0 1.5E-10 3.2E-15 102.9 2.8 50 229-289 237-286 (293)
9 TIGR00599 rad18 DNA repair pro 99.0 2.8E-10 6E-15 107.2 4.0 67 210-287 5-71 (397)
10 KOG0823 Predicted E3 ubiquitin 99.0 2.1E-10 4.5E-15 99.1 2.9 51 230-288 46-96 (230)
11 PF13920 zf-C3HC4_3: Zinc fing 98.9 1.1E-09 2.5E-14 73.5 3.2 46 231-287 2-48 (50)
12 PF13923 zf-C3HC4_2: Zinc fing 98.9 1.4E-09 3E-14 69.3 3.1 38 234-282 1-39 (39)
13 PHA02929 N1R/p28-like protein; 98.8 1E-09 2.2E-14 96.9 2.1 48 229-287 172-227 (238)
14 smart00504 Ubox Modified RING 98.8 2.9E-09 6.2E-14 74.8 3.9 46 231-287 1-46 (63)
15 KOG0287 Postreplication repair 98.8 2.2E-09 4.7E-14 97.1 1.4 57 220-287 12-68 (442)
16 PF00097 zf-C3HC4: Zinc finger 98.8 5.9E-09 1.3E-13 66.9 2.9 40 234-282 1-41 (41)
17 KOG0320 Predicted E3 ubiquitin 98.7 4.7E-09 1E-13 87.2 2.7 47 230-287 130-178 (187)
18 PF13639 zf-RING_2: Ring finge 98.7 3.8E-09 8.2E-14 69.0 1.7 40 233-283 2-44 (44)
19 PHA02926 zinc finger-like prot 98.7 8.1E-09 1.8E-13 88.8 3.5 54 229-287 168-230 (242)
20 PF13445 zf-RING_UBOX: RING-ty 98.7 1.2E-08 2.7E-13 66.1 2.2 39 234-280 1-43 (43)
21 COG5432 RAD18 RING-finger-cont 98.6 1.9E-08 4E-13 89.4 2.9 54 222-286 16-69 (391)
22 KOG2164 Predicted E3 ubiquitin 98.6 2.3E-08 4.9E-13 95.3 3.3 52 231-288 186-237 (513)
23 COG5574 PEX10 RING-finger-cont 98.6 2E-08 4.4E-13 88.3 2.6 51 229-289 213-264 (271)
24 cd00162 RING RING-finger (Real 98.6 5.2E-08 1.1E-12 62.8 3.2 44 233-286 1-45 (45)
25 PF04564 U-box: U-box domain; 98.5 5.6E-08 1.2E-12 70.7 3.2 49 230-288 3-51 (73)
26 PF14634 zf-RING_5: zinc-RING 98.5 6.6E-08 1.4E-12 63.2 3.1 41 233-284 1-44 (44)
27 PF14835 zf-RING_6: zf-RING of 98.4 7.1E-08 1.5E-12 67.1 0.7 46 228-286 4-50 (65)
28 smart00184 RING Ring finger. E 98.4 2.6E-07 5.6E-12 57.4 3.2 39 234-282 1-39 (39)
29 KOG2177 Predicted E3 ubiquitin 98.3 1.6E-07 3.4E-12 84.5 1.4 45 228-283 10-54 (386)
30 KOG0311 Predicted E3 ubiquitin 98.1 1.8E-07 4E-12 85.3 -2.6 51 226-286 38-89 (381)
31 KOG0978 E3 ubiquitin ligase in 98.1 6.2E-07 1.3E-11 89.3 0.6 53 227-289 639-691 (698)
32 COG5243 HRD1 HRD ubiquitin lig 98.0 3.8E-06 8.2E-11 77.3 2.6 47 229-286 285-344 (491)
33 PF12678 zf-rbx1: RING-H2 zinc 98.0 8.7E-06 1.9E-10 59.1 3.7 40 233-283 21-73 (73)
34 KOG4159 Predicted E3 ubiquitin 97.9 5.4E-06 1.2E-10 78.5 2.3 48 229-287 82-129 (398)
35 KOG2879 Predicted E3 ubiquitin 97.9 1.1E-05 2.4E-10 71.6 4.0 50 229-287 237-287 (298)
36 KOG0802 E3 ubiquitin ligase [P 97.8 6.8E-06 1.5E-10 81.6 1.7 47 229-286 289-340 (543)
37 COG5540 RING-finger-containing 97.8 9.3E-06 2E-10 72.9 2.3 49 230-288 322-373 (374)
38 KOG4172 Predicted E3 ubiquitin 97.8 4.1E-06 8.8E-11 56.1 -0.2 47 231-287 7-54 (62)
39 COG5152 Uncharacterized conser 97.6 2.1E-05 4.5E-10 66.7 1.2 45 230-285 195-239 (259)
40 KOG4628 Predicted E3 ubiquitin 97.6 2.9E-05 6.4E-10 71.9 2.1 46 232-287 230-278 (348)
41 PF11789 zf-Nse: Zinc-finger o 97.5 6.9E-05 1.5E-09 51.6 2.5 43 230-281 10-53 (57)
42 PF12861 zf-Apc11: Anaphase-pr 97.5 8.6E-05 1.9E-09 55.0 3.0 48 232-287 33-82 (85)
43 KOG1002 Nucleotide excision re 97.4 0.00026 5.6E-09 68.1 6.2 52 230-287 535-586 (791)
44 KOG2660 Locus-specific chromos 97.4 3.7E-05 7.9E-10 70.0 0.1 48 228-286 12-60 (331)
45 KOG0297 TNF receptor-associate 97.3 9.1E-05 2E-09 70.6 1.9 49 228-287 18-67 (391)
46 KOG1039 Predicted E3 ubiquitin 97.3 0.00012 2.6E-09 68.2 2.3 55 229-287 159-221 (344)
47 KOG1813 Predicted E3 ubiquitin 97.3 0.00011 2.3E-09 66.0 1.9 45 231-286 241-285 (313)
48 KOG4265 Predicted E3 ubiquitin 97.2 0.00018 3.9E-09 66.3 2.0 48 229-287 288-336 (349)
49 COG5222 Uncharacterized conser 97.2 0.00018 3.8E-09 64.7 1.6 44 231-284 274-318 (427)
50 PF11793 FANCL_C: FANCL C-term 97.1 0.00018 3.9E-09 51.7 1.1 57 231-287 2-66 (70)
51 KOG1785 Tyrosine kinase negati 97.1 0.00024 5.3E-09 66.1 1.9 48 232-288 370-417 (563)
52 KOG4275 Predicted E3 ubiquitin 97.0 0.00018 4E-09 64.4 0.2 42 231-287 300-342 (350)
53 KOG0804 Cytoplasmic Zn-finger 96.9 0.00051 1.1E-08 65.0 2.3 47 228-287 172-222 (493)
54 KOG4367 Predicted Zn-finger pr 96.6 0.00087 1.9E-08 63.2 1.4 33 229-261 2-34 (699)
55 KOG1571 Predicted E3 ubiquitin 96.4 0.0011 2.3E-08 61.3 1.0 44 230-287 304-347 (355)
56 KOG0828 Predicted E3 ubiquitin 96.4 0.0016 3.4E-08 62.4 1.6 50 229-288 569-635 (636)
57 TIGR00570 cdk7 CDK-activating 96.3 0.0025 5.5E-08 58.3 2.8 33 230-262 2-39 (309)
58 COG5219 Uncharacterized conser 96.2 0.0016 3.5E-08 66.6 0.6 51 228-287 1466-1523(1525)
59 KOG0825 PHD Zn-finger protein 96.0 0.0011 2.4E-08 66.5 -1.5 47 230-287 122-171 (1134)
60 PF07800 DUF1644: Protein of u 95.9 0.0082 1.8E-07 49.5 3.6 20 230-249 1-20 (162)
61 PF14447 Prok-RING_4: Prokaryo 95.9 0.0041 8.9E-08 42.1 1.4 46 230-288 6-51 (55)
62 KOG1734 Predicted RING-contain 95.7 0.0037 8E-08 55.6 0.9 49 230-287 223-281 (328)
63 KOG4692 Predicted E3 ubiquitin 95.7 0.0061 1.3E-07 56.2 2.2 48 229-287 420-467 (489)
64 PF14570 zf-RING_4: RING/Ubox 95.7 0.009 2E-07 39.5 2.3 44 234-287 1-48 (48)
65 KOG1001 Helicase-like transcri 95.6 0.005 1.1E-07 62.5 1.4 45 232-286 455-499 (674)
66 smart00744 RINGv The RING-vari 95.4 0.016 3.5E-07 38.6 2.9 42 233-283 1-49 (49)
67 KOG0824 Predicted E3 ubiquitin 95.0 0.009 1.9E-07 54.1 1.0 32 230-261 6-37 (324)
68 KOG0826 Predicted E3 ubiquitin 94.3 0.034 7.3E-07 51.0 2.8 46 229-285 298-344 (357)
69 KOG3039 Uncharacterized conser 94.2 0.035 7.6E-07 48.9 2.7 47 230-287 220-270 (303)
70 COG5236 Uncharacterized conser 94.1 0.026 5.6E-07 52.0 1.8 48 229-285 59-106 (493)
71 PF04641 Rtf2: Rtf2 RING-finge 93.8 0.06 1.3E-06 48.6 3.5 48 229-288 111-162 (260)
72 KOG3002 Zn finger protein [Gen 93.6 0.04 8.8E-07 50.6 2.1 45 229-287 46-91 (299)
73 KOG1493 Anaphase-promoting com 93.6 0.036 7.7E-07 40.0 1.3 50 230-287 30-81 (84)
74 KOG1814 Predicted E3 ubiquitin 93.6 0.041 8.9E-07 51.9 2.0 51 230-283 183-236 (445)
75 KOG2817 Predicted E3 ubiquitin 93.5 0.048 1E-06 51.3 2.4 50 229-286 332-384 (394)
76 KOG4362 Transcriptional regula 92.9 0.028 6E-07 56.5 -0.2 51 229-287 19-69 (684)
77 PF02891 zf-MIZ: MIZ/SP-RING z 92.7 0.1 2.2E-06 34.9 2.3 48 231-285 2-50 (50)
78 PF05290 Baculo_IE-1: Baculovi 92.6 0.074 1.6E-06 42.6 1.9 49 231-287 80-132 (140)
79 COG5220 TFB3 Cdk activating ki 92.3 0.037 8.1E-07 48.6 -0.1 46 230-285 9-62 (314)
80 PHA03096 p28-like protein; Pro 91.9 0.069 1.5E-06 48.7 1.1 32 232-263 179-218 (284)
81 COG5175 MOT2 Transcriptional r 91.8 0.095 2E-06 48.3 1.8 47 230-287 14-64 (480)
82 KOG1941 Acetylcholine receptor 91.6 0.076 1.6E-06 49.8 1.0 47 230-285 364-414 (518)
83 PF10272 Tmpp129: Putative tra 90.9 0.82 1.8E-05 43.1 7.2 38 249-286 311-350 (358)
84 KOG3970 Predicted E3 ubiquitin 90.7 0.25 5.3E-06 43.2 3.2 56 230-288 49-106 (299)
85 KOG2932 E3 ubiquitin ligase in 90.2 0.12 2.5E-06 47.2 0.9 43 232-287 91-134 (389)
86 PF10367 Vps39_2: Vacuolar sor 89.9 0.14 3E-06 39.2 1.0 31 229-259 76-108 (109)
87 COG5194 APC11 Component of SCF 89.8 0.28 6.1E-06 35.8 2.3 45 231-286 31-80 (88)
88 KOG3161 Predicted E3 ubiquitin 89.7 0.078 1.7E-06 52.6 -0.7 34 228-261 8-45 (861)
89 KOG2114 Vacuolar assembly/sort 89.6 0.2 4.3E-06 51.4 1.9 42 230-285 839-881 (933)
90 KOG1100 Predicted E3 ubiquitin 89.3 0.18 3.9E-06 44.0 1.3 39 234-287 161-200 (207)
91 KOG1645 RING-finger-containing 87.7 0.33 7.2E-06 45.9 2.0 33 230-262 3-40 (463)
92 KOG1952 Transcription factor N 87.6 0.38 8.1E-06 49.5 2.4 53 229-285 189-245 (950)
93 KOG1812 Predicted E3 ubiquitin 86.0 0.38 8.2E-06 45.9 1.5 47 230-281 145-195 (384)
94 COG5109 Uncharacterized conser 85.7 0.56 1.2E-05 43.0 2.3 51 227-285 332-385 (396)
95 KOG3579 Predicted E3 ubiquitin 83.8 1 2.2E-05 40.7 3.0 32 230-261 267-302 (352)
96 PF05883 Baculo_RING: Baculovi 82.5 0.54 1.2E-05 37.9 0.7 32 231-262 26-66 (134)
97 PHA02825 LAP/PHD finger-like p 82.3 1.6 3.5E-05 36.2 3.5 47 230-286 7-58 (162)
98 KOG3039 Uncharacterized conser 80.6 1.1 2.4E-05 39.8 2.0 33 230-262 42-74 (303)
99 KOG1428 Inhibitor of type V ad 80.0 1.4 3E-05 48.2 2.8 54 229-287 3484-3544(3738)
100 KOG1815 Predicted E3 ubiquitin 79.1 1.4 3.1E-05 42.8 2.5 33 230-262 69-102 (444)
101 KOG0298 DEAD box-containing he 78.6 0.28 6.1E-06 52.5 -2.6 48 226-284 1148-1196(1394)
102 KOG3268 Predicted E3 ubiquitin 78.1 1.7 3.7E-05 36.7 2.3 58 230-287 164-228 (234)
103 KOG0827 Predicted E3 ubiquitin 77.6 1.6 3.5E-05 41.2 2.2 32 231-262 4-39 (465)
104 KOG4445 Uncharacterized conser 77.2 0.81 1.8E-05 41.7 0.2 58 230-287 114-186 (368)
105 KOG1940 Zn-finger protein [Gen 76.5 1.4 3E-05 40.0 1.5 42 232-284 159-204 (276)
106 PF08746 zf-RING-like: RING-li 74.2 4.3 9.3E-05 26.1 2.9 40 234-282 1-43 (43)
107 KOG2068 MOT2 transcription fac 73.9 2.7 5.9E-05 38.9 2.7 49 230-289 248-300 (327)
108 PF07191 zinc-ribbons_6: zinc- 72.9 0.31 6.7E-06 34.8 -2.9 40 232-287 2-41 (70)
109 PHA02862 5L protein; Provision 72.9 3.8 8.2E-05 33.5 3.0 45 232-286 3-52 (156)
110 KOG4185 Predicted E3 ubiquitin 72.7 2.3 4.9E-05 38.8 1.9 32 231-262 3-40 (296)
111 PF03854 zf-P11: P-11 zinc fin 71.4 2.4 5.2E-05 27.9 1.2 33 245-288 14-47 (50)
112 KOG3899 Uncharacterized conser 70.3 1.7 3.8E-05 39.5 0.6 38 249-286 325-364 (381)
113 PF10497 zf-4CXXC_R1: Zinc-fin 68.8 6.5 0.00014 30.4 3.4 34 250-285 37-70 (105)
114 KOG2930 SCF ubiquitin ligase, 65.4 4 8.6E-05 31.4 1.5 27 248-285 80-106 (114)
115 PF05605 zf-Di19: Drought indu 62.2 4.9 0.00011 26.9 1.4 14 274-287 29-42 (54)
116 KOG4739 Uncharacterized protei 62.0 3.2 6.9E-05 36.7 0.6 29 232-260 4-34 (233)
117 KOG3799 Rab3 effector RIM1 and 61.0 3.8 8.3E-05 33.0 0.8 53 229-285 63-116 (169)
118 PF10235 Cript: Microtubule-as 56.0 8 0.00017 29.1 1.7 36 231-286 44-79 (90)
119 KOG3113 Uncharacterized conser 55.6 9.9 0.00022 34.0 2.5 45 230-287 110-158 (293)
120 KOG2034 Vacuolar sorting prote 55.1 6.3 0.00014 41.1 1.4 35 228-262 814-850 (911)
121 PF10571 UPF0547: Uncharacteri 53.7 7.4 0.00016 22.2 1.0 9 233-241 2-10 (26)
122 PF12906 RINGv: RING-variant d 53.7 6.3 0.00014 25.7 0.8 40 234-282 1-47 (47)
123 TIGR01562 FdhE formate dehydro 52.4 4.4 9.5E-05 37.5 -0.2 43 231-284 184-232 (305)
124 KOG0825 PHD Zn-finger protein 52.4 7.8 0.00017 40.0 1.5 51 230-285 95-152 (1134)
125 PF04216 FdhE: Protein involve 50.4 3.1 6.8E-05 38.0 -1.5 45 230-285 171-220 (290)
126 PF15616 TerY-C: TerY-C metal 45.7 11 0.00024 30.4 1.2 42 228-286 74-115 (131)
127 COG3813 Uncharacterized protei 44.6 14 0.0003 26.6 1.4 24 250-286 28-51 (84)
128 PRK03564 formate dehydrogenase 44.0 9.4 0.0002 35.3 0.6 44 230-284 186-234 (309)
129 COG5183 SSM4 Protein involved 42.9 21 0.00047 37.1 2.9 50 229-287 10-66 (1175)
130 PF14569 zf-UDP: Zinc-binding 41.7 40 0.00086 24.6 3.4 49 230-288 8-63 (80)
131 PF06906 DUF1272: Protein of u 41.5 32 0.00069 23.5 2.7 43 233-288 7-53 (57)
132 PF01363 FYVE: FYVE zinc finge 34.3 13 0.00028 25.9 -0.1 32 230-261 8-43 (69)
133 COG0068 HypF Hydrogenase matur 34.0 18 0.00039 37.1 0.9 52 230-284 100-181 (750)
134 PRK04023 DNA polymerase II lar 33.0 24 0.00053 37.6 1.6 46 230-288 625-675 (1121)
135 KOG1815 Predicted E3 ubiquitin 32.0 19 0.00041 35.1 0.6 47 243-289 178-239 (444)
136 PRK11088 rrmA 23S rRNA methylt 31.2 24 0.00051 31.7 1.1 22 232-253 3-27 (272)
137 KOG1812 Predicted E3 ubiquitin 30.6 23 0.00051 33.8 1.0 31 231-261 306-341 (384)
138 KOG0006 E3 ubiquitin-protein l 30.0 37 0.0008 31.5 2.1 36 249-289 342-410 (446)
139 PF15389 DUF4612: Domain of un 29.9 38 0.00083 26.6 1.9 18 72-89 87-104 (115)
140 PF00036 EF-hand_1: EF hand; 28.8 52 0.0011 18.9 1.9 18 20-37 12-29 (29)
141 PF14446 Prok-RING_1: Prokaryo 28.8 73 0.0016 21.6 2.8 31 230-260 4-38 (54)
142 PF05502 Dynactin_p62: Dynacti 28.5 24 0.00053 34.8 0.7 12 231-242 26-37 (483)
143 PF07975 C1_4: TFIIH C1-like d 28.4 64 0.0014 21.5 2.5 25 248-283 26-50 (51)
144 PF06844 DUF1244: Protein of u 28.3 47 0.001 23.5 1.9 16 252-267 11-26 (68)
145 cd00065 FYVE FYVE domain; Zinc 27.9 42 0.0009 22.2 1.6 30 232-261 3-36 (57)
146 PF13097 CENP-U: CENP-A nucleo 27.7 3.8E+02 0.0082 22.7 9.1 37 118-154 137-173 (175)
147 PF13719 zinc_ribbon_5: zinc-r 27.6 30 0.00066 21.2 0.8 13 274-286 23-35 (37)
148 COG4647 AcxC Acetone carboxyla 26.6 31 0.00068 27.7 0.9 21 236-256 62-82 (165)
149 PF04423 Rad50_zn_hook: Rad50 26.4 21 0.00046 23.8 -0.1 12 277-288 21-32 (54)
150 smart00064 FYVE Protein presen 26.4 51 0.0011 22.7 1.9 31 231-261 10-44 (68)
151 PF14353 CpXC: CpXC protein 26.3 51 0.0011 26.0 2.1 12 275-286 37-48 (128)
152 COG1592 Rubrerythrin [Energy p 26.0 42 0.00092 28.2 1.7 12 274-285 147-158 (166)
153 KOG2113 Predicted RNA binding 25.4 47 0.001 30.8 1.9 44 229-285 341-385 (394)
154 PF09297 zf-NADH-PPase: NADH p 25.0 17 0.00038 21.4 -0.6 29 250-285 2-30 (32)
155 TIGR00143 hypF [NiFe] hydrogen 24.6 34 0.00075 35.4 1.0 52 230-284 67-148 (711)
156 KOG3842 Adaptor protein Pellin 24.6 42 0.00091 31.1 1.5 12 274-285 339-350 (429)
157 PLN02189 cellulose synthase 23.9 59 0.0013 35.0 2.6 48 230-287 33-87 (1040)
158 KOG2462 C2H2-type Zn-finger pr 23.7 43 0.00092 30.4 1.3 58 230-287 160-226 (279)
159 smart00647 IBR In Between Ring 23.6 19 0.00042 24.2 -0.7 14 248-261 45-58 (64)
160 KOG1729 FYVE finger containing 23.6 35 0.00076 31.3 0.8 54 229-286 166-224 (288)
161 PLN02638 cellulose synthase A 22.6 60 0.0013 35.1 2.3 48 230-287 16-70 (1079)
162 KOG2169 Zn-finger transcriptio 22.4 51 0.0011 33.7 1.7 52 228-286 303-355 (636)
163 PF00628 PHD: PHD-finger; Int 21.9 16 0.00034 23.7 -1.4 47 233-284 1-50 (51)
164 KOG2979 Protein involved in DN 21.7 47 0.001 29.8 1.2 45 230-283 175-220 (262)
165 KOG3800 Predicted E3 ubiquitin 21.5 48 0.001 30.3 1.2 16 248-263 22-37 (300)
166 KOG4185 Predicted E3 ubiquitin 21.5 22 0.00048 32.3 -1.0 44 231-284 207-264 (296)
167 PF09723 Zn-ribbon_8: Zinc rib 20.8 44 0.00095 21.1 0.6 11 274-284 24-34 (42)
168 PLN02436 cellulose synthase A 20.8 74 0.0016 34.4 2.6 48 230-287 35-89 (1094)
169 PLN02400 cellulose synthase 20.8 73 0.0016 34.5 2.5 49 230-288 35-90 (1085)
170 KOG4302 Microtubule-associated 20.7 7.2E+02 0.016 25.7 9.4 91 77-167 289-394 (660)
171 TIGR02098 MJ0042_CXXC MJ0042 f 20.2 45 0.00097 20.2 0.5 12 275-286 24-35 (38)
172 smart00132 LIM Zinc-binding do 20.1 88 0.0019 18.2 1.9 10 234-243 2-11 (39)
No 1
>KOG1161 consensus Protein involved in vacuolar polyphosphate accumulation, contains SPX domain [Inorganic ion transport and metabolism]
Probab=99.95 E-value=2.8e-27 Score=211.86 Aligned_cols=136 Identities=24% Similarity=0.264 Sum_probs=103.8
Q ss_pred CCcchhhhhhhhhhhhhccccCCccchHHHHHHHHhchhcCCCCCccCcccccccccccchhhhhhhcccchhhchhHHH
Q 022989 1 MKFGETFTEYLHGDQERFLDKCSHVEYKRLKKVLKSCRTCKGLHDSACKTEQQWDEGKDISESQLCQCQSSCQLCDHMFF 80 (289)
Q Consensus 1 MKFGk~l~~~~~~~~~~~~~~~~yi~Yk~LKk~ik~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ff 80 (289)
|||||.|++.+.|+| +.+|||||.|||+||+.+.. .+...+ +.+ .+..|+
T Consensus 1 MkFGk~L~~~~l~ew-----~~~yinYk~LKK~lK~~~~~--~~~~~~-------~~~----------------~e~dFv 50 (310)
T KOG1161|consen 1 MKFGKYLKEELLPEW-----KDKYINYKELKKLLKQYSIQ--TADSSP-------DSR----------------DESDFV 50 (310)
T ss_pred CchhHHHHHhhhhhH-----hhhhcCHHHHHHHHHHhccc--cccCCc-------ccc----------------hHHHHH
Confidence 999999999999977 88999999999999998751 111111 000 257899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh--hhhH---------HHHHHHHHhhhhhcHHHHHHHHHHHHHHHHhhHHHHHHH
Q 022989 81 SELMKEASDIAGCFSSRARHLLHLHV--ASGM---------QRYVLRIRQCFKNDQTAMIEEGRVLIEYIIMNAIAIRKI 149 (289)
Q Consensus 81 ~~L~~El~kv~~f~~~r~~~l~~~~~--~~~~---------~~~~~~~~~~~~~~~~~~~~e~~~L~~f~~lN~~~~~ki 149 (289)
+.||+||||||+||.++.+++..+.. .... ...+..++ +...+++.|+++|.+|++||+|||+||
T Consensus 51 ~~Ld~ELEKv~~F~lek~~el~~Rl~~L~e~~~~~~~~~~~~~~~~~lr----~~l~~~~~em~~L~~fs~LN~tGf~KI 126 (310)
T KOG1161|consen 51 RLLDAELEKVNGFQLEKESELIIRLKELEEKIDALSLEPPSAEEMKELR----EELVDFHGEMVLLENFSRLNYTGFAKI 126 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCcchhHHHHHH----HHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 99999999999999888776665421 1111 11223333 356889999999999999999999999
Q ss_pred hhhhhhhhccccCccchhhhh
Q 022989 150 LKKYDKVHKSVNGKNFKSKMR 170 (289)
Q Consensus 150 lkK~dk~~~~~~~~~~~~~~~ 170 (289)
||||||+++......|..++.
T Consensus 127 LKK~DKrtg~~l~~~f~~~l~ 147 (310)
T KOG1161|consen 127 LKKHDKRTGYRLRPYFQVRLL 147 (310)
T ss_pred HHHHhcccccccccHHHHHHH
Confidence 999999999777777766654
No 2
>PF03105 SPX: SPX domain; InterPro: IPR004331 The SPX domain is named after SYG1/Pho81/XPR1 proteins. This 180 residue length domain is found at the amino terminus of a variety of proteins. In the yeast protein SYG1, the N terminus directly binds to the G- protein beta subunit and inhibits transduction of the mating pheromone signal [] suggesting that all the members of this family are involved in G-protein associated signal transduction. The C-terminal of these proteins often have an EXS domain (IPR004342 from INTERPRO) []. The N-termini of several proteins involved in the regulation of phosphate transport, including the putative phosphate level sensors PHO81 from Saccharomyces cerevisiae and NUC-2 from Neurospora crassa, are also members of this family [, ]. NUC-2 contains several ankyrin repeats (IPR002110 from INTERPRO). Several members of this family are the XPR1 proteins: the xenotropic and polytropic retrovirus receptor confers susceptibility to infection with Murine leukemia virus (MLV) []. The similarity between SYG1, phosphate regulators and XPR1 sequences has been previously noted, as has the additional similarity to several predicted proteins, of unknown function, from Drosophila melanogaster, Arabidopsis thaliana, Caenorhabditis elegans, Schizosaccharomyces pombe, and Saccharomyces cerevisiae [, ]. In addition, given the similarities between XPR1 and SYG1 and phosphate regulatory proteins, it has been proposed that XPR1 might be involved in G-protein associated signal transduction [, , ] and may itself function as a phosphate sensor [].
Probab=99.92 E-value=3e-25 Score=199.26 Aligned_cols=163 Identities=21% Similarity=0.314 Sum_probs=103.5
Q ss_pred CCcchhhhhhhhhhhhhccccCCccchHHHHHHHHhchhcCCCCCccC---------------------ccccccccccc
Q 022989 1 MKFGETFTEYLHGDQERFLDKCSHVEYKRLKKVLKSCRTCKGLHDSAC---------------------KTEQQWDEGKD 59 (289)
Q Consensus 1 MKFGk~l~~~~~~~~~~~~~~~~yi~Yk~LKk~ik~~~~~~~~~~~~~---------------------~~~~~~~~~~~ 59 (289)
|||||+|+.+++||| +.+|||||.|||+||++........... ...........
T Consensus 1 MKFgk~L~~~~vpEW-----~~~YidYk~LKk~ik~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (275)
T PF03105_consen 1 MKFGKQLQENAVPEW-----RDKYIDYKQLKKLIKRIQNEKESLGLSAETLSSISISSSSSSSSRSSSNSFESTSPSSSN 75 (275)
T ss_pred CCchHHHHHhcCHHH-----HHHhCCHHHHHHHHHHHHhhhhcccccccccchhhhhhhhhccccccccccccccccccc
Confidence 999999999999988 7799999999999999987322110000 00000000000
Q ss_pred c-hhhhhhhcccchhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh--hHH-------------------------
Q 022989 60 I-SESQLCQCQSSCQLCDHMFFSELMKEASDIAGCFSSRARHLLHLHVAS--GMQ------------------------- 111 (289)
Q Consensus 60 ~-~~~~~~~~~~~~~~~~~~Ff~~L~~El~kv~~f~~~r~~~l~~~~~~~--~~~------------------------- 111 (289)
. ...............+..||..|+.||+||+.||.+++.++....... .+.
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~F~~~L~~El~KVn~Fy~~k~~el~~~~~~L~~ql~~l~~~~~~~~~~~~~~~~~~~~~~~ 155 (275)
T PF03105_consen 76 TSPSSSNSEQNEDNEESEEEFFELLDEELEKVNDFYKEKEKELRERLEELQKQLEELREQRSKSSDKYNWNQSSQLSSSS 155 (275)
T ss_pred ccccccccchhhhhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccccccccchhhcccc
Confidence 0 000000011122346789999999999999999999877655421100 000
Q ss_pred -------------------------------------------------------------HHHHHHHhhhhhcHHHHHH
Q 022989 112 -------------------------------------------------------------RYVLRIRQCFKNDQTAMIE 130 (289)
Q Consensus 112 -------------------------------------------------------------~~~~~~~~~~~~~~~~~~~ 130 (289)
.....-+..+.....++..
T Consensus 156 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~y~ 235 (275)
T PF03105_consen 156 NIFSSSSSASAGSSNSSSASRRSQRFSSESSKQSSNSESDAESDNNRGDRSSDKPFLSSSQKSLKKARKQLKKAFIELYR 235 (275)
T ss_pred ccccCccccccCCccccccccccccchhhhhhccCCCCcccccccccccccccccccccchhhHHHHHHHHHHHHHHHHH
Confidence 0000111112233356667
Q ss_pred HHHHHHHHHHhhHHHHHHHhhhhhhhhccccCccchhh
Q 022989 131 EGRVLIEYIIMNAIAIRKILKKYDKVHKSVNGKNFKSK 168 (289)
Q Consensus 131 e~~~L~~f~~lN~~~~~kilkK~dk~~~~~~~~~~~~~ 168 (289)
++.+|++|+.||.|||+||||||||.++......|+..
T Consensus 236 ~l~~Lk~f~~LN~taf~KIlKK~DK~~~~~~~~~y~~~ 273 (275)
T PF03105_consen 236 ELELLKSFVELNRTAFRKILKKYDKVTGTSLSDDYMEE 273 (275)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccchHhhhhc
Confidence 77899999999999999999999999998888888754
No 3
>KOG1162 consensus Predicted small molecule transporter [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.86 E-value=9.1e-22 Score=191.52 Aligned_cols=148 Identities=24% Similarity=0.327 Sum_probs=104.2
Q ss_pred CCcchhhhhhhhhhhhhccccCCccchHHHHHHHHhchhcCCCCCccCcccccccccccchhhhhhhcccchhhchhHHH
Q 022989 1 MKFGETFTEYLHGDQERFLDKCSHVEYKRLKKVLKSCRTCKGLHDSACKTEQQWDEGKDISESQLCQCQSSCQLCDHMFF 80 (289)
Q Consensus 1 MKFGk~l~~~~~~~~~~~~~~~~yi~Yk~LKk~ik~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ff 80 (289)
|||||+|.++++||| +..||||+.||++||++.....+ . . + ++. ....++..+.++.||
T Consensus 1 MKFgk~~~~q~~pEW-----~~ay~dY~~lK~~l~~i~~~~~~--~----~-~-t~~--------~~~~~~~~~~~~~Ff 59 (617)
T KOG1162|consen 1 MKFGKELESQLVPEW-----RQAYIDYKYLKKLLKEIIENKPS--S----E-E-TTF--------LMVSEEGGEFEEVFF 59 (617)
T ss_pred CcchHHHHHhcCHHH-----HHHhhhHHHHHHHHHHHHhcCCC--c----C-c-cHH--------HHHHHhhhhhHHHHH
Confidence 999999999999988 78999999999999999872111 0 0 0 011 111123456789999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh--hhhH------H---------------------HHHHHHHhhhhhcHHHHHHH
Q 022989 81 SELMKEASDIAGCFSSRARHLLHLHV--ASGM------Q---------------------RYVLRIRQCFKNDQTAMIEE 131 (289)
Q Consensus 81 ~~L~~El~kv~~f~~~r~~~l~~~~~--~~~~------~---------------------~~~~~~~~~~~~~~~~~~~e 131 (289)
..||.|+.|||.||.+++++..+.+. ..+. + +.+.+.++.++....++..-
T Consensus 60 ~~ld~el~Kvn~Fy~~k~~e~~~~~~~L~~ql~~~~~~r~~~~~~~~~~~~~~~~~~~f~~~~~~~e~~lk~af~Efy~~ 139 (617)
T KOG1162|consen 60 RRLDEELNKVNKFYKEKVKEAREEAEELNKQLDALIALRVKSRSSVDISDRAARLRGKFTKVLRKAEEKLKLAFSEFYLK 139 (617)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccccchhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999998876554311 1110 0 00111122223334566666
Q ss_pred HHHHHHHHHhhHHHHHHHhhhhhhhhccccCccchhhhh
Q 022989 132 GRVLIEYIIMNAIAIRKILKKYDKVHKSVNGKNFKSKMR 170 (289)
Q Consensus 132 ~~~L~~f~~lN~~~~~kilkK~dk~~~~~~~~~~~~~~~ 170 (289)
++.|++|+.||.||||||+|||||.++... ..|+..+.
T Consensus 140 L~llk~y~~lN~~~f~KI~KKyDK~~~~~~-~~~~~~v~ 177 (617)
T KOG1162|consen 140 LRLLKNYQFLNVTAFRKILKKYDKITSRDA-KRYVKMVD 177 (617)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccch-HHHHHHHH
Confidence 789999999999999999999999999877 66655443
No 4
>COG5036 SPX domain-containing protein involved in vacuolar polyphosphate accumulation [Inorganic ion transport and metabolism]
Probab=99.81 E-value=6.3e-20 Score=168.36 Aligned_cols=151 Identities=23% Similarity=0.321 Sum_probs=107.4
Q ss_pred CCcchhhhhhhhhhhhhccccCCccchHHHHHHHHhchhcCCCCCccCcccccccccccchhhhhhhcccchhhchhHHH
Q 022989 1 MKFGETFTEYLHGDQERFLDKCSHVEYKRLKKVLKSCRTCKGLHDSACKTEQQWDEGKDISESQLCQCQSSCQLCDHMFF 80 (289)
Q Consensus 1 MKFGk~l~~~~~~~~~~~~~~~~yi~Yk~LKk~ik~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ff 80 (289)
|+||+.|.+.+.++| +++||||..||++||.-.. ...|++.. +..|.
T Consensus 1 M~Fg~~L~~~ly~p~-----k~~YinYe~LK~~lK~~~~-----------~~~w~e~d-----------------EsdFV 47 (509)
T COG5036 1 MRFGKKLKNNLYPPY-----KYSYINYENLKKLLKESEE-----------EGSWSESD-----------------ESDFV 47 (509)
T ss_pred CchhHHHHhccCccc-----ccccCCHHHHHHHHhhccc-----------cCCCcccc-----------------hHHHH
Confidence 999999999999966 8999999999999999332 11244432 47899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--hhhhHHHHHHHHHhh-hhhcHHHHHHHHHHHHHHHHhhHHHHHHHhhhhhhhh
Q 022989 81 SELMKEASDIAGCFSSRARHLLHLH--VASGMQRYVLRIRQC-FKNDQTAMIEEGRVLIEYIIMNAIAIRKILKKYDKVH 157 (289)
Q Consensus 81 ~~L~~El~kv~~f~~~r~~~l~~~~--~~~~~~~~~~~~~~~-~~~~~~~~~~e~~~L~~f~~lN~~~~~kilkK~dk~~ 157 (289)
.+|++||+||.+|-.++..++.++. +..+..+.+..+-.. +.+...+-+.++++|.+|.+||+|||.||+|||||.+
T Consensus 48 e~Ld~eLeKVY~F~~~k~~ev~erl~~leeq~~~~i~~~ds~~~~~~LeE~L~~v~~l~kF~RLN~tGF~KIvKKHDK~~ 127 (509)
T COG5036 48 EELDKELEKVYGFQLSKYSEVMERLRTLEEQTDEAIQELDSDNFPKILEEELDTVHDLAKFSRLNFTGFKKIVKKHDKHT 127 (509)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHhhcccCCcchhHHHHHHHHHHHHHhhhhhhhHHHHHHHHhhcCCC
Confidence 9999999999999988888777642 222222122111111 1111123334567999999999999999999999999
Q ss_pred ccccCccchhhhhhhHhhhc-cchhhhh
Q 022989 158 KSVNGKNFKSKMRAEHIELL-QSPWLIE 184 (289)
Q Consensus 158 ~~~~~~~~~~~~~~~~i~l~-~sp~l~e 184 (289)
+....+.|..++.+...... -+|-+.+
T Consensus 128 ~y~lkpvfqvrLk~~p~~se~yd~Ll~k 155 (509)
T COG5036 128 GYSLKPVFQVRLKAKPFFSEQYDPLLYK 155 (509)
T ss_pred CceechhHHHHhccCCcchhhhcHHHHH
Confidence 99999999888876543322 3344444
No 5
>COG5408 SPX domain-containing protein [Signal transduction mechanisms]
Probab=99.33 E-value=8.8e-12 Score=112.03 Aligned_cols=90 Identities=19% Similarity=0.191 Sum_probs=55.4
Q ss_pred CCcchhhhhhhhhhhhhccccCCccchHHHHHHHHhchhcCCCCCc-cCcc------cccccccccchhhhhhh-cccch
Q 022989 1 MKFGETFTEYLHGDQERFLDKCSHVEYKRLKKVLKSCRTCKGLHDS-ACKT------EQQWDEGKDISESQLCQ-CQSSC 72 (289)
Q Consensus 1 MKFGk~l~~~~~~~~~~~~~~~~yi~Yk~LKk~ik~~~~~~~~~~~-~~~~------~~~~~~~~~~~~~~~~~-~~~~~ 72 (289)
||||+.|+.+.+||| +.+||+|+.|||+|+.+...+.+... .++. +...+...+-..+.... .....
T Consensus 1 MKF~~~L~~naVPEW-----ss~Y~dYk~lKKlI~~l~~~~~~~~~~~~~~~e~~~~~~~~~~~~dr~~~~l~~~~s~~~ 75 (296)
T COG5408 1 MKFGHSLQFNAVPEW-----SSKYIDYKQLKKLIYSLQKDQLSSYHGVSDNDETRDEAGEPSNWRDRFNHALKKELSPLQ 75 (296)
T ss_pred Ccchhhhhhccchhh-----HHhhhhHHHHHHHHHHHhcchhhhhccCCccccccccccCCCChhhhhcchhhhhhhhHH
Confidence 999999999999988 88999999999999999874321110 0000 00000111000000000 11122
Q ss_pred hhchhHHHHH-HHHHHHHHHHHHH
Q 022989 73 QLCDHMFFSE-LMKEASDIAGCFS 95 (289)
Q Consensus 73 ~~~~~~Ff~~-L~~El~kv~~f~~ 95 (289)
+...+.||.. +..|+.|++.||.
T Consensus 76 ~~~v~~f~e~~i~~e~~k~~e~~~ 99 (296)
T COG5408 76 ANYVAKFFENYISEEAIKLDEFYS 99 (296)
T ss_pred HHHHHHHHHHhhhHHHHHHHhhhc
Confidence 3446788888 9999999999864
No 6
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.27 E-value=3.4e-12 Score=82.68 Aligned_cols=42 Identities=38% Similarity=0.971 Sum_probs=30.1
Q ss_pred cccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccc
Q 022989 234 CAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282 (289)
Q Consensus 234 C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~C 282 (289)
||||++++.+|++++|||+||..||.+++. ........||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~-------~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWK-------EPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHC-------CSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHH-------ccCCcCCCCcCC
Confidence 899999999999999999999999998852 112223789987
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.10 E-value=7e-11 Score=100.26 Aligned_cols=60 Identities=30% Similarity=0.677 Sum_probs=44.9
Q ss_pred ccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhc-----ccCCCCCCccccccccccC
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEG-----LKSASPDSKCPICREELAG 288 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~-----~~~~~~~~~CP~CR~~~~~ 288 (289)
..++.|+||++.+.+|+.++|||.||+.||..|........ .........||+||..++.
T Consensus 16 ~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 16 GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 35799999999999999999999999999999853211000 0012345789999998864
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=1.5e-10 Score=102.86 Aligned_cols=50 Identities=38% Similarity=0.864 Sum_probs=43.8
Q ss_pred ccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccCC
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAGN 289 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~~ 289 (289)
+....|.+|++...+|..+||||.||+.||..|. +....||.||..++|+
T Consensus 237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~-----------~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWC-----------SEKAECPLCREKFQPS 286 (293)
T ss_pred CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHH-----------ccccCCCcccccCCCc
Confidence 4679999999999999999999999999999985 2445599999999875
No 9
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.99 E-value=2.8e-10 Score=107.22 Aligned_cols=67 Identities=37% Similarity=0.730 Sum_probs=55.8
Q ss_pred ccCCCCcccccCCccccccccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 210 DFNASRPVMTLALPSSIKLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 210 ~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
++++...|+...++....++..+.|+||.+.+.+|++++|||+||..|+..++. ....||.|+..+.
T Consensus 5 di~D~tDw~~t~~~~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~-----------~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 5 DITDSSDWLTTPIPSLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLS-----------NQPKCPLCRAEDQ 71 (397)
T ss_pred cCCCchhhccCCcccccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHh-----------CCCCCCCCCCccc
Confidence 455666677777777778899999999999999999999999999999988742 2358999998764
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=2.1e-10 Score=99.10 Aligned_cols=51 Identities=33% Similarity=0.791 Sum_probs=44.2
Q ss_pred cccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 230 YDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
..+.|.||++...+||.+.|||.||+.||.+|.. .......||+|+..++.
T Consensus 46 ~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~--------~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 46 GFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQ--------TRPNSKECPVCKAEVSI 96 (230)
T ss_pred CceeeeeeccccCCCEEeecccceehHHHHHHHh--------hcCCCeeCCcccccccc
Confidence 5799999999999999999999999999999953 23466789999988864
No 11
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.89 E-value=1.1e-09 Score=73.55 Aligned_cols=46 Identities=39% Similarity=0.920 Sum_probs=39.2
Q ss_pred ccccccccCCCCCcEeccCCCc-ccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 231 DLTCAVCLDLVFNPYALSCGHL-FCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l~CgH~-FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
+..|+||++...+++.++|||. ||..|+.+++. ....||+||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~-----------~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK-----------RKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH-----------TTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc-----------cCCCCCcCChhhc
Confidence 5789999999999999999999 99999988742 6688999999886
No 12
>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=98.88 E-value=1.4e-09 Score=69.28 Aligned_cols=38 Identities=42% Similarity=1.079 Sum_probs=31.0
Q ss_pred cccccCCCCCc-EeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccc
Q 022989 234 CAVCLDLVFNP-YALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282 (289)
Q Consensus 234 C~IC~~~~~~p-~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~C 282 (289)
|+||++.+.+| +.++|||.||..|+.++.. ...+||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~-----------~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLE-----------KNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHH-----------CTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHH-----------CcCCCcCC
Confidence 89999999999 5699999999999998853 24789987
No 13
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.85 E-value=1e-09 Score=96.86 Aligned_cols=48 Identities=29% Similarity=0.796 Sum_probs=38.6
Q ss_pred ccccccccccCCCCCc--------EeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCLDLVFNP--------YALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p--------~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..+..|+||++.+.++ +.++|||.||..|+.+|. .....||+||.++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl-----------~~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWK-----------KEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHH-----------hcCCCCCCCCCEee
Confidence 3578999999987653 446899999999999984 24568999998764
No 14
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.84 E-value=2.9e-09 Score=74.79 Aligned_cols=46 Identities=15% Similarity=0.361 Sum_probs=40.2
Q ss_pred ccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 231 DLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
++.||||.+.+.+|+.++|||+||..|+..++. ....||.|+.+++
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~-----------~~~~cP~~~~~~~ 46 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLL-----------SHGTDPVTGQPLT 46 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHH-----------HCCCCCCCcCCCC
Confidence 368999999999999999999999999999853 2468999998874
No 15
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.76 E-value=2.2e-09 Score=97.09 Aligned_cols=57 Identities=30% Similarity=0.685 Sum_probs=47.8
Q ss_pred cCCccccccccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 220 LALPSSIKLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 220 ~~~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
...+....+.+.++|.||.++|..|++++|+|+||.-||..++ .....||.|+.++.
T Consensus 12 tsipslk~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L-----------~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 12 TSIPSLKTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFL-----------SYKPQCPTCCVTVT 68 (442)
T ss_pred ccCchhhhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHh-----------ccCCCCCceecccc
Confidence 3344455567889999999999999999999999999998874 46788999998774
No 16
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.75 E-value=5.9e-09 Score=66.95 Aligned_cols=40 Identities=40% Similarity=0.967 Sum_probs=34.9
Q ss_pred cccccCCCCCcE-eccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccc
Q 022989 234 CAVCLDLVFNPY-ALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282 (289)
Q Consensus 234 C~IC~~~~~~p~-~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~C 282 (289)
|+||++.+.+|+ +++|||.||..|+.+++.. .....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~---------~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLEN---------SGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHH---------TSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHh---------cCCccCCcC
Confidence 899999999999 7999999999999998631 466779987
No 17
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=4.7e-09 Score=87.18 Aligned_cols=47 Identities=38% Similarity=0.945 Sum_probs=39.0
Q ss_pred cccccccccCCCCC--cEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFN--PYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~--p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..+.||||++.+.. |+.+.|||.||..||..+. ....+||+|+..+.
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~al-----------k~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDAL-----------KNTNKCPTCRKKIT 178 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHH-----------HhCCCCCCcccccc
Confidence 45999999998875 4568999999999998874 35688999998764
No 18
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=98.74 E-value=3.8e-09 Score=69.03 Aligned_cols=40 Identities=33% Similarity=0.871 Sum_probs=31.7
Q ss_pred ccccccCCCC---CcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccc
Q 022989 233 TCAVCLDLVF---NPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283 (289)
Q Consensus 233 ~C~IC~~~~~---~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR 283 (289)
.|+||++.+. .++.++|||.||..|+.+|+. ...+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~-----------~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLK-----------RNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHH-----------HSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHH-----------hCCcCCccC
Confidence 6999999874 445589999999999999963 235999997
No 19
>PHA02926 zinc finger-like protein; Provisional
Probab=98.72 E-value=8.1e-09 Score=88.83 Aligned_cols=54 Identities=26% Similarity=0.735 Sum_probs=39.8
Q ss_pred ccccccccccCCCCCc---------EeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCLDLVFNP---------YALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p---------~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..+..|+||++...++ +..+|+|.||..|+..|.+.. ...+....||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r-----~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTR-----RETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhc-----cccCcCCcCCCCcceee
Confidence 3579999999987542 445899999999999996421 11234577999998753
No 20
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.66 E-value=1.2e-08 Score=66.13 Aligned_cols=39 Identities=38% Similarity=0.910 Sum_probs=22.4
Q ss_pred cccccCCCCC----cEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccc
Q 022989 234 CAVCLDLVFN----PYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCP 280 (289)
Q Consensus 234 C~IC~~~~~~----p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP 280 (289)
||||.+ +.+ |+.|+|||+||..|+.++++. .....++||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~-------~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK-------SDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH--------S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc-------CCCCeeeCc
Confidence 899999 777 999999999999999988531 113567887
No 21
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.62 E-value=1.9e-08 Score=89.39 Aligned_cols=54 Identities=35% Similarity=0.780 Sum_probs=45.2
Q ss_pred CccccccccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 222 LPSSIKLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 222 ~~~~~~~~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
.+....+...+.|-||-+.+..|..++|||+||.-||.+++ +...-||+||...
T Consensus 16 IPSL~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL-----------~~qp~CP~Cr~~~ 69 (391)
T COG5432 16 IPSLKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHL-----------GTQPFCPVCREDP 69 (391)
T ss_pred CcchhcchhHHHhhhhhheeecceecccccchhHHHHHHHh-----------cCCCCCccccccH
Confidence 33344556789999999999999999999999999998873 4678899999764
No 22
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=2.3e-08 Score=95.27 Aligned_cols=52 Identities=31% Similarity=0.754 Sum_probs=43.8
Q ss_pred ccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 231 DLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
+..||||++...-|+.+.|||.||..||...|... ...+...||+||..+..
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s------~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYS------AIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhh------cccCCccCCchhhhccc
Confidence 79999999999999999999999999998887532 12466899999987753
No 23
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.60 E-value=2e-08 Score=88.31 Aligned_cols=51 Identities=31% Similarity=0.662 Sum_probs=42.3
Q ss_pred ccccccccccCCCCCcEeccCCCcccHHhHHH-hhhhHhHhcccCCCCCCccccccccccCC
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHLFCKLCACS-AASVMVFEGLKSASPDSKCPICREELAGN 289 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~-~~~~~~~~~~~~~~~~~~CP~CR~~~~~~ 289 (289)
..++.|+||++....|..++|||.||+.||-. |- ......||+||+.+.++
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t----------~~k~~~CplCRak~~pk 264 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWT----------KKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHH----------hhccccCchhhhhccch
Confidence 46899999999999999999999999999976 31 12445699999988664
No 24
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.56 E-value=5.2e-08 Score=62.80 Aligned_cols=44 Identities=36% Similarity=0.960 Sum_probs=35.8
Q ss_pred ccccccCCCCCcEecc-CCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 233 TCAVCLDLVFNPYALS-CGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 233 ~C~IC~~~~~~p~~l~-CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
.|+||++.+.+++.+. |||.||..|+..|+. .....||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~----------~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLK----------SGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHH----------hCcCCCCCCCCcC
Confidence 4999999987787755 999999999998853 1457799999754
No 25
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.55 E-value=5.6e-08 Score=70.65 Aligned_cols=49 Identities=18% Similarity=0.335 Sum_probs=38.7
Q ss_pred cccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 230 YDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
+.+.|||+.+++.+|+.++|||+|+..||..|+. .....||.|+.+++.
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~----------~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLE----------QNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHC----------TTSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHH----------cCCCCCCCCCCcCCc
Confidence 5799999999999999999999999999999852 357899999988753
No 26
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.54 E-value=6.6e-08 Score=63.17 Aligned_cols=41 Identities=39% Similarity=1.000 Sum_probs=33.2
Q ss_pred ccccccCCC---CCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccc
Q 022989 233 TCAVCLDLV---FNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICRE 284 (289)
Q Consensus 233 ~C~IC~~~~---~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~ 284 (289)
.|+||.+.+ ..|+.++|||+||..|+.... .....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-----------~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-----------GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-----------CCCCCCcCCCC
Confidence 489999988 356779999999999997651 45688999984
No 27
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.40 E-value=7.1e-08 Score=67.14 Aligned_cols=46 Identities=35% Similarity=0.902 Sum_probs=25.3
Q ss_pred cccccccccccCCCCCcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 228 LEYDLTCAVCLDLVFNPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 228 ~~~~~~C~IC~~~~~~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
++..+.|++|.+++.+|+. ..|.|+||..|+...+ +..||+|+.+.
T Consensus 4 le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~-------------~~~CPvC~~Pa 50 (65)
T PF14835_consen 4 LEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCI-------------GSECPVCHTPA 50 (65)
T ss_dssp HHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGT-------------TTB-SSS--B-
T ss_pred HHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhc-------------CCCCCCcCChH
Confidence 4567999999999999987 5899999999995531 23599999765
No 28
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.40 E-value=2.6e-07 Score=57.41 Aligned_cols=39 Identities=41% Similarity=1.077 Sum_probs=33.2
Q ss_pred cccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccc
Q 022989 234 CAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282 (289)
Q Consensus 234 C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~C 282 (289)
|+||++...+++.++|||.||..|+..|+. .....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~----------~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLK----------SGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHH----------hCcCCCCCC
Confidence 789999988999999999999999988742 245679987
No 29
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=1.6e-07 Score=84.54 Aligned_cols=45 Identities=40% Similarity=1.001 Sum_probs=39.6
Q ss_pred cccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccc
Q 022989 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283 (289)
Q Consensus 228 ~~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR 283 (289)
+.+.+.|+||++.+.+|.+++|||+||..|+..++. ....||.||
T Consensus 10 ~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-----------~~~~Cp~cr 54 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-----------GPLSCPVCR 54 (386)
T ss_pred ccccccChhhHHHhhcCccccccchHhHHHHHHhcC-----------CCcCCcccC
Confidence 457899999999999998899999999999987632 458899999
No 30
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=1.8e-07 Score=85.32 Aligned_cols=51 Identities=31% Similarity=0.761 Sum_probs=42.9
Q ss_pred cccccccccccccCCCCCcEec-cCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 226 IKLEYDLTCAVCLDLVFNPYAL-SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 226 ~~~~~~~~C~IC~~~~~~p~~l-~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
..+..++.||||++++...+++ .|+|.||..||..+++ .+...||.||+.+
T Consensus 38 ~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r----------~gn~ecptcRk~l 89 (381)
T KOG0311|consen 38 AMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALR----------SGNNECPTCRKKL 89 (381)
T ss_pred HHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHH----------hcCCCCchHHhhc
Confidence 4456789999999999998876 5999999999977753 4778999999865
No 31
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=6.2e-07 Score=89.33 Aligned_cols=53 Identities=28% Similarity=0.671 Sum_probs=45.7
Q ss_pred ccccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccCC
Q 022989 227 KLEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAGN 289 (289)
Q Consensus 227 ~~~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~~ 289 (289)
.....+.||+|..-..+.+++.|||.||..|+.+.+. .+..+||.|...+.+|
T Consensus 639 ~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~e----------tRqRKCP~Cn~aFgan 691 (698)
T KOG0978|consen 639 EYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYE----------TRQRKCPKCNAAFGAN 691 (698)
T ss_pred HHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHH----------HhcCCCCCCCCCCCcc
Confidence 3457799999999999999999999999999988642 4678999999999876
No 32
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=3.8e-06 Score=77.26 Aligned_cols=47 Identities=32% Similarity=0.739 Sum_probs=39.3
Q ss_pred ccccccccccCC-CCCc------------EeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 229 EYDLTCAVCLDL-VFNP------------YALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 229 ~~~~~C~IC~~~-~~~p------------~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
.++..|.||++- +..| ..++|||.+...|+..|. .+..+||+||.++
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~-----------ERqQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWL-----------ERQQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHH-----------HhccCCCcccCcc
Confidence 478999999986 4433 678999999999999995 4668999999985
No 33
>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=97.95 E-value=8.7e-06 Score=59.08 Aligned_cols=40 Identities=33% Similarity=0.875 Sum_probs=30.6
Q ss_pred ccccccCCCCCc------------Ee-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccc
Q 022989 233 TCAVCLDLVFNP------------YA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283 (289)
Q Consensus 233 ~C~IC~~~~~~p------------~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR 283 (289)
.|+||++.+.+| +. .+|||.|...||.+|+ .....||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl-----------~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWL-----------KQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHH-----------TTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHH-----------hcCCcCCCCC
Confidence 499999988432 33 4799999999999995 2445999997
No 34
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=5.4e-06 Score=78.49 Aligned_cols=48 Identities=33% Similarity=0.935 Sum_probs=42.1
Q ss_pred ccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..++.|.||...+..|++++|||+||..|+.+.. .....||.||..+.
T Consensus 82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~l-----------d~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSL-----------DQETECPLCRDELV 129 (398)
T ss_pred cchhhhhhhHhhcCCCccccccccccHHHHHHHh-----------ccCCCCcccccccc
Confidence 5789999999999999999999999999997753 36678999998764
No 35
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=1.1e-05 Score=71.57 Aligned_cols=50 Identities=28% Similarity=0.745 Sum_probs=40.8
Q ss_pred ccccccccccCCCCCcEec-cCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYAL-SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l-~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..+.+||+|.+....|.+. +|||+||..|+.+.. .-...+.||.|..++.
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~---------~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSR---------LWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhh---------cchhhcccCccCCCCc
Confidence 4689999999999999885 599999999997652 1134589999998765
No 36
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=6.8e-06 Score=81.60 Aligned_cols=47 Identities=36% Similarity=0.777 Sum_probs=40.8
Q ss_pred ccccccccccCCCCC-----cEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 229 EYDLTCAVCLDLVFN-----PYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~-----p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
..+..|+||.+.+.. |..++|||.||..|+..|+. ....||+||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~e-----------r~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFE-----------RQQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHH-----------HhCcCCcchhhh
Confidence 357999999999998 78899999999999999963 467899999843
No 37
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=9.3e-06 Score=72.91 Aligned_cols=49 Identities=27% Similarity=0.634 Sum_probs=39.5
Q ss_pred cccccccccCCCCC--cE-eccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 230 YDLTCAVCLDLVFN--PY-ALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 230 ~~~~C~IC~~~~~~--p~-~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
....|.||++.+.. .+ .+||.|.|...|+.+|+ ......||+||.+++|
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~----------~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWL----------LGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHH----------hhhcccCCccCCCCCC
Confidence 45889999986653 23 38999999999999995 2356789999999876
No 38
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=4.1e-06 Score=56.14 Aligned_cols=47 Identities=26% Similarity=0.762 Sum_probs=38.0
Q ss_pred ccccccccCCCCCcEeccCCCc-ccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 231 DLTCAVCLDLVFNPYALSCGHL-FCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l~CgH~-FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
+-+|.||.+-..+.+...|||. .|..|-.+.+. .....||+||++++
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~----------~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKK----------ALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHH----------ccCCcCcchhhHHH
Confidence 3689999998888888899994 79999766532 36688999999875
No 39
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.61 E-value=2.1e-05 Score=66.66 Aligned_cols=45 Identities=29% Similarity=0.758 Sum_probs=38.1
Q ss_pred cccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 230 YDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
-.+.|.||...+..|+.+.|||.||..|..+-+ ..+..|-+|...
T Consensus 195 IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y-----------~kg~~C~~Cgk~ 239 (259)
T COG5152 195 IPFLCGICKKDYESPVVTECGHSFCSLCAIRKY-----------QKGDECGVCGKA 239 (259)
T ss_pred CceeehhchhhccchhhhhcchhHHHHHHHHHh-----------ccCCcceecchh
Confidence 458999999999999999999999999986542 456789999764
No 40
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.60 E-value=2.9e-05 Score=71.91 Aligned_cols=46 Identities=28% Similarity=0.644 Sum_probs=36.5
Q ss_pred cccccccCCCCCc--E-eccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 232 LTCAVCLDLVFNP--Y-ALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 232 ~~C~IC~~~~~~p--~-~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..|+||+|.+..- + .|||+|.|...||..|+- .....||+|+..+.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~----------~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLT----------QTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHh----------hcCccCCCCCCcCC
Confidence 5999999988743 3 389999999999999952 23355999998764
No 41
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.50 E-value=6.9e-05 Score=51.64 Aligned_cols=43 Identities=26% Similarity=0.546 Sum_probs=29.8
Q ss_pred cccccccccCCCCCcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccc
Q 022989 230 YDLTCAVCLDLVFNPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPI 281 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~ 281 (289)
..+.|||.+..+.+|+. ..|||+|....|..+++ ......||+
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~---------~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQ---------RNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCT---------TTS-EE-SC
T ss_pred eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHH---------hcCCCCCCC
Confidence 57999999999999998 68999999999988741 246788998
No 42
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.49 E-value=8.6e-05 Score=54.99 Aligned_cols=48 Identities=27% Similarity=0.505 Sum_probs=32.5
Q ss_pred cccccccCCCCC-cEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 232 LTCAVCLDLVFN-PYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 232 ~~C~IC~~~~~~-p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
-.||.|...-.+ |+. -.|+|.|..-||.+|.+ ..+....||+||++..
T Consensus 33 g~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~--------~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 33 GCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLS--------TQSSKGQCPMCRQPWK 82 (85)
T ss_pred cCCCCccCCCCCCceeeccCccHHHHHHHHHHHc--------cccCCCCCCCcCCeee
Confidence 445555443222 444 37999999999999953 1234579999998764
No 43
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.43 E-value=0.00026 Score=68.10 Aligned_cols=52 Identities=29% Similarity=0.692 Sum_probs=41.6
Q ss_pred cccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
....|.+|.+...+++...|.|.||..|+.... ++.- ......||+|...++
T Consensus 535 ~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv-----~~f~-~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDYIESSCHHKFCRLCIKEYV-----ESFM-ENNNVTCPVCHIGLS 586 (791)
T ss_pred CceeecccCChhhhhHhhhhhHHHHHHHHHHHH-----Hhhh-cccCCCCcccccccc
Confidence 568999999999999999999999999997763 2222 234589999987654
No 44
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.40 E-value=3.7e-05 Score=70.04 Aligned_cols=48 Identities=27% Similarity=0.661 Sum_probs=40.6
Q ss_pred cccccccccccCCCCCcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 228 LEYDLTCAVCLDLVFNPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 228 ~~~~~~C~IC~~~~~~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
+....+|.+|..++.++.+ +.|-|+||.+||.+++ .....||.|...+
T Consensus 12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l-----------~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYL-----------EESKYCPTCDIVI 60 (331)
T ss_pred cccceehhhccceeecchhHHHHHHHHHHHHHHHHH-----------HHhccCCccceec
Confidence 4567999999999999988 5699999999998874 2367899998665
No 45
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.34 E-value=9.1e-05 Score=70.64 Aligned_cols=49 Identities=39% Similarity=0.990 Sum_probs=41.7
Q ss_pred cccccccccccCCCCCcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 228 LEYDLTCAVCLDLVFNPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 228 ~~~~~~C~IC~~~~~~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
++.++.|++|..++.+|+. +.|||.||..|+..+. .....||.|+..+.
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~-----------~~~~~cp~~~~~~~ 67 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESL-----------SNHQKCPVCRQELT 67 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhh-----------ccCcCCcccccccc
Confidence 4678999999999999999 5999999999998773 23688999987654
No 46
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.31 E-value=0.00012 Score=68.17 Aligned_cols=55 Identities=22% Similarity=0.594 Sum_probs=41.8
Q ss_pred ccccccccccCCCCCcE-----e---ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCLDLVFNPY-----A---LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~-----~---l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..+..|.||++...++. . .+|.|.||..|+..|..+.+. .......||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~----~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQF----ESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhcc----ccccccCCCcccCccc
Confidence 46899999999888876 3 569999999999998543222 1234689999998654
No 47
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.31 E-value=0.00011 Score=66.04 Aligned_cols=45 Identities=29% Similarity=0.878 Sum_probs=38.3
Q ss_pred ccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 231 DLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
.+.|-||...+.+||.+.|||.||..|.... ......|++|.+..
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~-----------~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKP-----------YQKGEKCYVCSQQT 285 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccc-----------cccCCcceeccccc
Confidence 4779999999999999999999999998543 34668899998754
No 48
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.18 E-value=0.00018 Score=66.30 Aligned_cols=48 Identities=35% Similarity=0.785 Sum_probs=39.6
Q ss_pred ccccccccccCCCCCcEeccCCCc-ccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHL-FCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~-FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
+...+|-||+.-..+-+.+||.|. .|..|..... -....||+||+++.
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-----------~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-----------YQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHH-----------HhhcCCCccccchH
Confidence 357899999999999999999995 7999986641 24567999999874
No 49
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.15 E-value=0.00018 Score=64.71 Aligned_cols=44 Identities=41% Similarity=0.908 Sum_probs=37.5
Q ss_pred ccccccccCCCCCcEec-cCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccc
Q 022989 231 DLTCAVCLDLVFNPYAL-SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICRE 284 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l-~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~ 284 (289)
.+.||.|.-++.+|+.+ .|+|.||..||..++ ....+.||.|..
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al----------~dsDf~CpnC~r 318 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTAL----------LDSDFKCPNCSR 318 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhh----------hhccccCCCccc
Confidence 49999999999999988 589999999998764 235689999975
No 50
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.12 E-value=0.00018 Score=51.72 Aligned_cols=57 Identities=23% Similarity=0.506 Sum_probs=25.0
Q ss_pred ccccccccCCCC-C---cEe----ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 231 DLTCAVCLDLVF-N---PYA----LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 231 ~~~C~IC~~~~~-~---p~~----l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
+..|+||..... + |.. ..|+..|...||.+|+......+..-....+.||.|+.+++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 578999998654 2 333 16999999999999984221111111122367999998874
No 51
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.09 E-value=0.00024 Score=66.13 Aligned_cols=48 Identities=29% Similarity=0.726 Sum_probs=38.6
Q ss_pred cccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 232 LTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 232 ~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
.-|.||-+--.+-.+-+|||..|..|+..|- ....+..||.||..+.+
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ---------~sd~gq~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQ---------DSDEGQTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhc---------ccCCCCCCCceeeEecc
Confidence 4589999988887778999999999998872 12347889999988754
No 52
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.00018 Score=64.42 Aligned_cols=42 Identities=36% Similarity=0.885 Sum_probs=35.1
Q ss_pred ccccccccCCCCCcEeccCCCc-ccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 231 DLTCAVCLDLVFNPYALSCGHL-FCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l~CgH~-FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..-|.||++...+.+.|+|||. -|..|- .....||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CG---------------krm~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCG---------------KRMNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhc---------------cccccCchHHHHHH
Confidence 6789999999999999999995 588885 34458999998653
No 53
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=96.90 E-value=0.00051 Score=64.97 Aligned_cols=47 Identities=34% Similarity=0.590 Sum_probs=37.7
Q ss_pred cccccccccccCCCCCcE----eccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 228 LEYDLTCAVCLDLVFNPY----ALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 228 ~~~~~~C~IC~~~~~~p~----~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
+.+--+||||++.+..-+ ++.|.|+|-..|+..| ...+||+||-..+
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w-------------~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW-------------WDSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhc-------------ccCcChhhhhhcC
Confidence 346789999999888665 3579999999999887 4478999996544
No 54
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=96.60 E-value=0.00087 Score=63.18 Aligned_cols=33 Identities=36% Similarity=0.809 Sum_probs=30.2
Q ss_pred ccccccccccCCCCCcEeccCCCcccHHhHHHh
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHLFCKLCACSA 261 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~ 261 (289)
++++.||||...+.+|++++|+|+.|..|....
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~ 34 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNI 34 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhh
Confidence 578999999999999999999999999998543
No 55
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.44 E-value=0.0011 Score=61.33 Aligned_cols=44 Identities=32% Similarity=0.815 Sum_probs=34.7
Q ss_pred cccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
...-|.||.+-..+.+.++|||.-| |..-. .....||+||+.+.
T Consensus 304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs------------~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCS------------KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccceeeecCCcEEE--chHHH------------hhCCCCchhHHHHH
Confidence 5678999999999988999999866 65332 24456999998764
No 56
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.36 E-value=0.0016 Score=62.37 Aligned_cols=50 Identities=22% Similarity=0.505 Sum_probs=37.8
Q ss_pred ccccccccccCCCCC-----------------cEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 229 EYDLTCAVCLDLVFN-----------------PYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~-----------------p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
+...-|+||+....- -..+||-|.|...|+.+|+. .....||+||.++++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd----------~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMD----------TYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHh----------hhcccCCccCCCCCC
Confidence 456789999975431 12259999999999999963 345689999999875
No 57
>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=96.34 E-value=0.0025 Score=58.34 Aligned_cols=33 Identities=30% Similarity=0.559 Sum_probs=25.7
Q ss_pred cccccccccCC-CCCcEe----ccCCCcccHHhHHHhh
Q 022989 230 YDLTCAVCLDL-VFNPYA----LSCGHLFCKLCACSAA 262 (289)
Q Consensus 230 ~~~~C~IC~~~-~~~p~~----l~CgH~FC~~Cl~~~~ 262 (289)
++..||+|... +.+|.. .+|||.||..|+...+
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~ 39 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLF 39 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHh
Confidence 45789999983 446642 2699999999999876
No 58
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.17 E-value=0.0016 Score=66.63 Aligned_cols=51 Identities=27% Similarity=0.669 Sum_probs=39.2
Q ss_pred cccccccccccCCCC--C---cE--eccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 228 LEYDLTCAVCLDLVF--N---PY--ALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 228 ~~~~~~C~IC~~~~~--~---p~--~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
.....+|+||..++. + |- ...|.|-|...|+.+|++ .++...||+||..++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~---------Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFA---------SSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHH---------hcCCCCCCccccccc
Confidence 346689999997665 1 22 246999999999999975 357789999998764
No 59
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.98 E-value=0.0011 Score=66.47 Aligned_cols=47 Identities=26% Similarity=0.544 Sum_probs=37.4
Q ss_pred cccccccccCCCCCcEe---ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFNPYA---LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~---l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
....||+|+..+.+-.. ..|+|.||..|+..|- ....+||+||..+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs-----------R~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS-----------RCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh-----------hhcccCchhhhhhh
Confidence 56889999987666543 4799999999999883 35678999998764
No 60
>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=95.93 E-value=0.0082 Score=49.49 Aligned_cols=20 Identities=35% Similarity=0.826 Sum_probs=17.1
Q ss_pred cccccccccCCCCCcEeccC
Q 022989 230 YDLTCAVCLDLVFNPYALSC 249 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~C 249 (289)
++.+||||++...+.|.|-|
T Consensus 1 ed~~CpICme~PHNAVLLlC 20 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLC 20 (162)
T ss_pred CCccCceeccCCCceEEEEe
Confidence 36799999999999998744
No 61
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.89 E-value=0.0041 Score=42.10 Aligned_cols=46 Identities=26% Similarity=0.567 Sum_probs=35.7
Q ss_pred cccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 230 YDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
....|-.|...-...+.++|||..|..|+.- ..-..||.|..++..
T Consensus 6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~-------------~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPG-------------ERYNGCPFCGTPFEF 51 (55)
T ss_pred cceeEEEccccccccccccccceeeccccCh-------------hhccCCCCCCCcccC
Confidence 3456777777777778899999999999732 345679999998864
No 62
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.73 E-value=0.0037 Score=55.64 Aligned_cols=49 Identities=33% Similarity=0.726 Sum_probs=37.4
Q ss_pred cccccccccCCCCC----------cEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFN----------PYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~----------p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
++..|.||..-+.. -..++|+|.|.-.||.-|. ..+...+||.|.+.+.
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWc---------ivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWC---------IVGKKQTCPYCKEKVD 281 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhhe---------eecCCCCCchHHHHhh
Confidence 67889999875543 3458999999999998773 2345688999998763
No 63
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.72 E-value=0.0061 Score=56.23 Aligned_cols=48 Identities=21% Similarity=0.459 Sum_probs=39.5
Q ss_pred ccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
.++..||||.--..+.+..||+|.-|+.||.+++ -....|-.|...+.
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHl-----------mN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHL-----------MNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHH-----------hcCCeeeEecceee
Confidence 4678899999888888889999999999998874 35677888887654
No 64
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.67 E-value=0.009 Score=39.47 Aligned_cols=44 Identities=25% Similarity=0.694 Sum_probs=19.7
Q ss_pred cccccCCCCCc--Eec--cCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 234 CAVCLDLVFNP--YAL--SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 234 C~IC~~~~~~p--~~l--~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
||+|.+.+..- ... +||+.+|..|..... ......||-||++++
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~----------~~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDIL----------ENEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHT----------TSS-SB-TTT--B--
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHH----------hccCCCCCCCCCCCC
Confidence 78888866321 123 589999999987752 135789999998763
No 65
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.61 E-value=0.005 Score=62.50 Aligned_cols=45 Identities=33% Similarity=0.809 Sum_probs=36.5
Q ss_pred cccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 232 LTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 232 ~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
..|+||.+ ...++.+.|||.||..|+.... + ......||.||..+
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i-----~----~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSI-----Q----QSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhcc-----c----cccCCCCcHHHHHH
Confidence 89999999 8888889999999999997763 2 12334899999754
No 66
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=95.42 E-value=0.016 Score=38.55 Aligned_cols=42 Identities=24% Similarity=0.550 Sum_probs=31.4
Q ss_pred ccccccC--CCCCcEeccCC-----CcccHHhHHHhhhhHhHhcccCCCCCCcccccc
Q 022989 233 TCAVCLD--LVFNPYALSCG-----HLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283 (289)
Q Consensus 233 ~C~IC~~--~~~~p~~l~Cg-----H~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR 283 (289)
.|.||++ ...+|...||. |.+...|+.+|+. .++...||+|.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~---------~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWIN---------ESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHH---------HcCCCcCCCCC
Confidence 4889996 45567778885 6789999999963 13446899994
No 67
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.04 E-value=0.009 Score=54.08 Aligned_cols=32 Identities=28% Similarity=0.635 Sum_probs=28.7
Q ss_pred cccccccccCCCCCcEeccCCCcccHHhHHHh
Q 022989 230 YDLTCAVCLDLVFNPYALSCGHLFCKLCACSA 261 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~ 261 (289)
-.-.|+||+...--|+.+.|+|.||.-||.-.
T Consensus 6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGs 37 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGS 37 (324)
T ss_pred cCCcceeeeccCCcCccccccchhhhhhhcch
Confidence 35789999999999999999999999999765
No 68
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.27 E-value=0.034 Score=50.99 Aligned_cols=46 Identities=30% Similarity=0.552 Sum_probs=36.6
Q ss_pred ccccccccccCCCCCcEecc-CCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYALS-CGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~-CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
.+...||||+....+|..+. -|-.||..|+.... .....||+=.-+
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv-----------~~~~~CPVT~~p 344 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYV-----------VNYGHCPVTGYP 344 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHH-----------HhcCCCCccCCc
Confidence 36789999999999998876 59999999998764 255789875443
No 69
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.24 E-value=0.035 Score=48.94 Aligned_cols=47 Identities=23% Similarity=0.328 Sum_probs=38.5
Q ss_pred cccccccccCCCCCcEe----ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFNPYA----LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~----l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..+.||||.+.+.+.+. -+|||.||..|+.+.. .....||+|-.++.
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEkli-----------r~D~v~pv~d~plk 270 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLI-----------RKDMVDPVTDKPLK 270 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhc-----------cccccccCCCCcCc
Confidence 56899999999988643 3899999999998863 46678999987764
No 70
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.15 E-value=0.026 Score=52.05 Aligned_cols=48 Identities=29% Similarity=0.742 Sum_probs=37.7
Q ss_pred ccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
++...|-||..-+.-.-.+||+|..|.-|..+.. +......||+||..
T Consensus 59 Een~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlR---------ALY~~K~C~~CrTE 106 (493)
T COG5236 59 EENMNCQICAGSTTYSARYPCGHQICHACAVRLR---------ALYMQKGCPLCRTE 106 (493)
T ss_pred cccceeEEecCCceEEEeccCCchHHHHHHHHHH---------HHHhccCCCccccc
Confidence 5678999999877666678999999999986542 23456789999975
No 71
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.82 E-value=0.06 Score=48.57 Aligned_cols=48 Identities=21% Similarity=0.455 Sum_probs=36.0
Q ss_pred ccccccccccCCCCCc--E-e-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 229 EYDLTCAVCLDLVFNP--Y-A-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p--~-~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
...+.|||....+..- . . .+|||.|+..++... .....||+|..++..
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~------------k~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL------------KKSKKCPVCGKPFTE 162 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh------------cccccccccCCcccc
Confidence 4679999999888432 2 2 489999999999764 134569999998764
No 72
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.65 E-value=0.04 Score=50.61 Aligned_cols=45 Identities=33% Similarity=0.702 Sum_probs=36.2
Q ss_pred ccccccccccCCCCCcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
.+-+.||||.+.+..|+. =.=||.-|..|-.+ ....||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~--------------~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK--------------VSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCcccceecCCCcEehhhhhhh--------------hcccCCccccccc
Confidence 467999999999998865 24599999999732 4478999998875
No 73
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=93.58 E-value=0.036 Score=40.03 Aligned_cols=50 Identities=24% Similarity=0.548 Sum_probs=34.2
Q ss_pred cccccccccCCCCC-cEec-cCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFN-PYAL-SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~-p~~l-~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
.+-.||-|.-.-.+ |+.+ -|.|.|-.-||.+|.. ..+....||+||+..+
T Consensus 30 Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~--------~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 30 FDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLN--------TPTSQGQCPMCRQTWQ 81 (84)
T ss_pred cCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhc--------CccccccCCcchheeE
Confidence 45566666543332 4444 5999999999999842 3455688999998653
No 74
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.56 E-value=0.041 Score=51.90 Aligned_cols=51 Identities=27% Similarity=0.606 Sum_probs=36.1
Q ss_pred cccccccccCCCCCc---EeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccc
Q 022989 230 YDLTCAVCLDLVFNP---YALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p---~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR 283 (289)
..+.|.||++...-. +.+||+|.||..|+...+.+.+..+. ....+||-+.
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~---v~~l~Cp~~~ 236 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQ---VSCLKCPDPK 236 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcce---eeeecCCCCC
Confidence 468899999855542 23799999999999998865544432 3456776553
No 75
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.51 E-value=0.048 Score=51.27 Aligned_cols=50 Identities=30% Similarity=0.500 Sum_probs=35.4
Q ss_pred ccccccccccCCCC---CcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 229 EYDLTCAVCLDLVF---NPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 229 ~~~~~C~IC~~~~~---~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
..-+.|||=.+.-. .|+.+.|||..|..-+.+.. +.....++||.|....
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS--------~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLS--------KNGSQSFKCPYCPVEQ 384 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHh--------hCCCeeeeCCCCCccc
Confidence 45689998554332 46779999999999987752 2223358999997654
No 76
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=92.86 E-value=0.028 Score=56.53 Aligned_cols=51 Identities=29% Similarity=0.746 Sum_probs=40.5
Q ss_pred ccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
.-.++||||...+..|+.+.|-|.||..|+...+ .. ......||+|+..+.
T Consensus 19 ~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f-----~~---~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 19 QKILECPICLEHVKEPSLLKCDHIFLKFCLNKLF-----ES---KKGPKQCALCKSDIE 69 (684)
T ss_pred hhhccCCceeEEeeccchhhhhHHHHhhhhhcee-----ec---cCccccchhhhhhhh
Confidence 4579999999999999999999999999996653 11 123678999986553
No 77
>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=92.66 E-value=0.1 Score=34.87 Aligned_cols=48 Identities=29% Similarity=0.558 Sum_probs=23.1
Q ss_pred ccccccccCCCCCcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 231 DLTCAVCLDLVFNPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
.+.|||....+..|+. ..|.|.-|.+= ..+... .. ..+...||+|.++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~---~~---~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLES---NQ---RTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEH-HHHHHH---HH---HS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECH-HHHHHH---hh---ccCCeECcCCcCc
Confidence 4789999999999998 68999876542 222221 11 1345899999864
No 78
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=92.61 E-value=0.074 Score=42.63 Aligned_cols=49 Identities=20% Similarity=0.547 Sum_probs=39.8
Q ss_pred ccccccccCCCCCcEec----cCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 231 DLTCAVCLDLVFNPYAL----SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l----~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
-++|.||.+...+...+ -||-..|..|-...|. -...-+.||.|+.++.
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK--------~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWK--------FCNLYPVCPVCKTSFK 132 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHH--------HcccCCCCCccccccc
Confidence 48999999999998876 3899999999877653 2346689999998875
No 79
>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=92.31 E-value=0.037 Score=48.59 Aligned_cols=46 Identities=30% Similarity=0.603 Sum_probs=34.3
Q ss_pred cccccccccC-CCCCcEe----cc-CCCcccHHhHHHhhhhHhHhcccCCCCCCccc--ccccc
Q 022989 230 YDLTCAVCLD-LVFNPYA----LS-CGHLFCKLCACSAASVMVFEGLKSASPDSKCP--ICREE 285 (289)
Q Consensus 230 ~~~~C~IC~~-~~~~p~~----l~-CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP--~CR~~ 285 (289)
.+..||||.. .+-+|-+ -| |-|..|-+|+.+.++ .+...|| -|...
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs----------~GpAqCP~~gC~kI 62 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFS----------RGPAQCPYKGCGKI 62 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhc----------CCCCCCCCccHHHH
Confidence 4679999995 4446633 24 999999999999874 4778898 66543
No 80
>PHA03096 p28-like protein; Provisional
Probab=91.86 E-value=0.069 Score=48.72 Aligned_cols=32 Identities=19% Similarity=0.310 Sum_probs=24.6
Q ss_pred cccccccCCCCC-c-------EeccCCCcccHHhHHHhhh
Q 022989 232 LTCAVCLDLVFN-P-------YALSCGHLFCKLCACSAAS 263 (289)
Q Consensus 232 ~~C~IC~~~~~~-p-------~~l~CgH~FC~~Cl~~~~~ 263 (289)
-.|.||++.... | +...|.|.||..|+..|..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~ 218 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMT 218 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHH
Confidence 679999985553 2 1237999999999999864
No 81
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=91.78 E-value=0.095 Score=48.33 Aligned_cols=47 Identities=23% Similarity=0.719 Sum_probs=32.2
Q ss_pred cccccccccCCCCC--cEec--cCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFN--PYAL--SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~--p~~l--~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
+++ ||+|++.+.. .-.. +||-..|..|..... + .-.++||-||..+.
T Consensus 14 ed~-cplcie~mditdknf~pc~cgy~ic~fc~~~ir-----q-----~lngrcpacrr~y~ 64 (480)
T COG5175 14 EDY-CPLCIEPMDITDKNFFPCPCGYQICQFCYNNIR-----Q-----NLNGRCPACRRKYD 64 (480)
T ss_pred ccc-CcccccccccccCCcccCCcccHHHHHHHHHHH-----h-----hccCCChHhhhhcc
Confidence 445 9999986653 2223 688888999986541 1 23578999997654
No 82
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=91.60 E-value=0.076 Score=49.84 Aligned_cols=47 Identities=28% Similarity=0.573 Sum_probs=35.7
Q ss_pred cccccccccCCCCC-cE---eccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 230 YDLTCAVCLDLVFN-PY---ALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 230 ~~~~C~IC~~~~~~-p~---~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
-.+.|..|.+.+-. |- .+||.|+|...|+.+..- .....+||.||..
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~---------~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILE---------NNGTRSCPNCRKL 414 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHH---------hCCCCCCccHHHH
Confidence 46899999986652 22 379999999999987641 2467899999943
No 83
>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=90.95 E-value=0.82 Score=43.07 Aligned_cols=38 Identities=21% Similarity=0.470 Sum_probs=26.0
Q ss_pred CCCcccHHhHHHhhhhHhHhcccC--CCCCCccccccccc
Q 022989 249 CGHLFCKLCACSAASVMVFEGLKS--ASPDSKCPICREEL 286 (289)
Q Consensus 249 CgH~FC~~Cl~~~~~~~~~~~~~~--~~~~~~CP~CR~~~ 286 (289)
|....|..|+-+|+....-+..+. .++...||+||+.+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 667789999999985433222111 23568899999875
No 84
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.73 E-value=0.25 Score=43.16 Aligned_cols=56 Identities=27% Similarity=0.578 Sum_probs=39.6
Q ss_pred cccccccccCCCC--CcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 230 YDLTCAVCLDLVF--NPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 230 ~~~~C~IC~~~~~--~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
..--|..|...+. +.+.+-|-|.|.+.|+..+... +.. .....+..||.|.+++=+
T Consensus 49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~--lPa-nTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAAN--LPA-NTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhh--CCC-cCCCCcccCCCCCCccCC
Confidence 3466888887666 4566899999999999887531 111 123456889999988754
No 85
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.21 E-value=0.12 Score=47.20 Aligned_cols=43 Identities=30% Similarity=0.698 Sum_probs=27.9
Q ss_pred cccccccCCCCC-cEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 232 LTCAVCLDLVFN-PYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 232 ~~C~IC~~~~~~-p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
-.|.-|--.+.. -.+.+|.|.||..|... .....||.|-..|.
T Consensus 91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~-------------~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYGRMIPCKHVFCLECARS-------------DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCcceeeecccccchhhhhhhhhc-------------CccccCcCcccHHH
Confidence 345566432221 12469999999999742 23578999987664
No 86
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=89.90 E-value=0.14 Score=39.16 Aligned_cols=31 Identities=26% Similarity=0.495 Sum_probs=25.7
Q ss_pred ccccccccccCCCCCcEe--ccCCCcccHHhHH
Q 022989 229 EYDLTCAVCLDLVFNPYA--LSCGHLFCKLCAC 259 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~--l~CgH~FC~~Cl~ 259 (289)
.++..|++|...+.++.. .||||.|...|+.
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 456789999998887655 6999999999973
No 87
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=89.76 E-value=0.28 Score=35.79 Aligned_cols=45 Identities=24% Similarity=0.409 Sum_probs=31.6
Q ss_pred ccccccccCCCC----CcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 231 DLTCAVCLDLVF----NPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 231 ~~~C~IC~~~~~----~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
.-.|+-|+.-+. -|+. --|.|.|..-||.+|++ ....||++|+..
T Consensus 31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~-----------Tk~~CPld~q~w 80 (88)
T COG5194 31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLD-----------TKGVCPLDRQTW 80 (88)
T ss_pred cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHh-----------hCCCCCCCCcee
Confidence 455666665321 1333 36999999999999953 467899999864
No 88
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.69 E-value=0.078 Score=52.65 Aligned_cols=34 Identities=35% Similarity=0.815 Sum_probs=28.1
Q ss_pred cccccccccccCCCC----CcEeccCCCcccHHhHHHh
Q 022989 228 LEYDLTCAVCLDLVF----NPYALSCGHLFCKLCACSA 261 (289)
Q Consensus 228 ~~~~~~C~IC~~~~~----~p~~l~CgH~FC~~Cl~~~ 261 (289)
+.+-+.|+||+..+. .|+.+.|||+.|..|++..
T Consensus 8 w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l 45 (861)
T KOG3161|consen 8 WVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL 45 (861)
T ss_pred hHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhH
Confidence 346788999976554 6889999999999999765
No 89
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.56 E-value=0.2 Score=51.43 Aligned_cols=42 Identities=29% Similarity=0.706 Sum_probs=35.6
Q ss_pred cccccccccCCCCCcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 230 YDLTCAVCLDLVFNPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
....|..|...+.-|.. ..|||.|...|+. .....||.|+..
T Consensus 839 q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e--------------~~~~~CP~C~~e 881 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLPFVHFLCGHSYHQHCLE--------------DKEDKCPKCLPE 881 (933)
T ss_pred eeeeecccCCccccceeeeecccHHHHHhhc--------------cCcccCCccchh
Confidence 44789999999999977 7999999999983 256889999864
No 90
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.31 E-value=0.18 Score=43.96 Aligned_cols=39 Identities=31% Similarity=0.749 Sum_probs=30.4
Q ss_pred cccccCCCCCcEeccCCC-cccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 234 CAVCLDLVFNPYALSCGH-LFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 234 C~IC~~~~~~p~~l~CgH-~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
|-.|.+.-..-+.+||.| .+|..|- .+...||+|+.+..
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~---------------~~~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICD---------------ESLRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecccceEeccccc---------------ccCccCCCCcChhh
Confidence 999998777756689998 6899995 22567999997653
No 91
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.73 E-value=0.33 Score=45.92 Aligned_cols=33 Identities=36% Similarity=0.708 Sum_probs=27.9
Q ss_pred cccccccccCCCCCc-----EeccCCCcccHHhHHHhh
Q 022989 230 YDLTCAVCLDLVFNP-----YALSCGHLFCKLCACSAA 262 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p-----~~l~CgH~FC~~Cl~~~~ 262 (289)
...+||||++-+.-| +.+.|||.|-..|+.+|.
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl 40 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWL 40 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHH
Confidence 357899999977766 346899999999999997
No 92
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=87.56 E-value=0.38 Score=49.45 Aligned_cols=53 Identities=25% Similarity=0.495 Sum_probs=39.3
Q ss_pred ccccccccccCCCC--CcEe--ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 229 EYDLTCAVCLDLVF--NPYA--LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 229 ~~~~~C~IC~~~~~--~p~~--l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
...++|.||.+.+. .|+- ..|-|.|-..||.+|++..+ +.......||.|+..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~e----k~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSE----KTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhh----hccCccccCCcccch
Confidence 35699999999765 3432 36889999999999986522 223467899999843
No 93
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.99 E-value=0.38 Score=45.91 Aligned_cols=47 Identities=28% Similarity=0.555 Sum_probs=31.1
Q ss_pred ccccccccc-CCCCCcE---eccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccc
Q 022989 230 YDLTCAVCL-DLVFNPY---ALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPI 281 (289)
Q Consensus 230 ~~~~C~IC~-~~~~~p~---~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~ 281 (289)
...+|.||. +...... +..|+|.||..|+.+++.+. ...+....||.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~-----~~~~~~~~C~~ 195 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK-----LLSGTVIRCPH 195 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh-----hccCCCccCCC
Confidence 368899999 4433322 35799999999999886432 11345567764
No 94
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.69 E-value=0.56 Score=42.98 Aligned_cols=51 Identities=27% Similarity=0.527 Sum_probs=35.8
Q ss_pred ccccccccccccCCCC---CcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 227 KLEYDLTCAVCLDLVF---NPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 227 ~~~~~~~C~IC~~~~~---~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
....-+.||+=.+... .|+++.|||..-..-+...- +.+...++||.|...
T Consensus 332 hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS--------~nG~~~FKCPYCP~~ 385 (396)
T COG5109 332 HFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLS--------QNGVLSFKCPYCPEM 385 (396)
T ss_pred cccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHh--------hcCcEEeeCCCCCcc
Confidence 4456789998554333 47889999999888876541 223456899999754
No 95
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.78 E-value=1 Score=40.74 Aligned_cols=32 Identities=25% Similarity=0.653 Sum_probs=27.7
Q ss_pred cccccccccCCCCCcEeccC----CCcccHHhHHHh
Q 022989 230 YDLTCAVCLDLVFNPYALSC----GHLFCKLCACSA 261 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~C----gH~FC~~Cl~~~ 261 (289)
..+.|.+|.+.+.|-....| .|-||..|-.+.
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSRes 302 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRES 302 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHH
Confidence 56999999999999888877 599999997665
No 96
>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=82.54 E-value=0.54 Score=37.94 Aligned_cols=32 Identities=25% Similarity=0.626 Sum_probs=25.4
Q ss_pred ccccccccCCCCC--cEe-ccCC------CcccHHhHHHhh
Q 022989 231 DLTCAVCLDLVFN--PYA-LSCG------HLFCKLCACSAA 262 (289)
Q Consensus 231 ~~~C~IC~~~~~~--p~~-l~Cg------H~FC~~Cl~~~~ 262 (289)
..+|.||++.+.+ -++ ++|| |.||..|+.+|.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 6899999998777 444 5665 679999999983
No 97
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=82.35 E-value=1.6 Score=36.20 Aligned_cols=47 Identities=23% Similarity=0.378 Sum_probs=34.2
Q ss_pred cccccccccCCCCCcEeccCCCc-----ccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 230 YDLTCAVCLDLVFNPYALSCGHL-----FCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH~-----FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
.+-.|-||.+... +...||... ...+|+.+|.+ .++...|+.|..++
T Consensus 7 ~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~---------~s~~~~CeiC~~~Y 58 (162)
T PHA02825 7 MDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWIN---------TSKNKSCKICNGPY 58 (162)
T ss_pred CCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHh---------cCCCCcccccCCeE
Confidence 5678999998754 344566542 27899999964 24678899999875
No 98
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.64 E-value=1.1 Score=39.78 Aligned_cols=33 Identities=18% Similarity=0.128 Sum_probs=29.4
Q ss_pred cccccccccCCCCCcEeccCCCcccHHhHHHhh
Q 022989 230 YDLTCAVCLDLVFNPYALSCGHLFCKLCACSAA 262 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~ 262 (289)
..-.|++|++.+.+|+..+=||.||..||.+.+
T Consensus 42 ~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 42 PFDCCSLTLQPCRDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred CcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence 456789999999999999999999999997654
No 99
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=79.95 E-value=1.4 Score=48.21 Aligned_cols=54 Identities=28% Similarity=0.630 Sum_probs=36.4
Q ss_pred ccccccccccC--CCCCc-EeccCCCcccHHhHHHhhhhHhHhcccCCC----CCCcccccccccc
Q 022989 229 EYDLTCAVCLD--LVFNP-YALSCGHLFCKLCACSAASVMVFEGLKSAS----PDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~~--~~~~p-~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~----~~~~CP~CR~~~~ 287 (289)
..+-.|-||.. +-..| +.+.|+|.|...|..+.. +..+... +...||+|..++.
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vL-----E~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVL-----ENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHH-----HhcccCCeeEEeeeecccccchhh
Confidence 45678999985 22234 458999999999987653 2222222 2468999988763
No 100
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.12 E-value=1.4 Score=42.82 Aligned_cols=33 Identities=30% Similarity=0.704 Sum_probs=27.7
Q ss_pred cccccccccCCCCC-cEeccCCCcccHHhHHHhh
Q 022989 230 YDLTCAVCLDLVFN-PYALSCGHLFCKLCACSAA 262 (289)
Q Consensus 230 ~~~~C~IC~~~~~~-p~~l~CgH~FC~~Cl~~~~ 262 (289)
...+|.||.+.+.. .+.+.|||.||..|+....
T Consensus 69 ~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl 102 (444)
T KOG1815|consen 69 GDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYL 102 (444)
T ss_pred ccccCCcccCCCcchhhhcCCCcHHHHHHHHHHh
Confidence 57899999998875 5557999999999998764
No 101
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=78.64 E-value=0.28 Score=52.48 Aligned_cols=48 Identities=31% Similarity=0.710 Sum_probs=37.2
Q ss_pred cccccccccccccCCCC-CcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccc
Q 022989 226 IKLEYDLTCAVCLDLVF-NPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICRE 284 (289)
Q Consensus 226 ~~~~~~~~C~IC~~~~~-~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~ 284 (289)
.++.....|+||.+.+. .-.+..|||.+|..|...|. .....||.|..
T Consensus 1148 ~~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l-----------~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1148 MNLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWL-----------YASSRCPICKS 1196 (1394)
T ss_pred HHhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHH-----------HHhccCcchhh
Confidence 34456679999999998 44568999999999998874 24567888863
No 102
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.11 E-value=1.7 Score=36.69 Aligned_cols=58 Identities=17% Similarity=0.415 Sum_probs=34.2
Q ss_pred cccccccccCCCCCcEe-------ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFNPYA-------LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~-------l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
+..-|.||.-+--+-.+ ..||..|..-|+..|++...-.+..-.--.+.||.|..++.
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 34567788643322211 37999999999999974221111000011367999998874
No 103
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.57 E-value=1.6 Score=41.18 Aligned_cols=32 Identities=28% Similarity=0.615 Sum_probs=23.5
Q ss_pred ccccccccCCCCCcEe---c-cCCCcccHHhHHHhh
Q 022989 231 DLTCAVCLDLVFNPYA---L-SCGHLFCKLCACSAA 262 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~---l-~CgH~FC~~Cl~~~~ 262 (289)
.-.|.||.+....-.- + .|||+|...|+..|+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwf 39 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWF 39 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHH
Confidence 3579999665443221 2 499999999999996
No 104
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=77.24 E-value=0.81 Score=41.71 Aligned_cols=58 Identities=21% Similarity=0.444 Sum_probs=35.3
Q ss_pred cccccccccCCCC-Cc--EeccCCCcccHHhHHHhhhh------------HhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVF-NP--YALSCGHLFCKLCACSAASV------------MVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~-~p--~~l~CgH~FC~~Cl~~~~~~------------~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
....|.||+--|. .| +.++|-|-|...|+.+++-. .++-+.-.......||+||..+.
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 3567888887554 34 34799999999998665310 11111111223456999998764
No 105
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=76.47 E-value=1.4 Score=40.03 Aligned_cols=42 Identities=29% Similarity=0.802 Sum_probs=31.8
Q ss_pred cccccccCCCC----CcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccc
Q 022989 232 LTCAVCLDLVF----NPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICRE 284 (289)
Q Consensus 232 ~~C~IC~~~~~----~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~ 284 (289)
.-||||.+.++ .|..++|||..-..|+.... ..+ ..||+|..
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~----------~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMI----------CEG-YTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHh----------ccC-CCCCcccc
Confidence 44999998665 34557999999899987652 134 99999977
No 106
>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=74.25 E-value=4.3 Score=26.05 Aligned_cols=40 Identities=23% Similarity=0.522 Sum_probs=21.1
Q ss_pred cccccCCCCCcEe-c--cCCCcccHHhHHHhhhhHhHhcccCCCCCCccccc
Q 022989 234 CAVCLDLVFNPYA-L--SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPIC 282 (289)
Q Consensus 234 C~IC~~~~~~p~~-l--~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~C 282 (289)
|.+|.++...-+. . .|+-.+...|+...++ ......||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r---------~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFR---------HRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTT---------T-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHh---------cCCCCCCcCC
Confidence 6678887776665 2 5888888999988753 1233479987
No 107
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=73.85 E-value=2.7 Score=38.87 Aligned_cols=49 Identities=24% Similarity=0.628 Sum_probs=34.9
Q ss_pred cccccccccCCCCC--cEe--ccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccCC
Q 022989 230 YDLTCAVCLDLVFN--PYA--LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAGN 289 (289)
Q Consensus 230 ~~~~C~IC~~~~~~--p~~--l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~~ 289 (289)
-.-.||||.+.... -.. .+||+..|..|+... ..+...||.||.++..|
T Consensus 248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~-----------~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTI-----------SDGDGRCPGCRKPYERN 300 (327)
T ss_pred cCCCCCCCCCcccccccccccccccccchhhhhhcc-----------cccCCCCCccCCccccC
Confidence 34789999986632 222 368888899998554 35778999999776543
No 108
>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=72.93 E-value=0.31 Score=34.80 Aligned_cols=40 Identities=28% Similarity=0.624 Sum_probs=21.2
Q ss_pred cccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 232 LTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 232 ~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
+.||.|...+. ..=+|-+|..|-... .....||.|.+++.
T Consensus 2 ~~CP~C~~~L~----~~~~~~~C~~C~~~~------------~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELE----WQGGHYHCEACQKDY------------KKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEE----EETTEEEETTT--EE------------EEEEE-TTT-SB-E
T ss_pred CcCCCCCCccE----EeCCEEECccccccc------------eecccCCCcccHHH
Confidence 67999987533 222788888887442 34577999987764
No 109
>PHA02862 5L protein; Provisional
Probab=72.92 E-value=3.8 Score=33.52 Aligned_cols=45 Identities=20% Similarity=0.421 Sum_probs=32.4
Q ss_pred cccccccCCCCCcEeccCCC-----cccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 232 LTCAVCLDLVFNPYALSCGH-----LFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 232 ~~C~IC~~~~~~p~~l~CgH-----~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
-.|=||.+.-.+. ..||.. -....|+.+|.. .++...||.|+.++
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn---------~S~k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWIN---------YSKKKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHh---------cCCCcCccCCCCeE
Confidence 4688999876544 456643 236899999952 35778999999875
No 110
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.74 E-value=2.3 Score=38.84 Aligned_cols=32 Identities=31% Similarity=0.664 Sum_probs=24.9
Q ss_pred ccccccccCCCC------CcEeccCCCcccHHhHHHhh
Q 022989 231 DLTCAVCLDLVF------NPYALSCGHLFCKLCACSAA 262 (289)
Q Consensus 231 ~~~C~IC~~~~~------~p~~l~CgH~FC~~Cl~~~~ 262 (289)
...|-||-+.+. .|..+.|||++|..|+....
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~ 40 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLL 40 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHh
Confidence 357888876655 47778899999999997764
No 111
>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=71.45 E-value=2.4 Score=27.87 Aligned_cols=33 Identities=30% Similarity=0.730 Sum_probs=21.8
Q ss_pred EeccCC-CcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 245 YALSCG-HLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 245 ~~l~Cg-H~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
-...|. |-.|..|+.... +....||+|..+++.
T Consensus 14 ~Li~C~dHYLCl~CLt~ml-----------~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 14 GLIKCSDHYLCLNCLTLML-----------SRSDRCPICGKPLPT 47 (50)
T ss_dssp SEEE-SS-EEEHHHHHHT------------SSSSEETTTTEE---
T ss_pred CeeeecchhHHHHHHHHHh-----------ccccCCCcccCcCcc
Confidence 345775 888999997763 577899999988764
No 112
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.30 E-value=1.7 Score=39.46 Aligned_cols=38 Identities=21% Similarity=0.544 Sum_probs=24.2
Q ss_pred CCCcccHHhHHHhhhhHhHhccc--CCCCCCccccccccc
Q 022989 249 CGHLFCKLCACSAASVMVFEGLK--SASPDSKCPICREEL 286 (289)
Q Consensus 249 CgH~FC~~Cl~~~~~~~~~~~~~--~~~~~~~CP~CR~~~ 286 (289)
|....|.+|+.+|+.....+..+ -..+...||.||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 45567899999987432221111 134678999999865
No 113
>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=68.82 E-value=6.5 Score=30.43 Aligned_cols=34 Identities=35% Similarity=0.537 Sum_probs=23.8
Q ss_pred CCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 250 GHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 250 gH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
.-.||..||...+.....+.. ......||.||..
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~--~~~~W~CP~Crgi 70 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVL--EDPNWKCPKCRGI 70 (105)
T ss_pred cceehHhHHHHHHhhhHHHHh--cCCceECCCCCCe
Confidence 667999999887754333333 2456899999863
No 114
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=65.40 E-value=4 Score=31.38 Aligned_cols=27 Identities=26% Similarity=0.555 Sum_probs=22.4
Q ss_pred cCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 248 SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 248 ~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
.|.|.|..-||.+|.+ ....||+|...
T Consensus 80 ~CNHaFH~hCisrWlk-----------tr~vCPLdn~e 106 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLK-----------TRNVCPLDNKE 106 (114)
T ss_pred ecchHHHHHHHHHHHh-----------hcCcCCCcCcc
Confidence 6999999999999953 55789999754
No 115
>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=62.16 E-value=4.9 Score=26.86 Aligned_cols=14 Identities=36% Similarity=0.916 Sum_probs=10.3
Q ss_pred CCCCcccccccccc
Q 022989 274 SPDSKCPICREELA 287 (289)
Q Consensus 274 ~~~~~CP~CR~~~~ 287 (289)
.....||+|...+.
T Consensus 29 ~~~v~CPiC~~~~~ 42 (54)
T PF05605_consen 29 SKNVVCPICSSRVT 42 (54)
T ss_pred CCCccCCCchhhhh
Confidence 34678999987654
No 116
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=62.02 E-value=3.2 Score=36.73 Aligned_cols=29 Identities=28% Similarity=0.902 Sum_probs=19.6
Q ss_pred cccccccCCC-CCcEe-ccCCCcccHHhHHH
Q 022989 232 LTCAVCLDLV-FNPYA-LSCGHLFCKLCACS 260 (289)
Q Consensus 232 ~~C~IC~~~~-~~p~~-l~CgH~FC~~Cl~~ 260 (289)
..|-.|.... .+|.. +.|+|.||..|...
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~ 34 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKA 34 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhccc
Confidence 4566666533 34444 68999999999743
No 117
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.01 E-value=3.8 Score=33.02 Aligned_cols=53 Identities=28% Similarity=0.560 Sum_probs=27.8
Q ss_pred ccccccccccCCCCCcEeccCCCcccHHhHHHhh-hhHhHhcccCCCCCCcccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAA-SVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~-~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
.++-+|.||+..-+. -.|||. |..|-.+.- +-......++......|..|+..
T Consensus 63 ~ddatC~IC~KTKFA---DG~GH~-C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 63 GDDATCGICHKTKFA---DGCGHN-CSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred CcCcchhhhhhcccc---cccCcc-cchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 367899999975432 368883 444432221 11111122333344668888753
No 118
>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=55.96 E-value=8 Score=29.10 Aligned_cols=36 Identities=28% Similarity=0.867 Sum_probs=27.4
Q ss_pred ccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 231 DLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
.-.|-||-..+..| ||.||..|.. ....|.+|...+
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAY---------------kkGiCamCGKki 79 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAY---------------KKGICAMCGKKI 79 (90)
T ss_pred CccccccccccccC-----CCccChhhhc---------------ccCcccccCCee
Confidence 46899998755543 8899999962 446899998766
No 119
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.65 E-value=9.9 Score=34.00 Aligned_cols=45 Identities=20% Similarity=0.370 Sum_probs=33.2
Q ss_pred cccccccccCCCCCcEe----ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFNPYA----LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~----l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..+.|||-.-.+..-.. .+|||.|-..-+.+. ....|++|.+.++
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei-------------kas~C~~C~a~y~ 158 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI-------------KASVCHVCGAAYQ 158 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh-------------hhccccccCCccc
Confidence 46899987665555433 389999988877553 3578999998875
No 120
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=55.08 E-value=6.3 Score=41.07 Aligned_cols=35 Identities=29% Similarity=0.652 Sum_probs=27.4
Q ss_pred cccccccccccCCC-CCcEe-ccCCCcccHHhHHHhh
Q 022989 228 LEYDLTCAVCLDLV-FNPYA-LSCGHLFCKLCACSAA 262 (289)
Q Consensus 228 ~~~~~~C~IC~~~~-~~p~~-l~CgH~FC~~Cl~~~~ 262 (289)
++..-.|.+|...+ ..|-. .+|||.|...|+.+..
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHH
Confidence 45678899999744 45654 6999999999997764
No 121
>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=53.70 E-value=7.4 Score=22.20 Aligned_cols=9 Identities=44% Similarity=0.733 Sum_probs=4.8
Q ss_pred ccccccCCC
Q 022989 233 TCAVCLDLV 241 (289)
Q Consensus 233 ~C~IC~~~~ 241 (289)
.||-|...+
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 366665544
No 122
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=53.69 E-value=6.3 Score=25.72 Aligned_cols=40 Identities=28% Similarity=0.580 Sum_probs=22.1
Q ss_pred cccccCCCC--CcEeccCCC-----cccHHhHHHhhhhHhHhcccCCCCCCccccc
Q 022989 234 CAVCLDLVF--NPYALSCGH-----LFCKLCACSAASVMVFEGLKSASPDSKCPIC 282 (289)
Q Consensus 234 C~IC~~~~~--~p~~l~CgH-----~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~C 282 (289)
|-||++.-. +|...||+- .....|+.+|... ++...|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~---------~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRE---------SGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHH---------HT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHh---------cCCCcCCCC
Confidence 567776433 256777753 3467899999631 345668887
No 123
>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=52.43 E-value=4.4 Score=37.46 Aligned_cols=43 Identities=28% Similarity=0.496 Sum_probs=25.0
Q ss_pred ccccccccCCCCCcEec----cCC--CcccHHhHHHhhhhHhHhcccCCCCCCccccccc
Q 022989 231 DLTCAVCLDLVFNPYAL----SCG--HLFCKLCACSAASVMVFEGLKSASPDSKCPICRE 284 (289)
Q Consensus 231 ~~~C~IC~~~~~~p~~l----~Cg--H~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~ 284 (289)
.-.||||.....-.+.. .=| +.+|..|-..|. -....||.|..
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~-----------~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWH-----------YVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccc-----------ccCccCCCCCC
Confidence 45788888755433221 123 456777776662 24466888864
No 124
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=52.38 E-value=7.8 Score=39.99 Aligned_cols=51 Identities=18% Similarity=0.166 Sum_probs=32.0
Q ss_pred cccccccccCCCCCcEe----c---cCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 230 YDLTCAVCLDLVFNPYA----L---SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~----l---~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
+.-+|++|..-+.+|+- . .|+|.||..||..|. +++........|+.|...
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~-----DqL~~~~k~c~H~FC~~C 152 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCN-----DQLEESEKHTAHYFCEEC 152 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHH-----HHhhccccccccccHHHH
Confidence 34566666655555321 2 499999999999985 334333445567777543
No 125
>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=50.44 E-value=3.1 Score=37.99 Aligned_cols=45 Identities=24% Similarity=0.379 Sum_probs=21.1
Q ss_pred cccccccccCCCCCcEecc-----CCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 230 YDLTCAVCLDLVFNPYALS-----CGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~-----CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
..-.||||.....-.+... -.+.+|..|-..|. -....||.|...
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~-----------~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWR-----------FVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE-------------TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeee-----------ecCCCCcCCCCC
Confidence 4579999998655443332 23567999988772 244679999753
No 126
>PF15616 TerY-C: TerY-C metal binding domain
Probab=45.70 E-value=11 Score=30.39 Aligned_cols=42 Identities=29% Similarity=0.529 Sum_probs=30.0
Q ss_pred cccccccccccCCCCCcEeccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 228 LEYDLTCAVCLDLVFNPYALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 228 ~~~~~~C~IC~~~~~~p~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
|...-.||-|.....=.+ =.||+.||.. ......||-|....
T Consensus 74 L~g~PgCP~CGn~~~fa~-C~CGkl~Ci~----------------g~~~~~CPwCg~~g 115 (131)
T PF15616_consen 74 LIGAPGCPHCGNQYAFAV-CGCGKLFCID----------------GEGEVTCPWCGNEG 115 (131)
T ss_pred hcCCCCCCCCcChhcEEE-ecCCCEEEeC----------------CCCCEECCCCCCee
Confidence 445588999998644322 3799999973 24678999998754
No 127
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.59 E-value=14 Score=26.57 Aligned_cols=24 Identities=38% Similarity=0.721 Sum_probs=17.9
Q ss_pred CCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 250 GHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 250 gH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
.|+||..|.... -...||.|...+
T Consensus 28 EcTFCadCae~~-------------l~g~CPnCGGel 51 (84)
T COG3813 28 ECTFCADCAENR-------------LHGLCPNCGGEL 51 (84)
T ss_pred eeehhHhHHHHh-------------hcCcCCCCCchh
Confidence 479999998643 346799998654
No 128
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=43.96 E-value=9.4 Score=35.35 Aligned_cols=44 Identities=25% Similarity=0.562 Sum_probs=26.1
Q ss_pred cccccccccCCCCCcEe-c--cCC--CcccHHhHHHhhhhHhHhcccCCCCCCccccccc
Q 022989 230 YDLTCAVCLDLVFNPYA-L--SCG--HLFCKLCACSAASVMVFEGLKSASPDSKCPICRE 284 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~-l--~Cg--H~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~ 284 (289)
..-.||||.....-.+. . .=| +.+|..|-..|. -....||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~-----------~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWH-----------VVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccc-----------ccCccCCCCCC
Confidence 45788888876543332 1 223 355777876662 24466888864
No 129
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=42.86 E-value=21 Score=37.09 Aligned_cols=50 Identities=26% Similarity=0.499 Sum_probs=37.1
Q ss_pred cccccccccc--CCCCCcEeccCCCc-----ccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 229 EYDLTCAVCL--DLVFNPYALSCGHL-----FCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 229 ~~~~~C~IC~--~~~~~p~~l~CgH~-----FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
+++.+|.||. +...+|..-||..+ ...+|+-+|.. .++..+|-+|..+++
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~---------~s~~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWME---------CSGTKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHh---------cCCCcceeeecceee
Confidence 4668999987 35667887888654 36889988852 467789999987653
No 130
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=41.68 E-value=40 Score=24.64 Aligned_cols=49 Identities=22% Similarity=0.515 Sum_probs=19.0
Q ss_pred cccccccccCCCC-----CcEe--ccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 230 YDLTCAVCLDLVF-----NPYA--LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 230 ~~~~C~IC~~~~~-----~p~~--l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
..-.|.||.+.+- ++-. ..|+-..|..|..- +.. .+...||-|+.++..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEY-------Erk---eg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEY-------ERK---EGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHH-------HHH---TS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHH-------Hhh---cCcccccccCCCccc
Confidence 4578999987554 2222 26888889999843 222 467889999987653
No 131
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=41.47 E-value=32 Score=23.46 Aligned_cols=43 Identities=30% Similarity=0.595 Sum_probs=25.8
Q ss_pred ccccccCCCCCc--EeccCC--CcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 233 TCAVCLDLVFNP--YALSCG--HLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 233 ~C~IC~~~~~~p--~~l~Cg--H~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
.|-.|-..+... -..-|. .+||..|.... -...||.|...+.+
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~-------------l~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETM-------------LNGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHH-------------hcCcCcCCCCcccc
Confidence 355555433321 223454 48999998654 14679999877643
No 132
>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=34.27 E-value=13 Score=25.88 Aligned_cols=32 Identities=19% Similarity=0.459 Sum_probs=16.4
Q ss_pred cccccccccCCCCCcEe----ccCCCcccHHhHHHh
Q 022989 230 YDLTCAVCLDLVFNPYA----LSCGHLFCKLCACSA 261 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~----l~CgH~FC~~Cl~~~ 261 (289)
+...|.+|...|.--.. -.||+.||..|....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 45789999987742111 379999999998544
No 133
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=33.95 E-value=18 Score=37.06 Aligned_cols=52 Identities=27% Similarity=0.643 Sum_probs=33.2
Q ss_pred cccccccccCCCCCcEe----------ccCCCcc--------------------cHHhHHHhhhhHhHhcccCCCCCCcc
Q 022989 230 YDLTCAVCLDLVFNPYA----------LSCGHLF--------------------CKLCACSAASVMVFEGLKSASPDSKC 279 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~----------l~CgH~F--------------------C~~Cl~~~~~~~~~~~~~~~~~~~~C 279 (289)
+--.|+-|+..+.+|-. +.||..| |..|....-.. ...+=......|
T Consensus 100 D~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP---~nRRfHAQp~aC 176 (750)
T COG0068 100 DAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDP---LNRRFHAQPIAC 176 (750)
T ss_pred chhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCc---cccccccccccC
Confidence 56789999988887722 4688877 99998664210 001113345789
Q ss_pred ccccc
Q 022989 280 PICRE 284 (289)
Q Consensus 280 P~CR~ 284 (289)
|.|.=
T Consensus 177 p~CGP 181 (750)
T COG0068 177 PKCGP 181 (750)
T ss_pred cccCC
Confidence 99963
No 134
>PRK04023 DNA polymerase II large subunit; Validated
Probab=33.02 E-value=24 Score=37.63 Aligned_cols=46 Identities=22% Similarity=0.471 Sum_probs=31.0
Q ss_pred cccccccccCCCCCcEeccCCC-----cccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 230 YDLTCAVCLDLVFNPYALSCGH-----LFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~l~CgH-----~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
....|+-|........-..||. .||..|-.. .....||.|.....+
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~~-------------~~~y~CPKCG~El~~ 675 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGIE-------------VEEDECEKCGREPTP 675 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCCCCcceeCccccCc-------------CCCCcCCCCCCCCCc
Confidence 4568999988654333356884 489999422 244679999887654
No 135
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.96 E-value=19 Score=35.06 Aligned_cols=47 Identities=23% Similarity=0.476 Sum_probs=27.1
Q ss_pred CcEeccCCCcccHHhHHHhhhhHhH--------------hc-ccCCCCCCccccccccccCC
Q 022989 243 NPYALSCGHLFCKLCACSAASVMVF--------------EG-LKSASPDSKCPICREELAGN 289 (289)
Q Consensus 243 ~p~~l~CgH~FC~~Cl~~~~~~~~~--------------~~-~~~~~~~~~CP~CR~~~~~~ 289 (289)
.++.=.|||.||..|...|.+...- +. .+.......||.|-.++.+|
T Consensus 178 ~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~~iek~ 239 (444)
T KOG1815|consen 178 VEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKVPIEKD 239 (444)
T ss_pred cceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCcccchhcc
Confidence 3444579999999998665421100 00 00123445699998877654
No 136
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=31.15 E-value=24 Score=31.68 Aligned_cols=22 Identities=18% Similarity=0.431 Sum_probs=15.2
Q ss_pred cccccccCCCC-CcEecc--CCCcc
Q 022989 232 LTCAVCLDLVF-NPYALS--CGHLF 253 (289)
Q Consensus 232 ~~C~IC~~~~~-~p~~l~--CgH~F 253 (289)
+.||+|...+. .+..+. .||+|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 78999998775 233444 47888
No 137
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.61 E-value=23 Score=33.81 Aligned_cols=31 Identities=29% Similarity=0.641 Sum_probs=21.0
Q ss_pred ccccccccCCCC-----CcEeccCCCcccHHhHHHh
Q 022989 231 DLTCAVCLDLVF-----NPYALSCGHLFCKLCACSA 261 (289)
Q Consensus 231 ~~~C~IC~~~~~-----~p~~l~CgH~FC~~Cl~~~ 261 (289)
-..||.|.-.+. +-++=.|||-||+.|...|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~ 341 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDW 341 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcch
Confidence 466887775443 2233259999999998665
No 138
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=29.96 E-value=37 Score=31.53 Aligned_cols=36 Identities=33% Similarity=0.704 Sum_probs=0.0
Q ss_pred CCCcccHHhHH---------------------------------HhhhhHhHhcccCCCCCCccccccccccCC
Q 022989 249 CGHLFCKLCAC---------------------------------SAASVMVFEGLKSASPDSKCPICREELAGN 289 (289)
Q Consensus 249 CgH~FC~~Cl~---------------------------------~~~~~~~~~~~~~~~~~~~CP~CR~~~~~~ 289 (289)
||-.||..|.+ ..++...+.. ....||.|+.+..+|
T Consensus 342 Cgf~FCR~C~e~yh~geC~~~~~as~t~tc~y~vde~~a~~arwd~as~~TIk~-----tTkpCPkChvptErn 410 (446)
T KOG0006|consen 342 CGFAFCRECKEAYHEGECSAVFEASGTTTCAYRVDERAAEQARWDAASKETIKK-----TTKPCPKCHVPTERN 410 (446)
T ss_pred chhHhHHHHHhhhccccceeeeccccccceeeecChhhhhhhhhhhhhhhhhhh-----ccCCCCCccCccccC
No 139
>PF15389 DUF4612: Domain of unknown function (DUF4612)
Probab=29.86 E-value=38 Score=26.64 Aligned_cols=18 Identities=17% Similarity=0.198 Sum_probs=14.2
Q ss_pred hhhchhHHHHHHHHHHHH
Q 022989 72 CQLCDHMFFSELMKEASD 89 (289)
Q Consensus 72 ~~~~~~~Ff~~L~~El~k 89 (289)
+..-..+||++||.-|++
T Consensus 87 iS~SQqdFFRMLDeKIek 104 (115)
T PF15389_consen 87 ISESQQDFFRMLDEKIEK 104 (115)
T ss_pred hhHHHHHHHHHHHHHHHc
Confidence 344567999999998876
No 140
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=28.82 E-value=52 Score=18.93 Aligned_cols=18 Identities=17% Similarity=0.492 Sum_probs=14.9
Q ss_pred ccCCccchHHHHHHHHhc
Q 022989 20 DKCSHVEYKRLKKVLKSC 37 (289)
Q Consensus 20 ~~~~yi~Yk~LKk~ik~~ 37 (289)
+..-||+|++++.+++++
T Consensus 12 d~dG~I~~~Ef~~~~~~L 29 (29)
T PF00036_consen 12 DGDGKIDFEEFKEMMKKL 29 (29)
T ss_dssp TSSSEEEHHHHHHHHHHT
T ss_pred CCCCcCCHHHHHHHHHhC
Confidence 466799999999998863
No 141
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=28.78 E-value=73 Score=21.58 Aligned_cols=31 Identities=19% Similarity=0.355 Sum_probs=24.1
Q ss_pred cccccccccCCC--CCcEe--ccCCCcccHHhHHH
Q 022989 230 YDLTCAVCLDLV--FNPYA--LSCGHLFCKLCACS 260 (289)
Q Consensus 230 ~~~~C~IC~~~~--~~p~~--l~CgH~FC~~Cl~~ 260 (289)
....|++|.+.+ .+.+. ..||-.+...|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 356899999988 56665 47999999999743
No 142
>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=28.48 E-value=24 Score=34.77 Aligned_cols=12 Identities=33% Similarity=0.445 Sum_probs=6.1
Q ss_pred ccccccccCCCC
Q 022989 231 DLTCAVCLDLVF 242 (289)
Q Consensus 231 ~~~C~IC~~~~~ 242 (289)
...||-|++.+.
T Consensus 26 ~~yCp~CL~~~p 37 (483)
T PF05502_consen 26 SYYCPNCLFEVP 37 (483)
T ss_pred eeECccccccCC
Confidence 455555554443
No 143
>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=28.44 E-value=64 Score=21.54 Aligned_cols=25 Identities=28% Similarity=0.685 Sum_probs=13.4
Q ss_pred cCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccc
Q 022989 248 SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283 (289)
Q Consensus 248 ~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR 283 (289)
.|++.||..|=.= ....--.||-|-
T Consensus 26 ~C~~~FC~dCD~f-----------iHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDVF-----------IHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHHT-----------TTTTS-SSSTT-
T ss_pred CCCCccccCcChh-----------hhccccCCcCCC
Confidence 6889999999421 134556798873
No 144
>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=28.30 E-value=47 Score=23.46 Aligned_cols=16 Identities=19% Similarity=0.249 Sum_probs=10.6
Q ss_pred cccHHhHHHhhhhHhH
Q 022989 252 LFCKLCACSAASVMVF 267 (289)
Q Consensus 252 ~FC~~Cl~~~~~~~~~ 267 (289)
.||..|+.+|....+.
T Consensus 11 gFCRNCLskWy~~aA~ 26 (68)
T PF06844_consen 11 GFCRNCLSKWYREAAE 26 (68)
T ss_dssp S--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5999999999854444
No 145
>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=27.90 E-value=42 Score=22.16 Aligned_cols=30 Identities=23% Similarity=0.614 Sum_probs=19.5
Q ss_pred cccccccCCCCCc----EeccCCCcccHHhHHHh
Q 022989 232 LTCAVCLDLVFNP----YALSCGHLFCKLCACSA 261 (289)
Q Consensus 232 ~~C~IC~~~~~~p----~~l~CgH~FC~~Cl~~~ 261 (289)
..|.+|...|.-- .-..||+.||..|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 4577776544321 11479999999998544
No 146
>PF13097 CENP-U: CENP-A nucleosome associated complex (NAC) subunit
Probab=27.68 E-value=3.8e+02 Score=22.73 Aligned_cols=37 Identities=32% Similarity=0.251 Sum_probs=27.7
Q ss_pred HhhhhhcHHHHHHHHHHHHHHHHhhHHHHHHHhhhhh
Q 022989 118 RQCFKNDQTAMIEEGRVLIEYIIMNAIAIRKILKKYD 154 (289)
Q Consensus 118 ~~~~~~~~~~~~~e~~~L~~f~~lN~~~~~kilkK~d 154 (289)
...+......++.+..+|.+...=|.-.+..|=||..
T Consensus 137 ~~~~keqL~~~i~evq~lK~lkrkNakv~~~i~kkrq 173 (175)
T PF13097_consen 137 YSNFKEQLIEMIKEVQELKNLKRKNAKVISDINKKRQ 173 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3334444567888889999999999988888887753
No 147
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=27.61 E-value=30 Score=21.20 Aligned_cols=13 Identities=23% Similarity=0.761 Sum_probs=8.6
Q ss_pred CCCCccccccccc
Q 022989 274 SPDSKCPICREEL 286 (289)
Q Consensus 274 ~~~~~CP~CR~~~ 286 (289)
+...+||.|+..+
T Consensus 23 ~~~vrC~~C~~~f 35 (37)
T PF13719_consen 23 GRKVRCPKCGHVF 35 (37)
T ss_pred CcEEECCCCCcEe
Confidence 4567788887654
No 148
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.57 E-value=31 Score=27.68 Aligned_cols=21 Identities=24% Similarity=0.491 Sum_probs=13.1
Q ss_pred cccCCCCCcEeccCCCcccHH
Q 022989 236 VCLDLVFNPYALSCGHLFCKL 256 (289)
Q Consensus 236 IC~~~~~~p~~l~CgH~FC~~ 256 (289)
||++.-..-+.-.|||+||..
T Consensus 62 i~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEecccccEEEEeccccccCh
Confidence 555543332335899999975
No 149
>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=26.41 E-value=21 Score=23.76 Aligned_cols=12 Identities=33% Similarity=0.911 Sum_probs=6.2
Q ss_pred CccccccccccC
Q 022989 277 SKCPICREELAG 288 (289)
Q Consensus 277 ~~CP~CR~~~~~ 288 (289)
..||+|..+++.
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 399999988753
No 150
>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 PF14353 CpXC: CpXC protein
Probab=26.31 E-value=51 Score=25.96 Aligned_cols=12 Identities=25% Similarity=0.706 Sum_probs=9.2
Q ss_pred CCCccccccccc
Q 022989 275 PDSKCPICREEL 286 (289)
Q Consensus 275 ~~~~CP~CR~~~ 286 (289)
....||.|...+
T Consensus 37 ~~~~CP~Cg~~~ 48 (128)
T PF14353_consen 37 FSFTCPSCGHKF 48 (128)
T ss_pred CEEECCCCCCce
Confidence 457899998765
No 152
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=26.05 E-value=42 Score=28.18 Aligned_cols=12 Identities=33% Similarity=0.872 Sum_probs=8.6
Q ss_pred CCCCcccccccc
Q 022989 274 SPDSKCPICREE 285 (289)
Q Consensus 274 ~~~~~CP~CR~~ 285 (289)
.....||+|..+
T Consensus 147 e~P~~CPiCga~ 158 (166)
T COG1592 147 EAPEVCPICGAP 158 (166)
T ss_pred CCCCcCCCCCCh
Confidence 356789999764
No 153
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=25.43 E-value=47 Score=30.79 Aligned_cols=44 Identities=11% Similarity=-0.084 Sum_probs=32.5
Q ss_pred ccccccccccCCCCCcEeccCCCc-ccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYALSCGHL-FCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~l~CgH~-FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
-..+.|-+|..-+-.-+-.+|+|+ ||.+|.. .+....||+|-..
T Consensus 341 ~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~-------------~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 341 MSSLKGTSAGFGLLSTIWSGGNMNLSPGSLAS-------------ASASPTSSTCDHN 385 (394)
T ss_pred hhhcccccccCceeeeEeecCCcccChhhhhh-------------cccCCcccccccc
Confidence 356789899886665556799995 8999974 2456889999654
No 154
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=25.03 E-value=17 Score=21.41 Aligned_cols=29 Identities=28% Similarity=0.691 Sum_probs=14.2
Q ss_pred CCcccHHhHHHhhhhHhHhcccCCCCCCcccccccc
Q 022989 250 GHLFCKLCACSAASVMVFEGLKSASPDSKCPICREE 285 (289)
Q Consensus 250 gH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~ 285 (289)
.|.||..|=.... .........||.|...
T Consensus 2 ~~rfC~~CG~~t~-------~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 2 NHRFCGRCGAPTK-------PAPGGWARRCPSCGHE 30 (32)
T ss_dssp TTSB-TTT--BEE-------E-SSSS-EEESSSS-E
T ss_pred CCcccCcCCcccc-------CCCCcCEeECCCCcCE
Confidence 3778888864431 1122345789998753
No 155
>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=24.62 E-value=34 Score=35.44 Aligned_cols=52 Identities=25% Similarity=0.499 Sum_probs=32.7
Q ss_pred cccccccccCCCCCcEe----------ccCCCcc--------------------cHHhHHHhhhhHhHhcccCCCCCCcc
Q 022989 230 YDLTCAVCLDLVFNPYA----------LSCGHLF--------------------CKLCACSAASVMVFEGLKSASPDSKC 279 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~----------l~CgH~F--------------------C~~Cl~~~~~~~~~~~~~~~~~~~~C 279 (289)
+--.|+-|+..+.+|.- +.||..| |..|....... ...+-......|
T Consensus 67 D~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p---~~rr~h~~~~~C 143 (711)
T TIGR00143 67 DVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDP---LDRRFHAQPIAC 143 (711)
T ss_pred chhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCC---ccccCCCCCccC
Confidence 56788888888877631 4677776 88888775310 111223345778
Q ss_pred ccccc
Q 022989 280 PICRE 284 (289)
Q Consensus 280 P~CR~ 284 (289)
|.|.=
T Consensus 144 ~~Cgp 148 (711)
T TIGR00143 144 PRCGP 148 (711)
T ss_pred CCCCc
Confidence 88863
No 156
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=24.59 E-value=42 Score=31.12 Aligned_cols=12 Identities=33% Similarity=1.027 Sum_probs=9.2
Q ss_pred CCCCcccccccc
Q 022989 274 SPDSKCPICREE 285 (289)
Q Consensus 274 ~~~~~CP~CR~~ 285 (289)
.....||+||..
T Consensus 339 ~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 339 QRERECPMCRVV 350 (429)
T ss_pred cccCcCCeeeee
Confidence 346889999964
No 157
>PLN02189 cellulose synthase
Probab=23.91 E-value=59 Score=35.02 Aligned_cols=48 Identities=23% Similarity=0.587 Sum_probs=33.6
Q ss_pred cccccccccCCCC-----CcEe--ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVF-----NPYA--LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~-----~p~~--l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
....|.||.+.+. +|-. -.|+-..|..|.+- +. ..+...||-|++.+.
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyey-------er---~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEY-------ER---REGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhh-------hh---hcCCccCcccCCchh
Confidence 3468999998755 2222 24788889999842 22 257789999998875
No 158
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=23.73 E-value=43 Score=30.43 Aligned_cols=58 Identities=17% Similarity=0.358 Sum_probs=31.9
Q ss_pred cccccccccCCCCC-c--------EeccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFN-P--------YALSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~-p--------~~l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
-...|++|-..+.. | -.++|...+|..=+.+-|=.+.-.+.......+.||.|+..+.
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFA 226 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFA 226 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhc
Confidence 34677777764442 2 1246777777766654432222222233345688888887653
No 159
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=23.62 E-value=19 Score=24.19 Aligned_cols=14 Identities=36% Similarity=0.878 Sum_probs=11.7
Q ss_pred cCCCcccHHhHHHh
Q 022989 248 SCGHLFCKLCACSA 261 (289)
Q Consensus 248 ~CgH~FC~~Cl~~~ 261 (289)
.|++.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 68999999997655
No 160
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=23.55 E-value=35 Score=31.30 Aligned_cols=54 Identities=30% Similarity=0.522 Sum_probs=32.1
Q ss_pred ccccccccccCCCCCcEe-----ccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 229 EYDLTCAVCLDLVFNPYA-----LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 229 ~~~~~C~IC~~~~~~p~~-----l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
.+...|.+|.-..+.... -.||++||..|-...+.+ . .-..+....|+.|-..+
T Consensus 166 ~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l---~-~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 166 SEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLL---P-NLSTKPIRVCDICFEEL 224 (288)
T ss_pred ccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccc---c-ccCCCCceecHHHHHHH
Confidence 466889999885443322 279999999997543211 0 11112234788886554
No 161
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=22.56 E-value=60 Score=35.12 Aligned_cols=48 Identities=25% Similarity=0.647 Sum_probs=33.7
Q ss_pred cccccccccCCCCC-----cEe--ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFN-----PYA--LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~-----p~~--l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..-.|.||.+.+.- |-. -.||-..|..|-+ ++. ..+...||-|++.+.
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-------YEr---~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-------YER---KDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhh-------hhh---hcCCccCCccCCchh
Confidence 34689999986542 322 3688889999973 232 257789999998875
No 162
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=22.36 E-value=51 Score=33.74 Aligned_cols=52 Identities=23% Similarity=0.498 Sum_probs=33.7
Q ss_pred cccccccccccCCCCCcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccc
Q 022989 228 LEYDLTCAVCLDLVFNPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREEL 286 (289)
Q Consensus 228 ~~~~~~C~IC~~~~~~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~ 286 (289)
+.-.+.|||+.-.+.-|.. ..|+|.-|..-. +- -......+...||+|-...
T Consensus 303 ~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~---~~----lq~n~~~pTW~CPVC~~~~ 355 (636)
T KOG2169|consen 303 LRVSLNCPLSKMRMSLPARGHTCKHLQCFDAL---SY----LQMNEQKPTWRCPVCQKAA 355 (636)
T ss_pred ceeEecCCcccceeecCCcccccccceecchh---hh----HHhccCCCeeeCccCCccc
Confidence 4567999999877776655 678886665443 21 1122245778999997653
No 163
>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=21.93 E-value=16 Score=23.72 Aligned_cols=47 Identities=26% Similarity=0.480 Sum_probs=25.3
Q ss_pred ccccccCCCCCcEec---cCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccc
Q 022989 233 TCAVCLDLVFNPYAL---SCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICRE 284 (289)
Q Consensus 233 ~C~IC~~~~~~p~~l---~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~ 284 (289)
.|+||...-.+-.++ .|+..|...|+...... .........||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~-----~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKA-----EEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSH-----HSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhh-----ccCCCCcEECcCCcC
Confidence 377787733322222 57777778887433210 011123688998863
No 164
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=21.72 E-value=47 Score=29.83 Aligned_cols=45 Identities=16% Similarity=0.360 Sum_probs=32.1
Q ss_pred cccccccccCCCCCcEe-ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccc
Q 022989 230 YDLTCAVCLDLVFNPYA-LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICR 283 (289)
Q Consensus 230 ~~~~C~IC~~~~~~p~~-l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR 283 (289)
-+++|||=...+.+|++ ..|||.|=..-+.... . ......||+-.
T Consensus 175 fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l------~---~~~~i~CPv~g 220 (262)
T KOG2979|consen 175 FSNRDPISKKPIVNPVISKKCGHVYDRDSIMQIL------C---DEITIRCPVLG 220 (262)
T ss_pred hcccCchhhhhhhchhhhcCcCcchhhhhHHHHh------c---cCceeeccccc
Confidence 46899998888889987 6899999887775542 1 12456777643
No 165
>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=21.49 E-value=48 Score=30.32 Aligned_cols=16 Identities=38% Similarity=0.874 Sum_probs=14.1
Q ss_pred cCCCcccHHhHHHhhh
Q 022989 248 SCGHLFCKLCACSAAS 263 (289)
Q Consensus 248 ~CgH~FC~~Cl~~~~~ 263 (289)
+|||+.|-+|+...++
T Consensus 22 ~C~H~lCEsCvd~iF~ 37 (300)
T KOG3800|consen 22 ECGHRLCESCVDRIFS 37 (300)
T ss_pred cccchHHHHHHHHHHh
Confidence 8999999999987764
No 166
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.48 E-value=22 Score=32.29 Aligned_cols=44 Identities=32% Similarity=0.690 Sum_probs=30.1
Q ss_pred ccccccccCCCC------CcEecc--------CCCcccHHhHHHhhhhHhHhcccCCCCCCccccccc
Q 022989 231 DLTCAVCLDLVF------NPYALS--------CGHLFCKLCACSAASVMVFEGLKSASPDSKCPICRE 284 (289)
Q Consensus 231 ~~~C~IC~~~~~------~p~~l~--------CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~ 284 (289)
...|.||...+. .|..+. |||+.|..|+..... .....||.|+.
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~----------~~~~~cp~~~~ 264 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILL----------QAGIKCPFCTW 264 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHH----------HhhhcCCcccc
Confidence 355667765444 355556 999999999977532 12288999986
No 167
>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=20.85 E-value=44 Score=21.09 Aligned_cols=11 Identities=27% Similarity=0.745 Sum_probs=8.7
Q ss_pred CCCCccccccc
Q 022989 274 SPDSKCPICRE 284 (289)
Q Consensus 274 ~~~~~CP~CR~ 284 (289)
.....||.|+.
T Consensus 24 ~~~~~CP~Cg~ 34 (42)
T PF09723_consen 24 DDPVPCPECGS 34 (42)
T ss_pred CCCCcCCCCCC
Confidence 35678999987
No 168
>PLN02436 cellulose synthase A
Probab=20.83 E-value=74 Score=34.44 Aligned_cols=48 Identities=25% Similarity=0.616 Sum_probs=33.4
Q ss_pred cccccccccCCCCC-----cEe--ccCCCcccHHhHHHhhhhHhHhcccCCCCCCcccccccccc
Q 022989 230 YDLTCAVCLDLVFN-----PYA--LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELA 287 (289)
Q Consensus 230 ~~~~C~IC~~~~~~-----p~~--l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~ 287 (289)
..-.|.||.+.+.. |-. -.|+-..|..|.+- +. ..+...||-|++.+.
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyey-------er---~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEY-------ER---REGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhh-------hh---hcCCccCcccCCchh
Confidence 34689999987542 222 25788899999842 22 256789999998875
No 169
>PLN02400 cellulose synthase
Probab=20.78 E-value=73 Score=34.51 Aligned_cols=49 Identities=22% Similarity=0.524 Sum_probs=34.2
Q ss_pred cccccccccCCCCC-----cEe--ccCCCcccHHhHHHhhhhHhHhcccCCCCCCccccccccccC
Q 022989 230 YDLTCAVCLDLVFN-----PYA--LSCGHLFCKLCACSAASVMVFEGLKSASPDSKCPICREELAG 288 (289)
Q Consensus 230 ~~~~C~IC~~~~~~-----p~~--l~CgH~FC~~Cl~~~~~~~~~~~~~~~~~~~~CP~CR~~~~~ 288 (289)
..-.|.||.+.+-- |-. -.|+-..|..|-+ +++ ..+...||-|+..+.+
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-------YER---keGnq~CPQCkTrYkR 90 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-------YER---KDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhh-------eec---ccCCccCcccCCcccc
Confidence 34689999986542 322 3688889999973 222 2567899999988763
No 170
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=20.70 E-value=7.2e+02 Score=25.73 Aligned_cols=91 Identities=15% Similarity=0.233 Sum_probs=54.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH------------Hhhh---hHHHHHHHHHhhhhhcHHHHHHHHHHHHHHHHh
Q 022989 77 HMFFSELMKEASDIAGCFSSRARHLLHL------------HVAS---GMQRYVLRIRQCFKNDQTAMIEEGRVLIEYIIM 141 (289)
Q Consensus 77 ~~Ff~~L~~El~kv~~f~~~r~~~l~~~------------~~~~---~~~~~~~~~~~~~~~~~~~~~~e~~~L~~f~~l 141 (289)
.+.....+.|+++...+=.+++.+|+.. |... ..++++.-+...-..+...++.....+.+++.=
T Consensus 289 ~d~I~~ve~Ev~Rl~qlK~s~mKeli~k~r~Eleel~~~~h~s~~~e~~~~f~~~~~ds~~~d~~ell~~~d~~i~k~ke 368 (660)
T KOG4302|consen 289 LDIIEQVEKEVDRLEQLKASNMKELIEKKRSELEELWRLLHYSEENESRRRFITYLIDSGTEDVLELLENIDNLIKKYKE 368 (660)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHH
Confidence 3456667788888888777776665542 1111 111111111111112234455555667888888
Q ss_pred hHHHHHHHhhhhhhhhccccCccchh
Q 022989 142 NAIAIRKILKKYDKVHKSVNGKNFKS 167 (289)
Q Consensus 142 N~~~~~kilkK~dk~~~~~~~~~~~~ 167 (289)
++..+-.||.+.+++.+......|..
T Consensus 369 ea~srk~il~~ve~W~sa~EeE~~le 394 (660)
T KOG4302|consen 369 EALSRKEILERVEKWESACEEESWLE 394 (660)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHh
Confidence 88899999999999988766666544
No 171
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=20.18 E-value=45 Score=20.23 Aligned_cols=12 Identities=17% Similarity=0.465 Sum_probs=8.6
Q ss_pred CCCccccccccc
Q 022989 275 PDSKCPICREEL 286 (289)
Q Consensus 275 ~~~~CP~CR~~~ 286 (289)
....||.|...+
T Consensus 24 ~~v~C~~C~~~~ 35 (38)
T TIGR02098 24 GKVRCGKCGHVW 35 (38)
T ss_pred CEEECCCCCCEE
Confidence 356788887765
No 172
>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=20.12 E-value=88 Score=18.19 Aligned_cols=10 Identities=30% Similarity=0.541 Sum_probs=6.3
Q ss_pred cccccCCCCC
Q 022989 234 CAVCLDLVFN 243 (289)
Q Consensus 234 C~IC~~~~~~ 243 (289)
|+.|.+.+..
T Consensus 2 C~~C~~~i~~ 11 (39)
T smart00132 2 CAGCGKPIRG 11 (39)
T ss_pred ccccCCcccC
Confidence 6667665554
Done!