Query 030323
Match_columns 179
No_of_seqs 205 out of 1554
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 11:59:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030323.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030323hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 2E-16 4.2E-21 132.9 7.9 72 71-158 209-280 (348)
2 PF13639 zf-RING_2: Ring finge 99.5 3.3E-15 7.2E-20 90.3 2.4 44 108-152 1-44 (44)
3 COG5540 RING-finger-containing 99.4 4.2E-13 9.1E-18 109.9 3.6 52 106-157 322-373 (374)
4 PF12678 zf-rbx1: RING-H2 zinc 99.3 3.8E-12 8.3E-17 85.1 3.9 45 107-152 19-73 (73)
5 COG5243 HRD1 HRD ubiquitin lig 99.2 3.3E-11 7.2E-16 101.3 7.7 51 106-157 286-346 (491)
6 PHA02929 N1R/p28-like protein; 99.2 1.2E-11 2.6E-16 99.9 4.3 50 106-156 173-227 (238)
7 PLN03208 E3 ubiquitin-protein 99.2 2.5E-11 5.3E-16 94.6 4.6 52 105-159 16-82 (193)
8 KOG0317 Predicted E3 ubiquitin 99.2 3.8E-11 8.3E-16 98.0 4.9 52 104-159 236-287 (293)
9 KOG0823 Predicted E3 ubiquitin 99.1 9.8E-11 2.1E-15 93.0 5.0 53 104-159 44-98 (230)
10 PF15227 zf-C3HC4_4: zinc fing 99.1 8.8E-11 1.9E-15 70.3 2.8 39 110-151 1-42 (42)
11 PF13920 zf-C3HC4_3: Zinc fing 99.1 7.9E-11 1.7E-15 72.9 2.7 46 107-156 2-48 (50)
12 cd00162 RING RING-finger (Real 99.1 2.1E-10 4.6E-15 68.1 4.0 45 109-155 1-45 (45)
13 PF13923 zf-C3HC4_2: Zinc fing 99.0 1.6E-10 3.6E-15 67.9 2.5 39 110-151 1-39 (39)
14 smart00504 Ubox Modified RING 99.0 5.4E-10 1.2E-14 72.0 4.2 48 108-159 2-49 (63)
15 PHA02926 zinc finger-like prot 98.9 9.2E-10 2E-14 87.2 3.7 51 106-156 169-230 (242)
16 KOG0320 Predicted E3 ubiquitin 98.9 8.4E-10 1.8E-14 84.5 3.1 53 105-159 129-181 (187)
17 PF00097 zf-C3HC4: Zinc finger 98.9 9.2E-10 2E-14 65.1 2.5 40 110-151 1-41 (41)
18 PF12861 zf-Apc11: Anaphase-pr 98.9 1.8E-09 4E-14 73.5 3.9 51 107-157 21-83 (85)
19 KOG1734 Predicted RING-contain 98.9 2.1E-09 4.5E-14 87.2 4.8 73 105-177 222-305 (328)
20 smart00184 RING Ring finger. E 98.9 3.2E-09 6.9E-14 60.8 3.8 39 110-151 1-39 (39)
21 PF14634 zf-RING_5: zinc-RING 98.8 4.4E-09 9.6E-14 63.4 3.7 44 109-153 1-44 (44)
22 TIGR00599 rad18 DNA repair pro 98.8 3.5E-09 7.6E-14 91.2 3.5 50 105-158 24-73 (397)
23 KOG0802 E3 ubiquitin ligase [P 98.8 3.7E-09 7.9E-14 95.1 2.5 52 105-157 289-342 (543)
24 KOG0828 Predicted E3 ubiquitin 98.7 2.5E-08 5.5E-13 86.7 7.0 96 29-157 526-635 (636)
25 PF13445 zf-RING_UBOX: RING-ty 98.6 2.9E-08 6.3E-13 59.5 2.0 39 110-149 1-43 (43)
26 COG5574 PEX10 RING-finger-cont 98.5 6.4E-08 1.4E-12 78.4 3.8 53 104-159 212-265 (271)
27 COG5194 APC11 Component of SCF 98.5 8.6E-08 1.9E-12 64.1 3.2 49 109-158 33-83 (88)
28 PF04564 U-box: U-box domain; 98.5 6.9E-08 1.5E-12 64.4 2.7 66 106-176 3-68 (73)
29 TIGR00570 cdk7 CDK-activating 98.3 4.1E-07 9E-12 75.8 4.0 53 107-159 3-57 (309)
30 KOG2164 Predicted E3 ubiquitin 98.3 2.7E-07 5.8E-12 80.8 2.9 50 107-159 186-239 (513)
31 KOG0287 Postreplication repair 98.3 2.3E-07 5.1E-12 77.6 1.9 50 106-159 22-71 (442)
32 KOG1493 Anaphase-promoting com 98.3 1.5E-07 3.2E-12 62.4 0.5 51 106-156 19-81 (84)
33 KOG0804 Cytoplasmic Zn-finger 98.3 3.7E-07 7.9E-12 78.8 3.0 51 103-156 171-222 (493)
34 smart00744 RINGv The RING-vari 98.3 9.1E-07 2E-11 54.5 3.8 43 109-152 1-49 (49)
35 KOG2177 Predicted E3 ubiquitin 98.3 2.8E-07 6.1E-12 74.6 1.9 45 105-153 11-55 (386)
36 COG5219 Uncharacterized conser 98.3 3.2E-07 7E-12 85.1 1.7 51 106-156 1468-1523(1525)
37 KOG4265 Predicted E3 ubiquitin 98.2 1.6E-06 3.6E-11 73.0 4.2 49 105-157 288-337 (349)
38 COG5432 RAD18 RING-finger-cont 98.2 1.1E-06 2.4E-11 72.3 2.5 47 106-156 24-70 (391)
39 KOG0311 Predicted E3 ubiquitin 98.1 3.2E-07 6.9E-12 77.1 -1.2 51 106-159 42-93 (381)
40 KOG0824 Predicted E3 ubiquitin 98.1 1.5E-06 3.3E-11 71.7 2.8 50 106-158 6-55 (324)
41 PF11793 FANCL_C: FANCL C-term 98.0 1.1E-06 2.5E-11 58.1 -0.1 50 107-156 2-66 (70)
42 KOG4172 Predicted E3 ubiquitin 97.9 2E-06 4.3E-11 53.6 -0.2 47 107-156 7-54 (62)
43 PF14835 zf-RING_6: zf-RING of 97.9 2.3E-06 5E-11 55.2 -0.1 56 107-170 7-63 (65)
44 KOG2930 SCF ubiquitin ligase, 97.9 1.2E-05 2.6E-10 56.5 3.3 49 106-155 45-107 (114)
45 KOG0827 Predicted E3 ubiquitin 97.9 6.7E-06 1.5E-10 70.0 2.3 50 107-156 4-56 (465)
46 KOG0978 E3 ubiquitin ligase in 97.9 4.1E-06 8.8E-11 76.5 1.0 51 106-159 642-692 (698)
47 KOG1039 Predicted E3 ubiquitin 97.7 1.6E-05 3.4E-10 67.6 2.0 51 105-155 159-220 (344)
48 KOG4159 Predicted E3 ubiquitin 97.6 3.4E-05 7.4E-10 66.8 2.2 49 105-157 82-130 (398)
49 KOG4445 Uncharacterized conser 97.5 2.4E-05 5.3E-10 64.7 0.7 54 106-159 114-189 (368)
50 KOG1645 RING-finger-containing 97.5 7E-05 1.5E-09 64.3 2.9 53 107-159 4-59 (463)
51 KOG0825 PHD Zn-finger protein 97.5 2.4E-05 5.2E-10 71.8 -0.2 49 107-156 123-171 (1134)
52 PF11789 zf-Nse: Zinc-finger o 97.5 7.2E-05 1.6E-09 47.5 2.0 44 105-150 9-53 (57)
53 KOG0297 TNF receptor-associate 97.3 0.00011 2.5E-09 63.7 1.8 53 105-161 19-72 (391)
54 KOG3970 Predicted E3 ubiquitin 97.2 0.00043 9.3E-09 55.3 3.8 53 105-158 48-107 (299)
55 KOG1785 Tyrosine kinase negati 97.1 0.00021 4.4E-09 61.5 1.7 50 106-158 368-418 (563)
56 KOG3039 Uncharacterized conser 97.1 0.00042 9.2E-09 56.0 3.1 61 105-166 219-280 (303)
57 KOG2879 Predicted E3 ubiquitin 97.0 0.00065 1.4E-08 55.7 3.6 53 105-159 237-290 (298)
58 KOG2660 Locus-specific chromos 97.0 0.00019 4.1E-09 60.1 0.3 49 106-158 14-63 (331)
59 PF14570 zf-RING_4: RING/Ubox 97.0 0.0006 1.3E-08 41.6 2.2 46 110-155 1-47 (48)
60 COG5152 Uncharacterized conser 96.9 0.00036 7.8E-09 54.8 1.0 45 108-156 197-241 (259)
61 KOG1941 Acetylcholine receptor 96.9 0.00039 8.5E-09 59.6 1.1 48 106-153 364-413 (518)
62 PHA02825 LAP/PHD finger-like p 96.7 0.0019 4.1E-08 49.1 3.7 50 105-158 6-61 (162)
63 COG5222 Uncharacterized conser 96.7 0.00098 2.1E-08 55.4 2.3 43 108-153 275-318 (427)
64 PF05883 Baculo_RING: Baculovi 96.6 0.0011 2.3E-08 49.1 1.5 35 107-141 26-66 (134)
65 KOG1813 Predicted E3 ubiquitin 96.5 0.00091 2E-08 55.4 1.0 48 107-158 241-288 (313)
66 PF14447 Prok-RING_4: Prokaryo 96.5 0.0016 3.5E-08 40.8 1.5 47 107-159 7-53 (55)
67 PF10367 Vps39_2: Vacuolar sor 96.4 0.0013 2.8E-08 46.2 1.2 32 106-138 77-108 (109)
68 PHA02862 5L protein; Provision 96.3 0.0032 7E-08 47.0 2.9 48 107-158 2-55 (156)
69 KOG1002 Nucleotide excision re 96.2 0.0022 4.7E-08 57.1 1.6 51 105-158 534-588 (791)
70 KOG1571 Predicted E3 ubiquitin 96.2 0.0058 1.3E-07 51.9 3.9 45 105-156 303-347 (355)
71 PF12906 RINGv: RING-variant d 96.1 0.0037 8E-08 38.0 1.9 41 110-151 1-47 (47)
72 COG5175 MOT2 Transcriptional r 96.0 0.0055 1.2E-07 51.9 2.8 53 106-158 13-66 (480)
73 PF04641 Rtf2: Rtf2 RING-finge 96.0 0.011 2.4E-07 48.6 4.5 54 104-159 110-164 (260)
74 KOG1814 Predicted E3 ubiquitin 95.8 0.0087 1.9E-07 51.8 3.4 47 107-153 184-237 (445)
75 KOG4692 Predicted E3 ubiquitin 95.8 0.0064 1.4E-07 51.7 2.5 49 105-157 420-468 (489)
76 KOG4739 Uncharacterized protei 95.7 0.005 1.1E-07 49.7 1.6 44 109-156 5-48 (233)
77 COG5236 Uncharacterized conser 95.6 0.02 4.3E-07 48.8 4.8 48 105-155 59-107 (493)
78 KOG4185 Predicted E3 ubiquitin 95.5 0.012 2.6E-07 48.9 3.1 49 107-155 3-54 (296)
79 PHA03096 p28-like protein; Pro 95.4 0.0089 1.9E-07 49.8 2.0 45 108-152 179-230 (284)
80 PF14446 Prok-RING_1: Prokaryo 95.4 0.021 4.5E-07 35.7 3.2 34 106-139 4-38 (54)
81 KOG1428 Inhibitor of type V ad 95.4 0.011 2.5E-07 58.2 2.8 53 105-157 3484-3545(3738)
82 KOG1952 Transcription factor N 95.3 0.0099 2.2E-07 55.5 2.2 48 106-153 190-244 (950)
83 KOG0801 Predicted E3 ubiquitin 95.3 0.0052 1.1E-07 46.8 0.3 30 105-134 175-204 (205)
84 KOG1940 Zn-finger protein [Gen 95.3 0.0092 2E-07 49.4 1.7 51 106-158 157-208 (276)
85 PF08746 zf-RING-like: RING-li 95.2 0.0093 2E-07 35.6 1.1 42 110-151 1-43 (43)
86 KOG3800 Predicted E3 ubiquitin 95.2 0.019 4.1E-07 47.6 3.3 48 109-156 2-51 (300)
87 PF07800 DUF1644: Protein of u 95.2 0.029 6.2E-07 42.7 3.9 60 107-166 2-101 (162)
88 COG5220 TFB3 Cdk activating ki 95.1 0.013 2.8E-07 47.5 1.9 48 106-153 9-61 (314)
89 PF10272 Tmpp129: Putative tra 95.0 0.071 1.5E-06 45.8 6.3 32 128-159 311-354 (358)
90 KOG3002 Zn finger protein [Gen 94.9 0.019 4E-07 48.3 2.5 45 105-157 46-92 (299)
91 KOG2817 Predicted E3 ubiquitin 94.8 0.24 5.2E-06 42.8 8.9 45 107-151 334-380 (394)
92 KOG2114 Vacuolar assembly/sort 94.7 0.018 3.9E-07 53.9 2.0 44 106-155 839-882 (933)
93 KOG4275 Predicted E3 ubiquitin 94.5 0.0077 1.7E-07 50.0 -0.7 43 106-156 299-342 (350)
94 PF05290 Baculo_IE-1: Baculovi 94.4 0.039 8.4E-07 40.8 2.8 50 107-159 80-135 (140)
95 KOG0826 Predicted E3 ubiquitin 94.2 0.045 9.8E-07 46.1 3.2 47 106-156 299-346 (357)
96 KOG3268 Predicted E3 ubiquitin 93.9 0.051 1.1E-06 42.2 2.6 51 107-157 165-229 (234)
97 KOG1001 Helicase-like transcri 93.4 0.042 9.1E-07 51.0 1.8 48 108-159 455-503 (674)
98 KOG4367 Predicted Zn-finger pr 93.2 0.05 1.1E-06 47.7 1.8 36 105-143 2-37 (699)
99 COG5183 SSM4 Protein involved 92.9 0.09 2E-06 49.3 3.1 54 105-159 10-69 (1175)
100 KOG0827 Predicted E3 ubiquitin 91.9 0.0089 1.9E-07 51.4 -4.3 51 106-157 195-246 (465)
101 KOG0309 Conserved WD40 repeat- 91.6 0.36 7.9E-06 45.1 5.3 41 108-150 1029-1069(1081)
102 KOG3053 Uncharacterized conser 91.2 0.12 2.6E-06 42.3 1.7 52 105-156 18-82 (293)
103 KOG1100 Predicted E3 ubiquitin 91.1 0.1 2.2E-06 41.6 1.2 39 110-156 161-200 (207)
104 KOG2034 Vacuolar sorting prote 90.7 0.14 3E-06 48.4 1.7 36 105-141 815-850 (911)
105 KOG2932 E3 ubiquitin ligase in 89.9 0.11 2.5E-06 43.6 0.5 44 107-155 90-133 (389)
106 KOG3899 Uncharacterized conser 89.3 0.21 4.5E-06 41.7 1.6 32 128-159 325-368 (381)
107 PF03854 zf-P11: P-11 zinc fin 89.1 0.11 2.4E-06 31.5 -0.1 45 108-158 3-48 (50)
108 KOG0298 DEAD box-containing he 88.7 0.15 3.3E-06 49.9 0.4 46 106-154 1152-1197(1394)
109 KOG1812 Predicted E3 ubiquitin 88.2 0.25 5.5E-06 42.9 1.5 38 106-143 145-183 (384)
110 PF02891 zf-MIZ: MIZ/SP-RING z 87.7 0.64 1.4E-05 28.4 2.7 44 108-154 3-50 (50)
111 KOG0825 PHD Zn-finger protein 87.5 0.51 1.1E-05 44.4 3.0 59 105-163 94-161 (1134)
112 KOG1609 Protein involved in mR 87.4 0.63 1.4E-05 38.6 3.4 52 106-157 77-135 (323)
113 KOG4362 Transcriptional regula 87.2 0.15 3.2E-06 47.1 -0.6 50 107-159 21-72 (684)
114 KOG1829 Uncharacterized conser 85.7 0.31 6.7E-06 44.4 0.6 42 107-152 511-557 (580)
115 smart00249 PHD PHD zinc finger 84.9 0.33 7.2E-06 28.0 0.3 31 109-139 1-31 (47)
116 KOG3161 Predicted E3 ubiquitin 83.0 0.45 9.7E-06 43.8 0.5 44 106-153 10-54 (861)
117 KOG4718 Non-SMC (structural ma 79.4 1.1 2.3E-05 35.9 1.4 44 107-153 181-224 (235)
118 KOG1815 Predicted E3 ubiquitin 79.3 1.4 2.9E-05 39.0 2.2 38 105-144 68-105 (444)
119 KOG0802 E3 ubiquitin ligase [P 77.2 1.9 4.1E-05 39.1 2.6 48 105-160 477-524 (543)
120 PF14569 zf-UDP: Zinc-binding 77.1 3.4 7.4E-05 27.7 3.1 51 106-156 8-62 (80)
121 KOG3113 Uncharacterized conser 76.4 3 6.6E-05 34.2 3.2 51 106-159 110-161 (293)
122 KOG2068 MOT2 transcription fac 74.7 2.8 6.1E-05 35.6 2.7 53 106-159 248-301 (327)
123 COG5109 Uncharacterized conser 73.8 2.6 5.7E-05 35.7 2.3 45 107-151 336-382 (396)
124 COG4068 Uncharacterized protei 73.1 2.2 4.8E-05 27.1 1.3 32 145-176 8-48 (64)
125 PF13901 DUF4206: Domain of un 73.0 2.8 6E-05 33.1 2.2 40 107-152 152-196 (202)
126 PLN02189 cellulose synthase 71.6 4.5 9.8E-05 39.4 3.6 51 106-156 33-87 (1040)
127 KOG0269 WD40 repeat-containing 71.4 3.8 8.3E-05 38.5 3.0 42 106-150 778-820 (839)
128 PF06906 DUF1272: Protein of u 70.0 8.6 0.00019 24.2 3.4 48 107-158 5-54 (57)
129 PF01363 FYVE: FYVE zinc finge 68.7 2.6 5.7E-05 27.0 1.0 36 105-140 7-43 (69)
130 PRK01343 zinc-binding protein; 68.4 3.6 7.8E-05 26.0 1.6 10 107-116 9-18 (57)
131 PLN02436 cellulose synthase A 67.8 5.8 0.00013 38.8 3.5 51 106-156 35-89 (1094)
132 KOG3799 Rab3 effector RIM1 and 67.3 1.5 3.2E-05 32.7 -0.4 49 105-153 63-115 (169)
133 PLN02915 cellulose synthase A 66.3 9.4 0.0002 37.3 4.5 52 105-156 13-68 (1044)
134 PF07975 C1_4: TFIIH C1-like d 65.7 4.9 0.00011 24.8 1.7 42 110-152 2-50 (51)
135 PF00628 PHD: PHD-finger; Int 65.4 3.1 6.6E-05 24.9 0.8 44 109-152 1-49 (51)
136 KOG1812 Predicted E3 ubiquitin 64.9 3.4 7.4E-05 36.0 1.3 44 107-151 306-351 (384)
137 PF10571 UPF0547: Uncharacteri 64.7 3.3 7.2E-05 21.8 0.7 9 109-117 2-10 (26)
138 KOG3039 Uncharacterized conser 62.8 6.1 0.00013 32.4 2.3 36 105-143 41-76 (303)
139 PLN02638 cellulose synthase A 60.5 11 0.00024 37.0 3.9 51 106-156 16-70 (1079)
140 smart00132 LIM Zinc-binding do 59.0 13 0.00027 20.2 2.6 37 109-155 1-37 (39)
141 TIGR00622 ssl1 transcription f 58.8 14 0.0003 26.6 3.3 45 107-152 55-110 (112)
142 PLN02195 cellulose synthase A 58.1 16 0.00035 35.6 4.5 51 106-156 5-59 (977)
143 PF06844 DUF1244: Protein of u 57.9 6.7 0.00015 25.5 1.4 13 131-143 11-23 (68)
144 smart00064 FYVE Protein presen 57.6 11 0.00025 23.8 2.5 37 106-142 9-46 (68)
145 PLN02248 cellulose synthase-li 56.5 23 0.00049 35.1 5.2 86 69-156 84-177 (1135)
146 PF07191 zinc-ribbons_6: zinc- 56.5 0.6 1.3E-05 30.7 -3.7 40 108-156 2-41 (70)
147 KOG3005 GIY-YIG type nuclease 55.6 8.1 0.00018 32.0 1.9 50 106-155 181-242 (276)
148 KOG2066 Vacuolar assembly/sort 54.9 5.9 0.00013 37.5 1.0 43 107-151 784-830 (846)
149 PF13717 zinc_ribbon_4: zinc-r 52.1 7.9 0.00017 21.9 0.9 14 108-121 3-16 (36)
150 KOG2807 RNA polymerase II tran 51.8 17 0.00037 31.0 3.2 46 107-153 330-375 (378)
151 KOG3579 Predicted E3 ubiquitin 51.5 14 0.0003 31.0 2.6 36 105-143 266-305 (352)
152 PLN02400 cellulose synthase 51.3 12 0.00027 36.7 2.6 51 106-156 35-89 (1085)
153 PF07649 C1_3: C1-like domain; 51.2 12 0.00025 20.0 1.5 29 109-137 2-30 (30)
154 PF05605 zf-Di19: Drought indu 50.9 8.1 0.00018 23.6 0.9 37 107-153 2-39 (54)
155 PF04423 Rad50_zn_hook: Rad50 48.6 3.1 6.7E-05 25.6 -1.3 14 147-160 22-35 (54)
156 PF06305 DUF1049: Protein of u 48.5 27 0.00059 22.0 3.2 31 15-45 18-48 (68)
157 COG3813 Uncharacterized protei 48.3 14 0.0003 24.6 1.7 28 129-159 28-55 (84)
158 KOG3842 Adaptor protein Pellin 47.2 26 0.00055 30.0 3.6 54 106-159 340-417 (429)
159 KOG2041 WD40 repeat protein [G 46.9 24 0.00051 33.6 3.6 47 105-156 1129-1185(1189)
160 PF10497 zf-4CXXC_R1: Zinc-fin 44.4 37 0.00081 24.0 3.6 47 106-153 6-69 (105)
161 cd00065 FYVE FYVE domain; Zinc 44.1 17 0.00037 22.0 1.7 34 108-141 3-37 (57)
162 KOG2462 C2H2-type Zn-finger pr 43.8 9.4 0.0002 31.7 0.5 36 125-160 185-230 (279)
163 PF13719 zinc_ribbon_5: zinc-r 43.3 13 0.00027 21.1 0.9 14 108-121 3-16 (37)
164 PF00412 LIM: LIM domain; Int 43.3 21 0.00045 21.5 1.9 40 110-159 1-40 (58)
165 PF09889 DUF2116: Uncharacteri 43.1 15 0.00032 23.4 1.2 15 145-159 3-17 (59)
166 KOG4185 Predicted E3 ubiquitin 42.4 4.5 9.7E-05 33.5 -1.6 49 106-154 206-265 (296)
167 PF02318 FYVE_2: FYVE-type zin 40.5 17 0.00036 26.1 1.3 46 106-153 53-102 (118)
168 COG5216 Uncharacterized conser 40.4 12 0.00027 23.8 0.5 37 118-154 15-53 (67)
169 KOG2113 Predicted RNA binding 39.6 37 0.00081 29.0 3.4 44 106-155 342-386 (394)
170 PF04216 FdhE: Protein involve 39.1 3.2 6.9E-05 34.5 -3.0 46 105-154 170-220 (290)
171 PF01102 Glycophorin_A: Glycop 37.7 1.1E+02 0.0023 22.3 5.2 8 10-17 61-68 (122)
172 PF13832 zf-HC5HC2H_2: PHD-zin 36.7 22 0.00049 24.7 1.5 32 106-139 54-87 (110)
173 PF14311 DUF4379: Domain of un 36.7 23 0.00049 21.7 1.3 22 128-151 34-55 (55)
174 PRK11088 rrmA 23S rRNA methylt 35.2 26 0.00057 28.5 1.9 25 108-132 3-27 (272)
175 PF14353 CpXC: CpXC protein 35.0 28 0.0006 25.0 1.8 46 108-156 2-49 (128)
176 cd00350 rubredoxin_like Rubred 35.0 34 0.00074 18.7 1.8 9 145-153 17-25 (33)
177 KOG2071 mRNA cleavage and poly 34.3 22 0.00049 32.6 1.4 36 105-140 511-556 (579)
178 PRK03564 formate dehydrogenase 33.8 25 0.00054 29.8 1.5 42 106-153 186-234 (309)
179 PF12773 DZR: Double zinc ribb 33.4 32 0.00068 20.3 1.6 12 146-157 30-41 (50)
180 PF13771 zf-HC5HC2H: PHD-like 30.8 31 0.00067 23.0 1.4 31 107-139 36-68 (90)
181 COG3492 Uncharacterized protei 30.6 31 0.00066 24.0 1.3 13 131-143 42-54 (104)
182 KOG3726 Uncharacterized conser 30.2 30 0.00064 32.4 1.5 41 107-151 654-695 (717)
183 PF00130 C1_1: Phorbol esters/ 29.5 38 0.00083 20.1 1.5 34 106-139 10-45 (53)
184 smart00647 IBR In Between Ring 29.3 14 0.00031 22.7 -0.5 17 124-140 41-58 (64)
185 KOG1729 FYVE finger containing 29.1 11 0.00023 31.6 -1.4 38 108-145 215-252 (288)
186 KOG1245 Chromatin remodeling c 28.8 22 0.00047 36.3 0.4 51 105-155 1106-1159(1404)
187 COG4847 Uncharacterized protei 28.0 53 0.0012 22.9 2.1 35 107-142 6-40 (103)
188 smart00734 ZnF_Rad18 Rad18-lik 27.6 31 0.00067 17.9 0.7 9 147-155 3-11 (26)
189 PF14654 Epiglycanin_C: Mucin, 26.4 1.3E+02 0.0028 21.2 3.8 28 15-42 20-47 (106)
190 PF03884 DUF329: Domain of unk 25.8 17 0.00037 22.9 -0.6 11 147-157 4-14 (57)
191 smart00109 C1 Protein kinase C 25.5 55 0.0012 18.6 1.7 33 107-139 11-44 (49)
192 KOG2979 Protein involved in DN 25.4 40 0.00088 27.8 1.4 45 107-153 176-221 (262)
193 KOG0955 PHD finger protein BR1 25.1 31 0.00067 34.1 0.7 37 102-138 214-252 (1051)
194 cd00029 C1 Protein kinase C co 24.9 45 0.00097 19.2 1.2 33 107-139 11-45 (50)
195 PF10083 DUF2321: Uncharacteri 24.2 46 0.00099 25.4 1.4 24 129-156 27-50 (158)
196 TIGR01562 FdhE formate dehydro 24.1 41 0.00089 28.5 1.2 42 106-153 183-232 (305)
197 KOG4451 Uncharacterized conser 23.9 57 0.0012 26.6 1.9 27 132-159 251-277 (286)
198 KOG4218 Nuclear hormone recept 23.3 80 0.0017 27.4 2.8 14 105-118 13-26 (475)
199 KOG4443 Putative transcription 22.7 41 0.00088 31.4 1.0 47 107-153 18-70 (694)
200 PRK00418 DNA gyrase inhibitor; 22.6 46 0.00099 21.4 0.9 11 146-156 7-17 (62)
201 PF05715 zf-piccolo: Piccolo Z 21.7 51 0.0011 21.0 1.0 11 145-155 2-12 (61)
202 TIGR00627 tfb4 transcription f 21.6 68 0.0015 26.8 2.0 10 145-154 269-278 (279)
203 PF09538 FYDLN_acid: Protein o 21.5 49 0.0011 23.6 1.0 13 146-158 27-39 (108)
204 PF11682 DUF3279: Protein of u 21.2 55 0.0012 24.1 1.3 23 127-159 102-124 (128)
205 KOG1094 Discoidin domain recep 21.2 1.6E+02 0.0035 27.8 4.4 33 9-41 386-418 (807)
206 PF03119 DNA_ligase_ZBD: NAD-d 21.1 28 0.00061 18.5 -0.2 11 147-157 1-11 (28)
207 PF10235 Cript: Microtubule-as 21.1 60 0.0013 22.4 1.3 38 107-157 44-81 (90)
208 KOG1815 Predicted E3 ubiquitin 20.4 29 0.00063 30.7 -0.4 38 107-144 226-268 (444)
209 PF14169 YdjO: Cold-inducible 20.4 83 0.0018 20.0 1.8 15 106-120 38-52 (59)
210 COG5242 TFB4 RNA polymerase II 20.3 57 0.0012 26.6 1.3 14 107-120 260-273 (296)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.66 E-value=2e-16 Score=132.93 Aligned_cols=72 Identities=25% Similarity=0.665 Sum_probs=57.3
Q ss_pred HhhhccccccccCCCCCCCCCCCCccCCCCCCCCcCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCC
Q 030323 71 QLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPL 150 (179)
Q Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~ 150 (179)
+..+.+++...|....... ....|+||+|+|..+++++.|||+|.||..||++||......||+
T Consensus 209 k~~l~~~p~~~f~~~~~~~----------------~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPv 272 (348)
T KOG4628|consen 209 KRLLKKLPVRTFTKGDDED----------------ATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPV 272 (348)
T ss_pred HHHHhhCCcEEeccccccC----------------CCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCC
Confidence 3445566777776655411 125999999999999999999999999999999999985566999
Q ss_pred ccCCCCCC
Q 030323 151 CRSPVVSE 158 (179)
Q Consensus 151 Cr~~~~~~ 158 (179)
|+..+...
T Consensus 273 CK~di~~~ 280 (348)
T KOG4628|consen 273 CKRDIRTD 280 (348)
T ss_pred CCCcCCCC
Confidence 99987644
No 2
>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=99.53 E-value=3.3e-15 Score=90.33 Aligned_cols=44 Identities=50% Similarity=1.204 Sum_probs=39.7
Q ss_pred cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCcc
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr 152 (179)
.+|+||++.+..++.+..++|+|.||.+|+.+|+++ +.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence 379999999998888999999999999999999998 77999997
No 3
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=4.2e-13 Score=109.95 Aligned_cols=52 Identities=33% Similarity=0.919 Sum_probs=47.5
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
..-+|+|||+.|...++++.+||.|.||..|+++|+...+..||+||.++++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3579999999999999999999999999999999998547789999999976
No 4
>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=99.27 E-value=3.8e-12 Score=85.14 Aligned_cols=45 Identities=38% Similarity=0.902 Sum_probs=35.2
Q ss_pred CcccccccccccCC----------CceEEeCCCCcchHHhHHHHHhcCCCCCCCcc
Q 030323 107 GSDCMVCLCTLRDG----------ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152 (179)
Q Consensus 107 ~~~C~ICl~~~~~~----------~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr 152 (179)
+..|+||++.+.++ -.+...+|+|.||..||.+|+.. +.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence 45699999999433 23344579999999999999987 77999997
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=3.3e-11 Score=101.31 Aligned_cols=51 Identities=31% Similarity=0.936 Sum_probs=42.4
Q ss_pred CCccccccccc-ccCCC---------ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 106 AGSDCMVCLCT-LRDGE---------LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 106 ~~~~C~ICl~~-~~~~~---------~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
++..|.|||++ +..+. ....|||||.+|-+|++.|+.+ +.+||+||.++.-
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~if 346 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPVIF 346 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCcccc
Confidence 47799999999 43331 3467999999999999999997 8899999999643
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.21 E-value=1.2e-11 Score=99.87 Aligned_cols=50 Identities=32% Similarity=0.907 Sum_probs=40.8
Q ss_pred CCcccccccccccCCCc----e-EEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRDGEL----V-RKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~----~-~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
.+.+|+||++.+.++.. . ...+|+|.||..||.+|+.. +.+||+||.++.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEee
Confidence 46799999998765431 2 33469999999999999986 789999999875
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.17 E-value=2.5e-11 Score=94.65 Aligned_cols=52 Identities=31% Similarity=0.667 Sum_probs=43.4
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc---------------CCCCCCCccCCCCCCc
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH---------------LNFNCPLCRSPVVSEE 159 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~---------------~~~~CP~Cr~~~~~~~ 159 (179)
.++.+|+||++.++++ ..++|||.||..||..|+.. ....||+||..+...+
T Consensus 16 ~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 16 GGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred CCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 3578999999999888 77889999999999999852 1357999999987654
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=3.8e-11 Score=97.97 Aligned_cols=52 Identities=27% Similarity=0.679 Sum_probs=46.2
Q ss_pred CcCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 104 ~~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
......|.+|+|...++ ..+||||.||.+||..|... ...||+||.++.+.+
T Consensus 236 ~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~e-k~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSE-KAECPLCREKFQPSK 287 (293)
T ss_pred CCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHcc-ccCCCcccccCCCcc
Confidence 35678999999998888 88999999999999999986 677999999998765
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=9.8e-11 Score=92.98 Aligned_cols=53 Identities=30% Similarity=0.648 Sum_probs=44.5
Q ss_pred CcCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC--CCCCCCccCCCCCCc
Q 030323 104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL--NFNCPLCRSPVVSEE 159 (179)
Q Consensus 104 ~~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~~~ 159 (179)
.....+|.||++.-+++ +++.|||.||+.||.+|++.. ...||+|+..+..+.
T Consensus 44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 35678999999998888 777899999999999999863 245899999887553
No 10
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.07 E-value=8.8e-11 Score=70.26 Aligned_cols=39 Identities=36% Similarity=0.922 Sum_probs=30.8
Q ss_pred cccccccccCCCceEEeCCCCcchHHhHHHHHhcCC---CCCCCc
Q 030323 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN---FNCPLC 151 (179)
Q Consensus 110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~---~~CP~C 151 (179)
|+||++.|.++ +.++|||.|+..||..|....+ ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999 8899999999999999987543 369987
No 11
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.07 E-value=7.9e-11 Score=72.95 Aligned_cols=46 Identities=35% Similarity=0.910 Sum_probs=38.6
Q ss_pred CcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
+..|.||++...+ +..+||||. ||..|+..|+.. ...||+||+++.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhc
Confidence 5689999998665 477899999 999999999985 889999999874
No 12
>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=99.05 E-value=2.1e-10 Score=68.14 Aligned_cols=45 Identities=44% Similarity=1.097 Sum_probs=36.3
Q ss_pred ccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155 (179)
Q Consensus 109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 155 (179)
+|+||++.+... ....+|+|.||..|+..|+...+..||+|+..+
T Consensus 1 ~C~iC~~~~~~~--~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREP--VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCc--eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 599999998433 344459999999999999986567899998754
No 13
>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=99.02 E-value=1.6e-10 Score=67.88 Aligned_cols=39 Identities=44% Similarity=1.018 Sum_probs=32.7
Q ss_pred cccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCc
Q 030323 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC 151 (179)
Q Consensus 110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~C 151 (179)
|+||++.+.++ +..++|||.||.+|+.+|+.. +.+||+|
T Consensus 1 C~iC~~~~~~~--~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--VVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--EEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCc--CEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 89999998774 456789999999999999998 8899998
No 14
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.99 E-value=5.4e-10 Score=72.00 Aligned_cols=48 Identities=19% Similarity=0.420 Sum_probs=42.9
Q ss_pred cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
..|+||.+.+.++ ..++|||.|+++||.+|+.. +.+||+|+.++..++
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhh
Confidence 4799999999998 77899999999999999987 789999999886554
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=98.91 E-value=9.2e-10 Score=87.15 Aligned_cols=51 Identities=25% Similarity=0.695 Sum_probs=38.1
Q ss_pred CCcccccccccccCC-----CceEEe-CCCCcchHHhHHHHHhcC-----CCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRDG-----ELVRKL-DCRHVFHKDCLDGWLHHL-----NFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~-----~~~~~l-pC~H~fh~~Ci~~wl~~~-----~~~CP~Cr~~~~ 156 (179)
.+.+|+||+|....+ ..-..| +|+|.||..||..|.... ..+||+||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 468999999976332 112345 699999999999999753 245999999764
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=8.4e-10 Score=84.45 Aligned_cols=53 Identities=25% Similarity=0.639 Sum_probs=42.8
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
++-..|+|||+.+..... ..+.|||+||..||...+.. ...||+|++.+..++
T Consensus 129 ~~~~~CPiCl~~~sek~~-vsTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP-VSTKCGHVFCSQCIKDALKN-TNKCPTCRKKITHKQ 181 (187)
T ss_pred ccccCCCceecchhhccc-cccccchhHHHHHHHHHHHh-CCCCCCcccccchhh
Confidence 456899999999876522 23579999999999999986 779999999776553
No 17
>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=9.2e-10 Score=65.14 Aligned_cols=40 Identities=45% Similarity=1.045 Sum_probs=34.1
Q ss_pred cccccccccCCCceEEeCCCCcchHHhHHHHHh-cCCCCCCCc
Q 030323 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH-HLNFNCPLC 151 (179)
Q Consensus 110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~-~~~~~CP~C 151 (179)
|+||++.+..+ ...++|+|.||..|+.+|+. .....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998877 23678999999999999999 446679998
No 18
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.88 E-value=1.8e-09 Score=73.54 Aligned_cols=51 Identities=27% Similarity=0.637 Sum_probs=37.3
Q ss_pred CcccccccccccCC--------Cc-eEEe-CCCCcchHHhHHHHHhcC--CCCCCCccCCCCC
Q 030323 107 GSDCMVCLCTLRDG--------EL-VRKL-DCRHVFHKDCLDGWLHHL--NFNCPLCRSPVVS 157 (179)
Q Consensus 107 ~~~C~ICl~~~~~~--------~~-~~~l-pC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~ 157 (179)
++.|.||+..|... +. ...+ .|+|.||..||.+|+... +..||+||++...
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 56888888877521 11 1223 599999999999999853 4689999997653
No 19
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=2.1e-09 Score=87.16 Aligned_cols=73 Identities=30% Similarity=0.650 Sum_probs=60.4
Q ss_pred cCCcccccccccccCCC-------ceEEeCCCCcchHHhHHHHHhcC-CCCCCCccCCCCCC---cchhhhhhhcccchh
Q 030323 105 AAGSDCMVCLCTLRDGE-------LVRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRSPVVSE---ERVWNTRRRVGGDLI 173 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~-------~~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~---~~~~~~~~~~~~~~~ 173 (179)
.++..|+||-..+.... ++-.|.|+|+||..||..|...+ ..+||.|+..+..+ +++++.+....+.+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnpWekph~~yg~Ll 301 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNPWEKPHVWYGQLL 301 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccCccccchhHHHHHH
Confidence 35779999998775543 56778999999999999997643 57899999988755 468888999999999
Q ss_pred hccc
Q 030323 174 QWFS 177 (179)
Q Consensus 174 ~~~~ 177 (179)
||.|
T Consensus 302 dwlR 305 (328)
T KOG1734|consen 302 DWLR 305 (328)
T ss_pred HHHH
Confidence 9987
No 20
>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=98.86 E-value=3.2e-09 Score=60.81 Aligned_cols=39 Identities=41% Similarity=1.034 Sum_probs=32.9
Q ss_pred cccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCc
Q 030323 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC 151 (179)
Q Consensus 110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~C 151 (179)
|+||++..... ..++|+|.||..|++.|+...+..||+|
T Consensus 1 C~iC~~~~~~~---~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDP---VVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCc---EEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999885444 7789999999999999998546789987
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.82 E-value=4.4e-09 Score=63.38 Aligned_cols=44 Identities=27% Similarity=0.749 Sum_probs=36.8
Q ss_pred ccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153 (179)
Q Consensus 109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~ 153 (179)
.|+||.+.+........++|||.||..|+..+. .....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence 489999999555566778999999999999987 33678999985
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.79 E-value=3.5e-09 Score=91.23 Aligned_cols=50 Identities=24% Similarity=0.518 Sum_probs=43.6
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 158 (179)
.....|+||++.|..+ .+++|+|.||..|+..|+.. ...||+|+..+...
T Consensus 24 e~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 24 DTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQES 73 (397)
T ss_pred ccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhC-CCCCCCCCCccccc
Confidence 3568999999999888 67899999999999999986 66899999988654
No 23
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=3.7e-09 Score=95.05 Aligned_cols=52 Identities=33% Similarity=0.907 Sum_probs=44.1
Q ss_pred cCCcccccccccccCCCc--eEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGEL--VRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~--~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
..+..|+||+|.+..+.. ...+||+|.||..|+..|+.+ +.+||+||..+..
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~~ 342 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLYD 342 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhhc
Confidence 347899999999887543 478899999999999999998 8899999995543
No 24
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=2.5e-08 Score=86.70 Aligned_cols=96 Identities=21% Similarity=0.448 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHhcccCCCCCCCCCCCCCCCchHHHHHHHHHHhhhccccccccCCCCCCCCCCCCccCCCCCCCCcCCc
Q 030323 29 NLRSLLFSLLHSVGMTRVDPVQNNPAGPHVGSGLASLIVLAEQLNKNRAFSYKYNNNNNINKINDNCCCGQGVASSAAGS 108 (179)
Q Consensus 29 ~l~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 108 (179)
++...+..+-.++|-+-+.+....++++.+-.. -..+ .+++-.....
T Consensus 526 lFQv~vLl~Qd~lGsR~FlPkk~lpe~YsY~r~------------------------l~~d---------h~~~~~~~t~ 572 (636)
T KOG0828|consen 526 LFQVLVLLVQDYLGSRCFLPKKFLPEKYSYHRR------------------------LQQD---------HLEAFVRRTN 572 (636)
T ss_pred HHHHHHHHHHhhcccccccchhhCccccccccc------------------------cccc---------cccchhhccc
Confidence 344445555678888887777777665444221 1100 0001113356
Q ss_pred ccccccccccCCC--------------ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 109 DCMVCLCTLRDGE--------------LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 109 ~C~ICl~~~~~~~--------------~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
.|+|||.+..-.. ....+||.|.||..|+.+|....+-.||+||.++++
T Consensus 573 dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 573 DCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred cceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 9999999763221 123459999999999999999546689999999875
No 25
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.57 E-value=2.9e-08 Score=59.54 Aligned_cols=39 Identities=38% Similarity=0.780 Sum_probs=22.4
Q ss_pred cccccccccCCC-ceEEeCCCCcchHHhHHHHHhcC---CCCCC
Q 030323 110 CMVCLCTLRDGE-LVRKLDCRHVFHKDCLDGWLHHL---NFNCP 149 (179)
Q Consensus 110 C~ICl~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~---~~~CP 149 (179)
|+||.| |...+ ....|+|||.|+.+|++++..+. ...||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 76633 34778999999999999999853 34576
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=6.4e-08 Score=78.37 Aligned_cols=53 Identities=30% Similarity=0.592 Sum_probs=44.3
Q ss_pred CcCCcccccccccccCCCceEEeCCCCcchHHhHHH-HHhcCCCCCCCccCCCCCCc
Q 030323 104 SAAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDG-WLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 104 ~~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~-wl~~~~~~CP~Cr~~~~~~~ 159 (179)
...+..|+||++....+ ..++|||.||..||-. |-.++-..||+||+.+.+++
T Consensus 212 p~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 212 PLADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred cccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 36689999999998887 8889999999999999 76653345999999887664
No 27
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.52 E-value=8.6e-08 Score=64.09 Aligned_cols=49 Identities=31% Similarity=0.663 Sum_probs=35.6
Q ss_pred ccccccccccCCCceEEe--CCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323 109 DCMVCLCTLRDGELVRKL--DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158 (179)
Q Consensus 109 ~C~ICl~~~~~~~~~~~l--pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 158 (179)
.|+-|......+++.... -|.|.||..||.+||.. +..||++|++..-.
T Consensus 33 ~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~~~ 83 (88)
T COG5194 33 TCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWVLA 83 (88)
T ss_pred cCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeEEe
Confidence 455555444444444333 39999999999999997 77999999987543
No 28
>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=6.9e-08 Score=64.43 Aligned_cols=66 Identities=18% Similarity=0.379 Sum_probs=46.6
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhcccchhhcc
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGGDLIQWF 176 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~ 176 (179)
+...|+|+.+.+.++ ..+|+||.|.+.||..|+...+.+||+|+.++..++... +..+-..+.+|.
T Consensus 3 ~~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~p--n~~Lk~~I~~~~ 68 (73)
T PF04564_consen 3 DEFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLIP--NRALKSAIEEWC 68 (73)
T ss_dssp GGGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSEE---HHHHHHHHHHH
T ss_pred cccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccceE--CHHHHHHHHHHH
Confidence 357899999999999 888999999999999999976789999999887655333 233334444553
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=98.35 E-value=4.1e-07 Score=75.85 Aligned_cols=53 Identities=25% Similarity=0.528 Sum_probs=39.3
Q ss_pred Cccccccccc-ccCCCc-eEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 107 GSDCMVCLCT-LRDGEL-VRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 107 ~~~C~ICl~~-~~~~~~-~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
+..||+|... +.+++. ..+.+|||.||.+|++..+......||.|+.++...+
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 4689999995 334432 1222799999999999976655678999998876554
No 30
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=2.7e-07 Score=80.80 Aligned_cols=50 Identities=24% Similarity=0.644 Sum_probs=40.9
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC----CCCCCCccCCCCCCc
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL----NFNCPLCRSPVVSEE 159 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~----~~~CP~Cr~~~~~~~ 159 (179)
+..||||++....+ ..+.|||.||..||-+++... ...||+||..+..++
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 78999999997776 455699999999999876643 246999999988754
No 31
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.32 E-value=2.3e-07 Score=77.57 Aligned_cols=50 Identities=22% Similarity=0.476 Sum_probs=44.2
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
.-..|-||.|.|..+ ..+||+|.||.-||..+|.. +..||.|+.++.+..
T Consensus 22 ~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESD 71 (442)
T ss_pred HHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhcc-CCCCCceecccchhh
Confidence 356999999999998 78899999999999999987 889999998876543
No 32
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.31 E-value=1.5e-07 Score=62.43 Aligned_cols=51 Identities=27% Similarity=0.685 Sum_probs=36.1
Q ss_pred CCcccccccccccC--------CCce-EEe-CCCCcchHHhHHHHHhcC--CCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRD--------GELV-RKL-DCRHVFHKDCLDGWLHHL--NFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~--------~~~~-~~l-pC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~ 156 (179)
.+++|.||.-.|.. ++.. .++ -|.|.||..||.+|+... +..||+||+...
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 34588888877742 1221 223 399999999999999753 457999998764
No 33
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.31 E-value=3.7e-07 Score=78.79 Aligned_cols=51 Identities=29% Similarity=0.658 Sum_probs=41.3
Q ss_pred CCcCCcccccccccccCCC-ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 103 SSAAGSDCMVCLCTLRDGE-LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 103 ~~~~~~~C~ICl~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
+..+-++||||+|.+.... .+....|.|.||..|+..| ...+||+||.-..
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w---~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW---WDSSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhc---ccCcChhhhhhcC
Confidence 4467889999999986553 3455579999999999999 4669999998765
No 34
>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=98.30 E-value=9.1e-07 Score=54.53 Aligned_cols=43 Identities=28% Similarity=0.706 Sum_probs=32.7
Q ss_pred ccccccccccCCCceEEeCCC-----CcchHHhHHHHHhcC-CCCCCCcc
Q 030323 109 DCMVCLCTLRDGELVRKLDCR-----HVFHKDCLDGWLHHL-NFNCPLCR 152 (179)
Q Consensus 109 ~C~ICl~~~~~~~~~~~lpC~-----H~fh~~Ci~~wl~~~-~~~CP~Cr 152 (179)
.|.||++ ...++.....||. |.+|..|+.+|+... +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4889998 3334444567875 789999999999864 45799995
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=2.8e-07 Score=74.58 Aligned_cols=45 Identities=31% Similarity=0.704 Sum_probs=40.2
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~ 153 (179)
.+...|+||++.|..+ ..+||+|.||..|+..+.. ....||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence 4678999999999999 8889999999999999877 4678999993
No 36
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.26 E-value=3.2e-07 Score=85.11 Aligned_cols=51 Identities=31% Similarity=0.815 Sum_probs=38.4
Q ss_pred CCcccccccccccCCC---ceEEe-CCCCcchHHhHHHHHhcC-CCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRDGE---LVRKL-DCRHVFHKDCLDGWLHHL-NFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~---~~~~l-pC~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~ 156 (179)
+..+|+||...+..-+ .-... .|+|.||..|+.+|+... +.+||+||.+++
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 6679999998765111 01223 499999999999999864 468999998875
No 37
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=1.6e-06 Score=72.98 Aligned_cols=49 Identities=35% Similarity=0.875 Sum_probs=40.0
Q ss_pred cCCcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
+...+|.|||.+..+- .+|||.|. .|..|.+.-.-+ +..||+||+++..
T Consensus 288 ~~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHh-hcCCCccccchHh
Confidence 5578999999986665 88999999 999999975433 5689999998853
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.16 E-value=1.1e-06 Score=72.27 Aligned_cols=47 Identities=26% Similarity=0.591 Sum_probs=41.9
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
.-..|-||-+.+..+ ..++|||.||.-||...|.. +..||+||.+..
T Consensus 24 s~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~ 70 (391)
T COG5432 24 SMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGT-QPFCPVCREDPC 70 (391)
T ss_pred hHHHhhhhhheeecc---eecccccchhHHHHHHHhcC-CCCCccccccHH
Confidence 356999999999998 77789999999999999986 899999998764
No 39
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=3.2e-07 Score=77.08 Aligned_cols=51 Identities=33% Similarity=0.605 Sum_probs=44.5
Q ss_pred CCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
.+..|+||++.++.. ++.+ |.|.||.+||..-+...+..||.||+.+..+-
T Consensus 42 ~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skr 93 (381)
T KOG0311|consen 42 IQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKR 93 (381)
T ss_pred hhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccc
Confidence 477999999998876 5555 99999999999999988899999999987664
No 40
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=1.5e-06 Score=71.66 Aligned_cols=50 Identities=28% Similarity=0.568 Sum_probs=43.3
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 158 (179)
...+|+||+.....+ ..|+|+|.||..||+.-......+|++||.++++.
T Consensus 6 ~~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDST 55 (324)
T ss_pred cCCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcc
Confidence 467999999987777 77899999999999987776567899999999765
No 41
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.01 E-value=1.1e-06 Score=58.10 Aligned_cols=50 Identities=34% Similarity=0.806 Sum_probs=23.2
Q ss_pred Cccccccccccc-CCCceEEe----CCCCcchHHhHHHHHhcC--C--------CCCCCccCCCC
Q 030323 107 GSDCMVCLCTLR-DGELVRKL----DCRHVFHKDCLDGWLHHL--N--------FNCPLCRSPVV 156 (179)
Q Consensus 107 ~~~C~ICl~~~~-~~~~~~~l----pC~H~fh~~Ci~~wl~~~--~--------~~CP~Cr~~~~ 156 (179)
+.+|.||.+... .++..... .|++.||..|+.+|+... . ..||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 468999999865 33221211 489999999999999742 1 14999998774
No 42
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=2e-06 Score=53.57 Aligned_cols=47 Identities=26% Similarity=0.596 Sum_probs=37.3
Q ss_pred CcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
+.+|.||+|.-.+. ....|||. .|.+|-.+-++..+..||+||.++-
T Consensus 7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 37999999986654 44469999 8999988766655789999999763
No 43
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.90 E-value=2.3e-06 Score=55.18 Aligned_cols=56 Identities=23% Similarity=0.636 Sum_probs=27.2
Q ss_pred CcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhhhccc
Q 030323 107 GSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRRRVGG 170 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~ 170 (179)
-..|++|.+.+..+ ..+ .|.|.||..||..-+. ..||+|+.+.-.+ ..+.++++.+
T Consensus 7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~---~~CPvC~~Paw~q--D~~~NrqLd~ 63 (65)
T PF14835_consen 7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG---SECPVCHTPAWIQ--DIQINRQLDS 63 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT---TB-SSS--B-S-S--S----HHHHH
T ss_pred hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC---CCCCCcCChHHHH--HHHhhhhhhc
Confidence 46899999999888 555 5999999999987543 4699998866544 4455566543
No 44
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=1.2e-05 Score=56.46 Aligned_cols=49 Identities=27% Similarity=0.612 Sum_probs=35.5
Q ss_pred CCccccccccccc------------CCCceEE-e-CCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323 106 AGSDCMVCLCTLR------------DGELVRK-L-DCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155 (179)
Q Consensus 106 ~~~~C~ICl~~~~------------~~~~~~~-l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 155 (179)
.-..|+||..-+- ..++..+ - -|.|.||..||.+|++. +..||+|.++-
T Consensus 45 ~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt-r~vCPLdn~eW 107 (114)
T KOG2930|consen 45 VVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT-RNVCPLDNKEW 107 (114)
T ss_pred eechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh-cCcCCCcCcce
Confidence 4678999876431 1122233 3 49999999999999997 78999997653
No 45
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.88 E-value=6.7e-06 Score=70.02 Aligned_cols=50 Identities=24% Similarity=0.740 Sum_probs=38.0
Q ss_pred CcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCC--CCCCCccCCCC
Q 030323 107 GSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLN--FNCPLCRSPVV 156 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~--~~CP~Cr~~~~ 156 (179)
.+.|.||.+.+-....+.... |||.||..|+.+|+.... ..||+|+-.+.
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~ 56 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQ 56 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeeccc
Confidence 468999966555555555565 999999999999998643 47999994443
No 46
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=4.1e-06 Score=76.49 Aligned_cols=51 Identities=24% Similarity=0.566 Sum_probs=42.6
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
+-..|++|-...++. +...|+|.||..|+..-+...+..||.|..+|.+.|
T Consensus 642 ~~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred hceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 356999999776654 545699999999999999877899999999997765
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=1.6e-05 Score=67.61 Aligned_cols=51 Identities=27% Similarity=0.782 Sum_probs=38.7
Q ss_pred cCCcccccccccccCCC----ceEEeC-CCCcchHHhHHHHHhcCC------CCCCCccCCC
Q 030323 105 AAGSDCMVCLCTLRDGE----LVRKLD-CRHVFHKDCLDGWLHHLN------FNCPLCRSPV 155 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~----~~~~lp-C~H~fh~~Ci~~wl~~~~------~~CP~Cr~~~ 155 (179)
..+..|.||++...... .-..+| |.|.||..||..|-...+ +.||.||...
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 45789999999865542 122345 999999999999985433 6799999855
No 48
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.59 E-value=3.4e-05 Score=66.83 Aligned_cols=49 Identities=35% Similarity=0.702 Sum_probs=43.5
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
..+..|.||+..+..+ +.+||||.||..|+++-+.. ...||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQ-ETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC---ccccccccccHHHHHHHhcc-CCCCccccccccc
Confidence 4578999999999998 77899999999999997774 7789999999975
No 49
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.54 E-value=2.4e-05 Score=64.69 Aligned_cols=54 Identities=28% Similarity=0.679 Sum_probs=44.5
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC----------------------CCCCCCccCCCCCCc
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL----------------------NFNCPLCRSPVVSEE 159 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~----------------------~~~CP~Cr~~~~~~~ 159 (179)
....|.||+--|..++....++|.|.||..|+.++|..- ...||+||..+..+.
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 467999999999999888999999999999998876321 236999999886553
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=7e-05 Score=64.28 Aligned_cols=53 Identities=28% Similarity=0.832 Sum_probs=39.8
Q ss_pred CcccccccccccCCCc--eEEeCCCCcchHHhHHHHHhcC-CCCCCCccCCCCCCc
Q 030323 107 GSDCMVCLCTLRDGEL--VRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRSPVVSEE 159 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~--~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~~ 159 (179)
..+|+||++.+.-+-. +..+.|||.|-.+||++|+.+. ...||.|......++
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~ 59 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ 59 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence 5799999998765433 3344599999999999999642 357999977655443
No 51
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.48 E-value=2.4e-05 Score=71.82 Aligned_cols=49 Identities=22% Similarity=0.489 Sum_probs=38.1
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
...|++|+..+.+.......+|+|.||..|+..|-.. ..+||+||..+.
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhh
Confidence 3456666666655544555679999999999999886 679999999875
No 52
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.46 E-value=7.2e-05 Score=47.50 Aligned_cols=44 Identities=23% Similarity=0.556 Sum_probs=29.2
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc-CCCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH-LNFNCPL 150 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~-~~~~CP~ 150 (179)
.-...|||.+..|++| ++...|+|.|-++.|.+|+.. ....||+
T Consensus 9 ~~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3468999999999988 444479999999999999943 2456998
No 53
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.28 E-value=0.00011 Score=63.72 Aligned_cols=53 Identities=30% Similarity=0.672 Sum_probs=45.0
Q ss_pred cCCcccccccccccCCCceEE-eCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcch
Q 030323 105 AAGSDCMVCLCTLRDGELVRK-LDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERV 161 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~-lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~ 161 (179)
.++..|++|+..+.++ .. ..|||.||..|+..|+.. +..||.|+..+...+..
T Consensus 19 ~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEEL 72 (391)
T ss_pred cccccCccccccccCC---CCCCCCCCcccccccchhhcc-CcCCcccccccchhhcc
Confidence 4578999999999988 44 479999999999999997 88999998888655543
No 54
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=0.00043 Score=55.32 Aligned_cols=53 Identities=30% Similarity=0.766 Sum_probs=43.2
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-------CCCCCCccCCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-------NFNCPLCRSPVVSE 158 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-------~~~CP~Cr~~~~~~ 158 (179)
+....|..|-..+..++.++ |-|-|.||..|++.|-... ...||-|..++.+.
T Consensus 48 DY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 45679999999998887766 6699999999999997542 24799999988654
No 55
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.13 E-value=0.00021 Score=61.45 Aligned_cols=50 Identities=24% Similarity=0.583 Sum_probs=38.9
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-CCCCCCccCCCCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRSPVVSE 158 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~ 158 (179)
.-.-|-||-|.= +.+++=||||..|..|+..|-... ..+||.||.++...
T Consensus 368 TFeLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 368 TFELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred hHHHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 345799998763 334666999999999999998653 57899999987543
No 56
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.09 E-value=0.00042 Score=56.03 Aligned_cols=61 Identities=20% Similarity=0.301 Sum_probs=50.5
Q ss_pred cCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcchhhhhh
Q 030323 105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEERVWNTRR 166 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~ 166 (179)
+....||||.+.+.+......| ||||+|+.+|+++.+.. ...||+|-.++..++-..-.+.
T Consensus 219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdrdiI~LqrG 280 (303)
T KOG3039|consen 219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDRDIIGLQRG 280 (303)
T ss_pred ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCcccceEeeecc
Confidence 3567999999999998777777 79999999999998775 8899999999887775444333
No 57
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.02 E-value=0.00065 Score=55.72 Aligned_cols=53 Identities=23% Similarity=0.434 Sum_probs=40.9
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc-CCCCCCCccCCCCCCc
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH-LNFNCPLCRSPVVSEE 159 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~-~~~~CP~Cr~~~~~~~ 159 (179)
..+.+|++|-+.-..| ....+|+|.||.-|+..-... ...+||.|..++.+-+
T Consensus 237 t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred cCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 4678999999997777 233479999999999975542 2479999998886443
No 58
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.99 E-value=0.00019 Score=60.12 Aligned_cols=49 Identities=27% Similarity=0.599 Sum_probs=41.5
Q ss_pred CCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 158 (179)
...+|.+|...|.+. .+.. |-|.||++||...+.. +..||.|...+...
T Consensus 14 ~~itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKT 63 (331)
T ss_pred cceehhhccceeecc---hhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCc
Confidence 467999999999887 5555 9999999999999997 88999998766433
No 59
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.96 E-value=0.0006 Score=41.65 Aligned_cols=46 Identities=24% Similarity=0.516 Sum_probs=22.7
Q ss_pred cccccccccCCC-ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323 110 CMVCLCTLRDGE-LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155 (179)
Q Consensus 110 C~ICl~~~~~~~-~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 155 (179)
|++|.+++...+ ....-+|++..|..|...-+...+..||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999884332 2233358899999998887765578999999864
No 60
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.89 E-value=0.00036 Score=54.77 Aligned_cols=45 Identities=18% Similarity=0.352 Sum_probs=38.6
Q ss_pred cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
..|.||.++|..+ +++.|||.||..|...-++. ...|-+|.+...
T Consensus 197 F~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~k-g~~C~~Cgk~t~ 241 (259)
T COG5152 197 FLCGICKKDYESP---VVTECGHSFCSLCAIRKYQK-GDECGVCGKATY 241 (259)
T ss_pred eeehhchhhccch---hhhhcchhHHHHHHHHHhcc-CCcceecchhhc
Confidence 4899999999998 77789999999999987775 778999977553
No 61
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.87 E-value=0.00039 Score=59.60 Aligned_cols=48 Identities=31% Similarity=0.654 Sum_probs=39.1
Q ss_pred CCcccccccccccC-CCceEEeCCCCcchHHhHHHHHhcC-CCCCCCccC
Q 030323 106 AGSDCMVCLCTLRD-GELVRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRS 153 (179)
Q Consensus 106 ~~~~C~ICl~~~~~-~~~~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~ 153 (179)
.+..|..|-+.+.- ++....|||.|.||..|+...+.+. ..+||-||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 46789999998763 4566778999999999999988752 368999993
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.72 E-value=0.0019 Score=49.06 Aligned_cols=50 Identities=24% Similarity=0.642 Sum_probs=36.8
Q ss_pred cCCcccccccccccCCCceEEeCCC--C---cchHHhHHHHHhcC-CCCCCCccCCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCR--H---VFHKDCLDGWLHHL-NFNCPLCRSPVVSE 158 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~--H---~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~ 158 (179)
..+..|-||.+.-.. ..-||. . ..|.+|++.|+... ..+|++|+.+..-.
T Consensus 6 ~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 457899999988432 224654 3 56999999999864 45799999887543
No 63
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.71 E-value=0.00098 Score=55.40 Aligned_cols=43 Identities=35% Similarity=0.857 Sum_probs=36.7
Q ss_pred cccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccC
Q 030323 108 SDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRS 153 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~ 153 (179)
..|+.|-..+.++ ..+| |+|.||.+||...|....+.||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 7899999988887 4456 89999999999888766899999954
No 64
>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=96.58 E-value=0.0011 Score=49.07 Aligned_cols=35 Identities=20% Similarity=0.532 Sum_probs=29.6
Q ss_pred CcccccccccccCCCceEEeCCC------CcchHHhHHHHH
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCR------HVFHKDCLDGWL 141 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~------H~fh~~Ci~~wl 141 (179)
..+|+||++.+.+.+.++.++|+ |.||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 56999999999885667777775 789999999994
No 65
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.00091 Score=55.38 Aligned_cols=48 Identities=17% Similarity=0.345 Sum_probs=40.8
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 158 (179)
...|-||...|..+ ++..|+|.||..|...-++. ...|++|.+.....
T Consensus 241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQK-GEKCYVCSQQTHGS 288 (313)
T ss_pred Cccccccccccccc---hhhcCCceeehhhhcccccc-CCcceecccccccc
Confidence 45699999999999 77789999999999887775 77999998876543
No 66
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.45 E-value=0.0016 Score=40.75 Aligned_cols=47 Identities=26% Similarity=0.661 Sum_probs=34.5
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
...|-.|...-..+ ..+||+|..+..|..-+ .-..||.|.+++...+
T Consensus 7 ~~~~~~~~~~~~~~---~~~pCgH~I~~~~f~~~---rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 7 EQPCVFCGFVGTKG---TVLPCGHLICDNCFPGE---RYNGCPFCGTPFEFDD 53 (55)
T ss_pred ceeEEEcccccccc---ccccccceeeccccChh---hccCCCCCCCcccCCC
Confidence 34566666554444 77899999999998865 2458999999886554
No 67
>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=96.44 E-value=0.0013 Score=46.19 Aligned_cols=32 Identities=28% Similarity=0.671 Sum_probs=26.8
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHH
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLD 138 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~ 138 (179)
++..|++|-..+.. ......||||.||..|+.
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 46789999999877 456677999999999975
No 68
>PHA02862 5L protein; Provisional
Probab=96.35 E-value=0.0032 Score=47.04 Aligned_cols=48 Identities=21% Similarity=0.536 Sum_probs=35.4
Q ss_pred CcccccccccccCCCceEEeCCC-----CcchHHhHHHHHhcC-CCCCCCccCCCCCC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCR-----HVFHKDCLDGWLHHL-NFNCPLCRSPVVSE 158 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~-----H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~ 158 (179)
...|-||.+.-.+. .-||. ...|.+|+.+|+... +..|++|+.+..-+
T Consensus 2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 35899999984332 34664 459999999999853 35799999987543
No 69
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.22 E-value=0.0022 Score=57.12 Aligned_cols=51 Identities=22% Similarity=0.576 Sum_probs=40.6
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc----CCCCCCCccCCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH----LNFNCPLCRSPVVSE 158 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~----~~~~CP~Cr~~~~~~ 158 (179)
.++..|.+|-+.-++. ....|.|.||+.|+..+... .+-+||+|...+.-+
T Consensus 534 k~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 3577999999987776 66779999999999877643 256899998877644
No 70
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.18 E-value=0.0058 Score=51.93 Aligned_cols=45 Identities=27% Similarity=0.497 Sum_probs=34.1
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
.....|.||++...+- ..+||||.-| |..--. +..+||+||..+.
T Consensus 303 ~~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs~--~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCSK--HLPQCPVCRQRIR 347 (355)
T ss_pred CCCCceEEecCCccce---eeecCCcEEE--chHHHh--hCCCCchhHHHHH
Confidence 4578999999987664 7889999965 655432 2567999998764
No 71
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.15 E-value=0.0037 Score=37.98 Aligned_cols=41 Identities=32% Similarity=0.831 Sum_probs=26.3
Q ss_pred cccccccccCCCceEEeCCC--C---cchHHhHHHHHhcC-CCCCCCc
Q 030323 110 CMVCLCTLRDGELVRKLDCR--H---VFHKDCLDGWLHHL-NFNCPLC 151 (179)
Q Consensus 110 C~ICl~~~~~~~~~~~lpC~--H---~fh~~Ci~~wl~~~-~~~CP~C 151 (179)
|-||++.-...+ .-..||+ - ..|.+|+.+|+... +.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 678888765543 2345753 3 68999999999852 4579887
No 72
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.97 E-value=0.0055 Score=51.88 Aligned_cols=53 Identities=21% Similarity=0.402 Sum_probs=39.9
Q ss_pred CCcccccccccccCCCc-eEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323 106 AGSDCMVCLCTLRDGEL-VRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~-~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 158 (179)
++..||.|+|.+...++ ....|||-..|..|...--+..+.+||-||.....+
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~de 66 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDE 66 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcccc
Confidence 45569999998765433 334578988999998876666678999999877654
No 73
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.96 E-value=0.011 Score=48.58 Aligned_cols=54 Identities=24% Similarity=0.391 Sum_probs=42.9
Q ss_pred CcCCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 104 SAAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 104 ~~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
......|||....|........+ ||||+|...++..-- ....||+|-.++...+
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEED 164 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCC
Confidence 35678999999999665555555 899999999999862 2568999999987664
No 74
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.81 E-value=0.0087 Score=51.76 Aligned_cols=47 Identities=28% Similarity=0.590 Sum_probs=37.2
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-------CCCCCCccC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-------NFNCPLCRS 153 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-------~~~CP~Cr~ 153 (179)
-..|.||++..........+||+|+||+.|...++... .-.||-+.-
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 56999999998766778889999999999999987632 125776644
No 75
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.79 E-value=0.0064 Score=51.72 Aligned_cols=49 Identities=18% Similarity=0.445 Sum_probs=40.8
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
.++..|+||...-... ...||+|.=|..||.+.+.+ .+.|=.|+..+..
T Consensus 420 sEd~lCpICyA~pi~A---vf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINA---VFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccchh---hccCCCCchHHHHHHHHHhc-CCeeeEecceeee
Confidence 5688999999764443 56799999999999999987 8899999987763
No 76
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.74 E-value=0.005 Score=49.70 Aligned_cols=44 Identities=30% Similarity=0.617 Sum_probs=31.5
Q ss_pred ccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
-|..|.-.-. ++....+.|.|+||..|...- ....||+|++++-
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~---~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKAS---SPDVCPLCKKSIR 48 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccC---Cccccccccceee
Confidence 4666654433 556677789999999997752 2338999999863
No 77
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.65 E-value=0.02 Score=48.76 Aligned_cols=48 Identities=21% Similarity=0.546 Sum_probs=37.2
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHh-cCCCCCCCccCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH-HLNFNCPLCRSPV 155 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~-~~~~~CP~Cr~~~ 155 (179)
++...|.||-+...-. ..+||+|..|..|.-+.-. ..++.||+||.+-
T Consensus 59 Een~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 59 EENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 5677999999876654 6789999999999875321 2367899999864
No 78
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.51 E-value=0.012 Score=48.93 Aligned_cols=49 Identities=24% Similarity=0.634 Sum_probs=39.9
Q ss_pred CcccccccccccCCC---ceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323 107 GSDCMVCLCTLRDGE---LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~---~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 155 (179)
...|-||-++|+..+ ..+.|.|||.++..|+.+-+......||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 358999999997653 2356779999999999998876556799999985
No 79
>PHA03096 p28-like protein; Provisional
Probab=95.42 E-value=0.0089 Score=49.82 Aligned_cols=45 Identities=22% Similarity=0.422 Sum_probs=31.4
Q ss_pred cccccccccccCC----CceEEeC-CCCcchHHhHHHHHhcCC--CCCCCcc
Q 030323 108 SDCMVCLCTLRDG----ELVRKLD-CRHVFHKDCLDGWLHHLN--FNCPLCR 152 (179)
Q Consensus 108 ~~C~ICl~~~~~~----~~~~~lp-C~H~fh~~Ci~~wl~~~~--~~CP~Cr 152 (179)
..|.||++..... ..-..|+ |.|.||..|+..|..... .+||.||
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 5899999975432 1234566 999999999999987532 3344443
No 80
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.41 E-value=0.021 Score=35.71 Aligned_cols=34 Identities=29% Similarity=0.733 Sum_probs=28.8
Q ss_pred CCcccccccccccCCCceEEeC-CCCcchHHhHHH
Q 030323 106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDG 139 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~ 139 (179)
....|++|-+.|.+++.+.+-| |+-.+|+.|.+.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 4579999999998777777777 999999999664
No 81
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=95.40 E-value=0.011 Score=58.18 Aligned_cols=53 Identities=28% Similarity=0.706 Sum_probs=39.6
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC---------CCCCCCccCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL---------NFNCPLCRSPVVS 157 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~---------~~~CP~Cr~~~~~ 157 (179)
+.+..|.||..+--.....+.|.|+|.||..|...-|.+. --.||+|+.++..
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 4567899998764444456789999999999998766542 1269999998753
No 82
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=95.33 E-value=0.0099 Score=55.51 Aligned_cols=48 Identities=31% Similarity=0.849 Sum_probs=36.8
Q ss_pred CCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcC------CCCCCCccC
Q 030323 106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHL------NFNCPLCRS 153 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~------~~~CP~Cr~ 153 (179)
...+|.||.+.+.....+-.- .|-|+||..||..|-.+. .-.||.|+.
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 567999999998765444333 489999999999998653 236999984
No 83
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.32 E-value=0.0052 Score=46.83 Aligned_cols=30 Identities=30% Similarity=0.845 Sum_probs=27.2
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchH
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHK 134 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~ 134 (179)
....+|.||+|++..++.+..|||-..||+
T Consensus 175 ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 175 DDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred ccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 456799999999999999999999999986
No 84
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.31 E-value=0.0092 Score=49.41 Aligned_cols=51 Identities=24% Similarity=0.569 Sum_probs=39.6
Q ss_pred CCcccccccccccCC-CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323 106 AGSDCMVCLCTLRDG-ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~-~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 158 (179)
....||||.+.+... ..+..++|||..|..|....... +.+||+|.+ +..+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~-~y~CP~C~~-~~d~ 208 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE-GYTCPICSK-PGDM 208 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc-CCCCCcccc-hHHH
Confidence 345699999976544 34466799999999999998876 499999988 5444
No 85
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=95.22 E-value=0.0093 Score=35.55 Aligned_cols=42 Identities=29% Similarity=0.770 Sum_probs=22.6
Q ss_pred cccccccccCCCceEEeCCCCcchHHhHHHHHhcCC-CCCCCc
Q 030323 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN-FNCPLC 151 (179)
Q Consensus 110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~-~~CP~C 151 (179)
|.+|.+....+..-..-.|+-.+|..|++.++...+ ..||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 677888777762222223988999999999988633 269987
No 86
>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=95.21 E-value=0.019 Score=47.56 Aligned_cols=48 Identities=21% Similarity=0.478 Sum_probs=37.3
Q ss_pred cccccccc-ccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 109 DCMVCLCT-LRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 109 ~C~ICl~~-~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
.||+|..+ +-+++..... +|+|..|.+|++.-+..+...||.|...+-
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 58999885 4455443333 799999999999999887789999977553
No 87
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.18 E-value=0.029 Score=42.66 Aligned_cols=60 Identities=28% Similarity=0.552 Sum_probs=36.9
Q ss_pred CcccccccccccCCC---------ceEEeCCCCc-chHHhHHHHHhcC------------------------------CC
Q 030323 107 GSDCMVCLCTLRDGE---------LVRKLDCRHV-FHKDCLDGWLHHL------------------------------NF 146 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~---------~~~~lpC~H~-fh~~Ci~~wl~~~------------------------------~~ 146 (179)
+.+|+||||.--+.. ..+..=|+.. -|..|++++-+.. ..
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 81 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPEL 81 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccccc
Confidence 679999999854441 1122225444 5788999875321 12
Q ss_pred CCCCccCCCCCCcchhhhhh
Q 030323 147 NCPLCRSPVVSEERVWNTRR 166 (179)
Q Consensus 147 ~CP~Cr~~~~~~~~~~~~~~ 166 (179)
.||+||..+........-++
T Consensus 82 ~CPLCRG~V~GWtvve~AR~ 101 (162)
T PF07800_consen 82 ACPLCRGEVKGWTVVEPARR 101 (162)
T ss_pred cCccccCceeceEEchHHHH
Confidence 59999999876654433333
No 88
>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=95.08 E-value=0.013 Score=47.46 Aligned_cols=48 Identities=21% Similarity=0.508 Sum_probs=37.9
Q ss_pred CCccccccccc-ccCCCceEEe-C-CCCcchHHhHHHHHhcCCCCCC--CccC
Q 030323 106 AGSDCMVCLCT-LRDGELVRKL-D-CRHVFHKDCLDGWLHHLNFNCP--LCRS 153 (179)
Q Consensus 106 ~~~~C~ICl~~-~~~~~~~~~l-p-C~H~fh~~Ci~~wl~~~~~~CP--~Cr~ 153 (179)
.+..||||..+ +-+|+..... | |-|..|.+|+++-+..+...|| -|.+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 45699999986 4456544444 7 9999999999999998788999 7744
No 89
>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=94.99 E-value=0.071 Score=45.81 Aligned_cols=32 Identities=25% Similarity=0.808 Sum_probs=24.9
Q ss_pred CCCcchHHhHHHHHhcCC------------CCCCCccCCCCCCc
Q 030323 128 CRHVFHKDCLDGWLHHLN------------FNCPLCRSPVVSEE 159 (179)
Q Consensus 128 C~H~fh~~Ci~~wl~~~~------------~~CP~Cr~~~~~~~ 159 (179)
|....|.+|+-+|+..++ ..||+||+.+...|
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 667789999999997542 36999999986543
No 90
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.91 E-value=0.019 Score=48.28 Aligned_cols=45 Identities=29% Similarity=0.648 Sum_probs=36.4
Q ss_pred cCCcccccccccccCCCceEEeCC--CCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDC--RHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC--~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
.+-.+||||.+.+..+ ...| ||..|..|-.+ ....||.||.++..
T Consensus 46 ~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~~----~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRTK----VSNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCccc----ceecCCCcEehhhhhhh----hcccCCcccccccc
Confidence 4567999999999988 4556 79999999653 36689999999973
No 91
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.77 E-value=0.24 Score=42.82 Aligned_cols=45 Identities=31% Similarity=0.449 Sum_probs=38.0
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCC--CCCCCc
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN--FNCPLC 151 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~--~~CP~C 151 (179)
-..|||=.+--.+.+....|.|||+..++-+.+-.+++. ..||.|
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYC 380 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYC 380 (394)
T ss_pred eeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCC
Confidence 468999888777666678899999999999999877655 679999
No 92
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.71 E-value=0.018 Score=53.88 Aligned_cols=44 Identities=30% Similarity=0.634 Sum_probs=34.9
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 155 (179)
....|..|-..+.-| .+-..|||.||..|+. .+...||-|+.+.
T Consensus 839 q~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLP--FVHFLCGHSYHQHCLE----DKEDKCPKCLPEL 882 (933)
T ss_pred eeeeecccCCccccc--eeeeecccHHHHHhhc----cCcccCCccchhh
Confidence 346999999998877 3334699999999998 2467899998744
No 93
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.50 E-value=0.0077 Score=49.99 Aligned_cols=43 Identities=30% Similarity=0.687 Sum_probs=32.6
Q ss_pred CCcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
...-|.||++...+ ...|+|||. -|.+|-.. -..||+||+-+.
T Consensus 299 ~~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr-----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 299 TRRLCAICMDAPRD---CVFLECGHMVTCTKCGKR-----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHHhcCCcc---eEEeecCcEEeehhhccc-----cccCchHHHHHH
Confidence 37889999987443 478899998 67778554 238999998654
No 94
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.42 E-value=0.039 Score=40.76 Aligned_cols=50 Identities=26% Similarity=0.574 Sum_probs=37.2
Q ss_pred CcccccccccccCCCceEEe-C---CCCcchHHhHHH-HHhc-CCCCCCCccCCCCCCc
Q 030323 107 GSDCMVCLCTLRDGELVRKL-D---CRHVFHKDCLDG-WLHH-LNFNCPLCRSPVVSEE 159 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~l-p---C~H~fh~~Ci~~-wl~~-~~~~CP~Cr~~~~~~~ 159 (179)
-.+|.||.|.-.+. +-| | ||-..|..|-.. |-.. ..++||+|+.++-...
T Consensus 80 lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 80 LYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred ceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 57999999986555 444 3 899999998775 5432 2578999999986554
No 95
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.20 E-value=0.045 Score=46.14 Aligned_cols=47 Identities=23% Similarity=0.450 Sum_probs=38.7
Q ss_pred CCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
....||||+..-.++ ..+. -|-+||..|+-..+.+ ...||+=..+..
T Consensus 299 ~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~-~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVN-YGHCPVTGYPAS 346 (357)
T ss_pred ccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHh-cCCCCccCCcch
Confidence 467999999998887 5554 6999999999999986 789998766654
No 96
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.86 E-value=0.051 Score=42.18 Aligned_cols=51 Identities=29% Similarity=0.778 Sum_probs=33.0
Q ss_pred CcccccccccccCCC----ceEEeCCCCcchHHhHHHHHhcC----C------CCCCCccCCCCC
Q 030323 107 GSDCMVCLCTLRDGE----LVRKLDCRHVFHKDCLDGWLHHL----N------FNCPLCRSPVVS 157 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~----~~~~lpC~H~fh~~Ci~~wl~~~----~------~~CP~Cr~~~~~ 157 (179)
-..|.||...--++. ......||..||.-|+..||+.. + ..||.|..++.-
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 345666654322221 12234699999999999999742 1 259999988753
No 97
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.44 E-value=0.042 Score=51.00 Aligned_cols=48 Identities=25% Similarity=0.542 Sum_probs=37.7
Q ss_pred cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCC-CCCCCccCCCCCCc
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN-FNCPLCRSPVVSEE 159 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~-~~CP~Cr~~~~~~~ 159 (179)
..|.+|++ .+.....+|+|.||.+|+..-+...+ ..||.||..+..++
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 79999999 33346678999999999998776533 45999998776554
No 98
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.19 E-value=0.05 Score=47.69 Aligned_cols=36 Identities=25% Similarity=0.450 Sum_probs=31.3
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH 143 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~ 143 (179)
+++..|+||...|.++ ++|||+|..|..|...-+.+
T Consensus 2 eeelkc~vc~~f~~ep---iil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREP---IILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCc---eEeecccHHHHHHHHhhccc
Confidence 4578999999999999 99999999999998865543
No 99
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.90 E-value=0.09 Score=49.28 Aligned_cols=54 Identities=17% Similarity=0.468 Sum_probs=37.8
Q ss_pred cCCcccccccccccCCCceEEeCCCC-----cchHHhHHHHHhcC-CCCCCCccCCCCCCc
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRH-----VFHKDCLDGWLHHL-NFNCPLCRSPVVSEE 159 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H-----~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~~~ 159 (179)
+++..|-||..+=..++. -.=||++ ..|.+|+-+|+... ...|-+|+.++.-++
T Consensus 10 ~d~~~CRICr~e~~~d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDP-LFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCc-CcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 456899999986443321 1126653 48999999999853 357999998876443
No 100
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.90 E-value=0.0089 Score=51.38 Aligned_cols=51 Identities=22% Similarity=0.567 Sum_probs=43.2
Q ss_pred CCcccccccccccCC-CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 106 AGSDCMVCLCTLRDG-ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~-~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
....|+||.+.++.. +.+..+-|||.+|..|+.+|+.. ...||.|+.+++-
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhh
Confidence 456899999988765 55666779999999999999997 7789999998863
No 101
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=91.64 E-value=0.36 Score=45.12 Aligned_cols=41 Identities=29% Similarity=0.637 Sum_probs=28.9
Q ss_pred cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCC
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPL 150 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~ 150 (179)
..|+||--.+. +.......|+|+.|.+|...|+.. +-.||.
T Consensus 1029 ~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~-gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRT-GDVCPS 1069 (1081)
T ss_pred eeeeeEeeEee-ccchhhccccccccHHHHHHHHhc-CCcCCC
Confidence 34777655443 223344569999999999999997 568874
No 102
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.22 E-value=0.12 Score=42.27 Aligned_cols=52 Identities=27% Similarity=0.703 Sum_probs=35.7
Q ss_pred cCCcccccccccccCCCce-EEeCCC-----CcchHHhHHHHHhcCCC-------CCCCccCCCC
Q 030323 105 AAGSDCMVCLCTLRDGELV-RKLDCR-----HVFHKDCLDGWLHHLNF-------NCPLCRSPVV 156 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~-~~lpC~-----H~fh~~Ci~~wl~~~~~-------~CP~Cr~~~~ 156 (179)
+.+..|=||...=++.... -+-||. |-.|.+|+..|+..++. .||-|+.+..
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 4578999999874433111 123653 66999999999986432 5999988653
No 103
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.07 E-value=0.1 Score=41.57 Aligned_cols=39 Identities=36% Similarity=0.683 Sum_probs=28.5
Q ss_pred cccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCCC
Q 030323 110 CMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 110 C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
|-.|-+. ...+..+||.|. +|..|-.. -..||+|+....
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES-----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc-----CccCCCCcChhh
Confidence 7777755 445677899988 89889653 346999987653
No 104
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.69 E-value=0.14 Score=48.41 Aligned_cols=36 Identities=28% Similarity=0.491 Sum_probs=28.1
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHH
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWL 141 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl 141 (179)
+.+.+|.+|.-.+... .-...||||.||+.|+.+-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 4578999999886543 33556999999999998764
No 105
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=89.93 E-value=0.11 Score=43.55 Aligned_cols=44 Identities=30% Similarity=0.590 Sum_probs=29.0
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 155 (179)
...|--|--.+.. ..+..||+|+||.+|... . ..+.||.|-..+
T Consensus 90 VHfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~-~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 90 VHFCDRCDFPIAI--YGRMIPCKHVFCLECARS--D-SDKICPLCDDRV 133 (389)
T ss_pred eEeecccCCccee--eecccccchhhhhhhhhc--C-ccccCcCcccHH
Confidence 3456666544321 226679999999999764 2 256899996554
No 106
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.34 E-value=0.21 Score=41.71 Aligned_cols=32 Identities=25% Similarity=0.676 Sum_probs=25.2
Q ss_pred CCCcchHHhHHHHHhcC------------CCCCCCccCCCCCCc
Q 030323 128 CRHVFHKDCLDGWLHHL------------NFNCPLCRSPVVSEE 159 (179)
Q Consensus 128 C~H~fh~~Ci~~wl~~~------------~~~CP~Cr~~~~~~~ 159 (179)
|....|.+|+.+|+... +.+||+||+.+...+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 67789999999998532 357999999887544
No 107
>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=89.09 E-value=0.11 Score=31.54 Aligned_cols=45 Identities=24% Similarity=0.683 Sum_probs=24.2
Q ss_pred cccccccccccCCCceEEeCC-CCcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323 108 SDCMVCLCTLRDGELVRKLDC-RHVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC-~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 158 (179)
..|--|+-. +. ....| .|..|..|+...+.. ...||+|..+++.+
T Consensus 3 ~nCKsCWf~--~k---~Li~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 3 YNCKSCWFA--NK---GLIKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPTK 48 (50)
T ss_dssp ----SS-S----S---SEEE-SS-EEEHHHHHHT-SS-SSEETTTTEE----
T ss_pred ccChhhhhc--CC---CeeeecchhHHHHHHHHHhcc-ccCCCcccCcCccc
Confidence 346666644 33 23457 499999999998876 77899999988754
No 108
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=88.65 E-value=0.15 Score=49.95 Aligned_cols=46 Identities=30% Similarity=0.610 Sum_probs=37.5
Q ss_pred CCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSP 154 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~ 154 (179)
....|.||++.+.+-. ....|+|.+|..|...|+.. +..||.|+..
T Consensus 1152 ~~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~-~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYA-SSRCPICKSI 1197 (1394)
T ss_pred cccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHH-hccCcchhhh
Confidence 4569999999987331 34569999999999999997 8899999753
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.24 E-value=0.25 Score=42.92 Aligned_cols=38 Identities=24% Similarity=0.616 Sum_probs=27.9
Q ss_pred CCccccccc-ccccCCCceEEeCCCCcchHHhHHHHHhc
Q 030323 106 AGSDCMVCL-CTLRDGELVRKLDCRHVFHKDCLDGWLHH 143 (179)
Q Consensus 106 ~~~~C~ICl-~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~ 143 (179)
...+|.||. +.....+......|+|.||.+|+.+.+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 467999999 44433333334569999999999988874
No 110
>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=87.71 E-value=0.64 Score=28.44 Aligned_cols=44 Identities=30% Similarity=0.726 Sum_probs=19.1
Q ss_pred cccccccccccCCCceEEeCCCCcchHHhHHHHHh----cCCCCCCCccCC
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH----HLNFNCPLCRSP 154 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~----~~~~~CP~Cr~~ 154 (179)
..|++....+..+ ++...|.|.-|-+ ++.|+. ...-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4788888887776 4555799984321 223333 223569999764
No 111
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=87.49 E-value=0.51 Score=44.36 Aligned_cols=59 Identities=17% Similarity=0.073 Sum_probs=41.9
Q ss_pred cCCcccccccccccCCCc-eEEeC---CCCcchHHhHHHHHhcC-----CCCCCCccCCCCCCcchhh
Q 030323 105 AAGSDCMVCLCTLRDGEL-VRKLD---CRHVFHKDCLDGWLHHL-----NFNCPLCRSPVVSEERVWN 163 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~-~~~lp---C~H~fh~~Ci~~wl~~~-----~~~CP~Cr~~~~~~~~~~~ 163 (179)
.+..+|.+|...+.+++. ...+| |+|.||..||..|.+.. .-.|+.|..-+....+..+
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq 161 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ 161 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc
Confidence 456788899888877422 23344 99999999999998753 2358999887766554444
No 112
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=87.44 E-value=0.63 Score=38.57 Aligned_cols=52 Identities=23% Similarity=0.627 Sum_probs=36.3
Q ss_pred CCcccccccccccCCCc-eEEeCCC-----CcchHHhHHHHHhcC-CCCCCCccCCCCC
Q 030323 106 AGSDCMVCLCTLRDGEL-VRKLDCR-----HVFHKDCLDGWLHHL-NFNCPLCRSPVVS 157 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~-~~~lpC~-----H~fh~~Ci~~wl~~~-~~~CP~Cr~~~~~ 157 (179)
.+..|-||.+....... ....||. +..|..|++.|+..+ +..|.+|......
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 35789999997544321 2445663 458999999999843 4679999886543
No 113
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=87.17 E-value=0.15 Score=47.11 Aligned_cols=50 Identities=28% Similarity=0.656 Sum_probs=39.3
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC--CCCCCCccCCCCCCc
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL--NFNCPLCRSPVVSEE 159 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~~~~ 159 (179)
..+|+||...+..+ ..+.|.|.|+..|+..-+... ...||+|+..+...+
T Consensus 21 ~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s 72 (684)
T KOG4362|consen 21 ILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRS 72 (684)
T ss_pred hccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhh
Confidence 57999999998888 667899999999998644432 357999987665443
No 114
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=85.71 E-value=0.31 Score=44.44 Aligned_cols=42 Identities=33% Similarity=0.667 Sum_probs=28.1
Q ss_pred Cccccccccc-----ccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCcc
Q 030323 107 GSDCMVCLCT-----LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152 (179)
Q Consensus 107 ~~~C~ICl~~-----~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr 152 (179)
...|.+|... |......+...|++.||..|... ++..||.|-
T Consensus 511 gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r----~s~~CPrC~ 557 (580)
T KOG1829|consen 511 GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR----KSPCCPRCE 557 (580)
T ss_pred eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc----cCCCCCchH
Confidence 5678888442 33233344556999999999664 455699993
No 115
>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 KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.00 E-value=0.45 Score=43.76 Aligned_cols=44 Identities=25% Similarity=0.471 Sum_probs=31.2
Q ss_pred CCcccccccccccCCCc-eEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323 106 AGSDCMVCLCTLRDGEL-VRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~-~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~ 153 (179)
+-..|.||+..|..... -+.+-|||..|..|++.-. +.+|| |+.
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly---n~scp-~~~ 54 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY---NASCP-TKR 54 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh---hccCC-CCc
Confidence 34689999887755422 2445699999999999753 56898 533
No 117
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=79.36 E-value=1.1 Score=35.87 Aligned_cols=44 Identities=27% Similarity=0.788 Sum_probs=34.6
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~ 153 (179)
-..|.+|.+-.-.+ ++.=.|+-.+|..|++..+++ ...||.|..
T Consensus 181 lk~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~-~~~cphc~d 224 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQR-RDICPHCGD 224 (235)
T ss_pred HHHHhHhHHHhhee--eccCcccchhhhHHHHHHhcc-cCcCCchhc
Confidence 45899999876555 233358888999999999997 789999943
No 118
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.27 E-value=1.4 Score=39.05 Aligned_cols=38 Identities=24% Similarity=0.566 Sum_probs=31.0
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL 144 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~ 144 (179)
....+|.||.+.+.. ....+.|+|.||..|+...+.++
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 346899999999865 44567899999999999988753
No 119
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.17 E-value=1.9 Score=39.13 Aligned_cols=48 Identities=27% Similarity=0.654 Sum_probs=37.9
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCcc
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEER 160 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 160 (179)
.....|.+|.... ..+..+|. |..|...|+.. +..||+|+..+..++.
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~-~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITPCS---HALCLRKWLYV-QEVCPLCHTYMKEDDF 524 (543)
T ss_pred cccCcchHHHHHH----Hhcccccc---chhHHHhhhhh-ccccCCCchhhhcccc
Confidence 3567999999987 23566787 89999999986 8899999887765543
No 120
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=77.05 E-value=3.4 Score=27.74 Aligned_cols=51 Identities=22% Similarity=0.436 Sum_probs=22.3
Q ss_pred CCcccccccccccC---CCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRD---GELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~---~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
....|.||-+.+.. ++.-... -|+--.|+.|.+-=.+..++.||.|+.+..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 46799999998643 3222222 488889999998666666789999997664
No 121
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.37 E-value=3 Score=34.24 Aligned_cols=51 Identities=20% Similarity=0.255 Sum_probs=36.9
Q ss_pred CCcccccccccccCCCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 106 AGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
....|||=--++.....-..+ +|||+|-..-+.+. +.+.|++|...+..++
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei---kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI---KASVCHVCGAAYQEDD 161 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh---hhccccccCCcccccC
Confidence 456898866666544333334 79999998887764 3679999999887665
No 122
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=74.73 E-value=2.8 Score=35.60 Aligned_cols=53 Identities=19% Similarity=0.323 Sum_probs=35.1
Q ss_pred CCcccccccccccCC-CceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 106 AGSDCMVCLCTLRDG-ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~-~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
-...|+||-+..... ......||++..|..|...-... +.+||.||++....-
T Consensus 248 v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~-~~~~~~~rk~~~~~t 301 (327)
T KOG2068|consen 248 VPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDG-DGRCPGCRKPYERNT 301 (327)
T ss_pred cCCCCCCCCCcccccccccccccccccchhhhhhccccc-CCCCCccCCccccCc
Confidence 347999999976322 22233357777777777765553 789999997665443
No 123
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=73.84 E-value=2.6 Score=35.72 Aligned_cols=45 Identities=29% Similarity=0.436 Sum_probs=34.9
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC--CCCCCCc
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL--NFNCPLC 151 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~--~~~CP~C 151 (179)
-..|||=.+...+.+....|.|||+.-.+-+..--+++ .+.||.|
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYC 382 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYC 382 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCC
Confidence 46899977776655556778999999999998866654 2579999
No 124
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=73.07 E-value=2.2 Score=27.07 Aligned_cols=32 Identities=22% Similarity=0.487 Sum_probs=20.6
Q ss_pred CCCCCCccCCCCCCcc---------hhhhhhhcccchhhcc
Q 030323 145 NFNCPLCRSPVVSEER---------VWNTRRRVGGDLIQWF 176 (179)
Q Consensus 145 ~~~CP~Cr~~~~~~~~---------~~~~~~~~~~~~~~~~ 176 (179)
++.||+|.+++++++. ...++++.-.-.++||
T Consensus 8 H~HC~VCg~aIp~de~~CSe~C~eil~ker~R~r~~~~~~~ 48 (64)
T COG4068 8 HRHCVVCGKAIPPDEQVCSEECGEILNKERKRQRNFMILMF 48 (64)
T ss_pred CccccccCCcCCCccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5689999999988763 1223344444556666
No 125
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=72.96 E-value=2.8 Score=33.15 Aligned_cols=40 Identities=35% Similarity=0.806 Sum_probs=26.3
Q ss_pred Cccccccccc-----ccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCcc
Q 030323 107 GSDCMVCLCT-----LRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152 (179)
Q Consensus 107 ~~~C~ICl~~-----~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr 152 (179)
...|-+|-+. |.....++.-.|+..||+.|.. ...||-|.
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~------~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR------KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC------CCCCCCcH
Confidence 4678888753 3332223333499999999966 24699994
No 126
>PLN02189 cellulose synthase
Probab=71.58 E-value=4.5 Score=39.44 Aligned_cols=51 Identities=24% Similarity=0.518 Sum_probs=37.0
Q ss_pred CCccccccccccc---CCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLR---DGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~---~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
....|.||-+++. +++.-+... |+--.|+.|.+-=.+.+++.||.|++...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 4569999999865 333333344 88889999997545555789999988664
No 127
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=71.37 E-value=3.8 Score=38.50 Aligned_cols=42 Identities=26% Similarity=0.476 Sum_probs=29.4
Q ss_pred CCcccccccccccCCCceEEeC-CCCcchHHhHHHHHhcCCCCCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPL 150 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~ 150 (179)
....|.+|-..+..- . ..-+ |+|.-|.+|+.+|+.. ++.||.
T Consensus 778 a~~~CtVC~~vi~G~-~-~~c~~C~H~gH~sh~~sw~~~-~s~ca~ 820 (839)
T KOG0269|consen 778 ASAKCTVCDLVIRGV-D-VWCQVCGHGGHDSHLKSWFFK-ASPCAK 820 (839)
T ss_pred hhcCceeecceeeee-E-eecccccccccHHHHHHHHhc-CCCCcc
Confidence 345788887665321 1 1123 9999999999999986 767766
No 128
>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=70.04 E-value=8.6 Score=24.17 Aligned_cols=48 Identities=25% Similarity=0.492 Sum_probs=31.6
Q ss_pred CcccccccccccCCCceEEeCCC--CcchHHhHHHHHhcCCCCCCCccCCCCCC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCR--HVFHKDCLDGWLHHLNFNCPLCRSPVVSE 158 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~--H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~ 158 (179)
...|-.|-.++.....- ..-|. ..||..|.+.-+. ..||-|...+..+
T Consensus 5 rpnCE~C~~dLp~~s~~-A~ICSfECTFC~~C~e~~l~---~~CPNCgGelv~R 54 (57)
T PF06906_consen 5 RPNCECCDKDLPPDSPE-AYICSFECTFCADCAETMLN---GVCPNCGGELVRR 54 (57)
T ss_pred CCCccccCCCCCCCCCc-ceEEeEeCcccHHHHHHHhc---CcCcCCCCccccC
Confidence 34666777776544311 11143 4799999998764 4999999888754
No 129
>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=68.75 E-value=2.6 Score=26.99 Aligned_cols=36 Identities=19% Similarity=0.383 Sum_probs=18.4
Q ss_pred cCCcccccccccccCCCceEEe-CCCCcchHHhHHHH
Q 030323 105 AAGSDCMVCLCTLRDGELVRKL-DCRHVFHKDCLDGW 140 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~l-pC~H~fh~~Ci~~w 140 (179)
.+...|.+|...|.--..-..- .||+.||..|....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 4568999999999654333333 49999999987644
No 130
>PRK01343 zinc-binding protein; Provisional
Probab=68.43 E-value=3.6 Score=25.97 Aligned_cols=10 Identities=20% Similarity=0.321 Sum_probs=4.6
Q ss_pred Cccccccccc
Q 030323 107 GSDCMVCLCT 116 (179)
Q Consensus 107 ~~~C~ICl~~ 116 (179)
...|+||...
T Consensus 9 ~~~CP~C~k~ 18 (57)
T PRK01343 9 TRPCPECGKP 18 (57)
T ss_pred CCcCCCCCCc
Confidence 3445555444
No 131
>PLN02436 cellulose synthase A
Probab=67.76 E-value=5.8 Score=38.85 Aligned_cols=51 Identities=24% Similarity=0.524 Sum_probs=37.1
Q ss_pred CCccccccccccc---CCCceEEeC-CCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLR---DGELVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~---~~~~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
....|.||-+++. +++.-+... |+--.|+.|.+-=.+.++..||.|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3569999999863 344334444 88889999997555555789999988664
No 132
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=67.31 E-value=1.5 Score=32.67 Aligned_cols=49 Identities=27% Similarity=0.414 Sum_probs=29.3
Q ss_pred cCCccccccccc-ccCCCceEEeCCCCcchHHhHHHHHhcCCC---CCCCccC
Q 030323 105 AAGSDCMVCLCT-LRDGELVRKLDCRHVFHKDCLDGWLHHLNF---NCPLCRS 153 (179)
Q Consensus 105 ~~~~~C~ICl~~-~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~---~CP~Cr~ 153 (179)
..+.+|.||+.. |.++-.....-|.-.||..|--+.-.+.++ .|-+|+.
T Consensus 63 ~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k 115 (169)
T KOG3799|consen 63 GDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRK 115 (169)
T ss_pred CcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcH
Confidence 468899999984 666633333335566777776543222232 4777765
No 133
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=66.26 E-value=9.4 Score=37.34 Aligned_cols=52 Identities=23% Similarity=0.340 Sum_probs=37.5
Q ss_pred cCCcccccccccccC---CCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 105 AAGSDCMVCLCTLRD---GELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~---~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
.....|.||-++... ++.-+.. -|+--.|+.|.+-=.+.+++.||.|+....
T Consensus 13 ~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 356799999998643 3333333 388889999997555555789999988664
No 134
>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=65.68 E-value=4.9 Score=24.76 Aligned_cols=42 Identities=31% Similarity=0.634 Sum_probs=19.4
Q ss_pred cccccccccCCC------ceEEeC-CCCcchHHhHHHHHhcCCCCCCCcc
Q 030323 110 CMVCLCTLRDGE------LVRKLD-CRHVFHKDCLDGWLHHLNFNCPLCR 152 (179)
Q Consensus 110 C~ICl~~~~~~~------~~~~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr 152 (179)
|--|+..|..+. ....-| |++.||.+|-.. +...=..||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~f-iHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVF-IHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHT-TTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChh-hhccccCCcCCC
Confidence 445566555431 122335 999999999653 222124799984
No 135
>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=65.42 E-value=3.1 Score=24.88 Aligned_cols=44 Identities=27% Similarity=0.666 Sum_probs=27.0
Q ss_pred ccccccccccCCCceEEeCCCCcchHHhHHHHHhc-----CCCCCCCcc
Q 030323 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH-----LNFNCPLCR 152 (179)
Q Consensus 109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~-----~~~~CP~Cr 152 (179)
.|.||...-...+.+.--.|+..||..|+..-... ....||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 37888884333333333359999999998854321 134677774
No 136
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.88 E-value=3.4 Score=35.98 Aligned_cols=44 Identities=27% Similarity=0.477 Sum_probs=30.6
Q ss_pred CcccccccccccCCCc--eEEeCCCCcchHHhHHHHHhcCCCCCCCc
Q 030323 107 GSDCMVCLCTLRDGEL--VRKLDCRHVFHKDCLDGWLHHLNFNCPLC 151 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~--~~~lpC~H~fh~~Ci~~wl~~~~~~CP~C 151 (179)
-..|+.|.-.+..... ..+-.|+|.||..|...|... +..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~-~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTH-NGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhC-CccccCc
Confidence 4589999887654332 223349999999999999875 6566444
No 137
>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=64.71 E-value=3.3 Score=21.79 Aligned_cols=9 Identities=22% Similarity=0.611 Sum_probs=4.5
Q ss_pred ccccccccc
Q 030323 109 DCMVCLCTL 117 (179)
Q Consensus 109 ~C~ICl~~~ 117 (179)
.||-|...+
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 355555543
No 138
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=62.83 E-value=6.1 Score=32.44 Aligned_cols=36 Identities=14% Similarity=0.152 Sum_probs=31.0
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhc
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHH 143 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~ 143 (179)
-+-..|..|+..+.+| .+.|=||.|+++||-+.+..
T Consensus 41 K~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDP---VITPDGYLFDREAILEYILA 76 (303)
T ss_pred CCcceeeeecccccCC---ccCCCCeeeeHHHHHHHHHH
Confidence 3567899999999999 77889999999999988753
No 139
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=60.50 E-value=11 Score=37.04 Aligned_cols=51 Identities=22% Similarity=0.438 Sum_probs=36.1
Q ss_pred CCcccccccccccC---CCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRD---GELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~---~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
....|.||-+++.. ++.-+.. -|+--.|+.|.+-=.+.+++.||.|++..-
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 35699999998643 3333333 388889999997444445788999988654
No 140
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=58.98 E-value=13 Score=20.17 Aligned_cols=37 Identities=38% Similarity=0.857 Sum_probs=21.5
Q ss_pred ccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCC
Q 030323 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPV 155 (179)
Q Consensus 109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~ 155 (179)
.|..|.+.+...+... ..=+..||..| ..|..|+.++
T Consensus 1 ~C~~C~~~i~~~~~~~-~~~~~~~H~~C---------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVL-RALGKVWHPEC---------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEE-EeCCccccccC---------CCCcccCCcC
Confidence 3777877766542222 22356777654 4677777665
No 141
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=58.84 E-value=14 Score=26.64 Aligned_cols=45 Identities=22% Similarity=0.315 Sum_probs=30.9
Q ss_pred CcccccccccccCCC-----------ceEEeCCCCcchHHhHHHHHhcCCCCCCCcc
Q 030323 107 GSDCMVCLCTLRDGE-----------LVRKLDCRHVFHKDCLDGWLHHLNFNCPLCR 152 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~-----------~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr 152 (179)
...|--|+..|..+. ....-.|++.||.+|-..+-.. =..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~-Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES-LHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh-ccCCcCCC
Confidence 346999998876431 1122349999999998876554 34799995
No 142
>PLN02195 cellulose synthase A
Probab=58.09 E-value=16 Score=35.60 Aligned_cols=51 Identities=22% Similarity=0.359 Sum_probs=36.6
Q ss_pred CCcccccccccccC---CCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRD---GELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~---~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
....|.||-+.+.. ++.-+.. -|+--.|+.|.+-=.+.+++.||.|+...-
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 35689999997643 3333333 488889999997444455788999998776
No 143
>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=57.91 E-value=6.7 Score=25.48 Aligned_cols=13 Identities=31% Similarity=0.958 Sum_probs=9.5
Q ss_pred cchHHhHHHHHhc
Q 030323 131 VFHKDCLDGWLHH 143 (179)
Q Consensus 131 ~fh~~Ci~~wl~~ 143 (179)
.||+.|+.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4999999999874
No 144
>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 PLN02248 cellulose synthase-like protein
Probab=56.52 E-value=23 Score=35.10 Aligned_cols=86 Identities=23% Similarity=0.385 Sum_probs=47.6
Q ss_pred HHHhhhccccccccCCCCCCCCCCC---CccCCCCCCCCcCCccccc--cccccc-CCCceEEeC--CCCcchHHhHHHH
Q 030323 69 AEQLNKNRAFSYKYNNNNNINKIND---NCCCGQGVASSAAGSDCMV--CLCTLR-DGELVRKLD--CRHVFHKDCLDGW 140 (179)
Q Consensus 69 ~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~C~I--Cl~~~~-~~~~~~~lp--C~H~fh~~Ci~~w 140 (179)
.++...+.+++-.++........+. .......++ ......|.+ |-...- +......+| |+...|++|....
T Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (1135)
T PLN02248 84 EEQYVSNSIFTGGFNSVTRAHLMDKVIESEVSHPQMA-GAKGSSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDA 162 (1135)
T ss_pred hhhccccceecCCCCccchhhhhhcccccccCCcccC-CCCCCcccccCcccccccccccccCCcccccchhHHhHhhhh
Confidence 3455566666666655554322211 111111121 124566766 444322 222233456 6788899999988
Q ss_pred HhcCCCCCCCccCCCC
Q 030323 141 LHHLNFNCPLCRSPVV 156 (179)
Q Consensus 141 l~~~~~~CP~Cr~~~~ 156 (179)
+.. ...||-|+.+..
T Consensus 163 ~~~-~~~~~~~~~~~~ 177 (1135)
T PLN02248 163 VKS-GGICPGCKEPYK 177 (1135)
T ss_pred hhc-CCCCCCCccccc
Confidence 876 679999998774
No 146
>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=56.51 E-value=0.6 Score=30.75 Aligned_cols=40 Identities=23% Similarity=0.510 Sum_probs=19.6
Q ss_pred cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
..||.|..++.... +|..|..|-... .. ...||-|..++.
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~~-~~-~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKDY-KK-EAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--EE-EE-EEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC-------CEEECccccccc-ee-cccCCCcccHHH
Confidence 47899988765432 555566665542 22 467999988764
No 147
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=55.64 E-value=8.1 Score=31.98 Aligned_cols=50 Identities=22% Similarity=0.481 Sum_probs=34.9
Q ss_pred CCcccccccccccCCCceEEe---C-CCCcchHHhHHHHHhcC--------CCCCCCccCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKL---D-CRHVFHKDCLDGWLHHL--------NFNCPLCRSPV 155 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~l---p-C~H~fh~~Ci~~wl~~~--------~~~CP~Cr~~~ 155 (179)
...+|-+|.+.+...+..+.. + |+-.+|..|+..-+... ...||.|++.+
T Consensus 181 ~~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 181 LNVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred cchhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 346899999998555444432 3 88999999999844321 24699998844
No 148
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=54.86 E-value=5.9 Score=37.47 Aligned_cols=43 Identities=26% Similarity=0.499 Sum_probs=30.8
Q ss_pred CcccccccccccCC----CceEEeCCCCcchHHhHHHHHhcCCCCCCCc
Q 030323 107 GSDCMVCLCTLRDG----ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC 151 (179)
Q Consensus 107 ~~~C~ICl~~~~~~----~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~C 151 (179)
+..|.-|.+..... +.+..+.|+|.||..|+..-..+ +. |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~-~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR-NA-CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh-cc-cChh
Confidence 45899999875422 45677889999999999865554 22 6555
No 149
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=52.08 E-value=7.9 Score=21.86 Aligned_cols=14 Identities=14% Similarity=0.358 Sum_probs=8.9
Q ss_pred cccccccccccCCC
Q 030323 108 SDCMVCLCTLRDGE 121 (179)
Q Consensus 108 ~~C~ICl~~~~~~~ 121 (179)
.+|+-|...|..++
T Consensus 3 i~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 3 ITCPNCQAKYEIDD 16 (36)
T ss_pred EECCCCCCEEeCCH
Confidence 36777777765543
No 150
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=51.76 E-value=17 Score=31.02 Aligned_cols=46 Identities=30% Similarity=0.515 Sum_probs=31.2
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~ 153 (179)
...|-.|.+........+.-.|++.||.+|-..- ...=..||.|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~i-HesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFI-HESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHH-HhhhhcCCCcCC
Confidence 3458888777666555555569999999996542 221247999964
No 151
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.54 E-value=14 Score=31.04 Aligned_cols=36 Identities=25% Similarity=0.469 Sum_probs=28.1
Q ss_pred cCCcccccccccccCCCceEEeCC----CCcchHHhHHHHHhc
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDC----RHVFHKDCLDGWLHH 143 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC----~H~fh~~Ci~~wl~~ 143 (179)
.....|.+|.|.+++. .-..| .|.||--|-.+-++.
T Consensus 266 ~apLcCTLC~ERLEDT---HFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDT---HFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CCceeehhhhhhhccC---ceeecCCCcccceecccCHHHHHh
Confidence 4568999999999886 33334 699999999888765
No 152
>PLN02400 cellulose synthase
Probab=51.29 E-value=12 Score=36.73 Aligned_cols=51 Identities=18% Similarity=0.416 Sum_probs=35.5
Q ss_pred CCcccccccccccC---CCceEEe-CCCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 106 AGSDCMVCLCTLRD---GELVRKL-DCRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 106 ~~~~C~ICl~~~~~---~~~~~~l-pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
....|.||-+++.. ++.-+.. -|+--.|+.|.+-=.+.+++.||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 45699999998643 3332333 488889999987433345788999988664
No 153
>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=51.23 E-value=12 Score=20.00 Aligned_cols=29 Identities=24% Similarity=0.591 Sum_probs=10.0
Q ss_pred ccccccccccCCCceEEeCCCCcchHHhH
Q 030323 109 DCMVCLCTLRDGELVRKLDCRHVFHKDCL 137 (179)
Q Consensus 109 ~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci 137 (179)
.|.+|.+.........-..|.-.+|.+|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 57788877655333344468888898885
No 154
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=50.91 E-value=8.1 Score=23.61 Aligned_cols=37 Identities=27% Similarity=0.574 Sum_probs=19.8
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHh-cCCCCCCCccC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH-HLNFNCPLCRS 153 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~-~~~~~CP~Cr~ 153 (179)
...||.|-+.+... .| + ..|.+.-.. .+.-.||+|..
T Consensus 2 ~f~CP~C~~~~~~~----~L-~-----~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGKGFSES----SL-V-----EHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred CcCCCCCCCccCHH----HH-H-----HHHHhHCcCCCCCccCCCchh
Confidence 46899998855433 12 2 223332222 12357999975
No 155
>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=48.58 E-value=3.1 Score=25.57 Aligned_cols=14 Identities=50% Similarity=1.118 Sum_probs=7.6
Q ss_pred CCCCccCCCCCCcc
Q 030323 147 NCPLCRSPVVSEER 160 (179)
Q Consensus 147 ~CP~Cr~~~~~~~~ 160 (179)
.||+|..++.+...
T Consensus 22 ~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 22 CCPLCGRPLDEEHR 35 (54)
T ss_dssp E-TTT--EE-HHHH
T ss_pred cCCCCCCCCCHHHH
Confidence 79999998876543
No 156
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=48.48 E-value=27 Score=21.97 Aligned_cols=31 Identities=39% Similarity=0.519 Sum_probs=22.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Q 030323 15 LPLLIVALIANCFGNLRSLLFSLLHSVGMTR 45 (179)
Q Consensus 15 i~~~i~~~i~~~v~~l~~~l~~~~~~~g~~~ 45 (179)
+|+.++++++..++++.+.+..+...+..++
T Consensus 18 ~pl~l~il~~f~~G~llg~l~~~~~~~~~r~ 48 (68)
T PF06305_consen 18 LPLGLLILIAFLLGALLGWLLSLPSRLRLRR 48 (68)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7888888888888888888777666554333
No 157
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.31 E-value=14 Score=24.57 Aligned_cols=28 Identities=29% Similarity=0.603 Sum_probs=22.0
Q ss_pred CCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 129 RHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 129 ~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
.|.||..|.+.-| +..||.|...++...
T Consensus 28 EcTFCadCae~~l---~g~CPnCGGelv~RP 55 (84)
T COG3813 28 ECTFCADCAENRL---HGLCPNCGGELVARP 55 (84)
T ss_pred eeehhHhHHHHhh---cCcCCCCCchhhcCc
Confidence 4789999999765 459999988887553
No 158
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=47.21 E-value=26 Score=29.96 Aligned_cols=54 Identities=20% Similarity=0.479 Sum_probs=35.0
Q ss_pred CCccccccccccc---------------CCC-ceEEeCCCCcchHHhHHHHHhcC--------CCCCCCccCCCCCCc
Q 030323 106 AGSDCMVCLCTLR---------------DGE-LVRKLDCRHVFHKDCLDGWLHHL--------NFNCPLCRSPVVSEE 159 (179)
Q Consensus 106 ~~~~C~ICl~~~~---------------~~~-~~~~lpC~H~fh~~Ci~~wl~~~--------~~~CP~Cr~~~~~~~ 159 (179)
.+.+||+|+..-. .+- ...--||||.--..-..-|-+-. +..||.|-..+..+.
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge~ 417 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGEQ 417 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccCC
Confidence 4779999997510 000 11234899988777777886531 357999987775443
No 159
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=46.92 E-value=24 Score=33.60 Aligned_cols=47 Identities=23% Similarity=0.445 Sum_probs=29.0
Q ss_pred cCCcccccccccccC----C----CceE-EeC-CCCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 105 AAGSDCMVCLCTLRD----G----ELVR-KLD-CRHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~----~----~~~~-~lp-C~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
..+..|+-|...|-. + +.+. ..| |.|..|..=|. +...||+|.....
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs-----~y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS-----KYNCCPLCHSMES 1185 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc-----ccccCccccChhh
Confidence 456788888877621 1 1112 224 88888765443 2568999987654
No 160
>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=44.38 E-value=37 Score=23.96 Aligned_cols=47 Identities=30% Similarity=0.564 Sum_probs=28.9
Q ss_pred CCcccccccccccCCCceEE------eCC---CCcchHHhHHHHHhc--------CCCCCCCccC
Q 030323 106 AGSDCMVCLCTLRDGELVRK------LDC---RHVFHKDCLDGWLHH--------LNFNCPLCRS 153 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~------lpC---~H~fh~~Ci~~wl~~--------~~~~CP~Cr~ 153 (179)
....|-.|...-.+. .+.. ..| .-.||..|+..++.. .+-.||.||.
T Consensus 6 ~g~~CHqCrqKt~~~-~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDF-KTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCchhhcCCCCCC-ceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 345677777643322 1121 235 667999998877643 2346999987
No 161
>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=44.10 E-value=17 Score=22.00 Aligned_cols=34 Identities=21% Similarity=0.449 Sum_probs=23.7
Q ss_pred cccccccccccCCCceEE-eCCCCcchHHhHHHHH
Q 030323 108 SDCMVCLCTLRDGELVRK-LDCRHVFHKDCLDGWL 141 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~-lpC~H~fh~~Ci~~wl 141 (179)
..|.+|-..|..-..-.. -.||+.|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 578899887765432222 3599999999987653
No 162
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=43.80 E-value=9.4 Score=31.71 Aligned_cols=36 Identities=22% Similarity=0.585 Sum_probs=25.5
Q ss_pred EeCCCCcchHHhHH-HHHhcCC---------CCCCCccCCCCCCcc
Q 030323 125 KLDCRHVFHKDCLD-GWLHHLN---------FNCPLCRSPVVSEER 160 (179)
Q Consensus 125 ~lpC~H~fh~~Ci~-~wl~~~~---------~~CP~Cr~~~~~~~~ 160 (179)
.|+|...+|..-.. +||.+++ +.||.|.+.|-++.+
T Consensus 185 ~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSN 230 (279)
T KOG2462|consen 185 TLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSN 230 (279)
T ss_pred CCCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHH
Confidence 46777666666555 7987642 479999998876653
No 163
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=43.31 E-value=13 Score=21.08 Aligned_cols=14 Identities=21% Similarity=0.458 Sum_probs=9.2
Q ss_pred cccccccccccCCC
Q 030323 108 SDCMVCLCTLRDGE 121 (179)
Q Consensus 108 ~~C~ICl~~~~~~~ 121 (179)
.+||-|...|..++
T Consensus 3 i~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 3 ITCPNCQTRFRVPD 16 (37)
T ss_pred EECCCCCceEEcCH
Confidence 46777777776543
No 164
>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=43.30 E-value=21 Score=21.51 Aligned_cols=40 Identities=25% Similarity=0.650 Sum_probs=25.1
Q ss_pred cccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 110 CMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 110 C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
|+.|.+.+...+.+. ..-+..||..| .+|-.|+.++....
T Consensus 1 C~~C~~~I~~~~~~~-~~~~~~~H~~C---------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTEIVI-KAMGKFWHPEC---------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSSEEE-EETTEEEETTT---------SBETTTTCBTTTSS
T ss_pred CCCCCCCccCcEEEE-EeCCcEEEccc---------cccCCCCCccCCCe
Confidence 566777766443321 23667788644 57888888776554
No 165
>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=43.12 E-value=15 Score=23.37 Aligned_cols=15 Identities=33% Similarity=1.026 Sum_probs=12.7
Q ss_pred CCCCCCccCCCCCCc
Q 030323 145 NFNCPLCRSPVVSEE 159 (179)
Q Consensus 145 ~~~CP~Cr~~~~~~~ 159 (179)
++.||.|..++++++
T Consensus 3 HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDE 17 (59)
T ss_pred CCcCCcCCCcCCcch
Confidence 678999999998764
No 166
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.42 E-value=4.5 Score=33.48 Aligned_cols=49 Identities=24% Similarity=0.515 Sum_probs=37.0
Q ss_pred CCcccccccccccCC-C--ceEEeC--------CCCcchHHhHHHHHhcCCCCCCCccCC
Q 030323 106 AGSDCMVCLCTLRDG-E--LVRKLD--------CRHVFHKDCLDGWLHHLNFNCPLCRSP 154 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~-~--~~~~lp--------C~H~fh~~Ci~~wl~~~~~~CP~Cr~~ 154 (179)
....|.||...+... . .-+.+. |+|..|..|++.-+......||.|+..
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 346899999988732 2 223456 999999999998776545789999874
No 167
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=40.47 E-value=17 Score=26.10 Aligned_cols=46 Identities=20% Similarity=0.345 Sum_probs=27.6
Q ss_pred CCcccccccccccCC--CceEEeCCCCcchHHhHHHHHhcCC--CCCCCccC
Q 030323 106 AGSDCMVCLCTLRDG--ELVRKLDCRHVFHKDCLDGWLHHLN--FNCPLCRS 153 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~--~~~~~lpC~H~fh~~Ci~~wl~~~~--~~CP~Cr~ 153 (179)
++..|.+|...|.-- .......|+|.+|..|-.. .... -.|-+|..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc--CCCCCCEEChhhHH
Confidence 467999999876432 2344446999999998664 1111 24777743
No 168
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=40.45 E-value=12 Score=23.76 Aligned_cols=37 Identities=19% Similarity=0.206 Sum_probs=20.5
Q ss_pred cCCCceEEe--CCCCcchHHhHHHHHhcCCCCCCCccCC
Q 030323 118 RDGELVRKL--DCRHVFHKDCLDGWLHHLNFNCPLCRSP 154 (179)
Q Consensus 118 ~~~~~~~~l--pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~ 154 (179)
...++.-.. |||..|-..--+-.....-.+||.|..-
T Consensus 15 ~~e~~~ftyPCPCGDRFeIsLeDl~~GE~VArCPSCSLi 53 (67)
T COG5216 15 SREEKTFTYPCPCGDRFEISLEDLRNGEVVARCPSCSLI 53 (67)
T ss_pred cCCCceEEecCCCCCEeEEEHHHhhCCceEEEcCCceEE
Confidence 344444444 5888887654333222223579999653
No 169
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=39.55 E-value=37 Score=28.95 Aligned_cols=44 Identities=5% Similarity=-0.199 Sum_probs=30.1
Q ss_pred CCcccccccccccCCCceEEeCCCCc-chHHhHHHHHhcCCCCCCCccCCC
Q 030323 106 AGSDCMVCLCTLRDGELVRKLDCRHV-FHKDCLDGWLHHLNFNCPLCRSPV 155 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lpC~H~-fh~~Ci~~wl~~~~~~CP~Cr~~~ 155 (179)
...+|.+|-+..... ...+|+|. |+.+|.. +. -..+||+|....
T Consensus 342 s~~~~~~~~~~~~st---~~~~~~~n~~~~~~a~--~s-~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLST---IWSGGNMNLSPGSLAS--AS-ASPTSSTCDHND 386 (394)
T ss_pred hhcccccccCceeee---EeecCCcccChhhhhh--cc-cCCccccccccc
Confidence 355777777654432 44589988 8999987 23 367999996643
No 170
>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=39.06 E-value=3.2 Score=34.52 Aligned_cols=46 Identities=20% Similarity=0.317 Sum_probs=19.0
Q ss_pred cCCcccccccccccCCCceEEeC-----CCCcchHHhHHHHHhcCCCCCCCccCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLD-----CRHVFHKDCLDGWLHHLNFNCPLCRSP 154 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lp-----C~H~fh~~Ci~~wl~~~~~~CP~Cr~~ 154 (179)
.....||||-..-.-. .... =.+.+|.-|-..|--. ...||.|-..
T Consensus 170 w~~g~CPvCGs~P~~s---~l~~~~~~G~R~L~Cs~C~t~W~~~-R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLS---VLRGGEREGKRYLHCSLCGTEWRFV-RIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEEE---EEE------EEEEEETTT--EEE---TTS-TTT---
T ss_pred ccCCcCCCCCCcCceE---EEecCCCCccEEEEcCCCCCeeeec-CCCCcCCCCC
Confidence 3457999998763221 1110 1244666688888554 6789999654
No 171
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=37.66 E-value=1.1e+02 Score=22.33 Aligned_cols=8 Identities=13% Similarity=0.027 Sum_probs=2.8
Q ss_pred CCCcchHH
Q 030323 10 LSSDSLPL 17 (179)
Q Consensus 10 ~~~~~i~~ 17 (179)
++...+-.
T Consensus 61 fs~~~i~~ 68 (122)
T PF01102_consen 61 FSEPAIIG 68 (122)
T ss_dssp SS-TCHHH
T ss_pred ccccceee
Confidence 34444433
No 172
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=36.67 E-value=22 Score=24.70 Aligned_cols=32 Identities=22% Similarity=0.552 Sum_probs=22.4
Q ss_pred CCcccccccccccCCCceEEeC--CCCcchHHhHHH
Q 030323 106 AGSDCMVCLCTLRDGELVRKLD--CRHVFHKDCLDG 139 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~~~~~~lp--C~H~fh~~Ci~~ 139 (179)
....|.||... .+..+.... |...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 36799999987 332233332 888999999865
No 173
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=36.65 E-value=23 Score=21.66 Aligned_cols=22 Identities=27% Similarity=0.646 Sum_probs=13.4
Q ss_pred CCCcchHHhHHHHHhcCCCCCCCc
Q 030323 128 CRHVFHKDCLDGWLHHLNFNCPLC 151 (179)
Q Consensus 128 C~H~fh~~Ci~~wl~~~~~~CP~C 151 (179)
|+|.|-..=-++- .....||.|
T Consensus 34 Cgh~w~~~v~~R~--~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKASVNDRT--RRGKGCPYC 55 (55)
T ss_pred CCCeeEccHhhhc--cCCCCCCCC
Confidence 6777665443332 236689988
No 174
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=35.17 E-value=26 Score=28.47 Aligned_cols=25 Identities=24% Similarity=0.259 Sum_probs=17.6
Q ss_pred cccccccccccCCCceEEeCCCCcc
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVF 132 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~f 132 (179)
..||+|.+.+...+..-..+.+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 4799999998754443334568887
No 175
>PF14353 CpXC: CpXC protein
Probab=35.02 E-value=28 Score=25.04 Aligned_cols=46 Identities=15% Similarity=0.213 Sum_probs=24.3
Q ss_pred cccccccccccCCCceEEeCCCCcchHHhHHHHHhcC--CCCCCCccCCCC
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL--NFNCPLCRSPVV 156 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~--~~~CP~Cr~~~~ 156 (179)
.+||-|...+...-. ..-.-....+=.+.-+... ..+||.|...+.
T Consensus 2 itCP~C~~~~~~~v~---~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVW---TSINADEDPELKEKILDGSLFSFTCPSCGHKFR 49 (128)
T ss_pred cCCCCCCCeeEEEEE---eEEcCcCCHHHHHHHHcCCcCEEECCCCCCcee
Confidence 478888887765411 1122223333344433221 247999987664
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=34.98 E-value=34 Score=18.66 Aligned_cols=9 Identities=33% Similarity=1.220 Sum_probs=6.5
Q ss_pred CCCCCCccC
Q 030323 145 NFNCPLCRS 153 (179)
Q Consensus 145 ~~~CP~Cr~ 153 (179)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 557888865
No 177
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=34.32 E-value=22 Score=32.57 Aligned_cols=36 Identities=22% Similarity=0.417 Sum_probs=25.2
Q ss_pred cCCcccccccccccCC----C------ceEEeCCCCcchHHhHHHH
Q 030323 105 AAGSDCMVCLCTLRDG----E------LVRKLDCRHVFHKDCLDGW 140 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~----~------~~~~lpC~H~fh~~Ci~~w 140 (179)
+....|+||.|.|..- + ..+.+.=|-.||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 6678999999998531 1 1223335788999998864
No 178
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=33.80 E-value=25 Score=29.82 Aligned_cols=42 Identities=19% Similarity=0.382 Sum_probs=26.9
Q ss_pred CCcccccccccccCC-------CceEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323 106 AGSDCMVCLCTLRDG-------ELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~-------~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~ 153 (179)
....||||-..-... +..+. ..|.-|-..|--. ...||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~Ry-----L~CslC~teW~~~-R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRY-----LHCNLCESEWHVV-RVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceE-----EEcCCCCCccccc-CccCCCCCC
Confidence 467999998863211 22333 3455577778554 678999965
No 179
>PF12773 DZR: Double zinc ribbon
Probab=33.41 E-value=32 Score=20.32 Aligned_cols=12 Identities=25% Similarity=0.487 Sum_probs=7.5
Q ss_pred CCCCCccCCCCC
Q 030323 146 FNCPLCRSPVVS 157 (179)
Q Consensus 146 ~~CP~Cr~~~~~ 157 (179)
..||.|...+..
T Consensus 30 ~~C~~Cg~~~~~ 41 (50)
T PF12773_consen 30 KICPNCGAENPP 41 (50)
T ss_pred CCCcCCcCCCcC
Confidence 457777766543
No 180
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=30.78 E-value=31 Score=22.95 Aligned_cols=31 Identities=23% Similarity=0.491 Sum_probs=21.4
Q ss_pred CcccccccccccCCCceEEe--CCCCcchHHhHHH
Q 030323 107 GSDCMVCLCTLRDGELVRKL--DCRHVFHKDCLDG 139 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~l--pC~H~fh~~Ci~~ 139 (179)
...|.+|.... +-.+... .|...||..|...
T Consensus 36 ~~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 56999999763 3222222 3899999999764
No 181
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.64 E-value=31 Score=23.95 Aligned_cols=13 Identities=31% Similarity=0.997 Sum_probs=11.5
Q ss_pred cchHHhHHHHHhc
Q 030323 131 VFHKDCLDGWLHH 143 (179)
Q Consensus 131 ~fh~~Ci~~wl~~ 143 (179)
.||+.|+..|+..
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 5999999999975
No 182
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.17 E-value=30 Score=32.44 Aligned_cols=41 Identities=17% Similarity=0.318 Sum_probs=28.5
Q ss_pred Cccccccccccc-CCCceEEeCCCCcchHHhHHHHHhcCCCCCCCc
Q 030323 107 GSDCMVCLCTLR-DGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLC 151 (179)
Q Consensus 107 ~~~C~ICl~~~~-~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~C 151 (179)
...|-+|...=. ..+..+++.|+..||..|... . ++.||+|
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~---~-~~~~~vC 695 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVACSLD---Y-ASISEVC 695 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhhhhh---h-hccCccc
Confidence 458888886422 223446667999999998554 3 6689999
No 183
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=29.53 E-value=38 Score=20.10 Aligned_cols=34 Identities=29% Similarity=0.363 Sum_probs=23.9
Q ss_pred CCcccccccccc--cCCCceEEeCCCCcchHHhHHH
Q 030323 106 AGSDCMVCLCTL--RDGELVRKLDCRHVFHKDCLDG 139 (179)
Q Consensus 106 ~~~~C~ICl~~~--~~~~~~~~lpC~H~fh~~Ci~~ 139 (179)
....|.+|.+.+ ......+...|+-..|.+|.+.
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 457999999988 3444555567999999999764
No 184
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=29.34 E-value=14 Score=22.70 Aligned_cols=17 Identities=24% Similarity=0.544 Sum_probs=13.7
Q ss_pred EEe-CCCCcchHHhHHHH
Q 030323 124 RKL-DCRHVFHKDCLDGW 140 (179)
Q Consensus 124 ~~l-pC~H~fh~~Ci~~w 140 (179)
..- .|++.||..|...|
T Consensus 41 v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 41 VTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eECCCCCCeECCCCCCcC
Confidence 444 48999999998887
No 185
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=29.09 E-value=11 Score=31.65 Aligned_cols=38 Identities=29% Similarity=0.579 Sum_probs=28.9
Q ss_pred cccccccccccCCCceEEeCCCCcchHHhHHHHHhcCC
Q 030323 108 SDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLN 145 (179)
Q Consensus 108 ~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~ 145 (179)
..|.+|.+.+..+.......|...||..|+-.|+....
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhhcccccccccccccccccc
Confidence 38999999987654445555666999999999987644
No 186
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=28.77 E-value=22 Score=36.26 Aligned_cols=51 Identities=29% Similarity=0.559 Sum_probs=37.6
Q ss_pred cCCcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC---CCCCCCccCCC
Q 030323 105 AAGSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL---NFNCPLCRSPV 155 (179)
Q Consensus 105 ~~~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~---~~~CP~Cr~~~ 155 (179)
.....|.+|.......+.+...-|.-.||..|+.+-+... .-.||-||..-
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 4577999999987664333333488889999999887653 34699998765
No 187
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.98 E-value=53 Score=22.95 Aligned_cols=35 Identities=23% Similarity=0.386 Sum_probs=29.2
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHh
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLH 142 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~ 142 (179)
.-.|.||-+....++.-.-++ .-..|.+|+..-..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHh
Confidence 568999999999998877777 77799999987544
No 188
>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=27.62 E-value=31 Score=17.91 Aligned_cols=9 Identities=44% Similarity=1.206 Sum_probs=7.6
Q ss_pred CCCCccCCC
Q 030323 147 NCPLCRSPV 155 (179)
Q Consensus 147 ~CP~Cr~~~ 155 (179)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 699998877
No 189
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=26.37 E-value=1.3e+02 Score=21.20 Aligned_cols=28 Identities=21% Similarity=0.389 Sum_probs=17.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 030323 15 LPLLIVALIANCFGNLRSLLFSLLHSVG 42 (179)
Q Consensus 15 i~~~i~~~i~~~v~~l~~~l~~~~~~~g 42 (179)
|.+|.++.++..|.++.++++.+-.++-
T Consensus 20 IfLItLasVvvavGl~aGLfFcvR~~ls 47 (106)
T PF14654_consen 20 IFLITLASVVVAVGLFAGLFFCVRNSLS 47 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 4444566667777777777776544333
No 190
>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=25.81 E-value=17 Score=22.90 Aligned_cols=11 Identities=45% Similarity=1.183 Sum_probs=4.0
Q ss_pred CCCCccCCCCC
Q 030323 147 NCPLCRSPVVS 157 (179)
Q Consensus 147 ~CP~Cr~~~~~ 157 (179)
.||+|++++..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 46666665543
No 191
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=25.54 E-value=55 Score=18.60 Aligned_cols=33 Identities=24% Similarity=0.440 Sum_probs=23.6
Q ss_pred CcccccccccccCCC-ceEEeCCCCcchHHhHHH
Q 030323 107 GSDCMVCLCTLRDGE-LVRKLDCRHVFHKDCLDG 139 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~-~~~~lpC~H~fh~~Ci~~ 139 (179)
...|.+|.+.+.... ......|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 467999999876432 333345888899999876
No 192
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=25.43 E-value=40 Score=27.78 Aligned_cols=45 Identities=18% Similarity=0.336 Sum_probs=32.5
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcC-CCCCCCccC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHL-NFNCPLCRS 153 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~-~~~CP~Cr~ 153 (179)
...||+=...+.+| ++...|+|+|-+.-|...+... ...||+=..
T Consensus 176 s~rdPis~~~I~nP--viSkkC~HvydrDsI~~~l~~~~~i~CPv~gC 221 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP--VISKKCGHVYDRDSIMQILCDEITIRCPVLGC 221 (262)
T ss_pred cccCchhhhhhhch--hhhcCcCcchhhhhHHHHhccCceeecccccC
Confidence 56899987788777 2333599999999999987741 245887433
No 193
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=25.07 E-value=31 Score=34.06 Aligned_cols=37 Identities=24% Similarity=0.445 Sum_probs=26.4
Q ss_pred CCCcCCcccccccccccCCCceEE-eC-CCCcchHHhHH
Q 030323 102 ASSAAGSDCMVCLCTLRDGELVRK-LD-CRHVFHKDCLD 138 (179)
Q Consensus 102 ~~~~~~~~C~ICl~~~~~~~~~~~-lp-C~H~fh~~Ci~ 138 (179)
+..+++..|.||++.-.....+++ .. |+-..|.+|..
T Consensus 214 ~~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 214 ALLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG 252 (1051)
T ss_pred cccCCCccceeecccccCCCceEEEcCCCcchhhhhccC
Confidence 444678999999997544333333 33 89999999987
No 194
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=24.89 E-value=45 Score=19.23 Aligned_cols=33 Identities=27% Similarity=0.430 Sum_probs=23.3
Q ss_pred CcccccccccccC--CCceEEeCCCCcchHHhHHH
Q 030323 107 GSDCMVCLCTLRD--GELVRKLDCRHVFHKDCLDG 139 (179)
Q Consensus 107 ~~~C~ICl~~~~~--~~~~~~lpC~H~fh~~Ci~~ 139 (179)
...|.+|.+.+.. ....+...|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 4579999988764 23344445888899999764
No 195
>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=24.22 E-value=46 Score=25.39 Aligned_cols=24 Identities=29% Similarity=0.735 Sum_probs=15.5
Q ss_pred CCcchHHhHHHHHhcCCCCCCCccCCCC
Q 030323 129 RHVFHKDCLDGWLHHLNFNCPLCRSPVV 156 (179)
Q Consensus 129 ~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~ 156 (179)
.+.||..|-.+... .||.|..++.
T Consensus 27 ~~~fC~kCG~~tI~----~Cp~C~~~Ir 50 (158)
T PF10083_consen 27 REKFCSKCGAKTIT----SCPNCSTPIR 50 (158)
T ss_pred HHHHHHHhhHHHHH----HCcCCCCCCC
Confidence 35577777776543 5777777664
No 196
>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=24.10 E-value=41 Score=28.46 Aligned_cols=42 Identities=19% Similarity=0.362 Sum_probs=26.4
Q ss_pred CCcccccccccccC--------CCceEEeCCCCcchHHhHHHHHhcCCCCCCCccC
Q 030323 106 AGSDCMVCLCTLRD--------GELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRS 153 (179)
Q Consensus 106 ~~~~C~ICl~~~~~--------~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~ 153 (179)
....||||-..-.. .+..+.+ +|.-|-..|--. ...||.|..
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL-----~CslC~teW~~~-R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYL-----SCSLCATEWHYV-RVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEE-----EcCCCCCccccc-CccCCCCCC
Confidence 35599999886321 1233444 445577778554 678999965
No 197
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=23.94 E-value=57 Score=26.57 Aligned_cols=27 Identities=22% Similarity=0.396 Sum_probs=15.7
Q ss_pred chHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 132 FHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 132 fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
.|.+|.++--. ....||+|+..--+++
T Consensus 251 ~ClsChqqIHR-NAPiCPlCKaKsRSrN 277 (286)
T KOG4451|consen 251 VCLSCHQQIHR-NAPICPLCKAKSRSRN 277 (286)
T ss_pred HHHHHHHHHhc-CCCCCcchhhccccCC
Confidence 44555554322 3679999987554433
No 198
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=23.33 E-value=80 Score=27.40 Aligned_cols=14 Identities=29% Similarity=0.463 Sum_probs=10.7
Q ss_pred cCCccccccccccc
Q 030323 105 AAGSDCMVCLCTLR 118 (179)
Q Consensus 105 ~~~~~C~ICl~~~~ 118 (179)
..++-||+|-+..+
T Consensus 13 dl~ElCPVCGDkVS 26 (475)
T KOG4218|consen 13 DLGELCPVCGDKVS 26 (475)
T ss_pred ccccccccccCccc
Confidence 34678999998764
No 199
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=22.74 E-value=41 Score=31.40 Aligned_cols=47 Identities=26% Similarity=0.663 Sum_probs=29.1
Q ss_pred CcccccccccccCCCc--eEEeCCCCcchHHhHHHHHhcC----CCCCCCccC
Q 030323 107 GSDCMVCLCTLRDGEL--VRKLDCRHVFHKDCLDGWLHHL----NFNCPLCRS 153 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~--~~~lpC~H~fh~~Ci~~wl~~~----~~~CP~Cr~ 153 (179)
..-|++|-..=..... ...-.|+-.+|..|+..|++.. ...||-||.
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 4456666544222211 2222489999999999998753 245888765
No 200
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=22.64 E-value=46 Score=21.36 Aligned_cols=11 Identities=55% Similarity=1.253 Sum_probs=9.2
Q ss_pred CCCCCccCCCC
Q 030323 146 FNCPLCRSPVV 156 (179)
Q Consensus 146 ~~CP~Cr~~~~ 156 (179)
..||+|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 47999999875
No 201
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=21.67 E-value=51 Score=20.97 Aligned_cols=11 Identities=36% Similarity=1.080 Sum_probs=6.7
Q ss_pred CCCCCCccCCC
Q 030323 145 NFNCPLCRSPV 155 (179)
Q Consensus 145 ~~~CP~Cr~~~ 155 (179)
+..||+|+..+
T Consensus 2 k~~CPlCkt~~ 12 (61)
T PF05715_consen 2 KSLCPLCKTTL 12 (61)
T ss_pred CccCCcccchh
Confidence 34577776655
No 202
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=21.56 E-value=68 Score=26.75 Aligned_cols=10 Identities=20% Similarity=0.650 Sum_probs=6.1
Q ss_pred CCCCCCccCC
Q 030323 145 NFNCPLCRSP 154 (179)
Q Consensus 145 ~~~CP~Cr~~ 154 (179)
...||.|+..
T Consensus 269 p~~C~~Cgt~ 278 (279)
T TIGR00627 269 TPICKTCKTA 278 (279)
T ss_pred CCCCCCCCCC
Confidence 3467777654
No 203
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=21.53 E-value=49 Score=23.55 Aligned_cols=13 Identities=31% Similarity=0.759 Sum_probs=8.1
Q ss_pred CCCCCccCCCCCC
Q 030323 146 FNCPLCRSPVVSE 158 (179)
Q Consensus 146 ~~CP~Cr~~~~~~ 158 (179)
.+||.|...+...
T Consensus 27 ivCP~CG~~~~~~ 39 (108)
T PF09538_consen 27 IVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCCCccCcc
Confidence 3577776666554
No 204
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=21.20 E-value=55 Score=24.10 Aligned_cols=23 Identities=30% Similarity=0.610 Sum_probs=16.2
Q ss_pred CCCCcchHHhHHHHHhcCCCCCCCccCCCCCCc
Q 030323 127 DCRHVFHKDCLDGWLHHLNFNCPLCRSPVVSEE 159 (179)
Q Consensus 127 pC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 159 (179)
-|++.|| +.+.||.|+.-+-..+
T Consensus 102 ~C~~~Y~----------GeK~C~~C~tGiYS~e 124 (128)
T PF11682_consen 102 MCGNHYH----------GEKYCPKCGTGIYSIE 124 (128)
T ss_pred cCCCccC----------cCEecCCCCCccccee
Confidence 3777666 3578999988776544
No 205
>KOG1094 consensus Discoidin domain receptor DDR1 [Signal transduction mechanisms]
Probab=21.19 E-value=1.6e+02 Score=27.76 Aligned_cols=33 Identities=15% Similarity=0.149 Sum_probs=22.4
Q ss_pred CCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030323 9 DLSSDSLPLLIVALIANCFGNLRSLLFSLLHSV 41 (179)
Q Consensus 9 d~~~~~i~~~i~~~i~~~v~~l~~~l~~~~~~~ 41 (179)
|-+...|.++++++|.++|++++.++..-.+.+
T Consensus 386 ~~~~t~~~~~~f~~if~iva~ii~~~L~R~rr~ 418 (807)
T KOG1094|consen 386 DGSPTAILIIIFVAIFLIVALIIALMLWRWRRL 418 (807)
T ss_pred cCCCceehHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445667888888888888887777666443333
No 206
>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=21.13 E-value=28 Score=18.46 Aligned_cols=11 Identities=45% Similarity=1.165 Sum_probs=5.8
Q ss_pred CCCCccCCCCC
Q 030323 147 NCPLCRSPVVS 157 (179)
Q Consensus 147 ~CP~Cr~~~~~ 157 (179)
.||.|...+..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 48999887763
No 207
>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=21.06 E-value=60 Score=22.41 Aligned_cols=38 Identities=16% Similarity=0.496 Sum_probs=27.3
Q ss_pred CcccccccccccCCCceEEeCCCCcchHHhHHHHHhcCCCCCCCccCCCCC
Q 030323 107 GSDCMVCLCTLRDGELVRKLDCRHVFHKDCLDGWLHHLNFNCPLCRSPVVS 157 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~~~~lpC~H~fh~~Ci~~wl~~~~~~CP~Cr~~~~~ 157 (179)
...|-||-..+.. =+|.||..|... ...|.+|-..+..
T Consensus 44 ~~~C~~CK~~v~q--------~g~~YCq~CAYk-----kGiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKVHQ--------PGAKYCQTCAYK-----KGICAMCGKKILD 81 (90)
T ss_pred Ccccccccccccc--------CCCccChhhhcc-----cCcccccCCeecc
Confidence 4589999865433 267899999553 5689999887743
No 208
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.42 E-value=29 Score=30.70 Aligned_cols=38 Identities=21% Similarity=0.418 Sum_probs=26.8
Q ss_pred CcccccccccccCCCc---eEE--eCCCCcchHHhHHHHHhcC
Q 030323 107 GSDCMVCLCTLRDGEL---VRK--LDCRHVFHKDCLDGWLHHL 144 (179)
Q Consensus 107 ~~~C~ICl~~~~~~~~---~~~--lpC~H~fh~~Ci~~wl~~~ 144 (179)
...||.|......... ... .+|+|.||..|+..|-...
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 3459999987765431 122 2499999999988887753
No 209
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=20.36 E-value=83 Score=19.97 Aligned_cols=15 Identities=20% Similarity=0.558 Sum_probs=8.7
Q ss_pred CCcccccccccccCC
Q 030323 106 AGSDCMVCLCTLRDG 120 (179)
Q Consensus 106 ~~~~C~ICl~~~~~~ 120 (179)
+...||+|...+..+
T Consensus 38 ~~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 38 EEPVCPLCKSPMVSG 52 (59)
T ss_pred CCccCCCcCCccccc
Confidence 345666666665544
No 210
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=20.27 E-value=57 Score=26.61 Aligned_cols=14 Identities=36% Similarity=0.664 Sum_probs=8.3
Q ss_pred CcccccccccccCC
Q 030323 107 GSDCMVCLCTLRDG 120 (179)
Q Consensus 107 ~~~C~ICl~~~~~~ 120 (179)
...|+||+..|..+
T Consensus 260 GfvCsVCLsvfc~p 273 (296)
T COG5242 260 GFVCSVCLSVFCRP 273 (296)
T ss_pred eeehhhhheeecCC
Confidence 45677777665443
Done!