Query 028627
Match_columns 206
No_of_seqs 209 out of 1988
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 14:28:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028627.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028627hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1039 Predicted E3 ubiquitin 99.5 1.4E-14 3E-19 125.4 3.5 200 1-201 25-270 (344)
2 KOG0317 Predicted E3 ubiquitin 99.5 5.6E-15 1.2E-19 123.1 1.0 142 5-154 138-286 (293)
3 PLN03208 E3 ubiquitin-protein 99.4 2.8E-13 6.2E-18 108.0 3.8 62 100-161 11-88 (193)
4 PF13639 zf-RING_2: Ring finge 99.3 4.7E-13 1E-17 82.7 1.2 40 109-148 2-44 (44)
5 PHA02929 N1R/p28-like protein; 99.3 1.4E-12 3E-17 107.9 3.4 56 105-160 172-235 (238)
6 PF13920 zf-C3HC4_3: Zinc fing 99.3 1.8E-12 4E-17 82.2 2.5 47 107-153 2-49 (50)
7 PF15227 zf-C3HC4_4: zinc fing 99.3 2.4E-12 5.2E-17 78.8 2.6 38 110-147 1-42 (42)
8 KOG0823 Predicted E3 ubiquitin 99.3 2E-12 4.3E-17 105.0 2.6 59 105-163 45-106 (230)
9 PF13923 zf-C3HC4_2: Zinc fing 99.2 9.1E-12 2E-16 75.0 2.4 38 110-147 1-39 (39)
10 PHA02926 zinc finger-like prot 99.2 1.6E-11 3.6E-16 99.2 3.7 57 105-161 168-239 (242)
11 TIGR00599 rad18 DNA repair pro 99.2 2.8E-11 6.1E-16 106.8 4.6 59 103-161 22-80 (397)
12 COG5243 HRD1 HRD ubiquitin lig 99.1 9.3E-11 2E-15 100.9 7.2 48 105-152 285-345 (491)
13 smart00504 Ubox Modified RING 99.1 3.8E-11 8.2E-16 79.4 3.5 50 107-156 1-50 (63)
14 KOG0320 Predicted E3 ubiquitin 99.1 5.5E-11 1.2E-15 93.0 2.6 52 105-156 129-182 (187)
15 PF12678 zf-rbx1: RING-H2 zinc 99.1 8.5E-11 1.8E-15 80.5 2.7 42 107-148 19-73 (73)
16 PF00097 zf-C3HC4: Zinc finger 99.0 1.7E-10 3.8E-15 69.9 2.5 38 110-147 1-41 (41)
17 COG5432 RAD18 RING-finger-cont 99.0 2.2E-10 4.7E-15 95.9 3.6 85 105-192 23-107 (391)
18 cd00162 RING RING-finger (Real 99.0 3.1E-10 6.8E-15 69.1 3.0 43 109-151 1-45 (45)
19 KOG0287 Postreplication repair 99.0 1.4E-10 3E-15 98.8 1.7 75 105-182 21-95 (442)
20 KOG4628 Predicted E3 ubiquitin 99.0 5.3E-10 1.2E-14 96.7 5.0 47 108-154 230-280 (348)
21 KOG1002 Nucleotide excision re 99.0 2.7E-10 5.8E-15 101.9 3.2 155 36-204 479-647 (791)
22 KOG2164 Predicted E3 ubiquitin 98.9 1.2E-09 2.6E-14 97.7 2.8 57 107-163 186-247 (513)
23 smart00184 RING Ring finger. E 98.8 2.1E-09 4.5E-14 63.2 2.8 38 110-147 1-39 (39)
24 PF14634 zf-RING_5: zinc-RING 98.8 2.1E-09 4.5E-14 66.3 2.4 41 109-149 1-44 (44)
25 PF04564 U-box: U-box domain; 98.8 3E-09 6.4E-14 72.8 2.0 54 106-159 3-57 (73)
26 COG5540 RING-finger-containing 98.8 3.6E-09 7.8E-14 89.1 2.9 48 105-152 321-372 (374)
27 COG5574 PEX10 RING-finger-cont 98.8 3.6E-09 7.7E-14 87.6 2.4 49 105-153 213-263 (271)
28 PF12861 zf-Apc11: Anaphase-pr 98.7 7.8E-09 1.7E-13 72.0 3.1 49 105-153 19-83 (85)
29 PF13445 zf-RING_UBOX: RING-ty 98.7 5.4E-09 1.2E-13 64.1 1.8 35 110-145 1-43 (43)
30 KOG0802 E3 ubiquitin ligase [P 98.6 1.1E-08 2.4E-13 94.6 1.7 47 105-151 289-340 (543)
31 KOG4172 Predicted E3 ubiquitin 98.6 1.3E-08 2.8E-13 64.5 0.6 47 107-153 7-55 (62)
32 KOG2177 Predicted E3 ubiquitin 98.5 4.1E-08 8.8E-13 82.1 2.1 45 105-149 11-55 (386)
33 TIGR00570 cdk7 CDK-activating 98.5 1.7E-07 3.6E-12 80.2 5.7 53 107-159 3-61 (309)
34 PF14835 zf-RING_6: zf-RING of 98.5 1.2E-08 2.6E-13 67.1 -2.0 54 105-160 5-59 (65)
35 KOG0978 E3 ubiquitin ligase in 98.4 7.3E-08 1.6E-12 89.9 1.8 54 105-158 641-695 (698)
36 KOG4265 Predicted E3 ubiquitin 98.4 1.9E-07 4E-12 80.6 2.9 49 105-153 288-337 (349)
37 KOG1785 Tyrosine kinase negati 98.2 2.7E-07 5.9E-12 80.5 0.2 51 106-156 368-420 (563)
38 KOG4159 Predicted E3 ubiquitin 98.1 1.9E-06 4.1E-11 76.5 2.7 50 104-153 81-130 (398)
39 KOG2660 Locus-specific chromos 98.0 3.8E-06 8.3E-11 71.8 3.8 88 103-190 11-102 (331)
40 KOG0824 Predicted E3 ubiquitin 98.0 2.9E-06 6.2E-11 71.7 2.3 48 106-153 6-54 (324)
41 COG5194 APC11 Component of SCF 98.0 3.4E-06 7.3E-11 57.7 2.1 47 108-154 21-83 (88)
42 KOG0311 Predicted E3 ubiquitin 98.0 7.4E-07 1.6E-11 76.7 -1.5 50 103-152 39-90 (381)
43 KOG2879 Predicted E3 ubiquitin 98.0 3E-05 6.5E-10 64.9 7.9 51 103-153 235-288 (298)
44 KOG0828 Predicted E3 ubiquitin 98.0 2.8E-06 6.1E-11 76.0 2.0 49 105-153 569-635 (636)
45 COG5219 Uncharacterized conser 98.0 4E-06 8.7E-11 80.0 2.7 51 103-153 1465-1524(1525)
46 PF11793 FANCL_C: FANCL C-term 97.9 2.1E-06 4.5E-11 58.2 -0.1 46 107-152 2-66 (70)
47 COG5152 Uncharacterized conser 97.9 3.7E-06 8E-11 67.2 1.2 45 108-152 197-241 (259)
48 KOG4692 Predicted E3 ubiquitin 97.9 1.6E-05 3.4E-10 68.7 4.4 49 105-153 420-468 (489)
49 KOG1001 Helicase-like transcri 97.8 7.9E-06 1.7E-10 77.2 2.2 159 40-205 389-549 (674)
50 KOG1734 Predicted RING-contain 97.8 5.3E-06 1.2E-10 69.2 0.3 50 105-154 222-283 (328)
51 KOG0297 TNF receptor-associate 97.8 1.1E-05 2.5E-10 71.8 2.1 51 104-154 18-69 (391)
52 KOG1493 Anaphase-promoting com 97.8 6.2E-06 1.4E-10 55.9 0.1 48 106-153 19-82 (84)
53 KOG1813 Predicted E3 ubiquitin 97.7 1.4E-05 3.1E-10 67.4 1.1 45 108-152 242-286 (313)
54 smart00744 RINGv The RING-vari 97.6 3.9E-05 8.4E-10 48.3 2.2 40 109-148 1-49 (49)
55 KOG1645 RING-finger-containing 97.6 2.7E-05 5.9E-10 68.3 1.7 54 106-159 3-63 (463)
56 PF11789 zf-Nse: Zinc-finger o 97.6 3.5E-05 7.6E-10 50.1 1.7 42 105-146 9-53 (57)
57 KOG0804 Cytoplasmic Zn-finger 97.5 5.1E-05 1.1E-09 67.4 2.2 48 103-152 171-222 (493)
58 KOG4275 Predicted E3 ubiquitin 97.5 2.4E-05 5.2E-10 66.0 0.0 43 107-153 300-343 (350)
59 KOG0827 Predicted E3 ubiquitin 97.4 6.3E-05 1.4E-09 65.7 1.9 44 108-151 5-55 (465)
60 KOG2930 SCF ubiquitin ligase, 97.4 7.5E-05 1.6E-09 53.6 1.8 46 106-151 45-107 (114)
61 KOG0825 PHD Zn-finger protein 97.3 5.6E-05 1.2E-09 71.1 0.4 54 105-158 121-177 (1134)
62 PF14447 Prok-RING_4: Prokaryo 97.2 0.00021 4.5E-09 45.7 1.5 48 106-155 6-53 (55)
63 KOG1571 Predicted E3 ubiquitin 97.0 0.00046 1E-08 59.9 3.1 46 105-153 303-348 (355)
64 KOG2114 Vacuolar assembly/sort 96.9 0.00062 1.3E-08 64.8 3.2 66 81-149 810-880 (933)
65 PHA03096 p28-like protein; Pro 96.8 0.00057 1.2E-08 58.4 1.5 44 108-151 179-233 (284)
66 COG5236 Uncharacterized conser 96.7 0.0013 2.8E-08 57.0 3.0 49 104-152 58-108 (493)
67 KOG4185 Predicted E3 ubiquitin 96.5 0.0015 3.3E-08 55.8 2.3 45 107-151 3-54 (296)
68 PF10367 Vps39_2: Vacuolar sor 96.4 0.0025 5.5E-08 45.9 2.5 35 101-135 72-108 (109)
69 COG5222 Uncharacterized conser 96.4 0.002 4.4E-08 54.8 2.1 42 108-149 275-318 (427)
70 KOG4445 Uncharacterized conser 96.3 0.0017 3.6E-08 55.3 1.4 49 105-153 113-187 (368)
71 KOG1428 Inhibitor of type V ad 96.2 0.0033 7.3E-08 63.1 2.7 69 105-182 3484-3565(3738)
72 KOG4739 Uncharacterized protei 96.1 0.0031 6.6E-08 52.2 1.7 51 109-161 5-57 (233)
73 KOG3002 Zn finger protein [Gen 96.0 0.0039 8.4E-08 53.7 2.1 45 105-152 46-91 (299)
74 KOG3039 Uncharacterized conser 95.9 0.0057 1.2E-07 50.8 2.7 53 106-158 220-276 (303)
75 KOG1941 Acetylcholine receptor 95.9 0.0028 6E-08 55.8 0.6 46 105-150 363-414 (518)
76 PF14570 zf-RING_4: RING/Ubox 95.7 0.0096 2.1E-07 37.1 2.5 41 110-150 1-46 (48)
77 KOG4367 Predicted Zn-finger pr 95.7 0.005 1.1E-07 54.9 1.5 36 105-140 2-37 (699)
78 KOG0298 DEAD box-containing he 95.7 0.0036 7.8E-08 62.2 0.6 45 105-149 1151-1196(1394)
79 KOG1814 Predicted E3 ubiquitin 95.6 0.0059 1.3E-07 54.0 1.8 46 105-150 182-238 (445)
80 KOG0826 Predicted E3 ubiquitin 95.6 0.0044 9.6E-08 53.3 0.9 48 105-152 298-346 (357)
81 PF04641 Rtf2: Rtf2 RING-finge 95.5 0.011 2.3E-07 50.0 2.8 51 105-156 111-165 (260)
82 PF07800 DUF1644: Protein of u 95.5 0.01 2.2E-07 46.1 2.4 33 107-139 2-47 (162)
83 KOG3800 Predicted E3 ubiquitin 95.5 0.018 3.9E-07 48.8 4.0 51 109-159 2-58 (300)
84 PF05290 Baculo_IE-1: Baculovi 95.4 0.015 3.3E-07 43.8 2.9 49 106-154 79-134 (140)
85 KOG2034 Vacuolar sorting prote 95.0 0.022 4.8E-07 54.9 3.4 36 104-139 814-851 (911)
86 KOG3268 Predicted E3 ubiquitin 94.9 0.025 5.4E-07 44.8 2.9 47 108-154 166-230 (234)
87 KOG3970 Predicted E3 ubiquitin 94.7 0.024 5.2E-07 46.6 2.5 48 105-152 48-105 (299)
88 PHA02825 LAP/PHD finger-like p 94.6 0.043 9.2E-07 42.8 3.7 47 105-152 6-59 (162)
89 PF05883 Baculo_RING: Baculovi 94.3 0.046 1E-06 41.4 3.2 37 106-142 25-70 (134)
90 KOG2932 E3 ubiquitin ligase in 94.3 0.014 3E-07 50.0 0.4 46 107-154 90-136 (389)
91 PHA02862 5L protein; Provision 94.2 0.049 1.1E-06 41.8 3.1 44 108-152 3-53 (156)
92 KOG1100 Predicted E3 ubiquitin 94.0 0.018 3.9E-07 47.0 0.4 39 110-152 161-200 (207)
93 PF03854 zf-P11: P-11 zinc fin 93.6 0.026 5.6E-07 34.9 0.5 43 109-153 4-47 (50)
94 KOG1940 Zn-finger protein [Gen 93.5 0.049 1.1E-06 46.3 2.2 44 106-149 157-204 (276)
95 PF10272 Tmpp129: Putative tra 93.4 0.12 2.6E-06 45.6 4.5 28 126-153 312-352 (358)
96 PF08746 zf-RING-like: RING-li 93.3 0.083 1.8E-06 32.1 2.4 38 110-147 1-43 (43)
97 COG5175 MOT2 Transcriptional r 92.8 0.069 1.5E-06 46.5 2.1 49 107-155 14-67 (480)
98 PF12906 RINGv: RING-variant d 92.5 0.087 1.9E-06 32.6 1.8 38 110-147 1-47 (47)
99 KOG2817 Predicted E3 ubiquitin 90.4 0.2 4.3E-06 44.4 2.4 46 105-150 332-383 (394)
100 KOG4362 Transcriptional regula 90.2 0.075 1.6E-06 50.3 -0.4 51 106-156 20-73 (684)
101 PF02891 zf-MIZ: MIZ/SP-RING z 89.9 0.19 4.1E-06 31.5 1.4 42 108-150 3-50 (50)
102 KOG1812 Predicted E3 ubiquitin 88.8 0.27 5.9E-06 43.9 2.1 34 106-139 145-182 (384)
103 KOG3161 Predicted E3 ubiquitin 88.7 0.2 4.3E-06 47.1 1.1 39 105-145 9-51 (861)
104 KOG1952 Transcription factor N 88.4 0.35 7.6E-06 46.7 2.6 48 105-152 189-247 (950)
105 KOG3039 Uncharacterized conser 87.9 0.37 8.1E-06 40.2 2.2 35 105-139 41-75 (303)
106 KOG1815 Predicted E3 ubiquitin 87.4 0.83 1.8E-05 41.5 4.4 35 105-139 68-103 (444)
107 KOG0309 Conserved WD40 repeat- 86.6 0.44 9.6E-06 45.6 2.2 26 121-146 1044-1069(1081)
108 KOG3899 Uncharacterized conser 86.1 0.43 9.4E-06 40.8 1.6 28 125-152 325-365 (381)
109 COG5183 SSM4 Protein involved 84.1 1 2.2E-05 43.6 3.3 51 105-155 10-69 (1175)
110 KOG0827 Predicted E3 ubiquitin 83.9 0.12 2.7E-06 45.6 -2.6 49 106-154 195-247 (465)
111 COG5220 TFB3 Cdk activating ki 83.2 0.29 6.2E-06 40.7 -0.6 47 106-152 9-64 (314)
112 KOG2113 Predicted RNA binding 82.7 1 2.2E-05 39.0 2.4 47 103-151 339-386 (394)
113 KOG3579 Predicted E3 ubiquitin 81.5 0.79 1.7E-05 39.1 1.4 35 106-140 267-305 (352)
114 PF14569 zf-UDP: Zinc-binding 80.5 2.6 5.6E-05 28.9 3.4 49 106-154 8-64 (80)
115 KOG0825 PHD Zn-finger protein 78.0 1.6 3.5E-05 42.2 2.3 46 106-151 95-153 (1134)
116 COG5109 Uncharacterized conser 77.8 1.4 3E-05 38.2 1.8 45 105-149 334-384 (396)
117 KOG3053 Uncharacterized conser 77.3 1.4 3E-05 37.1 1.6 50 105-154 18-84 (293)
118 KOG2068 MOT2 transcription fac 76.7 2.2 4.7E-05 37.1 2.6 46 108-153 250-299 (327)
119 KOG1812 Predicted E3 ubiquitin 76.4 1.1 2.3E-05 40.1 0.8 42 107-148 306-352 (384)
120 PLN02638 cellulose synthase A 74.8 3.9 8.4E-05 41.0 4.1 50 106-155 16-73 (1079)
121 TIGR00622 ssl1 transcription f 74.6 2.9 6.4E-05 30.8 2.5 41 108-148 56-110 (112)
122 PF07975 C1_4: TFIIH C1-like d 73.4 2.7 5.8E-05 26.5 1.8 26 123-148 25-50 (51)
123 PF07191 zinc-ribbons_6: zinc- 70.9 0.48 1E-05 31.9 -2.1 43 107-154 1-43 (70)
124 COG0068 HypF Hydrogenase matur 70.5 6.7 0.00014 37.7 4.4 47 105-151 99-183 (750)
125 KOG4718 Non-SMC (structural ma 69.9 2.7 5.8E-05 34.4 1.5 44 107-150 181-225 (235)
126 KOG0269 WD40 repeat-containing 69.3 4.8 0.0001 38.8 3.3 44 108-151 780-827 (839)
127 PF04216 FdhE: Protein involve 68.2 1.1 2.4E-05 38.3 -1.1 46 105-150 170-220 (290)
128 PF01363 FYVE: FYVE zinc finge 67.2 1.7 3.7E-05 28.6 -0.1 32 105-136 7-42 (69)
129 PLN02189 cellulose synthase 66.8 5.4 0.00012 39.9 3.1 50 106-155 33-90 (1040)
130 KOG3842 Adaptor protein Pellin 66.5 4.9 0.00011 34.9 2.5 47 106-152 340-414 (429)
131 PF06906 DUF1272: Protein of u 66.0 7.2 0.00016 25.0 2.6 44 109-154 7-54 (57)
132 KOG3799 Rab3 effector RIM1 and 65.9 3.6 7.7E-05 31.3 1.4 29 103-136 61-90 (169)
133 TIGR01562 FdhE formate dehydro 65.7 1.5 3.2E-05 38.0 -0.8 45 106-150 183-233 (305)
134 PF06844 DUF1244: Protein of u 65.6 3.8 8.3E-05 27.2 1.3 12 128-139 11-22 (68)
135 KOG2231 Predicted E3 ubiquitin 65.5 5.2 0.00011 38.2 2.7 46 109-154 2-54 (669)
136 KOG0824 Predicted E3 ubiquitin 62.6 3 6.6E-05 35.9 0.5 55 105-159 103-158 (324)
137 KOG3113 Uncharacterized conser 62.3 13 0.00028 31.4 4.1 62 105-171 109-174 (293)
138 PLN02436 cellulose synthase A 60.6 10 0.00023 38.1 3.8 50 106-155 35-92 (1094)
139 smart00064 FYVE Protein presen 60.1 8.9 0.00019 25.0 2.4 33 106-138 9-45 (68)
140 PF04710 Pellino: Pellino; In 59.8 3 6.4E-05 37.3 0.0 48 106-153 327-402 (416)
141 smart00132 LIM Zinc-binding do 59.2 5.6 0.00012 22.3 1.2 35 110-152 2-38 (39)
142 KOG4185 Predicted E3 ubiquitin 58.7 1.9 4.1E-05 36.8 -1.4 44 107-150 207-265 (296)
143 PLN02400 cellulose synthase 58.4 8.8 0.00019 38.7 2.9 49 106-154 35-91 (1085)
144 smart00647 IBR In Between Ring 56.9 2.3 5.1E-05 27.1 -0.9 16 123-138 44-59 (64)
145 KOG2066 Vacuolar assembly/sort 56.3 13 0.00029 36.1 3.6 42 105-147 782-830 (846)
146 PF04423 Rad50_zn_hook: Rad50 55.7 11 0.00024 23.6 2.2 12 142-153 21-32 (54)
147 KOG2807 RNA polymerase II tran 55.5 8.4 0.00018 33.6 2.0 44 106-149 329-375 (378)
148 PRK03564 formate dehydrogenase 55.1 3.4 7.4E-05 35.9 -0.4 44 106-149 186-234 (309)
149 KOG1815 Predicted E3 ubiquitin 54.6 5 0.00011 36.5 0.5 37 119-155 178-240 (444)
150 PF05605 zf-Di19: Drought indu 54.2 6.5 0.00014 24.7 0.9 37 107-150 2-40 (54)
151 PF04710 Pellino: Pellino; In 53.6 4.3 9.4E-05 36.2 0.0 29 121-152 305-339 (416)
152 PF13240 zinc_ribbon_2: zinc-r 52.9 2.2 4.7E-05 22.2 -1.2 9 141-149 13-21 (23)
153 COG3813 Uncharacterized protei 52.7 12 0.00027 25.3 2.0 29 126-156 28-56 (84)
154 cd00065 FYVE FYVE domain; Zinc 51.5 11 0.00024 23.5 1.7 30 108-137 3-36 (57)
155 PLN02915 cellulose synthase A 51.0 14 0.0003 37.2 3.0 50 106-155 14-71 (1044)
156 KOG0802 E3 ubiquitin ligase [P 48.4 12 0.00027 34.9 2.1 48 105-156 477-524 (543)
157 KOG4451 Uncharacterized conser 47.8 14 0.0003 30.7 2.1 27 130-156 252-278 (286)
158 PF10146 zf-C4H2: Zinc finger- 47.6 15 0.00033 30.5 2.3 27 130-156 197-223 (230)
159 PF02318 FYVE_2: FYVE-type zin 47.4 7.8 0.00017 28.5 0.5 44 106-149 53-102 (118)
160 PRK04023 DNA polymerase II lar 46.7 11 0.00024 37.7 1.6 45 106-152 625-674 (1121)
161 PF10571 UPF0547: Uncharacteri 46.2 5 0.00011 21.6 -0.5 9 110-118 3-11 (26)
162 KOG1609 Protein involved in mR 45.8 11 0.00023 32.0 1.2 48 107-154 78-136 (323)
163 KOG1829 Uncharacterized conser 45.5 7.3 0.00016 36.7 0.2 24 123-149 535-558 (580)
164 PF10083 DUF2321: Uncharacteri 45.5 21 0.00045 27.9 2.6 68 126-196 27-120 (158)
165 COG4647 AcxC Acetone carboxyla 44.0 9.3 0.0002 28.9 0.5 22 111-132 61-82 (165)
166 PF00412 LIM: LIM domain; Int 42.5 12 0.00026 23.2 0.8 36 110-153 1-38 (58)
167 PF09723 Zn-ribbon_8: Zinc rib 40.8 5.6 0.00012 23.8 -0.9 28 124-152 10-38 (42)
168 COG3492 Uncharacterized protei 39.2 16 0.00034 25.9 1.0 12 128-139 42-53 (104)
169 KOG0801 Predicted E3 ubiquitin 38.5 11 0.00023 29.8 0.0 27 105-131 175-204 (205)
170 KOG2979 Protein involved in DN 37.8 19 0.00042 30.3 1.5 44 107-150 176-222 (262)
171 PF14353 CpXC: CpXC protein 37.6 22 0.00049 26.2 1.7 45 108-152 2-49 (128)
172 PF01485 IBR: IBR domain; Int 37.6 2.8 6E-05 26.7 -2.9 30 108-137 19-58 (64)
173 PF14446 Prok-RING_1: Prokaryo 37.4 31 0.00067 22.0 2.0 31 106-136 4-38 (54)
174 PF13901 DUF4206: Domain of un 37.1 21 0.00046 28.8 1.6 39 106-149 151-197 (202)
175 TIGR00143 hypF [NiFe] hydrogen 36.2 20 0.00043 34.8 1.5 48 106-153 67-152 (711)
176 PF10497 zf-4CXXC_R1: Zinc-fin 36.0 42 0.00091 24.3 2.9 24 126-149 37-69 (105)
177 KOG2041 WD40 repeat protein [G 35.6 44 0.00096 32.6 3.6 78 72-153 1089-1186(1189)
178 PRK06266 transcription initiat 35.2 22 0.00047 28.3 1.4 34 105-153 115-148 (178)
179 PF09567 RE_MamI: MamI restric 31.7 29 0.00063 29.3 1.6 26 140-165 95-120 (314)
180 KOG1701 Focal adhesion adaptor 30.7 7.8 0.00017 35.0 -2.0 26 108-133 335-360 (468)
181 PF14311 DUF4379: Domain of un 28.5 37 0.0008 21.2 1.4 9 139-147 47-55 (55)
182 PLN02195 cellulose synthase A 27.9 71 0.0015 32.1 3.7 47 106-152 5-59 (977)
183 PF06937 EURL: EURL protein; 27.7 1.6E+02 0.0034 25.2 5.2 39 107-145 30-74 (285)
184 KOG2113 Predicted RNA binding 27.1 18 0.00038 31.6 -0.5 48 105-152 134-183 (394)
185 PF11587 Prion_bPrPp: Major pr 26.7 73 0.0016 17.6 2.1 15 10-24 10-24 (29)
186 PF15616 TerY-C: TerY-C metal 26.6 29 0.00062 26.3 0.7 48 100-153 70-117 (131)
187 COG5151 SSL1 RNA polymerase II 26.6 59 0.0013 28.4 2.6 44 106-149 361-418 (421)
188 PRK11595 DNA utilization prote 26.5 49 0.0011 27.1 2.1 38 109-151 7-44 (227)
189 TIGR00373 conserved hypothetic 26.5 27 0.00059 27.1 0.5 34 105-153 107-140 (158)
190 KOG1356 Putative transcription 26.3 19 0.00042 35.2 -0.4 46 106-151 228-281 (889)
191 PF11023 DUF2614: Protein of u 26.2 20 0.00044 26.4 -0.2 18 137-154 81-98 (114)
192 PF13248 zf-ribbon_3: zinc-rib 25.9 12 0.00026 19.9 -1.1 6 142-147 17-22 (26)
193 KOG3005 GIY-YIG type nuclease 24.9 42 0.00091 28.6 1.4 45 108-152 183-243 (276)
194 KOG1729 FYVE finger containing 24.8 54 0.0012 28.2 2.1 54 99-152 160-225 (288)
195 PRK00420 hypothetical protein; 24.5 16 0.00034 26.9 -1.0 12 141-152 40-51 (112)
196 smart00834 CxxC_CXXC_SSSS Puta 24.4 21 0.00045 20.6 -0.4 14 140-153 25-38 (41)
197 smart00734 ZnF_Rad18 Rad18-lik 24.3 37 0.0008 18.0 0.7 11 142-152 2-12 (26)
198 PLN02248 cellulose synthase-li 23.7 75 0.0016 32.5 3.1 31 124-154 149-179 (1135)
199 PRK01343 zinc-binding protein; 23.7 45 0.00098 21.5 1.1 12 141-152 9-20 (57)
200 PRK00418 DNA gyrase inhibitor; 23.3 59 0.0013 21.3 1.6 12 141-152 6-17 (62)
201 KOG3896 Dynactin, subunit p62 23.3 1.3E+02 0.0028 26.7 4.1 33 106-138 44-81 (449)
202 PF03884 DUF329: Domain of unk 22.8 37 0.00079 21.9 0.5 11 143-153 4-14 (57)
203 PRK14714 DNA polymerase II lar 22.7 36 0.00077 35.1 0.7 46 107-152 667-720 (1337)
204 cd00350 rubredoxin_like Rubred 21.9 71 0.0015 17.8 1.6 11 140-150 16-26 (33)
205 PF14169 YdjO: Cold-inducible 21.8 48 0.001 21.5 0.9 13 140-152 38-50 (59)
206 smart00290 ZnF_UBP Ubiquitin C 21.4 53 0.0011 19.7 1.1 23 110-132 2-24 (50)
207 COG3058 FdhE Uncharacterized p 21.0 1.5E+02 0.0032 25.6 3.9 45 105-149 183-233 (308)
208 PF10764 Gin: Inhibitor of sig 20.8 61 0.0013 19.8 1.2 29 109-138 1-29 (46)
209 COG4357 Zinc finger domain con 20.5 65 0.0014 23.1 1.4 13 141-153 80-92 (105)
No 1
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.49 E-value=1.4e-14 Score=125.40 Aligned_cols=200 Identities=31% Similarity=0.467 Sum_probs=141.6
Q ss_pred Ccccccch-hHHHHHHHHhhhcccccccchhhhhhhhhc-cCCCcccchhhh--HhhHHHHHHhhhhh---------HHH
Q 028627 1 MRLSYSQA-AHTFLFLVQWIDCRLAGALGLLRILIYKAY-ADGKTTMCTRER--KASIKEFYGVIFPS---------LLQ 67 (206)
Q Consensus 1 m~~~~~~~-~~~~~~~~~~~~~~~~~~lgl~~~l~~~~~-~~g~~~~~~~~r--~~si~~f~~~i~ps---------l~q 67 (206)
||++|+.. .++...++.|++...+. .|+.+.+++..+ .++...+....+ ...+.++++..+++ +.+
T Consensus 25 cr~~h~~~~~~~~~~~~~~~s~~~~~-~~~~~~~~~~~~~~~~s~~~s~~~~~~~~~~~~s~~~~~~s~~~~~~~~~~~~ 103 (344)
T KOG1039|consen 25 CRLSHSLPDEEFATLLTPTTSSAAAS-TGLSQSLIWANAVADASATMSVSSRPVLTAIRASSSISEPSSTQENPYSNHGQ 103 (344)
T ss_pred eeeeccCchhhccccccccccccccc-cccchhhcccchhhccccccchhcccchhhhhhhhccccccccccCccccccc
Confidence 68888887 77888999999888776 677777777776 566666655555 56778888877777 222
Q ss_pred HhhcCCchHHHH----------HHHhhHHHHhhhccc--------ccCCCcccccCccCccccccccccccc--------
Q 028627 68 LQRGITDVEDKK----------QKEICDAKYKKKGRM--------DKGKLSEIDIEREEECGICLEICCKIV-------- 121 (206)
Q Consensus 68 l~~~~~~~~~~~----------~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~C~IC~~~~~~~~-------- 121 (206)
...+........ +...+...++..... ..+.........+.+|.||++...+..
T Consensus 104 ~~~g~~~~~~~~~~~~~c~l~~~~pi~~~~~~~~~~~~~~~~~~~~~e~~~a~~~s~~k~CGICme~i~ek~~~~~rfgi 183 (344)
T KOG1039|consen 104 CRFGNGDVTLNGNNPESCGLGTQHPICKRQYKNSMKRGSSCALSSAMERSFALQKSSEKECGICMETINEKAASERRFGI 183 (344)
T ss_pred cccCCcccccccccccccccccccchhHHHHhhhhcccccccchHhhhhccCcCccccccceehhhhccccchhhhhccc
Confidence 222222111110 000111111111111 111122223356889999999987654
Q ss_pred ccCCCCcccHHHHHHHHh--c-----CCCCCCccccccccCCCCccccCCchhhhhhhhhcHHHHHHHHHHHhcCCCCCC
Q 028627 122 LPDCNHSMCMRCYRNWRA--R-----SQSCPFCRDSLRRVNSGDLWIYTSEDDIVDLASISRENLKRLFMYIDKLPFITP 194 (206)
Q Consensus 122 ~~~CgH~Fc~~Ci~~w~~--~-----~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~d~~~~~~e~l~~l~~~i~~l~~~~p 194 (206)
.++|.|.||..||..|.. + ++.||.||.+...+++...|+.++.++..++.+...+.-.+...|++..+..+|
T Consensus 184 lpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~Wv~t~~~k~~li~e~~~~~s~~~c~yf~~~~g~cP 263 (344)
T KOG1039|consen 184 LPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFWVETKEEKQKLIEEYEAEMSAKDCKYFSQGLGSCP 263 (344)
T ss_pred CCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccceeeeecccccccHHHHHHHhhccchhhhcCCCCCCC
Confidence 378999999999999994 4 689999999999999999999999888888888888888889999999999999
Q ss_pred Ccceecc
Q 028627 195 NPTLVSY 201 (206)
Q Consensus 195 ~~~~~~~ 201 (206)
..-.++|
T Consensus 264 f~s~~~y 270 (344)
T KOG1039|consen 264 FGSKCFY 270 (344)
T ss_pred CCCcccc
Confidence 9888888
No 2
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.49 E-value=5.6e-15 Score=123.07 Aligned_cols=142 Identities=18% Similarity=0.293 Sum_probs=81.3
Q ss_pred ccchhHHHHHHHHhhhcccccccchhhhhhhhhcc--CCCcc-cchhhhHhhHHHHHHhhhhhHHHHhhcCCchHHHHH-
Q 028627 5 YSQAAHTFLFLVQWIDCRLAGALGLLRILIYKAYA--DGKTT-MCTRERKASIKEFYGVIFPSLLQLQRGITDVEDKKQ- 80 (206)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~lgl~~~l~~~~~~--~g~~~-~~~~~r~~si~~f~~~i~psl~ql~~~~~~~~~~~~- 80 (206)
+=..+|..|||+.+..|+|+..+.-++.+...... +.+.. ........++.+.-..+-+.+. ....+.+.
T Consensus 138 ~v~~~h~~lFY~~g~~y~IskRltgI~yv~~~~~~~~~~~~~q~y~iLg~I~L~ql~~slg~r~~------~s~~q~~~s 211 (293)
T KOG0317|consen 138 AVLRAHKALFYINGSFYSISKRLTGIRYVLARTLKGHEANASQPYKILGYILLIQLLLSLGSRLY------ASFLQHKRS 211 (293)
T ss_pred HHHHHhhheEEecCchHHHHHhhccceEEEEecccccccccccceeeechhhHHHHHHhhhhHHH------HHHHhcccc
Confidence 44567889999999999999888777766543211 11110 0111122233332111111111 01111111
Q ss_pred HHhhHHHHhhhccccc--CCCc-ccccCccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCcccccccc
Q 028627 81 KEICDAKYKKKGRMDK--GKLS-EIDIEREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 81 ~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~ 154 (206)
.....+ +++....+ .+.. ....+....|.+|++...+|..+||||.||+.||.+|......||+||..++..
T Consensus 212 ~~e~~~--e~~~~~~~~~~s~~~~~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 212 STESIE--ESKLNHSKLEDSNSLSSIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred cccccc--cccccccchhhccCCccCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 010011 11111100 1111 112255689999999999999999999999999999999999999999998743
No 3
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.38 E-value=2.8e-13 Score=107.98 Aligned_cols=62 Identities=23% Similarity=0.633 Sum_probs=50.8
Q ss_pred cccccCccCcccccccccccccccCCCCcccHHHHHHHHhc----------------CCCCCCccccccccCCCCccc
Q 028627 100 SEIDIEREEECGICLEICCKIVLPDCNHSMCMRCYRNWRAR----------------SQSCPFCRDSLRRVNSGDLWI 161 (206)
Q Consensus 100 ~~~~~~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~----------------~~~CP~Cr~~~~~~~~~~~~~ 161 (206)
...+..++.+|+||++.+.+|+.++|||.||+.||.+|+.. ...||.||.++...++...+.
T Consensus 11 ~~~~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiyg 88 (193)
T PLN03208 11 TLVDSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYG 88 (193)
T ss_pred eeccCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeec
Confidence 33455678999999999999999999999999999999752 358999999997665555543
No 4
>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=99.31 E-value=4.7e-13 Score=82.69 Aligned_cols=40 Identities=45% Similarity=0.998 Sum_probs=35.5
Q ss_pred cccccccccc---cccccCCCCcccHHHHHHHHhcCCCCCCcc
Q 028627 109 ECGICLEICC---KIVLPDCNHSMCMRCYRNWRARSQSCPFCR 148 (206)
Q Consensus 109 ~C~IC~~~~~---~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr 148 (206)
+|+||++.+. ..+.++|||.||.+|+.+|+.++.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 6999999996 346689999999999999999999999997
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.29 E-value=1.4e-12 Score=107.90 Aligned_cols=56 Identities=30% Similarity=0.905 Sum_probs=47.0
Q ss_pred CccCccccccccccc--------ccccCCCCcccHHHHHHHHhcCCCCCCccccccccCCCCcc
Q 028627 105 EREEECGICLEICCK--------IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLW 160 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~--------~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~ 160 (206)
.++.+|+||++.+.+ ++.++|||.||..||.+|+....+||+||.++..+...+.|
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v~~~r~~ 235 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISVIKSRFF 235 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEEeeeeee
Confidence 456899999998764 25678999999999999999999999999999876555443
No 6
>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=99.28 E-value=1.8e-12 Score=82.25 Aligned_cols=47 Identities=36% Similarity=0.863 Sum_probs=42.3
Q ss_pred cCcccccccccccccccCCCCc-ccHHHHHHHHhcCCCCCCccccccc
Q 028627 107 EEECGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~~CgH~-Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
+..|.||++...+++.+||||. ||..|+.+|......||+||++++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 4689999999999999999999 9999999999999999999999864
No 7
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.27 E-value=2.4e-12 Score=78.76 Aligned_cols=38 Identities=37% Similarity=0.837 Sum_probs=30.6
Q ss_pred ccccccccccccccCCCCcccHHHHHHHHhcC----CCCCCc
Q 028627 110 CGICLEICCKIVLPDCNHSMCMRCYRNWRARS----QSCPFC 147 (206)
Q Consensus 110 C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~----~~CP~C 147 (206)
|+||++.+.+|+.++|||.||..||.+|+... ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999999999999999999998842 579987
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=2e-12 Score=105.00 Aligned_cols=59 Identities=25% Similarity=0.600 Sum_probs=51.5
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHh---cCCCCCCccccccccCCCCccccC
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRA---RSQSCPFCRDSLRRVNSGDLWIYT 163 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~---~~~~CP~Cr~~~~~~~~~~~~~~~ 163 (206)
....+|.||+|...+||++.|||.||+.||.+|++ .++.||+|+..++.....+++...
T Consensus 45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG 106 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRG 106 (230)
T ss_pred CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccC
Confidence 46789999999999999999999999999999998 467899999999877666665554
No 9
>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=99.19 E-value=9.1e-12 Score=74.95 Aligned_cols=38 Identities=34% Similarity=0.951 Sum_probs=34.1
Q ss_pred ccccccccccc-cccCCCCcccHHHHHHHHhcCCCCCCc
Q 028627 110 CGICLEICCKI-VLPDCNHSMCMRCYRNWRARSQSCPFC 147 (206)
Q Consensus 110 C~IC~~~~~~~-~~~~CgH~Fc~~Ci~~w~~~~~~CP~C 147 (206)
|+||++.+.++ +.++|||.||.+|+.+|++...+||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999999999 679999999999999999999999988
No 10
>PHA02926 zinc finger-like protein; Provisional
Probab=99.17 E-value=1.6e-11 Score=99.22 Aligned_cols=57 Identities=35% Similarity=0.957 Sum_probs=46.8
Q ss_pred CccCccccccccccc---------ccccCCCCcccHHHHHHHHhc------CCCCCCccccccccCCCCccc
Q 028627 105 EREEECGICLEICCK---------IVLPDCNHSMCMRCYRNWRAR------SQSCPFCRDSLRRVNSGDLWI 161 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~---------~~~~~CgH~Fc~~Ci~~w~~~------~~~CP~Cr~~~~~~~~~~~~~ 161 (206)
.++.+|+||++...+ +++.+|+|.||..||..|... ..+||+||..+....+++.+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf~~ 239 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKFYK 239 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccccee
Confidence 467899999998632 467799999999999999974 356999999999887776654
No 11
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.15 E-value=2.8e-11 Score=106.79 Aligned_cols=59 Identities=25% Similarity=0.673 Sum_probs=50.7
Q ss_pred ccCccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccccCCCCccc
Q 028627 103 DIEREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWI 161 (206)
Q Consensus 103 ~~~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~ 161 (206)
.++....|+||.+.+.+|++++|||.||..||..|+.....||.|+.++....+..++.
T Consensus 22 ~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr~N~~ 80 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLRSNWL 80 (397)
T ss_pred ccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCccchH
Confidence 44678899999999999999999999999999999998889999999987655544433
No 12
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.14 E-value=9.3e-11 Score=100.94 Aligned_cols=48 Identities=29% Similarity=0.814 Sum_probs=42.7
Q ss_pred CccCcccccccccc-------------cccccCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 028627 105 EREEECGICLEICC-------------KIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 152 (206)
Q Consensus 105 ~~~~~C~IC~~~~~-------------~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~ 152 (206)
.++..|.||+|.+. .|+.+||||.+|.+|++.|.+++.+||+||.|+-
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 57889999999843 2588999999999999999999999999999963
No 13
>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=99.14 E-value=3.8e-11 Score=79.41 Aligned_cols=50 Identities=20% Similarity=0.274 Sum_probs=45.0
Q ss_pred cCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccccCC
Q 028627 107 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNS 156 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 156 (206)
+..|+||.+.+.+|+.++|||.||..||.+|+.....||.|+.+++..++
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l 50 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDL 50 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhc
Confidence 35799999999999999999999999999999989999999998865444
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.08 E-value=5.5e-11 Score=92.99 Aligned_cols=52 Identities=27% Similarity=0.691 Sum_probs=44.9
Q ss_pred CccCcccccccccccc--cccCCCCcccHHHHHHHHhcCCCCCCccccccccCC
Q 028627 105 EREEECGICLEICCKI--VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNS 156 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~--~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 156 (206)
+....|+|||+.+.+. +.++|||.||..||...+.....||.|++.++...+
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF 182 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence 3458999999999854 558999999999999999999999999998875544
No 15
>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=99.06 E-value=8.5e-11 Score=80.49 Aligned_cols=42 Identities=33% Similarity=0.923 Sum_probs=34.9
Q ss_pred cCccccccccccc-------------ccccCCCCcccHHHHHHHHhcCCCCCCcc
Q 028627 107 EEECGICLEICCK-------------IVLPDCNHSMCMRCYRNWRARSQSCPFCR 148 (206)
Q Consensus 107 ~~~C~IC~~~~~~-------------~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr 148 (206)
+..|+||++.+.+ .+..+|||.||..||.+|+..+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 4459999999842 24458999999999999999999999997
No 16
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.01 E-value=1.7e-10 Score=69.89 Aligned_cols=38 Identities=47% Similarity=1.065 Sum_probs=35.5
Q ss_pred cccccccccccc-ccCCCCcccHHHHHHHHh--cCCCCCCc
Q 028627 110 CGICLEICCKIV-LPDCNHSMCMRCYRNWRA--RSQSCPFC 147 (206)
Q Consensus 110 C~IC~~~~~~~~-~~~CgH~Fc~~Ci~~w~~--~~~~CP~C 147 (206)
|+||++.+.+++ .++|||.||..|+.+|+. ....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999999998 899999999999999998 67889987
No 17
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.01 E-value=2.2e-10 Score=95.85 Aligned_cols=85 Identities=20% Similarity=0.380 Sum_probs=66.7
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccccCCCCccccCCchhhhhhhhhcHHHHHHHHH
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYTSEDDIVDLASISRENLKRLFM 184 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~d~~~~~~e~l~~l~~ 184 (206)
..-+.|-||-+.+..|..++|||.||.-||+.++..+..||.||.+...... .......++.+.-...+.-+.++++
T Consensus 23 Ds~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrl---r~~s~~~ei~es~~~~r~~l~~~L~ 99 (391)
T COG5432 23 DSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRL---RGSSGSREINESHARNRDLLRKVLE 99 (391)
T ss_pred hhHHHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhhhc---ccchhHHHHHHhhhhccHHHHHHHh
Confidence 3457899999999999999999999999999999999999999998764433 2334445555555566777777777
Q ss_pred HHhcCCCC
Q 028627 185 YIDKLPFI 192 (206)
Q Consensus 185 ~i~~l~~~ 192 (206)
....+|+-
T Consensus 100 ~~~~~p~p 107 (391)
T COG5432 100 SLCRLPRP 107 (391)
T ss_pred cccCCCCc
Confidence 77777654
No 18
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.99 E-value=3.1e-10 Score=69.06 Aligned_cols=43 Identities=37% Similarity=0.970 Sum_probs=36.8
Q ss_pred cccccccccccccc-cCCCCcccHHHHHHHHhc-CCCCCCccccc
Q 028627 109 ECGICLEICCKIVL-PDCNHSMCMRCYRNWRAR-SQSCPFCRDSL 151 (206)
Q Consensus 109 ~C~IC~~~~~~~~~-~~CgH~Fc~~Ci~~w~~~-~~~CP~Cr~~~ 151 (206)
+|+||++.+.+++. ++|||.||..|+..|+.. ...||.||..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 59999999966655 459999999999999987 88899998753
No 19
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.99 E-value=1.4e-10 Score=98.80 Aligned_cols=75 Identities=25% Similarity=0.589 Sum_probs=61.8
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccccCCCCccccCCchhhhhhhhhcHHHHHHH
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYTSEDDIVDLASISRENLKRL 182 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~d~~~~~~e~l~~l 182 (206)
..-+.|.||.++|..|+++||||.||.-||+.++..+..||.|+.+++.-.++.++.+ ++++.....-|..+-++
T Consensus 21 D~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~il---~Eiv~S~~~~R~~Ll~f 95 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRIL---DEIVKSLNFARNHLLQF 95 (442)
T ss_pred HHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhHH---HHHHHHHHHHHHHHHHH
Confidence 4568999999999999999999999999999999999999999999987666555433 45666666666665554
No 20
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=5.3e-10 Score=96.71 Aligned_cols=47 Identities=30% Similarity=0.766 Sum_probs=40.6
Q ss_pred Ccccccccccccc---cccCCCCcccHHHHHHHHhcC-CCCCCcccccccc
Q 028627 108 EECGICLEICCKI---VLPDCNHSMCMRCYRNWRARS-QSCPFCRDSLRRV 154 (206)
Q Consensus 108 ~~C~IC~~~~~~~---~~~~CgH~Fc~~Ci~~w~~~~-~~CP~Cr~~~~~~ 154 (206)
..|+||+|.+.++ ..+||+|.||..||++|+.+. ..||+|+..+...
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCC
Confidence 5999999999954 568999999999999999986 5599999977533
No 21
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=98.98 E-value=2.7e-10 Score=101.92 Aligned_cols=155 Identities=18% Similarity=0.334 Sum_probs=114.8
Q ss_pred hhccCCCcccchhhhHhhHHHHHHhhhhhHHHHhhcCCchHHHHHHHhhHHHHhhhcccccCCCcccccCccCccccccc
Q 028627 36 KAYADGKTTMCTRERKASIKEFYGVIFPSLLQLQRGITDVEDKKQKEICDAKYKKKGRMDKGKLSEIDIEREEECGICLE 115 (206)
Q Consensus 36 ~~~~~g~~~~~~~~r~~si~~f~~~i~psl~ql~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~ 115 (206)
..|.+.+..+.++....++.+.|+.||..+.++.+..+..+- ..++++. .+.. +...+.+|.+|.+
T Consensus 479 SLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~L--------Vl~S~~~-----n~~~-enk~~~~C~lc~d 544 (791)
T KOG1002|consen 479 SLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDL--------VLYSANA-----NLPD-ENKGEVECGLCHD 544 (791)
T ss_pred HHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcce--------eeehhhc-----CCCc-cccCceeecccCC
Confidence 567788888889999999999999999999988855544331 1111111 0111 2256789999999
Q ss_pred ccccccccCCCCcccHHHHHHHHh-----cCCCCCCccccccccCCCCccccCC-----chhhhhhhh----hcHHHHHH
Q 028627 116 ICCKIVLPDCNHSMCMRCYRNWRA-----RSQSCPFCRDSLRRVNSGDLWIYTS-----EDDIVDLAS----ISRENLKR 181 (206)
Q Consensus 116 ~~~~~~~~~CgH~Fc~~Ci~~w~~-----~~~~CP~Cr~~~~~~~~~~~~~~~~-----~~~~~d~~~----~~~e~l~~ 181 (206)
.-.+++...|.|.||..|+.++.. .+.+||.|...+.-....+-....+ .+.+.+... .++-+++.
T Consensus 545 ~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~sSIlnRinm~~~qsSTKIEA 624 (791)
T KOG1002|consen 545 PAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKASSILNRINMDDWQSSTKIEA 624 (791)
T ss_pred hhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcchhhhhhHHHhhhcchhhhcchhHHHH
Confidence 999999999999999999999987 3689999999887544333322111 333444333 47788999
Q ss_pred HHHHHhcCCCCCCCcceeccCCC
Q 028627 182 LFMYIDKLPFITPNPTLVSYDPR 204 (206)
Q Consensus 182 l~~~i~~l~~~~p~~~~~~~~~~ 204 (206)
|.|.|..+-...-.+++.||+||
T Consensus 625 L~EEl~~l~~rd~t~KsIVFSQF 647 (791)
T KOG1002|consen 625 LVEELYFLRERDRTAKSIVFSQF 647 (791)
T ss_pred HHHHHHHHHHcccchhhhhHHHH
Confidence 99999988888899999999987
No 22
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=1.2e-09 Score=97.68 Aligned_cols=57 Identities=28% Similarity=0.599 Sum_probs=47.9
Q ss_pred cCcccccccccccccccCCCCcccHHHHHHHHhc-----CCCCCCccccccccCCCCccccC
Q 028627 107 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRAR-----SQSCPFCRDSLRRVNSGDLWIYT 163 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~-----~~~CP~Cr~~~~~~~~~~~~~~~ 163 (206)
+..||||++....|+.+.|||.||..||.+++.. ...||+||..+...+........
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~ 247 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIED 247 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeecc
Confidence 7899999999999999999999999999997763 57899999999875555544433
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.84 E-value=2.1e-09 Score=63.15 Aligned_cols=38 Identities=39% Similarity=1.037 Sum_probs=34.8
Q ss_pred ccccccccccccccCCCCcccHHHHHHHHh-cCCCCCCc
Q 028627 110 CGICLEICCKIVLPDCNHSMCMRCYRNWRA-RSQSCPFC 147 (206)
Q Consensus 110 C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~-~~~~CP~C 147 (206)
|+||++....++.++|||.||..|+..|+. ....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999988889999999999999999998 67789987
No 24
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.83 E-value=2.1e-09 Score=66.35 Aligned_cols=41 Identities=34% Similarity=0.985 Sum_probs=36.2
Q ss_pred cccccccccc---cccccCCCCcccHHHHHHHHhcCCCCCCccc
Q 028627 109 ECGICLEICC---KIVLPDCNHSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 109 ~C~IC~~~~~---~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
.|++|++.+. .+.+++|||.||..|+..+......||+||+
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 4899999993 4688999999999999999877899999985
No 25
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.77 E-value=3e-09 Score=72.80 Aligned_cols=54 Identities=20% Similarity=0.247 Sum_probs=43.1
Q ss_pred ccCcccccccccccccccCCCCcccHHHHHHHHhc-CCCCCCccccccccCCCCc
Q 028627 106 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRAR-SQSCPFCRDSLRRVNSGDL 159 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~-~~~CP~Cr~~~~~~~~~~~ 159 (206)
+++.|+|+.+.+.+|+.+++||.|+..||..|+.. ...||+|+.++....+..+
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~pn 57 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIPN 57 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE-
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceEC
Confidence 57899999999999999999999999999999998 9999999999886555333
No 26
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=3.6e-09 Score=89.10 Aligned_cols=48 Identities=29% Similarity=0.771 Sum_probs=42.0
Q ss_pred CccCcccccccccccc---cccCCCCcccHHHHHHHHh-cCCCCCCcccccc
Q 028627 105 EREEECGICLEICCKI---VLPDCNHSMCMRCYRNWRA-RSQSCPFCRDSLR 152 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~---~~~~CgH~Fc~~Ci~~w~~-~~~~CP~Cr~~~~ 152 (206)
....+|+||++.+.+. +.+||.|.||..|+.+|+. -+..||.||.++.
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 3558999999999843 6689999999999999998 5889999999875
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=3.6e-09 Score=87.63 Aligned_cols=49 Identities=27% Similarity=0.673 Sum_probs=43.7
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHH-HHhcCCC-CCCccccccc
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRN-WRARSQS-CPFCRDSLRR 153 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~-w~~~~~~-CP~Cr~~~~~ 153 (206)
..+..|+||++....+..++|||.||..||.. |-.+... ||+||+....
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~p 263 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYP 263 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccc
Confidence 45889999999999999999999999999999 9876655 9999998753
No 28
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.73 E-value=7.8e-09 Score=72.02 Aligned_cols=49 Identities=29% Similarity=0.732 Sum_probs=39.8
Q ss_pred CccCccccccccccc------------c-cccCCCCcccHHHHHHHHhc---CCCCCCccccccc
Q 028627 105 EREEECGICLEICCK------------I-VLPDCNHSMCMRCYRNWRAR---SQSCPFCRDSLRR 153 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~------------~-~~~~CgH~Fc~~Ci~~w~~~---~~~CP~Cr~~~~~ 153 (206)
.++..|.||...|.. | +.-.|+|.||..||.+|+.. ...||+||++...
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 457889999988872 1 33479999999999999984 5799999998764
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.72 E-value=5.4e-09 Score=64.06 Aligned_cols=35 Identities=29% Similarity=0.800 Sum_probs=22.2
Q ss_pred cccccccccc----ccccCCCCcccHHHHHHHHhc----CCCCC
Q 028627 110 CGICLEICCK----IVLPDCNHSMCMRCYRNWRAR----SQSCP 145 (206)
Q Consensus 110 C~IC~~~~~~----~~~~~CgH~Fc~~Ci~~w~~~----~~~CP 145 (206)
|+||.+ +.+ |+.++|||.||.+|+.++..+ ..+||
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 776 899999999999999999884 34665
No 30
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=1.1e-08 Score=94.61 Aligned_cols=47 Identities=38% Similarity=0.725 Sum_probs=43.2
Q ss_pred CccCccccccccccc-----ccccCCCCcccHHHHHHHHhcCCCCCCccccc
Q 028627 105 EREEECGICLEICCK-----IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSL 151 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~-----~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~ 151 (206)
..+..|+||+|.+.. +..++|||.||..|+..|+++..+||.||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 457899999999997 78899999999999999999999999999944
No 31
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=1.3e-08 Score=64.48 Aligned_cols=47 Identities=34% Similarity=0.785 Sum_probs=41.4
Q ss_pred cCcccccccccccccccCCCCc-ccHHHHHHHHh-cCCCCCCccccccc
Q 028627 107 EEECGICLEICCKIVLPDCNHS-MCMRCYRNWRA-RSQSCPFCRDSLRR 153 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~~CgH~-Fc~~Ci~~w~~-~~~~CP~Cr~~~~~ 153 (206)
+.+|.||++...+.++..|||. .|..|-.+.+. .+..||+||+++..
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 3689999999999999899996 99999988666 68999999999863
No 32
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=4.1e-08 Score=82.08 Aligned_cols=45 Identities=38% Similarity=0.786 Sum_probs=41.6
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccc
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
.++..|+||++.+.+|+.++|||.||..|+..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREPVLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcCccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 578899999999999999999999999999998877789999994
No 33
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.51 E-value=1.7e-07 Score=80.17 Aligned_cols=53 Identities=26% Similarity=0.508 Sum_probs=40.1
Q ss_pred cCccccccccc-ccc----cccCCCCcccHHHHHHHH-hcCCCCCCccccccccCCCCc
Q 028627 107 EEECGICLEIC-CKI----VLPDCNHSMCMRCYRNWR-ARSQSCPFCRDSLRRVNSGDL 159 (206)
Q Consensus 107 ~~~C~IC~~~~-~~~----~~~~CgH~Fc~~Ci~~w~-~~~~~CP~Cr~~~~~~~~~~~ 159 (206)
+..||+|...- ..+ .+.+|||.||..|+...+ .....||.|+.++...++...
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr~q 61 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFRVQ 61 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcccc
Confidence 46899999952 222 222799999999999955 456789999999987766544
No 34
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.46 E-value=1.2e-08 Score=67.11 Aligned_cols=54 Identities=26% Similarity=0.549 Sum_probs=27.4
Q ss_pred CccCcccccccccccccc-cCCCCcccHHHHHHHHhcCCCCCCccccccccCCCCcc
Q 028627 105 EREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLW 160 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~-~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~ 160 (206)
+.-+.|++|.+.+.+|+. ..|.|.||+.||..-+. ..||+|+.|....+.+.++
T Consensus 5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~Nr 59 (65)
T PF14835_consen 5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQINR 59 (65)
T ss_dssp HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----H
T ss_pred HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhhh
Confidence 356789999999999975 79999999999977433 4599999988765555543
No 35
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=7.3e-08 Score=89.95 Aligned_cols=54 Identities=20% Similarity=0.562 Sum_probs=46.8
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHh-cCCCCCCccccccccCCCC
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRA-RSQSCPFCRDSLRRVNSGD 158 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~~ 158 (206)
..-..|++|.+...+.+++.|||.||..|+..-.. +...||.|..+|...+..+
T Consensus 641 K~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 641 KELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR 695 (698)
T ss_pred HhceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence 34589999999999999999999999999988766 7999999999998655543
No 36
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=1.9e-07 Score=80.57 Aligned_cols=49 Identities=33% Similarity=0.821 Sum_probs=45.0
Q ss_pred CccCcccccccccccccccCCCCc-ccHHHHHHHHhcCCCCCCccccccc
Q 028627 105 EREEECGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~-Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
+...+|.||+....+.+++||.|. .|..|.+...-+++.||+||+++..
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 456899999999999999999996 9999999998899999999999864
No 37
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.22 E-value=2.7e-07 Score=80.49 Aligned_cols=51 Identities=31% Similarity=0.813 Sum_probs=44.5
Q ss_pred ccCcccccccccccccccCCCCcccHHHHHHHHhc--CCCCCCccccccccCC
Q 028627 106 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRAR--SQSCPFCRDSLRRVNS 156 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~--~~~CP~Cr~~~~~~~~ 156 (206)
.-..|.||-+.-.+..+-||||..|..|+..|... +..||+||..+.....
T Consensus 368 TFeLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~ 420 (563)
T KOG1785|consen 368 TFELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP 420 (563)
T ss_pred hHHHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence 44679999999999999999999999999999863 7899999999975444
No 38
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.08 E-value=1.9e-06 Score=76.47 Aligned_cols=50 Identities=34% Similarity=0.780 Sum_probs=46.3
Q ss_pred cCccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccc
Q 028627 104 IEREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 104 ~~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
...+.+|.||+..+.+|+.+||||.||..|+.+-+.....||.||.++..
T Consensus 81 ~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCCCccccccccccHHHHHHHhccCCCCccccccccc
Confidence 36789999999999999999999999999999988889999999999875
No 39
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=98.04 E-value=3.8e-06 Score=71.82 Aligned_cols=88 Identities=18% Similarity=0.375 Sum_probs=63.1
Q ss_pred ccCccCcccccccccccccc-cCCCCcccHHHHHHHHhcCCCCCCccccccccCCCCccccC-Cchhhhhhh--hhcHHH
Q 028627 103 DIEREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYT-SEDDIVDLA--SISREN 178 (206)
Q Consensus 103 ~~~~~~~C~IC~~~~~~~~~-~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~-~~~~~~d~~--~~~~e~ 178 (206)
+......|.+|-.++.++.. +.|-|.||.+||..++.....||.|...+....+..+...+ ..++++-.. .-...+
T Consensus 11 ~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl~ni~~DrtlqdiVyKLVPgl~erE 90 (331)
T KOG2660|consen 11 ELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPLLNIRSDRTLQDIVYKLVPGLQERE 90 (331)
T ss_pred hcccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccccccCCcchHHHHHHHHHcchHHHHH
Confidence 44678899999999999855 78999999999999999999999999988765543333322 233433332 123445
Q ss_pred HHHHHHHHhcCC
Q 028627 179 LKRLFMYIDKLP 190 (206)
Q Consensus 179 l~~l~~~i~~l~ 190 (206)
+++.-++..+-+
T Consensus 91 ~k~~rdFy~~~~ 102 (331)
T KOG2660|consen 91 MKRRRDFYKSRP 102 (331)
T ss_pred HHHHHHHHHhCC
Confidence 566666666665
No 40
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=2.9e-06 Score=71.75 Aligned_cols=48 Identities=25% Similarity=0.562 Sum_probs=41.8
Q ss_pred ccCcccccccccccccccCCCCcccHHHHHHHHhc-CCCCCCccccccc
Q 028627 106 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRAR-SQSCPFCRDSLRR 153 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~-~~~CP~Cr~~~~~ 153 (206)
...+|+||+....-|+.++|+|.||.-||..-... ...|++||.++..
T Consensus 6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred cCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 45689999999999999999999999999886554 5669999999963
No 41
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.00 E-value=3.4e-06 Score=57.68 Aligned_cols=47 Identities=26% Similarity=0.559 Sum_probs=36.9
Q ss_pred Ccccccccccccc----------------cccCCCCcccHHHHHHHHhcCCCCCCcccccccc
Q 028627 108 EECGICLEICCKI----------------VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 108 ~~C~IC~~~~~~~----------------~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~ 154 (206)
..|+||...+.+. +---|.|.||..||.+|+.....||++|++....
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLA 83 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEe
Confidence 5678887665521 1235999999999999999999999999987643
No 42
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=7.4e-07 Score=76.70 Aligned_cols=50 Identities=28% Similarity=0.649 Sum_probs=41.8
Q ss_pred ccCccCcccccccccccccc-cCCCCcccHHHHHHHHh-cCCCCCCcccccc
Q 028627 103 DIEREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRA-RSQSCPFCRDSLR 152 (206)
Q Consensus 103 ~~~~~~~C~IC~~~~~~~~~-~~CgH~Fc~~Ci~~w~~-~~~~CP~Cr~~~~ 152 (206)
.+..+..|+||++.+...+. ..|+|.||.+||..-+. ..+.||.||+.+.
T Consensus 39 ~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 39 MFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred HhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 34567899999999997655 57999999999977554 6899999999875
No 43
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=3e-05 Score=64.87 Aligned_cols=51 Identities=25% Similarity=0.564 Sum_probs=42.2
Q ss_pred ccCccCcccccccccccccc-cCCCCcccHHHHHHHHh--cCCCCCCccccccc
Q 028627 103 DIEREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRA--RSQSCPFCRDSLRR 153 (206)
Q Consensus 103 ~~~~~~~C~IC~~~~~~~~~-~~CgH~Fc~~Ci~~w~~--~~~~CP~Cr~~~~~ 153 (206)
....+.+|++|-+....|.. .+|||.+|..|+..-.. .+.+||.|..+...
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred cccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 33677899999999998866 46999999999987655 47999999887653
No 44
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=2.8e-06 Score=75.97 Aligned_cols=49 Identities=29% Similarity=0.686 Sum_probs=40.2
Q ss_pred CccCccccccccccc-----------------ccccCCCCcccHHHHHHHHhc-CCCCCCccccccc
Q 028627 105 EREEECGICLEICCK-----------------IVLPDCNHSMCMRCYRNWRAR-SQSCPFCRDSLRR 153 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~-----------------~~~~~CgH~Fc~~Ci~~w~~~-~~~CP~Cr~~~~~ 153 (206)
+....|+||+..+.- -+.+||.|.||..|+.+|... .-.||.||.++..
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 456899999987651 245699999999999999995 5599999998753
No 45
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.97 E-value=4e-06 Score=79.96 Aligned_cols=51 Identities=27% Similarity=0.716 Sum_probs=41.8
Q ss_pred ccCccCcccccccccc--c-----ccccCCCCcccHHHHHHHHhc--CCCCCCccccccc
Q 028627 103 DIEREEECGICLEICC--K-----IVLPDCNHSMCMRCYRNWRAR--SQSCPFCRDSLRR 153 (206)
Q Consensus 103 ~~~~~~~C~IC~~~~~--~-----~~~~~CgH~Fc~~Ci~~w~~~--~~~CP~Cr~~~~~ 153 (206)
..++..+|+||+..+. + .....|.|-||..|+.+|... +.+||.||..++.
T Consensus 1465 ~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1465 KFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred hcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 5578899999998766 2 244569999999999999984 7899999988764
No 46
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.92 E-value=2.1e-06 Score=58.23 Aligned_cols=46 Identities=30% Similarity=0.814 Sum_probs=23.8
Q ss_pred cCcccccccccc-c---c--cc--cCCCCcccHHHHHHHHhc-----------CCCCCCcccccc
Q 028627 107 EEECGICLEICC-K---I--VL--PDCNHSMCMRCYRNWRAR-----------SQSCPFCRDSLR 152 (206)
Q Consensus 107 ~~~C~IC~~~~~-~---~--~~--~~CgH~Fc~~Ci~~w~~~-----------~~~CP~Cr~~~~ 152 (206)
+.+|+||+.... + + +- ..|++.||..|+.+|+.. ...||.|+.+++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 468999999865 2 2 22 279999999999999872 136999999886
No 47
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.91 E-value=3.7e-06 Score=67.20 Aligned_cols=45 Identities=27% Similarity=0.584 Sum_probs=41.4
Q ss_pred CcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 028627 108 EECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 152 (206)
Q Consensus 108 ~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~ 152 (206)
+.|.||...+..|+.+.|||.||..|...-......|-+|.+...
T Consensus 197 F~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 197 FLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGDECGVCGKATY 241 (259)
T ss_pred eeehhchhhccchhhhhcchhHHHHHHHHHhccCCcceecchhhc
Confidence 589999999999999999999999999998889999999977543
No 48
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=1.6e-05 Score=68.72 Aligned_cols=49 Identities=22% Similarity=0.606 Sum_probs=45.7
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccc
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
.++..|+||.-....++..||||.-|+.||.+.+.+.+.|-+|+..+..
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 5678999999999999999999999999999999999999999988764
No 49
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=97.83 E-value=7.9e-06 Score=77.21 Aligned_cols=159 Identities=13% Similarity=0.271 Sum_probs=91.6
Q ss_pred CCCcccchhhhHhhHHHHHHhhhhhHHHHhhcCCchHHHHHHHhhHHHHhhhcccccCCCcccccCccCccccccccccc
Q 028627 40 DGKTTMCTRERKASIKEFYGVIFPSLLQLQRGITDVEDKKQKEICDAKYKKKGRMDKGKLSEIDIEREEECGICLEICCK 119 (206)
Q Consensus 40 ~g~~~~~~~~r~~si~~f~~~i~psl~ql~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~ 119 (206)
++...+.......++..-|+.++-.+.++.+...+...-.....+.+........... -.........|.+|.+ ...
T Consensus 389 ~~~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~~~~~~~~~~~~~~--~i~~l~~~~~c~ic~~-~~~ 465 (674)
T KOG1001|consen 389 NSRNQFSNYANEGTVSSTYAFFLKNLLRLRQACDHSLLVMYEMDSLGDSGSAAALIIR--LIVDLSVSHWCHICCD-LDS 465 (674)
T ss_pred hhhhHHHHHhhhchhhhhHHHHHHHHHHHHHHccchHhhhhhhhccccccccchHHHH--HHHHHhhccccccccc-ccc
Confidence 3444445555666777788888888877765555432211100000000000000000 0001112279999999 777
Q ss_pred ccccCCCCcccHHHHHHHHhc--CCCCCCccccccccCCCCccccCCchhhhhhhhhcHHHHHHHHHHHhcCCCCCCCcc
Q 028627 120 IVLPDCNHSMCMRCYRNWRAR--SQSCPFCRDSLRRVNSGDLWIYTSEDDIVDLASISRENLKRLFMYIDKLPFITPNPT 197 (206)
Q Consensus 120 ~~~~~CgH~Fc~~Ci~~w~~~--~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~d~~~~~~e~l~~l~~~i~~l~~~~p~~~ 197 (206)
++.++|||.||..|+...+.. ...||.||..+...........+.... + ....+.++..+..++...+..-- .+
T Consensus 466 ~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~~~~~~~~~--~-~~~~s~ki~~~~~~l~~~~~s~~-~k 541 (674)
T KOG1001|consen 466 FFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSANPLPSIIN--D-LLPESSKIYAFLKILQAKEMSEQ-PK 541 (674)
T ss_pred ceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhcccccchhh--h-ccchhhhhHHHHHHHhhccCCCC-Cc
Confidence 888999999999999987763 447999999886554433322222111 1 11177788888888875554444 48
Q ss_pred eeccCCCC
Q 028627 198 LVSYDPRY 205 (206)
Q Consensus 198 ~~~~~~~~ 205 (206)
.++|+||.
T Consensus 542 iiifsq~~ 549 (674)
T KOG1001|consen 542 IVIFSQLI 549 (674)
T ss_pred eeeehhHH
Confidence 89998863
No 50
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=5.3e-06 Score=69.16 Aligned_cols=50 Identities=24% Similarity=0.645 Sum_probs=40.8
Q ss_pred CccCccccccccccc----------ccccCCCCcccHHHHHHHHh--cCCCCCCcccccccc
Q 028627 105 EREEECGICLEICCK----------IVLPDCNHSMCMRCYRNWRA--RSQSCPFCRDSLRRV 154 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~----------~~~~~CgH~Fc~~Ci~~w~~--~~~~CP~Cr~~~~~~ 154 (206)
.++..|+||-..+.. ...+.|+|.||..||+.|.. +..+||.|+..+...
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHh
Confidence 457789999887652 34678999999999999976 678999999987543
No 51
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.77 E-value=1.1e-05 Score=71.83 Aligned_cols=51 Identities=27% Similarity=0.709 Sum_probs=45.8
Q ss_pred cCccCcccccccccccccc-cCCCCcccHHHHHHHHhcCCCCCCcccccccc
Q 028627 104 IEREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 104 ~~~~~~C~IC~~~~~~~~~-~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~ 154 (206)
...+..|++|...+.+|+. +.|||.||..|+..|...+..||.|+..+...
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQA 69 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhccCcCCcccccccchh
Confidence 3567899999999999999 49999999999999999999999999887643
No 52
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.75 E-value=6.2e-06 Score=55.92 Aligned_cols=48 Identities=29% Similarity=0.665 Sum_probs=37.1
Q ss_pred ccCccccccccccc------------c-cccCCCCcccHHHHHHHHh---cCCCCCCccccccc
Q 028627 106 REEECGICLEICCK------------I-VLPDCNHSMCMRCYRNWRA---RSQSCPFCRDSLRR 153 (206)
Q Consensus 106 ~~~~C~IC~~~~~~------------~-~~~~CgH~Fc~~Ci~~w~~---~~~~CP~Cr~~~~~ 153 (206)
.+..|.||.-.|.. | +.--|.|.||..||.+|+. +...||+||+..+.
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 34589999887762 1 2235999999999999997 35789999998753
No 53
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=1.4e-05 Score=67.43 Aligned_cols=45 Identities=22% Similarity=0.542 Sum_probs=42.0
Q ss_pred CcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 028627 108 EECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 152 (206)
Q Consensus 108 ~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~ 152 (206)
..|-||...+..||.+.|||.||..|...-++.+..|++|.+.+.
T Consensus 242 f~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred ccccccccccccchhhcCCceeehhhhccccccCCcceecccccc
Confidence 569999999999999999999999999999999999999988765
No 54
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=97.61 E-value=3.9e-05 Score=48.30 Aligned_cols=40 Identities=20% Similarity=0.674 Sum_probs=31.4
Q ss_pred ccccccc--ccccccccCCC-----CcccHHHHHHHHhc--CCCCCCcc
Q 028627 109 ECGICLE--ICCKIVLPDCN-----HSMCMRCYRNWRAR--SQSCPFCR 148 (206)
Q Consensus 109 ~C~IC~~--~~~~~~~~~Cg-----H~Fc~~Ci~~w~~~--~~~CP~Cr 148 (206)
.|.||++ ...++...||. |.+|..|+.+|+.. ..+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4889998 23355677885 88999999999964 56999995
No 55
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.59 E-value=2.7e-05 Score=68.33 Aligned_cols=54 Identities=22% Similarity=0.578 Sum_probs=43.3
Q ss_pred ccCcccccccccccc-----cccCCCCcccHHHHHHHHhc--CCCCCCccccccccCCCCc
Q 028627 106 REEECGICLEICCKI-----VLPDCNHSMCMRCYRNWRAR--SQSCPFCRDSLRRVNSGDL 159 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~-----~~~~CgH~Fc~~Ci~~w~~~--~~~CP~Cr~~~~~~~~~~~ 159 (206)
....|+||++.+.-+ +.+.|||.|..+||.+|+.+ ...||.|...-++..+...
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~~e 63 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIRPE 63 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHHHH
Confidence 457899999998843 56789999999999999974 5689999887765554443
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.58 E-value=3.5e-05 Score=50.07 Aligned_cols=42 Identities=21% Similarity=0.369 Sum_probs=30.2
Q ss_pred CccCcccccccccccccc-cCCCCcccHHHHHHHHh--cCCCCCC
Q 028627 105 EREEECGICLEICCKIVL-PDCNHSMCMRCYRNWRA--RSQSCPF 146 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~-~~CgH~Fc~~Ci~~w~~--~~~~CP~ 146 (206)
.....|||.+..+.+|+. ..|||.|..+.|.+|+. +...||.
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 456899999999999977 58999999999999994 4778998
No 57
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.50 E-value=5.1e-05 Score=67.40 Aligned_cols=48 Identities=31% Similarity=0.676 Sum_probs=38.3
Q ss_pred ccCccCcccccccccccc----cccCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 028627 103 DIEREEECGICLEICCKI----VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 152 (206)
Q Consensus 103 ~~~~~~~C~IC~~~~~~~----~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~ 152 (206)
...+-.+||||++.+..- +.+.|.|.||..|+..|. ..+||+||--.+
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 345568999999998743 346899999999999995 567999997544
No 58
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=2.4e-05 Score=66.00 Aligned_cols=43 Identities=30% Similarity=0.858 Sum_probs=37.4
Q ss_pred cCcccccccccccccccCCCCc-ccHHHHHHHHhcCCCCCCccccccc
Q 028627 107 EEECGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~~CgH~-Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
...|+||++...+-++++|||. -|..|-... ..||+||+-+.+
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM----NECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc----ccCchHHHHHHH
Confidence 7889999999999999999996 799996554 599999987653
No 59
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=6.3e-05 Score=65.71 Aligned_cols=44 Identities=27% Similarity=0.721 Sum_probs=33.1
Q ss_pred Ccccccccccccc----cccCCCCcccHHHHHHHHhc---CCCCCCccccc
Q 028627 108 EECGICLEICCKI----VLPDCNHSMCMRCYRNWRAR---SQSCPFCRDSL 151 (206)
Q Consensus 108 ~~C~IC~~~~~~~----~~~~CgH~Fc~~Ci~~w~~~---~~~CP~Cr~~~ 151 (206)
..|.||.+.+... .+-.|||.||..|+..|+.. ...||+|+-.+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 4799996655522 22249999999999999995 36899999443
No 60
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=7.5e-05 Score=53.60 Aligned_cols=46 Identities=22% Similarity=0.615 Sum_probs=35.9
Q ss_pred ccCcccccccccccc-----------------cccCCCCcccHHHHHHHHhcCCCCCCccccc
Q 028627 106 REEECGICLEICCKI-----------------VLPDCNHSMCMRCYRNWRARSQSCPFCRDSL 151 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~-----------------~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~ 151 (206)
.-..|+||..-+-+. .=-.|.|.||..||.+|++....||+|.++-
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 347899998654421 1125999999999999999999999998754
No 61
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.33 E-value=5.6e-05 Score=71.13 Aligned_cols=54 Identities=26% Similarity=0.596 Sum_probs=43.1
Q ss_pred CccCcccccccccccc---cccCCCCcccHHHHHHHHhcCCCCCCccccccccCCCC
Q 028627 105 EREEECGICLEICCKI---VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGD 158 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~---~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~ 158 (206)
.....|++|+..+.+. ...+|+|.||..|+..|.....+||+||..+..+....
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~e 177 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVLE 177 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeeec
Confidence 3456788888777654 33579999999999999999999999999987655443
No 62
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.16 E-value=0.00021 Score=45.69 Aligned_cols=48 Identities=27% Similarity=0.644 Sum_probs=39.0
Q ss_pred ccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccccC
Q 028627 106 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVN 155 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~ 155 (206)
.+..|-.|...-...++++|||..|..|..-+ +.+.||+|..++...+
T Consensus 6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred cceeEEEccccccccccccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 45678888888788899999999999996544 6788999999987544
No 63
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.00046 Score=59.91 Aligned_cols=46 Identities=28% Similarity=0.685 Sum_probs=35.7
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccc
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
.....|.||.+...+.+..||||.-| |..-... ..+||+||..+..
T Consensus 303 ~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIRL 348 (355)
T ss_pred CCCCceEEecCCccceeeecCCcEEE--chHHHhh-CCCCchhHHHHHH
Confidence 45578999999999999999999855 5544332 3449999998764
No 64
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.94 E-value=0.00062 Score=64.80 Aligned_cols=66 Identities=23% Similarity=0.361 Sum_probs=45.5
Q ss_pred HHhhHHHHhhhcccccCCCccccc----CccCcccccccccccc-cccCCCCcccHHHHHHHHhcCCCCCCccc
Q 028627 81 KEICDAKYKKKGRMDKGKLSEIDI----EREEECGICLEICCKI-VLPDCNHSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~C~IC~~~~~~~-~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
.+..++.+.+..++-+.++..... -....|..|-..+.-| |...|||.||..|.. .+...||.|+.
T Consensus 810 d~~~Ie~yk~~i~e~r~~l~~lr~sa~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 810 DEDAIEVYKKDIEEKRQELETLRTSAQIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhcccceeeeeeecccCCccccceeeeecccHHHHHhhc---cCcccCCccch
Confidence 334555555555444433322211 2336899999999876 558899999999987 56789999977
No 65
>PHA03096 p28-like protein; Provisional
Probab=96.78 E-value=0.00057 Score=58.38 Aligned_cols=44 Identities=27% Similarity=0.523 Sum_probs=32.5
Q ss_pred Cccccccccccc--------ccccCCCCcccHHHHHHHHhc---CCCCCCccccc
Q 028627 108 EECGICLEICCK--------IVLPDCNHSMCMRCYRNWRAR---SQSCPFCRDSL 151 (206)
Q Consensus 108 ~~C~IC~~~~~~--------~~~~~CgH~Fc~~Ci~~w~~~---~~~CP~Cr~~~ 151 (206)
..|.||++.... +.+..|.|.||..|+..|... ...||.||...
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~ 233 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLN 233 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchh
Confidence 579999998652 366689999999999999873 34455444433
No 66
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.70 E-value=0.0013 Score=57.04 Aligned_cols=49 Identities=27% Similarity=0.599 Sum_probs=42.2
Q ss_pred cCccCcccccccccccccccCCCCcccHHHHHHHH--hcCCCCCCcccccc
Q 028627 104 IEREEECGICLEICCKIVLPDCNHSMCMRCYRNWR--ARSQSCPFCRDSLR 152 (206)
Q Consensus 104 ~~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~--~~~~~CP~Cr~~~~ 152 (206)
.++...|-||.+...-...+||+|..|.-|..+.. ...+.||+||..-.
T Consensus 58 DEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 58 DEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred ccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 36678999999999988899999999999997753 47899999998754
No 67
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.51 E-value=0.0015 Score=55.84 Aligned_cols=45 Identities=31% Similarity=0.716 Sum_probs=38.0
Q ss_pred cCcccccccccc------cccccCCCCcccHHHHHHHHhc-CCCCCCccccc
Q 028627 107 EEECGICLEICC------KIVLPDCNHSMCMRCYRNWRAR-SQSCPFCRDSL 151 (206)
Q Consensus 107 ~~~C~IC~~~~~------~~~~~~CgH~Fc~~Ci~~w~~~-~~~CP~Cr~~~ 151 (206)
...|.||-++++ .|..+.|||.+|..|+...+.. ...||+||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 357999999988 3577789999999999988774 67899999985
No 68
>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=96.39 E-value=0.0025 Score=45.91 Aligned_cols=35 Identities=20% Similarity=0.507 Sum_probs=27.9
Q ss_pred ccccCccCcccccccccccc--cccCCCCcccHHHHH
Q 028627 101 EIDIEREEECGICLEICCKI--VLPDCNHSMCMRCYR 135 (206)
Q Consensus 101 ~~~~~~~~~C~IC~~~~~~~--~~~~CgH~Fc~~Ci~ 135 (206)
......+..|++|...+.+. +..||||.||..|+.
T Consensus 72 ~v~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 72 SVVITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred eEEECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 33446678899999998865 457999999999974
No 69
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.36 E-value=0.002 Score=54.79 Aligned_cols=42 Identities=21% Similarity=0.558 Sum_probs=36.8
Q ss_pred Cccccccccccccccc-CCCCcccHHHHHHH-HhcCCCCCCccc
Q 028627 108 EECGICLEICCKIVLP-DCNHSMCMRCYRNW-RARSQSCPFCRD 149 (206)
Q Consensus 108 ~~C~IC~~~~~~~~~~-~CgH~Fc~~Ci~~w-~~~~~~CP~Cr~ 149 (206)
+.|+.|.....+++.+ -|||.||.+||..- +...+.||.|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 8999999999999887 57999999999864 457899999966
No 70
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=96.31 E-value=0.0017 Score=55.28 Aligned_cols=49 Identities=24% Similarity=0.662 Sum_probs=39.0
Q ss_pred CccCcccccccccccc---cccCCCCcccHHHHHHHHhc-----------------------CCCCCCccccccc
Q 028627 105 EREEECGICLEICCKI---VLPDCNHSMCMRCYRNWRAR-----------------------SQSCPFCRDSLRR 153 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~---~~~~CgH~Fc~~Ci~~w~~~-----------------------~~~CP~Cr~~~~~ 153 (206)
....+|.||+--|.+. +.++|-|.||..|+-+++.. ...||+||.++.-
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 3467899999998843 66899999999999887750 2369999999863
No 71
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.15 E-value=0.0033 Score=63.08 Aligned_cols=69 Identities=23% Similarity=0.565 Sum_probs=48.7
Q ss_pred CccCcccccccccc---cccccCCCCcccHHHHHHHHhc----------CCCCCCccccccccCCCCccccCCchhhhhh
Q 028627 105 EREEECGICLEICC---KIVLPDCNHSMCMRCYRNWRAR----------SQSCPFCRDSLRRVNSGDLWIYTSEDDIVDL 171 (206)
Q Consensus 105 ~~~~~C~IC~~~~~---~~~~~~CgH~Fc~~Ci~~w~~~----------~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~d~ 171 (206)
..+..|-||+..-- ..+.+.|+|.||..|.+..+++ --+||+|..++....+ .|+.|.
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~L---------kDLldP 3554 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVL---------KDLLDP 3554 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHH---------HHHHHH
Confidence 45678999987643 3477999999999999887773 2489999988875433 344555
Q ss_pred hhhcHHHHHHH
Q 028627 172 ASISRENLKRL 182 (206)
Q Consensus 172 ~~~~~e~l~~l 182 (206)
...-+|++++.
T Consensus 3555 iKel~edV~~K 3565 (3738)
T KOG1428|consen 3555 IKELYEDVRRK 3565 (3738)
T ss_pred HHHHHHHHHHH
Confidence 55555555443
No 72
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.07 E-value=0.0031 Score=52.15 Aligned_cols=51 Identities=24% Similarity=0.661 Sum_probs=34.9
Q ss_pred cccccccccc-cc-cccCCCCcccHHHHHHHHhcCCCCCCccccccccCCCCccc
Q 028627 109 ECGICLEICC-KI-VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWI 161 (206)
Q Consensus 109 ~C~IC~~~~~-~~-~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~ 161 (206)
-|.-|..... ++ .++.|+|.||..|...- ....||+|++++..+.+....+
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l~~slp 57 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKAS--SPDVCPLCKKSIRIIQLNRSLP 57 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhcccC--Cccccccccceeeeeecccccc
Confidence 4666665544 23 55799999999996432 1239999999987665555533
No 73
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=96.01 E-value=0.0039 Score=53.67 Aligned_cols=45 Identities=24% Similarity=0.579 Sum_probs=37.4
Q ss_pred CccCccccccccccccccc-CCCCcccHHHHHHHHhcCCCCCCcccccc
Q 028627 105 EREEECGICLEICCKIVLP-DCNHSMCMRCYRNWRARSQSCPFCRDSLR 152 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~-~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~ 152 (206)
.+-++||||.+.+..|+.- +=||.-|..|-.+ ....||.||.+++
T Consensus 46 ~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCcccceecCCCcEehhhhhhh---hcccCCccccccc
Confidence 4568999999999988663 3389999999763 4789999999987
No 74
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.95 E-value=0.0057 Score=50.78 Aligned_cols=53 Identities=13% Similarity=0.214 Sum_probs=45.6
Q ss_pred ccCcccccccccccc----cccCCCCcccHHHHHHHHhcCCCCCCccccccccCCCC
Q 028627 106 REEECGICLEICCKI----VLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGD 158 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~----~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~ 158 (206)
....|++|.+.+.+. ++-+|||.+|.+|..++......||+|-.++...++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence 457899999999864 56799999999999999999999999999997665543
No 75
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=95.87 E-value=0.0028 Score=55.81 Aligned_cols=46 Identities=33% Similarity=0.679 Sum_probs=37.5
Q ss_pred CccCccccccccccc----ccccCCCCcccHHHHHHHHhc--CCCCCCcccc
Q 028627 105 EREEECGICLEICCK----IVLPDCNHSMCMRCYRNWRAR--SQSCPFCRDS 150 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~----~~~~~CgH~Fc~~Ci~~w~~~--~~~CP~Cr~~ 150 (206)
+.++.|..|-+.+-- ---+||.|.||..|+.+++.+ ..+||.||+-
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 457899999998752 134799999999999999875 6899999953
No 76
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.75 E-value=0.0096 Score=37.14 Aligned_cols=41 Identities=27% Similarity=0.701 Sum_probs=21.4
Q ss_pred cccccccccc--cccc--CCCCcccHHHHHHHHh-cCCCCCCcccc
Q 028627 110 CGICLEICCK--IVLP--DCNHSMCMRCYRNWRA-RSQSCPFCRDS 150 (206)
Q Consensus 110 C~IC~~~~~~--~~~~--~CgH~Fc~~Ci~~w~~-~~~~CP~Cr~~ 150 (206)
|++|.+.+.. ..+. +||+..|..|...... ....||-||.+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 6788888742 2233 5899999999988886 58999999986
No 77
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=95.67 E-value=0.005 Score=54.94 Aligned_cols=36 Identities=28% Similarity=0.681 Sum_probs=32.2
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHhc
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRAR 140 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~ 140 (206)
++++.|+||...+.+|++++|||..|.-|....+.+
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhhccc
Confidence 467899999999999999999999999999876653
No 78
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=95.66 E-value=0.0036 Score=62.18 Aligned_cols=45 Identities=33% Similarity=0.794 Sum_probs=40.1
Q ss_pred CccCcccccccccc-cccccCCCCcccHHHHHHHHhcCCCCCCccc
Q 028627 105 EREEECGICLEICC-KIVLPDCNHSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 105 ~~~~~C~IC~~~~~-~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
.....|.||.+... ......|||.+|..|...|+..+..||.|..
T Consensus 1151 ~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred hcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 34579999999998 6677789999999999999999999999973
No 79
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.64 E-value=0.0059 Score=54.04 Aligned_cols=46 Identities=22% Similarity=0.545 Sum_probs=35.9
Q ss_pred CccCccccccccccc---ccccCCCCcccHHHHHHHHh--------cCCCCCCcccc
Q 028627 105 EREEECGICLEICCK---IVLPDCNHSMCMRCYRNWRA--------RSQSCPFCRDS 150 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~---~~~~~CgH~Fc~~Ci~~w~~--------~~~~CP~Cr~~ 150 (206)
..-..|.||++...- -+.+||+|.||..|...+.. +.-.||-+..+
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCG 238 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCc
Confidence 345789999998773 36789999999999999887 24567776553
No 80
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.61 E-value=0.0044 Score=53.30 Aligned_cols=48 Identities=17% Similarity=0.389 Sum_probs=40.5
Q ss_pred CccCcccccccccccccccC-CCCcccHHHHHHHHhcCCCCCCcccccc
Q 028627 105 EREEECGICLEICCKIVLPD-CNHSMCMRCYRNWRARSQSCPFCRDSLR 152 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~-CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~ 152 (206)
.+...|++|+....+|..+. -|-.||+.|+..++...+.||+=..|..
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 45679999999999886654 4999999999999999999998766654
No 81
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.51 E-value=0.011 Score=50.00 Aligned_cols=51 Identities=16% Similarity=0.391 Sum_probs=41.7
Q ss_pred CccCccccccccccc----ccccCCCCcccHHHHHHHHhcCCCCCCccccccccCC
Q 028627 105 EREEECGICLEICCK----IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNS 156 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~----~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 156 (206)
.....|||....+.. ..+.+|||.|+..++.+.- ....||+|-.++...+.
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~Di 165 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDI 165 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCE
Confidence 567899999998863 3456999999999999984 56789999999986544
No 82
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.51 E-value=0.01 Score=46.12 Aligned_cols=33 Identities=27% Similarity=0.569 Sum_probs=25.7
Q ss_pred cCcccccccccccccccCC------------CCc-ccHHHHHHHHh
Q 028627 107 EEECGICLEICCKIVLPDC------------NHS-MCMRCYRNWRA 139 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~~C------------gH~-Fc~~Ci~~w~~ 139 (206)
+..|+||||..-++|++-| +.. -|..|+.++.+
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 5689999999999888754 333 27899998876
No 83
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=95.47 E-value=0.018 Score=48.84 Aligned_cols=51 Identities=24% Similarity=0.496 Sum_probs=38.8
Q ss_pred cccccccccc-cc----cccCCCCcccHHHHHHHHh-cCCCCCCccccccccCCCCc
Q 028627 109 ECGICLEICC-KI----VLPDCNHSMCMRCYRNWRA-RSQSCPFCRDSLRRVNSGDL 159 (206)
Q Consensus 109 ~C~IC~~~~~-~~----~~~~CgH~Fc~~Ci~~w~~-~~~~CP~Cr~~~~~~~~~~~ 159 (206)
.|++|....- +| ..-+|||..|.+|....+. +...||-|...+...+++..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q 58 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQ 58 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccchh
Confidence 5888876532 33 2238999999999999876 58899999998876666544
No 84
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.36 E-value=0.015 Score=43.84 Aligned_cols=49 Identities=31% Similarity=0.701 Sum_probs=40.6
Q ss_pred ccCcccccccccccccccC----CCCcccHHHHHHHHh---cCCCCCCcccccccc
Q 028627 106 REEECGICLEICCKIVLPD----CNHSMCMRCYRNWRA---RSQSCPFCRDSLRRV 154 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~~~----CgH~Fc~~Ci~~w~~---~~~~CP~Cr~~~~~~ 154 (206)
.-.+|.||.|...+...+. ||-..|.-|-...|+ -...||.|+..+...
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 5679999999988776553 899999999988666 378999999988643
No 85
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.97 E-value=0.022 Score=54.88 Aligned_cols=36 Identities=19% Similarity=0.371 Sum_probs=29.1
Q ss_pred cCccCcccccccccc-cc-cccCCCCcccHHHHHHHHh
Q 028627 104 IEREEECGICLEICC-KI-VLPDCNHSMCMRCYRNWRA 139 (206)
Q Consensus 104 ~~~~~~C~IC~~~~~-~~-~~~~CgH~Fc~~Ci~~w~~ 139 (206)
.+....|.+|...+. .| ++.+|||.||.+|+.+...
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 356789999999876 33 6679999999999987654
No 86
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.87 E-value=0.025 Score=44.85 Aligned_cols=47 Identities=23% Similarity=0.669 Sum_probs=33.3
Q ss_pred Ccccccccccccccc-------cCCCCcccHHHHHHHHhc-----------CCCCCCcccccccc
Q 028627 108 EECGICLEICCKIVL-------PDCNHSMCMRCYRNWRAR-----------SQSCPFCRDSLRRV 154 (206)
Q Consensus 108 ~~C~IC~~~~~~~~~-------~~CgH~Fc~~Ci~~w~~~-----------~~~CP~Cr~~~~~~ 154 (206)
..|.||+.+--++.. ..||..||.-|+..|+.. -..||.|..|+..+
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 345566554333322 369999999999999983 14799999988643
No 87
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.69 E-value=0.024 Score=46.56 Aligned_cols=48 Identities=19% Similarity=0.493 Sum_probs=39.2
Q ss_pred CccCccccccccccc--ccccCCCCcccHHHHHHHHhc--------CCCCCCcccccc
Q 028627 105 EREEECGICLEICCK--IVLPDCNHSMCMRCYRNWRAR--------SQSCPFCRDSLR 152 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~--~~~~~CgH~Fc~~Ci~~w~~~--------~~~CP~Cr~~~~ 152 (206)
.....|..|...+.. .+.+.|-|.||+.|+.+|..+ ...||.|..++-
T Consensus 48 DY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 345689999988874 477899999999999999873 568999988763
No 88
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=94.64 E-value=0.043 Score=42.75 Aligned_cols=47 Identities=23% Similarity=0.567 Sum_probs=36.2
Q ss_pred CccCcccccccccccccccCCCCc-----ccHHHHHHHHh--cCCCCCCcccccc
Q 028627 105 EREEECGICLEICCKIVLPDCNHS-----MCMRCYRNWRA--RSQSCPFCRDSLR 152 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~-----Fc~~Ci~~w~~--~~~~CP~Cr~~~~ 152 (206)
..+..|-||.+...+ ...||.-. -|.+|+.+|.. +...|+.|+.+..
T Consensus 6 ~~~~~CRIC~~~~~~-~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDV-VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCC-ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 456799999988653 33466543 39999999998 4678999999874
No 89
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=94.32 E-value=0.046 Score=41.45 Aligned_cols=37 Identities=24% Similarity=0.564 Sum_probs=28.2
Q ss_pred ccCccccccccccc--ccc-cCCC------CcccHHHHHHHHhcCC
Q 028627 106 REEECGICLEICCK--IVL-PDCN------HSMCMRCYRNWRARSQ 142 (206)
Q Consensus 106 ~~~~C~IC~~~~~~--~~~-~~Cg------H~Fc~~Ci~~w~~~~~ 142 (206)
...+|.||++.+.+ +++ .+|| |.||.+|+.+|.....
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~~ 70 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRERN 70 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhcc
Confidence 36799999999886 433 4565 7899999999954433
No 90
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.29 E-value=0.014 Score=50.00 Aligned_cols=46 Identities=26% Similarity=0.661 Sum_probs=35.0
Q ss_pred cCcccccccccc-cccccCCCCcccHHHHHHHHhcCCCCCCcccccccc
Q 028627 107 EEECGICLEICC-KIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 107 ~~~C~IC~~~~~-~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~ 154 (206)
...|.-|--.+. -...++|.|.||.+|... ...+.||.|-.++.++
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~VqrI 136 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARS--DSDKICPLCDDRVQRI 136 (389)
T ss_pred eEeecccCCcceeeecccccchhhhhhhhhc--CccccCcCcccHHHHH
Confidence 467888866655 356789999999999754 3478999998887644
No 91
>PHA02862 5L protein; Provisional
Probab=94.23 E-value=0.049 Score=41.77 Aligned_cols=44 Identities=20% Similarity=0.702 Sum_probs=34.6
Q ss_pred CcccccccccccccccCCCC-----cccHHHHHHHHh--cCCCCCCcccccc
Q 028627 108 EECGICLEICCKIVLPDCNH-----SMCMRCYRNWRA--RSQSCPFCRDSLR 152 (206)
Q Consensus 108 ~~C~IC~~~~~~~~~~~CgH-----~Fc~~Ci~~w~~--~~~~CP~Cr~~~~ 152 (206)
..|-||.+.-.+. .-||.- .-|.+|+.+|+. +...||+|+.+..
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 4799999986654 356654 359999999997 4789999999874
No 92
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.98 E-value=0.018 Score=47.05 Aligned_cols=39 Identities=31% Similarity=0.742 Sum_probs=33.0
Q ss_pred ccccccccccccccCCCCc-ccHHHHHHHHhcCCCCCCcccccc
Q 028627 110 CGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSLR 152 (206)
Q Consensus 110 C~IC~~~~~~~~~~~CgH~-Fc~~Ci~~w~~~~~~CP~Cr~~~~ 152 (206)
|-.|.+.-....++||.|. +|..|-.. ...||+|+.+..
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 9999999999899999995 99999643 466999998764
No 93
>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=93.61 E-value=0.026 Score=34.95 Aligned_cols=43 Identities=30% Similarity=0.746 Sum_probs=25.7
Q ss_pred cccccccccccccccCCC-CcccHHHHHHHHhcCCCCCCccccccc
Q 028627 109 ECGICLEICCKIVLPDCN-HSMCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 109 ~C~IC~~~~~~~~~~~Cg-H~Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
.|.-|+- .+.-+..|. |-.|..|+...+..+..||+|..++..
T Consensus 4 nCKsCWf--~~k~Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCWF--ANKGLIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS-S----SSEEE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred cChhhhh--cCCCeeeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 3555543 334455685 789999999999999999999998753
No 94
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=93.46 E-value=0.049 Score=46.27 Aligned_cols=44 Identities=30% Similarity=0.686 Sum_probs=37.1
Q ss_pred ccCcccccccccc----cccccCCCCcccHHHHHHHHhcCCCCCCccc
Q 028627 106 REEECGICLEICC----KIVLPDCNHSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 106 ~~~~C~IC~~~~~----~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
....||||.+.+. .+..++|||..|..|..+....+-.||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3455999999865 5677899999999999998877799999977
No 95
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=93.40 E-value=0.12 Score=45.58 Aligned_cols=28 Identities=29% Similarity=0.755 Sum_probs=21.7
Q ss_pred CCcccHHHHHHHHh-------------cCCCCCCccccccc
Q 028627 126 NHSMCMRCYRNWRA-------------RSQSCPFCRDSLRR 153 (206)
Q Consensus 126 gH~Fc~~Ci~~w~~-------------~~~~CP~Cr~~~~~ 153 (206)
.-..|.+|+-+|+. +.-.||.||+.+.-
T Consensus 312 RPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 312 RPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred cchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 34569999999886 24589999999863
No 96
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=93.25 E-value=0.083 Score=32.13 Aligned_cols=38 Identities=29% Similarity=0.732 Sum_probs=22.8
Q ss_pred ccccccccccccc---cCCCCcccHHHHHHHHhcCC--CCCCc
Q 028627 110 CGICLEICCKIVL---PDCNHSMCMRCYRNWRARSQ--SCPFC 147 (206)
Q Consensus 110 C~IC~~~~~~~~~---~~CgH~Fc~~Ci~~w~~~~~--~CP~C 147 (206)
|.+|.+....+.. ..|+=.+|..|+..++.... .||.|
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 6788888776654 25888999999999988533 79987
No 97
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=92.85 E-value=0.069 Score=46.45 Aligned_cols=49 Identities=31% Similarity=0.693 Sum_probs=35.9
Q ss_pred cCcccccccccc--cccc--cCCCCcccHHHHHHHHhc-CCCCCCccccccccC
Q 028627 107 EEECGICLEICC--KIVL--PDCNHSMCMRCYRNWRAR-SQSCPFCRDSLRRVN 155 (206)
Q Consensus 107 ~~~C~IC~~~~~--~~~~--~~CgH~Fc~~Ci~~w~~~-~~~CP~Cr~~~~~~~ 155 (206)
+..|+.|++.+. +.-. -+||...|.-|.....+. ...||-||......+
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 344999999876 3333 368998899997666554 789999999766443
No 98
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=92.53 E-value=0.087 Score=32.64 Aligned_cols=38 Identities=26% Similarity=0.714 Sum_probs=24.7
Q ss_pred cccccccccc--ccccCCCC-----cccHHHHHHHHh--cCCCCCCc
Q 028627 110 CGICLEICCK--IVLPDCNH-----SMCMRCYRNWRA--RSQSCPFC 147 (206)
Q Consensus 110 C~IC~~~~~~--~~~~~CgH-----~Fc~~Ci~~w~~--~~~~CP~C 147 (206)
|-||++.-.+ +...||+- ..|..|+.+|+. +..+|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 6788887653 35667753 359999999998 46789887
No 99
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.38 E-value=0.2 Score=44.40 Aligned_cols=46 Identities=17% Similarity=0.343 Sum_probs=36.8
Q ss_pred CccCcccccccccc---cccccCCCCcccHHHHHHHHhc---CCCCCCcccc
Q 028627 105 EREEECGICLEICC---KIVLPDCNHSMCMRCYRNWRAR---SQSCPFCRDS 150 (206)
Q Consensus 105 ~~~~~C~IC~~~~~---~~~~~~CgH~Fc~~Ci~~w~~~---~~~CP~Cr~~ 150 (206)
..-..|||=.+.-+ .|+.+.|||..+.+-+.+...+ +..||.|-..
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 44578998777655 4788999999999999998875 3799999443
No 100
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=90.19 E-value=0.075 Score=50.29 Aligned_cols=51 Identities=24% Similarity=0.546 Sum_probs=41.4
Q ss_pred ccCcccccccccccccccCCCCcccHHHHHHHHh---cCCCCCCccccccccCC
Q 028627 106 REEECGICLEICCKIVLPDCNHSMCMRCYRNWRA---RSQSCPFCRDSLRRVNS 156 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~---~~~~CP~Cr~~~~~~~~ 156 (206)
...+|+||...+.+++.+.|-|.||..|+-.-+. ....||+|+..+.....
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~ 73 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL 73 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence 5678999999999999999999999999865443 36789999977654433
No 101
>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=89.92 E-value=0.19 Score=31.52 Aligned_cols=42 Identities=19% Similarity=0.517 Sum_probs=21.0
Q ss_pred Ccccccccccccccc-cCCCCcccHHHHHHHHh-----cCCCCCCcccc
Q 028627 108 EECGICLEICCKIVL-PDCNHSMCMRCYRNWRA-----RSQSCPFCRDS 150 (206)
Q Consensus 108 ~~C~IC~~~~~~~~~-~~CgH~Fc~~Ci~~w~~-----~~~~CP~Cr~~ 150 (206)
+.|++....+..|+. ..|.|.-|.+- ..|+. ..-.||+|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence 579999999988866 68999877553 33443 24579999764
No 102
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.79 E-value=0.27 Score=43.88 Aligned_cols=34 Identities=29% Similarity=0.699 Sum_probs=26.1
Q ss_pred ccCcccccccccccc----cccCCCCcccHHHHHHHHh
Q 028627 106 REEECGICLEICCKI----VLPDCNHSMCMRCYRNWRA 139 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~----~~~~CgH~Fc~~Ci~~w~~ 139 (206)
...+|.||......+ ....|+|.||.+|..++..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 467899999443322 3467999999999998887
No 103
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.66 E-value=0.2 Score=47.08 Aligned_cols=39 Identities=31% Similarity=0.664 Sum_probs=30.7
Q ss_pred CccCcccccccccc----cccccCCCCcccHHHHHHHHhcCCCCC
Q 028627 105 EREEECGICLEICC----KIVLPDCNHSMCMRCYRNWRARSQSCP 145 (206)
Q Consensus 105 ~~~~~C~IC~~~~~----~~~~~~CgH~Fc~~Ci~~w~~~~~~CP 145 (206)
..-..|+||+..|. .|+.+.|||..|..|+..... .+||
T Consensus 9 ~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp 51 (861)
T KOG3161|consen 9 VLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP 51 (861)
T ss_pred HHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC
Confidence 34578999988776 578889999999999977654 4566
No 104
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=88.37 E-value=0.35 Score=46.73 Aligned_cols=48 Identities=27% Similarity=0.679 Sum_probs=36.7
Q ss_pred CccCccccccccccc--c--cccCCCCcccHHHHHHHHhc-------CCCCCCcccccc
Q 028627 105 EREEECGICLEICCK--I--VLPDCNHSMCMRCYRNWRAR-------SQSCPFCRDSLR 152 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~--~--~~~~CgH~Fc~~Ci~~w~~~-------~~~CP~Cr~~~~ 152 (206)
....+|.||.+.+.. + .-..|=|.||..||..|-.+ .-.||.|+....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 456899999999873 2 23468899999999999873 347999985443
No 105
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.93 E-value=0.37 Score=40.22 Aligned_cols=35 Identities=11% Similarity=0.147 Sum_probs=31.4
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHh
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRA 139 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~ 139 (206)
.....|+.|+..+.+|++.+=||.||.+||.+++.
T Consensus 41 K~FdcCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred CCcceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 45668899999999999999999999999988764
No 106
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.36 E-value=0.83 Score=41.52 Aligned_cols=35 Identities=29% Similarity=0.780 Sum_probs=30.9
Q ss_pred CccCccccccccccc-ccccCCCCcccHHHHHHHHh
Q 028627 105 EREEECGICLEICCK-IVLPDCNHSMCMRCYRNWRA 139 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~-~~~~~CgH~Fc~~Ci~~w~~ 139 (206)
....+|.||.+.... ...+.|||.||..|+..++.
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLG 103 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhh
Confidence 456899999999985 67789999999999999887
No 107
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=86.63 E-value=0.44 Score=45.61 Aligned_cols=26 Identities=23% Similarity=0.585 Sum_probs=23.1
Q ss_pred cccCCCCcccHHHHHHHHhcCCCCCC
Q 028627 121 VLPDCNHSMCMRCYRNWRARSQSCPF 146 (206)
Q Consensus 121 ~~~~CgH~Fc~~Ci~~w~~~~~~CP~ 146 (206)
+...|||..|.+|..+|+.....||.
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhcCCcCCC
Confidence 44579999999999999999999985
No 108
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.07 E-value=0.43 Score=40.80 Aligned_cols=28 Identities=29% Similarity=0.696 Sum_probs=22.4
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCCCcccccc
Q 028627 125 CNHSMCMRCYRNWRA-------------RSQSCPFCRDSLR 152 (206)
Q Consensus 125 CgH~Fc~~Ci~~w~~-------------~~~~CP~Cr~~~~ 152 (206)
|....|.+|+.+|+. ++-.||.||+.+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 455678999988876 4568999999886
No 109
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=84.14 E-value=1 Score=43.57 Aligned_cols=51 Identities=20% Similarity=0.533 Sum_probs=39.6
Q ss_pred CccCcccccccccc--cccccCCCCc-----ccHHHHHHHHh--cCCCCCCccccccccC
Q 028627 105 EREEECGICLEICC--KIVLPDCNHS-----MCMRCYRNWRA--RSQSCPFCRDSLRRVN 155 (206)
Q Consensus 105 ~~~~~C~IC~~~~~--~~~~~~CgH~-----Fc~~Ci~~w~~--~~~~CP~Cr~~~~~~~ 155 (206)
++...|.||...-. +|..-||... .|.+|+.+|.. +...|-+|..+++.++
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 45589999997754 5666677643 59999999998 5688999999887543
No 110
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.92 E-value=0.12 Score=45.60 Aligned_cols=49 Identities=24% Similarity=0.382 Sum_probs=41.1
Q ss_pred ccCccccccccccc----ccccCCCCcccHHHHHHHHhcCCCCCCcccccccc
Q 028627 106 REEECGICLEICCK----IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 106 ~~~~C~IC~~~~~~----~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~ 154 (206)
-...|+||...+.. -..+-|||..+.+|+.+|+.....||.|+..+...
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~~ 247 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPKN 247 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhhh
Confidence 34689999988763 34567999999999999999999999999988644
No 111
>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=83.24 E-value=0.29 Score=40.74 Aligned_cols=47 Identities=30% Similarity=0.720 Sum_probs=35.2
Q ss_pred ccCcccccccccc-cc-----cccCCCCcccHHHHHHHHhc-CCCCC--Ccccccc
Q 028627 106 REEECGICLEICC-KI-----VLPDCNHSMCMRCYRNWRAR-SQSCP--FCRDSLR 152 (206)
Q Consensus 106 ~~~~C~IC~~~~~-~~-----~~~~CgH~Fc~~Ci~~w~~~-~~~CP--~Cr~~~~ 152 (206)
.+..||+|..+.- +| +.+.|=|.+|.+|..+.+.. ...|| -|.+-+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 4568999987632 33 22459999999999998874 67899 7877554
No 112
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=82.66 E-value=1 Score=39.00 Aligned_cols=47 Identities=6% Similarity=-0.132 Sum_probs=38.4
Q ss_pred ccCccCcccccccccccccccCCCCc-ccHHHHHHHHhcCCCCCCccccc
Q 028627 103 DIEREEECGICLEICCKIVLPDCNHS-MCMRCYRNWRARSQSCPFCRDSL 151 (206)
Q Consensus 103 ~~~~~~~C~IC~~~~~~~~~~~CgH~-Fc~~Ci~~w~~~~~~CP~Cr~~~ 151 (206)
.+-...+|-.|-+........+|||. ||.+|.. +....+||.|....
T Consensus 339 ~~~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 339 GLMSSLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred cchhhcccccccCceeeeEeecCCcccChhhhhh--cccCCccccccccc
Confidence 44567899999998888788899995 9999987 56788999997654
No 113
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.51 E-value=0.79 Score=39.10 Aligned_cols=35 Identities=23% Similarity=0.520 Sum_probs=29.9
Q ss_pred ccCcccccccccccccccCC----CCcccHHHHHHHHhc
Q 028627 106 REEECGICLEICCKIVLPDC----NHSMCMRCYRNWRAR 140 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~~~C----gH~Fc~~Ci~~w~~~ 140 (206)
.-+.|.+|.+.+.+.-+..| .|-||.-|-++..++
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 34899999999999877777 699999999998773
No 114
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=80.46 E-value=2.6 Score=28.93 Aligned_cols=49 Identities=24% Similarity=0.661 Sum_probs=20.5
Q ss_pred ccCccccccccccc-----c--cccCCCCcccHHHHHH-HHhcCCCCCCcccccccc
Q 028627 106 REEECGICLEICCK-----I--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 106 ~~~~C~IC~~~~~~-----~--~~~~CgH~Fc~~Ci~~-w~~~~~~CP~Cr~~~~~~ 154 (206)
....|.||-+..-- + ..-.|+-..|..|..- ....++.||.|+.+....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRH 64 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccc
Confidence 45689999998651 1 2246777889999854 445789999999877643
No 115
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=77.96 E-value=1.6 Score=42.20 Aligned_cols=46 Identities=11% Similarity=0.349 Sum_probs=33.2
Q ss_pred ccCcccccccccccc-------cccCCCCcccHHHHHHHHhc------CCCCCCccccc
Q 028627 106 REEECGICLEICCKI-------VLPDCNHSMCMRCYRNWRAR------SQSCPFCRDSL 151 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~-------~~~~CgH~Fc~~Ci~~w~~~------~~~CP~Cr~~~ 151 (206)
....|.+|...+.++ ..-.|+|.||..||..|..+ .-.|++|..-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 446677777766652 22249999999999999873 55788887755
No 116
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=77.82 E-value=1.4 Score=38.17 Aligned_cols=45 Identities=22% Similarity=0.549 Sum_probs=35.2
Q ss_pred CccCcccccccccc---cccccCCCCcccHHHHHHHHhc---CCCCCCccc
Q 028627 105 EREEECGICLEICC---KIVLPDCNHSMCMRCYRNWRAR---SQSCPFCRD 149 (206)
Q Consensus 105 ~~~~~C~IC~~~~~---~~~~~~CgH~Fc~~Ci~~w~~~---~~~CP~Cr~ 149 (206)
..-..||+=.+.-. .|+.+.|||..-..-++...++ ++.||.|-.
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 34578887766654 4788999999999999888774 689999943
No 117
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.32 E-value=1.4 Score=37.06 Aligned_cols=50 Identities=28% Similarity=0.540 Sum_probs=36.3
Q ss_pred CccCcccccccccccccc----cCC-----CCcccHHHHHHHHhc--------CCCCCCcccccccc
Q 028627 105 EREEECGICLEICCKIVL----PDC-----NHSMCMRCYRNWRAR--------SQSCPFCRDSLRRV 154 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~----~~C-----gH~Fc~~Ci~~w~~~--------~~~CP~Cr~~~~~~ 154 (206)
+.+..|-||+..-++-.. -|| .|.-|..|+..|... ..+||.|+..-.-+
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv 84 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV 84 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence 567789999987765322 245 356799999999872 45799999876543
No 118
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=76.72 E-value=2.2 Score=37.14 Aligned_cols=46 Identities=26% Similarity=0.636 Sum_probs=37.2
Q ss_pred Ccccccccccc----cccccCCCCcccHHHHHHHHhcCCCCCCccccccc
Q 028627 108 EECGICLEICC----KIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 108 ~~C~IC~~~~~----~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
..|+||.+... ...-.+|||..|..|...-...+..||.||++...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCcccc
Confidence 78999999764 22335789999999998888899999999977643
No 119
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.40 E-value=1.1 Score=40.10 Aligned_cols=42 Identities=21% Similarity=0.573 Sum_probs=31.0
Q ss_pred cCccccccccccc-----ccccCCCCcccHHHHHHHHhcCCCCCCcc
Q 028627 107 EEECGICLEICCK-----IVLPDCNHSMCMRCYRNWRARSQSCPFCR 148 (206)
Q Consensus 107 ~~~C~IC~~~~~~-----~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr 148 (206)
-..|+.|...+.. .+.=.|||.||+.|...|......|..|-
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCcc
Confidence 4678888877652 23323999999999999988887775543
No 120
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=74.75 E-value=3.9 Score=41.03 Aligned_cols=50 Identities=28% Similarity=0.640 Sum_probs=36.4
Q ss_pred ccCccccccccccc-----c--cccCCCCcccHHHHHH-HHhcCCCCCCccccccccC
Q 028627 106 REEECGICLEICCK-----I--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRRVN 155 (206)
Q Consensus 106 ~~~~C~IC~~~~~~-----~--~~~~CgH~Fc~~Ci~~-w~~~~~~CP~Cr~~~~~~~ 155 (206)
....|.||-|..-. + ..-.||-.-|..|..- ..+.+..||.|+....+..
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~k 73 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRHK 73 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhc
Confidence 45589999998651 1 2346777799999833 3447999999999887443
No 121
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=74.59 E-value=2.9 Score=30.78 Aligned_cols=41 Identities=22% Similarity=0.376 Sum_probs=32.9
Q ss_pred Cccccccccccccc--------------ccCCCCcccHHHHHHHHhcCCCCCCcc
Q 028627 108 EECGICLEICCKIV--------------LPDCNHSMCMRCYRNWRARSQSCPFCR 148 (206)
Q Consensus 108 ~~C~IC~~~~~~~~--------------~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr 148 (206)
..|--|...|.++. -..|++.||.+|=.-+.+.-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 45888988876431 357999999999887888888999995
No 122
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=73.45 E-value=2.7 Score=26.54 Aligned_cols=26 Identities=27% Similarity=0.829 Sum_probs=16.1
Q ss_pred cCCCCcccHHHHHHHHhcCCCCCCcc
Q 028627 123 PDCNHSMCMRCYRNWRARSQSCPFCR 148 (206)
Q Consensus 123 ~~CgH~Fc~~Ci~~w~~~~~~CP~Cr 148 (206)
..|++.||.+|=.=.-+....||-|.
T Consensus 25 ~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 25 PKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CCCCCccccCcChhhhccccCCcCCC
Confidence 47999999999544455678999884
No 123
>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=70.91 E-value=0.48 Score=31.89 Aligned_cols=43 Identities=23% Similarity=0.489 Sum_probs=23.5
Q ss_pred cCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCcccccccc
Q 028627 107 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~ 154 (206)
+..||.|...+.... ||..|..|-.. +.....||-|..+++..
T Consensus 1 e~~CP~C~~~L~~~~----~~~~C~~C~~~-~~~~a~CPdC~~~Le~L 43 (70)
T PF07191_consen 1 ENTCPKCQQELEWQG----GHYHCEACQKD-YKKEAFCPDCGQPLEVL 43 (70)
T ss_dssp --B-SSS-SBEEEET----TEEEETTT--E-EEEEEE-TTT-SB-EEE
T ss_pred CCcCCCCCCccEEeC----CEEECcccccc-ceecccCCCcccHHHHH
Confidence 357999988865322 77788888654 33456799999988643
No 124
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=70.54 E-value=6.7 Score=37.70 Aligned_cols=47 Identities=23% Similarity=0.599 Sum_probs=36.3
Q ss_pred CccCcccccccccccc----------cccCCCCcc--------------------cHHHHHHHHh--------cCCCCCC
Q 028627 105 EREEECGICLEICCKI----------VLPDCNHSM--------------------CMRCYRNWRA--------RSQSCPF 146 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~----------~~~~CgH~F--------------------c~~Ci~~w~~--------~~~~CP~ 146 (206)
.+--.|.-|++.+.+| ..+.||..| |..|-+++.. +...||.
T Consensus 99 pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~ 178 (750)
T COG0068 99 PDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPK 178 (750)
T ss_pred CchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCcc
Confidence 4567899999988764 446788887 9999998865 4578999
Q ss_pred ccccc
Q 028627 147 CRDSL 151 (206)
Q Consensus 147 Cr~~~ 151 (206)
|.-.+
T Consensus 179 CGP~~ 183 (750)
T COG0068 179 CGPHL 183 (750)
T ss_pred cCCCe
Confidence 95544
No 125
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=69.88 E-value=2.7 Score=34.41 Aligned_cols=44 Identities=23% Similarity=0.600 Sum_probs=36.8
Q ss_pred cCccccccccccccc-ccCCCCcccHHHHHHHHhcCCCCCCcccc
Q 028627 107 EEECGICLEICCKIV-LPDCNHSMCMRCYRNWRARSQSCPFCRDS 150 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~-~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~ 150 (206)
-..|.+|......++ .-.||-.+|..|+..++.+...||.|..-
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cphc~d~ 225 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPHCGDL 225 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCchhcc
Confidence 468999999877654 46788889999999999999999999543
No 126
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=69.34 E-value=4.8 Score=38.78 Aligned_cols=44 Identities=16% Similarity=0.422 Sum_probs=34.2
Q ss_pred Ccccccccccccc--cccCCCCcccHHHHHHHHhcCCCCCC--ccccc
Q 028627 108 EECGICLEICCKI--VLPDCNHSMCMRCYRNWRARSQSCPF--CRDSL 151 (206)
Q Consensus 108 ~~C~IC~~~~~~~--~~~~CgH~Fc~~Ci~~w~~~~~~CP~--Cr~~~ 151 (206)
..|.+|-..+... -.--|||.-|.+|+.+|+..+..||. |-..-
T Consensus 780 ~~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~c 827 (839)
T KOG0269|consen 780 AKCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPHLC 827 (839)
T ss_pred cCceeecceeeeeEeecccccccccHHHHHHHHhcCCCCccccCCccc
Confidence 5788887776643 23469999999999999999999987 65443
No 127
>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=68.25 E-value=1.1 Score=38.31 Aligned_cols=46 Identities=24% Similarity=0.517 Sum_probs=23.3
Q ss_pred CccCcccccccccccccccCC---C--CcccHHHHHHHHhcCCCCCCcccc
Q 028627 105 EREEECGICLEICCKIVLPDC---N--HSMCMRCYRNWRARSQSCPFCRDS 150 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~C---g--H~Fc~~Ci~~w~~~~~~CP~Cr~~ 150 (206)
.....||||-....-.++..= | |.+|.-|-.+|......||.|-..
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 345799999998764433322 3 568999999999888899999664
No 128
>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=67.21 E-value=1.7 Score=28.57 Aligned_cols=32 Identities=19% Similarity=0.511 Sum_probs=16.8
Q ss_pred CccCcccccccccccc----cccCCCCcccHHHHHH
Q 028627 105 EREEECGICLEICCKI----VLPDCNHSMCMRCYRN 136 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~----~~~~CgH~Fc~~Ci~~ 136 (206)
.+...|.+|...|.-. .-..||+.||..|...
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 4567899999999632 2246999999998643
No 129
>PLN02189 cellulose synthase
Probab=66.75 E-value=5.4 Score=39.94 Aligned_cols=50 Identities=26% Similarity=0.715 Sum_probs=36.4
Q ss_pred ccCccccccccccc-----c--cccCCCCcccHHHHHH-HHhcCCCCCCccccccccC
Q 028627 106 REEECGICLEICCK-----I--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRRVN 155 (206)
Q Consensus 106 ~~~~C~IC~~~~~~-----~--~~~~CgH~Fc~~Ci~~-w~~~~~~CP~Cr~~~~~~~ 155 (206)
....|.||-|.... + ..-.||-.-|..|..- ..+.+..||.|+....+..
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~k 90 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRLK 90 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 45589999998651 1 2235788899999943 3346899999999887544
No 130
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=66.46 E-value=4.9 Score=34.94 Aligned_cols=47 Identities=28% Similarity=0.690 Sum_probs=30.9
Q ss_pred ccCcccccccccc--------------c-----ccccCCCCcccHHHHHHHHh---------cCCCCCCcccccc
Q 028627 106 REEECGICLEICC--------------K-----IVLPDCNHSMCMRCYRNWRA---------RSQSCPFCRDSLR 152 (206)
Q Consensus 106 ~~~~C~IC~~~~~--------------~-----~~~~~CgH~Fc~~Ci~~w~~---------~~~~CP~Cr~~~~ 152 (206)
.+.+|++|+..-. + -...||||.--..=..-|.. -+..||+|-..+.
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 4689999997522 1 14458999644444444554 1568999988775
No 131
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=65.99 E-value=7.2 Score=25.05 Aligned_cols=44 Identities=23% Similarity=0.460 Sum_probs=29.9
Q ss_pred ccccccccccccc--ccCCCC--cccHHHHHHHHhcCCCCCCcccccccc
Q 028627 109 ECGICLEICCKIV--LPDCNH--SMCMRCYRNWRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 109 ~C~IC~~~~~~~~--~~~CgH--~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~ 154 (206)
.|--|-..+.... -.=|.+ .||..|....+ ...||.|...+...
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 4666666655221 223655 69999998876 67899999887643
No 132
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.90 E-value=3.6 Score=31.33 Aligned_cols=29 Identities=28% Similarity=0.854 Sum_probs=18.5
Q ss_pred ccCccCcccccccc-cccccccCCCCcccHHHHHH
Q 028627 103 DIEREEECGICLEI-CCKIVLPDCNHSMCMRCYRN 136 (206)
Q Consensus 103 ~~~~~~~C~IC~~~-~~~~~~~~CgH~Fc~~Ci~~ 136 (206)
...++..|.||... |.+ .|||. |..|-.+
T Consensus 61 Gv~ddatC~IC~KTKFAD----G~GH~-C~YCq~r 90 (169)
T KOG3799|consen 61 GVGDDATCGICHKTKFAD----GCGHN-CSYCQTR 90 (169)
T ss_pred ccCcCcchhhhhhccccc----ccCcc-cchhhhh
Confidence 34678899999874 445 47774 4445433
No 133
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=65.68 E-value=1.5 Score=38.02 Aligned_cols=45 Identities=18% Similarity=0.451 Sum_probs=34.1
Q ss_pred ccCccccccccccccccc----CCC--CcccHHHHHHHHhcCCCCCCcccc
Q 028627 106 REEECGICLEICCKIVLP----DCN--HSMCMRCYRNWRARSQSCPFCRDS 150 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~~----~Cg--H~Fc~~Ci~~w~~~~~~CP~Cr~~ 150 (206)
....||+|-....-.++. .=| |..|..|-.+|......||.|...
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 345999999987543321 234 457999999999999999999764
No 134
>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=65.61 E-value=3.8 Score=27.17 Aligned_cols=12 Identities=25% Similarity=0.999 Sum_probs=8.8
Q ss_pred cccHHHHHHHHh
Q 028627 128 SMCMRCYRNWRA 139 (206)
Q Consensus 128 ~Fc~~Ci~~w~~ 139 (206)
.||..|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999976
No 135
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.51 E-value=5.2 Score=38.21 Aligned_cols=46 Identities=28% Similarity=0.634 Sum_probs=37.7
Q ss_pred cccccccccccccccCCCC-cccHHHHHHHHh--c----CCCCCCcccccccc
Q 028627 109 ECGICLEICCKIVLPDCNH-SMCMRCYRNWRA--R----SQSCPFCRDSLRRV 154 (206)
Q Consensus 109 ~C~IC~~~~~~~~~~~CgH-~Fc~~Ci~~w~~--~----~~~CP~Cr~~~~~~ 154 (206)
.|+||-....-...-.||| ..|..|..+... . ...||.||..+...
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~ 54 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETK 54 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCcccccceeee
Confidence 5999999888888889999 799999988654 3 56789999977533
No 136
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.63 E-value=3 Score=35.87 Aligned_cols=55 Identities=25% Similarity=0.479 Sum_probs=44.7
Q ss_pred CccCccccccccccccccc-CCCCcccHHHHHHHHhcCCCCCCccccccccCCCCc
Q 028627 105 EREEECGICLEICCKIVLP-DCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDL 159 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~-~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~ 159 (206)
.+...|-+|...+..+... .|+|.||..|-..|......||.|+...........
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~pv~aG~p 158 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISPVLAGMP 158 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhhhhccchhhcCcCceeccCc
Confidence 4567899999998877554 599999999999999999999999998765544443
No 137
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=62.27 E-value=13 Score=31.39 Aligned_cols=62 Identities=16% Similarity=0.290 Sum_probs=42.7
Q ss_pred CccCccccccccccc----ccccCCCCcccHHHHHHHHhcCCCCCCccccccccCCCCccccCCchhhhhh
Q 028627 105 EREEECGICLEICCK----IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNSGDLWIYTSEDDIVDL 171 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~----~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~d~ 171 (206)
.....|+|---.+.. ..+-+|||.|-..-+.+. ....|+.|.+..... +..+..+.++-+|.
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~---dvIvlNg~~E~~dl 174 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED---DVIVLNGTEEDVDL 174 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc---CeEeeCCCHHHHHH
Confidence 345789987766653 355689999999887665 378999999988744 33444444444444
No 138
>PLN02436 cellulose synthase A
Probab=60.61 E-value=10 Score=38.11 Aligned_cols=50 Identities=26% Similarity=0.702 Sum_probs=36.0
Q ss_pred ccCcccccccccc---c--c--cccCCCCcccHHHHHH-HHhcCCCCCCccccccccC
Q 028627 106 REEECGICLEICC---K--I--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRRVN 155 (206)
Q Consensus 106 ~~~~C~IC~~~~~---~--~--~~~~CgH~Fc~~Ci~~-w~~~~~~CP~Cr~~~~~~~ 155 (206)
....|.||-|..- + + ..-.||-..|..|..- ..+.+..||.|+....+..
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 4568999999864 1 1 2235777799999943 2346899999999887544
No 139
>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 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=59.80 E-value=3 Score=37.26 Aligned_cols=48 Identities=23% Similarity=0.648 Sum_probs=0.0
Q ss_pred ccCcccccccccc--------------c-----ccccCCCCcccHHHHHHHHhc---------CCCCCCccccccc
Q 028627 106 REEECGICLEICC--------------K-----IVLPDCNHSMCMRCYRNWRAR---------SQSCPFCRDSLRR 153 (206)
Q Consensus 106 ~~~~C~IC~~~~~--------------~-----~~~~~CgH~Fc~~Ci~~w~~~---------~~~CP~Cr~~~~~ 153 (206)
...+|++|+..-. + -..-||||.--.....-|..- +..||+|-.++..
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 3679999996422 1 144589998777777777661 4689999998863
No 141
>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=59.21 E-value=5.6 Score=22.25 Aligned_cols=35 Identities=23% Similarity=0.420 Sum_probs=22.1
Q ss_pred cccccccccc--ccccCCCCcccHHHHHHHHhcCCCCCCcccccc
Q 028627 110 CGICLEICCK--IVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLR 152 (206)
Q Consensus 110 C~IC~~~~~~--~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~ 152 (206)
|..|...+.. .....=+..||..| ..|..|+.++.
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccC--------CCCcccCCcCc
Confidence 6677776654 23333466777776 67888877653
No 142
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.75 E-value=1.9 Score=36.77 Aligned_cols=44 Identities=30% Similarity=0.657 Sum_probs=34.8
Q ss_pred cCcccccccccc------cccccC--------CCCcccHHHHHHHHhc-CCCCCCcccc
Q 028627 107 EEECGICLEICC------KIVLPD--------CNHSMCMRCYRNWRAR-SQSCPFCRDS 150 (206)
Q Consensus 107 ~~~C~IC~~~~~------~~~~~~--------CgH~Fc~~Ci~~w~~~-~~~CP~Cr~~ 150 (206)
+..|.||...+. .|.++. |||..|..|+..-+.+ ...||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 467999998877 244455 9999999999987664 4799999875
No 143
>PLN02400 cellulose synthase
Probab=58.37 E-value=8.8 Score=38.66 Aligned_cols=49 Identities=27% Similarity=0.688 Sum_probs=35.6
Q ss_pred ccCccccccccccc-----c--cccCCCCcccHHHHHH-HHhcCCCCCCcccccccc
Q 028627 106 REEECGICLEICCK-----I--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 106 ~~~~C~IC~~~~~~-----~--~~~~CgH~Fc~~Ci~~-w~~~~~~CP~Cr~~~~~~ 154 (206)
....|.||-|..-. + ..-.|+-.-|..|..- ..+.+..||.|+....+.
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR~ 91 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRRH 91 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccccc
Confidence 45689999998652 1 2346777789999832 344689999999988644
No 144
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=56.88 E-value=2.3 Score=27.10 Aligned_cols=16 Identities=44% Similarity=1.306 Sum_probs=13.3
Q ss_pred cCCCCcccHHHHHHHH
Q 028627 123 PDCNHSMCMRCYRNWR 138 (206)
Q Consensus 123 ~~CgH~Fc~~Ci~~w~ 138 (206)
..|||.||..|..+|.
T Consensus 44 ~~C~~~fC~~C~~~~H 59 (64)
T smart00647 44 PKCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCCeECCCCCCcCC
Confidence 3689999999988873
No 145
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.30 E-value=13 Score=36.07 Aligned_cols=42 Identities=26% Similarity=0.493 Sum_probs=30.7
Q ss_pred CccCcccccccccc-------cccccCCCCcccHHHHHHHHhcCCCCCCc
Q 028627 105 EREEECGICLEICC-------KIVLPDCNHSMCMRCYRNWRARSQSCPFC 147 (206)
Q Consensus 105 ~~~~~C~IC~~~~~-------~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~C 147 (206)
..+..|.-|.+... ..+...|||.||..|+..-..++. |-.|
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 34558999998765 235678999999999977665554 5554
No 146
>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=55.71 E-value=11 Score=23.60 Aligned_cols=12 Identities=33% Similarity=0.969 Sum_probs=6.3
Q ss_pred CCCCCccccccc
Q 028627 142 QSCPFCRDSLRR 153 (206)
Q Consensus 142 ~~CP~Cr~~~~~ 153 (206)
..||+|..++..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999998863
No 147
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=55.55 E-value=8.4 Score=33.63 Aligned_cols=44 Identities=18% Similarity=0.424 Sum_probs=32.4
Q ss_pred ccCcccccccccccc---cccCCCCcccHHHHHHHHhcCCCCCCccc
Q 028627 106 REEECGICLEICCKI---VLPDCNHSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~---~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
.+..|-.|.+..... ....|.|.||.+|=.-..+.-..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 445699996665532 33579999999997666667889999963
No 148
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=55.09 E-value=3.4 Score=35.85 Aligned_cols=44 Identities=18% Similarity=0.492 Sum_probs=33.6
Q ss_pred ccCcccccccccccccc---cCCC--CcccHHHHHHHHhcCCCCCCccc
Q 028627 106 REEECGICLEICCKIVL---PDCN--HSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~---~~Cg--H~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
....||+|-....-.+. ..=| |..|..|-.+|......||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 46899999988653322 1334 45799999999999999999976
No 149
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.58 E-value=5 Score=36.51 Aligned_cols=37 Identities=22% Similarity=0.593 Sum_probs=27.1
Q ss_pred cccccCCCCcccHHHHHHHHh--------------------------cCCCCCCccccccccC
Q 028627 119 KIVLPDCNHSMCMRCYRNWRA--------------------------RSQSCPFCRDSLRRVN 155 (206)
Q Consensus 119 ~~~~~~CgH~Fc~~Ci~~w~~--------------------------~~~~CP~Cr~~~~~~~ 155 (206)
..+.-.|||.||..|..+|.. ..+.||.|..++....
T Consensus 178 ~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~~iek~~ 240 (444)
T KOG1815|consen 178 VEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKVPIEKDG 240 (444)
T ss_pred cceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCcccchhccC
Confidence 445567999999999866643 2356999999886544
No 150
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=54.22 E-value=6.5 Score=24.65 Aligned_cols=37 Identities=19% Similarity=0.455 Sum_probs=21.5
Q ss_pred cCcccccccccccccccCCCCcccHHHHHHHHh--cCCCCCCcccc
Q 028627 107 EEECGICLEICCKIVLPDCNHSMCMRCYRNWRA--RSQSCPFCRDS 150 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~--~~~~CP~Cr~~ 150 (206)
...||.|.+.+.... + ...|...... +...||+|...
T Consensus 2 ~f~CP~C~~~~~~~~-L------~~H~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSESS-L------VEHCEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCHHH-H------HHHHHhHCcCCCCCccCCCchhh
Confidence 467999988554322 2 2333333332 35789999753
No 151
>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=53.61 E-value=4.3 Score=36.24 Aligned_cols=29 Identities=38% Similarity=0.872 Sum_probs=0.0
Q ss_pred cccCCCCcccHHHHHHHHh------cCCCCCCcccccc
Q 028627 121 VLPDCNHSMCMRCYRNWRA------RSQSCPFCRDSLR 152 (206)
Q Consensus 121 ~~~~CgH~Fc~~Ci~~w~~------~~~~CP~Cr~~~~ 152 (206)
+-+.|||.+-.. .|-. ....||+||..=.
T Consensus 305 VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 305 VYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp --------------------------------------
T ss_pred eeccccceeeec---ccccccccccccccCCCccccCC
Confidence 557899987653 4543 3678999998644
No 152
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=52.87 E-value=2.2 Score=22.23 Aligned_cols=9 Identities=33% Similarity=0.973 Sum_probs=4.0
Q ss_pred CCCCCCccc
Q 028627 141 SQSCPFCRD 149 (206)
Q Consensus 141 ~~~CP~Cr~ 149 (206)
..-||.|..
T Consensus 13 ~~fC~~CG~ 21 (23)
T PF13240_consen 13 AKFCPNCGT 21 (23)
T ss_pred CcchhhhCC
Confidence 344554443
No 153
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.66 E-value=12 Score=25.31 Aligned_cols=29 Identities=24% Similarity=0.496 Sum_probs=22.0
Q ss_pred CCcccHHHHHHHHhcCCCCCCccccccccCC
Q 028627 126 NHSMCMRCYRNWRARSQSCPFCRDSLRRVNS 156 (206)
Q Consensus 126 gH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 156 (206)
.|.||.+|...-+ +..||.|-..+.....
T Consensus 28 EcTFCadCae~~l--~g~CPnCGGelv~RP~ 56 (84)
T COG3813 28 ECTFCADCAENRL--HGLCPNCGGELVARPI 56 (84)
T ss_pred eeehhHhHHHHhh--cCcCCCCCchhhcCcC
Confidence 4789999987654 5789999988765433
No 154
>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=51.53 E-value=11 Score=23.46 Aligned_cols=30 Identities=20% Similarity=0.429 Sum_probs=21.3
Q ss_pred Cccccccccccc----ccccCCCCcccHHHHHHH
Q 028627 108 EECGICLEICCK----IVLPDCNHSMCMRCYRNW 137 (206)
Q Consensus 108 ~~C~IC~~~~~~----~~~~~CgH~Fc~~Ci~~w 137 (206)
..|.+|...|.. ..-..||+.||..|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 468888776663 233579999999997544
No 155
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=51.03 E-value=14 Score=37.18 Aligned_cols=50 Identities=22% Similarity=0.576 Sum_probs=36.0
Q ss_pred ccCccccccccccc-----c--cccCCCCcccHHHHHH-HHhcCCCCCCccccccccC
Q 028627 106 REEECGICLEICCK-----I--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLRRVN 155 (206)
Q Consensus 106 ~~~~C~IC~~~~~~-----~--~~~~CgH~Fc~~Ci~~-w~~~~~~CP~Cr~~~~~~~ 155 (206)
....|.||-|..-. + ..-.|+-..|..|..- ..+.+..||.|+.+..+..
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~~~ 71 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKRHK 71 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhhc
Confidence 45689999998652 2 2235777799999933 3346899999999887443
No 156
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.41 E-value=12 Score=34.89 Aligned_cols=48 Identities=23% Similarity=0.674 Sum_probs=38.4
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccccCC
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRRVNS 156 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 156 (206)
+....|.+|+... .....+|. +..|..+|......||.|+..+.....
T Consensus 477 ~~~~~~~~~~~~~-~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 477 EPNDVCAICYQEM-SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred cccCcchHHHHHH-Hhcccccc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 4567899999988 55666787 688888999999999999998764433
No 157
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=47.77 E-value=14 Score=30.70 Aligned_cols=27 Identities=26% Similarity=0.776 Sum_probs=22.4
Q ss_pred cHHHHHHHHhcCCCCCCccccccccCC
Q 028627 130 CMRCYRNWRARSQSCPFCRDSLRRVNS 156 (206)
Q Consensus 130 c~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 156 (206)
|.+|-.+...+...||+|+......++
T Consensus 252 ClsChqqIHRNAPiCPlCKaKsRSrNP 278 (286)
T KOG4451|consen 252 CLSCHQQIHRNAPICPLCKAKSRSRNP 278 (286)
T ss_pred HHHHHHHHhcCCCCCcchhhccccCCC
Confidence 889988888889999999987665544
No 158
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=47.57 E-value=15 Score=30.49 Aligned_cols=27 Identities=26% Similarity=0.730 Sum_probs=23.1
Q ss_pred cHHHHHHHHhcCCCCCCccccccccCC
Q 028627 130 CMRCYRNWRARSQSCPFCRDSLRRVNS 156 (206)
Q Consensus 130 c~~Ci~~w~~~~~~CP~Cr~~~~~~~~ 156 (206)
|.+|-.....+...||+|++.-...++
T Consensus 197 C~sC~qqIHRNAPiCPlCK~KsRSrnp 223 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAKSRSRNP 223 (230)
T ss_pred hHhHHHHHhcCCCCCcccccccccCCC
Confidence 999999988899999999987765554
No 159
>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=47.35 E-value=7.8 Score=28.54 Aligned_cols=44 Identities=25% Similarity=0.532 Sum_probs=26.0
Q ss_pred ccCcccccccccc-----cccccCCCCcccHHHHHHHH-hcCCCCCCccc
Q 028627 106 REEECGICLEICC-----KIVLPDCNHSMCMRCYRNWR-ARSQSCPFCRD 149 (206)
Q Consensus 106 ~~~~C~IC~~~~~-----~~~~~~CgH~Fc~~Ci~~w~-~~~~~CP~Cr~ 149 (206)
++..|.+|...|. ......|+|.+|..|-..-. ...-.|.+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYSKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEETSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcCCCCCCEEChhhHH
Confidence 5679999988764 22446799999998854410 01224666654
No 160
>PRK04023 DNA polymerase II large subunit; Validated
Probab=46.71 E-value=11 Score=37.67 Aligned_cols=45 Identities=20% Similarity=0.432 Sum_probs=33.9
Q ss_pred ccCcccccccccccccccCCCC-----cccHHHHHHHHhcCCCCCCcccccc
Q 028627 106 REEECGICLEICCKIVLPDCNH-----SMCMRCYRNWRARSQSCPFCRDSLR 152 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~~~CgH-----~Fc~~Ci~~w~~~~~~CP~Cr~~~~ 152 (206)
....|+-|-..........||. .||..| .+......||.|.....
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~ 674 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPT 674 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCC
Confidence 4568999988876667778984 499999 34344577999988765
No 161
>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=46.22 E-value=5 Score=21.59 Aligned_cols=9 Identities=22% Similarity=0.316 Sum_probs=4.4
Q ss_pred ccccccccc
Q 028627 110 CGICLEICC 118 (206)
Q Consensus 110 C~IC~~~~~ 118 (206)
||-|...+.
T Consensus 3 CP~C~~~V~ 11 (26)
T PF10571_consen 3 CPECGAEVP 11 (26)
T ss_pred CCCCcCCch
Confidence 555554443
No 162
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=45.79 E-value=11 Score=32.04 Aligned_cols=48 Identities=21% Similarity=0.571 Sum_probs=36.8
Q ss_pred cCccccccccccc----ccccCCCC-----cccHHHHHHHHh--cCCCCCCcccccccc
Q 028627 107 EEECGICLEICCK----IVLPDCNH-----SMCMRCYRNWRA--RSQSCPFCRDSLRRV 154 (206)
Q Consensus 107 ~~~C~IC~~~~~~----~~~~~CgH-----~Fc~~Ci~~w~~--~~~~CP~Cr~~~~~~ 154 (206)
+..|-||.+.... +...||.- ..|..|+..|.. +...|.+|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 4789999997653 45667742 359999999998 688999998876543
No 163
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=45.52 E-value=7.3 Score=36.66 Aligned_cols=24 Identities=29% Similarity=0.786 Sum_probs=18.4
Q ss_pred cCCCCcccHHHHHHHHhcCCCCCCccc
Q 028627 123 PDCNHSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 123 ~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
..||+.||..|. ...+..||.|-.
T Consensus 535 ~~C~avfH~~C~---~r~s~~CPrC~R 558 (580)
T KOG1829|consen 535 STCLAVFHKKCL---RRKSPCCPRCER 558 (580)
T ss_pred HHHHHHHHHHHH---hccCCCCCchHH
Confidence 469999999995 345566999954
No 164
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=45.50 E-value=21 Score=27.88 Aligned_cols=68 Identities=16% Similarity=0.336 Sum_probs=39.0
Q ss_pred CCcccHHHHHHHHhcCCCCCCccccccccCCC-------CccccC------------------Cchhhhh-hhhhcHHHH
Q 028627 126 NHSMCMRCYRNWRARSQSCPFCRDSLRRVNSG-------DLWIYT------------------SEDDIVD-LASISRENL 179 (206)
Q Consensus 126 gH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~~~~-------~~~~~~------------------~~~~~~d-~~~~~~e~l 179 (206)
.+.||..|-.+- ...||.|..++...--. ..+..+ ...++++ ..+.+.++.
T Consensus 27 ~~~fC~kCG~~t---I~~Cp~C~~~IrG~y~v~gv~~~g~~~~~PsYC~~CGkpyPWt~~~L~aa~el~ee~eeLs~dek 103 (158)
T PF10083_consen 27 REKFCSKCGAKT---ITSCPNCSTPIRGDYHVEGVFGLGGHYEAPSYCHNCGKPYPWTENALEAANELIEEDEELSPDEK 103 (158)
T ss_pred HHHHHHHhhHHH---HHHCcCCCCCCCCceecCCeeeeCCCCCCChhHHhCCCCCchHHHHHHHHHHHHHHhhcCCHHHH
Confidence 356888887654 35788888888532111 111111 1233343 556677777
Q ss_pred HHHHHHHhcCCCCCCCc
Q 028627 180 KRLFMYIDKLPFITPNP 196 (206)
Q Consensus 180 ~~l~~~i~~l~~~~p~~ 196 (206)
++|-+-|..|-.+.|..
T Consensus 104 e~~~~sl~dL~~d~PkT 120 (158)
T PF10083_consen 104 EQFKESLPDLTKDTPKT 120 (158)
T ss_pred HHHHhhhHHHhhcCCcc
Confidence 77777777776666654
No 165
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=43.98 E-value=9.3 Score=28.92 Aligned_cols=22 Identities=23% Similarity=0.366 Sum_probs=16.3
Q ss_pred cccccccccccccCCCCcccHH
Q 028627 111 GICLEICCKIVLPDCNHSMCMR 132 (206)
Q Consensus 111 ~IC~~~~~~~~~~~CgH~Fc~~ 132 (206)
-||.+.-...+.-.|||.||..
T Consensus 61 fi~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 61 FICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEEecccccEEEEeccccccCh
Confidence 4677766666667899999964
No 166
>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=42.46 E-value=12 Score=23.19 Aligned_cols=36 Identities=17% Similarity=0.353 Sum_probs=20.8
Q ss_pred ccccccccccccc--cCCCCcccHHHHHHHHhcCCCCCCccccccc
Q 028627 110 CGICLEICCKIVL--PDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 110 C~IC~~~~~~~~~--~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
|+-|...+..... ..-|..||..| ..|-.|+.++..
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~C--------f~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPEC--------FKCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTT--------SBETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccc--------cccCCCCCccCC
Confidence 4556665553322 24566677666 577777776653
No 167
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=40.78 E-value=5.6 Score=23.76 Aligned_cols=28 Identities=21% Similarity=0.481 Sum_probs=15.5
Q ss_pred CCCCcccHHHHHHHHhcCCCCCCccc-ccc
Q 028627 124 DCNHSMCMRCYRNWRARSQSCPFCRD-SLR 152 (206)
Q Consensus 124 ~CgH~Fc~~Ci~~w~~~~~~CP~Cr~-~~~ 152 (206)
.|||.|-...-..= .....||.|.. .+.
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~~~~~ 38 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGSTEVR 38 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCCCceE
Confidence 57776644321100 24678999988 443
No 168
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.19 E-value=16 Score=25.94 Aligned_cols=12 Identities=33% Similarity=1.082 Sum_probs=10.8
Q ss_pred cccHHHHHHHHh
Q 028627 128 SMCMRCYRNWRA 139 (206)
Q Consensus 128 ~Fc~~Ci~~w~~ 139 (206)
.||..|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999986
No 169
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.51 E-value=11 Score=29.77 Aligned_cols=27 Identities=26% Similarity=0.272 Sum_probs=18.6
Q ss_pred CccCcccccccccccc---cccCCCCcccH
Q 028627 105 EREEECGICLEICCKI---VLPDCNHSMCM 131 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~---~~~~CgH~Fc~ 131 (206)
.+.-+|.||+|++... ..+||-..+|.
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 3456899999988843 44778766553
No 170
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=37.82 E-value=19 Score=30.33 Aligned_cols=44 Identities=14% Similarity=0.151 Sum_probs=34.7
Q ss_pred cCcccccccccccccc-cCCCCcccHHHHHHHHhc--CCCCCCcccc
Q 028627 107 EEECGICLEICCKIVL-PDCNHSMCMRCYRNWRAR--SQSCPFCRDS 150 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~-~~CgH~Fc~~Ci~~w~~~--~~~CP~Cr~~ 150 (206)
+..||+=...+.+|++ ..|||.|=.+-|.+.+.. .-.||+-..+
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 4789988888888866 789999999999998775 5567765444
No 171
>PF14353 CpXC: CpXC protein
Probab=37.63 E-value=22 Score=26.23 Aligned_cols=45 Identities=20% Similarity=0.193 Sum_probs=23.4
Q ss_pred CcccccccccccccccCCCCcccHHHHHHHHhc---CCCCCCcccccc
Q 028627 108 EECGICLEICCKIVLPDCNHSMCMRCYRNWRAR---SQSCPFCRDSLR 152 (206)
Q Consensus 108 ~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~---~~~CP~Cr~~~~ 152 (206)
.+||-|...+...+-+.-.-..-..=..+.+.+ ..+||.|...+.
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFR 49 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCcee
Confidence 467777766653222211111223333344432 578999999775
No 172
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=37.55 E-value=2.8 Score=26.70 Aligned_cols=30 Identities=30% Similarity=0.804 Sum_probs=16.7
Q ss_pred Ccccc--ccccccc--------ccccCCCCcccHHHHHHH
Q 028627 108 EECGI--CLEICCK--------IVLPDCNHSMCMRCYRNW 137 (206)
Q Consensus 108 ~~C~I--C~~~~~~--------~~~~~CgH~Fc~~Ci~~w 137 (206)
..|+- |-..+.. ..-..||+.||..|-.+|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 36765 7666551 122459999999998777
No 173
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=37.42 E-value=31 Score=22.01 Aligned_cols=31 Identities=19% Similarity=0.581 Sum_probs=23.8
Q ss_pred ccCcccccccccc--c--ccccCCCCcccHHHHHH
Q 028627 106 REEECGICLEICC--K--IVLPDCNHSMCMRCYRN 136 (206)
Q Consensus 106 ~~~~C~IC~~~~~--~--~~~~~CgH~Fc~~Ci~~ 136 (206)
....|++|-+.+. + .+-..||-.+|.+|..+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 3457999999995 2 24478999999999644
No 174
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=37.07 E-value=21 Score=28.84 Aligned_cols=39 Identities=28% Similarity=0.649 Sum_probs=26.6
Q ss_pred ccCcccccccc-cc----c-c--cccCCCCcccHHHHHHHHhcCCCCCCccc
Q 028627 106 REEECGICLEI-CC----K-I--VLPDCNHSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 106 ~~~~C~IC~~~-~~----~-~--~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
.+..|.+|.+. .. . . .-..|+-.||..|.. ...||.|..
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 45778888864 11 1 1 224799999999965 267999954
No 175
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=36.22 E-value=20 Score=34.76 Aligned_cols=48 Identities=23% Similarity=0.589 Sum_probs=35.1
Q ss_pred ccCcccccccccccc----------cccCCCCcc--------------------cHHHHHHHHh--------cCCCCCCc
Q 028627 106 REEECGICLEICCKI----------VLPDCNHSM--------------------CMRCYRNWRA--------RSQSCPFC 147 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~----------~~~~CgH~F--------------------c~~Ci~~w~~--------~~~~CP~C 147 (206)
+--.|.-|+.++.+| ..+.||-.| |..|..++.. +..+||.|
T Consensus 67 D~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~~~C~~C 146 (711)
T TIGR00143 67 DVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQPIACPRC 146 (711)
T ss_pred chhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCCccCCCC
Confidence 556888888887654 335677666 9999999865 24689999
Q ss_pred cccccc
Q 028627 148 RDSLRR 153 (206)
Q Consensus 148 r~~~~~ 153 (206)
--.+..
T Consensus 147 gp~l~l 152 (711)
T TIGR00143 147 GPQLNF 152 (711)
T ss_pred CcEEEE
Confidence 777643
No 176
>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=35.99 E-value=42 Score=24.29 Aligned_cols=24 Identities=33% Similarity=0.753 Sum_probs=18.3
Q ss_pred CCcccHHHHHHHHh---------cCCCCCCccc
Q 028627 126 NHSMCMRCYRNWRA---------RSQSCPFCRD 149 (206)
Q Consensus 126 gH~Fc~~Ci~~w~~---------~~~~CP~Cr~ 149 (206)
.=.||..|+..... ..-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 55699999977664 2457999988
No 177
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=35.64 E-value=44 Score=32.61 Aligned_cols=78 Identities=15% Similarity=0.290 Sum_probs=40.2
Q ss_pred CCchHHHHHHHhhHHHHhhhcccccCCCcc-------cccCccCccccccccccc------c-------cccCCCCcccH
Q 028627 72 ITDVEDKKQKEICDAKYKKKGRMDKGKLSE-------IDIEREEECGICLEICCK------I-------VLPDCNHSMCM 131 (206)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~C~IC~~~~~~------~-------~~~~CgH~Fc~ 131 (206)
+.+.+.++..+.....+.+....+..+... .-...+.+|+-|...|.. | ..+.|.|.-+.
T Consensus 1089 l~~a~kq~ye~La~~iFsk~~p~d~~~~~vdc~~cg~~i~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~ 1168 (1189)
T KOG2041|consen 1089 LDDAEKQEYENLAFRIFSKNPPVDPNSAKVDCSVCGAKIDPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQ 1168 (1189)
T ss_pred CCHHHHHHHHHHHHHHhccCCCCCCCccceeeeecCCcCCccCCCChhhcCcCceeeccCCccccceEEEcccccccccc
Confidence 333333444556666677766554432110 011235677777766552 1 22345554444
Q ss_pred HHHHHHHhcCCCCCCccccccc
Q 028627 132 RCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 132 ~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
.=| .+...||+|..++..
T Consensus 1169 ~EI----s~y~~CPLCHs~~~~ 1186 (1189)
T KOG2041|consen 1169 HEI----SKYNCCPLCHSMESF 1186 (1189)
T ss_pred ccc----cccccCccccChhhc
Confidence 322 246889999887643
No 178
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=35.23 E-value=22 Score=28.28 Aligned_cols=34 Identities=18% Similarity=0.151 Sum_probs=21.6
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccc
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
.....|+.|-..++.- .-....+.||.|..++..
T Consensus 115 ~~~Y~Cp~C~~rytf~---------------eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 115 NMFFFCPNCHIRFTFD---------------EAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred CCEEECCCCCcEEeHH---------------HHhhcCCcCCCCCCCCee
Confidence 3566777776554411 112347999999998875
No 179
>PF09567 RE_MamI: MamI restriction endonuclease; InterPro: IPR019067 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the MamI restriction endonuclease which recognises and cleaves GATNN^NNATC. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=31.66 E-value=29 Score=29.32 Aligned_cols=26 Identities=19% Similarity=0.579 Sum_probs=16.4
Q ss_pred cCCCCCCccccccccCCCCccccCCc
Q 028627 140 RSQSCPFCRDSLRRVNSGDLWIYTSE 165 (206)
Q Consensus 140 ~~~~CP~Cr~~~~~~~~~~~~~~~~~ 165 (206)
-..+||.|...=-..+-.+.|...-+
T Consensus 95 ~e~~Cp~C~StnI~r~DdSkWl~~ir 120 (314)
T PF09567_consen 95 LEESCPNCGSTNIKRKDDSKWLFGIR 120 (314)
T ss_pred hhhcCCCCCcccccccCCcceecccc
Confidence 36789999775444445566655543
No 180
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=30.71 E-value=7.8 Score=35.00 Aligned_cols=26 Identities=23% Similarity=0.410 Sum_probs=14.3
Q ss_pred CcccccccccccccccCCCCcccHHH
Q 028627 108 EECGICLEICCKIVLPDCNHSMCMRC 133 (206)
Q Consensus 108 ~~C~IC~~~~~~~~~~~CgH~Fc~~C 133 (206)
..|..|-+.+.+.++-.||-.||-.|
T Consensus 335 ekC~~Cg~~I~d~iLrA~GkayHp~C 360 (468)
T KOG1701|consen 335 EKCNKCGEPIMDRILRALGKAYHPGC 360 (468)
T ss_pred HHHhhhhhHHHHHHHHhcccccCCCc
Confidence 34555555555555555665555444
No 181
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=28.50 E-value=37 Score=21.20 Aligned_cols=9 Identities=44% Similarity=1.556 Sum_probs=6.4
Q ss_pred hcCCCCCCc
Q 028627 139 ARSQSCPFC 147 (206)
Q Consensus 139 ~~~~~CP~C 147 (206)
.....||.|
T Consensus 47 ~~~~~CP~C 55 (55)
T PF14311_consen 47 RRGKGCPYC 55 (55)
T ss_pred cCCCCCCCC
Confidence 356778887
No 182
>PLN02195 cellulose synthase A
Probab=27.91 E-value=71 Score=32.13 Aligned_cols=47 Identities=17% Similarity=0.456 Sum_probs=34.0
Q ss_pred ccCcccccccccc-----cc--cccCCCCcccHHHHHH-HHhcCCCCCCcccccc
Q 028627 106 REEECGICLEICC-----KI--VLPDCNHSMCMRCYRN-WRARSQSCPFCRDSLR 152 (206)
Q Consensus 106 ~~~~C~IC~~~~~-----~~--~~~~CgH~Fc~~Ci~~-w~~~~~~CP~Cr~~~~ 152 (206)
....|.||-+... ++ ..-.||-.-|..|..- -.+.+..||.|+..-.
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 3457999999655 12 2346888899999833 2336899999998776
No 183
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=27.70 E-value=1.6e+02 Score=25.23 Aligned_cols=39 Identities=26% Similarity=0.550 Sum_probs=23.2
Q ss_pred cCccccccccccccccc-CCCC----cccHHHHHHHHh-cCCCCC
Q 028627 107 EEECGICLEICCKIVLP-DCNH----SMCMRCYRNWRA-RSQSCP 145 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~-~CgH----~Fc~~Ci~~w~~-~~~~CP 145 (206)
-..|.||++....++-- .=-| .-|.+|..+|.. ....||
T Consensus 30 LsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 30 LSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred eeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 34667777766543221 1122 235899999854 678888
No 184
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=27.06 E-value=18 Score=31.59 Aligned_cols=48 Identities=10% Similarity=0.116 Sum_probs=37.4
Q ss_pred CccCcccccccccccccccCCCCc-ccHHHHHHH-HhcCCCCCCcccccc
Q 028627 105 EREEECGICLEICCKIVLPDCNHS-MCMRCYRNW-RARSQSCPFCRDSLR 152 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~-Fc~~Ci~~w-~~~~~~CP~Cr~~~~ 152 (206)
.....|.+|+..-......+|||. ||..|.-.- .++...||+|...+.
T Consensus 134 ~~ti~~iqq~tnt~I~T~v~~~~~Vf~Vtg~~~nC~kra~s~eie~ta~~ 183 (394)
T KOG2113|consen 134 GATIKRIQQFTNTYIATPVRCGEPVFCVTGAPKNCVKRARSCEIEQTAVT 183 (394)
T ss_pred cCccchheecccceEeeeccCCCceEEEecCCcchhhhccccchhhhhhh
Confidence 345778889887777777789995 999997665 567888999987664
No 185
>PF11587 Prion_bPrPp: Major prion protein bPrPp - N terminal; PDB: 1SKH_A.
Probab=26.66 E-value=73 Score=17.57 Aligned_cols=15 Identities=33% Similarity=0.669 Sum_probs=12.0
Q ss_pred HHHHHHHHhhhcccc
Q 028627 10 HTFLFLVQWIDCRLA 24 (206)
Q Consensus 10 ~~~~~~~~~~~~~~~ 24 (206)
-++||+..|+|.++.
T Consensus 10 ilvLfvatwsdvglc 24 (29)
T PF11587_consen 10 ILVLFVATWSDVGLC 24 (29)
T ss_dssp HHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHhhhccc
Confidence 378899999998764
No 186
>PF15616 TerY-C: TerY-C metal binding domain
Probab=26.59 E-value=29 Score=26.33 Aligned_cols=48 Identities=17% Similarity=0.431 Sum_probs=35.4
Q ss_pred cccccCccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccc
Q 028627 100 SEIDIEREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 100 ~~~~~~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
+..++.+.-.||-|-..+.-.+. .||+.||.+= ....+||-|......
T Consensus 70 ntseL~g~PgCP~CGn~~~fa~C-~CGkl~Ci~g-----~~~~~CPwCg~~g~~ 117 (131)
T PF15616_consen 70 NTSELIGAPGCPHCGNQYAFAVC-GCGKLFCIDG-----EGEVTCPWCGNEGSF 117 (131)
T ss_pred ehHHhcCCCCCCCCcChhcEEEe-cCCCEEEeCC-----CCCEECCCCCCeeee
Confidence 33344566899999988776666 6999999742 246899999887653
No 187
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=26.55 E-value=59 Score=28.42 Aligned_cols=44 Identities=18% Similarity=0.353 Sum_probs=31.8
Q ss_pred ccCcccccccccccccc--------------cCCCCcccHHHHHHHHhcCCCCCCccc
Q 028627 106 REEECGICLEICCKIVL--------------PDCNHSMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~~~--------------~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
....|-.|...|..+.. ..|.-.||.+|=.-..+....||-|..
T Consensus 361 ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~ 418 (421)
T COG5151 361 KSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred CCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 45679999998774321 248888999997665666788998854
No 188
>PRK11595 DNA utilization protein GntX; Provisional
Probab=26.49 E-value=49 Score=27.07 Aligned_cols=38 Identities=24% Similarity=0.505 Sum_probs=19.7
Q ss_pred cccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccc
Q 028627 109 ECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSL 151 (206)
Q Consensus 109 ~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~ 151 (206)
.|.+|-..+... .+..|..|...+-.-...||.|-.++
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhCCcccCcCccCCCcC
Confidence 477776554211 12356667655432234566666554
No 189
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=26.45 E-value=27 Score=27.13 Aligned_cols=34 Identities=15% Similarity=0.017 Sum_probs=21.2
Q ss_pred CccCcccccccccccccccCCCCcccHHHHHHHHhcCCCCCCccccccc
Q 028627 105 EREEECGICLEICCKIVLPDCNHSMCMRCYRNWRARSQSCPFCRDSLRR 153 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~ 153 (206)
.....|+.|-..++.- .-....+.||.|..++..
T Consensus 107 ~~~Y~Cp~c~~r~tf~---------------eA~~~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 107 NMFFICPNMCVRFTFN---------------EAMELNFTCPRCGAMLDY 140 (158)
T ss_pred CCeEECCCCCcEeeHH---------------HHHHcCCcCCCCCCEeee
Confidence 4566787776554411 111237999999988764
No 190
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=26.30 E-value=19 Score=35.25 Aligned_cols=46 Identities=26% Similarity=0.686 Sum_probs=33.3
Q ss_pred ccCccccccccccc--ccccCCCCcccHHHHHHHHh------cCCCCCCccccc
Q 028627 106 REEECGICLEICCK--IVLPDCNHSMCMRCYRNWRA------RSQSCPFCRDSL 151 (206)
Q Consensus 106 ~~~~C~IC~~~~~~--~~~~~CgH~Fc~~Ci~~w~~------~~~~CP~Cr~~~ 151 (206)
....|-.|.....+ -+...|||.+|..|++.|.- ....|++|+..-
T Consensus 228 ~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C 281 (889)
T KOG1356|consen 228 IREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKC 281 (889)
T ss_pred cchhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhc
Confidence 34678899877664 36678999999999999951 245666666543
No 191
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=26.18 E-value=20 Score=26.35 Aligned_cols=18 Identities=22% Similarity=0.519 Sum_probs=13.8
Q ss_pred HHhcCCCCCCcccccccc
Q 028627 137 WRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 137 w~~~~~~CP~Cr~~~~~~ 154 (206)
.+.+...|+.|++|++.+
T Consensus 81 mLGr~D~CM~C~~pLTLd 98 (114)
T PF11023_consen 81 MLGRVDACMHCKEPLTLD 98 (114)
T ss_pred hhchhhccCcCCCcCccC
Confidence 345667899999999843
No 192
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=25.91 E-value=12 Score=19.86 Aligned_cols=6 Identities=50% Similarity=1.453 Sum_probs=2.4
Q ss_pred CCCCCc
Q 028627 142 QSCPFC 147 (206)
Q Consensus 142 ~~CP~C 147 (206)
..||.|
T Consensus 17 ~fC~~C 22 (26)
T PF13248_consen 17 KFCPNC 22 (26)
T ss_pred ccChhh
Confidence 334444
No 193
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=24.94 E-value=42 Score=28.56 Aligned_cols=45 Identities=24% Similarity=0.491 Sum_probs=32.2
Q ss_pred Cccccccccccc--c-----cccCCCCcccHHHHHHHHh---------cCCCCCCcccccc
Q 028627 108 EECGICLEICCK--I-----VLPDCNHSMCMRCYRNWRA---------RSQSCPFCRDSLR 152 (206)
Q Consensus 108 ~~C~IC~~~~~~--~-----~~~~CgH~Fc~~Ci~~w~~---------~~~~CP~Cr~~~~ 152 (206)
.+|.+|.+.+.+ . ....|+-.+|..|+...+. ....||.|++-+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 589999998832 2 2235777889999988443 2468999998554
No 194
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=24.83 E-value=54 Score=28.24 Aligned_cols=54 Identities=20% Similarity=0.393 Sum_probs=35.7
Q ss_pred CcccccCccCccccccc-cccc----ccccCCCCcccHHHHHHHH-h-----c-CCCCCCcccccc
Q 028627 99 LSEIDIEREEECGICLE-ICCK----IVLPDCNHSMCMRCYRNWR-A-----R-SQSCPFCRDSLR 152 (206)
Q Consensus 99 ~~~~~~~~~~~C~IC~~-~~~~----~~~~~CgH~Fc~~Ci~~w~-~-----~-~~~CP~Cr~~~~ 152 (206)
..+....+...|.+|.. .|.- --.-.||+.||..|-..-. . + ...|+.|=..+.
T Consensus 160 ~~W~PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~ 225 (288)
T KOG1729|consen 160 AVWLPDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELE 225 (288)
T ss_pred CcccCcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHh
Confidence 34445567789999998 5552 1335799999999975522 1 1 236888866664
No 195
>PRK00420 hypothetical protein; Validated
Probab=24.50 E-value=16 Score=26.95 Aligned_cols=12 Identities=17% Similarity=0.326 Sum_probs=7.4
Q ss_pred CCCCCCcccccc
Q 028627 141 SQSCPFCRDSLR 152 (206)
Q Consensus 141 ~~~CP~Cr~~~~ 152 (206)
...||.|...+.
T Consensus 40 ~~~Cp~Cg~~~~ 51 (112)
T PRK00420 40 EVVCPVHGKVYI 51 (112)
T ss_pred ceECCCCCCeee
Confidence 345777766544
No 196
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=24.39 E-value=21 Score=20.56 Aligned_cols=14 Identities=36% Similarity=0.852 Sum_probs=9.6
Q ss_pred cCCCCCCccccccc
Q 028627 140 RSQSCPFCRDSLRR 153 (206)
Q Consensus 140 ~~~~CP~Cr~~~~~ 153 (206)
....||.|...+.+
T Consensus 25 ~~~~CP~Cg~~~~r 38 (41)
T smart00834 25 PLATCPECGGDVRR 38 (41)
T ss_pred CCCCCCCCCCccee
Confidence 35679999876543
No 197
>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=24.30 E-value=37 Score=18.02 Aligned_cols=11 Identities=27% Similarity=0.818 Sum_probs=8.2
Q ss_pred CCCCCcccccc
Q 028627 142 QSCPFCRDSLR 152 (206)
Q Consensus 142 ~~CP~Cr~~~~ 152 (206)
..||+|.+.+.
T Consensus 2 v~CPiC~~~v~ 12 (26)
T smart00734 2 VQCPVCFREVP 12 (26)
T ss_pred CcCCCCcCccc
Confidence 46999987763
No 198
>PLN02248 cellulose synthase-like protein
Probab=23.68 E-value=75 Score=32.48 Aligned_cols=31 Identities=23% Similarity=0.742 Sum_probs=26.6
Q ss_pred CCCCcccHHHHHHHHhcCCCCCCcccccccc
Q 028627 124 DCNHSMCMRCYRNWRARSQSCPFCRDSLRRV 154 (206)
Q Consensus 124 ~CgH~Fc~~Ci~~w~~~~~~CP~Cr~~~~~~ 154 (206)
.|++..|.+|...-+.....||-|+.+-...
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 179 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKVT 179 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCccccccc
Confidence 5788889999999888899999999987543
No 199
>PRK01343 zinc-binding protein; Provisional
Probab=23.68 E-value=45 Score=21.50 Aligned_cols=12 Identities=25% Similarity=0.769 Sum_probs=9.6
Q ss_pred CCCCCCcccccc
Q 028627 141 SQSCPFCRDSLR 152 (206)
Q Consensus 141 ~~~CP~Cr~~~~ 152 (206)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 578999998865
No 200
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=23.33 E-value=59 Score=21.34 Aligned_cols=12 Identities=25% Similarity=0.872 Sum_probs=8.2
Q ss_pred CCCCCCcccccc
Q 028627 141 SQSCPFCRDSLR 152 (206)
Q Consensus 141 ~~~CP~Cr~~~~ 152 (206)
...||.|++++.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 356888887764
No 201
>KOG3896 consensus Dynactin, subunit p62 [Cell motility]
Probab=23.29 E-value=1.3e+02 Score=26.67 Aligned_cols=33 Identities=21% Similarity=0.464 Sum_probs=18.2
Q ss_pred ccCcccccccccccc----cccCCCCcc-cHHHHHHHH
Q 028627 106 REEECGICLEICCKI----VLPDCNHSM-CMRCYRNWR 138 (206)
Q Consensus 106 ~~~~C~IC~~~~~~~----~~~~CgH~F-c~~Ci~~w~ 138 (206)
+...|+-|++....+ ..-.|...| |..|..-..
T Consensus 44 dshfCp~CLEn~ps~EArlKKn~CAnCfDCP~C~htLS 81 (449)
T KOG3896|consen 44 DSHFCPRCLENSPSPEARLKKNKCANCFDCPKCAHTLS 81 (449)
T ss_pred ccccchhhccCCCchHHHhhhccccccccCcchhhhhh
Confidence 346778888776633 222455544 666654443
No 202
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=22.79 E-value=37 Score=21.89 Aligned_cols=11 Identities=27% Similarity=0.975 Sum_probs=4.7
Q ss_pred CCCCccccccc
Q 028627 143 SCPFCRDSLRR 153 (206)
Q Consensus 143 ~CP~Cr~~~~~ 153 (206)
.||.|++++..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 57777776654
No 203
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=22.66 E-value=36 Score=35.12 Aligned_cols=46 Identities=24% Similarity=0.511 Sum_probs=30.2
Q ss_pred cCcccccccccccccccCCCCcc-----cHHHHHHHHhc---CCCCCCcccccc
Q 028627 107 EEECGICLEICCKIVLPDCNHSM-----CMRCYRNWRAR---SQSCPFCRDSLR 152 (206)
Q Consensus 107 ~~~C~IC~~~~~~~~~~~CgH~F-----c~~Ci~~w~~~---~~~CP~Cr~~~~ 152 (206)
...|+-|-..........||+.. |..|-.+.-.. ...||.|..++.
T Consensus 667 ~rkCPkCG~~t~~~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv 720 (1337)
T PRK14714 667 RRRCPSCGTETYENRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELT 720 (1337)
T ss_pred EEECCCCCCccccccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCccc
Confidence 47899888876555667788653 77775543211 336888877665
No 204
>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=21.92 E-value=71 Score=17.78 Aligned_cols=11 Identities=27% Similarity=0.785 Sum_probs=7.5
Q ss_pred cCCCCCCcccc
Q 028627 140 RSQSCPFCRDS 150 (206)
Q Consensus 140 ~~~~CP~Cr~~ 150 (206)
....||.|..+
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 35578888663
No 205
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=21.80 E-value=48 Score=21.52 Aligned_cols=13 Identities=23% Similarity=0.933 Sum_probs=10.5
Q ss_pred cCCCCCCcccccc
Q 028627 140 RSQSCPFCRDSLR 152 (206)
Q Consensus 140 ~~~~CP~Cr~~~~ 152 (206)
....||+|..+..
T Consensus 38 ~~p~CPlC~s~M~ 50 (59)
T PF14169_consen 38 EEPVCPLCKSPMV 50 (59)
T ss_pred CCccCCCcCCccc
Confidence 3578999998875
No 206
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=21.42 E-value=53 Score=19.73 Aligned_cols=23 Identities=26% Similarity=0.531 Sum_probs=13.8
Q ss_pred ccccccccccccccCCCCcccHH
Q 028627 110 CGICLEICCKIVLPDCNHSMCMR 132 (206)
Q Consensus 110 C~IC~~~~~~~~~~~CgH~Fc~~ 132 (206)
|..|.....--+-+.|+|.+|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCC
Confidence 55666444333556788888743
No 207
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=20.96 E-value=1.5e+02 Score=25.59 Aligned_cols=45 Identities=18% Similarity=0.496 Sum_probs=32.2
Q ss_pred CccCccccccccccccccc----CCCC--cccHHHHHHHHhcCCCCCCccc
Q 028627 105 EREEECGICLEICCKIVLP----DCNH--SMCMRCYRNWRARSQSCPFCRD 149 (206)
Q Consensus 105 ~~~~~C~IC~~~~~~~~~~----~CgH--~Fc~~Ci~~w~~~~~~CP~Cr~ 149 (206)
+.-.-||+|-......++. .=|- .-|.-|..+|.....+|-.|..
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR~KC~nC~~ 233 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVRVKCSNCEQ 233 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHHHHhccccc
Confidence 4456899999887654332 1222 2499999999998888888855
No 208
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=20.76 E-value=61 Score=19.82 Aligned_cols=29 Identities=17% Similarity=0.299 Sum_probs=22.6
Q ss_pred cccccccccccccccCCCCcccHHHHHHHH
Q 028627 109 ECGICLEICCKIVLPDCNHSMCMRCYRNWR 138 (206)
Q Consensus 109 ~C~IC~~~~~~~~~~~CgH~Fc~~Ci~~w~ 138 (206)
.|.||-....+++.+ .|+..|.+|-.+..
T Consensus 1 ~CiiC~~~~~~GI~I-~~~fIC~~CE~~iv 29 (46)
T PF10764_consen 1 KCIICGKEKEEGIHI-YGKFICSDCEKEIV 29 (46)
T ss_pred CeEeCCCcCCCCEEE-ECeEehHHHHHHhc
Confidence 388898888887776 78888999876653
No 209
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=20.51 E-value=65 Score=23.11 Aligned_cols=13 Identities=31% Similarity=1.045 Sum_probs=10.5
Q ss_pred CCCCCCccccccc
Q 028627 141 SQSCPFCRDSLRR 153 (206)
Q Consensus 141 ~~~CP~Cr~~~~~ 153 (206)
..+||.|+.++..
T Consensus 80 ~~~Cp~C~spFNp 92 (105)
T COG4357 80 CGSCPYCQSPFNP 92 (105)
T ss_pred cCCCCCcCCCCCc
Confidence 5679999999863
Done!