Query 046929
Match_columns 231
No_of_seqs 247 out of 1672
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 05:56:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046929.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046929hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 3.4E-17 7.3E-22 103.5 1.5 44 179-222 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.6 1.2E-15 2.7E-20 134.3 3.9 49 179-227 230-279 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 4.9E-14 1.1E-18 98.6 3.6 46 177-222 18-73 (73)
4 COG5243 HRD1 HRD ubiquitin lig 99.4 2E-13 4.4E-18 119.6 3.5 58 173-230 282-349 (491)
5 PHA02929 N1R/p28-like protein; 99.3 7.9E-13 1.7E-17 111.8 5.0 73 153-227 151-228 (238)
6 PF12861 zf-Apc11: Anaphase-pr 99.3 8E-13 1.7E-17 93.8 3.4 54 176-229 19-85 (85)
7 COG5540 RING-finger-containing 99.3 1.1E-12 2.4E-17 112.3 2.6 51 176-226 321-372 (374)
8 KOG0320 Predicted E3 ubiquitin 99.3 8.1E-12 1.8E-16 99.7 6.0 55 173-228 126-180 (187)
9 PF13920 zf-C3HC4_3: Zinc fing 99.2 3.9E-12 8.4E-17 82.5 2.9 46 178-226 2-48 (50)
10 KOG0823 Predicted E3 ubiquitin 99.2 4.2E-12 9E-17 105.4 3.4 53 174-229 43-98 (230)
11 PLN03208 E3 ubiquitin-protein 99.2 8.6E-12 1.9E-16 101.7 4.9 52 174-228 14-81 (193)
12 PF13923 zf-C3HC4_2: Zinc fing 99.2 6.7E-12 1.4E-16 77.1 2.3 39 181-221 1-39 (39)
13 cd00162 RING RING-finger (Real 99.2 2.3E-11 5E-16 75.8 3.8 44 180-225 1-45 (45)
14 KOG0317 Predicted E3 ubiquitin 99.2 1.4E-11 3.1E-16 105.1 3.6 53 173-228 234-286 (293)
15 PF15227 zf-C3HC4_4: zinc fing 99.1 6.5E-11 1.4E-15 73.9 2.6 38 181-221 1-42 (42)
16 PF14634 zf-RING_5: zinc-RING 99.1 1.2E-10 2.6E-15 73.4 3.2 44 180-223 1-44 (44)
17 smart00504 Ubox Modified RING 99.0 3.1E-10 6.7E-15 76.6 4.5 47 179-228 2-48 (63)
18 PHA02926 zinc finger-like prot 99.0 2.7E-10 5.8E-15 94.2 3.5 52 176-227 168-231 (242)
19 PF00097 zf-C3HC4: Zinc finger 99.0 3.2E-10 6.8E-15 70.2 2.8 39 181-221 1-41 (41)
20 COG5194 APC11 Component of SCF 99.0 4.4E-10 9.6E-15 78.0 3.1 53 178-230 20-85 (88)
21 smart00184 RING Ring finger. E 99.0 7E-10 1.5E-14 66.7 3.4 38 181-221 1-39 (39)
22 KOG0802 E3 ubiquitin ligase [P 98.9 2.4E-10 5.2E-15 108.2 2.0 52 174-225 287-340 (543)
23 KOG1493 Anaphase-promoting com 98.9 3.2E-10 6.9E-15 78.0 -0.2 53 177-229 19-84 (84)
24 TIGR00599 rad18 DNA repair pro 98.8 2.5E-09 5.4E-14 96.8 3.9 52 173-227 21-72 (397)
25 COG5574 PEX10 RING-finger-cont 98.7 7.3E-09 1.6E-13 87.6 2.6 51 176-229 213-265 (271)
26 PF13445 zf-RING_UBOX: RING-ty 98.7 1.2E-08 2.6E-13 63.8 2.4 38 181-219 1-43 (43)
27 smart00744 RINGv The RING-vari 98.6 5.4E-08 1.2E-12 62.7 3.1 42 180-222 1-49 (49)
28 PF11793 FANCL_C: FANCL C-term 98.5 1.4E-08 3E-13 70.4 0.0 52 178-229 2-69 (70)
29 KOG2164 Predicted E3 ubiquitin 98.5 5.1E-08 1.1E-12 89.3 3.0 49 178-229 186-239 (513)
30 PF04564 U-box: U-box domain; 98.5 9.3E-08 2E-12 66.8 2.5 49 177-228 3-52 (73)
31 KOG2930 SCF ubiquitin ligase, 98.4 7.7E-08 1.7E-12 70.1 1.4 55 175-229 43-111 (114)
32 KOG0828 Predicted E3 ubiquitin 98.4 1.1E-07 2.3E-12 86.7 1.9 52 175-226 568-634 (636)
33 KOG1734 Predicted RING-contain 98.4 5.9E-08 1.3E-12 82.3 -0.0 56 173-228 219-283 (328)
34 KOG0287 Postreplication repair 98.3 1.8E-07 3.9E-12 81.7 1.2 49 175-226 20-68 (442)
35 COG5219 Uncharacterized conser 98.3 2E-07 4.3E-12 90.5 0.6 55 173-227 1464-1524(1525)
36 COG5432 RAD18 RING-finger-cont 98.2 6E-07 1.3E-11 77.0 2.1 48 176-226 23-70 (391)
37 KOG2177 Predicted E3 ubiquitin 98.2 6.2E-07 1.4E-11 76.8 1.6 48 173-223 8-55 (386)
38 KOG1039 Predicted E3 ubiquitin 98.1 1.7E-06 3.8E-11 77.0 2.7 53 176-228 159-223 (344)
39 KOG4265 Predicted E3 ubiquitin 98.0 3.6E-06 7.9E-11 74.3 3.0 48 176-226 288-336 (349)
40 PF14835 zf-RING_6: zf-RING of 97.9 2.5E-06 5.5E-11 57.3 0.4 49 177-229 6-54 (65)
41 KOG0804 Cytoplasmic Zn-finger 97.9 6.3E-06 1.4E-10 74.6 2.8 52 173-226 170-222 (493)
42 KOG0311 Predicted E3 ubiquitin 97.8 2E-06 4.4E-11 75.7 -2.1 51 176-228 41-92 (381)
43 KOG4172 Predicted E3 ubiquitin 97.8 5.7E-06 1.2E-10 53.6 0.2 46 178-226 7-54 (62)
44 KOG1952 Transcription factor N 97.7 3.4E-05 7.4E-10 74.6 4.0 50 173-222 186-243 (950)
45 KOG0825 PHD Zn-finger protein 97.7 6.6E-06 1.4E-10 78.8 -0.9 50 176-225 121-170 (1134)
46 KOG0978 E3 ubiquitin ligase in 97.6 2.5E-05 5.5E-10 74.9 1.6 51 176-229 641-692 (698)
47 PF11789 zf-Nse: Zinc-finger o 97.6 3.2E-05 7E-10 51.3 1.6 44 175-220 8-53 (57)
48 KOG1428 Inhibitor of type V ad 97.5 7.2E-05 1.6E-09 75.8 2.9 53 174-226 3482-3544(3738)
49 KOG0297 TNF receptor-associate 97.4 7.8E-05 1.7E-09 68.1 2.4 52 175-228 18-69 (391)
50 KOG4445 Uncharacterized conser 97.4 4.3E-05 9.3E-10 66.1 -0.1 54 176-229 113-189 (368)
51 KOG4159 Predicted E3 ubiquitin 97.3 0.00016 3.4E-09 65.8 3.1 48 176-226 82-129 (398)
52 COG5152 Uncharacterized conser 97.3 0.00012 2.5E-09 60.0 1.9 48 176-226 194-241 (259)
53 KOG1785 Tyrosine kinase negati 97.3 0.0001 2.2E-09 66.1 1.2 47 179-228 370-418 (563)
54 KOG4692 Predicted E3 ubiquitin 97.2 0.00029 6.3E-09 62.3 3.3 51 173-226 417-467 (489)
55 PF12906 RINGv: RING-variant d 97.2 0.00018 4E-09 45.8 1.6 40 181-221 1-47 (47)
56 KOG2879 Predicted E3 ubiquitin 97.1 0.00042 9.1E-09 59.4 3.7 52 173-226 234-287 (298)
57 KOG2660 Locus-specific chromos 97.1 0.00011 2.5E-09 64.3 -0.1 50 174-225 11-60 (331)
58 KOG1941 Acetylcholine receptor 97.0 0.0002 4.3E-09 64.1 0.6 48 176-223 363-413 (518)
59 KOG1813 Predicted E3 ubiquitin 96.9 0.00029 6.2E-09 61.0 1.0 46 178-226 241-286 (313)
60 KOG3039 Uncharacterized conser 96.9 0.00073 1.6E-08 57.1 3.2 53 177-229 220-273 (303)
61 PF05883 Baculo_RING: Baculovi 96.9 0.00029 6.3E-09 54.4 0.6 35 178-212 26-66 (134)
62 PHA02825 LAP/PHD finger-like p 96.9 0.00093 2E-08 53.0 3.4 51 174-228 4-61 (162)
63 PHA02862 5L protein; Provision 96.8 0.00072 1.6E-08 52.7 2.3 49 178-228 2-55 (156)
64 KOG1002 Nucleotide excision re 96.8 0.00068 1.5E-08 62.9 2.2 55 173-230 531-590 (791)
65 PF14570 zf-RING_4: RING/Ubox 96.6 0.0014 3.1E-08 41.7 2.3 44 181-225 1-47 (48)
66 PF14447 Prok-RING_4: Prokaryo 96.6 0.0011 2.3E-08 43.3 1.3 48 177-229 6-53 (55)
67 KOG3268 Predicted E3 ubiquitin 96.4 0.0026 5.6E-08 51.3 2.8 57 174-230 161-232 (234)
68 KOG0801 Predicted E3 ubiquitin 96.3 0.0012 2.6E-08 52.4 0.2 33 173-205 172-204 (205)
69 PF04641 Rtf2: Rtf2 RING-finge 96.2 0.0057 1.2E-07 52.9 3.9 55 174-229 109-164 (260)
70 KOG3970 Predicted E3 ubiquitin 96.1 0.005 1.1E-07 51.5 3.3 51 175-226 47-105 (299)
71 PF10367 Vps39_2: Vacuolar sor 96.0 0.003 6.5E-08 46.6 1.5 35 174-209 74-108 (109)
72 KOG4275 Predicted E3 ubiquitin 95.8 0.0016 3.5E-08 56.3 -1.2 43 177-226 299-342 (350)
73 COG5236 Uncharacterized conser 95.7 0.0098 2.1E-07 52.8 3.5 51 173-226 56-108 (493)
74 KOG1571 Predicted E3 ubiquitin 95.7 0.0063 1.4E-07 54.1 2.3 48 173-226 300-347 (355)
75 PHA03096 p28-like protein; Pro 95.7 0.0059 1.3E-07 53.4 2.0 44 179-222 179-230 (284)
76 PF03854 zf-P11: P-11 zinc fin 95.7 0.0023 4.9E-08 40.4 -0.5 35 194-228 13-48 (50)
77 KOG1814 Predicted E3 ubiquitin 95.3 0.0095 2.1E-07 53.9 2.0 47 177-223 183-237 (445)
78 PF08746 zf-RING-like: RING-li 95.2 0.01 2.2E-07 37.0 1.2 41 181-221 1-43 (43)
79 COG5222 Uncharacterized conser 94.6 0.019 4E-07 50.1 1.8 47 179-227 275-323 (427)
80 KOG1940 Zn-finger protein [Gen 94.6 0.019 4.2E-07 49.8 1.8 46 178-223 158-204 (276)
81 KOG0827 Predicted E3 ubiquitin 94.5 0.002 4.4E-08 57.7 -4.5 51 177-227 195-246 (465)
82 KOG0826 Predicted E3 ubiquitin 94.3 0.039 8.5E-07 48.6 3.2 54 173-228 295-348 (357)
83 KOG2114 Vacuolar assembly/sort 93.8 0.03 6.4E-07 55.0 1.5 42 178-224 840-881 (933)
84 KOG2817 Predicted E3 ubiquitin 93.4 0.069 1.5E-06 48.3 3.1 48 177-224 333-383 (394)
85 KOG3002 Zn finger protein [Gen 93.3 0.048 1E-06 48.1 2.0 46 174-226 44-91 (299)
86 KOG2932 E3 ubiquitin ligase in 93.3 0.033 7.3E-07 48.7 1.0 44 179-226 91-134 (389)
87 COG5175 MOT2 Transcriptional r 93.0 0.081 1.8E-06 47.0 2.8 54 173-226 9-64 (480)
88 COG5183 SSM4 Protein involved 92.8 0.092 2E-06 51.5 3.2 53 176-229 10-69 (1175)
89 KOG1001 Helicase-like transcri 92.6 0.044 9.6E-07 53.5 0.8 44 179-226 455-500 (674)
90 KOG0298 DEAD box-containing he 92.6 0.028 6.1E-07 57.4 -0.6 45 177-223 1152-1196(1394)
91 KOG3053 Uncharacterized conser 92.5 0.051 1.1E-06 46.4 0.9 55 173-227 15-83 (293)
92 KOG0309 Conserved WD40 repeat- 92.2 0.079 1.7E-06 51.5 1.8 30 191-220 1040-1069(1081)
93 KOG2034 Vacuolar sorting prote 91.3 0.093 2E-06 51.8 1.3 40 173-213 812-851 (911)
94 KOG1812 Predicted E3 ubiquitin 90.8 0.12 2.7E-06 47.2 1.6 40 176-215 144-184 (384)
95 KOG1609 Protein involved in mR 89.8 0.2 4.3E-06 43.9 2.0 49 178-226 78-134 (323)
96 PF02891 zf-MIZ: MIZ/SP-RING z 89.4 0.39 8.4E-06 30.8 2.6 43 179-224 3-50 (50)
97 PF07800 DUF1644: Protein of u 88.3 0.67 1.5E-05 36.9 3.8 37 177-213 1-47 (162)
98 PF10272 Tmpp129: Putative tra 88.1 0.3 6.4E-06 44.1 1.9 53 174-228 267-353 (358)
99 KOG1100 Predicted E3 ubiquitin 88.0 0.28 6.1E-06 41.0 1.6 38 181-225 161-199 (207)
100 PF14446 Prok-RING_1: Prokaryo 87.4 1.1 2.3E-05 29.3 3.6 46 177-226 4-52 (54)
101 KOG0802 E3 ubiquitin ligase [P 86.1 0.32 7E-06 46.4 1.0 51 173-230 474-524 (543)
102 KOG1829 Uncharacterized conser 86.0 0.27 5.7E-06 47.0 0.4 45 175-222 508-557 (580)
103 KOG3899 Uncharacterized conser 84.8 0.44 9.5E-06 41.6 1.1 30 199-228 325-367 (381)
104 KOG4362 Transcriptional regula 84.3 0.23 4.9E-06 48.2 -0.9 47 177-226 20-69 (684)
105 PF05290 Baculo_IE-1: Baculovi 83.4 1 2.2E-05 34.8 2.5 52 177-228 79-134 (140)
106 KOG1815 Predicted E3 ubiquitin 79.9 1.2 2.6E-05 41.5 2.1 40 174-215 66-105 (444)
107 KOG0825 PHD Zn-finger protein 79.6 1.4 3E-05 43.5 2.5 52 174-225 92-153 (1134)
108 COG5109 Uncharacterized conser 78.8 1.7 3.7E-05 38.5 2.6 47 177-223 335-384 (396)
109 KOG2066 Vacuolar assembly/sort 78.3 0.79 1.7E-05 45.0 0.5 45 176-221 782-830 (846)
110 smart00249 PHD PHD zinc finger 78.1 1.4 3E-05 26.5 1.4 31 180-210 1-31 (47)
111 PF13901 DUF4206: Domain of un 77.9 1.8 3.8E-05 36.0 2.4 42 176-222 150-196 (202)
112 KOG3161 Predicted E3 ubiquitin 74.9 0.91 2E-05 43.7 -0.1 40 178-219 11-51 (861)
113 COG5220 TFB3 Cdk activating ki 70.6 1.8 3.9E-05 36.9 0.7 47 177-223 9-61 (314)
114 KOG4718 Non-SMC (structural ma 69.4 2.3 5E-05 35.5 1.0 45 177-223 180-224 (235)
115 KOG2068 MOT2 transcription fac 68.0 5.5 0.00012 35.5 3.2 51 178-228 249-300 (327)
116 KOG3579 Predicted E3 ubiquitin 67.8 2.8 6.1E-05 36.6 1.3 36 177-215 267-306 (352)
117 PF00628 PHD: PHD-finger; Int 67.0 2.1 4.5E-05 26.9 0.3 44 180-223 1-50 (51)
118 KOG0269 WD40 repeat-containing 65.3 5 0.00011 39.5 2.5 44 179-223 780-825 (839)
119 PF07191 zinc-ribbons_6: zinc- 63.8 0.41 8.9E-06 32.9 -3.6 41 179-227 2-42 (70)
120 PF14569 zf-UDP: Zinc-binding 63.8 6.8 0.00015 27.5 2.3 51 176-226 7-62 (80)
121 PF06906 DUF1272: Protein of u 61.0 15 0.00032 24.1 3.4 46 180-228 7-54 (57)
122 PF04710 Pellino: Pellino; In 60.4 2.9 6.2E-05 38.2 0.0 31 192-225 302-338 (416)
123 KOG3039 Uncharacterized conser 60.3 7.8 0.00017 33.3 2.5 38 173-213 38-75 (303)
124 PF14169 YdjO: Cold-inducible 60.1 4.4 9.4E-05 26.9 0.8 18 210-227 28-51 (59)
125 smart00132 LIM Zinc-binding do 58.2 8.8 0.00019 21.9 1.9 38 180-226 1-38 (39)
126 PF13717 zinc_ribbon_4: zinc-r 57.0 6 0.00013 23.4 1.0 25 180-204 4-36 (36)
127 KOG2113 Predicted RNA binding 56.6 42 0.00092 29.9 6.5 47 174-225 339-386 (394)
128 PF10571 UPF0547: Uncharacteri 53.9 8.5 0.00019 21.1 1.2 23 180-203 2-24 (26)
129 PF07975 C1_4: TFIIH C1-like d 53.0 6.4 0.00014 25.3 0.7 27 195-222 23-50 (51)
130 PF06844 DUF1244: Protein of u 52.9 8.9 0.00019 26.0 1.4 12 202-213 11-22 (68)
131 KOG0824 Predicted E3 ubiquitin 52.2 4.6 9.9E-05 35.6 -0.1 49 175-225 102-150 (324)
132 PF13719 zinc_ribbon_5: zinc-r 52.0 7.7 0.00017 23.0 0.9 25 180-204 4-36 (37)
133 PF10235 Cript: Microtubule-as 51.6 9.2 0.0002 27.6 1.4 36 178-225 44-79 (90)
134 KOG2807 RNA polymerase II tran 50.8 17 0.00037 32.5 3.2 48 177-224 329-376 (378)
135 PLN02189 cellulose synthase 50.7 18 0.0004 37.1 3.8 51 176-226 32-87 (1040)
136 KOG3005 GIY-YIG type nuclease 49.9 7.9 0.00017 33.5 1.0 48 178-225 182-242 (276)
137 PF04423 Rad50_zn_hook: Rad50 49.7 4.8 0.0001 25.9 -0.3 10 217-226 22-31 (54)
138 smart00064 FYVE Protein presen 49.2 9.7 0.00021 25.4 1.2 38 176-213 8-46 (68)
139 KOG3113 Uncharacterized conser 49.0 16 0.00035 31.4 2.7 51 177-229 110-161 (293)
140 TIGR00622 ssl1 transcription f 46.1 33 0.00071 25.8 3.7 46 178-223 55-111 (112)
141 PF01363 FYVE: FYVE zinc finge 45.4 7.9 0.00017 25.9 0.3 38 175-212 6-44 (69)
142 PLN02638 cellulose synthase A 43.6 28 0.00061 36.0 3.9 51 176-226 15-70 (1079)
143 cd00065 FYVE FYVE domain; Zinc 43.4 21 0.00046 22.7 2.1 36 178-213 2-38 (57)
144 PLN02436 cellulose synthase A 41.9 30 0.00065 35.8 3.8 51 176-226 34-89 (1094)
145 COG3813 Uncharacterized protei 41.8 18 0.00038 25.1 1.5 26 200-227 28-53 (84)
146 cd00350 rubredoxin_like Rubred 41.5 22 0.00047 20.4 1.7 9 215-223 17-25 (33)
147 PF07649 C1_3: C1-like domain; 40.4 18 0.00039 20.1 1.2 29 180-208 2-30 (30)
148 PF13832 zf-HC5HC2H_2: PHD-zin 40.1 25 0.00055 25.7 2.3 33 177-211 54-88 (110)
149 PF02318 FYVE_2: FYVE-type zin 39.5 17 0.00036 27.4 1.3 46 177-223 53-102 (118)
150 PRK11827 hypothetical protein; 39.3 11 0.00024 25.1 0.2 20 209-228 2-21 (60)
151 KOG3799 Rab3 effector RIM1 and 39.0 9.7 0.00021 29.6 -0.1 52 173-224 60-116 (169)
152 smart00734 ZnF_Rad18 Rad18-lik 38.6 15 0.00033 20.0 0.7 9 217-225 3-11 (26)
153 KOG3842 Adaptor protein Pellin 37.4 39 0.00084 30.2 3.3 54 173-226 336-414 (429)
154 KOG1729 FYVE finger containing 36.9 5.7 0.00012 34.9 -1.8 40 176-215 212-251 (288)
155 PF13240 zinc_ribbon_2: zinc-r 36.9 5.5 0.00012 21.1 -1.3 9 216-224 14-22 (23)
156 PF00412 LIM: LIM domain; Int 36.7 14 0.0003 23.4 0.4 37 181-226 1-37 (58)
157 KOG1812 Predicted E3 ubiquitin 36.1 18 0.00039 33.1 1.2 45 176-221 304-351 (384)
158 PLN02400 cellulose synthase 36.1 29 0.00064 35.9 2.7 51 176-226 34-89 (1085)
159 PF14311 DUF4379: Domain of un 34.1 23 0.00051 22.6 1.2 23 198-221 33-55 (55)
160 KOG4185 Predicted E3 ubiquitin 33.7 7 0.00015 34.0 -1.9 48 177-224 206-265 (296)
161 PF09723 Zn-ribbon_8: Zinc rib 31.5 10 0.00023 23.0 -0.8 29 196-225 8-37 (42)
162 KOG2017 Molybdopterin synthase 31.5 17 0.00037 32.9 0.2 26 173-198 373-398 (427)
163 KOG2979 Protein involved in DN 31.3 26 0.00057 30.2 1.3 45 178-224 176-222 (262)
164 PRK00418 DNA gyrase inhibitor; 30.9 31 0.00068 23.1 1.4 13 215-227 6-18 (62)
165 COG0267 RpmG Ribosomal protein 30.2 13 0.00028 23.8 -0.6 18 213-230 32-49 (50)
166 PLN02915 cellulose synthase A 29.7 62 0.0013 33.5 3.8 52 175-226 12-68 (1044)
167 PF10497 zf-4CXXC_R1: Zinc-fin 29.1 70 0.0015 23.6 3.1 24 200-223 37-69 (105)
168 PF03119 DNA_ligase_ZBD: NAD-d 28.9 17 0.00037 20.2 -0.1 11 217-227 1-11 (28)
169 KOG2071 mRNA cleavage and poly 28.6 27 0.00058 33.6 1.0 36 176-211 511-556 (579)
170 PF14353 CpXC: CpXC protein 27.4 59 0.0013 24.5 2.6 46 179-227 2-50 (128)
171 PRK01343 zinc-binding protein; 27.3 45 0.00097 22.0 1.6 10 216-225 10-19 (57)
172 smart00647 IBR In Between Ring 27.0 17 0.00036 23.5 -0.5 18 194-211 40-58 (64)
173 PRK05978 hypothetical protein; 25.8 41 0.00088 26.6 1.4 24 201-229 43-66 (148)
174 PF13771 zf-HC5HC2H: PHD-like 25.6 43 0.00092 23.4 1.4 33 178-210 36-68 (90)
175 COG2835 Uncharacterized conser 25.6 32 0.00069 22.9 0.7 14 216-229 9-22 (60)
176 PF15616 TerY-C: TerY-C metal 23.7 30 0.00064 26.8 0.3 47 174-229 73-119 (131)
177 KOG1815 Predicted E3 ubiquitin 23.3 26 0.00056 32.6 -0.1 35 180-214 228-267 (444)
178 TIGR01023 rpmG_bact ribosomal 23.3 25 0.00053 22.9 -0.2 18 213-230 36-53 (54)
179 PRK00595 rpmG 50S ribosomal pr 23.1 24 0.00051 22.8 -0.3 18 213-230 35-52 (53)
180 COG3492 Uncharacterized protei 23.0 41 0.00089 24.3 0.9 12 202-213 42-53 (104)
181 COG4068 Uncharacterized protei 22.8 52 0.0011 21.8 1.2 16 214-229 7-22 (64)
182 PF04216 FdhE: Protein involve 22.7 8.3 0.00018 33.7 -3.4 50 175-224 169-220 (290)
183 TIGR01206 lysW lysine biosynth 22.4 44 0.00096 21.7 0.9 14 216-229 3-16 (54)
184 COG5627 MMS21 DNA repair prote 22.4 46 0.00099 28.5 1.2 47 177-225 188-238 (275)
185 smart00531 TFIIE Transcription 21.8 55 0.0012 25.5 1.5 44 174-230 95-138 (147)
186 PLN02248 cellulose synthase-li 21.5 9.9E+02 0.022 25.4 11.1 31 198-228 149-179 (1135)
187 PRK06266 transcription initiat 21.4 86 0.0019 25.4 2.6 39 174-230 113-151 (178)
188 COG2824 PhnA Uncharacterized Z 21.4 30 0.00065 25.8 -0.1 29 179-213 4-32 (112)
189 PRK00241 nudC NADH pyrophospha 21.3 69 0.0015 27.5 2.1 23 206-228 90-112 (256)
190 PRK00504 rpmG 50S ribosomal pr 20.0 31 0.00067 22.1 -0.2 18 213-230 32-49 (50)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.65 E-value=3.4e-17 Score=103.55 Aligned_cols=44 Identities=45% Similarity=1.143 Sum_probs=40.4
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICG 222 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr 222 (231)
++|+||+++|..++.++.++|+|.||.+||.+||+++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 57999999999888999999999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=1.2e-15 Score=134.30 Aligned_cols=49 Identities=35% Similarity=0.965 Sum_probs=44.8
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhcC-CCCCccCCCCcC
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS-ESCPICGKEMEF 227 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s-~~CPvCr~~~~~ 227 (231)
++|+||||+|..|+++++|||+|.||..||+.||.+. ..||+||+++..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 6999999999999999999999999999999999665 569999997654
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.45 E-value=4.9e-14 Score=98.63 Aligned_cols=46 Identities=35% Similarity=0.962 Sum_probs=37.5
Q ss_pred CCCccccccCccCC----------CCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 046929 177 DEDVCPTCLDEYTP----------ENPKITTRCSHHFHLGCIYEWLERSESCPICG 222 (231)
Q Consensus 177 ~~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr 222 (231)
.++.|+||++.|.. +..+.+.+|||.||..||.+||+.+.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 35569999999943 23456678999999999999999999999998
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.38 E-value=2e-13 Score=119.60 Aligned_cols=58 Identities=36% Similarity=0.904 Sum_probs=49.6
Q ss_pred CCCCCCCccccccCc-cCCC---------CCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcCC
Q 046929 173 TSTEDEDVCPTCLDE-YTPE---------NPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCES 230 (231)
Q Consensus 173 ~~~~~~~~C~ICle~-~~~~---------~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~s 230 (231)
....++..|.||+|+ |..+ ..++.|||||.||++|++.||+|+++||+||.++.++.+
T Consensus 282 ql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~~ 349 (491)
T COG5243 282 QLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQS 349 (491)
T ss_pred hhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccccccC
Confidence 445678899999999 5554 245789999999999999999999999999999988764
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.35 E-value=7.9e-13 Score=111.83 Aligned_cols=73 Identities=18% Similarity=0.484 Sum_probs=51.2
Q ss_pred chHHHhhhhchhccCCCCCCCCCCCCCccccccCccCCCCC-----ceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929 153 DSESSDKALATKAAYGPYTQTSTEDEDVCPTCLDEYTPENP-----KITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227 (231)
Q Consensus 153 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~C~ICle~~~~~~~-----~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~ 227 (231)
.......++......... .....+.+|+||++.+..... .++++|+|.||..||.+|++++.+||+||..+..
T Consensus 151 ~~~~i~~lp~vl~~~e~~--~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 151 YKKFLKTIPSVLSEYEKL--YNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred hHHHHHhcchhhhhhhhh--hcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 444555555543211111 123456899999999875331 3567899999999999999999999999998653
No 6
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.33 E-value=8e-13 Score=93.83 Aligned_cols=54 Identities=35% Similarity=0.925 Sum_probs=44.9
Q ss_pred CCCCccccccCccCC----------CCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCcCcC
Q 046929 176 EDEDVCPTCLDEYTP----------ENPKITTRCSHHFHLGCIYEWLER---SESCPICGKEMEFCE 229 (231)
Q Consensus 176 ~~~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~---s~~CPvCr~~~~~~~ 229 (231)
..++.|.||...|+. +-+++.-.|+|.||..||.+||+. +..||+||+++.+++
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k~ 85 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFKE 85 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeCC
Confidence 348899999999974 225666679999999999999975 468999999998875
No 7
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=1.1e-12 Score=112.31 Aligned_cols=51 Identities=27% Similarity=0.840 Sum_probs=46.9
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~ 226 (231)
...-+|+|||+.|..++..++|||.|.||..||.+||. -+..||+||.+++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 44578999999999999999999999999999999997 7889999999875
No 8
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=8.1e-12 Score=99.65 Aligned_cols=55 Identities=31% Similarity=0.707 Sum_probs=46.1
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
...++...|+|||+.+.... .+-++|||+||..||+.-++....||+|+++|..+
T Consensus 126 ~~~~~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 126 LRKEGTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred cccccccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 34455689999999998632 25589999999999999999999999999988655
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.25 E-value=3.9e-12 Score=82.46 Aligned_cols=46 Identities=30% Similarity=0.803 Sum_probs=40.8
Q ss_pred CCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 046929 178 EDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
+..|.||++...+ .+++||||. ||..|+..|+++...||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 5789999999776 889999999 999999999999999999999875
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=4.2e-12 Score=105.38 Aligned_cols=53 Identities=32% Similarity=0.736 Sum_probs=44.8
Q ss_pred CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCcCcC
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER---SESCPICGKEMEFCE 229 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---s~~CPvCr~~~~~~~ 229 (231)
.......|.||||.-++ .+++.|||+||+.||++||.. ++.|||||..|..+.
T Consensus 43 ~~~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 35667899999999776 778889999999999999975 457999999887653
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.23 E-value=8.6e-12 Score=101.71 Aligned_cols=52 Identities=27% Similarity=0.684 Sum_probs=43.0
Q ss_pred CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc----------------CCCCCccCCCCcCc
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER----------------SESCPICGKEMEFC 228 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~----------------s~~CPvCr~~~~~~ 228 (231)
...++.+|+||++.+.+ .++++|||.||..||.+|+.. ...||+||.++...
T Consensus 14 ~~~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 14 DSGGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred cCCCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 44567899999999876 677899999999999999853 24799999988643
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=99.21 E-value=6.7e-12 Score=77.12 Aligned_cols=39 Identities=46% Similarity=1.153 Sum_probs=34.2
Q ss_pred cccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCcc
Q 046929 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPIC 221 (231)
Q Consensus 181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvC 221 (231)
|+||++.+.+ +.+.++|||.||..||.+|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999887 55789999999999999999998999998
No 13
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.18 E-value=2.3e-11 Score=75.82 Aligned_cols=44 Identities=36% Similarity=1.056 Sum_probs=37.6
Q ss_pred ccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCC
Q 046929 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEM 225 (231)
Q Consensus 180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~ 225 (231)
.|+||++.+. +...+++|+|.||..|+..|++. ...||+||+.+
T Consensus 1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999983 35666779999999999999987 77899999864
No 14
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=1.4e-11 Score=105.11 Aligned_cols=53 Identities=28% Similarity=0.739 Sum_probs=46.6
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
...+....|.||||...+ +..+||||+||..||.+|...+..||+||.++...
T Consensus 234 ~i~~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 234 SIPEATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred cCCCCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 344567899999999876 88999999999999999999999999999987654
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.08 E-value=6.5e-11 Score=73.87 Aligned_cols=38 Identities=34% Similarity=0.899 Sum_probs=30.4
Q ss_pred cccccCccCCCCCceecCCCCccCHHHHHHHHhcC----CCCCcc
Q 046929 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----ESCPIC 221 (231)
Q Consensus 181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CPvC 221 (231)
|+||++.|.+ .+.|+|||.|+..||..|++.. ..||+|
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999997 8899999999999999999754 369987
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.06 E-value=1.2e-10 Score=73.41 Aligned_cols=44 Identities=34% Similarity=0.776 Sum_probs=39.6
Q ss_pred ccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK 223 (231)
Q Consensus 180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~ 223 (231)
.|+||++.|..+....+++|||.||..||..++.....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 49999999966667899999999999999999977789999986
No 17
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.03 E-value=3.1e-10 Score=76.64 Aligned_cols=47 Identities=17% Similarity=0.400 Sum_probs=42.2
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
..|+||++.+.+ .++++|||+|+..||.+|++.+.+||+|++++..+
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 579999999986 57789999999999999999889999999988554
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=98.99 E-value=2.7e-10 Score=94.21 Aligned_cols=52 Identities=25% Similarity=0.677 Sum_probs=40.4
Q ss_pred CCCCccccccCccCCC----C--CceecCCCCccCHHHHHHHHhcC------CCCCccCCCCcC
Q 046929 176 EDEDVCPTCLDEYTPE----N--PKITTRCSHHFHLGCIYEWLERS------ESCPICGKEMEF 227 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~----~--~~~~l~C~H~Fh~~CI~~Wl~~s------~~CPvCr~~~~~ 227 (231)
..+.+|+||||..... + ..++.+|+|.||..||..|.+.+ .+||+||..+.+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 3478999999986431 1 24567899999999999999753 469999998754
No 19
>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=98.98 E-value=3.2e-10 Score=70.19 Aligned_cols=39 Identities=44% Similarity=1.165 Sum_probs=34.2
Q ss_pred cccccCccCCCCCceecCCCCccCHHHHHHHHh--cCCCCCcc
Q 046929 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE--RSESCPIC 221 (231)
Q Consensus 181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~--~s~~CPvC 221 (231)
|+||++.+.. +..+++|||.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~--~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 8999999886 335899999999999999998 55689998
No 20
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.96 E-value=4.4e-10 Score=78.01 Aligned_cols=53 Identities=30% Similarity=0.749 Sum_probs=42.0
Q ss_pred CCccccccCccCC-----------CC--CceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcCC
Q 046929 178 EDVCPTCLDEYTP-----------EN--PKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCES 230 (231)
Q Consensus 178 ~~~C~ICle~~~~-----------~~--~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~s 230 (231)
.+.|+||...|.. ++ +++.-.|.|.||..||++||..++.||++|+++.+.+.
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~ 85 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADG 85 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEecc
Confidence 4677777666533 22 45566799999999999999999999999999887653
No 21
>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=98.95 E-value=7e-10 Score=66.65 Aligned_cols=38 Identities=42% Similarity=1.163 Sum_probs=33.4
Q ss_pred cccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCcc
Q 046929 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPIC 221 (231)
Q Consensus 181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvC 221 (231)
|+||++... ..+.++|+|.||..||..|++ ....||+|
T Consensus 1 C~iC~~~~~---~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999844 488899999999999999998 66789987
No 22
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=2.4e-10 Score=108.16 Aligned_cols=52 Identities=29% Similarity=0.793 Sum_probs=45.5
Q ss_pred CCCCCCccccccCccCCCCC--ceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 046929 174 STEDEDVCPTCLDEYTPENP--KITTRCSHHFHLGCIYEWLERSESCPICGKEM 225 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~--~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~ 225 (231)
....++.|+||+|++..+.. ..+++|+|.||..|+..||+++++||+||..+
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 34458899999999997554 67899999999999999999999999999844
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=3.2e-10 Score=78.05 Aligned_cols=53 Identities=30% Similarity=0.810 Sum_probs=42.5
Q ss_pred CCCccccccCccCC----------CCCceecCCCCccCHHHHHHHHhcC---CCCCccCCCCcCcC
Q 046929 177 DEDVCPTCLDEYTP----------ENPKITTRCSHHFHLGCIYEWLERS---ESCPICGKEMEFCE 229 (231)
Q Consensus 177 ~~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~s---~~CPvCr~~~~~~~ 229 (231)
.+++|.||.-.|+. +-++++-.|.|.||..||.+|+... ..||+||+.+.+++
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~e 84 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFKE 84 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEecC
Confidence 34599999999875 2255555699999999999999653 47999999998864
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.83 E-value=2.5e-09 Score=96.75 Aligned_cols=52 Identities=29% Similarity=0.560 Sum_probs=45.0
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~ 227 (231)
...+....|+||++.|.. .++++|||.||..||..|+.....||+||..+..
T Consensus 21 ~~Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cccccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 344667899999999976 5679999999999999999988899999998754
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=7.3e-09 Score=87.62 Aligned_cols=51 Identities=27% Similarity=0.607 Sum_probs=43.9
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHH-HHhcCC-CCCccCCCCcCcC
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYE-WLERSE-SCPICGKEMEFCE 229 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~-Wl~~s~-~CPvCr~~~~~~~ 229 (231)
+.+..|.||++.... ...++|||+||+.||.. |=.++. .||+||+.+..+.
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 568899999999886 88999999999999999 986654 5999999876653
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.67 E-value=1.2e-08 Score=63.84 Aligned_cols=38 Identities=34% Similarity=0.906 Sum_probs=23.5
Q ss_pred cccccCccC-CCCCceecCCCCccCHHHHHHHHhcC----CCCC
Q 046929 181 CPTCLDEYT-PENPKITTRCSHHFHLGCIYEWLERS----ESCP 219 (231)
Q Consensus 181 C~ICle~~~-~~~~~~~l~C~H~Fh~~CI~~Wl~~s----~~CP 219 (231)
|+||+| |. .+++.++|+|||+|+.+||.+|++++ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 75 46678889999999999999999854 2576
No 27
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.56 E-value=5.4e-08 Score=62.69 Aligned_cols=42 Identities=29% Similarity=0.831 Sum_probs=33.0
Q ss_pred ccccccCccCCCCCceecCCC-----CccCHHHHHHHHhcC--CCCCccC
Q 046929 180 VCPTCLDEYTPENPKITTRCS-----HHFHLGCIYEWLERS--ESCPICG 222 (231)
Q Consensus 180 ~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~s--~~CPvCr 222 (231)
.|.||++..+.++ ..+.||. |.+|..|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~~~~~~~-~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGD-PLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCC-eeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999444444 4578885 899999999999655 4899995
No 28
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.54 E-value=1.4e-08 Score=70.40 Aligned_cols=52 Identities=25% Similarity=0.612 Sum_probs=26.4
Q ss_pred CCccccccCccC-CCCC--cee--cCCCCccCHHHHHHHHhcC-----------CCCCccCCCCcCcC
Q 046929 178 EDVCPTCLDEYT-PENP--KIT--TRCSHHFHLGCIYEWLERS-----------ESCPICGKEMEFCE 229 (231)
Q Consensus 178 ~~~C~ICle~~~-~~~~--~~~--l~C~H~Fh~~CI~~Wl~~s-----------~~CPvCr~~~~~~~ 229 (231)
+..|.||++... .+.. ++. ..|++.||..||.+||+.. ..||.|+++|..+.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~~ 69 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWSF 69 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEec
Confidence 568999999876 3322 222 2699999999999999731 26999999987764
No 29
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.52 E-value=5.1e-08 Score=89.32 Aligned_cols=49 Identities=33% Similarity=0.752 Sum_probs=41.3
Q ss_pred CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC-----CCCCccCCCCcCcC
Q 046929 178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS-----ESCPICGKEMEFCE 229 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s-----~~CPvCr~~~~~~~ 229 (231)
+..|||||+.... ..++.|||+||..||.+.+..+ ..||+||..+..++
T Consensus 186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 7899999999876 6667799999999999888654 48999999887654
No 30
>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=98.46 E-value=9.3e-08 Score=66.76 Aligned_cols=49 Identities=20% Similarity=0.398 Sum_probs=39.5
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCc
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFC 228 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~ 228 (231)
+...|+|+.+-+.+ .+++++||.|...+|..||++ ..+||+|++.+...
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 45789999999998 888999999999999999988 88999999988754
No 31
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.43 E-value=7.7e-08 Score=70.14 Aligned_cols=55 Identities=31% Similarity=0.629 Sum_probs=42.8
Q ss_pred CCCCCccccccCccCC-------------CC-CceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929 175 TEDEDVCPTCLDEYTP-------------EN-PKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE 229 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~-------------~~-~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~ 229 (231)
....+.|+||..-+-+ ++ .+..--|.|.||..||.+||+.++.||+|.++..++.
T Consensus 43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~qr 111 (114)
T KOG2930|consen 43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQR 111 (114)
T ss_pred eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEee
Confidence 3457889998654321 22 3445569999999999999999999999999988764
No 32
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=1.1e-07 Score=86.67 Aligned_cols=52 Identities=23% Similarity=0.675 Sum_probs=41.2
Q ss_pred CCCCCccccccCccCC---CCC-----------ceecCCCCccCHHHHHHHHh-cCCCCCccCCCCc
Q 046929 175 TEDEDVCPTCLDEYTP---ENP-----------KITTRCSHHFHLGCIYEWLE-RSESCPICGKEME 226 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~---~~~-----------~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~ 226 (231)
......|+||+.+++. +.. -.++||.|+||..|+.+||+ .+-.||+||.++.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 3456789999998764 111 12569999999999999999 5559999999875
No 33
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=5.9e-08 Score=82.28 Aligned_cols=56 Identities=25% Similarity=0.641 Sum_probs=45.5
Q ss_pred CCCCCCCccccccCccCCCC-------CceecCCCCccCHHHHHHHH--hcCCCCCccCCCCcCc
Q 046929 173 TSTEDEDVCPTCLDEYTPEN-------PKITTRCSHHFHLGCIYEWL--ERSESCPICGKEMEFC 228 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~-------~~~~l~C~H~Fh~~CI~~Wl--~~s~~CPvCr~~~~~~ 228 (231)
....++..|+||-..+.... ..-.|.|+|+||..||..|- -++++||.|++++..+
T Consensus 219 tkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 219 TKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 34456789999998887643 55678999999999999996 5678999999988654
No 34
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.31 E-value=1.8e-07 Score=81.70 Aligned_cols=49 Identities=29% Similarity=0.633 Sum_probs=43.8
Q ss_pred CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
.+.-..|.||.|.|.. ..++||+|.||.-||...|..+..||.|+.++.
T Consensus 20 lD~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 20 LDDLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred hHHHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccc
Confidence 3556789999999997 788999999999999999999999999988754
No 35
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.27 E-value=2e-07 Score=90.45 Aligned_cols=55 Identities=27% Similarity=0.815 Sum_probs=43.1
Q ss_pred CCCCCCCccccccCccCC-CC---CceecCCCCccCHHHHHHHHhcC--CCCCccCCCCcC
Q 046929 173 TSTEDEDVCPTCLDEYTP-EN---PKITTRCSHHFHLGCIYEWLERS--ESCPICGKEMEF 227 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~-~~---~~~~l~C~H~Fh~~CI~~Wl~~s--~~CPvCr~~~~~ 227 (231)
....+.++|+||+..+.. +. .++...|.|.||..|+++|++.+ ++||+||.+++|
T Consensus 1464 ~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1464 EKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 344677899999988762 11 24556699999999999999865 589999998876
No 36
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.21 E-value=6e-07 Score=77.03 Aligned_cols=48 Identities=25% Similarity=0.486 Sum_probs=43.0
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
+.-..|-||-+.|.. ...++|||.||.-||...|..+..||+||.+..
T Consensus 23 Ds~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 23 DSMLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred hhHHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 446789999999987 788999999999999999999999999998643
No 37
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=6.2e-07 Score=76.82 Aligned_cols=48 Identities=29% Similarity=0.732 Sum_probs=41.8
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK 223 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~ 223 (231)
...++...|+||++.|.. ..+++|+|.||..||..|+.....||.||.
T Consensus 8 ~~~~~~~~C~iC~~~~~~---p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 8 EVLQEELTCPICLEYFRE---PVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred hhccccccChhhHHHhhc---CccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 344678899999999997 388999999999999999986678999994
No 38
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=1.7e-06 Score=77.01 Aligned_cols=53 Identities=32% Similarity=0.779 Sum_probs=42.1
Q ss_pred CCCCccccccCccCCCC-----CceecCCCCccCHHHHHHHH--hc-----CCCCCccCCCCcCc
Q 046929 176 EDEDVCPTCLDEYTPEN-----PKITTRCSHHFHLGCIYEWL--ER-----SESCPICGKEMEFC 228 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~-----~~~~l~C~H~Fh~~CI~~Wl--~~-----s~~CPvCr~~~~~~ 228 (231)
..+.+|.||+|...... -.++.+|.|.||..||..|. .+ ++.||.||....+.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 56889999999987633 22346699999999999998 44 57899999877654
No 39
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=3.6e-06 Score=74.31 Aligned_cols=48 Identities=29% Similarity=0.681 Sum_probs=42.5
Q ss_pred CCCCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
+...+|.|||.+-.+ ..+|||.|. .|.+|.+.-.-..+.||+||+++.
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 457899999999887 899999997 899999987777899999999864
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.92 E-value=2.5e-06 Score=57.31 Aligned_cols=49 Identities=24% Similarity=0.594 Sum_probs=25.3
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE 229 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~ 229 (231)
.-..|++|.+.+.. ++.+..|.|.||..||..-+. ..||+|+.+.-.+|
T Consensus 6 ~lLrCs~C~~~l~~--pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 6 ELLRCSICFDILKE--PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp HTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred HhcCCcHHHHHhcC--CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 35679999999876 556778999999999988554 35999998865554
No 41
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.91 E-value=6.3e-06 Score=74.58 Aligned_cols=52 Identities=31% Similarity=0.812 Sum_probs=41.1
Q ss_pred CCCCCCCccccccCccCCCC-CceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 173 TSTEDEDVCPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
....+-.+|+||||-++... -++.+.|.|.||..|+.+|- ..+|||||.-..
T Consensus 170 ~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 170 TGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred CCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 34456789999999999754 34556799999999999995 358999997543
No 42
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=2e-06 Score=75.65 Aligned_cols=51 Identities=29% Similarity=0.712 Sum_probs=41.3
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-CCCCCccCCCCcCc
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-SESCPICGKEMEFC 228 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-s~~CPvCr~~~~~~ 228 (231)
..+..|+|||+-+.. ......|.|.||.+||.+-|+. .+.||.||+.+.-+
T Consensus 41 ~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 41 DIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 457789999999875 3445569999999999998865 56999999987543
No 43
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.78 E-value=5.7e-06 Score=53.56 Aligned_cols=46 Identities=22% Similarity=0.579 Sum_probs=36.5
Q ss_pred CCccccccCccCCCCCceecCCCCc-cCHHHHHHHH-hcCCCCCccCCCCc
Q 046929 178 EDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWL-ERSESCPICGKEME 226 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl-~~s~~CPvCr~~~~ 226 (231)
.++|.||+|.-.+ .++-.|||. .|.+|-.+-+ ..+..||+||.++.
T Consensus 7 ~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 4899999998765 667779996 7888865544 47889999998764
No 44
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.69 E-value=3.4e-05 Score=74.63 Aligned_cols=50 Identities=32% Similarity=0.754 Sum_probs=38.6
Q ss_pred CCCCCCCccccccCccCCCCCc-eecCCCCccCHHHHHHHHhcCC-------CCCccC
Q 046929 173 TSTEDEDVCPTCLDEYTPENPK-ITTRCSHHFHLGCIYEWLERSE-------SCPICG 222 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl~~s~-------~CPvCr 222 (231)
......++|.||++.+....++ ....|-|+||+.||.+|-+... .||.|+
T Consensus 186 ~l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 186 QLSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred HHhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 4456678999999999864433 3345889999999999986432 699998
No 45
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.68 E-value=6.6e-06 Score=78.77 Aligned_cols=50 Identities=24% Similarity=0.595 Sum_probs=44.4
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM 225 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~ 225 (231)
.....|+||+..+.++......+|+|.||..||..|-+.-++||+||+++
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF 170 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF 170 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence 45678999999998877677778999999999999999999999999875
No 46
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=2.5e-05 Score=74.92 Aligned_cols=51 Identities=24% Similarity=0.609 Sum_probs=43.3
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCccCCCCcCcC
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPICGKEMEFCE 229 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~~~~ 229 (231)
.+-..|+.|-+-+.+ .++++|+|+||..||..-++ |...||.|...+-..|
T Consensus 641 K~~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 641 KELLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred HhceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 345789999988887 88999999999999999995 5679999998876544
No 47
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.58 E-value=3.2e-05 Score=51.29 Aligned_cols=44 Identities=27% Similarity=0.692 Sum_probs=30.4
Q ss_pred CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc--CCCCCc
Q 046929 175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER--SESCPI 220 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--s~~CPv 220 (231)
......|||.+..|.+ +++...|+|.|-++.|.+||++ ...||+
T Consensus 8 ~~~~~~CPiT~~~~~~--PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFED--PVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-SS--EEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cEeccCCCCcCChhhC--CcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3456899999999986 6777799999999999999943 457998
No 48
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.46 E-value=7.2e-05 Score=75.76 Aligned_cols=53 Identities=38% Similarity=0.813 Sum_probs=45.2
Q ss_pred CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC----------CCCCccCCCCc
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS----------ESCPICGKEME 226 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s----------~~CPvCr~~~~ 226 (231)
..+.++.|.||+.+--...+.+.|.|+|+||+.|...-|++. -+||+|+.++.
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 456789999999987777789999999999999999888764 27999998864
No 49
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.42 E-value=7.8e-05 Score=68.09 Aligned_cols=52 Identities=33% Similarity=0.838 Sum_probs=44.0
Q ss_pred CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929 175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
.+++..|+||...+.+ ++..+.|||.||..||.+|+..+..||.|+..+...
T Consensus 18 ~~~~l~C~~C~~vl~~--p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRD--PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA 69 (391)
T ss_pred CcccccCccccccccC--CCCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence 4667899999999886 333368999999999999999999999999877543
No 50
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.35 E-value=4.3e-05 Score=66.06 Aligned_cols=54 Identities=24% Similarity=0.676 Sum_probs=44.5
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-----------------------CCCCCccCCCCcCcC
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-----------------------SESCPICGKEMEFCE 229 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-----------------------s~~CPvCr~~~~~~~ 229 (231)
-....|.|||-.|..+...+++.|-|.||..|+...|.. ...|||||..+....
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 456789999999999888999999999999999876531 237999999887654
No 51
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.31 E-value=0.00016 Score=65.84 Aligned_cols=48 Identities=31% Similarity=0.739 Sum_probs=43.1
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
..+..|.||+..+.. .+.++|||.||..||.+-|.....||.||..+.
T Consensus 82 ~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred cchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCcccccccc
Confidence 568899999998886 778899999999999999998999999998875
No 52
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.30 E-value=0.00012 Score=59.96 Aligned_cols=48 Identities=25% Similarity=0.640 Sum_probs=42.5
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
.-...|.||.++|.. ++++.|||.||..|...-++....|-+|.+.+.
T Consensus 194 ~IPF~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 194 KIPFLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred CCceeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 345689999999997 888999999999999999999999999988654
No 53
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.25 E-value=0.0001 Score=66.07 Aligned_cols=47 Identities=21% Similarity=0.680 Sum_probs=39.1
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhc--CCCCCccCCCCcCc
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER--SESCPICGKEMEFC 228 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--s~~CPvCr~~~~~~ 228 (231)
..|.||-|.-.+ +++-||||..|..|+..|-.. .++||.||.++.-.
T Consensus 370 eLCKICaendKd---vkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAENDKD---VKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhccCCC---cccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 469999887554 888999999999999999843 57999999987643
No 54
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.19 E-value=0.00029 Score=62.34 Aligned_cols=51 Identities=24% Similarity=0.601 Sum_probs=43.7
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
....++..|+||...-.. .+..||+|.-|.+||.+.|.+.+.|=.|+..+.
T Consensus 417 lp~sEd~lCpICyA~pi~---Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAGPIN---AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CCCcccccCcceecccch---hhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 444678899999876554 678899999999999999999999999998765
No 55
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.19 E-value=0.00018 Score=45.75 Aligned_cols=40 Identities=25% Similarity=0.835 Sum_probs=28.1
Q ss_pred cccccCccCCCCCceecCCC-----CccCHHHHHHHHh--cCCCCCcc
Q 046929 181 CPTCLDEYTPENPKITTRCS-----HHFHLGCIYEWLE--RSESCPIC 221 (231)
Q Consensus 181 C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~--~s~~CPvC 221 (231)
|-||++.-..++ ..+.||. -..|.+|+.+|+. .+.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 789999987655 5567775 3789999999997 44679887
No 56
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.14 E-value=0.00042 Score=59.37 Aligned_cols=52 Identities=29% Similarity=0.689 Sum_probs=43.1
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh--cCCCCCccCCCCc
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE--RSESCPICGKEME 226 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~--~s~~CPvCr~~~~ 226 (231)
.....+.+|++|-+.-+. +.+..+|+|+||.-||..=+. .+.+||.|..++.
T Consensus 234 s~~t~~~~C~~Cg~~Pti--P~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTI--PHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCCCC--CeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 445678899999998775 777888999999999988664 4579999998776
No 57
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.10 E-value=0.00011 Score=64.29 Aligned_cols=50 Identities=28% Similarity=0.582 Sum_probs=41.9
Q ss_pred CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM 225 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~ 225 (231)
......+|.+|--.|.+ ...+.-|-|.||.+||.+.|+..+.||+|...+
T Consensus 11 ~~n~~itC~LC~GYliD--ATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYLID--ATTITECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred hcccceehhhccceeec--chhHHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence 34567899999888876 455667999999999999999999999997654
No 58
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.01 E-value=0.0002 Score=64.12 Aligned_cols=48 Identities=40% Similarity=0.703 Sum_probs=40.1
Q ss_pred CCCCccccccCccCC-CCCceecCCCCccCHHHHHHHHhcC--CCCCccCC
Q 046929 176 EDEDVCPTCLDEYTP-ENPKITTRCSHHFHLGCIYEWLERS--ESCPICGK 223 (231)
Q Consensus 176 ~~~~~C~ICle~~~~-~~~~~~l~C~H~Fh~~CI~~Wl~~s--~~CPvCr~ 223 (231)
+-+.-|..|-|.|-. ++.+-.|||.|+||..|+.+.|++. .+||-||+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 446789999998875 3457789999999999999999766 48999994
No 59
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.95 E-value=0.00029 Score=60.95 Aligned_cols=46 Identities=22% Similarity=0.541 Sum_probs=41.6
Q ss_pred CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
.+.|-||...|.. .+++.|+|.||..|...-+++...|.+|.+.+.
T Consensus 241 Pf~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred Ccccccccccccc---chhhcCCceeehhhhccccccCCcceecccccc
Confidence 4569999999997 888999999999999999999999999988754
No 60
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.93 E-value=0.00073 Score=57.09 Aligned_cols=53 Identities=17% Similarity=0.335 Sum_probs=46.6
Q ss_pred CCCccccccCccCCCCCceec-CCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929 177 DEDVCPTCLDEYTPENPKITT-RCSHHFHLGCIYEWLERSESCPICGKEMEFCE 229 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l-~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~ 229 (231)
..+.|+||.+.+.+..+...| +|||+|+.+|+.+.+..-..||+|.+++.-++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccc
Confidence 568999999999987766655 59999999999999999999999999987655
No 61
>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=96.91 E-value=0.00029 Score=54.40 Aligned_cols=35 Identities=17% Similarity=0.408 Sum_probs=29.9
Q ss_pred CCccccccCccCCCCCceecCCC------CccCHHHHHHHH
Q 046929 178 EDVCPTCLDEYTPENPKITTRCS------HHFHLGCIYEWL 212 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C~------H~Fh~~CI~~Wl 212 (231)
..+|.||++.+..+.-++.+.|+ |.||.+|+.+|-
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 56899999999985567777776 999999999994
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.90 E-value=0.00093 Score=52.98 Aligned_cols=51 Identities=31% Similarity=0.696 Sum_probs=38.2
Q ss_pred CCCCCCccccccCccCCCCCceecCCCC-----ccCHHHHHHHHhcC--CCCCccCCCCcCc
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSH-----HFHLGCIYEWLERS--ESCPICGKEMEFC 228 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H-----~Fh~~CI~~Wl~~s--~~CPvCr~~~~~~ 228 (231)
.+..+..|-||.++... ...||.- .-|.+|+.+|+..+ ..|++|+.+..+.
T Consensus 4 ~s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 4 VSLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred cCCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 45668899999998643 1246653 56999999999755 5899999886554
No 63
>PHA02862 5L protein; Provisional
Probab=96.84 E-value=0.00072 Score=52.66 Aligned_cols=49 Identities=22% Similarity=0.600 Sum_probs=34.8
Q ss_pred CCccccccCccCCCCCceecCC---CCccCHHHHHHHHhcC--CCCCccCCCCcCc
Q 046929 178 EDVCPTCLDEYTPENPKITTRC---SHHFHLGCIYEWLERS--ESCPICGKEMEFC 228 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C---~H~Fh~~CI~~Wl~~s--~~CPvCr~~~~~~ 228 (231)
.+.|-||+++-+.+ ..-=.| ...-|.+|+.+|++.+ ..|++|+.+..++
T Consensus 2 ~diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 46899999986542 110112 2578999999999754 5899999987654
No 64
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.80 E-value=0.00068 Score=62.93 Aligned_cols=55 Identities=29% Similarity=0.587 Sum_probs=44.8
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc-----CCCCCccCCCCcCcCC
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER-----SESCPICGKEMEFCES 230 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-----s~~CPvCr~~~~~~~s 230 (231)
....++.+|.+|-+.-++ .+...|.|.||.-||.++++. .-+||+|...+.++.+
T Consensus 531 ~enk~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred ccccCceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 445667899999998765 778899999999999888753 3489999998887754
No 65
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.65 E-value=0.0014 Score=41.65 Aligned_cols=44 Identities=27% Similarity=0.582 Sum_probs=22.0
Q ss_pred cccccCccCCCCCceec--CCCCccCHHHHHHHHh-cCCCCCccCCCC
Q 046929 181 CPTCLDEYTPENPKITT--RCSHHFHLGCIYEWLE-RSESCPICGKEM 225 (231)
Q Consensus 181 C~ICle~~~~~~~~~~l--~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~ 225 (231)
|++|.++++..+ .... +|++.+++.|...-++ ....||-||++.
T Consensus 1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999995422 3334 4789999999888776 478999999864
No 66
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.58 E-value=0.0011 Score=43.32 Aligned_cols=48 Identities=29% Similarity=0.579 Sum_probs=36.6
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE 229 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~ 229 (231)
....|..|... +...++++|+|+.+..|... ++-+-||+|.+++.+.+
T Consensus 6 ~~~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 6 PEQPCVFCGFV---GTKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred cceeEEEcccc---ccccccccccceeeccccCh--hhccCCCCCCCcccCCC
Confidence 34456555544 34578899999999999654 68899999999998765
No 67
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.0026 Score=51.34 Aligned_cols=57 Identities=21% Similarity=0.541 Sum_probs=42.2
Q ss_pred CCCCCCccccccCccCCCC----CceecCCCCccCHHHHHHHHhcC-----------CCCCccCCCCcCcCC
Q 046929 174 STEDEDVCPTCLDEYTPEN----PKITTRCSHHFHLGCIYEWLERS-----------ESCPICGKEMEFCES 230 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~----~~~~l~C~H~Fh~~CI~~Wl~~s-----------~~CPvCr~~~~~~~s 230 (231)
..++...|.||+..--+|. ..--..||.-||.-|++.||+.- ..||+|.+++.++-+
T Consensus 161 kdd~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS 232 (234)
T KOG3268|consen 161 KDDELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS 232 (234)
T ss_pred cchhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
Confidence 4455677999976544433 23346799999999999999731 379999999987754
No 68
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.27 E-value=0.0012 Score=52.41 Aligned_cols=33 Identities=18% Similarity=0.467 Sum_probs=29.9
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCH
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHL 205 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~ 205 (231)
...++.-+|.||||++..++.+..|||-.+||+
T Consensus 172 VL~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 172 VLKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred hhcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 556777899999999999999999999999996
No 69
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.17 E-value=0.0057 Score=52.88 Aligned_cols=55 Identities=24% Similarity=0.546 Sum_probs=43.0
Q ss_pred CCCCCCccccccCccCCCCCce-ecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929 174 STEDEDVCPTCLDEYTPENPKI-TTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE 229 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~ 229 (231)
.......|||...+|......+ +-+|||+|...+|.+- .....||+|.+++...|
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED 164 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence 3567889999999996544444 4589999999999996 34678999999876443
No 70
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.14 E-value=0.005 Score=51.51 Aligned_cols=51 Identities=24% Similarity=0.564 Sum_probs=40.4
Q ss_pred CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc--------CCCCCccCCCCc
Q 046929 175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER--------SESCPICGKEME 226 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--------s~~CPvCr~~~~ 226 (231)
++-..-|..|-..+..++.+ .|-|-|+||.+|+.+|-.. .-.||-|..++-
T Consensus 47 sDY~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred cCCCCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 34466799999888877754 5679999999999999753 237999998863
No 71
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.05 E-value=0.003 Score=46.57 Aligned_cols=35 Identities=20% Similarity=0.459 Sum_probs=29.5
Q ss_pred CCCCCCccccccCccCCCCCceecCCCCccCHHHHH
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIY 209 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~ 209 (231)
..+++..|++|-..+.. ...++.||||+||..|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 44667889999999876 567889999999999975
No 72
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.76 E-value=0.0016 Score=56.34 Aligned_cols=43 Identities=26% Similarity=0.607 Sum_probs=34.3
Q ss_pred CCCccccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCCc
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
....|.||++...+ .+.|+|||. -|..|=. +-+.||+||+.|.
T Consensus 299 ~~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGk----rm~eCPICRqyi~ 342 (350)
T KOG4275|consen 299 TRRLCAICMDAPRD---CVFLECGHMVTCTKCGK----RMNECPICRQYIV 342 (350)
T ss_pred HHHHHHHHhcCCcc---eEEeecCcEEeehhhcc----ccccCchHHHHHH
Confidence 37889999999886 889999995 6777753 3459999998764
No 73
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.75 E-value=0.0098 Score=52.76 Aligned_cols=51 Identities=25% Similarity=0.543 Sum_probs=42.2
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHH--HHhcCCCCCccCCCCc
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYE--WLERSESCPICGKEME 226 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~--Wl~~s~~CPvCr~~~~ 226 (231)
...++...|.||-+.++. ..++||+|..|--|... -|-..+.||+||.+..
T Consensus 56 dtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 56 DTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 566778899999999886 88999999999999854 3456789999998753
No 74
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.72 E-value=0.0063 Score=54.15 Aligned_cols=48 Identities=25% Similarity=0.632 Sum_probs=36.0
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
......+.|.||+++..+ .+.+||||+-| |+.-- +.-.+||+||+.+.
T Consensus 300 ~~~~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred cccCCCCceEEecCCccc---eeeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 444567889999999887 88999999965 65443 23345999998764
No 75
>PHA03096 p28-like protein; Provisional
Probab=95.69 E-value=0.0059 Score=53.39 Aligned_cols=44 Identities=27% Similarity=0.588 Sum_probs=31.3
Q ss_pred CccccccCccCCCC-----CceecCCCCccCHHHHHHHHhcC---CCCCccC
Q 046929 179 DVCPTCLDEYTPEN-----PKITTRCSHHFHLGCIYEWLERS---ESCPICG 222 (231)
Q Consensus 179 ~~C~ICle~~~~~~-----~~~~l~C~H~Fh~~CI~~Wl~~s---~~CPvCr 222 (231)
.+|.||+|...... --++..|.|.||..||..|...+ .+||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 78999999876421 12345699999999999998643 3444444
No 76
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.67 E-value=0.0023 Score=40.36 Aligned_cols=35 Identities=43% Similarity=0.814 Sum_probs=25.1
Q ss_pred ceecCCC-CccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929 194 KITTRCS-HHFHLGCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 194 ~~~l~C~-H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
..+..|. |..|+.|+..-|.++..||+|+++++.+
T Consensus 13 k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 13 KGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred CCeeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 4466787 9999999999999999999999998764
No 77
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.32 E-value=0.0095 Score=53.91 Aligned_cols=47 Identities=21% Similarity=0.355 Sum_probs=37.3
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc--------CCCCCccCC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER--------SESCPICGK 223 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--------s~~CPvCr~ 223 (231)
.-..|.||+++..-....+.+||+|+||+.|+...+.. .-.||-++-
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 35689999999875578899999999999999988752 126877653
No 78
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.17 E-value=0.01 Score=36.96 Aligned_cols=41 Identities=22% Similarity=0.637 Sum_probs=23.7
Q ss_pred cccccCccCCCCCceecCCCCccCHHHHHHHHhcCC--CCCcc
Q 046929 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE--SCPIC 221 (231)
Q Consensus 181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~--~CPvC 221 (231)
|.+|.+....|..-....|+=.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 677888777655444446888999999999997655 79987
No 79
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.60 E-value=0.019 Score=50.07 Aligned_cols=47 Identities=32% Similarity=0.544 Sum_probs=36.1
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHh-cCCCCCcc-CCCCcC
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE-RSESCPIC-GKEMEF 227 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvC-r~~~~~ 227 (231)
..|+.|...+.+ ++++.-|+|.||..||..-|. .-..||.| |+.+.+
T Consensus 275 LkCplc~~Llrn--p~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvll 323 (427)
T COG5222 275 LKCPLCHCLLRN--PMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLL 323 (427)
T ss_pred ccCcchhhhhhC--cccCccccchHHHHHHhhhhhhccccCCCcccccchh
Confidence 789999887765 455545899999999998875 45689999 445444
No 80
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.56 E-value=0.019 Score=49.80 Aligned_cols=46 Identities=30% Similarity=0.605 Sum_probs=38.4
Q ss_pred CCccccccCccCCCC-CceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929 178 EDVCPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLERSESCPICGK 223 (231)
Q Consensus 178 ~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~ 223 (231)
...|+||.+.+.... .+..++|||.-|..|..+-....=+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 344999999987644 5678999999999999888766689999988
No 81
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.47 E-value=0.002 Score=57.72 Aligned_cols=51 Identities=20% Similarity=0.484 Sum_probs=43.5
Q ss_pred CCCccccccCccCCC-CCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929 177 DEDVCPTCLDEYTPE-NPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227 (231)
Q Consensus 177 ~~~~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~ 227 (231)
-...|+||.+.|... +....+-|||.+|.+||.+||.....||.|+.++..
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 456799999998764 456678899999999999999999999999988754
No 82
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.039 Score=48.65 Aligned_cols=54 Identities=24% Similarity=0.575 Sum_probs=43.4
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
....+...|+||+..-.+ +.++.-=|-+||..||...+...+.|||=..+..++
T Consensus 295 ~l~~~~~~CpvClk~r~N--ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~ 348 (357)
T KOG0826|consen 295 LLPPDREVCPVCLKKRQN--PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVD 348 (357)
T ss_pred cCCCccccChhHHhccCC--CceEEecceEEeHHHHHHHHHhcCCCCccCCcchHH
Confidence 455567899999998765 455555699999999999999999999987776543
No 83
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.79 E-value=0.03 Score=54.96 Aligned_cols=42 Identities=26% Similarity=0.725 Sum_probs=35.7
Q ss_pred CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCC
Q 046929 178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~ 224 (231)
...|.+|--.++. +.+-..|||.||..|+. +....||-|+-+
T Consensus 840 ~skCs~C~~~Ldl--P~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 840 VSKCSACEGTLDL--PFVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeeecccCCcccc--ceeeeecccHHHHHhhc---cCcccCCccchh
Confidence 4689999888776 78888999999999998 566799999864
No 84
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.40 E-value=0.069 Score=48.28 Aligned_cols=48 Identities=23% Similarity=0.495 Sum_probs=40.7
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC---CCCCccCCC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS---ESCPICGKE 224 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s---~~CPvCr~~ 224 (231)
...+|||=.+.-.++|++..|.|||+..++-|.+-.+.. ..||+|=.+
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 357899999999999999999999999999999976543 479999443
No 85
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.34 E-value=0.048 Score=48.09 Aligned_cols=46 Identities=26% Similarity=0.566 Sum_probs=36.3
Q ss_pred CCCCCCccccccCccCCCCCceecCC--CCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRC--SHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C--~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
...+-.+||||.+.+.. -+.+| ||+-|..|=. +.++.||.||.+|.
T Consensus 44 ~~~~lleCPvC~~~l~~----Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSP----PIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred cchhhccCchhhccCcc----cceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 34556789999999984 45678 5888888854 56889999999875
No 86
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.33 E-value=0.033 Score=48.74 Aligned_cols=44 Identities=23% Similarity=0.575 Sum_probs=30.6
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
-.|--|--.+.. --++++|.|+||++|... ..-+.||.|-.+|.
T Consensus 91 HfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 91 HFCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred EeecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 345556444332 356789999999999754 44679999977654
No 87
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.99 E-value=0.081 Score=46.96 Aligned_cols=54 Identities=20% Similarity=0.552 Sum_probs=37.4
Q ss_pred CCCCCCCccccccCccCCCCC-ceecCCCCccCHHHHHHHHh-cCCCCCccCCCCc
Q 046929 173 TSTEDEDVCPTCLDEYTPENP-KITTRCSHHFHLGCIYEWLE-RSESCPICGKEME 226 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~-~~~l~C~H~Fh~~CI~~Wl~-~s~~CPvCr~~~~ 226 (231)
...++++.|+.|+|+++..++ ..--+||-..|.-|...--+ -...||-||....
T Consensus 9 ~sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 9 NSEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred ccccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 355667779999999987443 33456887777777544322 3568999998654
No 88
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.82 E-value=0.092 Score=51.47 Aligned_cols=53 Identities=34% Similarity=0.765 Sum_probs=41.9
Q ss_pred CCCCccccccCccCCCCCceecCCC-----CccCHHHHHHHHhcC--CCCCccCCCCcCcC
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCS-----HHFHLGCIYEWLERS--ESCPICGKEMEFCE 229 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~s--~~CPvCr~~~~~~~ 229 (231)
++...|.||..+=..++++ .-||. -..|.+|+.+||+-+ ..|-+|+.++.|++
T Consensus 10 ~d~~~CRICr~e~~~d~pL-fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPL-FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCcC-cccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 4558999999987766655 34554 468999999999865 47999999998875
No 89
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.63 E-value=0.044 Score=53.46 Aligned_cols=44 Identities=32% Similarity=0.830 Sum_probs=36.4
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC--CCCccCCCCc
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE--SCPICGKEME 226 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~--~CPvCr~~~~ 226 (231)
..|.||++ .+ ..++++|+|.||.+|+.+-++.+. .||+||..+.
T Consensus 455 ~~c~ic~~-~~---~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD-LD---SFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc-cc---cceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 79999999 33 478899999999999998886543 6999997654
No 90
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.59 E-value=0.028 Score=57.39 Aligned_cols=45 Identities=33% Similarity=0.615 Sum_probs=39.0
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK 223 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~ 223 (231)
+...|.||++.+.. ...+..|||.+|..|+..|+.++..||+|+.
T Consensus 1152 ~~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 35689999999884 3556779999999999999999999999973
No 91
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.51 E-value=0.051 Score=46.43 Aligned_cols=55 Identities=24% Similarity=0.589 Sum_probs=39.6
Q ss_pred CCCCCCCccccccCccCCCCCc-eecCCC-----CccCHHHHHHHHhcCC--------CCCccCCCCcC
Q 046929 173 TSTEDEDVCPTCLDEYTPENPK-ITTRCS-----HHFHLGCIYEWLERSE--------SCPICGKEMEF 227 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~-~~l~C~-----H~Fh~~CI~~Wl~~s~--------~CPvCr~~~~~ 227 (231)
...+.+..|-||+..=+++-.. -+-||. |-.|..||..|+..++ +||.|+.+...
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 4557788999999885542222 245664 8899999999995442 69999987543
No 92
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.16 E-value=0.079 Score=51.53 Aligned_cols=30 Identities=27% Similarity=0.772 Sum_probs=26.0
Q ss_pred CCCceecCCCCccCHHHHHHHHhcCCCCCc
Q 046929 191 ENPKITTRCSHHFHLGCIYEWLERSESCPI 220 (231)
Q Consensus 191 ~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPv 220 (231)
+...+...|+|+-|.+|+.+|++....||.
T Consensus 1040 gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1040 GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 445567789999999999999999999985
No 93
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.30 E-value=0.093 Score=51.85 Aligned_cols=40 Identities=25% Similarity=0.498 Sum_probs=32.6
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE 213 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~ 213 (231)
...+..+.|.||.-.+-. .+-.+.+|||.||++||.+-..
T Consensus 812 ~v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 812 RVLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred EEecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence 455778999999888765 4677889999999999987653
No 94
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.80 E-value=0.12 Score=47.17 Aligned_cols=40 Identities=20% Similarity=0.531 Sum_probs=30.4
Q ss_pred CCCCcccccc-CccCCCCCceecCCCCccCHHHHHHHHhcC
Q 046929 176 EDEDVCPTCL-DEYTPENPKITTRCSHHFHLGCIYEWLERS 215 (231)
Q Consensus 176 ~~~~~C~ICl-e~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s 215 (231)
....+|.||+ +....+.......|+|.||.+|+.+.++.+
T Consensus 144 ~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 144 LPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 3567899999 544443444478899999999999888744
No 95
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.81 E-value=0.2 Score=43.89 Aligned_cols=49 Identities=24% Similarity=0.617 Sum_probs=37.6
Q ss_pred CCccccccCccCCCCC-ceecCCC-----CccCHHHHHHHHh--cCCCCCccCCCCc
Q 046929 178 EDVCPTCLDEYTPENP-KITTRCS-----HHFHLGCIYEWLE--RSESCPICGKEME 226 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~-~~~l~C~-----H~Fh~~CI~~Wl~--~s~~CPvCr~~~~ 226 (231)
+..|-||.++....+. ....+|. +..|..|+..|+. ....|.+|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 5789999998764321 4567775 6789999999997 5668999987544
No 96
>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=89.41 E-value=0.39 Score=30.77 Aligned_cols=43 Identities=28% Similarity=0.609 Sum_probs=21.3
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhc---CC--CCCccCCC
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER---SE--SCPICGKE 224 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---s~--~CPvCr~~ 224 (231)
..|+|....+.. +.+...|.|.-+.+ +..||+. .. .||+|+++
T Consensus 3 L~CPls~~~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 468888888765 77778899984433 3445542 22 69999874
No 97
>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=88.26 E-value=0.67 Score=36.91 Aligned_cols=37 Identities=16% Similarity=0.435 Sum_probs=22.1
Q ss_pred CCCccccccCccCCCC---------CceecCCC-CccCHHHHHHHHh
Q 046929 177 DEDVCPTCLDEYTPEN---------PKITTRCS-HHFHLGCIYEWLE 213 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~---------~~~~l~C~-H~Fh~~CI~~Wl~ 213 (231)
++-+|+||||--.+.- -.+-.-|+ -.-|..|+++.-+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 3568999999987610 00001133 2357899998743
No 98
>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=88.07 E-value=0.3 Score=44.15 Aligned_cols=53 Identities=21% Similarity=0.609 Sum_probs=34.9
Q ss_pred CCCCCCccccccCccCCCCCcee-------------------cC--CCCccCHHHHHHHHhc-------------CCCCC
Q 046929 174 STEDEDVCPTCLDEYTPENPKIT-------------------TR--CSHHFHLGCIYEWLER-------------SESCP 219 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~-------------------l~--C~H~Fh~~CI~~Wl~~-------------s~~CP 219 (231)
..++.+.|--|+..-.+ .+.. .+ |.=++|.+||-+|+.. +-.||
T Consensus 267 ~~~e~e~CigC~~~~~~--vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CP 344 (358)
T PF10272_consen 267 SGQELEPCIGCMQAQPN--VKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCP 344 (358)
T ss_pred CccccCCccccccCCCC--cEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCC
Confidence 44677888889886433 1111 12 3356799999999843 23799
Q ss_pred ccCCCCcCc
Q 046929 220 ICGKEMEFC 228 (231)
Q Consensus 220 vCr~~~~~~ 228 (231)
+||+++-.-
T Consensus 345 tCRa~FCil 353 (358)
T PF10272_consen 345 TCRAKFCIL 353 (358)
T ss_pred CCcccceee
Confidence 999986543
No 99
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.98 E-value=0.28 Score=41.01 Aligned_cols=38 Identities=24% Similarity=0.503 Sum_probs=28.5
Q ss_pred cccccCccCCCCCceecCCCCc-cCHHHHHHHHhcCCCCCccCCCC
Q 046929 181 CPTCLDEYTPENPKITTRCSHH-FHLGCIYEWLERSESCPICGKEM 225 (231)
Q Consensus 181 C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~s~~CPvCr~~~ 225 (231)
|-+|-+.=. .+.++||.|+ +|..|=.. -..||+|+...
T Consensus 161 Cr~C~~~~~---~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGEREA---TVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcCCc---eEEeecccceEeccccccc----CccCCCCcChh
Confidence 888877644 4889999985 88888533 45699998754
No 100
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=87.37 E-value=1.1 Score=29.30 Aligned_cols=46 Identities=22% Similarity=0.636 Sum_probs=32.8
Q ss_pred CCCccccccCccCCC-CCceecCCCCccCHHHHHHHHhcCCCCCc--cCCCCc
Q 046929 177 DEDVCPTCLDEYTPE-NPKITTRCSHHFHLGCIYEWLERSESCPI--CGKEME 226 (231)
Q Consensus 177 ~~~~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPv--Cr~~~~ 226 (231)
....|.+|-+.|.++ +.++...|+-.+|+.|.. +...|-+ |...+.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~----~~g~C~~~~c~~~~~ 52 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE----KAGGCINYSCGTGFE 52 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHh----hCCceEeccCCCCcc
Confidence 356899999999854 455666699999999943 3556655 665543
No 101
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.08 E-value=0.32 Score=46.43 Aligned_cols=51 Identities=35% Similarity=0.699 Sum_probs=42.3
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcCC
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCES 230 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~s 230 (231)
...+..+.|.||+++. ..+..+|. |..|+.+|+..+..||+|++.+..++.
T Consensus 474 ~l~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 474 QLREPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred hhhcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 4456688999999998 35667787 899999999999999999998877653
No 102
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=86.00 E-value=0.27 Score=47.05 Aligned_cols=45 Identities=27% Similarity=0.683 Sum_probs=31.0
Q ss_pred CCCCCccccccCc-----cCCCCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 046929 175 TEDEDVCPTCLDE-----YTPENPKITTRCSHHFHLGCIYEWLERSESCPICG 222 (231)
Q Consensus 175 ~~~~~~C~ICle~-----~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr 222 (231)
......|.||... |..++..+...|+++||..|. -+++..||.|-
T Consensus 508 ~~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~---~r~s~~CPrC~ 557 (580)
T KOG1829|consen 508 TGKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCL---RRKSPCCPRCE 557 (580)
T ss_pred ccCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHH---hccCCCCCchH
Confidence 3456788888432 333455677889999999994 34555699993
No 103
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.76 E-value=0.44 Score=41.61 Aligned_cols=30 Identities=23% Similarity=0.578 Sum_probs=23.0
Q ss_pred CCCccCHHHHHHHHh-------------cCCCCCccCCCCcCc
Q 046929 199 CSHHFHLGCIYEWLE-------------RSESCPICGKEMEFC 228 (231)
Q Consensus 199 C~H~Fh~~CI~~Wl~-------------~s~~CPvCr~~~~~~ 228 (231)
|.-++|.+|+.+|+. .+-+||+||+++-+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 556788999988864 345899999987543
No 104
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=84.34 E-value=0.23 Score=48.18 Aligned_cols=47 Identities=26% Similarity=0.662 Sum_probs=38.1
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc---CCCCCccCCCCc
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER---SESCPICGKEME 226 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---s~~CPvCr~~~~ 226 (231)
...+|+||++.+.. .+.+.|.|.|+..|+..-|+. ...||+|+..+.
T Consensus 20 k~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 20 KILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hhccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 35689999999986 588999999999999766543 458999986554
No 105
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=83.39 E-value=1 Score=34.84 Aligned_cols=52 Identities=15% Similarity=0.328 Sum_probs=36.5
Q ss_pred CCCccccccCccCCCCCceec-CCCCccCHHHHHHHHh---cCCCCCccCCCCcCc
Q 046929 177 DEDVCPTCLDEYTPENPKITT-RCSHHFHLGCIYEWLE---RSESCPICGKEMEFC 228 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l-~C~H~Fh~~CI~~Wl~---~s~~CPvCr~~~~~~ 228 (231)
.-.+|.||.|.-.++.-+.-- =||-..|..|...-++ ....||+|+..+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 678999999987763322211 2898889888765444 356899999876543
No 106
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.88 E-value=1.2 Score=41.52 Aligned_cols=40 Identities=23% Similarity=0.520 Sum_probs=33.3
Q ss_pred CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS 215 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s 215 (231)
.......|-||.+.+.. ..+.+.|+|.|+..|+..-|.++
T Consensus 66 ~~~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 66 KKKGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CCCccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 34567899999999875 57788999999999999988653
No 107
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.57 E-value=1.4 Score=43.52 Aligned_cols=52 Identities=15% Similarity=0.311 Sum_probs=36.2
Q ss_pred CCCCCCccccccCccCCC-C---CceecCCCCccCHHHHHHHHhc------CCCCCccCCCC
Q 046929 174 STEDEDVCPTCLDEYTPE-N---PKITTRCSHHFHLGCIYEWLER------SESCPICGKEM 225 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~-~---~~~~l~C~H~Fh~~CI~~Wl~~------s~~CPvCr~~~ 225 (231)
...+.+.|.||.-++... + ...+-.|+|.||..||..|+.+ .-.|++|..-|
T Consensus 92 K~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 92 KTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 334567788888877761 1 2333459999999999999853 23688887544
No 108
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=78.80 E-value=1.7 Score=38.45 Aligned_cols=47 Identities=26% Similarity=0.493 Sum_probs=38.9
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhc---CCCCCccCC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER---SESCPICGK 223 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---s~~CPvCr~ 223 (231)
.-..||+=.+.-+.+|++..|.|||+.-+.-+..--+. +..||+|-.
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 45789999999999999999999999999888875443 347999943
No 109
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.35 E-value=0.79 Score=45.03 Aligned_cols=45 Identities=24% Similarity=0.609 Sum_probs=34.2
Q ss_pred CCCCccccccCccCC-C---CCceecCCCCccCHHHHHHHHhcCCCCCcc
Q 046929 176 EDEDVCPTCLDEYTP-E---NPKITTRCSHHFHLGCIYEWLERSESCPIC 221 (231)
Q Consensus 176 ~~~~~C~ICle~~~~-~---~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvC 221 (231)
..+..|.-|++.... + +..+++.|+|.||+.|+..-+.+++ |-.|
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 345589999988764 2 3678899999999999988776665 5444
No 110
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=77.93 E-value=1.8 Score=36.01 Aligned_cols=42 Identities=24% Similarity=0.714 Sum_probs=31.2
Q ss_pred CCCCccccccCc-----cCCCCCceecCCCCccCHHHHHHHHhcCCCCCccC
Q 046929 176 EDEDVCPTCLDE-----YTPENPKITTRCSHHFHLGCIYEWLERSESCPICG 222 (231)
Q Consensus 176 ~~~~~C~ICle~-----~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr 222 (231)
.....|-||-+. |+.+.......|+-+||..|.. +..||-|.
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 346789999753 3434566677899999999965 27799994
No 112
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.95 E-value=0.91 Score=43.74 Aligned_cols=40 Identities=23% Similarity=0.602 Sum_probs=31.0
Q ss_pred CCccccccCccCCCC-CceecCCCCccCHHHHHHHHhcCCCCC
Q 046929 178 EDVCPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLERSESCP 219 (231)
Q Consensus 178 ~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~s~~CP 219 (231)
-..|.||+..|.... ..+-+.|||..|..|+..-.+ .+||
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 456999998887644 567788999999999987544 4666
No 113
>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=70.64 E-value=1.8 Score=36.90 Aligned_cols=47 Identities=26% Similarity=0.692 Sum_probs=34.2
Q ss_pred CCCccccccCccCC-CC-CceecC-CCCccCHHHHHHHHhcC-CCCC--ccCC
Q 046929 177 DEDVCPTCLDEYTP-EN-PKITTR-CSHHFHLGCIYEWLERS-ESCP--ICGK 223 (231)
Q Consensus 177 ~~~~C~ICle~~~~-~~-~~~~l~-C~H~Fh~~CI~~Wl~~s-~~CP--vCr~ 223 (231)
.+..||||..+-.. .+ ...+-| |-|..|-+|+..-+.+. ..|| -|.+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 45689999987543 23 223334 99999999999999765 5799 6754
No 114
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=69.35 E-value=2.3 Score=35.54 Aligned_cols=45 Identities=29% Similarity=0.682 Sum_probs=35.9
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGK 223 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~ 223 (231)
.-..|.+|..-.-. ..+.-.|+=.+|..||.+.+.+...||.|..
T Consensus 180 nlk~Cn~Ch~LvIq--g~rCg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQ--GIRCGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHHHhHhHHHhhe--eeccCcccchhhhHHHHHHhcccCcCCchhc
Confidence 45689999887554 2344567788999999999999999999954
No 115
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=67.95 E-value=5.5 Score=35.47 Aligned_cols=51 Identities=22% Similarity=0.477 Sum_probs=39.1
Q ss_pred CCccccccCccCCCC-CceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929 178 EDVCPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 178 ~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
...|+||.+.....+ ...-.+|++.-|+.|...-......||.||+.....
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 478999999875433 333446889889999888888889999999876543
No 116
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.83 E-value=2.8 Score=36.57 Aligned_cols=36 Identities=22% Similarity=0.509 Sum_probs=29.2
Q ss_pred CCCccccccCccCCCCCceecCC----CCccCHHHHHHHHhcC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRC----SHHFHLGCIYEWLERS 215 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C----~H~Fh~~CI~~Wl~~s 215 (231)
....|.+|.|-+++ ....+| .|+||..|-.+-+++.
T Consensus 267 apLcCTLC~ERLED---THFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLED---THFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred Cceeehhhhhhhcc---CceeecCCCcccceecccCHHHHHhh
Confidence 45889999999997 444456 5999999999999864
No 117
>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=66.96 E-value=2.1 Score=26.88 Aligned_cols=44 Identities=20% Similarity=0.462 Sum_probs=29.3
Q ss_pred ccccccCccCCCCCceecCCCCccCHHHHHHHHh------cCCCCCccCC
Q 046929 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE------RSESCPICGK 223 (231)
Q Consensus 180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~------~s~~CPvCr~ 223 (231)
.|.||...-..+.-+.--.|+..||..|+..=.. ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 4889988544444555567899999999864332 1336877753
No 118
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=65.26 E-value=5 Score=39.54 Aligned_cols=44 Identities=18% Similarity=0.386 Sum_probs=30.9
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCc--cCC
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPI--CGK 223 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPv--Cr~ 223 (231)
..|.+|-..+. |.-.-...|+|.-|.+|+++|+....-||. |.+
T Consensus 780 ~~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~ 825 (839)
T KOG0269|consen 780 AKCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPH 825 (839)
T ss_pred cCceeecceee-eeEeecccccccccHHHHHHHHhcCCCCccccCCc
Confidence 35677755433 222233459999999999999999888876 543
No 119
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=63.83 E-value=0.41 Score=32.91 Aligned_cols=41 Identities=27% Similarity=0.697 Sum_probs=22.2
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEF 227 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~ 227 (231)
..||+|..+++..+ +|.+|..|-.. ++....||-|.++|..
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHHH
Confidence 47999988876522 55666666543 3556789999888753
No 120
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=63.78 E-value=6.8 Score=27.46 Aligned_cols=51 Identities=18% Similarity=0.394 Sum_probs=21.7
Q ss_pred CCCCccccccCccCC---CCC-ceecCCCCccCHHHHHH-HHhcCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTP---ENP-KITTRCSHHFHLGCIYE-WLERSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~---~~~-~~~l~C~H~Fh~~CI~~-Wl~~s~~CPvCr~~~~ 226 (231)
.....|-||-++.-. |+. +....|+--.|..|..- .-+.++.||.|+....
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 456789999998753 332 33455888899999854 3356789999987643
No 121
>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=60.99 E-value=15 Score=24.11 Aligned_cols=46 Identities=30% Similarity=0.675 Sum_probs=31.3
Q ss_pred ccccccCccCCCCCceecCCC--CccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929 180 VCPTCLDEYTPENPKITTRCS--HHFHLGCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 180 ~C~ICle~~~~~~~~~~l~C~--H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
.|-.|-.++..+..-. .-|. ..||.+|...-| .+.||-|.-.+...
T Consensus 7 nCE~C~~dLp~~s~~A-~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEA-YICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CccccCCCCCCCCCcc-eEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 4666666666544222 2255 479999999876 67999999887643
No 122
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=60.41 E-value=2.9 Score=38.17 Aligned_cols=31 Identities=26% Similarity=0.666 Sum_probs=0.0
Q ss_pred CCceecCCCCccCHHHHHHHHhc------CCCCCccCCCC
Q 046929 192 NPKITTRCSHHFHLGCIYEWLER------SESCPICGKEM 225 (231)
Q Consensus 192 ~~~~~l~C~H~Fh~~CI~~Wl~~------s~~CPvCr~~~ 225 (231)
++-+.|.|||++.. ..|-.+ ..+||+||+.=
T Consensus 302 qP~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 302 QPWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp ----------------------------------------
T ss_pred Cceeeccccceeee---cccccccccccccccCCCccccC
Confidence 35677899998765 457532 45899999753
No 123
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=60.28 E-value=7.8 Score=33.27 Aligned_cols=38 Identities=21% Similarity=0.258 Sum_probs=32.2
Q ss_pred CCCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHh
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE 213 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~ 213 (231)
....+-+.|..||..+.+ +++.+=||+|+.+||.+.+.
T Consensus 38 DsiK~FdcCsLtLqPc~d---Pvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPCRD---PVITPDGYLFDREAILEYIL 75 (303)
T ss_pred cccCCcceeeeecccccC---CccCCCCeeeeHHHHHHHHH
Confidence 344567889999999987 78888999999999998874
No 124
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=60.09 E-value=4.4 Score=26.93 Aligned_cols=18 Identities=28% Similarity=0.861 Sum_probs=13.1
Q ss_pred HHHhc------CCCCCccCCCCcC
Q 046929 210 EWLER------SESCPICGKEMEF 227 (231)
Q Consensus 210 ~Wl~~------s~~CPvCr~~~~~ 227 (231)
-||+. ...||+|+.+|.-
T Consensus 28 gWmR~nFs~~~~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 28 GWMRDNFSFEEEPVCPLCKSPMVS 51 (59)
T ss_pred cccccccccCCCccCCCcCCcccc
Confidence 37654 3589999998854
No 125
>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=58.22 E-value=8.8 Score=21.91 Aligned_cols=38 Identities=21% Similarity=0.543 Sum_probs=24.4
Q ss_pred ccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 180 VCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
.|..|-+.+..+. ..+..=+..||..|. .|..|++.|.
T Consensus 1 ~C~~C~~~i~~~~-~~~~~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 1 KCAGCGKPIRGGE-LVLRALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred CccccCCcccCCc-EEEEeCCccccccCC--------CCcccCCcCc
Confidence 3777888776542 222223678888874 7888877663
No 126
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=56.97 E-value=6 Score=23.36 Aligned_cols=25 Identities=28% Similarity=0.829 Sum_probs=15.9
Q ss_pred ccccccCccCCCC--------CceecCCCCccC
Q 046929 180 VCPTCLDEYTPEN--------PKITTRCSHHFH 204 (231)
Q Consensus 180 ~C~ICle~~~~~~--------~~~~l~C~H~Fh 204 (231)
+|+=|.-.|..++ .+....|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 5788888877633 233455777764
No 127
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=56.64 E-value=42 Score=29.93 Aligned_cols=47 Identities=6% Similarity=-0.154 Sum_probs=35.6
Q ss_pred CCCCCCccccccCccCCCCCceecCCCC-ccCHHHHHHHHhcCCCCCccCCCC
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSH-HFHLGCIYEWLERSESCPICGKEM 225 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H-~Fh~~CI~~Wl~~s~~CPvCr~~~ 225 (231)
.......|..|-+.... .++.+|+| +|+.+|.. +..+.+||+|...+
T Consensus 339 ~~~s~~~~~~~~~~~~s---t~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 339 GLMSSLKGTSAGFGLLS---TIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred cchhhcccccccCceee---eEeecCCcccChhhhhh--cccCCccccccccc
Confidence 33446678888776654 77889998 69999987 67788999997653
No 128
>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=53.92 E-value=8.5 Score=21.09 Aligned_cols=23 Identities=30% Similarity=0.733 Sum_probs=10.1
Q ss_pred ccccccCccCCCCCceecCCCCcc
Q 046929 180 VCPTCLDEYTPENPKITTRCSHHF 203 (231)
Q Consensus 180 ~C~ICle~~~~~~~~~~l~C~H~F 203 (231)
.||-|...+.. .......|||.|
T Consensus 2 ~CP~C~~~V~~-~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE-SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh-hcCcCCCCCCCC
Confidence 45555555432 122233355554
No 129
>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=52.99 E-value=6.4 Score=25.34 Aligned_cols=27 Identities=30% Similarity=0.832 Sum_probs=13.6
Q ss_pred eecCCCCccCHHHHHHHH-hcCCCCCccC
Q 046929 195 ITTRCSHHFHLGCIYEWL-ERSESCPICG 222 (231)
Q Consensus 195 ~~l~C~H~Fh~~CI~~Wl-~~s~~CPvCr 222 (231)
....|+++|+.+|= ..+ +.=.+||-|-
T Consensus 23 ~C~~C~~~FC~dCD-~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 23 RCPKCKNHFCIDCD-VFIHETLHNCPGCE 50 (51)
T ss_dssp --TTTT--B-HHHH-HTTTTTS-SSSTT-
T ss_pred ECCCCCCccccCcC-hhhhccccCCcCCC
Confidence 34569999999993 222 3446898873
No 130
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=52.91 E-value=8.9 Score=26.00 Aligned_cols=12 Identities=25% Similarity=0.852 Sum_probs=8.7
Q ss_pred ccCHHHHHHHHh
Q 046929 202 HFHLGCIYEWLE 213 (231)
Q Consensus 202 ~Fh~~CI~~Wl~ 213 (231)
-||..|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999985
No 131
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.19 E-value=4.6 Score=35.57 Aligned_cols=49 Identities=27% Similarity=0.621 Sum_probs=39.7
Q ss_pred CCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 046929 175 TEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM 225 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~ 225 (231)
....+.|-||.-.|.. +.....|.|.|+..|-..|.+..+.||.|+...
T Consensus 102 ~~~~~~~~~~~g~l~v--pt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTV--PTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred cCCccceeeeeeeEEe--cccccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 4567789999888876 333445999999999999999999999998754
No 132
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=52.01 E-value=7.7 Score=23.00 Aligned_cols=25 Identities=24% Similarity=0.744 Sum_probs=15.7
Q ss_pred ccccccCccCCCC--------CceecCCCCccC
Q 046929 180 VCPTCLDEYTPEN--------PKITTRCSHHFH 204 (231)
Q Consensus 180 ~C~ICle~~~~~~--------~~~~l~C~H~Fh 204 (231)
+|+-|...|...+ .++...|+|.|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 5888888776533 334455777764
No 133
>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=51.58 E-value=9.2 Score=27.64 Aligned_cols=36 Identities=22% Similarity=0.676 Sum_probs=28.5
Q ss_pred CCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCC
Q 046929 178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEM 225 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~ 225 (231)
...|-||-..... =+|+||..|.++ ...|.+|.+.|
T Consensus 44 ~~~C~~CK~~v~q--------~g~~YCq~CAYk----kGiCamCGKki 79 (90)
T PF10235_consen 44 SSKCKICKTKVHQ--------PGAKYCQTCAYK----KGICAMCGKKI 79 (90)
T ss_pred Ccccccccccccc--------CCCccChhhhcc----cCcccccCCee
Confidence 4579999765443 378899999876 78999999887
No 134
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=50.77 E-value=17 Score=32.46 Aligned_cols=48 Identities=23% Similarity=0.451 Sum_probs=35.4
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKE 224 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~ 224 (231)
....|-.|.++......-+.-.|.|+||.+|=.--=+.=..||-|...
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 445599998887776667777899999999944332444689999743
No 135
>PLN02189 cellulose synthase
Probab=50.71 E-value=18 Score=37.14 Aligned_cols=51 Identities=24% Similarity=0.455 Sum_probs=35.9
Q ss_pred CCCCccccccCccCC---CCCce-ecCCCCccCHHHHHH-HHhcCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTP---ENPKI-TTRCSHHFHLGCIYE-WLERSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~---~~~~~-~l~C~H~Fh~~CI~~-Wl~~s~~CPvCr~~~~ 226 (231)
.....|.||-++... |+.-+ .--|+--.|..|.+- .-+.++.||.|++...
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 345699999999763 33333 334888899999943 3345679999998765
No 136
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=49.86 E-value=7.9 Score=33.54 Aligned_cols=48 Identities=29% Similarity=0.499 Sum_probs=33.3
Q ss_pred CCccccccCccCCCCCcee----cCCCCccCHHHHHHHH-hc--------CCCCCccCCCC
Q 046929 178 EDVCPTCLDEYTPENPKIT----TRCSHHFHLGCIYEWL-ER--------SESCPICGKEM 225 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~----l~C~H~Fh~~CI~~Wl-~~--------s~~CPvCr~~~ 225 (231)
..+|-||.+++...+..+. ..|.-++|..|+..-+ .. ...||.|++.+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 3689999999943222221 2388899999998843 22 35899998853
No 137
>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=49.74 E-value=4.8 Score=25.86 Aligned_cols=10 Identities=40% Similarity=1.590 Sum_probs=5.1
Q ss_pred CCCccCCCCc
Q 046929 217 SCPICGKEME 226 (231)
Q Consensus 217 ~CPvCr~~~~ 226 (231)
.||+|..+|.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 8999988764
No 138
>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 KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.99 E-value=16 Score=31.43 Aligned_cols=51 Identities=18% Similarity=0.301 Sum_probs=36.4
Q ss_pred CCCccccccCccCCCC-CceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929 177 DEDVCPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE 229 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~ 229 (231)
....|+|=--+|.... -..+-+|||+|-..-+.+. ...+|++|...+..++
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 4567888766665322 2345679999998887773 4789999998876544
No 140
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=46.10 E-value=33 Score=25.84 Aligned_cols=46 Identities=20% Similarity=0.422 Sum_probs=34.1
Q ss_pred CCccccccCccCCCC-----------CceecCCCCccCHHHHHHHHhcCCCCCccCC
Q 046929 178 EDVCPTCLDEYTPEN-----------PKITTRCSHHFHLGCIYEWLERSESCPICGK 223 (231)
Q Consensus 178 ~~~C~ICle~~~~~~-----------~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~ 223 (231)
...|--|+..|.... .-....|+++|+.+|=.-|-+.=..||-|..
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 356999999886421 1225679999999997777777789999963
No 141
>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=45.45 E-value=7.9 Score=25.91 Aligned_cols=38 Identities=11% Similarity=0.323 Sum_probs=19.7
Q ss_pred CCCCCccccccCccCCCCCc-eecCCCCccCHHHHHHHH
Q 046929 175 TEDEDVCPTCLDEYTPENPK-ITTRCSHHFHLGCIYEWL 212 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl 212 (231)
..+...|.+|...|..-... ..-.||++|+..|....+
T Consensus 6 d~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 6 DSEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GGG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 35577899999999763322 234599999999986554
No 142
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=43.63 E-value=28 Score=36.01 Aligned_cols=51 Identities=24% Similarity=0.503 Sum_probs=36.8
Q ss_pred CCCCccccccCccCC---CCC-ceecCCCCccCHHHHH-HHHhcCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTP---ENP-KITTRCSHHFHLGCIY-EWLERSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~---~~~-~~~l~C~H~Fh~~CI~-~Wl~~s~~CPvCr~~~~ 226 (231)
....+|-||-++... |+. +..--|+--.|..|.+ +.-+.++.||.|+....
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 345699999999764 332 3345588889999994 44456789999988654
No 143
>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=43.35 E-value=21 Score=22.66 Aligned_cols=36 Identities=17% Similarity=0.366 Sum_probs=26.6
Q ss_pred CCccccccCccCCCC-CceecCCCCccCHHHHHHHHh
Q 046929 178 EDVCPTCLDEYTPEN-PKITTRCSHHFHLGCIYEWLE 213 (231)
Q Consensus 178 ~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~ 213 (231)
...|.+|-..|.... ....-.||++|+..|....+.
T Consensus 2 ~~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 2 ASSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 357999988888643 233456999999999877654
No 144
>PLN02436 cellulose synthase A
Probab=41.90 E-value=30 Score=35.81 Aligned_cols=51 Identities=22% Similarity=0.447 Sum_probs=35.6
Q ss_pred CCCCccccccCccCC---CCCc-eecCCCCccCHHHHHH-HHhcCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTP---ENPK-ITTRCSHHFHLGCIYE-WLERSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~---~~~~-~~l~C~H~Fh~~CI~~-Wl~~s~~CPvCr~~~~ 226 (231)
....+|-||-|+... |+.- ..--|+--.|..|.+- .-+.++.||.|++...
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 345699999999743 4433 3344888899999943 2245679999998765
No 145
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.76 E-value=18 Score=25.06 Aligned_cols=26 Identities=31% Similarity=0.602 Sum_probs=20.5
Q ss_pred CCccCHHHHHHHHhcCCCCCccCCCCcC
Q 046929 200 SHHFHLGCIYEWLERSESCPICGKEMEF 227 (231)
Q Consensus 200 ~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~ 227 (231)
.|.||.+|...-| +..||-|.-++.-
T Consensus 28 EcTFCadCae~~l--~g~CPnCGGelv~ 53 (84)
T COG3813 28 ECTFCADCAENRL--HGLCPNCGGELVA 53 (84)
T ss_pred eeehhHhHHHHhh--cCcCCCCCchhhc
Confidence 3789999998744 5699999887653
No 146
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=41.55 E-value=22 Score=20.38 Aligned_cols=9 Identities=44% Similarity=1.295 Sum_probs=6.5
Q ss_pred CCCCCccCC
Q 046929 215 SESCPICGK 223 (231)
Q Consensus 215 s~~CPvCr~ 223 (231)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 448888865
No 147
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=40.45 E-value=18 Score=20.11 Aligned_cols=29 Identities=17% Similarity=0.350 Sum_probs=10.4
Q ss_pred ccccccCccCCCCCceecCCCCccCHHHH
Q 046929 180 VCPTCLDEYTPENPKITTRCSHHFHLGCI 208 (231)
Q Consensus 180 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI 208 (231)
.|.+|.+....+..-.-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 47777777654233455678888898886
No 148
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=40.05 E-value=25 Score=25.69 Aligned_cols=33 Identities=21% Similarity=0.284 Sum_probs=22.8
Q ss_pred CCCccccccCccCCCCCceecC--CCCccCHHHHHHH
Q 046929 177 DEDVCPTCLDEYTPENPKITTR--CSHHFHLGCIYEW 211 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~--C~H~Fh~~CI~~W 211 (231)
....|.||.... |-.+.... |...||..|...+
T Consensus 54 ~~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSG--GACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHHC
Confidence 467899999872 22333333 7789999998653
No 149
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=39.55 E-value=17 Score=27.38 Aligned_cols=46 Identities=20% Similarity=0.501 Sum_probs=29.9
Q ss_pred CCCccccccCccCC--CCCceecCCCCccCHHHHHHHHhcCC--CCCccCC
Q 046929 177 DEDVCPTCLDEYTP--ENPKITTRCSHHFHLGCIYEWLERSE--SCPICGK 223 (231)
Q Consensus 177 ~~~~C~ICle~~~~--~~~~~~l~C~H~Fh~~CI~~Wl~~s~--~CPvCr~ 223 (231)
.+..|.+|...|.. +.......|+|.+|..|-.. ..... .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 56799999998753 34567788999999999544 11111 4777754
No 150
>PRK11827 hypothetical protein; Provisional
Probab=39.25 E-value=11 Score=25.12 Aligned_cols=20 Identities=20% Similarity=0.504 Sum_probs=13.6
Q ss_pred HHHHhcCCCCCccCCCCcCc
Q 046929 209 YEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 209 ~~Wl~~s~~CPvCr~~~~~~ 228 (231)
++||..--.||+|+.++..+
T Consensus 2 d~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred ChHHHhheECCCCCCcCeEc
Confidence 35666666788888777654
No 151
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.02 E-value=9.7 Score=29.61 Aligned_cols=52 Identities=21% Similarity=0.459 Sum_probs=27.9
Q ss_pred CCCCCCCccccccCc-cCCCCCceecCCCCccCHHHHHHHHhcCC----CCCccCCC
Q 046929 173 TSTEDEDVCPTCLDE-YTPENPKITTRCSHHFHLGCIYEWLERSE----SCPICGKE 224 (231)
Q Consensus 173 ~~~~~~~~C~ICle~-~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~----~CPvCr~~ 224 (231)
.-.+++.+|-||+.. |.+|--....-|.-.||..|--+--.+++ .|-+|++.
T Consensus 60 aGv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cccCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 344678899999876 33333333333444455555433222332 57777664
No 152
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=38.56 E-value=15 Score=19.98 Aligned_cols=9 Identities=44% Similarity=1.353 Sum_probs=7.1
Q ss_pred CCCccCCCC
Q 046929 217 SCPICGKEM 225 (231)
Q Consensus 217 ~CPvCr~~~ 225 (231)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 589998776
No 153
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=37.41 E-value=39 Score=30.17 Aligned_cols=54 Identities=20% Similarity=0.498 Sum_probs=36.0
Q ss_pred CCCCCCCccccccCccCC---------------CCC-ceecCCCCccCHHHHHHHHhc---------CCCCCccCCCCc
Q 046929 173 TSTEDEDVCPTCLDEYTP---------------ENP-KITTRCSHHFHLGCIYEWLER---------SESCPICGKEME 226 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~---------------~~~-~~~l~C~H~Fh~~CI~~Wl~~---------s~~CPvCr~~~~ 226 (231)
.....+.+|++|+..=.. |-+ -...||||+--..=..-|-+. +..||.|-..+.
T Consensus 336 ~~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 336 NTGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred ccCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 334457899999875211 111 234589999888888888653 347999987654
No 154
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=36.93 E-value=5.7 Score=34.91 Aligned_cols=40 Identities=23% Similarity=0.434 Sum_probs=31.1
Q ss_pred CCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcC
Q 046929 176 EDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS 215 (231)
Q Consensus 176 ~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s 215 (231)
....+|.||+++|..+.......|.-+||..||-.|+...
T Consensus 212 k~~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 212 KPIRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred CCceecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 3445999999999865555566666699999999999654
No 155
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=36.86 E-value=5.5 Score=21.13 Aligned_cols=9 Identities=44% Similarity=1.198 Sum_probs=4.3
Q ss_pred CCCCccCCC
Q 046929 216 ESCPICGKE 224 (231)
Q Consensus 216 ~~CPvCr~~ 224 (231)
+.||.|.++
T Consensus 14 ~fC~~CG~~ 22 (23)
T PF13240_consen 14 KFCPNCGTP 22 (23)
T ss_pred cchhhhCCc
Confidence 345555443
No 156
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=36.71 E-value=14 Score=23.42 Aligned_cols=37 Identities=22% Similarity=0.618 Sum_probs=18.3
Q ss_pred cccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCc
Q 046929 181 CPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEME 226 (231)
Q Consensus 181 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~ 226 (231)
|..|...+..+. .++..-+..||..|. .|=.|++.|.
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~~~H~~Cf--------~C~~C~~~l~ 37 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGKFWHPECF--------KCSKCGKPLN 37 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTEEEETTTS--------BETTTTCBTT
T ss_pred CCCCCCCccCcE-EEEEeCCcEEEcccc--------ccCCCCCccC
Confidence 445555555322 222234556666553 5566655543
No 157
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.09 E-value=18 Score=33.09 Aligned_cols=45 Identities=24% Similarity=0.520 Sum_probs=31.8
Q ss_pred CCCCccccccCccCC--C-CCceecCCCCccCHHHHHHHHhcCCCCCcc
Q 046929 176 EDEDVCPTCLDEYTP--E-NPKITTRCSHHFHLGCIYEWLERSESCPIC 221 (231)
Q Consensus 176 ~~~~~C~ICle~~~~--~-~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvC 221 (231)
.....|++|.-.+.. | +.+... |||.||..|...|......|.-|
T Consensus 304 ~~wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 304 KRWRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred HhcCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 346678888776653 2 233334 99999999999998777766544
No 158
>PLN02400 cellulose synthase
Probab=36.06 E-value=29 Score=35.88 Aligned_cols=51 Identities=18% Similarity=0.452 Sum_probs=36.1
Q ss_pred CCCCccccccCccCC---CCC-ceecCCCCccCHHHHH-HHHhcCCCCCccCCCCc
Q 046929 176 EDEDVCPTCLDEYTP---ENP-KITTRCSHHFHLGCIY-EWLERSESCPICGKEME 226 (231)
Q Consensus 176 ~~~~~C~ICle~~~~---~~~-~~~l~C~H~Fh~~CI~-~Wl~~s~~CPvCr~~~~ 226 (231)
....+|-||=|+... |+. +..--|+--.|..|.+ +.-+.++.||.|+....
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 345699999999764 332 3445588889999994 33345679999988654
No 159
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=34.09 E-value=23 Score=22.64 Aligned_cols=23 Identities=26% Similarity=0.911 Sum_probs=13.0
Q ss_pred CCCCccCHHHHHHHHhcCCCCCcc
Q 046929 198 RCSHHFHLGCIYEWLERSESCPIC 221 (231)
Q Consensus 198 ~C~H~Fh~~CI~~Wl~~s~~CPvC 221 (231)
.|||.|-.. |..-..+...||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-HhhhccCCCCCCCC
Confidence 466665443 22222566789988
No 160
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.67 E-value=7 Score=34.04 Aligned_cols=48 Identities=23% Similarity=0.459 Sum_probs=37.0
Q ss_pred CCCccccccCccCCC---CCceecC--------CCCccCHHHHHHHHhcC-CCCCccCCC
Q 046929 177 DEDVCPTCLDEYTPE---NPKITTR--------CSHHFHLGCIYEWLERS-ESCPICGKE 224 (231)
Q Consensus 177 ~~~~C~ICle~~~~~---~~~~~l~--------C~H~Fh~~CI~~Wl~~s-~~CPvCr~~ 224 (231)
....|.||...|... ....++. |+|..+..||..-+.+. -.||.|+..
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 346799999999832 2344555 99999999999988655 489999863
No 161
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=31.49 E-value=10 Score=23.04 Aligned_cols=29 Identities=28% Similarity=0.633 Sum_probs=15.5
Q ss_pred ecCCCCccCHHHHHHHHhcCCCCCccCC-CC
Q 046929 196 TTRCSHHFHLGCIYEWLERSESCPICGK-EM 225 (231)
Q Consensus 196 ~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~-~~ 225 (231)
...|||.|-.---..= .....||.|+. .+
T Consensus 8 C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~~ 37 (42)
T PF09723_consen 8 CEECGHEFEVLQSISE-DDPVPCPECGSTEV 37 (42)
T ss_pred eCCCCCEEEEEEEcCC-CCCCcCCCCCCCce
Confidence 3467777754211000 12347999988 44
No 162
>KOG2017 consensus Molybdopterin synthase sulfurylase [Coenzyme transport and metabolism]
Probab=31.47 E-value=17 Score=32.94 Aligned_cols=26 Identities=19% Similarity=0.261 Sum_probs=15.6
Q ss_pred CCCCCCCccccccCccCCCCCceecC
Q 046929 173 TSTEDEDVCPTCLDEYTPENPKITTR 198 (231)
Q Consensus 173 ~~~~~~~~C~ICle~~~~~~~~~~l~ 198 (231)
...+..+.+.||.-.-+....+..|+
T Consensus 373 ~~~~~~~I~ViCrrGNdSQ~Av~~Lr 398 (427)
T KOG2017|consen 373 LNTESKDIFVICRRGNDSQRAVRILR 398 (427)
T ss_pred ccccCCCEEEEeCCCCchHHHHHHHH
Confidence 34455678999987765433334444
No 163
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=31.29 E-value=26 Score=30.21 Aligned_cols=45 Identities=24% Similarity=0.485 Sum_probs=34.8
Q ss_pred CCccccccCccCCCCCceecCCCCccCHHHHHHHHhc--CCCCCccCCC
Q 046929 178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLER--SESCPICGKE 224 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--s~~CPvCr~~ 224 (231)
...|||=+..+.+ +++-..|||+|-.+=|...+.. .-.||+=..+
T Consensus 176 s~rdPis~~~I~n--PviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVN--PVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhc--hhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 5678887666654 7888899999999999999865 3468885544
No 164
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=30.92 E-value=31 Score=23.11 Aligned_cols=13 Identities=46% Similarity=1.244 Sum_probs=9.6
Q ss_pred CCCCCccCCCCcC
Q 046929 215 SESCPICGKEMEF 227 (231)
Q Consensus 215 s~~CPvCr~~~~~ 227 (231)
.-.||+|++.+..
T Consensus 6 ~v~CP~C~k~~~w 18 (62)
T PRK00418 6 TVNCPTCGKPVEW 18 (62)
T ss_pred cccCCCCCCcccc
Confidence 3479999988753
No 165
>COG0267 RpmG Ribosomal protein L33 [Translation, ribosomal structure and biogenesis]
Probab=30.21 E-value=13 Score=23.85 Aligned_cols=18 Identities=33% Similarity=0.665 Sum_probs=13.9
Q ss_pred hcCCCCCccCCCCcCcCC
Q 046929 213 ERSESCPICGKEMEFCES 230 (231)
Q Consensus 213 ~~s~~CPvCr~~~~~~~s 230 (231)
+-.+.||+||+.+.+.++
T Consensus 32 elkKycp~~~khtlhkE~ 49 (50)
T COG0267 32 ELKKYCPVCRKHTLHKET 49 (50)
T ss_pred EEEecCcccccEEEEeec
Confidence 445689999998887764
No 166
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=29.71 E-value=62 Score=33.49 Aligned_cols=52 Identities=23% Similarity=0.477 Sum_probs=37.0
Q ss_pred CCCCCccccccCccCC---CCC-ceecCCCCccCHHHHHH-HHhcCCCCCccCCCCc
Q 046929 175 TEDEDVCPTCLDEYTP---ENP-KITTRCSHHFHLGCIYE-WLERSESCPICGKEME 226 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~---~~~-~~~l~C~H~Fh~~CI~~-Wl~~s~~CPvCr~~~~ 226 (231)
.-...+|-||-|+... |+. +..--|+--.|..|.+- .-+.++.||.|+....
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3457899999998754 332 33445888899999943 3345679999988754
No 167
>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=29.07 E-value=70 Score=23.64 Aligned_cols=24 Identities=25% Similarity=0.576 Sum_probs=18.4
Q ss_pred CCccCHHHHHHHHhc---------CCCCCccCC
Q 046929 200 SHHFHLGCIYEWLER---------SESCPICGK 223 (231)
Q Consensus 200 ~H~Fh~~CI~~Wl~~---------s~~CPvCr~ 223 (231)
.=.||..||..+... .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999888642 236999985
No 168
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=28.94 E-value=17 Score=20.17 Aligned_cols=11 Identities=36% Similarity=1.235 Sum_probs=5.8
Q ss_pred CCCccCCCCcC
Q 046929 217 SCPICGKEMEF 227 (231)
Q Consensus 217 ~CPvCr~~~~~ 227 (231)
.||+|..++..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 48999887763
No 169
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=28.59 E-value=27 Score=33.62 Aligned_cols=36 Identities=25% Similarity=0.586 Sum_probs=25.4
Q ss_pred CCCCccccccCccCC----CC------CceecCCCCccCHHHHHHH
Q 046929 176 EDEDVCPTCLDEYTP----EN------PKITTRCSHHFHLGCIYEW 211 (231)
Q Consensus 176 ~~~~~C~ICle~~~~----~~------~~~~l~C~H~Fh~~CI~~W 211 (231)
+....|+||.|.|+. +. ..+.+.=|-+||..|+.+-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 677899999999875 11 1222335779999999764
No 170
>PF14353 CpXC: CpXC protein
Probab=27.44 E-value=59 Score=24.51 Aligned_cols=46 Identities=26% Similarity=0.475 Sum_probs=22.0
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHhcC---CCCCccCCCCcC
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERS---ESCPICGKEMEF 227 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s---~~CPvCr~~~~~ 227 (231)
-+||-|...+... +.+--.=....+=..+-|..+ .+||.|++.+.+
T Consensus 2 itCP~C~~~~~~~---v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 2 ITCPHCGHEFEFE---VWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRL 50 (128)
T ss_pred cCCCCCCCeeEEE---EEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceec
Confidence 3577777766541 111111112222233333322 379999887654
No 171
>PRK01343 zinc-binding protein; Provisional
Probab=27.34 E-value=45 Score=21.99 Aligned_cols=10 Identities=50% Similarity=1.218 Sum_probs=5.1
Q ss_pred CCCCccCCCC
Q 046929 216 ESCPICGKEM 225 (231)
Q Consensus 216 ~~CPvCr~~~ 225 (231)
..||+|++++
T Consensus 10 ~~CP~C~k~~ 19 (57)
T PRK01343 10 RPCPECGKPS 19 (57)
T ss_pred CcCCCCCCcC
Confidence 3455555543
No 172
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=27.02 E-value=17 Score=23.48 Aligned_cols=18 Identities=28% Similarity=0.940 Sum_probs=14.4
Q ss_pred ceec-CCCCccCHHHHHHH
Q 046929 194 KITT-RCSHHFHLGCIYEW 211 (231)
Q Consensus 194 ~~~l-~C~H~Fh~~CI~~W 211 (231)
.+.- .|+|.||..|-.+|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3444 69999999998888
No 173
>PRK05978 hypothetical protein; Provisional
Probab=25.75 E-value=41 Score=26.62 Aligned_cols=24 Identities=21% Similarity=0.684 Sum_probs=18.8
Q ss_pred CccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929 201 HHFHLGCIYEWLERSESCPICGKEMEFCE 229 (231)
Q Consensus 201 H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~ 229 (231)
+.|+ .+|+-...||.|..++...+
T Consensus 43 ~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 43 KLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred cccc-----cccccCCCccccCCccccCC
Confidence 5565 68888999999998887653
No 174
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=25.61 E-value=43 Score=23.38 Aligned_cols=33 Identities=21% Similarity=0.378 Sum_probs=21.7
Q ss_pred CCccccccCccCCCCCceecCCCCccCHHHHHH
Q 046929 178 EDVCPTCLDEYTPENPKITTRCSHHFHLGCIYE 210 (231)
Q Consensus 178 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~ 210 (231)
...|.+|....-.--.-....|.-.||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 558999987632211222345889999999764
No 175
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=25.60 E-value=32 Score=22.91 Aligned_cols=14 Identities=29% Similarity=0.850 Sum_probs=10.5
Q ss_pred CCCCccCCCCcCcC
Q 046929 216 ESCPICGKEMEFCE 229 (231)
Q Consensus 216 ~~CPvCr~~~~~~~ 229 (231)
-.||+||.++.++.
T Consensus 9 LaCP~~kg~L~~~~ 22 (60)
T COG2835 9 LACPVCKGPLVYDE 22 (60)
T ss_pred eeccCcCCcceEec
Confidence 36999998876654
No 176
>PF15616 TerY-C: TerY-C metal binding domain
Probab=23.73 E-value=30 Score=26.84 Aligned_cols=47 Identities=28% Similarity=0.598 Sum_probs=33.8
Q ss_pred CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcC
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCE 229 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~ 229 (231)
...+...||-|-..+. .++-.||++||. .. ....+||-|.+...+..
T Consensus 73 eL~g~PgCP~CGn~~~----fa~C~CGkl~Ci---~g--~~~~~CPwCg~~g~~~~ 119 (131)
T PF15616_consen 73 ELIGAPGCPHCGNQYA----FAVCGCGKLFCI---DG--EGEVTCPWCGNEGSFGA 119 (131)
T ss_pred HhcCCCCCCCCcChhc----EEEecCCCEEEe---CC--CCCEECCCCCCeeeecc
Confidence 3345688999988876 455579999853 33 44669999999877654
No 177
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.32 E-value=26 Score=32.64 Aligned_cols=35 Identities=20% Similarity=0.537 Sum_probs=26.0
Q ss_pred ccccccCccCCCC---Cce--ecCCCCccCHHHHHHHHhc
Q 046929 180 VCPTCLDEYTPEN---PKI--TTRCSHHFHLGCIYEWLER 214 (231)
Q Consensus 180 ~C~ICle~~~~~~---~~~--~l~C~H~Fh~~CI~~Wl~~ 214 (231)
.||.|...+..+. ... ...|.|.||.-|+..|-..
T Consensus 228 ~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 228 ECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred cCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 3999999887643 112 2249999999999998765
No 178
>TIGR01023 rpmG_bact ribosomal protein L33, bacterial type. This model describes bacterial ribosomal protein L33 and its chloroplast and mitochondrial equivalents.
Probab=23.30 E-value=25 Score=22.87 Aligned_cols=18 Identities=33% Similarity=0.693 Sum_probs=13.8
Q ss_pred hcCCCCCccCCCCcCcCC
Q 046929 213 ERSESCPICGKEMEFCES 230 (231)
Q Consensus 213 ~~s~~CPvCr~~~~~~~s 230 (231)
+-...||.|++-+.+.++
T Consensus 36 ~lkKycp~~~khtlhkE~ 53 (54)
T TIGR01023 36 ELRKYCPVCRKHVLHKEA 53 (54)
T ss_pred EEECcCCCCCCeEeEEec
Confidence 445689999998887764
No 179
>PRK00595 rpmG 50S ribosomal protein L33; Validated
Probab=23.09 E-value=24 Score=22.84 Aligned_cols=18 Identities=22% Similarity=0.194 Sum_probs=13.7
Q ss_pred hcCCCCCccCCCCcCcCC
Q 046929 213 ERSESCPICGKEMEFCES 230 (231)
Q Consensus 213 ~~s~~CPvCr~~~~~~~s 230 (231)
+-...||.|++-+.+.|+
T Consensus 35 ~lkKycp~~~khtlhkE~ 52 (53)
T PRK00595 35 ELKKYDPVLRKHVLHKET 52 (53)
T ss_pred EEECcCCCCCCEEeEEec
Confidence 445689999998877764
No 180
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.99 E-value=41 Score=24.35 Aligned_cols=12 Identities=25% Similarity=0.844 Sum_probs=10.5
Q ss_pred ccCHHHHHHHHh
Q 046929 202 HFHLGCIYEWLE 213 (231)
Q Consensus 202 ~Fh~~CI~~Wl~ 213 (231)
-||..|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 399999999985
No 181
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=22.81 E-value=52 Score=21.84 Aligned_cols=16 Identities=31% Similarity=0.663 Sum_probs=12.4
Q ss_pred cCCCCCccCCCCcCcC
Q 046929 214 RSESCPICGKEMEFCE 229 (231)
Q Consensus 214 ~s~~CPvCr~~~~~~~ 229 (231)
-+..|++|.+.++.++
T Consensus 7 PH~HC~VCg~aIp~de 22 (64)
T COG4068 7 PHRHCVVCGKAIPPDE 22 (64)
T ss_pred CCccccccCCcCCCcc
Confidence 3567999999888765
No 182
>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=22.67 E-value=8.3 Score=33.70 Aligned_cols=50 Identities=20% Similarity=0.279 Sum_probs=21.2
Q ss_pred CCCCCccccccCccCCCCCceec--CCCCccCHHHHHHHHhcCCCCCccCCC
Q 046929 175 TEDEDVCPTCLDEYTPENPKITT--RCSHHFHLGCIYEWLERSESCPICGKE 224 (231)
Q Consensus 175 ~~~~~~C~ICle~~~~~~~~~~l--~C~H~Fh~~CI~~Wl~~s~~CPvCr~~ 224 (231)
......||||=..-........- .=.|.+|.-|=.+|--....||.|...
T Consensus 169 ~w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 169 GWQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 34457999997664321000000 013567778888998888899999754
No 183
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=22.40 E-value=44 Score=21.69 Aligned_cols=14 Identities=43% Similarity=0.926 Sum_probs=8.6
Q ss_pred CCCCccCCCCcCcC
Q 046929 216 ESCPICGKEMEFCE 229 (231)
Q Consensus 216 ~~CPvCr~~~~~~~ 229 (231)
..||.|...+.+.+
T Consensus 3 ~~CP~CG~~iev~~ 16 (54)
T TIGR01206 3 FECPDCGAEIELEN 16 (54)
T ss_pred cCCCCCCCEEecCC
Confidence 36777777665543
No 184
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=22.37 E-value=46 Score=28.47 Aligned_cols=47 Identities=23% Similarity=0.515 Sum_probs=34.6
Q ss_pred CCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCC--CCCc--cCCCC
Q 046929 177 DEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSE--SCPI--CGKEM 225 (231)
Q Consensus 177 ~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~--~CPv--Cr~~~ 225 (231)
-+.+|+|=+..+.. ++.-.+|.|+|-.+-|...|+... .||. |.+.+
T Consensus 188 ~~nrCpitl~p~~~--pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~ 238 (275)
T COG5627 188 LSNRCPITLNPDFY--PILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKE 238 (275)
T ss_pred hcccCCcccCcchh--HHHHhhhcccccHHHHHHHhcCCceeecchhhcchhe
Confidence 36789997776654 566778999999999999998543 5664 44443
No 185
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=21.84 E-value=55 Score=25.54 Aligned_cols=44 Identities=25% Similarity=0.558 Sum_probs=27.2
Q ss_pred CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcCC
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCES 230 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~s 230 (231)
.......|+-|-..|...+...... ......||.|+..+...++
T Consensus 95 ~~~~~Y~Cp~C~~~y~~~ea~~~~d-------------~~~~f~Cp~Cg~~l~~~dn 138 (147)
T smart00531 95 TNNAYYKCPNCQSKYTFLEANQLLD-------------MDGTFTCPRCGEELEEDDN 138 (147)
T ss_pred cCCcEEECcCCCCEeeHHHHHHhcC-------------CCCcEECCCCCCEEEEcCc
Confidence 3455788998877776532111100 0234689999999887664
No 186
>PLN02248 cellulose synthase-like protein
Probab=21.50 E-value=9.9e+02 Score=25.38 Aligned_cols=31 Identities=16% Similarity=0.501 Sum_probs=26.7
Q ss_pred CCCCccCHHHHHHHHhcCCCCCccCCCCcCc
Q 046929 198 RCSHHFHLGCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 198 ~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
.|++..|.+|...-++....||-|+.+....
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 179 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKVT 179 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCccccccc
Confidence 4778999999999999999999999887543
No 187
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=21.44 E-value=86 Score=25.43 Aligned_cols=39 Identities=26% Similarity=0.521 Sum_probs=27.9
Q ss_pred CCCCCCccccccCccCCCCCceecCCCCccCHHHHHHHHhcCCCCCccCCCCcCcCC
Q 046929 174 STEDEDVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLERSESCPICGKEMEFCES 230 (231)
Q Consensus 174 ~~~~~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~s~~CPvCr~~~~~~~s 230 (231)
.......|+.|--.|+..+ -|+....||.|...+...++
T Consensus 113 ~~~~~Y~Cp~C~~rytf~e------------------A~~~~F~Cp~Cg~~L~~~dn 151 (178)
T PRK06266 113 ENNMFFFCPNCHIRFTFDE------------------AMEYGFRCPQCGEMLEEYDN 151 (178)
T ss_pred cCCCEEECCCCCcEEeHHH------------------HhhcCCcCCCCCCCCeeccc
Confidence 3346788998877776432 24567899999999887654
No 188
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=21.40 E-value=30 Score=25.80 Aligned_cols=29 Identities=38% Similarity=0.717 Sum_probs=20.6
Q ss_pred CccccccCccCCCCCceecCCCCccCHHHHHHHHh
Q 046929 179 DVCPTCLDEYTPENPKITTRCSHHFHLGCIYEWLE 213 (231)
Q Consensus 179 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~ 213 (231)
..|++|-.+|..++.. +.+|..|..+|-+
T Consensus 4 p~cp~c~sEytYed~~------~~~cpec~~ew~~ 32 (112)
T COG2824 4 PPCPKCNSEYTYEDGG------QLICPECAHEWNE 32 (112)
T ss_pred CCCCccCCceEEecCc------eEeCchhcccccc
Confidence 4699999998865433 3466778888863
No 189
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=21.30 E-value=69 Score=27.52 Aligned_cols=23 Identities=22% Similarity=0.408 Sum_probs=16.0
Q ss_pred HHHHHHHhcCCCCCccCCCCcCc
Q 046929 206 GCIYEWLERSESCPICGKEMEFC 228 (231)
Q Consensus 206 ~CI~~Wl~~s~~CPvCr~~~~~~ 228 (231)
.=|..|-+++..||.|..++...
T Consensus 90 ~~l~~w~~~~~fC~~CG~~~~~~ 112 (256)
T PRK00241 90 VQLAEFYRSHRFCGYCGHPMHPS 112 (256)
T ss_pred HHHHHHhhcCccccccCCCCeec
Confidence 34567878888888887776543
No 190
>PRK00504 rpmG 50S ribosomal protein L33; Validated
Probab=20.03 E-value=31 Score=22.06 Aligned_cols=18 Identities=33% Similarity=0.573 Sum_probs=13.5
Q ss_pred hcCCCCCccCCCCcCcCC
Q 046929 213 ERSESCPICGKEMEFCES 230 (231)
Q Consensus 213 ~~s~~CPvCr~~~~~~~s 230 (231)
+-.+.||.||+-..++++
T Consensus 32 elkKycp~c~khtlhkE~ 49 (50)
T PRK00504 32 ELKKFCPRCNKHTLHKET 49 (50)
T ss_pred EEECcCCCCCCeEeeeec
Confidence 445689999988777654
Done!