Query 046932
Match_columns 162
No_of_seqs 175 out of 1540
Neff 8.3
Searched_HMMs 46136
Date Fri Mar 29 05:59:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046932.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046932hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.5 4E-15 8.7E-20 86.4 1.5 43 104-147 2-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.4 1E-13 2.3E-18 111.8 2.8 48 103-151 230-278 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.3 1.5E-12 3.3E-17 83.6 3.6 45 103-147 20-73 (73)
4 PHA02929 N1R/p28-like protein; 99.3 1.6E-12 3.6E-17 100.5 3.9 51 101-151 173-227 (238)
5 COG5540 RING-finger-containing 99.2 3.7E-12 8E-17 100.1 2.9 52 100-152 321-373 (374)
6 KOG0317 Predicted E3 ubiquitin 99.2 1.4E-11 2.9E-16 96.4 2.9 53 100-156 237-289 (293)
7 PLN03208 E3 ubiquitin-protein 99.1 2.5E-11 5.5E-16 90.7 3.0 53 99-155 15-83 (193)
8 KOG0823 Predicted E3 ubiquitin 99.1 3.2E-11 6.8E-16 91.8 2.8 52 100-155 45-99 (230)
9 KOG0320 Predicted E3 ubiquitin 99.1 5.1E-11 1.1E-15 87.3 1.9 54 101-156 130-183 (187)
10 PF13920 zf-C3HC4_3: Zinc fing 99.1 7.2E-11 1.6E-15 70.2 1.9 45 103-151 3-48 (50)
11 PF13923 zf-C3HC4_2: Zinc fing 99.0 8.1E-11 1.8E-15 66.4 1.7 39 105-146 1-39 (39)
12 PF12861 zf-Apc11: Anaphase-pr 99.0 1.9E-10 4.2E-15 75.0 3.2 50 102-151 21-82 (85)
13 cd00162 RING RING-finger (Real 99.0 1.8E-10 4E-15 65.9 2.8 44 104-150 1-45 (45)
14 PF15227 zf-C3HC4_4: zinc fing 99.0 1.6E-10 3.5E-15 66.3 2.1 38 105-146 1-42 (42)
15 COG5243 HRD1 HRD ubiquitin lig 99.0 1.7E-10 3.7E-15 93.1 2.7 50 100-150 285-344 (491)
16 PHA02926 zinc finger-like prot 99.0 3E-10 6.6E-15 86.1 2.6 51 100-150 168-229 (242)
17 smart00504 Ubox Modified RING 98.9 5E-10 1.1E-14 69.4 2.6 51 103-157 2-52 (63)
18 PF00097 zf-C3HC4: Zinc finger 98.9 8.3E-10 1.8E-14 62.8 2.2 39 105-146 1-41 (41)
19 PF14634 zf-RING_5: zinc-RING 98.9 1.2E-09 2.7E-14 63.2 2.8 44 104-148 1-44 (44)
20 KOG0287 Postreplication repair 98.9 4.1E-10 8.8E-15 90.0 0.6 56 101-160 22-77 (442)
21 TIGR00599 rad18 DNA repair pro 98.9 1.6E-09 3.4E-14 89.6 3.3 53 100-156 24-76 (397)
22 KOG0802 E3 ubiquitin ligase [P 98.8 3.1E-09 6.7E-14 91.7 2.2 51 101-152 290-342 (543)
23 COG5194 APC11 Component of SCF 98.7 6.3E-09 1.4E-13 66.5 2.2 49 103-151 21-81 (88)
24 KOG2164 Predicted E3 ubiquitin 98.7 7.5E-09 1.6E-13 86.7 2.5 55 102-160 186-245 (513)
25 smart00184 RING Ring finger. E 98.6 1.5E-08 3.3E-13 55.8 2.1 38 105-146 1-39 (39)
26 PF13445 zf-RING_UBOX: RING-ty 98.6 2E-08 4.2E-13 57.8 2.4 34 105-139 1-34 (43)
27 COG5574 PEX10 RING-finger-cont 98.6 1.4E-08 3E-13 78.8 1.9 51 101-155 214-266 (271)
28 COG5432 RAD18 RING-finger-cont 98.6 1.7E-08 3.7E-13 79.4 1.9 49 102-154 25-73 (391)
29 TIGR00570 cdk7 CDK-activating 98.5 6.5E-08 1.4E-12 77.3 4.0 54 103-156 4-59 (309)
30 PF14835 zf-RING_6: zf-RING of 98.5 2.4E-08 5.1E-13 61.6 0.8 52 103-159 8-59 (65)
31 PF04564 U-box: U-box domain; 98.5 4.5E-08 9.7E-13 62.7 1.8 52 102-157 4-56 (73)
32 KOG1493 Anaphase-promoting com 98.5 2.4E-08 5.2E-13 63.3 -0.4 49 103-151 21-81 (84)
33 KOG2177 Predicted E3 ubiquitin 98.3 2.6E-07 5.7E-12 72.3 1.5 45 100-148 11-55 (386)
34 PF11793 FANCL_C: FANCL C-term 98.3 1.7E-07 3.7E-12 59.6 -0.0 49 103-151 3-66 (70)
35 KOG0828 Predicted E3 ubiquitin 98.3 2.8E-07 6E-12 77.1 1.0 52 101-152 570-635 (636)
36 KOG0804 Cytoplasmic Zn-finger 98.2 4.1E-07 8.8E-12 75.3 1.9 50 100-151 173-222 (493)
37 COG5219 Uncharacterized conser 98.2 4.5E-07 9.9E-12 80.9 1.0 52 100-151 1467-1523(1525)
38 KOG1734 Predicted RING-contain 98.2 5.3E-07 1.1E-11 70.3 1.2 53 101-154 223-284 (328)
39 KOG0978 E3 ubiquitin ligase in 98.2 4.5E-07 9.7E-12 79.3 0.7 55 101-159 642-697 (698)
40 smart00744 RINGv The RING-vari 98.1 1.4E-06 2.9E-11 51.5 2.1 42 104-147 1-49 (49)
41 KOG0311 Predicted E3 ubiquitin 98.1 1.9E-07 4.1E-12 75.2 -2.2 50 101-153 42-92 (381)
42 KOG0827 Predicted E3 ubiquitin 98.1 1E-06 2.2E-11 71.8 1.6 48 103-150 5-55 (465)
43 KOG2930 SCF ubiquitin ligase, 98.1 1.5E-06 3.2E-11 58.4 1.8 49 102-150 46-107 (114)
44 KOG0824 Predicted E3 ubiquitin 98.0 3.1E-06 6.7E-11 67.0 1.8 51 103-158 8-59 (324)
45 KOG2660 Locus-specific chromos 97.8 3.3E-06 7.2E-11 67.6 -0.4 51 100-153 13-63 (331)
46 KOG4172 Predicted E3 ubiquitin 97.8 4E-06 8.6E-11 49.9 -0.2 45 103-151 8-54 (62)
47 KOG1039 Predicted E3 ubiquitin 97.8 9.2E-06 2E-10 66.3 1.7 51 100-150 159-220 (344)
48 KOG4265 Predicted E3 ubiquitin 97.7 1.8E-05 4E-10 64.0 2.6 48 100-151 288-336 (349)
49 KOG1645 RING-finger-containing 97.7 1.6E-05 3.5E-10 65.3 2.0 50 101-150 3-55 (463)
50 KOG2879 Predicted E3 ubiquitin 97.6 0.0001 2.3E-09 57.8 5.2 51 98-151 235-287 (298)
51 KOG0825 PHD Zn-finger protein 97.6 1.2E-05 2.7E-10 70.7 -0.5 52 102-154 123-174 (1134)
52 PF11789 zf-Nse: Zinc-finger o 97.5 4.3E-05 9.3E-10 46.5 1.6 41 102-145 11-53 (57)
53 KOG0297 TNF receptor-associate 97.5 4.8E-05 1E-09 63.4 2.4 50 100-152 19-68 (391)
54 KOG4159 Predicted E3 ubiquitin 97.5 4.8E-05 1E-09 63.3 2.1 49 100-152 82-130 (398)
55 COG5152 Uncharacterized conser 97.5 6.1E-05 1.3E-09 56.6 1.9 45 102-150 196-240 (259)
56 KOG1785 Tyrosine kinase negati 97.5 4.5E-05 9.8E-10 62.8 1.3 47 104-154 371-419 (563)
57 KOG4445 Uncharacterized conser 97.1 0.00011 2.5E-09 58.3 0.3 49 102-151 115-186 (368)
58 KOG1941 Acetylcholine receptor 97.0 0.00016 3.5E-09 59.4 0.2 49 100-148 363-413 (518)
59 KOG1813 Predicted E3 ubiquitin 96.9 0.00034 7.3E-09 55.5 1.1 45 102-150 241-285 (313)
60 PF14570 zf-RING_4: RING/Ubox 96.9 0.00079 1.7E-08 39.4 2.2 45 105-150 1-47 (48)
61 KOG3039 Uncharacterized conser 96.9 0.00097 2.1E-08 51.8 3.1 55 101-155 220-274 (303)
62 KOG4692 Predicted E3 ubiquitin 96.8 0.0014 3.1E-08 53.4 3.9 48 100-151 420-467 (489)
63 KOG3970 Predicted E3 ubiquitin 96.8 0.00092 2E-08 51.3 2.5 52 100-153 48-107 (299)
64 PF10367 Vps39_2: Vacuolar sor 96.7 0.0021 4.6E-08 43.4 3.7 33 100-134 76-108 (109)
65 KOG1002 Nucleotide excision re 96.6 0.0048 1E-07 52.8 6.0 49 99-151 533-586 (791)
66 PF08746 zf-RING-like: RING-li 96.4 0.0019 4.1E-08 37.0 1.6 41 105-146 1-43 (43)
67 PF04641 Rtf2: Rtf2 RING-finge 96.3 0.0042 9E-08 49.1 3.6 55 100-155 111-165 (260)
68 KOG1428 Inhibitor of type V ad 96.1 0.0037 8.1E-08 59.1 2.6 50 100-150 3484-3543(3738)
69 COG5175 MOT2 Transcriptional r 96.1 0.0033 7.2E-08 51.0 2.0 59 101-159 13-72 (480)
70 COG5222 Uncharacterized conser 96.1 0.0064 1.4E-07 48.6 3.4 43 103-148 275-318 (427)
71 PF05883 Baculo_RING: Baculovi 96.0 0.0025 5.4E-08 45.2 0.9 35 102-137 26-66 (134)
72 KOG4185 Predicted E3 ubiquitin 96.0 0.0041 8.8E-08 49.8 2.1 48 103-150 4-54 (296)
73 KOG1814 Predicted E3 ubiquitin 95.9 0.003 6.5E-08 52.4 1.0 46 102-148 184-237 (445)
74 PHA02825 LAP/PHD finger-like p 95.9 0.0096 2.1E-07 43.4 3.4 47 100-151 6-59 (162)
75 KOG1952 Transcription factor N 95.9 0.0045 9.8E-08 55.4 2.0 51 100-150 189-246 (950)
76 KOG0826 Predicted E3 ubiquitin 95.8 0.013 2.8E-07 47.3 4.3 47 101-150 299-345 (357)
77 KOG3800 Predicted E3 ubiquitin 95.8 0.0069 1.5E-07 48.1 2.5 57 104-160 2-60 (300)
78 PHA03096 p28-like protein; Pro 95.8 0.0045 9.7E-08 49.5 1.3 45 103-147 179-230 (284)
79 KOG1571 Predicted E3 ubiquitin 95.7 0.0064 1.4E-07 49.6 2.1 45 100-151 303-347 (355)
80 KOG4739 Uncharacterized protei 95.7 0.0043 9.3E-08 48.0 1.0 47 104-154 5-51 (233)
81 COG5236 Uncharacterized conser 95.7 0.0078 1.7E-07 49.1 2.4 48 99-150 58-107 (493)
82 PHA02862 5L protein; Provision 95.7 0.0081 1.8E-07 43.1 2.2 44 103-151 3-53 (156)
83 PF14447 Prok-RING_4: Prokaryo 95.7 0.0061 1.3E-07 36.5 1.4 32 121-154 22-53 (55)
84 KOG3268 Predicted E3 ubiquitin 95.6 0.0058 1.3E-07 45.3 1.4 29 123-151 189-228 (234)
85 KOG1940 Zn-finger protein [Gen 95.4 0.0037 8.1E-08 49.6 -0.2 47 102-148 158-204 (276)
86 PF12906 RINGv: RING-variant d 94.9 0.012 2.6E-07 34.2 0.9 40 105-146 1-47 (47)
87 PF05290 Baculo_IE-1: Baculovi 94.8 0.016 3.5E-07 41.0 1.7 53 102-154 80-135 (140)
88 KOG4275 Predicted E3 ubiquitin 94.7 0.0072 1.6E-07 48.1 -0.3 42 102-151 300-342 (350)
89 PF03854 zf-P11: P-11 zinc fin 94.7 0.018 3.8E-07 33.4 1.3 45 104-155 4-49 (50)
90 KOG1001 Helicase-like transcri 94.7 0.0093 2E-07 53.1 0.2 48 103-155 455-504 (674)
91 KOG2034 Vacuolar sorting prote 94.6 0.02 4.4E-07 51.6 2.0 51 85-137 800-850 (911)
92 PF10272 Tmpp129: Putative tra 94.5 0.016 3.5E-07 47.8 1.2 33 124-156 311-356 (358)
93 KOG2114 Vacuolar assembly/sort 94.4 0.018 3.9E-07 51.7 1.2 41 103-149 841-881 (933)
94 KOG0298 DEAD box-containing he 93.6 0.033 7.2E-07 52.2 1.5 47 101-150 1152-1198(1394)
95 KOG3899 Uncharacterized conser 93.4 0.03 6.6E-07 44.7 0.7 35 124-158 325-372 (381)
96 COG5220 TFB3 Cdk activating ki 93.0 0.031 6.7E-07 43.5 0.2 53 102-154 10-67 (314)
97 KOG3002 Zn finger protein [Gen 92.8 0.063 1.4E-06 43.3 1.8 43 101-151 47-91 (299)
98 PF14446 Prok-RING_1: Prokaryo 92.7 0.15 3.3E-06 30.5 2.8 34 102-135 5-38 (54)
99 KOG0801 Predicted E3 ubiquitin 92.1 0.047 1E-06 40.0 0.2 29 101-130 176-204 (205)
100 KOG0827 Predicted E3 ubiquitin 91.8 0.013 2.8E-07 48.5 -3.3 49 102-151 196-245 (465)
101 KOG2817 Predicted E3 ubiquitin 91.5 0.16 3.4E-06 42.2 2.6 49 101-150 333-384 (394)
102 KOG4718 Non-SMC (structural ma 91.4 0.087 1.9E-06 40.2 1.0 46 102-150 181-226 (235)
103 KOG2932 E3 ubiquitin ligase in 91.0 0.11 2.3E-06 42.0 1.2 42 104-150 92-133 (389)
104 PF07800 DUF1644: Protein of u 89.5 0.28 6.1E-06 35.8 2.2 35 102-137 2-46 (162)
105 KOG0309 Conserved WD40 repeat- 89.4 0.2 4.4E-06 44.9 1.6 24 122-145 1046-1069(1081)
106 KOG3161 Predicted E3 ubiquitin 89.3 0.11 2.3E-06 45.8 -0.1 40 103-144 12-51 (861)
107 KOG1100 Predicted E3 ubiquitin 88.8 0.2 4.3E-06 38.3 1.1 38 105-150 161-199 (207)
108 KOG0825 PHD Zn-finger protein 88.7 0.29 6.3E-06 44.2 2.1 49 102-150 96-153 (1134)
109 PF06906 DUF1272: Protein of u 88.5 0.68 1.5E-05 27.8 3.0 48 103-154 6-55 (57)
110 KOG4362 Transcriptional regula 87.5 0.15 3.3E-06 45.2 -0.3 47 102-152 21-70 (684)
111 KOG1812 Predicted E3 ubiquitin 87.3 0.22 4.8E-06 41.6 0.5 38 101-139 145-183 (384)
112 KOG4367 Predicted Zn-finger pr 86.3 0.38 8.2E-06 40.7 1.4 36 100-139 2-37 (699)
113 COG5183 SSM4 Protein involved 86.1 0.59 1.3E-05 42.4 2.5 55 100-156 10-71 (1175)
114 KOG3053 Uncharacterized conser 84.6 0.39 8.4E-06 37.8 0.7 51 100-150 18-81 (293)
115 KOG1609 Protein involved in mR 83.8 0.74 1.6E-05 36.8 2.0 50 102-151 78-134 (323)
116 PF07975 C1_4: TFIIH C1-like d 83.7 1 2.2E-05 26.7 2.0 43 105-147 2-50 (51)
117 KOG1815 Predicted E3 ubiquitin 80.9 0.9 1.9E-05 38.7 1.6 51 100-153 68-128 (444)
118 PF02891 zf-MIZ: MIZ/SP-RING z 80.4 0.44 9.6E-06 28.0 -0.3 43 103-149 3-50 (50)
119 KOG1829 Uncharacterized conser 80.1 0.55 1.2E-05 41.2 0.0 42 102-147 511-557 (580)
120 KOG1812 Predicted E3 ubiquitin 80.0 0.91 2E-05 38.0 1.3 44 102-146 306-351 (384)
121 KOG3579 Predicted E3 ubiquitin 79.9 0.98 2.1E-05 36.2 1.3 37 100-140 266-306 (352)
122 KOG3113 Uncharacterized conser 79.1 1.9 4.1E-05 34.0 2.7 53 101-155 110-162 (293)
123 TIGR00622 ssl1 transcription f 77.7 2.8 6E-05 29.0 2.9 45 103-147 56-110 (112)
124 KOG3039 Uncharacterized conser 76.1 1.9 4E-05 34.0 1.8 32 103-138 44-75 (303)
125 PF13901 DUF4206: Domain of un 75.9 1.7 3.8E-05 33.0 1.6 42 101-148 151-197 (202)
126 PF06844 DUF1244: Protein of u 75.0 1.5 3.3E-05 27.3 0.9 13 127-139 11-23 (68)
127 KOG2068 MOT2 transcription fac 74.9 2.8 6.1E-05 34.2 2.7 49 103-152 250-299 (327)
128 PF01363 FYVE: FYVE zinc finge 74.9 1.3 2.8E-05 27.3 0.6 37 101-137 8-44 (69)
129 KOG2066 Vacuolar assembly/sort 73.2 1.3 2.7E-05 40.1 0.3 43 104-147 786-831 (846)
130 KOG0269 WD40 repeat-containing 71.8 3.3 7.1E-05 37.4 2.5 41 103-145 780-820 (839)
131 PF14569 zf-UDP: Zinc-binding 69.4 4.7 0.0001 25.9 2.2 49 102-150 9-61 (80)
132 smart00064 FYVE Protein presen 67.8 5.1 0.00011 24.5 2.2 37 102-138 10-46 (68)
133 PF10571 UPF0547: Uncharacteri 67.4 3.1 6.7E-05 21.0 0.9 8 105-112 3-10 (26)
134 PF07191 zinc-ribbons_6: zinc- 66.5 0.88 1.9E-05 28.7 -1.5 39 103-150 2-40 (70)
135 cd00065 FYVE FYVE domain; Zinc 66.5 4.8 0.0001 23.6 1.8 36 103-138 3-38 (57)
136 KOG0824 Predicted E3 ubiquitin 65.8 2.1 4.6E-05 34.5 0.1 47 101-150 104-150 (324)
137 COG5109 Uncharacterized conser 64.5 4.9 0.00011 32.8 1.9 47 101-148 335-384 (396)
138 PF00628 PHD: PHD-finger; Int 63.6 4.4 9.5E-05 23.2 1.2 43 104-147 1-49 (51)
139 PF10497 zf-4CXXC_R1: Zinc-fin 62.8 7 0.00015 26.6 2.2 48 101-148 6-69 (105)
140 smart00249 PHD PHD zinc finger 62.5 5.6 0.00012 21.7 1.5 30 105-135 2-31 (47)
141 KOG3799 Rab3 effector RIM1 and 60.7 60 0.0013 23.3 7.2 21 100-127 63-83 (169)
142 KOG2807 RNA polymerase II tran 58.8 7.5 0.00016 31.9 2.1 46 102-148 330-375 (378)
143 PF04216 FdhE: Protein involve 56.0 1.9 4E-05 34.5 -1.8 48 102-149 172-220 (290)
144 KOG3842 Adaptor protein Pellin 55.6 13 0.00027 30.5 2.9 51 102-152 341-415 (429)
145 PF04423 Rad50_zn_hook: Rad50 53.9 4.8 0.0001 23.7 0.2 13 140-152 20-32 (54)
146 KOG0802 E3 ubiquitin ligase [P 53.8 5.3 0.00012 34.9 0.6 43 102-152 479-521 (543)
147 KOG2041 WD40 repeat protein [G 53.4 16 0.00034 33.4 3.3 46 101-150 1130-1184(1189)
148 PF13719 zinc_ribbon_5: zinc-r 52.0 9.2 0.0002 20.7 1.2 13 104-116 4-16 (37)
149 COG3492 Uncharacterized protei 51.6 6 0.00013 26.3 0.4 13 127-139 42-54 (104)
150 PF04710 Pellino: Pellino; In 50.9 5.1 0.00011 33.6 0.0 50 102-152 328-402 (416)
151 PF02318 FYVE_2: FYVE-type zin 50.8 9 0.0002 26.4 1.2 46 102-148 54-102 (118)
152 PF10235 Cript: Microtubule-as 50.8 9.9 0.00021 25.2 1.3 40 102-154 44-83 (90)
153 PLN02189 cellulose synthase 47.9 16 0.00034 34.5 2.6 50 102-151 34-87 (1040)
154 PF00412 LIM: LIM domain; Int 46.6 19 0.00041 20.8 2.1 40 105-154 1-40 (58)
155 COG3813 Uncharacterized protei 46.5 20 0.00044 22.8 2.2 50 104-155 7-56 (84)
156 PF13832 zf-HC5HC2H_2: PHD-zin 46.4 13 0.00029 24.9 1.5 33 102-135 55-87 (110)
157 PLN02638 cellulose synthase A 45.9 17 0.00037 34.4 2.5 49 103-151 18-70 (1079)
158 TIGR01562 FdhE formate dehydro 44.4 5.7 0.00012 32.3 -0.7 47 102-148 184-232 (305)
159 PF14311 DUF4379: Domain of un 43.8 13 0.00028 21.8 1.0 23 123-146 33-55 (55)
160 smart00647 IBR In Between Ring 43.3 8.2 0.00018 22.9 0.1 16 121-136 43-58 (64)
161 KOG4185 Predicted E3 ubiquitin 43.2 3.7 8E-05 32.7 -1.9 47 103-149 208-265 (296)
162 PLN02436 cellulose synthase A 42.6 21 0.00046 33.9 2.6 49 103-151 37-89 (1094)
163 PLN02195 cellulose synthase A 42.3 27 0.00058 32.9 3.2 49 103-151 7-59 (977)
164 PLN02400 cellulose synthase 41.8 19 0.00042 34.1 2.2 49 103-151 37-89 (1085)
165 PRK03564 formate dehydrogenase 41.6 13 0.00028 30.3 1.0 48 101-148 186-234 (309)
166 PF08621 RPAP1_N: RPAP1-like, 41.5 22 0.00047 20.8 1.7 20 1-20 12-31 (49)
167 PF07649 C1_3: C1-like domain; 41.3 23 0.00051 17.9 1.6 29 104-133 2-30 (30)
168 KOG2231 Predicted E3 ubiquitin 41.2 19 0.0004 32.5 2.0 43 104-150 2-51 (669)
169 PF09297 zf-NADH-PPase: NADH p 40.7 5.7 0.00012 20.7 -0.8 23 126-148 3-29 (32)
170 PRK11088 rrmA 23S rRNA methylt 39.9 20 0.00043 28.1 1.8 25 103-128 3-27 (272)
171 PF13771 zf-HC5HC2H: PHD-like 39.6 19 0.00041 23.1 1.4 33 102-135 36-68 (90)
172 PLN02248 cellulose synthase-li 37.9 24 0.00051 33.7 2.2 32 123-154 149-180 (1135)
173 PF13717 zinc_ribbon_4: zinc-r 37.8 29 0.00063 18.6 1.7 13 104-116 4-16 (36)
174 KOG2979 Protein involved in DN 37.0 20 0.00043 28.4 1.4 41 102-145 176-218 (262)
175 PF14353 CpXC: CpXC protein 36.8 26 0.00057 24.2 1.8 44 103-150 2-48 (128)
176 cd00350 rubredoxin_like Rubred 36.7 19 0.00041 18.9 0.8 9 140-148 17-25 (33)
177 KOG3005 GIY-YIG type nuclease 36.3 20 0.00043 28.6 1.2 48 103-150 183-242 (276)
178 KOG1074 Transcriptional repres 34.6 18 0.00039 33.3 0.9 24 139-162 664-690 (958)
179 COG2816 NPY1 NTP pyrophosphohy 34.5 11 0.00025 30.1 -0.4 28 125-152 110-141 (279)
180 PF09889 DUF2116: Uncharacteri 34.4 19 0.0004 21.9 0.6 15 140-154 3-17 (59)
181 PF14169 YdjO: Cold-inducible 32.7 23 0.0005 21.5 0.9 12 140-151 39-50 (59)
182 PRK01343 zinc-binding protein; 31.5 30 0.00064 20.9 1.2 9 142-150 11-19 (57)
183 PF09723 Zn-ribbon_8: Zinc rib 31.5 11 0.00024 21.0 -0.7 25 123-148 10-34 (42)
184 PF09237 GAGA: GAGA factor; I 31.2 18 0.00039 21.5 0.2 10 142-151 26-35 (54)
185 PLN02915 cellulose synthase A 30.5 44 0.00096 31.7 2.7 50 102-151 15-68 (1044)
186 KOG2113 Predicted RNA binding 29.3 38 0.00082 27.8 1.8 43 102-150 343-386 (394)
187 COG0068 HypF Hydrogenase matur 29.3 30 0.00064 31.5 1.3 50 101-150 100-183 (750)
188 COG5627 MMS21 DNA repair prote 29.2 29 0.00063 27.2 1.1 41 102-145 189-231 (275)
189 KOG1819 FYVE finger-containing 27.9 22 0.00047 31.1 0.2 38 97-134 896-933 (990)
190 KOG3726 Uncharacterized conser 27.8 28 0.00062 31.3 0.9 42 103-147 655-696 (717)
191 PTZ00303 phosphatidylinositol 27.6 38 0.00083 31.4 1.7 32 103-137 461-500 (1374)
192 PF12773 DZR: Double zinc ribb 27.0 50 0.0011 18.6 1.6 11 140-150 29-39 (50)
193 smart00734 ZnF_Rad18 Rad18-lik 26.9 27 0.00058 17.4 0.4 9 142-150 3-11 (26)
194 COG5151 SSL1 RNA polymerase II 26.7 54 0.0012 26.9 2.2 48 101-148 361-418 (421)
195 KOG2789 Putative Zn-finger pro 26.3 29 0.00063 29.3 0.7 33 102-136 74-106 (482)
196 KOG4218 Nuclear hormone recept 26.0 24 0.00052 29.3 0.1 14 100-113 13-26 (475)
197 PF10083 DUF2321: Uncharacteri 25.6 28 0.00061 25.5 0.4 25 125-152 27-51 (158)
198 KOG1818 Membrane trafficking a 25.0 1E+02 0.0022 27.8 3.8 46 101-146 164-217 (634)
199 PF13453 zf-TFIIB: Transcripti 24.8 20 0.00043 19.7 -0.4 12 143-154 2-13 (41)
200 KOG4323 Polycomb-like PHD Zn-f 23.9 43 0.00093 28.9 1.3 47 102-148 168-223 (464)
201 COG4847 Uncharacterized protei 22.9 88 0.0019 21.0 2.3 36 102-139 6-41 (103)
202 PF03107 C1_2: C1 domain; Int 22.9 61 0.0013 16.4 1.3 28 104-132 2-29 (30)
203 KOG1729 FYVE finger containing 22.7 26 0.00055 28.3 -0.3 59 92-150 158-224 (288)
204 PRK00418 DNA gyrase inhibitor; 22.5 36 0.00078 20.9 0.4 11 141-151 7-17 (62)
205 PRK11595 DNA utilization prote 22.2 70 0.0015 24.5 2.1 9 104-112 7-15 (227)
206 KOG2071 mRNA cleavage and poly 22.2 47 0.001 29.4 1.2 36 100-136 511-556 (579)
207 PF03884 DUF329: Domain of unk 22.2 31 0.00068 20.8 0.1 12 141-152 3-14 (57)
208 COG4647 AcxC Acetone carboxyla 22.1 53 0.0011 23.4 1.2 25 107-136 62-86 (165)
209 PF09943 DUF2175: Uncharacteri 21.7 81 0.0017 21.4 2.0 34 103-138 3-36 (101)
210 smart00132 LIM Zinc-binding do 21.7 58 0.0013 16.6 1.2 36 105-150 2-37 (39)
211 COG1592 Rubrerythrin [Energy p 21.2 29 0.00063 25.7 -0.2 9 141-149 150-158 (166)
212 PF01485 IBR: IBR domain; Int 20.9 13 0.00028 22.0 -1.9 33 104-136 20-58 (64)
213 PF03119 DNA_ligase_ZBD: NAD-d 20.6 41 0.0009 17.0 0.4 10 142-151 1-10 (28)
214 COG3058 FdhE Uncharacterized p 20.5 49 0.0011 26.7 0.9 47 102-148 185-233 (308)
215 COG1545 Predicted nucleic-acid 20.3 47 0.001 23.7 0.7 20 123-150 34-53 (140)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.51 E-value=4e-15 Score=86.43 Aligned_cols=43 Identities=49% Similarity=1.123 Sum_probs=38.8
Q ss_pred cccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccc
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCR 147 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr 147 (162)
+|+||++.+..+..+..+ +|||.||..||..|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l-~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKL-PCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEE-TTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEc-cCCCeeCHHHHHHHHHhCCcCCccC
Confidence 599999999887788777 7999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.40 E-value=1e-13 Score=111.76 Aligned_cols=48 Identities=35% Similarity=0.887 Sum_probs=43.8
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcCC-ccccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKIN-NTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~-~~CP~Cr~~~~ 151 (162)
..|+||+++|..++.++.| ||+|.||..||.+||... ..||+|+..+.
T Consensus 230 ~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpWL~~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPWLTQTRTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccccCCeeeEe-cCCCchhhccchhhHhhcCccCCCCCCcCC
Confidence 3899999999999999887 999999999999999986 45999999874
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.31 E-value=1.5e-12 Score=83.59 Aligned_cols=45 Identities=47% Similarity=0.961 Sum_probs=35.7
Q ss_pred ccccccccccccc---------cceeEecCCCCccCHhhHHHHhcCCccccccc
Q 046932 103 IVCGVCQEEMEKE---------HEARAIMECMHMFHDSCILKWLKINNTCPLCR 147 (162)
Q Consensus 103 ~~C~IC~~~~~~~---------~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr 147 (162)
..|+||++.+..+ ...+.+.+|||.||..||.+||..+.+||+||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 4599999999422 23334558999999999999999999999997
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.30 E-value=1.6e-12 Score=100.54 Aligned_cols=51 Identities=31% Similarity=0.696 Sum_probs=42.3
Q ss_pred CCcccccccccccccc----ceeEecCCCCccCHhhHHHHhcCCccccccccccc
Q 046932 101 DGIVCGVCQEEMEKEH----EARAIMECMHMFHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~----~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
.+.+|+||++.+..+. ....+++|+|.||..||.+|+..+.+||+||.++.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 4578999999986543 13355689999999999999999999999998773
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=3.7e-12 Score=100.14 Aligned_cols=52 Identities=37% Similarity=0.929 Sum_probs=46.2
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcC-Ccccccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATCKP 152 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~~~ 152 (162)
..+-+|+||++.|.+++.++++ ||.|.||..|+.+|+.. +..||+||.+++|
T Consensus 321 ~~GveCaICms~fiK~d~~~vl-PC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVL-PCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEe-ccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 4467899999999988888766 99999999999999985 7789999999965
No 6
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=1.4e-11 Score=96.41 Aligned_cols=53 Identities=36% Similarity=0.792 Sum_probs=46.3
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCCC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKLH 156 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 156 (162)
+....|.+|++....+..+ ||||.||.+||..|...+..||.||..+.|.++.
T Consensus 237 ~a~~kC~LCLe~~~~pSaT----pCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSAT----PCGHIFCWSCILEWCSEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCceEEEecCCCCCCcC----cCcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence 3457899999998766444 9999999999999999999999999999888864
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.14 E-value=2.5e-11 Score=90.68 Aligned_cols=53 Identities=25% Similarity=0.700 Sum_probs=41.9
Q ss_pred CCCCccccccccccccccceeEecCCCCccCHhhHHHHhcC----------------CccccccccccccCCC
Q 046932 99 GEDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI----------------NNTCPLCRATCKPKKL 155 (162)
Q Consensus 99 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~----------------~~~CP~Cr~~~~~~~~ 155 (162)
..+..+|+||++.+..+ ++++|||.||..||..|+.. ...||+||..+...++
T Consensus 15 ~~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 15 SGGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred CCCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 34568899999998755 23489999999999999842 3479999999966554
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=3.2e-11 Score=91.80 Aligned_cols=52 Identities=23% Similarity=0.698 Sum_probs=42.6
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcC---CccccccccccccCCC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI---NNTCPLCRATCKPKKL 155 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~---~~~CP~Cr~~~~~~~~ 155 (162)
...++|.||++.-+.+ +++.|||.||..||.+||.. ++.||+|+..|..+.+
T Consensus 45 ~~~FdCNICLd~akdP----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~v 99 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDP----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTV 99 (230)
T ss_pred CCceeeeeeccccCCC----EEeecccceehHHHHHHHhhcCCCeeCCccccccccceE
Confidence 4568999999998755 33479999999999999976 4679999998866654
No 9
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.07 E-value=5.1e-11 Score=87.29 Aligned_cols=54 Identities=30% Similarity=0.669 Sum_probs=44.9
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCCC
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKLH 156 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 156 (162)
....|+||++.+..... +-+.|||.||..||...++....||+|++.|..++++
T Consensus 130 ~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~~ 183 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQFH 183 (187)
T ss_pred cccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchhhhe
Confidence 35789999999984433 3359999999999999999999999999988766643
No 10
>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=99.05 E-value=7.2e-11 Score=70.23 Aligned_cols=45 Identities=29% Similarity=0.736 Sum_probs=36.8
Q ss_pred ccccccccccccccceeEecCCCCc-cCHhhHHHHhcCCccccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHM-FHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~-f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
..|.||++.... +.. .||||. ||..|+..|+.....||+||.++.
T Consensus 3 ~~C~iC~~~~~~---~~~-~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 3 EECPICFENPRD---VVL-LPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp SB-TTTSSSBSS---EEE-ETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CCCccCCccCCc---eEE-eCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 579999998643 333 499999 999999999999999999999884
No 11
>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=99.04 E-value=8.1e-11 Score=66.44 Aligned_cols=39 Identities=36% Similarity=0.957 Sum_probs=31.7
Q ss_pred ccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccc
Q 046932 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLC 146 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~C 146 (162)
|+||++.+..+ + .+++|||.||.+|+.+|++.+..||+|
T Consensus 1 C~iC~~~~~~~--~-~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--V-VVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--E-EECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCc--C-EECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999998753 2 334999999999999999999999988
No 12
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.03 E-value=1.9e-10 Score=75.04 Aligned_cols=50 Identities=38% Similarity=0.857 Sum_probs=38.9
Q ss_pred Cccccccccccccc--------c-ceeEecCCCCccCHhhHHHHhcC---Cccccccccccc
Q 046932 102 GIVCGVCQEEMEKE--------H-EARAIMECMHMFHDSCILKWLKI---NNTCPLCRATCK 151 (162)
Q Consensus 102 ~~~C~IC~~~~~~~--------~-~~~~l~~C~H~f~~~Ci~~wl~~---~~~CP~Cr~~~~ 151 (162)
+..|.||+..|... . ...++..|+|.||..||.+|+.. +..||+||.++.
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 56799999998621 1 12234589999999999999986 468999999874
No 13
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.03 E-value=1.8e-10 Score=65.90 Aligned_cols=44 Identities=50% Similarity=1.066 Sum_probs=35.6
Q ss_pred cccccccccccccceeEecCCCCccCHhhHHHHhcC-Ccccccccccc
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATC 150 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~ 150 (162)
.|+||++.+. ....+++|||.||..|+..|+.. ...||.|+..+
T Consensus 1 ~C~iC~~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR---EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh---CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 4999999983 22334479999999999999987 77899998754
No 14
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.01 E-value=1.6e-10 Score=66.26 Aligned_cols=38 Identities=29% Similarity=0.710 Sum_probs=29.1
Q ss_pred ccccccccccccceeEecCCCCccCHhhHHHHhcCC----cccccc
Q 046932 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKIN----NTCPLC 146 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~----~~CP~C 146 (162)
|+||++.|..|..+ +|||+||..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~Pv~l----~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSL----PCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-----SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCcccc----CCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999877544 999999999999999763 369987
No 15
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=1.7e-10 Score=93.13 Aligned_cols=50 Identities=30% Similarity=0.905 Sum_probs=40.3
Q ss_pred CCCccccccccc-ccccc---------ceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 100 EDGIVCGVCQEE-MEKEH---------EARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 100 ~~~~~C~IC~~~-~~~~~---------~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
.++..|.||+++ +..+. ....+ ||||.+|-+|+..|+.++.+||+||.++
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrL-pCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRL-PCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccc-cccceeeHHHHHHHHHhccCCCcccCcc
Confidence 456789999999 44441 11233 9999999999999999999999999984
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=98.96 E-value=3e-10 Score=86.12 Aligned_cols=51 Identities=27% Similarity=0.712 Sum_probs=39.1
Q ss_pred CCCccccccccccccc-----cceeEecCCCCccCHhhHHHHhcCC------cccccccccc
Q 046932 100 EDGIVCGVCQEEMEKE-----HEARAIMECMHMFHDSCILKWLKIN------NTCPLCRATC 150 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~-----~~~~~l~~C~H~f~~~Ci~~wl~~~------~~CP~Cr~~~ 150 (162)
+.+.+|+||++..-.+ .....+.+|+|.||..||..|...+ ++||+||..+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 3457899999986332 2234567999999999999999752 4699999866
No 17
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.94 E-value=5e-10 Score=69.43 Aligned_cols=51 Identities=22% Similarity=0.362 Sum_probs=42.9
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCCCc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKLHF 157 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 157 (162)
..|+||.+.+..+ ++.+|||.|++.||.+|+..+..||.|+.++...++..
T Consensus 2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~l~~ 52 (63)
T smart00504 2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHEDLIP 52 (63)
T ss_pred cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhhcee
Confidence 4699999999876 23399999999999999998889999999886665543
No 18
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.90 E-value=8.3e-10 Score=62.77 Aligned_cols=39 Identities=38% Similarity=0.987 Sum_probs=33.1
Q ss_pred ccccccccccccceeEecCCCCccCHhhHHHHhc--CCcccccc
Q 046932 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLK--INNTCPLC 146 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~--~~~~CP~C 146 (162)
|+||++.+..+. .+++|||.||..|+..|+. ....||.|
T Consensus 1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC---EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987664 3449999999999999998 46789987
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.89 E-value=1.2e-09 Score=63.18 Aligned_cols=44 Identities=30% Similarity=0.790 Sum_probs=35.5
Q ss_pred cccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccc
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
.|+||++.+..... ..+++|||.||..|+..+......||+||.
T Consensus 1 ~C~~C~~~~~~~~~-~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERR-PRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCC-eEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 49999999933333 455699999999999998856778999984
No 20
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.88 E-value=4.1e-10 Score=89.97 Aligned_cols=56 Identities=34% Similarity=0.677 Sum_probs=48.4
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCCCcccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKLHFQEI 160 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~~~ 160 (162)
.-+.|.||.+.|..+ +++||+|+||..||..+|..+..||.|+.++...+++-+.|
T Consensus 22 ~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~Lr~n~i 77 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTESDLRNNRI 77 (442)
T ss_pred HHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhccCCCCCceecccchhhhhhhhH
Confidence 447899999999766 44599999999999999999999999999998888776554
No 21
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.85 E-value=1.6e-09 Score=89.60 Aligned_cols=53 Identities=30% Similarity=0.720 Sum_probs=44.4
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCCC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKLH 156 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 156 (162)
+....|+||++.|..+. +++|||.||..||..|+.....||.|+..+...++.
T Consensus 24 e~~l~C~IC~d~~~~Pv----itpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~~Lr 76 (397)
T TIGR00599 24 DTSLRCHICKDFFDVPV----LTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQESKLR 76 (397)
T ss_pred ccccCCCcCchhhhCcc----CCCCCCchhHHHHHHHHhCCCCCCCCCCccccccCc
Confidence 45678999999997663 349999999999999999888899999988665554
No 22
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=3.1e-09 Score=91.73 Aligned_cols=51 Identities=35% Similarity=0.907 Sum_probs=42.0
Q ss_pred CCccccccccccccccc--eeEecCCCCccCHhhHHHHhcCCcccccccccccc
Q 046932 101 DGIVCGVCQEEMEKEHE--ARAIMECMHMFHDSCILKWLKINNTCPLCRATCKP 152 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~--~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~ 152 (162)
....|+||++.+..+.. ...+ +|+|.||..|+..|+++..+||.||..+..
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL-~C~Hifh~~CL~~W~er~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRL-PCGHIFHDSCLRSWFERQQTCPTCRTVLYD 342 (543)
T ss_pred cCCeeeeechhhcccccccccee-ecccchHHHHHHHHHHHhCcCCcchhhhhc
Confidence 35789999999987533 3333 999999999999999999999999985533
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.72 E-value=6.3e-09 Score=66.49 Aligned_cols=49 Identities=35% Similarity=0.752 Sum_probs=37.5
Q ss_pred ccccccccccc-----------ccc-ceeEecCCCCccCHhhHHHHhcCCccccccccccc
Q 046932 103 IVCGVCQEEME-----------KEH-EARAIMECMHMFHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~-----------~~~-~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
..|+||...+. .+. .......|.|.||..||.+||..+..||++|.++.
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 35777766653 222 33344579999999999999999999999998874
No 24
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=7.5e-09 Score=86.69 Aligned_cols=55 Identities=31% Similarity=0.628 Sum_probs=44.3
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC-----CccccccccccccCCCCcccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-----NNTCPLCRATCKPKKLHFQEI 160 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-----~~~CP~Cr~~~~~~~~~~~~~ 160 (162)
+..|+||++....+. ++.|||.||..||..+|.. ...||+|+..|..+++....+
T Consensus 186 ~~~CPICL~~~~~p~----~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~ 245 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPV----RTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFI 245 (513)
T ss_pred CCcCCcccCCCCccc----ccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeee
Confidence 578999999976553 3479999999999987764 357999999998888765544
No 25
>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=98.65 E-value=1.5e-08 Score=55.81 Aligned_cols=38 Identities=53% Similarity=1.181 Sum_probs=30.2
Q ss_pred ccccccccccccceeEecCCCCccCHhhHHHHhc-CCcccccc
Q 046932 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLK-INNTCPLC 146 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~-~~~~CP~C 146 (162)
|+||++.. .....+ +|||.||..|+..|+. ....||.|
T Consensus 1 C~iC~~~~---~~~~~~-~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVL-PCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEe-cCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78998883 233333 8999999999999998 56779987
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.64 E-value=2e-08 Score=57.77 Aligned_cols=34 Identities=29% Similarity=0.755 Sum_probs=21.6
Q ss_pred ccccccccccccceeEecCCCCccCHhhHHHHhcC
Q 046932 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI 139 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~ 139 (162)
|+||.+ |........+++|||+||.+|+.+++..
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 899999 8765555555589999999999999874
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=1.4e-08 Score=78.84 Aligned_cols=51 Identities=43% Similarity=0.811 Sum_probs=43.5
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHH-HhcCCcc-ccccccccccCCC
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILK-WLKINNT-CPLCRATCKPKKL 155 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~-wl~~~~~-CP~Cr~~~~~~~~ 155 (162)
.+..|.||++....+... +|||.||..||.. |-..+.. ||+||+.+.++++
T Consensus 214 ~d~kC~lC~e~~~~ps~t----~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEPEVPSCT----PCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred cccceeeeecccCCcccc----cccchhhHHHHHHHHHhhccccCchhhhhccchhh
Confidence 467899999998766444 9999999999998 8777665 9999999988876
No 28
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.60 E-value=1.7e-08 Score=79.37 Aligned_cols=49 Identities=24% Similarity=0.572 Sum_probs=41.8
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCC
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKK 154 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~ 154 (162)
...|-||-+.|..+ .+++|||+||.-||...|..+.-||+||.+.....
T Consensus 25 ~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esr 73 (391)
T COG5432 25 MLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESR 73 (391)
T ss_pred HHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHHhhh
Confidence 36799999998765 34499999999999999999999999998775443
No 29
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.55 E-value=6.5e-08 Score=77.32 Aligned_cols=54 Identities=17% Similarity=0.421 Sum_probs=39.2
Q ss_pred cccccccccc-ccccceeEecCCCCccCHhhHHHHhcC-CccccccccccccCCCC
Q 046932 103 IVCGVCQEEM-EKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATCKPKKLH 156 (162)
Q Consensus 103 ~~C~IC~~~~-~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~ 156 (162)
..|++|...- ..+.....+.+|||.||.+|+...+.. ...||.|+.++...++.
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 4699999963 233322222279999999999996644 66899999999777654
No 30
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.53 E-value=2.4e-08 Score=61.63 Aligned_cols=52 Identities=21% Similarity=0.621 Sum_probs=26.2
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCCCccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKLHFQE 159 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~~ 159 (162)
..|++|.+.+..+..+ ..|.|.||..||..-+. ..||+|+.+.-.+|++.++
T Consensus 8 LrCs~C~~~l~~pv~l---~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD~~~Nr 59 (65)
T PF14835_consen 8 LRCSICFDILKEPVCL---GGCEHIFCSSCIRDCIG--SECPVCHTPAWIQDIQINR 59 (65)
T ss_dssp TS-SSS-S--SS-B------SSS--B-TTTGGGGTT--TB-SSS--B-S-SS----H
T ss_pred cCCcHHHHHhcCCcee---ccCccHHHHHHhHHhcC--CCCCCcCChHHHHHHHhhh
Confidence 5799999999866444 38999999999988654 4599999988778877664
No 31
>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=98.51 E-value=4.5e-08 Score=62.73 Aligned_cols=52 Identities=23% Similarity=0.350 Sum_probs=39.9
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC-CccccccccccccCCCCc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATCKPKKLHF 157 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~~ 157 (162)
.+.|+|+.+.+..|..+ ++||+|.+.||..|+.. +.+||.|+.++...++..
T Consensus 4 ~f~CpIt~~lM~dPVi~----~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~p 56 (73)
T PF04564_consen 4 EFLCPITGELMRDPVIL----PSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIP 56 (73)
T ss_dssp GGB-TTTSSB-SSEEEE----TTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE
T ss_pred ccCCcCcCcHhhCceeC----CcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceE
Confidence 46899999999877443 89999999999999999 899999999997766544
No 32
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=2.4e-08 Score=63.32 Aligned_cols=49 Identities=37% Similarity=0.912 Sum_probs=37.2
Q ss_pred cccccccccccc--------cc-ceeEecCCCCccCHhhHHHHhcC---Cccccccccccc
Q 046932 103 IVCGVCQEEMEK--------EH-EARAIMECMHMFHDSCILKWLKI---NNTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~~--------~~-~~~~l~~C~H~f~~~Ci~~wl~~---~~~CP~Cr~~~~ 151 (162)
.+|.||...|.. ++ ...++.-|.|.||..||.+|+.. +..||+||..+.
T Consensus 21 e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 21 ETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 489999999862 12 22233479999999999999976 457999998763
No 33
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=2.6e-07 Score=72.34 Aligned_cols=45 Identities=24% Similarity=0.739 Sum_probs=37.8
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
.+...|+||++.|..+ .+++|+|+||..|+..++.....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 3567899999999977 33399999999999998875568999993
No 34
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.26 E-value=1.7e-07 Score=59.58 Aligned_cols=49 Identities=22% Similarity=0.602 Sum_probs=23.9
Q ss_pred ccccccccccc-cccc-eeEe--cCCCCccCHhhHHHHhcC---C--------ccccccccccc
Q 046932 103 IVCGVCQEEME-KEHE-ARAI--MECMHMFHDSCILKWLKI---N--------NTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~-~~~~-~~~l--~~C~H~f~~~Ci~~wl~~---~--------~~CP~Cr~~~~ 151 (162)
..|.||+..+. .+.. ..+. ..|+..||..|+..||.. . ..||.|+.+|.
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 57999999876 2222 1222 379999999999999964 1 25999999884
No 35
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=2.8e-07 Score=77.13 Aligned_cols=52 Identities=27% Similarity=0.800 Sum_probs=39.7
Q ss_pred CCccccccccccccccc-------------eeEecCCCCccCHhhHHHHhcC-Ccccccccccccc
Q 046932 101 DGIVCGVCQEEMEKEHE-------------ARAIMECMHMFHDSCILKWLKI-NNTCPLCRATCKP 152 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~-------------~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~~~ 152 (162)
....|+||+.++..-.. --.++||.|.||..|+..|... +-.||+||.++++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 35679999998752111 0134699999999999999985 5589999999854
No 36
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.25 E-value=4.1e-07 Score=75.31 Aligned_cols=50 Identities=34% Similarity=0.806 Sum_probs=40.9
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
.+..+|+||++.+......+....|.|.||..|+..| ...+||+||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence 3567899999999877655444589999999999999 4678999998665
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.19 E-value=4.5e-07 Score=80.85 Aligned_cols=52 Identities=25% Similarity=0.763 Sum_probs=38.6
Q ss_pred CCCccccccccccc-cccce--eEecCCCCccCHhhHHHHhcC--Cccccccccccc
Q 046932 100 EDGIVCGVCQEEME-KEHEA--RAIMECMHMFHDSCILKWLKI--NNTCPLCRATCK 151 (162)
Q Consensus 100 ~~~~~C~IC~~~~~-~~~~~--~~l~~C~H~f~~~Ci~~wl~~--~~~CP~Cr~~~~ 151 (162)
+...+|+||+..+. ..... ...+.|.|.||..|+.+|++. +++||.||..+.
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 44578999998875 11111 112379999999999999987 678999998763
No 38
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=5.3e-07 Score=70.33 Aligned_cols=53 Identities=30% Similarity=0.834 Sum_probs=41.4
Q ss_pred CCcccccccccccccc-------ceeEecCCCCccCHhhHHHHhcC--CccccccccccccCC
Q 046932 101 DGIVCGVCQEEMEKEH-------EARAIMECMHMFHDSCILKWLKI--NNTCPLCRATCKPKK 154 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~-------~~~~l~~C~H~f~~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 154 (162)
++..|+||-..+.... .+-.+ .|+|.||..||..|-.. +.+||.|+..+..+.
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 4568999998886544 44455 89999999999999754 679999998775443
No 39
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=4.5e-07 Score=79.29 Aligned_cols=55 Identities=24% Similarity=0.634 Sum_probs=44.6
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcC-CccccccccccccCCCCccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATCKPKKLHFQE 159 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~~~~ 159 (162)
.-..|++|-..+... + ++.|+|.||..|+.+-+.. ++.||.|.+.|.+.|++..+
T Consensus 642 ~~LkCs~Cn~R~Kd~--v--I~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA--V--ITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred hceeCCCccCchhhH--H--HHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccccC
Confidence 357899999777533 2 3389999999999988865 78999999999999876554
No 40
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.15 E-value=1.4e-06 Score=51.55 Aligned_cols=42 Identities=26% Similarity=0.892 Sum_probs=30.7
Q ss_pred cccccccccccccceeEecCCC-----CccCHhhHHHHhcC--Cccccccc
Q 046932 104 VCGVCQEEMEKEHEARAIMECM-----HMFHDSCILKWLKI--NNTCPLCR 147 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~-----H~f~~~Ci~~wl~~--~~~CP~Cr 147 (162)
.|.||++ ...+...... ||. |.+|..|+.+|+.. ..+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~-PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVS-PCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEe-ccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3889998 3333333334 885 88999999999965 45899995
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=1.9e-07 Score=75.23 Aligned_cols=50 Identities=36% Similarity=0.739 Sum_probs=40.3
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcC-CccccccccccccC
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATCKPK 153 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~~~~ 153 (162)
.+..|+||++.+.... ....|.|.||.+||..-++. .+.||.||..+..+
T Consensus 42 ~~v~c~icl~llk~tm---ttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTM---TTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhccHHHHHHHHhhc---ccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccc
Confidence 3568999999986432 33499999999999998876 78999999877544
No 42
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=1e-06 Score=71.83 Aligned_cols=48 Identities=29% Similarity=0.851 Sum_probs=37.1
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcC--C-cccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--N-NTCPLCRATC 150 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--~-~~CP~Cr~~~ 150 (162)
..|.||.+-+.....+..+-.|||+||..|+..|+.. . +.||+|+-.+
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 4699996655555555555459999999999999987 3 5899999544
No 43
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.5e-06 Score=58.40 Aligned_cols=49 Identities=35% Similarity=0.668 Sum_probs=38.3
Q ss_pred Cccccccccccc-------------cccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 102 GIVCGVCQEEME-------------KEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 102 ~~~C~IC~~~~~-------------~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
...|+||...+- ..+.++....|.|.||..||.+||+.+..||+|....
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 457999976542 2223444568999999999999999999999998766
No 44
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=3.1e-06 Score=67.05 Aligned_cols=51 Identities=25% Similarity=0.524 Sum_probs=39.6
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcC-CccccccccccccCCCCcc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATCKPKKLHFQ 158 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~~~ 158 (162)
.+|+||+....-+.. ++|+|.||..||..-... ..+|++||.+| +.++.++
T Consensus 8 ~eC~IC~nt~n~Pv~----l~C~HkFCyiCiKGsy~ndk~~CavCR~pi-ds~i~~~ 59 (324)
T KOG0824|consen 8 KECLICYNTGNCPVN----LYCFHKFCYICIKGSYKNDKKTCAVCRFPI-DSTIDFE 59 (324)
T ss_pred CcceeeeccCCcCcc----ccccchhhhhhhcchhhcCCCCCceecCCC-Ccchhcc
Confidence 579999998765522 399999999999875554 66799999999 5555544
No 45
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.82 E-value=3.3e-06 Score=67.61 Aligned_cols=51 Identities=29% Similarity=0.697 Sum_probs=43.0
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPK 153 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~ 153 (162)
....+|.+|...|....++ +.|-|+||++||.+.|...+.||.|...+...
T Consensus 13 n~~itC~LC~GYliDATTI---~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTI---TECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeecchhH---HHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 3457899999999866555 38999999999999999999999999877443
No 46
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=4e-06 Score=49.94 Aligned_cols=45 Identities=33% Similarity=0.727 Sum_probs=34.3
Q ss_pred ccccccccccccccceeEecCCCCc-cCHhhHHHHhc-CCccccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHM-FHDSCILKWLK-INNTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~-f~~~Ci~~wl~-~~~~CP~Cr~~~~ 151 (162)
.+|.||++..... ++.-|||. .|..|-.+.++ .+..||+||+++.
T Consensus 8 dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 5799999886533 23479995 68888766555 6889999999884
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=9.2e-06 Score=66.26 Aligned_cols=51 Identities=29% Similarity=0.769 Sum_probs=38.6
Q ss_pred CCCcccccccccccccc----ceeEecCCCCccCHhhHHHHh--cC-----Ccccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEH----EARAIMECMHMFHDSCILKWL--KI-----NNTCPLCRATC 150 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~----~~~~l~~C~H~f~~~Ci~~wl--~~-----~~~CP~Cr~~~ 150 (162)
..+.+|.||++...... ....+++|.|.||..||..|- .+ .+.||.||...
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 34678999999876443 122346899999999999997 33 47899999754
No 48
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=1.8e-05 Score=64.04 Aligned_cols=48 Identities=27% Similarity=0.690 Sum_probs=37.4
Q ss_pred CCCccccccccccccccceeEecCCCCc-cCHhhHHHHhcCCccccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHM-FHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~-f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
+.+.+|.||+.+.. .+.++ ||.|. .|..|....--.++.||+||.++.
T Consensus 288 ~~gkeCVIClse~r---dt~vL-PCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESR---DTVVL-PCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCc---ceEEe-cchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 44779999999864 34344 99995 599998876556889999999884
No 49
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=1.6e-05 Score=65.33 Aligned_cols=50 Identities=30% Similarity=0.769 Sum_probs=39.0
Q ss_pred CCcccccccccccccc-ceeEecCCCCccCHhhHHHHhcC--Ccccccccccc
Q 046932 101 DGIVCGVCQEEMEKEH-EARAIMECMHMFHDSCILKWLKI--NNTCPLCRATC 150 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~-~~~~l~~C~H~f~~~Ci~~wl~~--~~~CP~Cr~~~ 150 (162)
...+|+||++.+..+. .....+.|||.|...||.+||.+ ...||.|...-
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 3468999999997554 44445699999999999999964 35799997544
No 50
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=0.0001 Score=57.81 Aligned_cols=51 Identities=29% Similarity=0.547 Sum_probs=40.3
Q ss_pred CCCCCccccccccccccccceeEecCCCCccCHhhHHHHhcC--Cccccccccccc
Q 046932 98 DGEDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--NNTCPLCRATCK 151 (162)
Q Consensus 98 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--~~~CP~Cr~~~~ 151 (162)
..+.+.+|++|-+....|... .+|+|.||.-||..-+.. ..+||.|..++.
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~~~---~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPHVI---GKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cccCCceeeccCCCCCCCeee---ccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 345678999999997766544 279999999999876553 578999988775
No 51
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.58 E-value=1.2e-05 Score=70.72 Aligned_cols=52 Identities=23% Similarity=0.500 Sum_probs=40.8
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCC
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKK 154 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~ 154 (162)
...|++|+..+......... +|+|.||..|+..|-+.-.+||+||..+....
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k-~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEK-HTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred hhhhhHHHHHHHHHhhcccc-ccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 44688888777655444444 89999999999999999999999998774433
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.54 E-value=4.3e-05 Score=46.53 Aligned_cols=41 Identities=22% Similarity=0.635 Sum_probs=28.0
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC--Cccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--NNTCPL 145 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--~~~CP~ 145 (162)
...|+|.+..|..|..- . .|||.|-++.|..|++. ...||+
T Consensus 11 ~~~CPiT~~~~~~PV~s--~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFEDPVKS--K-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-SSEEEE--S-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhhCCcCc--C-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 47899999999866433 2 89999999999999944 567998
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.54 E-value=4.8e-05 Score=63.43 Aligned_cols=50 Identities=24% Similarity=0.719 Sum_probs=42.8
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKP 152 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~ 152 (162)
+....|++|...+..+... +.|||.||..|+..|+..+..||.|+..+..
T Consensus 19 ~~~l~C~~C~~vl~~p~~~---~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT---TTCGHRFCAGCLLESLSNHQKCPVCRQELTQ 68 (391)
T ss_pred cccccCccccccccCCCCC---CCCCCcccccccchhhccCcCCcccccccch
Confidence 4567899999999877664 2899999999999999999999999876643
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=4.8e-05 Score=63.29 Aligned_cols=49 Identities=27% Similarity=0.563 Sum_probs=41.4
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKP 152 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~ 152 (162)
..++.|.||...+..+... ||||.||..||.+.+.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~pv~t----pcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVT----PCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccc----cccccccHHHHHHHhccCCCCccccccccc
Confidence 3467899999998766444 999999999999988888899999998854
No 55
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.47 E-value=6.1e-05 Score=56.56 Aligned_cols=45 Identities=24% Similarity=0.710 Sum_probs=38.2
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
.+.|.||..+|..+... .|||.||..|...-++....|-+|.+..
T Consensus 196 PF~C~iCKkdy~spvvt----~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESPVVT----ECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccchhhh----hcchhHHHHHHHHHhccCCcceecchhh
Confidence 46899999999877444 8999999999988888899999997643
No 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.47 E-value=4.5e-05 Score=62.76 Aligned_cols=47 Identities=32% Similarity=0.846 Sum_probs=36.3
Q ss_pred cccccccccccccceeEecCCCCccCHhhHHHHhcC--CccccccccccccCC
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--NNTCPLCRATCKPKK 154 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 154 (162)
.|.||-+.= +.+ .+-||||..|..|+..|-.. ..+||.||..|....
T Consensus 371 LCKICaend---Kdv-kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte 419 (563)
T KOG1785|consen 371 LCKICAEND---KDV-KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTE 419 (563)
T ss_pred HHHHhhccC---CCc-ccccccchHHHHHHHhhcccCCCCCCCceeeEecccc
Confidence 589998763 223 33399999999999999744 679999999886544
No 57
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.15 E-value=0.00011 Score=58.34 Aligned_cols=49 Identities=24% Similarity=0.608 Sum_probs=38.7
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC-----------------------Cccccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-----------------------NNTCPLCRATCK 151 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-----------------------~~~CP~Cr~~~~ 151 (162)
...|.||+--|..+...++. +|.|.||..|+.++|.. ...||+||..|.
T Consensus 115 ~gqCvICLygfa~~~~ft~T-~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVT-ACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCceEEEEEeecCCCceeee-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 35799999999887766444 99999999999887741 136999998774
No 58
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.04 E-value=0.00016 Score=59.44 Aligned_cols=49 Identities=33% Similarity=0.809 Sum_probs=38.1
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcC--Ccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--NNTCPLCRA 148 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--~~~CP~Cr~ 148 (162)
+-+..|..|-+.+.....-...+||.|.||..|+...|.. -.+||.||+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3467899999988644433333499999999999999865 568999994
No 59
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.00034 Score=55.53 Aligned_cols=45 Identities=22% Similarity=0.544 Sum_probs=38.4
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
.+.|-||...|..+... .|+|.||..|...-++....|++|-...
T Consensus 241 Pf~c~icr~~f~~pVvt----~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVT----KCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred Cccccccccccccchhh----cCCceeehhhhccccccCCcceeccccc
Confidence 45699999999877444 8999999999998888889999997755
No 60
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.90 E-value=0.00079 Score=39.35 Aligned_cols=45 Identities=27% Similarity=0.627 Sum_probs=22.2
Q ss_pred ccccccccccc-cceeEecCCCCccCHhhHHHHhc-CCcccccccccc
Q 046932 105 CGVCQEEMEKE-HEARAIMECMHMFHDSCILKWLK-INNTCPLCRATC 150 (162)
Q Consensus 105 C~IC~~~~~~~-~~~~~l~~C~H~f~~~Ci~~wl~-~~~~CP~Cr~~~ 150 (162)
|++|.+++... .....- +||+.+|..|...-+. ....||.||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC-~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPC-ECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SS-TTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccC-cCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 68888888322 223222 7899999999998876 478999999864
No 61
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.87 E-value=0.00097 Score=51.79 Aligned_cols=55 Identities=13% Similarity=0.344 Sum_probs=49.6
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCC
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKL 155 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 155 (162)
....|++|.+.+.+...+..+-+|||.|+.+|+.+.++.-..||+|-.++.+.++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence 4568999999999888888888999999999999999989999999999988775
No 62
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.83 E-value=0.0014 Score=53.39 Aligned_cols=48 Identities=21% Similarity=0.459 Sum_probs=39.2
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
.++..|+||...-... +..||+|.-|..||.+.+...+.|=.|+..+.
T Consensus 420 sEd~lCpICyA~pi~A----vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINA----VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchh----hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 4567899998764322 23499999999999999999999999998774
No 63
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.00092 Score=51.29 Aligned_cols=52 Identities=23% Similarity=0.569 Sum_probs=42.7
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcC--------CccccccccccccC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--------NNTCPLCRATCKPK 153 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--------~~~CP~Cr~~~~~~ 153 (162)
+....|..|-..+..++.++. .|-|.||..|+..|-.. .-.||.|...|++.
T Consensus 48 DY~pNC~LC~t~La~gdt~RL--vCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTRL--VCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCCCceeCCccccCcceee--hhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 445689999999998888754 69999999999999754 34699999888654
No 64
>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=96.72 E-value=0.0021 Score=43.40 Aligned_cols=33 Identities=27% Similarity=0.666 Sum_probs=25.9
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHH
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCIL 134 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~ 134 (162)
++...|++|...+..+ ...+.||||.||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~~--~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNS--VFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCc--eEEEeCCCeEEeccccc
Confidence 4556799999999763 34455999999999974
No 65
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.65 E-value=0.0048 Score=52.82 Aligned_cols=49 Identities=31% Similarity=0.762 Sum_probs=37.7
Q ss_pred CCCCccccccccccccccceeEecCCCCccCHhhHHHHhcC-----Cccccccccccc
Q 046932 99 GEDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-----NNTCPLCRATCK 151 (162)
Q Consensus 99 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-----~~~CP~Cr~~~~ 151 (162)
..+...|.+|.+.-...... .|.|.||+.|+..++.. +-+||.|-..+.
T Consensus 533 nk~~~~C~lc~d~aed~i~s----~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDYIES----SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccCceeecccCChhhhhHhh----hhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 34567899999887544333 89999999999888754 458999987663
No 66
>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=96.43 E-value=0.0019 Score=36.96 Aligned_cols=41 Identities=27% Similarity=0.786 Sum_probs=23.7
Q ss_pred ccccccccccccceeEecCCCCccCHhhHHHHhcCCc--ccccc
Q 046932 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINN--TCPLC 146 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~--~CP~C 146 (162)
|.+|.+....+...... .|+-.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 66788877766555322 5888999999999998754 79987
No 67
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.32 E-value=0.0042 Score=49.09 Aligned_cols=55 Identities=20% Similarity=0.511 Sum_probs=44.1
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKL 155 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 155 (162)
...+.|||....|......+.+-+|||+|...++... .....||+|-.++...++
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~Di 165 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEEDI 165 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCCE
Confidence 4567999999999655556566699999999999986 335679999999977664
No 68
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.11 E-value=0.0037 Score=59.06 Aligned_cols=50 Identities=26% Similarity=0.645 Sum_probs=38.6
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcC-----C-----cccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-----N-----NTCPLCRATC 150 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-----~-----~~CP~Cr~~~ 150 (162)
+.+..|.||+.+--.....+.+ .|+|.||-.|...-|.. + -+||+|+.+|
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL-~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQL-DCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred ccCceEEEEehhhhCCCcceec-CCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 4466899999887766677677 89999999998754433 1 3799999876
No 69
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.11 E-value=0.0033 Score=51.04 Aligned_cols=59 Identities=19% Similarity=0.389 Sum_probs=41.7
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcC-CccccccccccccCCCCccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATCKPKKLHFQE 159 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~~~~ 159 (162)
++..|++|++++...+.-..--+||...|+-|...--+. ...||.||....+.++++..
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~~ 72 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYVT 72 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccceeEEe
Confidence 334599999998644432221289999999997664333 66899999988877776643
No 70
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.06 E-value=0.0064 Score=48.64 Aligned_cols=43 Identities=28% Similarity=0.574 Sum_probs=35.2
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcC-Ccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRA 148 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~ 148 (162)
+.|+.|...+..+... ..|+|.||.+||...|.. -..||.|..
T Consensus 275 LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCccc
Confidence 6899999998876555 378999999999987765 678999943
No 71
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.03 E-value=0.0025 Score=45.20 Aligned_cols=35 Identities=17% Similarity=0.529 Sum_probs=27.6
Q ss_pred CccccccccccccccceeEecCCC------CccCHhhHHHHh
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECM------HMFHDSCILKWL 137 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~------H~f~~~Ci~~wl 137 (162)
..+|.||++.+.....++.+ +|| |.||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~v-t~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYV-TDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEE-ecCCeehHHHHHHHHHHHHHH
Confidence 45799999999884455555 565 789999999994
No 72
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.01 E-value=0.0041 Score=49.79 Aligned_cols=48 Identities=29% Similarity=0.686 Sum_probs=38.5
Q ss_pred ccccccccccccc--cceeEecCCCCccCHhhHHHHhcC-Ccccccccccc
Q 046932 103 IVCGVCQEEMEKE--HEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATC 150 (162)
Q Consensus 103 ~~C~IC~~~~~~~--~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~ 150 (162)
..|-||-++|... ..+..++.|||.||..|+.+.+.. ...||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 4699999999865 344445589999999999998766 55799999884
No 73
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.92 E-value=0.003 Score=52.36 Aligned_cols=46 Identities=28% Similarity=0.601 Sum_probs=34.4
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC--------Ccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--------NNTCPLCRA 148 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--------~~~CP~Cr~ 148 (162)
-..|.||++..........+ ||+|.||+.|...++.. .-.||-+..
T Consensus 184 lf~C~ICf~e~~G~~c~~~l-pC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFL-PCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred cccceeeehhhcCcceeeec-ccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 46799999997655555555 99999999999998853 225776543
No 74
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.89 E-value=0.0096 Score=43.38 Aligned_cols=47 Identities=21% Similarity=0.702 Sum_probs=33.6
Q ss_pred CCCccccccccccccccceeEecCCC--C---ccCHhhHHHHhcC--Cccccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECM--H---MFHDSCILKWLKI--NNTCPLCRATCK 151 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~--H---~f~~~Ci~~wl~~--~~~CP~Cr~~~~ 151 (162)
..+..|-||.+.-.. .. .||. . ..|.+|+.+|+.. ..+|+.|+.+..
T Consensus 6 ~~~~~CRIC~~~~~~--~~---~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDV--VT---NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCC--cc---CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 345689999988532 11 1553 3 4599999999976 457999998663
No 75
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.88 E-value=0.0045 Score=55.44 Aligned_cols=51 Identities=27% Similarity=0.747 Sum_probs=40.4
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCC-------cccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKIN-------NTCPLCRATC 150 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~-------~~CP~Cr~~~ 150 (162)
....+|.||.+.+.....+.....|-|+||..||..|-+.. =.||.|....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 34578999999998777666666789999999999998652 2599998533
No 76
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.84 E-value=0.013 Score=47.34 Aligned_cols=47 Identities=21% Similarity=0.411 Sum_probs=37.1
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
+...|++|+....++..+ ..-|-.||..|+..++..++.||+=..+.
T Consensus 299 ~~~~CpvClk~r~Nptvl---~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVL---EVSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred ccccChhHHhccCCCceE---EecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 456899999998766333 24699999999999999999999854443
No 77
>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=95.81 E-value=0.0069 Score=48.11 Aligned_cols=57 Identities=21% Similarity=0.507 Sum_probs=41.5
Q ss_pred ccccccccc-ccccceeEecCCCCccCHhhHHHHhcC-CccccccccccccCCCCcccc
Q 046932 104 VCGVCQEEM-EKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLCRATCKPKKLHFQEI 160 (162)
Q Consensus 104 ~C~IC~~~~-~~~~~~~~l~~C~H~f~~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~~~~~ 160 (162)
.|++|.... ..+.-...+-+|+|..|.+|+..-+.. ...||.|-..+...++..+.+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nfr~q~f 60 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNFRVQTF 60 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhcccchhhc
Confidence 488887663 344433334499999999999998866 567999988887777665543
No 78
>PHA03096 p28-like protein; Provisional
Probab=95.75 E-value=0.0045 Score=49.53 Aligned_cols=45 Identities=29% Similarity=0.576 Sum_probs=31.9
Q ss_pred ccccccccccccc----cceeEecCCCCccCHhhHHHHhcC---Cccccccc
Q 046932 103 IVCGVCQEEMEKE----HEARAIMECMHMFHDSCILKWLKI---NNTCPLCR 147 (162)
Q Consensus 103 ~~C~IC~~~~~~~----~~~~~l~~C~H~f~~~Ci~~wl~~---~~~CP~Cr 147 (162)
..|.||++..... ..-..+..|.|.||..|+..|-.. ..+||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 4699999987532 223346699999999999999864 33455544
No 79
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.73 E-value=0.0064 Score=49.61 Aligned_cols=45 Identities=31% Similarity=0.607 Sum_probs=31.0
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
.....|.||.+...+ ...+ ||||.-| |..-. +.-.+||+||..+.
T Consensus 303 ~~p~lcVVcl~e~~~---~~fv-pcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFV-PCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccc---eeee-cCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 345679999999864 3344 9999866 55432 22345999998773
No 80
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.71 E-value=0.0043 Score=48.03 Aligned_cols=47 Identities=21% Similarity=0.577 Sum_probs=32.1
Q ss_pred cccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCC
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKK 154 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~ 154 (162)
.|..|..--. +... .++.|+|+||..|...-. ...||+|+.++...+
T Consensus 5 hCn~C~~~~~-~~~f-~LTaC~HvfC~~C~k~~~--~~~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPF-FLTACRHVFCEPCLKASS--PDVCPLCKKSIRIIQ 51 (233)
T ss_pred EeccccccCC-CCce-eeeechhhhhhhhcccCC--ccccccccceeeeee
Confidence 4776765544 3333 556999999999976532 228999999875443
No 81
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.67 E-value=0.0078 Score=49.09 Aligned_cols=48 Identities=27% Similarity=0.677 Sum_probs=35.9
Q ss_pred CCCCccccccccccccccceeEecCCCCccCHhhHHH--HhcCCcccccccccc
Q 046932 99 GEDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILK--WLKINNTCPLCRATC 150 (162)
Q Consensus 99 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~--wl~~~~~CP~Cr~~~ 150 (162)
+++...|-||-+.+. ...++||+|..|..|..+ .|-..+.||+||...
T Consensus 58 DEen~~C~ICA~~~T----Ys~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 58 DEENMNCQICAGSTT----YSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccceeEEecCCce----EEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 345667999998753 334459999999999865 345588999999754
No 82
>PHA02862 5L protein; Provisional
Probab=95.67 E-value=0.0081 Score=43.07 Aligned_cols=44 Identities=20% Similarity=0.710 Sum_probs=32.5
Q ss_pred ccccccccccccccceeEecCCC-----CccCHhhHHHHhcC--Cccccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECM-----HMFHDSCILKWLKI--NNTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~-----H~f~~~Ci~~wl~~--~~~CP~Cr~~~~ 151 (162)
..|-||++.-... .. ||. ...|++|+.+|+.. ...|+.|+.+..
T Consensus 3 diCWIC~~~~~e~--~~---PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER--NN---FCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC--cc---cccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 4699999985432 21 553 45799999999976 568999998763
No 83
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.66 E-value=0.0061 Score=36.52 Aligned_cols=32 Identities=25% Similarity=0.637 Sum_probs=25.3
Q ss_pred ecCCCCccCHhhHHHHhcCCccccccccccccCC
Q 046932 121 IMECMHMFHDSCILKWLKINNTCPLCRATCKPKK 154 (162)
Q Consensus 121 l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~ 154 (162)
+.+|||..|..|..-+ +-+.||.|..++...+
T Consensus 22 ~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 22 VLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDD 53 (55)
T ss_pred cccccceeeccccChh--hccCCCCCCCcccCCC
Confidence 3499999999997653 5678999999886554
No 84
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.61 E-value=0.0058 Score=45.35 Aligned_cols=29 Identities=31% Similarity=0.917 Sum_probs=24.6
Q ss_pred CCCCccCHhhHHHHhcC---C--------ccccccccccc
Q 046932 123 ECMHMFHDSCILKWLKI---N--------NTCPLCRATCK 151 (162)
Q Consensus 123 ~C~H~f~~~Ci~~wl~~---~--------~~CP~Cr~~~~ 151 (162)
.||..||.-|+..||+. . ..||.|-.++.
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 79999999999999975 1 25999998873
No 85
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.43 E-value=0.0037 Score=49.62 Aligned_cols=47 Identities=26% Similarity=0.676 Sum_probs=40.0
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
...|+||.+.+.........++|||..|..|.......+-+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 34599999998877766666799999999999988877889999988
No 86
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=94.88 E-value=0.012 Score=34.21 Aligned_cols=40 Identities=33% Similarity=0.929 Sum_probs=25.5
Q ss_pred ccccccccccccceeEecCCC-----CccCHhhHHHHhcC--Ccccccc
Q 046932 105 CGVCQEEMEKEHEARAIMECM-----HMFHDSCILKWLKI--NNTCPLC 146 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~-----H~f~~~Ci~~wl~~--~~~CP~C 146 (162)
|-||++.-.....+ +.||+ ...|..|+..|+.. ..+|++|
T Consensus 1 CrIC~~~~~~~~~l--i~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPL--ISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-E--E-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCce--ecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 66888886655422 23664 25799999999974 5678887
No 87
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.85 E-value=0.016 Score=40.95 Aligned_cols=53 Identities=21% Similarity=0.486 Sum_probs=38.4
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC---CccccccccccccCC
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI---NNTCPLCRATCKPKK 154 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~---~~~CP~Cr~~~~~~~ 154 (162)
-.+|.||.+......-+..---||-..|..|....++. +..||+|+.++....
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 36899999886544333222258999999998775554 789999999886554
No 88
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.75 E-value=0.0072 Score=48.12 Aligned_cols=42 Identities=29% Similarity=0.703 Sum_probs=29.9
Q ss_pred CccccccccccccccceeEecCCCCc-cCHhhHHHHhcCCccccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHM-FHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~-f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
...|.||++.. .....| +|||. -|..|-... +.||+||.-+.
T Consensus 300 ~~LC~ICmDaP---~DCvfL-eCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFL-ECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCC---cceEEe-ecCcEEeehhhcccc----ccCchHHHHHH
Confidence 45799999876 344455 99995 477775442 37999998763
No 89
>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=94.71 E-value=0.018 Score=33.43 Aligned_cols=45 Identities=24% Similarity=0.578 Sum_probs=25.8
Q ss_pred cccccccccccccceeEecCC-CCccCHhhHHHHhcCCccccccccccccCCC
Q 046932 104 VCGVCQEEMEKEHEARAIMEC-MHMFHDSCILKWLKINNTCPLCRATCKPKKL 155 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C-~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 155 (162)
.|.-|+-.. ...+ .| .|..|..|+...+..+..||+|..++ |+++
T Consensus 4 nCKsCWf~~---k~Li---~C~dHYLCl~CLt~ml~~s~~C~iC~~~L-Ptki 49 (50)
T PF03854_consen 4 NCKSCWFAN---KGLI---KCSDHYLCLNCLTLMLSRSDRCPICGKPL-PTKI 49 (50)
T ss_dssp ---SS-S-----SSEE---E-SS-EEEHHHHHHT-SSSSEETTTTEE-----S
T ss_pred cChhhhhcC---CCee---eecchhHHHHHHHHHhccccCCCcccCcC-cccc
Confidence 466666443 2222 67 58999999999999999999999998 6554
No 90
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.70 E-value=0.0093 Score=53.08 Aligned_cols=48 Identities=38% Similarity=0.733 Sum_probs=36.3
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcC--CccccccccccccCCC
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--NNTCPLCRATCKPKKL 155 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--~~~CP~Cr~~~~~~~~ 155 (162)
..|.||.+ . ... .+++|+|.||.+|+...+.. ...||.||..+...++
T Consensus 455 ~~c~ic~~-~---~~~-~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 455 HWCHICCD-L---DSF-FITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccccccc-c---ccc-eeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 68999999 2 233 33489999999999988765 2369999987765554
No 91
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.57 E-value=0.02 Score=51.64 Aligned_cols=51 Identities=18% Similarity=0.329 Sum_probs=32.8
Q ss_pred CChhhhcccccccCCCCCccccccccccccccceeEecCCCCccCHhhHHHHh
Q 046932 85 IDPALACTTALSVDGEDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWL 137 (162)
Q Consensus 85 ~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl 137 (162)
+...+..+...-...+.+..|.+|...+....- .+.+|||.||+.|+.+-.
T Consensus 800 I~~~~~~l~~ry~v~ep~d~C~~C~~~ll~~pF--~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 800 IRTEISKLRQRYRVLEPQDSCDHCGRPLLIKPF--YVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred HHhHHHHhhcceEEecCccchHHhcchhhcCcc--eeeeccchHHHHHHHHHH
Confidence 333333443333334556789999988864422 334999999999996554
No 92
>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=94.54 E-value=0.016 Score=47.78 Aligned_cols=33 Identities=30% Similarity=0.673 Sum_probs=25.8
Q ss_pred CCCccCHhhHHHHhcC-------------CccccccccccccCCCC
Q 046932 124 CMHMFHDSCILKWLKI-------------NNTCPLCRATCKPKKLH 156 (162)
Q Consensus 124 C~H~f~~~Ci~~wl~~-------------~~~CP~Cr~~~~~~~~~ 156 (162)
|...+|.+|+.+||.. +-.||.||+.++-.|+.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV~ 356 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDVC 356 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeeee
Confidence 5567799999999853 23699999999877653
No 93
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.37 E-value=0.018 Score=51.74 Aligned_cols=41 Identities=22% Similarity=0.681 Sum_probs=32.2
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRAT 149 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~ 149 (162)
..|..|-..+..|.. . ..|||.||..|+. .....||.|+..
T Consensus 841 skCs~C~~~LdlP~V--h-F~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFV--H-FLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCcccccee--e-eecccHHHHHhhc---cCcccCCccchh
Confidence 579999999875532 2 3799999999988 356789999863
No 94
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.62 E-value=0.033 Score=52.20 Aligned_cols=47 Identities=23% Similarity=0.603 Sum_probs=38.5
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
....|.||.+.+..-..+ ..|||-+|..|...|+..+..||.|....
T Consensus 1152 ~~~~c~ic~dil~~~~~I---~~cgh~~c~~c~~~~l~~~s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGI---AGCGHEPCCRCDELWLYASSRCPICKSIK 1198 (1394)
T ss_pred cccchHHHHHHHHhcCCe---eeechhHhhhHHHHHHHHhccCcchhhhh
Confidence 345899999998733333 27999999999999999999999998644
No 95
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.39 E-value=0.03 Score=44.69 Aligned_cols=35 Identities=23% Similarity=0.582 Sum_probs=27.5
Q ss_pred CCCccCHhhHHHHhcC-------------CccccccccccccCCCCcc
Q 046932 124 CMHMFHDSCILKWLKI-------------NNTCPLCRATCKPKKLHFQ 158 (162)
Q Consensus 124 C~H~f~~~Ci~~wl~~-------------~~~CP~Cr~~~~~~~~~~~ 158 (162)
|...+|.+|+.+|+.. +-+||.||+.++-.++...
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v 372 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCV 372 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEE
Confidence 5677899999988843 4479999999987776543
No 96
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=92.96 E-value=0.031 Score=43.47 Aligned_cols=53 Identities=25% Similarity=0.481 Sum_probs=37.2
Q ss_pred Cccccccccccc-cccceeEe-cCCCCccCHhhHHHHhcC-Ccccc--ccccccccCC
Q 046932 102 GIVCGVCQEEME-KEHEARAI-MECMHMFHDSCILKWLKI-NNTCP--LCRATCKPKK 154 (162)
Q Consensus 102 ~~~C~IC~~~~~-~~~~~~~l-~~C~H~f~~~Ci~~wl~~-~~~CP--~Cr~~~~~~~ 154 (162)
+..|+||..+-- .|.....+ +.|-|..|.+|+.+-|.. ...|| .|..-+..-+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~k 67 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIK 67 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhc
Confidence 457999998743 33333333 459999999999999877 45799 7876554333
No 97
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=92.82 E-value=0.063 Score=43.34 Aligned_cols=43 Identities=33% Similarity=0.665 Sum_probs=33.8
Q ss_pred CCccccccccccccccceeEecCC--CCccCHhhHHHHhcCCccccccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMEC--MHMFHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C--~H~f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
+-.+|+||...+..|.. .| ||.-|..|-.+ ..+.||.||.++.
T Consensus 47 ~lleCPvC~~~l~~Pi~-----QC~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIF-----QCDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCcccce-----ecCCCcEehhhhhhh---hcccCCccccccc
Confidence 45689999999976522 46 79999999664 5778999999885
No 98
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=92.67 E-value=0.15 Score=30.49 Aligned_cols=34 Identities=26% Similarity=0.581 Sum_probs=28.6
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHH
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILK 135 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~ 135 (162)
...|.+|-+.|..+..+++-+.||-.+|+.|..+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 3579999999987777777789999999999654
No 99
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.13 E-value=0.047 Score=40.00 Aligned_cols=29 Identities=24% Similarity=0.662 Sum_probs=25.1
Q ss_pred CCccccccccccccccceeEecCCCCccCH
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHD 130 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~ 130 (162)
+.-+|.||++++..+..+..+ ||-..||+
T Consensus 176 dkGECvICLEdL~~GdtIARL-PCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARL-PCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceecc-ceEEEeec
Confidence 345899999999999999888 89988885
No 100
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.81 E-value=0.013 Score=48.46 Aligned_cols=49 Identities=27% Similarity=0.563 Sum_probs=39.6
Q ss_pred Cccccccccccccc-cceeEecCCCCccCHhhHHHHhcCCccccccccccc
Q 046932 102 GIVCGVCQEEMEKE-HEARAIMECMHMFHDSCILKWLKINNTCPLCRATCK 151 (162)
Q Consensus 102 ~~~C~IC~~~~~~~-~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~ 151 (162)
...|+||...+... ..+..+ .|||.+|..|+.+||.....||.|+..+.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~-~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAI-VCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHH-hhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 35699999988755 233233 89999999999999999889999998774
No 101
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.46 E-value=0.16 Score=42.22 Aligned_cols=49 Identities=20% Similarity=0.443 Sum_probs=38.4
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcCC---cccccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKIN---NTCPLCRATC 150 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~---~~CP~Cr~~~ 150 (162)
..+.|||=.+.-........+ .|||..+++-+.+..+.+ ..||.|-...
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L-~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMML-ICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred ceeecccchhhccCCCCCeee-eccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 457899988887766666666 899999999999987663 4799995544
No 102
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=91.41 E-value=0.087 Score=40.21 Aligned_cols=46 Identities=22% Similarity=0.543 Sum_probs=37.7
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
-..|.+|....-.+..+. .|+-.+|..|+..++++...||.|..-+
T Consensus 181 lk~Cn~Ch~LvIqg~rCg---~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCG---SCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHhHhHHHhheeeccC---cccchhhhHHHHHHhcccCcCCchhccc
Confidence 458999999886655443 7888999999999999999999996544
No 103
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.97 E-value=0.11 Score=41.96 Aligned_cols=42 Identities=24% Similarity=0.657 Sum_probs=28.0
Q ss_pred cccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
.|--|--.+. ..- .+.+|.|.||.+|... ..-+.||.|-..|
T Consensus 92 fCd~Cd~PI~--IYG-RmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIA--IYG-RMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCcce--eee-cccccchhhhhhhhhc--CccccCcCcccHH
Confidence 5666655543 222 2349999999999754 2357899997655
No 104
>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=89.51 E-value=0.28 Score=35.80 Aligned_cols=35 Identities=17% Similarity=0.424 Sum_probs=20.0
Q ss_pred Ccccccccccccccccee---------EecCCCC-ccCHhhHHHHh
Q 046932 102 GIVCGVCQEEMEKEHEAR---------AIMECMH-MFHDSCILKWL 137 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~---------~l~~C~H-~f~~~Ci~~wl 137 (162)
+..|+||++...+.+-+. .. -|+- .-|..|+.++-
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpy-mc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPY-MCDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCcccc-ccCCccchhHHHHHHH
Confidence 357999999865332111 01 1332 23788988765
No 105
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=89.40 E-value=0.2 Score=44.95 Aligned_cols=24 Identities=33% Similarity=0.984 Sum_probs=22.3
Q ss_pred cCCCCccCHhhHHHHhcCCccccc
Q 046932 122 MECMHMFHDSCILKWLKINNTCPL 145 (162)
Q Consensus 122 ~~C~H~f~~~Ci~~wl~~~~~CP~ 145 (162)
..|+|..|.+|...|++....||.
T Consensus 1046 g~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhcCCcCCC
Confidence 379999999999999999999997
No 106
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.32 E-value=0.11 Score=45.77 Aligned_cols=40 Identities=20% Similarity=0.617 Sum_probs=31.0
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCP 144 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP 144 (162)
..|.||+..|.......+-+.|||+.|..|+.... +.+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC
Confidence 57999999887665554445899999999998754 45677
No 107
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.80 E-value=0.2 Score=38.34 Aligned_cols=38 Identities=26% Similarity=0.671 Sum_probs=25.9
Q ss_pred ccccccccccccceeEecCCCC-ccCHhhHHHHhcCCcccccccccc
Q 046932 105 CGVCQEEMEKEHEARAIMECMH-MFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~H-~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
|-.|.+.- ..+ .+.||.| .+|..|-.. -..||+|+.+.
T Consensus 161 Cr~C~~~~---~~V-lllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGERE---ATV-LLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcCC---ceE-EeecccceEeccccccc----CccCCCCcChh
Confidence 77777653 344 4449998 568888543 34599999765
No 108
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=88.71 E-value=0.29 Score=44.18 Aligned_cols=49 Identities=10% Similarity=0.209 Sum_probs=33.6
Q ss_pred Cccccccccccccccc---eeEecCCCCccCHhhHHHHhcC------Ccccccccccc
Q 046932 102 GIVCGVCQEEMEKEHE---ARAIMECMHMFHDSCILKWLKI------NNTCPLCRATC 150 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~---~~~l~~C~H~f~~~Ci~~wl~~------~~~CP~Cr~~~ 150 (162)
...|.+|...+..+.. ...+..|+|.||..||..|..+ +-.|+.|..-|
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 4578888888776332 2222249999999999999854 34577776543
No 109
>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=88.49 E-value=0.68 Score=27.83 Aligned_cols=48 Identities=21% Similarity=0.520 Sum_probs=33.4
Q ss_pred ccccccccccccccceeEecCCC--CccCHhhHHHHhcCCccccccccccccCC
Q 046932 103 IVCGVCQEEMEKEHEARAIMECM--HMFHDSCILKWLKINNTCPLCRATCKPKK 154 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~--H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~ 154 (162)
..|-.|-.++.....-.. -|. .+||..|....| +..||.|...+....
T Consensus 6 pnCE~C~~dLp~~s~~A~--ICSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAY--ICSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CCccccCCCCCCCCCcce--EEeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 357778877765552222 254 379999999865 678999988775544
No 110
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=87.53 E-value=0.15 Score=45.25 Aligned_cols=47 Identities=23% Similarity=0.711 Sum_probs=36.6
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC---Ccccccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI---NNTCPLCRATCKP 152 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~---~~~CP~Cr~~~~~ 152 (162)
..+|+||...+..+ .++.|.|.|+..|+..-|.. ...||+|+..+..
T Consensus 21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEK 70 (684)
T ss_pred hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhhhh
Confidence 36899999999876 23389999999998866544 4579999977643
No 111
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.27 E-value=0.22 Score=41.62 Aligned_cols=38 Identities=21% Similarity=0.574 Sum_probs=27.2
Q ss_pred CCccccccccccccc-cceeEecCCCCccCHhhHHHHhcC
Q 046932 101 DGIVCGVCQEEMEKE-HEARAIMECMHMFHDSCILKWLKI 139 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~-~~~~~l~~C~H~f~~~Ci~~wl~~ 139 (162)
...+|.||....... .... +..|+|.||.+|+...+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhh
Confidence 356899999444333 3333 4489999999999988764
No 112
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=86.34 E-value=0.38 Score=40.71 Aligned_cols=36 Identities=22% Similarity=0.477 Sum_probs=28.4
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI 139 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~ 139 (162)
++.+.|+||..-|..|. .+ +|+|..|+.|...-+.+
T Consensus 2 eeelkc~vc~~f~~epi---il-~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPI---IL-PCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCce---Ee-ecccHHHHHHHHhhccc
Confidence 35678999999997662 23 99999999999876654
No 113
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=86.11 E-value=0.59 Score=42.45 Aligned_cols=55 Identities=24% Similarity=0.647 Sum_probs=39.7
Q ss_pred CCCccccccccccccccceeEecCCCC-----ccCHhhHHHHhcC--CccccccccccccCCCC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMH-----MFHDSCILKWLKI--NNTCPLCRATCKPKKLH 156 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H-----~f~~~Ci~~wl~~--~~~CP~Cr~~~~~~~~~ 156 (162)
++...|-||..+-..+...-. ||.. ..|++|+.+|+.- ...|-+|..++.-+++.
T Consensus 10 ~d~~~CRICr~e~~~d~pLfh--PCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY 71 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFH--PCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIY 71 (1175)
T ss_pred ccchhceeecCCCCCCCcCcc--cccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeec
Confidence 345789999988665554422 5542 3699999999975 45799999988666654
No 114
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.64 E-value=0.39 Score=37.80 Aligned_cols=51 Identities=25% Similarity=0.622 Sum_probs=33.9
Q ss_pred CCCccccccccccccccceeEecCC-----CCccCHhhHHHHhcCC--------cccccccccc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMEC-----MHMFHDSCILKWLKIN--------NTCPLCRATC 150 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C-----~H~f~~~Ci~~wl~~~--------~~CP~Cr~~~ 150 (162)
+.+..|-||+..=++.....-+-|| .|-.|.+|+..|+..+ -+||-|+...
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 3456799999875544322112256 4678999999999642 2699998643
No 115
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=83.83 E-value=0.74 Score=36.77 Aligned_cols=50 Identities=34% Similarity=0.744 Sum_probs=35.0
Q ss_pred CccccccccccccccceeEecCCC-----CccCHhhHHHHhc--CCccccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECM-----HMFHDSCILKWLK--INNTCPLCRATCK 151 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~-----H~f~~~Ci~~wl~--~~~~CP~Cr~~~~ 151 (162)
+..|-||..............||. ...|+.|+..|+. ....|.+|.....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 467999999775433211223664 4569999999998 4678999987553
No 116
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=83.72 E-value=1 Score=26.67 Aligned_cols=43 Identities=21% Similarity=0.414 Sum_probs=20.8
Q ss_pred cccccccccccc------ceeEecCCCCccCHhhHHHHhcCCccccccc
Q 046932 105 CGVCQEEMEKEH------EARAIMECMHMFHDSCILKWLKINNTCPLCR 147 (162)
Q Consensus 105 C~IC~~~~~~~~------~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr 147 (162)
|--|+..|..+. ....-+.|++.||.+|=.--=..-..||.|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 555666665441 2223468999999999543222345799884
No 117
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.93 E-value=0.9 Score=38.65 Aligned_cols=51 Identities=27% Similarity=0.651 Sum_probs=35.5
Q ss_pred CCCccccccccccccccceeEecCCCCccCHhhHHHHhcCC--------ccccc--cccccccC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKIN--------NTCPL--CRATCKPK 153 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~--------~~CP~--Cr~~~~~~ 153 (162)
.....|.||.+.+.. .+.. +.|||.||..|+..++..+ -+||. |++.+.+.
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~-~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~ 128 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIG-LGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGED 128 (444)
T ss_pred CccccCCcccCCCcc--hhhh-cCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCc
Confidence 345689999999864 3333 3899999999999988641 24554 66655433
No 118
>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=80.42 E-value=0.44 Score=27.95 Aligned_cols=43 Identities=16% Similarity=0.458 Sum_probs=19.6
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcC-----Cccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-----NNTCPLCRAT 149 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-----~~~CP~Cr~~ 149 (162)
+.|+|....+..|.. .. .|.|.-|-+ +..|+.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~P~R--g~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVR--GK-NCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEE--ET-T--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCcc--CC-cCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 469999888875533 33 899975432 3445543 2269999764
No 119
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=80.11 E-value=0.55 Score=41.18 Aligned_cols=42 Identities=31% Similarity=0.929 Sum_probs=26.6
Q ss_pred Cccccccccc-----cccccceeEecCCCCccCHhhHHHHhcCCccccccc
Q 046932 102 GIVCGVCQEE-----MEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCR 147 (162)
Q Consensus 102 ~~~C~IC~~~-----~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr 147 (162)
...|.+|... |. ...+.....|++.||..|+.. .+..||.|-
T Consensus 511 gfiCe~Cq~~~iiyPF~-~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFE-TRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred eeeeeeccCCCcccccc-cccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 4567777332 22 223333447999999999544 455699994
No 120
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.98 E-value=0.91 Score=37.99 Aligned_cols=44 Identities=25% Similarity=0.436 Sum_probs=31.1
Q ss_pred Cccccccccccccccc--eeEecCCCCccCHhhHHHHhcCCcccccc
Q 046932 102 GIVCGVCQEEMEKEHE--ARAIMECMHMFHDSCILKWLKINNTCPLC 146 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~--~~~l~~C~H~f~~~Ci~~wl~~~~~CP~C 146 (162)
-..|+.|.-.+..... .... .|||.||..|...|......|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~C-rC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTC-RCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEe-eccccchhhcCcchhhCCccccCc
Confidence 3568888777654332 2234 599999999999998777766554
No 121
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.94 E-value=0.98 Score=36.16 Aligned_cols=37 Identities=27% Similarity=0.606 Sum_probs=29.5
Q ss_pred CCCccccccccccccccceeEecCC----CCccCHhhHHHHhcCC
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMEC----MHMFHDSCILKWLKIN 140 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C----~H~f~~~Ci~~wl~~~ 140 (162)
...+.|.+|.+.+++..-+ .| .|.||-.|-...++.+
T Consensus 266 ~apLcCTLC~ERLEDTHFV----QCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFV----QCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CCceeehhhhhhhccCcee----ecCCCcccceecccCHHHHHhh
Confidence 4467899999999866555 45 7999999999988763
No 122
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.10 E-value=1.9 Score=33.98 Aligned_cols=53 Identities=19% Similarity=0.382 Sum_probs=39.4
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCC
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKL 155 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 155 (162)
..+.|+|---++........+-+|||.|-..-+.+. ....|++|.+.+...++
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDV 162 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCe
Confidence 357899988777655555455599999987666553 36789999999877764
No 123
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=77.74 E-value=2.8 Score=28.96 Aligned_cols=45 Identities=22% Similarity=0.368 Sum_probs=32.6
Q ss_pred cccccccccccccc----------ceeEecCCCCccCHhhHHHHhcCCccccccc
Q 046932 103 IVCGVCQEEMEKEH----------EARAIMECMHMFHDSCILKWLKINNTCPLCR 147 (162)
Q Consensus 103 ~~C~IC~~~~~~~~----------~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr 147 (162)
..|--|+..|..+. ..-.-..|.+.||.+|-.-+-..-..||.|.
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 46999999886431 1122358999999999777666666799995
No 124
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.06 E-value=1.9 Score=33.96 Aligned_cols=32 Identities=13% Similarity=0.206 Sum_probs=26.6
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLK 138 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~ 138 (162)
..|+.|+.++..|... +=||.|+++||.+++.
T Consensus 44 dcCsLtLqPc~dPvit----~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 44 DCCSLTLQPCRDPVIT----PDGYLFDREAILEYIL 75 (303)
T ss_pred ceeeeecccccCCccC----CCCeeeeHHHHHHHHH
Confidence 3699999999877444 8899999999998764
No 125
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=75.87 E-value=1.7 Score=33.00 Aligned_cols=42 Identities=29% Similarity=0.854 Sum_probs=28.2
Q ss_pred CCccccccccc-----cccccceeEecCCCCccCHhhHHHHhcCCcccccccc
Q 046932 101 DGIVCGVCQEE-----MEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 101 ~~~~C~IC~~~-----~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
.+..|-+|... |.. ..+.....|+..||..|..+ ..||.|..
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 35678888753 222 23444568999999999652 66999953
No 126
>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=75.02 E-value=1.5 Score=27.25 Aligned_cols=13 Identities=31% Similarity=0.830 Sum_probs=9.2
Q ss_pred ccCHhhHHHHhcC
Q 046932 127 MFHDSCILKWLKI 139 (162)
Q Consensus 127 ~f~~~Ci~~wl~~ 139 (162)
.||+.|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999863
No 127
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=74.88 E-value=2.8 Score=34.19 Aligned_cols=49 Identities=18% Similarity=0.382 Sum_probs=35.4
Q ss_pred ccccccccccccc-cceeEecCCCCccCHhhHHHHhcCCcccccccccccc
Q 046932 103 IVCGVCQEEMEKE-HEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKP 152 (162)
Q Consensus 103 ~~C~IC~~~~~~~-~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~ 152 (162)
..|+||.+..... ...... +|++..|..|...-...+.+||.||.+...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~-~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPC-PCGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccc-cccccchhhhhhcccccCCCCCccCCcccc
Confidence 6799999987322 233223 788888888877766678899999976643
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=74.87 E-value=1.3 Score=27.32 Aligned_cols=37 Identities=14% Similarity=0.355 Sum_probs=18.9
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHh
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWL 137 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl 137 (162)
+...|.+|...|..-..-..--.||+.||..|.....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 3467999999996443333334799999999987544
No 129
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.20 E-value=1.3 Score=40.13 Aligned_cols=43 Identities=23% Similarity=0.541 Sum_probs=28.3
Q ss_pred ccccccccccccc---ceeEecCCCCccCHhhHHHHhcCCccccccc
Q 046932 104 VCGVCQEEMEKEH---EARAIMECMHMFHDSCILKWLKINNTCPLCR 147 (162)
Q Consensus 104 ~C~IC~~~~~~~~---~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr 147 (162)
.|..|.+...... ....+..|||.||..|+..-..++. |-.|-
T Consensus 786 rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 786 RCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred hhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 6999998875332 2223348999999999875443333 65554
No 130
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=71.78 E-value=3.3 Score=37.44 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=28.7
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPL 145 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~ 145 (162)
..|.+|-..+. +..+ -...|||.-|.+|+..|+....-||.
T Consensus 780 ~~CtVC~~vi~-G~~~-~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIR-GVDV-WCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred cCceeecceee-eeEe-ecccccccccHHHHHHHHhcCCCCcc
Confidence 35777765543 1111 12379999999999999998877766
No 131
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=69.41 E-value=4.7 Score=25.93 Aligned_cols=49 Identities=24% Similarity=0.512 Sum_probs=19.6
Q ss_pred Cccccccccccccc---cceeEecCCCCccCHhhHHHHhc-CCcccccccccc
Q 046932 102 GIVCGVCQEEMEKE---HEARAIMECMHMFHDSCILKWLK-INNTCPLCRATC 150 (162)
Q Consensus 102 ~~~C~IC~~~~~~~---~~~~~l~~C~H~f~~~Ci~~wl~-~~~~CP~Cr~~~ 150 (162)
.-.|.||-+.+... ..-+....|+-..|+.|..-=.+ .++.||.|+...
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 34699999887532 22222247888889999864333 478999999765
No 132
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the 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=67.41 E-value=3.1 Score=20.96 Aligned_cols=8 Identities=38% Similarity=0.987 Sum_probs=4.4
Q ss_pred cccccccc
Q 046932 105 CGVCQEEM 112 (162)
Q Consensus 105 C~IC~~~~ 112 (162)
|+-|...+
T Consensus 3 CP~C~~~V 10 (26)
T PF10571_consen 3 CPECGAEV 10 (26)
T ss_pred CCCCcCCc
Confidence 55555554
No 134
>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=66.48 E-value=0.88 Score=28.70 Aligned_cols=39 Identities=28% Similarity=0.555 Sum_probs=18.4
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
..|+.|..++... . +|.+|..|-.. +.....||.|..++
T Consensus 2 ~~CP~C~~~L~~~-------~-~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQ-------G-GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEE-------T-TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEe-------C-CEEECcccccc-ceecccCCCcccHH
Confidence 3688888776422 1 45556666554 34456677777655
No 135
>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=66.48 E-value=4.8 Score=23.60 Aligned_cols=36 Identities=14% Similarity=0.345 Sum_probs=24.9
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLK 138 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~ 138 (162)
..|.+|...|..-..-.....||+.||..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 368899888765433323348999999999876543
No 136
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.83 E-value=2.1 Score=34.55 Aligned_cols=47 Identities=26% Similarity=0.594 Sum_probs=38.1
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
....|-||...+..+.... .|.|.|+..|...|....+.||.|+...
T Consensus 104 ~~~~~~~~~g~l~vpt~~q---g~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 104 DHDICYICYGKLTVPTRIQ---GCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CccceeeeeeeEEeccccc---CceeeeeecCCchhhhhhhccchhhcCc
Confidence 3457999999887654442 7999999999999999999999998644
No 137
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=64.52 E-value=4.9 Score=32.81 Aligned_cols=47 Identities=21% Similarity=0.442 Sum_probs=32.2
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcC---Ccccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI---NNTCPLCRA 148 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~---~~~CP~Cr~ 148 (162)
.-+.||+-.+.-........+ .|||..-.+-+...-+. ...||.|-.
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml-~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 335 SLFICPVLKELCTDENPPVML-ECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred ceeeccccHhhhcccCCCeee-eccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 356898866655444444344 99999999888876544 346999943
No 138
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=63.65 E-value=4.4 Score=23.19 Aligned_cols=43 Identities=26% Similarity=0.539 Sum_probs=27.6
Q ss_pred cccccccccccccceeEecCCCCccCHhhHHHHhc------CCccccccc
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLK------INNTCPLCR 147 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~------~~~~CP~Cr 147 (162)
.|.||.... ....++.--.|+..||..|+..-.. ..-.||.|+
T Consensus 1 ~C~vC~~~~-~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSD-DDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSC-TTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcC-CCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 378888833 3334444457899999999864332 134688875
No 139
>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=62.75 E-value=7 Score=26.59 Aligned_cols=48 Identities=23% Similarity=0.502 Sum_probs=28.4
Q ss_pred CCcccccccccccccccee----EecCC---CCccCHhhHHHHhcC---------Ccccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEAR----AIMEC---MHMFHDSCILKWLKI---------NNTCPLCRA 148 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~----~l~~C---~H~f~~~Ci~~wl~~---------~~~CP~Cr~ 148 (162)
.+..|-.|..........- ....| .-.||..|+..++.. .-.||.||.
T Consensus 6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 3456777766443221110 11255 667999999887753 236999985
No 140
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=60.71 E-value=60 Score=23.28 Aligned_cols=21 Identities=29% Similarity=0.733 Sum_probs=14.5
Q ss_pred CCCccccccccccccccceeEecCCCCc
Q 046932 100 EDGIVCGVCQEEMEKEHEARAIMECMHM 127 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~ 127 (162)
.++.+|.||+..-..+ .|||.
T Consensus 63 ~ddatC~IC~KTKFAD-------G~GH~ 83 (169)
T KOG3799|consen 63 GDDATCGICHKTKFAD-------GCGHN 83 (169)
T ss_pred CcCcchhhhhhccccc-------ccCcc
Confidence 4557899999764333 67775
No 142
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=58.80 E-value=7.5 Score=31.86 Aligned_cols=46 Identities=24% Similarity=0.461 Sum_probs=30.0
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
...|-.|.+........+. ..|.+.||..|-.--=..-..||.|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C-~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRC-ESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEc-hhccceeeccchHHHHhhhhcCCCcCC
Confidence 3458888776655444433 379999999996543233346999963
No 143
>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=56.04 E-value=1.9 Score=34.55 Aligned_cols=48 Identities=19% Similarity=0.285 Sum_probs=20.7
Q ss_pred CccccccccccccccceeEec-CCCCccCHhhHHHHhcCCccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIM-ECMHMFHDSCILKWLKINNTCPLCRAT 149 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~-~C~H~f~~~Ci~~wl~~~~~CP~Cr~~ 149 (162)
...|+||-.......-...-. .=.|.+|..|-..|--.+..||.|-..
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 458999987754221111000 124567888999998778899999753
No 144
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=55.56 E-value=13 Score=30.53 Aligned_cols=51 Identities=20% Similarity=0.489 Sum_probs=30.5
Q ss_pred Cccccccccccc---------------cccceeEecCCCCccCHhhHHHHhcC---------Ccccccccccccc
Q 046932 102 GIVCGVCQEEME---------------KEHEARAIMECMHMFHDSCILKWLKI---------NNTCPLCRATCKP 152 (162)
Q Consensus 102 ~~~C~IC~~~~~---------------~~~~~~~l~~C~H~f~~~Ci~~wl~~---------~~~CP~Cr~~~~~ 152 (162)
..+|++|+..-. .+.......||||.--..=..-|-+. +..||.|-..+..
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 568999987521 11111122399997555445556542 4579999887743
No 145
>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=53.87 E-value=4.8 Score=23.69 Aligned_cols=13 Identities=31% Similarity=0.828 Sum_probs=6.6
Q ss_pred Ccccccccccccc
Q 046932 140 NNTCPLCRATCKP 152 (162)
Q Consensus 140 ~~~CP~Cr~~~~~ 152 (162)
...||+|..++.+
T Consensus 20 ~~~CPlC~r~l~~ 32 (54)
T PF04423_consen 20 KGCCPLCGRPLDE 32 (54)
T ss_dssp SEE-TTT--EE-H
T ss_pred CCcCCCCCCCCCH
Confidence 3389999988854
No 146
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.82 E-value=5.3 Score=34.91 Aligned_cols=43 Identities=42% Similarity=0.967 Sum_probs=33.2
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKP 152 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~ 152 (162)
...|.||+... .. ..++|. |..|+.+|+..+..||.|+..+..
T Consensus 479 ~~~~~~~~~~~----~~-~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~ 521 (543)
T KOG0802|consen 479 NDVCAICYQEM----SA-RITPCS---HALCLRKWLYVQEVCPLCHTYMKE 521 (543)
T ss_pred cCcchHHHHHH----Hh-cccccc---chhHHHhhhhhccccCCCchhhhc
Confidence 45799999887 11 223677 889999999999999999876643
No 147
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=53.40 E-value=16 Score=33.44 Aligned_cols=46 Identities=28% Similarity=0.476 Sum_probs=29.0
Q ss_pred CCccccccccccccc----c-----ceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 101 DGIVCGVCQEEMEKE----H-----EARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~----~-----~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
.+..|+-|...|... . .....+.|.|.-|..=|.+ .+.||+|...+
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~----y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK----YNCCPLCHSME 1184 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc----cccCccccChh
Confidence 456788888887421 1 1123357888777644433 67899998765
No 148
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=52.03 E-value=9.2 Score=20.71 Aligned_cols=13 Identities=23% Similarity=0.575 Sum_probs=8.9
Q ss_pred ccccccccccccc
Q 046932 104 VCGVCQEEMEKEH 116 (162)
Q Consensus 104 ~C~IC~~~~~~~~ 116 (162)
.|+-|...|..+.
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 5888877776444
No 149
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.62 E-value=6 Score=26.25 Aligned_cols=13 Identities=23% Similarity=0.769 Sum_probs=11.1
Q ss_pred ccCHhhHHHHhcC
Q 046932 127 MFHDSCILKWLKI 139 (162)
Q Consensus 127 ~f~~~Ci~~wl~~ 139 (162)
.||+.|+..|++.
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999864
No 150
>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=50.91 E-value=5.1 Score=33.61 Aligned_cols=50 Identities=18% Similarity=0.483 Sum_probs=0.0
Q ss_pred Cccccccccccc-------------cc---cceeEecCCCCccCHhhHHHHhcC---------Ccccccccccccc
Q 046932 102 GIVCGVCQEEME-------------KE---HEARAIMECMHMFHDSCILKWLKI---------NNTCPLCRATCKP 152 (162)
Q Consensus 102 ~~~C~IC~~~~~-------------~~---~~~~~l~~C~H~f~~~Ci~~wl~~---------~~~CP~Cr~~~~~ 152 (162)
..+|++|+..-. .+ -..... ||||..-.....-|-+. +..||.|-.++..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~-PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFN-PCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeec-ccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 568999986521 00 111133 99998766667777643 3579999988853
No 151
>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=50.83 E-value=9 Score=26.41 Aligned_cols=46 Identities=20% Similarity=0.457 Sum_probs=27.1
Q ss_pred Ccccccccccccccc-ceeEecCCCCccCHhhHHHHhcCCc--ccccccc
Q 046932 102 GIVCGVCQEEMEKEH-EARAIMECMHMFHDSCILKWLKINN--TCPLCRA 148 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~-~~~~l~~C~H~f~~~Ci~~wl~~~~--~CP~Cr~ 148 (162)
...|.+|...|..-. .-.....|.|.+|..|-.. ..... .|-+|..
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 457999998874221 2233458999999999654 11111 4888864
No 152
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=50.75 E-value=9.9 Score=25.20 Aligned_cols=40 Identities=18% Similarity=0.536 Sum_probs=29.5
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCC
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKK 154 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~ 154 (162)
...|-||...+. .=||.||..|... ...|.+|-..+.+..
T Consensus 44 ~~~C~~CK~~v~---------q~g~~YCq~CAYk----kGiCamCGKki~dtk 83 (90)
T PF10235_consen 44 SSKCKICKTKVH---------QPGAKYCQTCAYK----KGICAMCGKKILDTK 83 (90)
T ss_pred Cccccccccccc---------cCCCccChhhhcc----cCcccccCCeecccc
Confidence 346999987653 3478899999655 567999988885544
No 153
>PLN02189 cellulose synthase
Probab=47.92 E-value=16 Score=34.54 Aligned_cols=50 Identities=26% Similarity=0.488 Sum_probs=33.9
Q ss_pred Cccccccccccc---cccceeEecCCCCccCHhhHHHHh-cCCccccccccccc
Q 046932 102 GIVCGVCQEEME---KEHEARAIMECMHMFHDSCILKWL-KINNTCPLCRATCK 151 (162)
Q Consensus 102 ~~~C~IC~~~~~---~~~~~~~l~~C~H~f~~~Ci~~wl-~~~~~CP~Cr~~~~ 151 (162)
...|.||-+.+. .++.-+..-.|+-..|+.|..-=. ..+.+||.|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 347999999975 233333334688889999984322 23778999997664
No 154
>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=46.57 E-value=19 Score=20.79 Aligned_cols=40 Identities=15% Similarity=0.403 Sum_probs=20.8
Q ss_pred ccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCC
Q 046932 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKK 154 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~ 154 (162)
|..|...+.....++. .-+..||..| ..|-.|+.++.+..
T Consensus 1 C~~C~~~I~~~~~~~~--~~~~~~H~~C--------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK--AMGKFWHPEC--------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEEE--ETTEEEETTT--------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEEE--eCCcEEEccc--------cccCCCCCccCCCe
Confidence 4556666553333211 3456666655 24666666664443
No 155
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.52 E-value=20 Score=22.76 Aligned_cols=50 Identities=16% Similarity=0.468 Sum_probs=30.2
Q ss_pred cccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccccccccCCC
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPKKL 155 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 155 (162)
.|--|-.++..+..-..+-.=.|+||..|...- .+..||.|-..+....+
T Consensus 7 nCECCDrDLpp~s~dA~ICtfEcTFCadCae~~--l~g~CPnCGGelv~RP~ 56 (84)
T COG3813 7 NCECCDRDLPPDSTDARICTFECTFCADCAENR--LHGLCPNCGGELVARPI 56 (84)
T ss_pred CCcccCCCCCCCCCceeEEEEeeehhHhHHHHh--hcCcCCCCCchhhcCcC
Confidence 455566666544333222012578999998864 36789999776644433
No 156
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=46.42 E-value=13 Score=24.88 Aligned_cols=33 Identities=21% Similarity=0.497 Sum_probs=21.9
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHH
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILK 135 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~ 135 (162)
...|.||......-..... ..|...||..|...
T Consensus 55 ~~~C~iC~~~~G~~i~C~~-~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKSGGACIKCSH-PGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCCCceeEEcCC-CCCCcCCCHHHHHH
Confidence 4689999988332212211 25888999999866
No 157
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=45.90 E-value=17 Score=34.44 Aligned_cols=49 Identities=24% Similarity=0.506 Sum_probs=33.2
Q ss_pred cccccccccccc---ccceeEecCCCCccCHhhHH-HHhcCCccccccccccc
Q 046932 103 IVCGVCQEEMEK---EHEARAIMECMHMFHDSCIL-KWLKINNTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~~---~~~~~~l~~C~H~f~~~Ci~-~wl~~~~~CP~Cr~~~~ 151 (162)
-.|.||-+++.. ++.-+..-.|+-..|+.|.. +.-..+..||.|+....
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 479999998753 23222234788889999984 22233778999987664
No 158
>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=44.41 E-value=5.7 Score=32.28 Aligned_cols=47 Identities=13% Similarity=0.325 Sum_probs=29.9
Q ss_pred CccccccccccccccceeE--ecCCCCccCHhhHHHHhcCCcccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARA--IMECMHMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~--l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
...|++|-..-........ -..=.+.+|..|-..|--.+..||.|..
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 3479999887532211100 0012245677899999877889999975
No 159
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=43.77 E-value=13 Score=21.82 Aligned_cols=23 Identities=26% Similarity=0.651 Sum_probs=12.5
Q ss_pred CCCCccCHhhHHHHhcCCcccccc
Q 046932 123 ECMHMFHDSCILKWLKINNTCPLC 146 (162)
Q Consensus 123 ~C~H~f~~~Ci~~wl~~~~~CP~C 146 (162)
.|||.|-..= ..-......||.|
T Consensus 33 ~Cgh~w~~~v-~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASV-NDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEccH-hhhccCCCCCCCC
Confidence 5666654322 2222456779887
No 160
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=43.27 E-value=8.2 Score=22.87 Aligned_cols=16 Identities=25% Similarity=0.625 Sum_probs=13.0
Q ss_pred ecCCCCccCHhhHHHH
Q 046932 121 IMECMHMFHDSCILKW 136 (162)
Q Consensus 121 l~~C~H~f~~~Ci~~w 136 (162)
.+.|++.||..|...|
T Consensus 43 C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 43 CPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCCCeECCCCCCcC
Confidence 3468999999998877
No 161
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.18 E-value=3.7 Score=32.71 Aligned_cols=47 Identities=21% Similarity=0.489 Sum_probs=34.5
Q ss_pred ccccccccccccc--cceeEecC--------CCCccCHhhHHHHhcC-Cccccccccc
Q 046932 103 IVCGVCQEEMEKE--HEARAIME--------CMHMFHDSCILKWLKI-NNTCPLCRAT 149 (162)
Q Consensus 103 ~~C~IC~~~~~~~--~~~~~l~~--------C~H~f~~~Ci~~wl~~-~~~CP~Cr~~ 149 (162)
..|.||...+... ..+..+.. |||..|..|+..-+.. ...||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 5699999998732 22222335 9999999999987655 4589999863
No 162
>PLN02436 cellulose synthase A
Probab=42.58 E-value=21 Score=33.87 Aligned_cols=49 Identities=27% Similarity=0.527 Sum_probs=33.4
Q ss_pred ccccccccccc---cccceeEecCCCCccCHhhHHHHhc-CCccccccccccc
Q 046932 103 IVCGVCQEEME---KEHEARAIMECMHMFHDSCILKWLK-INNTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~---~~~~~~~l~~C~H~f~~~Ci~~wl~-~~~~CP~Cr~~~~ 151 (162)
-.|.||-+++. .++.-+..-.|+-..|+.|..-=.+ .+.+||.|+....
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 47999999964 3333333336888899999843222 3778999997664
No 163
>PLN02195 cellulose synthase A
Probab=42.31 E-value=27 Score=32.88 Aligned_cols=49 Identities=22% Similarity=0.445 Sum_probs=33.3
Q ss_pred ccccccccccccc---cceeEecCCCCccCHhhHHHHhc-CCccccccccccc
Q 046932 103 IVCGVCQEEMEKE---HEARAIMECMHMFHDSCILKWLK-INNTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~~~---~~~~~l~~C~H~f~~~Ci~~wl~-~~~~CP~Cr~~~~ 151 (162)
..|.||-+.+... +.-+..-.|+-..|+.|..-=.+ .+..||.|+....
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 4699999876532 22223347888899999832222 2678999998775
No 164
>PLN02400 cellulose synthase
Probab=41.84 E-value=19 Score=34.14 Aligned_cols=49 Identities=18% Similarity=0.452 Sum_probs=33.0
Q ss_pred cccccccccccc---ccceeEecCCCCccCHhhHHH-HhcCCccccccccccc
Q 046932 103 IVCGVCQEEMEK---EHEARAIMECMHMFHDSCILK-WLKINNTCPLCRATCK 151 (162)
Q Consensus 103 ~~C~IC~~~~~~---~~~~~~l~~C~H~f~~~Ci~~-wl~~~~~CP~Cr~~~~ 151 (162)
-.|.||-+++.. ++.-+..-.|+-..|+.|..- .-..+..||.|+....
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 479999999753 333333347888899999832 1223678999987663
No 165
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=41.58 E-value=13 Score=30.27 Aligned_cols=48 Identities=15% Similarity=0.308 Sum_probs=30.7
Q ss_pred CCccccccccccccccceeE-ecCCCCccCHhhHHHHhcCCcccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEARA-IMECMHMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~-l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
....|++|-........... --.=.+.+|..|-..|--.+..||.|..
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 34689999887542211000 0012345688899999878889999975
No 166
>PF08621 RPAP1_N: RPAP1-like, N-terminal; InterPro: IPR013930 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the N-terminal region of RPAP-1 that is conserved from yeast to humans.
Probab=41.53 E-value=22 Score=20.75 Aligned_cols=20 Identities=35% Similarity=0.423 Sum_probs=16.8
Q ss_pred CccccHHHHHHHHHHHHhhh
Q 046932 1 MEQMNELEIAISKAELLLRL 20 (162)
Q Consensus 1 ~~~~~~~~~~~~~~~~l~~l 20 (162)
|.+|+++||..-+.+++.+|
T Consensus 12 L~~MS~eEI~~er~eL~~~L 31 (49)
T PF08621_consen 12 LASMSPEEIEEEREELLESL 31 (49)
T ss_pred HHhCCHHHHHHHHHHHHHhC
Confidence 46789999999999988865
No 167
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=41.29 E-value=23 Score=17.95 Aligned_cols=29 Identities=21% Similarity=0.492 Sum_probs=9.3
Q ss_pred cccccccccccccceeEecCCCCccCHhhH
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCI 133 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci 133 (162)
.|.+|...... ...-.-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47778777654 122233478888888775
No 168
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.19 E-value=19 Score=32.46 Aligned_cols=43 Identities=23% Similarity=0.580 Sum_probs=30.8
Q ss_pred cccccccccccccceeEecCCCC-ccCHhhHHHHhc--C----Ccccccccccc
Q 046932 104 VCGVCQEEMEKEHEARAIMECMH-MFHDSCILKWLK--I----NNTCPLCRATC 150 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H-~f~~~Ci~~wl~--~----~~~CP~Cr~~~ 150 (162)
.|+||-...... ....||| ..|..|..+... . .+.||+||..+
T Consensus 2 ~c~ic~~s~~~~----~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~ 51 (669)
T KOG2231|consen 2 SCAICAFSPDFV----GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREV 51 (669)
T ss_pred CcceeecCcccc----ccccccccccchhhhhhhhhhcccccccccCcccccce
Confidence 488988776432 2338999 899999876532 2 55789999866
No 169
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=40.71 E-value=5.7 Score=20.71 Aligned_cols=23 Identities=26% Similarity=0.502 Sum_probs=8.7
Q ss_pred CccCHhhHHHHhcC----Ccccccccc
Q 046932 126 HMFHDSCILKWLKI----NNTCPLCRA 148 (162)
Q Consensus 126 H~f~~~Ci~~wl~~----~~~CP~Cr~ 148 (162)
|.||..|-.+-... ...||.|..
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 45555555432221 335666654
No 170
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=39.93 E-value=20 Score=28.13 Aligned_cols=25 Identities=20% Similarity=0.446 Sum_probs=17.7
Q ss_pred ccccccccccccccceeEecCCCCcc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMF 128 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f 128 (162)
+.||+|...+......... +.+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C-~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWIC-PQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEc-CCCCCC
Confidence 5799999999754444333 558888
No 171
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=39.57 E-value=19 Score=23.09 Aligned_cols=33 Identities=21% Similarity=0.467 Sum_probs=22.3
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHH
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILK 135 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~ 135 (162)
...|.+|........... ...|.-.||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~-~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCS-HPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEe-CCCCCcEEChHHHcc
Confidence 357999997733222222 237899999999765
No 172
>PLN02248 cellulose synthase-like protein
Probab=37.92 E-value=24 Score=33.69 Aligned_cols=32 Identities=25% Similarity=0.567 Sum_probs=27.2
Q ss_pred CCCCccCHhhHHHHhcCCccccccccccccCC
Q 046932 123 ECMHMFHDSCILKWLKINNTCPLCRATCKPKK 154 (162)
Q Consensus 123 ~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~~~ 154 (162)
.|++..|++|....++....||-|+.+....+
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 180 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKVTD 180 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccccc
Confidence 56888899999999988889999998875444
No 173
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=37.78 E-value=29 Score=18.64 Aligned_cols=13 Identities=31% Similarity=0.705 Sum_probs=8.7
Q ss_pred ccccccccccccc
Q 046932 104 VCGVCQEEMEKEH 116 (162)
Q Consensus 104 ~C~IC~~~~~~~~ 116 (162)
+|+-|...|..++
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5777777776443
No 174
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=36.95 E-value=20 Score=28.37 Aligned_cols=41 Identities=15% Similarity=0.297 Sum_probs=31.2
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC--Cccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--NNTCPL 145 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--~~~CP~ 145 (162)
...|+|-...+..|..- . .|||.|-+.-|...+.. ...||+
T Consensus 176 s~rdPis~~~I~nPviS--k-kC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVIS--K-KCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred cccCchhhhhhhchhhh--c-CcCcchhhhhHHHHhccCceeeccc
Confidence 45799877777755333 2 89999999999998876 446877
No 175
>PF14353 CpXC: CpXC protein
Probab=36.80 E-value=26 Score=24.21 Aligned_cols=44 Identities=27% Similarity=0.278 Sum_probs=23.3
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcC---Ccccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI---NNTCPLCRATC 150 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~---~~~CP~Cr~~~ 150 (162)
.+|+-|...|.......+ .-.....=...-+.. ..+||.|...+
T Consensus 2 itCP~C~~~~~~~v~~~I----~~~~~p~l~e~il~g~l~~~~CP~Cg~~~ 48 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSI----NADEDPELKEKILDGSLFSFTCPSCGHKF 48 (128)
T ss_pred cCCCCCCCeeEEEEEeEE----cCcCCHHHHHHHHcCCcCEEECCCCCCce
Confidence 468888877764433221 111223333333332 45799998766
No 176
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=36.70 E-value=19 Score=18.88 Aligned_cols=9 Identities=44% Similarity=1.084 Sum_probs=6.5
Q ss_pred Ccccccccc
Q 046932 140 NNTCPLCRA 148 (162)
Q Consensus 140 ~~~CP~Cr~ 148 (162)
...||+|.+
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 347999975
No 177
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=36.25 E-value=20 Score=28.58 Aligned_cols=48 Identities=25% Similarity=0.560 Sum_probs=32.5
Q ss_pred ccccccccccccccceeE---ecCCCCccCHhhHHHHhcC---------Ccccccccccc
Q 046932 103 IVCGVCQEEMEKEHEARA---IMECMHMFHDSCILKWLKI---------NNTCPLCRATC 150 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~---l~~C~H~f~~~Ci~~wl~~---------~~~CP~Cr~~~ 150 (162)
..|.+|...+......+. -+.|+-.+|..|+..-+.. ...||.|+..+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 479999999843332221 1468888999999884432 23699998744
No 178
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=34.62 E-value=18 Score=33.34 Aligned_cols=24 Identities=25% Similarity=0.555 Sum_probs=17.4
Q ss_pred CCcccc---ccccccccCCCCccccCC
Q 046932 139 INNTCP---LCRATCKPKKLHFQEIKI 162 (162)
Q Consensus 139 ~~~~CP---~Cr~~~~~~~~~~~~~~~ 162 (162)
...+|| +|...+...-...++|.|
T Consensus 664 ~q~ScP~~~ic~~kftn~V~lpQhIri 690 (958)
T KOG1074|consen 664 VQFSCPSTFICQKKFTNAVTLPQHIRI 690 (958)
T ss_pred ccccCCchhhhcccccccccccceEEe
Confidence 345899 999888766666777654
No 179
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=34.51 E-value=11 Score=30.15 Aligned_cols=28 Identities=29% Similarity=0.483 Sum_probs=14.6
Q ss_pred CCccCHhhHHHHhcC----Ccccccccccccc
Q 046932 125 MHMFHDSCILKWLKI----NNTCPLCRATCKP 152 (162)
Q Consensus 125 ~H~f~~~Ci~~wl~~----~~~CP~Cr~~~~~ 152 (162)
.|.||..|-.+-... ...||.|+....|
T Consensus 110 ~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fP 141 (279)
T COG2816 110 SHRFCGRCGTKTYPREGGWARVCPKCGHEHFP 141 (279)
T ss_pred hCcCCCCCCCcCccccCceeeeCCCCCCccCC
Confidence 455555555443322 3457777665533
No 180
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=34.44 E-value=19 Score=21.94 Aligned_cols=15 Identities=27% Similarity=0.897 Sum_probs=11.0
Q ss_pred CccccccccccccCC
Q 046932 140 NNTCPLCRATCKPKK 154 (162)
Q Consensus 140 ~~~CP~Cr~~~~~~~ 154 (162)
|+-||.|..++.+..
T Consensus 3 HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDE 17 (59)
T ss_pred CCcCCcCCCcCCcch
Confidence 667888888886543
No 181
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=32.66 E-value=23 Score=21.54 Aligned_cols=12 Identities=33% Similarity=0.996 Sum_probs=9.8
Q ss_pred Cccccccccccc
Q 046932 140 NNTCPLCRATCK 151 (162)
Q Consensus 140 ~~~CP~Cr~~~~ 151 (162)
...||+|..+..
T Consensus 39 ~p~CPlC~s~M~ 50 (59)
T PF14169_consen 39 EPVCPLCKSPMV 50 (59)
T ss_pred CccCCCcCCccc
Confidence 578999998873
No 182
>PRK01343 zinc-binding protein; Provisional
Probab=31.47 E-value=30 Score=20.91 Aligned_cols=9 Identities=33% Similarity=0.988 Sum_probs=4.5
Q ss_pred ccccccccc
Q 046932 142 TCPLCRATC 150 (162)
Q Consensus 142 ~CP~Cr~~~ 150 (162)
.||+|++++
T Consensus 11 ~CP~C~k~~ 19 (57)
T PRK01343 11 PCPECGKPS 19 (57)
T ss_pred cCCCCCCcC
Confidence 455555543
No 183
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=31.45 E-value=11 Score=21.01 Aligned_cols=25 Identities=28% Similarity=0.454 Sum_probs=13.9
Q ss_pred CCCCccCHhhHHHHhcCCcccccccc
Q 046932 123 ECMHMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 123 ~C~H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
.|||.|-...-..= .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 67777754221110 12457999987
No 184
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=31.15 E-value=18 Score=21.45 Aligned_cols=10 Identities=50% Similarity=1.295 Sum_probs=4.8
Q ss_pred cccccccccc
Q 046932 142 TCPLCRATCK 151 (162)
Q Consensus 142 ~CP~Cr~~~~ 151 (162)
+||+|.+.+.
T Consensus 26 tCP~C~a~~~ 35 (54)
T PF09237_consen 26 TCPICGAVIR 35 (54)
T ss_dssp E-TTT--EES
T ss_pred CCCcchhhcc
Confidence 6888877663
No 185
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=30.54 E-value=44 Score=31.72 Aligned_cols=50 Identities=24% Similarity=0.398 Sum_probs=33.6
Q ss_pred Ccccccccccccc---ccceeEecCCCCccCHhhHHHHh-cCCccccccccccc
Q 046932 102 GIVCGVCQEEMEK---EHEARAIMECMHMFHDSCILKWL-KINNTCPLCRATCK 151 (162)
Q Consensus 102 ~~~C~IC~~~~~~---~~~~~~l~~C~H~f~~~Ci~~wl-~~~~~CP~Cr~~~~ 151 (162)
.-.|.||-+.... ++.-+..-.|+-..|+.|..-=. ..+..||.|+....
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3469999998753 23222234788889999984322 23778999987664
No 186
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=29.31 E-value=38 Score=27.81 Aligned_cols=43 Identities=7% Similarity=-0.099 Sum_probs=29.3
Q ss_pred CccccccccccccccceeEecCCCC-ccCHhhHHHHhcCCcccccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMH-MFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H-~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
...|..|-.-+.. . .+.+|+| .||.+|.. +....+||.|....
T Consensus 343 ~~~~~~~~~~~~s---t-~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 343 SLKGTSAGFGLLS---T-IWSGGNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hcccccccCceee---e-EeecCCcccChhhhhh--cccCCccccccccc
Confidence 3467777665432 2 2349998 57888877 55688999997644
No 187
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=29.25 E-value=30 Score=31.46 Aligned_cols=50 Identities=24% Similarity=0.463 Sum_probs=33.7
Q ss_pred CCcccccccccccccccee------EecCCCCcc--------------------CHhhHHHHhcC--------Ccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEAR------AIMECMHMF--------------------HDSCILKWLKI--------NNTCPLC 146 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~------~l~~C~H~f--------------------~~~Ci~~wl~~--------~~~CP~C 146 (162)
+-.+|.-|++++..+...+ ..+.||.+| |..|-..+-.- -..||.|
T Consensus 100 D~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~C 179 (750)
T COG0068 100 DAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPKC 179 (750)
T ss_pred chhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCccc
Confidence 4468999999998776433 235788887 88887766421 2368888
Q ss_pred cccc
Q 046932 147 RATC 150 (162)
Q Consensus 147 r~~~ 150 (162)
.-.+
T Consensus 180 GP~~ 183 (750)
T COG0068 180 GPHL 183 (750)
T ss_pred CCCe
Confidence 6433
No 188
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=29.24 E-value=29 Score=27.24 Aligned_cols=41 Identities=20% Similarity=0.236 Sum_probs=30.1
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC--Cccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--NNTCPL 145 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--~~~CP~ 145 (162)
...|+|-+.+..-+ +.. ..|+|.|-.+-|...++. ...||.
T Consensus 189 ~nrCpitl~p~~~p--ils-~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP--ILS-SKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH--HHH-hhhcccccHHHHHHHhcCCceeecch
Confidence 45799977766533 222 389999999999999985 456775
No 189
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=27.93 E-value=22 Score=31.11 Aligned_cols=38 Identities=21% Similarity=0.410 Sum_probs=25.4
Q ss_pred cCCCCCccccccccccccccceeEecCCCCccCHhhHH
Q 046932 97 VDGEDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCIL 134 (162)
Q Consensus 97 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~ 134 (162)
+..++...|..|..+|..-......-.||-.||..|-.
T Consensus 896 ipd~~a~~cmacq~pf~afrrrhhcrncggifcg~cs~ 933 (990)
T KOG1819|consen 896 IPDEDAEQCMACQMPFNAFRRRHHCRNCGGIFCGKCSC 933 (990)
T ss_pred CCCCcchhhhhccCcHHHHHHhhhhcccCceeeccccc
Confidence 34556678999999985332211222899999998854
No 190
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.81 E-value=28 Score=31.33 Aligned_cols=42 Identities=21% Similarity=0.456 Sum_probs=27.7
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhcCCccccccc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCR 147 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr 147 (162)
.+|-+|...=.....+...+.|+-.||..|..+ -.+.||+|-
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~---~~~~~~vC~ 696 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVACSLD---YASISEVCG 696 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhhhhh---hhccCcccC
Confidence 468888866432222333347999999998555 466789984
No 191
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=27.64 E-value=38 Score=31.37 Aligned_cols=32 Identities=25% Similarity=0.413 Sum_probs=24.3
Q ss_pred cccccccccccc--------ccceeEecCCCCccCHhhHHHHh
Q 046932 103 IVCGVCQEEMEK--------EHEARAIMECMHMFHDSCILKWL 137 (162)
Q Consensus 103 ~~C~IC~~~~~~--------~~~~~~l~~C~H~f~~~Ci~~wl 137 (162)
..|..|...|.. ...++ .||..||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCR---kCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCR---SCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCccccccccccccccccc---CCccccCccccCCcc
Confidence 569999999953 22333 799999999987654
No 192
>PF12773 DZR: Double zinc ribbon
Probab=27.01 E-value=50 Score=18.63 Aligned_cols=11 Identities=36% Similarity=0.851 Sum_probs=7.2
Q ss_pred Ccccccccccc
Q 046932 140 NNTCPLCRATC 150 (162)
Q Consensus 140 ~~~CP~Cr~~~ 150 (162)
...||.|...+
T Consensus 29 ~~~C~~Cg~~~ 39 (50)
T PF12773_consen 29 KKICPNCGAEN 39 (50)
T ss_pred CCCCcCCcCCC
Confidence 34577777765
No 193
>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=26.94 E-value=27 Score=17.37 Aligned_cols=9 Identities=33% Similarity=1.054 Sum_probs=7.1
Q ss_pred ccccccccc
Q 046932 142 TCPLCRATC 150 (162)
Q Consensus 142 ~CP~Cr~~~ 150 (162)
.||+|...+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 589997776
No 194
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=26.72 E-value=54 Score=26.93 Aligned_cols=48 Identities=21% Similarity=0.304 Sum_probs=29.3
Q ss_pred CCccccccccccccccc----------eeEecCCCCccCHhhHHHHhcCCcccccccc
Q 046932 101 DGIVCGVCQEEMEKEHE----------ARAIMECMHMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~----------~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
....|-.|+..|..+.. ......|...||..|-.---..-..||.|..
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 34679999998864321 1112357888888885543233345888854
No 195
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=26.28 E-value=29 Score=29.31 Aligned_cols=33 Identities=12% Similarity=0.316 Sum_probs=24.5
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHH
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKW 136 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~w 136 (162)
..+|+||+..+........ .|.-..|.+|+.+.
T Consensus 74 ~~ecpicflyyps~~n~~r--cC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 74 KTECPICFLYYPSAKNLVR--CCSETICGECFAPF 106 (482)
T ss_pred cccCceeeeecccccchhh--hhccchhhhheecc
Confidence 3589999999876444432 68889999998664
No 196
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=26.00 E-value=24 Score=29.33 Aligned_cols=14 Identities=29% Similarity=0.807 Sum_probs=10.0
Q ss_pred CCCccccccccccc
Q 046932 100 EDGIVCGVCQEEME 113 (162)
Q Consensus 100 ~~~~~C~IC~~~~~ 113 (162)
+.+..|++|-+...
T Consensus 13 dl~ElCPVCGDkVS 26 (475)
T KOG4218|consen 13 DLGELCPVCGDKVS 26 (475)
T ss_pred ccccccccccCccc
Confidence 34567999987753
No 197
>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=25.61 E-value=28 Score=25.45 Aligned_cols=25 Identities=24% Similarity=0.561 Sum_probs=18.2
Q ss_pred CCccCHhhHHHHhcCCcccccccccccc
Q 046932 125 MHMFHDSCILKWLKINNTCPLCRATCKP 152 (162)
Q Consensus 125 ~H~f~~~Ci~~wl~~~~~CP~Cr~~~~~ 152 (162)
.+.||..|-.+-+ ..||.|..+|..
T Consensus 27 ~~~fC~kCG~~tI---~~Cp~C~~~IrG 51 (158)
T PF10083_consen 27 REKFCSKCGAKTI---TSCPNCSTPIRG 51 (158)
T ss_pred HHHHHHHhhHHHH---HHCcCCCCCCCC
Confidence 4568888877643 369999988843
No 198
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.03 E-value=1e+02 Score=27.76 Aligned_cols=46 Identities=22% Similarity=0.473 Sum_probs=30.8
Q ss_pred CCccccccccccccccceeEecCCCCccCHhhHHHHhcC--------Ccccccc
Q 046932 101 DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI--------NNTCPLC 146 (162)
Q Consensus 101 ~~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~--------~~~CP~C 146 (162)
+...|-.|...|..-..-...-.||-.||..|...-+.. .++|=.|
T Consensus 164 D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C 217 (634)
T KOG1818|consen 164 DSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSC 217 (634)
T ss_pred cccccceeeeeeeeccccccccccchhhccCccccccCcccccccccceehhhh
Confidence 347899999998633221122289999999998765532 3567777
No 199
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=24.84 E-value=20 Score=19.72 Aligned_cols=12 Identities=33% Similarity=1.005 Sum_probs=7.7
Q ss_pred ccccccccccCC
Q 046932 143 CPLCRATCKPKK 154 (162)
Q Consensus 143 CP~Cr~~~~~~~ 154 (162)
||.|+..+....
T Consensus 2 CP~C~~~l~~~~ 13 (41)
T PF13453_consen 2 CPRCGTELEPVR 13 (41)
T ss_pred cCCCCcccceEE
Confidence 788877664433
No 200
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=23.93 E-value=43 Score=28.87 Aligned_cols=47 Identities=19% Similarity=0.453 Sum_probs=30.4
Q ss_pred Ccccccccccc-ccccceeEecCCCCccCHhhHHHHhcC--------Ccccccccc
Q 046932 102 GIVCGVCQEEM-EKEHEARAIMECMHMFHDSCILKWLKI--------NNTCPLCRA 148 (162)
Q Consensus 102 ~~~C~IC~~~~-~~~~~~~~l~~C~H~f~~~Ci~~wl~~--------~~~CP~Cr~ 148 (162)
...|++|+.-. .....+...-.|+--||..|....... .-.|-+|..
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 45699999543 333444444588999999998664432 225888854
No 201
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.94 E-value=88 Score=20.98 Aligned_cols=36 Identities=14% Similarity=0.218 Sum_probs=27.5
Q ss_pred CccccccccccccccceeEecCCCCccCHhhHHHHhcC
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI 139 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~ 139 (162)
...|.||-..+..++.-... + .-..|.+|+..-.+.
T Consensus 6 ewkC~VCg~~iieGqkFTF~-~-kGsVH~eCl~~s~~~ 41 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFT-K-KGSVHYECLAESKRK 41 (103)
T ss_pred eeeEeeeCCEeeeccEEEEe-e-CCcchHHHHHHHHhc
Confidence 36799999999988887666 5 445799998775443
No 202
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=22.90 E-value=61 Score=16.42 Aligned_cols=28 Identities=25% Similarity=0.566 Sum_probs=14.9
Q ss_pred cccccccccccccceeEecCCCCccCHhh
Q 046932 104 VCGVCQEEMEKEHEARAIMECMHMFHDSC 132 (162)
Q Consensus 104 ~C~IC~~~~~~~~~~~~l~~C~H~f~~~C 132 (162)
.|.+|........ .-.-..|+-.+|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 4778876664332 222235666666655
No 203
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=22.74 E-value=26 Score=28.31 Aligned_cols=59 Identities=15% Similarity=0.353 Sum_probs=35.5
Q ss_pred ccccccCCCCCcccccccc-ccccccceeEecCCCCccCHhhHHHHhcC-------Ccccccccccc
Q 046932 92 TTALSVDGEDGIVCGVCQE-EMEKEHEARAIMECMHMFHDSCILKWLKI-------NNTCPLCRATC 150 (162)
Q Consensus 92 ~~~~~~~~~~~~~C~IC~~-~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~-------~~~CP~Cr~~~ 150 (162)
.......+++...|.+|.. .|..-..-...=.||+.||..|-..-+.. -+.|+.|-..+
T Consensus 158 ~~~~W~PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 158 SAAVWLPDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred cCCcccCcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 3344445556678999998 66432211111289999999887652211 23688886555
No 204
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=22.46 E-value=36 Score=20.92 Aligned_cols=11 Identities=27% Similarity=0.833 Sum_probs=8.6
Q ss_pred ccccccccccc
Q 046932 141 NTCPLCRATCK 151 (162)
Q Consensus 141 ~~CP~Cr~~~~ 151 (162)
..||+|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 46999998863
No 205
>PRK11595 DNA utilization protein GntX; Provisional
Probab=22.20 E-value=70 Score=24.47 Aligned_cols=9 Identities=22% Similarity=0.903 Sum_probs=5.5
Q ss_pred ccccccccc
Q 046932 104 VCGVCQEEM 112 (162)
Q Consensus 104 ~C~IC~~~~ 112 (162)
.|.+|-..+
T Consensus 7 ~C~~C~~~~ 15 (227)
T PRK11595 7 LCWLCRMPL 15 (227)
T ss_pred cCccCCCcc
Confidence 477776554
No 206
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=22.19 E-value=47 Score=29.40 Aligned_cols=36 Identities=31% Similarity=0.573 Sum_probs=23.6
Q ss_pred CCCccccccccccccc------c----ceeEecCCCCccCHhhHHHH
Q 046932 100 EDGIVCGVCQEEMEKE------H----EARAIMECMHMFHDSCILKW 136 (162)
Q Consensus 100 ~~~~~C~IC~~~~~~~------~----~~~~l~~C~H~f~~~Ci~~w 136 (162)
+....|+||.+.|..- . ..+.+ .=|-.||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~l-e~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYL-EFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeee-ccCceeeccccchH
Confidence 4567899999998621 0 11122 24889999998653
No 207
>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=22.17 E-value=31 Score=20.78 Aligned_cols=12 Identities=25% Similarity=0.728 Sum_probs=6.0
Q ss_pred cccccccccccc
Q 046932 141 NTCPLCRATCKP 152 (162)
Q Consensus 141 ~~CP~Cr~~~~~ 152 (162)
..||+|++++..
T Consensus 3 v~CP~C~k~~~~ 14 (57)
T PF03884_consen 3 VKCPICGKPVEW 14 (57)
T ss_dssp EE-TTT--EEE-
T ss_pred ccCCCCCCeecc
Confidence 369999987754
No 208
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.08 E-value=53 Score=23.36 Aligned_cols=25 Identities=32% Similarity=0.658 Sum_probs=14.8
Q ss_pred ccccccccccceeEecCCCCccCHhhHHHH
Q 046932 107 VCQEEMEKEHEARAIMECMHMFHDSCILKW 136 (162)
Q Consensus 107 IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~w 136 (162)
||...- ..++.. .|||.||. --..|
T Consensus 62 i~qs~~---~rv~rc-ecghsf~d-~r~nw 86 (165)
T COG4647 62 ICQSAQ---KRVIRC-ECGHSFGD-YRENW 86 (165)
T ss_pred EEeccc---ccEEEE-eccccccC-hhhCc
Confidence 555442 345555 89999985 33344
No 209
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=21.70 E-value=81 Score=21.36 Aligned_cols=34 Identities=12% Similarity=0.177 Sum_probs=25.6
Q ss_pred ccccccccccccccceeEecCCCCccCHhhHHHHhc
Q 046932 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLK 138 (162)
Q Consensus 103 ~~C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~ 138 (162)
..|.||-.++..++.-...-. -..|..|+..-..
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~~ 36 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKAS 36 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHHh
Confidence 479999999998887766533 4579999876543
No 210
>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=21.66 E-value=58 Score=16.59 Aligned_cols=36 Identities=17% Similarity=0.493 Sum_probs=21.5
Q ss_pred ccccccccccccceeEecCCCCccCHhhHHHHhcCCcccccccccc
Q 046932 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 105 C~IC~~~~~~~~~~~~l~~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
|..|...+........ .=+..||..|. .|..|..++
T Consensus 2 C~~C~~~i~~~~~~~~--~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLR--ALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEE--eCCccccccCC--------CCcccCCcC
Confidence 7778877765422222 34677887662 477776655
No 211
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=21.22 E-value=29 Score=25.65 Aligned_cols=9 Identities=44% Similarity=1.324 Sum_probs=6.3
Q ss_pred ccccccccc
Q 046932 141 NTCPLCRAT 149 (162)
Q Consensus 141 ~~CP~Cr~~ 149 (162)
..||+|.++
T Consensus 150 ~~CPiCga~ 158 (166)
T COG1592 150 EVCPICGAP 158 (166)
T ss_pred CcCCCCCCh
Confidence 368888754
No 212
>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=20.86 E-value=13 Score=21.97 Aligned_cols=33 Identities=24% Similarity=0.456 Sum_probs=16.8
Q ss_pred cccc--cccccccccce----eEecCCCCccCHhhHHHH
Q 046932 104 VCGV--CQEEMEKEHEA----RAIMECMHMFHDSCILKW 136 (162)
Q Consensus 104 ~C~I--C~~~~~~~~~~----~~l~~C~H~f~~~Ci~~w 136 (162)
.|+- |-..+...... +.-..|++.||..|-..|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 5765 76666533321 223358999988887776
No 213
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=20.62 E-value=41 Score=17.00 Aligned_cols=10 Identities=40% Similarity=1.062 Sum_probs=5.5
Q ss_pred cccccccccc
Q 046932 142 TCPLCRATCK 151 (162)
Q Consensus 142 ~CP~Cr~~~~ 151 (162)
.||.|...+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4999988885
No 214
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=20.49 E-value=49 Score=26.68 Aligned_cols=47 Identities=17% Similarity=0.292 Sum_probs=28.2
Q ss_pred CccccccccccccccceeEecCCC--CccCHhhHHHHhcCCcccccccc
Q 046932 102 GIVCGVCQEEMEKEHEARAIMECM--HMFHDSCILKWLKINNTCPLCRA 148 (162)
Q Consensus 102 ~~~C~IC~~~~~~~~~~~~l~~C~--H~f~~~Ci~~wl~~~~~CP~Cr~ 148 (162)
.-.|++|-...........-+.-| ..-|.-|...|.-.+..|-.|..
T Consensus 185 ~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~VR~KC~nC~~ 233 (308)
T COG3058 185 RQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYVRVKCSNCEQ 233 (308)
T ss_pred cccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHHHHHhccccc
Confidence 347999988765332221101112 22378899999877777777754
No 215
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=20.26 E-value=47 Score=23.68 Aligned_cols=20 Identities=20% Similarity=0.654 Sum_probs=14.3
Q ss_pred CCCCccCHhhHHHHhcCCcccccccccc
Q 046932 123 ECMHMFHDSCILKWLKINNTCPLCRATC 150 (162)
Q Consensus 123 ~C~H~f~~~Ci~~wl~~~~~CP~Cr~~~ 150 (162)
.|||.|+. -+..||.|....
T Consensus 34 ~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 34 KCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred CCCeEEcC--------CcccCCCCCCCC
Confidence 78887764 466788887753
Done!