Query 034125
Match_columns 103
No_of_seqs 167 out of 1515
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 10:02:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034125.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034125hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 4.5E-16 9.8E-21 79.9 2.0 44 22-70 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 4.6E-14 1E-18 99.3 4.0 52 22-77 230-281 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.4 6.9E-13 1.5E-17 74.9 3.5 45 21-70 19-73 (73)
4 PHA02929 N1R/p28-like protein; 99.3 1.8E-12 3.8E-17 87.7 4.3 51 19-74 172-227 (238)
5 COG5540 RING-finger-containing 99.3 1.6E-12 3.5E-17 89.7 3.6 53 19-76 321-374 (374)
6 PLN03208 E3 ubiquitin-protein 99.3 5.5E-12 1.2E-16 82.5 5.8 57 19-79 16-84 (193)
7 KOG0823 Predicted E3 ubiquitin 99.3 3.9E-12 8.5E-17 84.7 4.4 57 18-79 44-100 (230)
8 KOG0317 Predicted E3 ubiquitin 99.3 4.2E-12 9.1E-17 86.9 4.4 61 11-79 229-289 (293)
9 COG5243 HRD1 HRD ubiquitin lig 99.3 2.6E-12 5.7E-17 90.7 3.0 54 15-73 281-344 (491)
10 PF13920 zf-C3HC4_3: Zinc fing 99.3 4.3E-12 9.3E-17 66.6 2.8 47 20-74 1-48 (50)
11 PF15227 zf-C3HC4_4: zinc fing 99.2 3.9E-12 8.4E-17 64.5 1.9 42 24-69 1-42 (42)
12 PHA02926 zinc finger-like prot 99.2 3.6E-11 7.8E-16 79.9 4.4 55 19-74 168-230 (242)
13 KOG0320 Predicted E3 ubiquitin 99.1 6.3E-11 1.4E-15 76.2 4.6 53 19-77 129-181 (187)
14 PF13923 zf-C3HC4_2: Zinc fing 99.1 3.7E-11 7.9E-16 60.0 2.8 39 24-69 1-39 (39)
15 cd00162 RING RING-finger (Real 99.1 1.2E-10 2.7E-15 58.8 4.1 45 23-73 1-45 (45)
16 PF14634 zf-RING_5: zinc-RING 99.1 1.3E-10 2.9E-15 59.4 3.5 44 23-71 1-44 (44)
17 PF12861 zf-Apc11: Anaphase-pr 99.0 4.9E-10 1.1E-14 64.4 4.3 53 20-74 20-82 (85)
18 PF00097 zf-C3HC4: Zinc finger 99.0 2.8E-10 6.1E-15 57.1 2.6 41 24-69 1-41 (41)
19 KOG2164 Predicted E3 ubiquitin 99.0 3.3E-10 7.1E-15 82.8 2.6 55 21-79 186-241 (513)
20 KOG0802 E3 ubiquitin ligase [P 98.9 4.1E-10 8.9E-15 84.2 2.8 52 17-73 287-340 (543)
21 smart00504 Ubox Modified RING 98.9 1.1E-09 2.3E-14 59.7 3.7 50 22-79 2-51 (63)
22 PF13445 zf-RING_UBOX: RING-ty 98.9 8.9E-10 1.9E-14 56.0 3.0 43 24-67 1-43 (43)
23 smart00184 RING Ring finger. E 98.9 2.5E-09 5.3E-14 52.2 3.8 39 24-69 1-39 (39)
24 TIGR00599 rad18 DNA repair pro 98.9 2.2E-09 4.8E-14 77.4 4.4 51 18-76 23-73 (397)
25 COG5574 PEX10 RING-finger-cont 98.8 2.7E-09 5.8E-14 72.5 2.9 53 19-78 213-266 (271)
26 KOG0287 Postreplication repair 98.8 1.2E-09 2.5E-14 76.7 1.1 53 19-79 21-73 (442)
27 TIGR00570 cdk7 CDK-activating 98.7 1.5E-08 3.3E-13 70.7 3.9 55 20-77 2-57 (309)
28 KOG1734 Predicted RING-contain 98.6 6.2E-09 1.4E-13 71.1 0.6 68 19-96 222-296 (328)
29 smart00744 RINGv The RING-vari 98.6 1.1E-07 2.5E-12 49.6 4.4 44 23-70 1-49 (49)
30 KOG0804 Cytoplasmic Zn-finger 98.6 2.1E-08 4.5E-13 72.6 2.1 54 15-74 169-222 (493)
31 KOG4265 Predicted E3 ubiquitin 98.5 1.3E-07 2.8E-12 66.8 4.6 50 17-74 286-336 (349)
32 KOG0828 Predicted E3 ubiquitin 98.5 6.1E-08 1.3E-12 71.0 2.9 54 19-75 569-635 (636)
33 COG5432 RAD18 RING-finger-cont 98.5 4.4E-08 9.6E-13 67.7 1.7 47 19-73 23-69 (391)
34 COG5219 Uncharacterized conser 98.5 6E-08 1.3E-12 75.7 2.2 53 19-74 1467-1523(1525)
35 KOG0824 Predicted E3 ubiquitin 98.5 1.2E-07 2.5E-12 65.8 2.8 56 20-82 6-61 (324)
36 COG5194 APC11 Component of SCF 98.5 2.9E-07 6.3E-12 52.1 3.9 29 42-74 53-81 (88)
37 PF11793 FANCL_C: FANCL C-term 98.5 2.6E-08 5.6E-13 55.7 -0.4 53 21-74 2-66 (70)
38 KOG2177 Predicted E3 ubiquitin 98.4 7.8E-08 1.7E-12 65.5 1.7 47 17-71 9-55 (386)
39 PF04564 U-box: U-box domain; 98.3 2E-07 4.4E-12 52.5 1.5 53 20-79 3-55 (73)
40 KOG0827 Predicted E3 ubiquitin 98.3 4.9E-07 1.1E-11 64.7 2.5 51 21-73 4-55 (465)
41 KOG4172 Predicted E3 ubiquitin 98.3 2.5E-07 5.4E-12 48.8 0.7 46 21-73 7-53 (62)
42 KOG1493 Anaphase-promoting com 98.2 3.1E-07 6.7E-12 51.6 0.4 32 42-74 50-81 (84)
43 KOG0978 E3 ubiquitin ligase in 98.2 6.1E-07 1.3E-11 68.5 2.0 54 19-79 641-694 (698)
44 KOG1039 Predicted E3 ubiquitin 98.2 1.4E-06 3E-11 62.0 2.9 54 19-73 159-220 (344)
45 PF14835 zf-RING_6: zf-RING of 98.1 4.2E-07 9.1E-12 49.6 -0.3 51 20-79 6-56 (65)
46 KOG2930 SCF ubiquitin ligase, 98.1 3E-06 6.5E-11 50.2 2.8 28 42-73 80-107 (114)
47 KOG1785 Tyrosine kinase negati 98.0 1.9E-06 4.2E-11 62.0 1.5 46 23-74 371-416 (563)
48 KOG1645 RING-finger-containing 98.0 3.7E-06 7.9E-11 60.6 2.5 52 19-73 2-55 (463)
49 KOG0311 Predicted E3 ubiquitin 98.0 9.1E-07 2E-11 62.6 -0.7 49 19-73 41-89 (381)
50 KOG2879 Predicted E3 ubiquitin 97.9 1.1E-05 2.4E-10 55.5 3.8 55 15-74 233-287 (298)
51 KOG4445 Uncharacterized conser 97.8 5.6E-06 1.2E-10 57.7 1.0 53 21-74 115-186 (368)
52 KOG0825 PHD Zn-finger protein 97.8 4.5E-06 9.8E-11 64.4 -0.1 50 20-74 122-171 (1134)
53 KOG1002 Nucleotide excision re 97.7 2.2E-05 4.8E-10 58.5 2.1 78 19-100 534-616 (791)
54 KOG4159 Predicted E3 ubiquitin 97.7 2.2E-05 4.8E-10 57.0 2.0 50 19-76 82-131 (398)
55 KOG1952 Transcription factor N 97.7 4E-05 8.6E-10 59.6 3.2 54 18-71 188-244 (950)
56 KOG1428 Inhibitor of type V ad 97.6 2.7E-05 5.9E-10 63.8 2.3 62 18-80 3483-3550(3738)
57 KOG3970 Predicted E3 ubiquitin 97.6 0.00011 2.5E-09 49.5 3.9 76 18-95 47-132 (299)
58 KOG1941 Acetylcholine receptor 97.5 5.3E-05 1.1E-09 54.7 2.0 48 21-71 365-413 (518)
59 KOG0297 TNF receptor-associate 97.4 8.2E-05 1.8E-09 54.1 1.6 50 18-74 18-67 (391)
60 KOG4692 Predicted E3 ubiquitin 97.3 0.00016 3.4E-09 51.7 2.6 49 18-74 419-467 (489)
61 KOG1814 Predicted E3 ubiquitin 97.3 0.00021 4.5E-09 51.8 3.2 51 20-71 183-237 (445)
62 KOG2660 Locus-specific chromos 97.3 8.1E-05 1.8E-09 52.4 0.6 48 19-73 13-60 (331)
63 PHA02825 LAP/PHD finger-like p 97.3 0.00054 1.2E-08 43.8 4.1 51 17-74 4-59 (162)
64 PF11789 zf-Nse: Zinc-finger o 97.2 0.00021 4.5E-09 38.3 1.4 46 18-68 8-53 (57)
65 PF12906 RINGv: RING-variant d 97.1 0.00025 5.5E-09 36.5 1.3 42 24-69 1-47 (47)
66 KOG1940 Zn-finger protein [Gen 97.0 0.00027 5.9E-09 49.0 1.1 47 21-71 158-204 (276)
67 PHA02862 5L protein; Provision 97.0 0.00094 2E-08 42.1 3.3 47 21-74 2-53 (156)
68 KOG4739 Uncharacterized protei 96.9 0.0003 6.6E-09 47.6 0.5 46 22-75 4-49 (233)
69 COG5152 Uncharacterized conser 96.9 0.0005 1.1E-08 45.6 1.3 48 19-74 194-241 (259)
70 PF14570 zf-RING_4: RING/Ubox 96.8 0.00098 2.1E-08 34.4 2.1 46 24-73 1-47 (48)
71 PF10367 Vps39_2: Vacuolar sor 96.8 0.00045 9.8E-09 41.0 0.7 33 19-53 76-108 (109)
72 PF14447 Prok-RING_4: Prokaryo 96.8 0.00057 1.2E-08 36.2 1.0 44 23-76 9-52 (55)
73 PHA03096 p28-like protein; Pro 96.8 0.0011 2.4E-08 46.3 2.5 48 22-71 179-231 (284)
74 PF04641 Rtf2: Rtf2 RING-finge 96.7 0.0017 3.6E-08 44.8 3.3 56 18-79 110-166 (260)
75 KOG3039 Uncharacterized conser 96.7 0.0013 2.8E-08 45.0 2.6 59 20-83 220-279 (303)
76 COG5175 MOT2 Transcriptional r 96.7 0.0016 3.4E-08 46.6 3.0 57 18-77 11-67 (480)
77 KOG4275 Predicted E3 ubiquitin 96.7 0.00011 2.4E-09 51.2 -2.7 41 21-73 300-341 (350)
78 PF05290 Baculo_IE-1: Baculovi 96.7 0.0026 5.6E-08 39.6 3.6 55 20-77 79-135 (140)
79 PF07800 DUF1644: Protein of u 96.7 0.0041 9E-08 39.8 4.4 57 20-78 1-95 (162)
80 COG5236 Uncharacterized conser 96.6 0.0041 8.8E-08 44.6 4.7 48 18-73 58-107 (493)
81 KOG3800 Predicted E3 ubiquitin 96.6 0.0022 4.9E-08 44.6 3.2 49 23-74 2-51 (300)
82 COG5220 TFB3 Cdk activating ki 96.6 0.002 4.4E-08 43.9 2.7 49 19-70 8-60 (314)
83 PF05883 Baculo_RING: Baculovi 96.6 0.0015 3.3E-08 40.7 1.9 38 21-59 26-69 (134)
84 KOG0826 Predicted E3 ubiquitin 96.5 0.003 6.6E-08 44.7 3.3 49 18-73 297-345 (357)
85 KOG3268 Predicted E3 ubiquitin 96.5 0.0029 6.3E-08 41.4 2.8 34 41-74 188-228 (234)
86 KOG2817 Predicted E3 ubiquitin 96.4 0.0024 5.2E-08 46.2 2.4 53 19-73 332-384 (394)
87 KOG4185 Predicted E3 ubiquitin 96.4 0.003 6.5E-08 44.1 2.7 49 21-73 3-54 (296)
88 KOG1813 Predicted E3 ubiquitin 96.3 0.001 2.3E-08 46.4 0.3 46 21-74 241-286 (313)
89 COG5222 Uncharacterized conser 96.3 0.0038 8.2E-08 44.0 2.7 44 22-71 275-318 (427)
90 KOG1571 Predicted E3 ubiquitin 96.2 0.0025 5.4E-08 45.6 1.6 46 18-74 302-347 (355)
91 PF08746 zf-RING-like: RING-li 96.2 0.0019 4.2E-08 32.6 0.6 41 24-69 1-43 (43)
92 KOG3053 Uncharacterized conser 96.0 0.0074 1.6E-07 41.6 3.1 57 16-73 15-81 (293)
93 PF10272 Tmpp129: Putative tra 95.9 0.008 1.7E-07 43.4 2.8 35 43-77 311-354 (358)
94 PF03854 zf-P11: P-11 zinc fin 95.5 0.003 6.4E-08 32.4 -0.3 31 42-76 17-48 (50)
95 KOG0801 Predicted E3 ubiquitin 95.2 0.0065 1.4E-07 39.2 0.5 31 18-49 174-204 (205)
96 KOG3002 Zn finger protein [Gen 95.0 0.031 6.7E-07 39.5 3.4 46 17-74 44-91 (299)
97 KOG1812 Predicted E3 ubiquitin 94.9 0.014 3.1E-07 42.5 1.5 49 20-68 145-195 (384)
98 KOG2114 Vacuolar assembly/sort 94.8 0.018 4E-07 45.4 1.9 42 21-72 840-881 (933)
99 smart00249 PHD PHD zinc finger 94.4 0.018 3.8E-07 28.5 0.8 46 23-69 1-47 (47)
100 COG5183 SSM4 Protein involved 94.4 0.063 1.4E-06 42.6 4.0 53 18-74 9-66 (1175)
101 KOG1001 Helicase-like transcri 94.2 0.027 5.8E-07 43.9 1.7 46 22-74 455-500 (674)
102 KOG1100 Predicted E3 ubiquitin 94.2 0.031 6.8E-07 37.5 1.8 38 24-73 161-199 (207)
103 KOG3899 Uncharacterized conser 94.2 0.021 4.6E-07 40.1 1.0 40 43-82 325-373 (381)
104 KOG2034 Vacuolar sorting prote 94.1 0.034 7.4E-07 44.1 2.1 37 19-57 815-851 (911)
105 KOG4367 Predicted Zn-finger pr 93.6 0.05 1.1E-06 40.4 2.0 37 19-59 2-38 (699)
106 KOG2932 E3 ubiquitin ligase in 93.5 0.034 7.3E-07 39.4 1.0 28 39-72 105-132 (389)
107 KOG0298 DEAD box-containing he 93.3 0.036 7.8E-07 45.6 1.0 45 20-71 1152-1196(1394)
108 KOG0309 Conserved WD40 repeat- 92.8 0.065 1.4E-06 42.2 1.7 39 24-68 1031-1069(1081)
109 KOG1815 Predicted E3 ubiquitin 92.3 0.17 3.6E-06 37.6 3.3 39 18-59 67-105 (444)
110 COG5109 Uncharacterized conser 92.0 0.11 2.3E-06 37.1 1.9 51 19-71 334-384 (396)
111 KOG0827 Predicted E3 ubiquitin 91.7 0.0081 1.8E-07 43.6 -3.9 54 20-78 195-249 (465)
112 PF02891 zf-MIZ: MIZ/SP-RING z 91.4 0.12 2.6E-06 26.8 1.2 46 22-71 3-49 (50)
113 KOG3799 Rab3 effector RIM1 and 91.3 0.028 6E-07 35.3 -1.5 57 16-72 60-116 (169)
114 PF10497 zf-4CXXC_R1: Zinc-fin 91.3 0.49 1.1E-05 28.4 4.0 51 19-71 5-69 (105)
115 KOG3161 Predicted E3 ubiquitin 90.9 0.11 2.4E-06 40.2 1.1 41 20-67 10-51 (861)
116 PF14446 Prok-RING_1: Prokaryo 90.8 0.39 8.6E-06 25.4 2.8 35 19-54 3-38 (54)
117 KOG4362 Transcriptional regula 89.9 0.082 1.8E-06 41.1 -0.3 53 19-76 19-71 (684)
118 KOG1609 Protein involved in mR 89.8 0.45 9.7E-06 33.2 3.4 53 19-74 76-134 (323)
119 KOG1829 Uncharacterized conser 88.7 0.22 4.8E-06 38.2 1.2 44 19-69 509-556 (580)
120 KOG4718 Non-SMC (structural ma 88.0 0.22 4.7E-06 33.6 0.7 50 17-73 177-226 (235)
121 PF13901 DUF4206: Domain of un 87.2 0.4 8.7E-06 32.0 1.7 42 20-70 151-196 (202)
122 PF00628 PHD: PHD-finger; Int 85.9 0.27 5.8E-06 25.1 0.2 47 23-70 1-49 (51)
123 PF10571 UPF0547: Uncharacteri 84.2 0.48 1E-05 21.2 0.6 7 23-29 2-8 (26)
124 KOG3113 Uncharacterized conser 83.5 1.1 2.4E-05 31.1 2.4 54 19-79 109-163 (293)
125 KOG2068 MOT2 transcription fac 82.7 1.1 2.3E-05 32.2 2.1 52 19-74 247-298 (327)
126 KOG2066 Vacuolar assembly/sort 82.2 0.66 1.4E-05 36.8 1.1 40 20-59 783-825 (846)
127 KOG2807 RNA polymerase II tran 80.9 2.4 5.3E-05 30.5 3.4 46 21-71 330-375 (378)
128 KOG1245 Chromatin remodeling c 80.5 0.81 1.8E-05 38.7 1.1 54 19-73 1106-1159(1404)
129 KOG0269 WD40 repeat-containing 80.2 1.6 3.4E-05 34.7 2.4 43 20-68 778-820 (839)
130 KOG3842 Adaptor protein Pellin 78.2 3.4 7.4E-05 29.8 3.4 59 15-74 335-414 (429)
131 KOG1244 Predicted transcriptio 77.4 0.28 6.2E-06 34.3 -2.0 50 21-71 281-330 (336)
132 PF06844 DUF1244: Protein of u 77.3 1.8 3.9E-05 23.8 1.5 14 46-59 11-24 (68)
133 cd04718 BAH_plant_2 BAH, or Br 75.7 0.56 1.2E-05 29.9 -0.9 27 47-73 2-28 (148)
134 PF07975 C1_4: TFIIH C1-like d 75.6 1.6 3.5E-05 22.8 0.9 25 41-69 25-49 (51)
135 KOG0825 PHD Zn-finger protein 74.7 1.1 2.5E-05 35.8 0.4 55 15-70 209-264 (1134)
136 KOG0802 E3 ubiquitin ligase [P 73.0 2.5 5.5E-05 32.3 1.9 47 17-75 475-521 (543)
137 PLN02189 cellulose synthase 73.0 3.8 8.3E-05 33.8 2.9 51 20-74 33-87 (1040)
138 KOG3579 Predicted E3 ubiquitin 71.9 7.7 0.00017 27.6 3.8 57 19-76 266-330 (352)
139 PLN02638 cellulose synthase A 71.7 8 0.00017 32.1 4.4 51 20-74 16-70 (1079)
140 PF04710 Pellino: Pellino; In 71.3 1.3 2.8E-05 32.6 0.0 54 21-74 328-401 (416)
141 PLN02195 cellulose synthase A 71.3 8.5 0.00018 31.7 4.4 51 20-74 5-59 (977)
142 PF10146 zf-C4H2: Zinc finger- 71.1 3.6 7.7E-05 28.1 2.1 28 47-78 196-223 (230)
143 PLN02915 cellulose synthase A 69.0 9.5 0.00021 31.6 4.3 52 19-74 13-68 (1044)
144 PF01363 FYVE: FYVE zinc finge 67.7 1.5 3.3E-05 23.7 -0.2 35 19-54 7-42 (69)
145 smart00064 FYVE Protein presen 67.3 5.6 0.00012 21.3 2.0 36 21-57 10-46 (68)
146 KOG3039 Uncharacterized conser 67.1 5.2 0.00011 27.9 2.2 39 14-56 36-74 (303)
147 PLN02436 cellulose synthase A 67.1 9.7 0.00021 31.7 4.0 51 20-74 35-89 (1094)
148 PF04216 FdhE: Protein involve 66.4 0.52 1.1E-05 33.0 -2.8 50 16-71 167-219 (290)
149 smart00132 LIM Zinc-binding do 66.2 7.1 0.00015 17.9 2.1 36 24-73 2-37 (39)
150 KOG4218 Nuclear hormone recept 66.0 5 0.00011 29.3 2.0 12 18-29 12-23 (475)
151 PLN02400 cellulose synthase 65.7 7.7 0.00017 32.3 3.2 51 20-74 35-89 (1085)
152 KOG1812 Predicted E3 ubiquitin 63.1 4.2 9.2E-05 29.8 1.3 38 21-59 306-345 (384)
153 KOG4451 Uncharacterized conser 62.0 6.4 0.00014 27.1 1.9 28 47-78 251-278 (286)
154 PF07649 C1_3: C1-like domain; 61.9 7.7 0.00017 17.4 1.6 29 23-52 2-30 (30)
155 cd00065 FYVE FYVE domain; Zinc 61.5 6.5 0.00014 20.2 1.5 35 22-57 3-38 (57)
156 KOG2231 Predicted E3 ubiquitin 61.5 7.5 0.00016 30.7 2.4 52 23-78 2-56 (669)
157 PF04423 Rad50_zn_hook: Rad50 60.6 3.5 7.5E-05 21.4 0.4 13 64-76 21-33 (54)
158 PF14569 zf-UDP: Zinc-binding 60.5 12 0.00026 21.3 2.5 51 20-74 8-62 (80)
159 TIGR00622 ssl1 transcription f 60.3 13 0.00029 22.6 2.9 44 22-70 56-110 (112)
160 KOG3005 GIY-YIG type nuclease 58.4 5.9 0.00013 27.8 1.2 52 22-74 183-243 (276)
161 PF06906 DUF1272: Protein of u 58.0 11 0.00024 20.1 2.0 45 23-75 7-53 (57)
162 COG3492 Uncharacterized protei 56.7 8.9 0.00019 22.5 1.6 14 46-59 42-55 (104)
163 PF00412 LIM: LIM domain; Int 56.2 6.3 0.00014 20.1 0.9 40 24-77 1-40 (58)
164 COG4357 Zinc finger domain con 55.7 21 0.00046 21.2 3.1 28 43-75 65-92 (105)
165 PF14169 YdjO: Cold-inducible 55.5 7.6 0.00016 20.9 1.1 21 54-74 28-50 (59)
166 KOG0824 Predicted E3 ubiquitin 54.3 4.7 0.0001 28.7 0.3 47 19-72 103-149 (324)
167 COG4647 AcxC Acetone carboxyla 53.1 7.4 0.00016 24.4 1.0 21 26-50 62-82 (165)
168 PF13832 zf-HC5HC2H_2: PHD-zin 52.9 17 0.00036 21.4 2.5 32 20-54 54-87 (110)
169 PF02318 FYVE_2: FYVE-type zin 52.0 8.2 0.00018 23.4 1.1 48 20-70 53-101 (118)
170 PF07191 zinc-ribbons_6: zinc- 51.4 0.8 1.7E-05 25.5 -3.1 39 22-73 2-40 (70)
171 KOG0383 Predicted helicase [Ge 50.6 7.6 0.00016 30.8 0.9 50 19-72 45-94 (696)
172 KOG3726 Uncharacterized conser 50.3 11 0.00023 29.9 1.6 43 21-70 654-696 (717)
173 KOG4443 Putative transcription 50.0 9.8 0.00021 29.9 1.4 50 21-71 18-70 (694)
174 COG4847 Uncharacterized protei 49.7 19 0.00042 21.3 2.3 37 21-59 6-42 (103)
175 COG3813 Uncharacterized protei 49.6 17 0.00037 20.4 1.9 27 44-76 28-54 (84)
176 KOG4299 PHD Zn-finger protein 48.9 8.7 0.00019 29.9 0.9 52 22-74 254-307 (613)
177 PRK03564 formate dehydrogenase 48.6 5.6 0.00012 28.4 -0.1 48 18-71 184-234 (309)
178 PLN02248 cellulose synthase-li 47.9 54 0.0012 27.7 5.2 28 43-74 150-177 (1135)
179 smart00734 ZnF_Rad18 Rad18-lik 47.2 9 0.00019 16.9 0.5 11 64-74 2-12 (26)
180 PF13240 zinc_ribbon_2: zinc-r 46.0 1.7 3.6E-05 18.7 -2.0 8 64-71 14-21 (23)
181 TIGR01562 FdhE formate dehydro 45.6 5.7 0.00012 28.4 -0.4 47 19-71 182-232 (305)
182 KOG2462 C2H2-type Zn-finger pr 44.9 8.6 0.00019 27.1 0.4 55 21-76 161-228 (279)
183 PF05605 zf-Di19: Drought indu 44.5 9.1 0.0002 19.7 0.4 11 64-74 3-13 (54)
184 KOG2169 Zn-finger transcriptio 44.4 28 0.00061 27.4 3.1 58 19-79 304-361 (636)
185 KOG1973 Chromatin remodeling p 44.3 8.8 0.00019 26.8 0.3 44 26-73 223-269 (274)
186 PRK01343 zinc-binding protein; 44.0 17 0.00037 19.4 1.3 12 63-74 9-20 (57)
187 PF09297 zf-NADH-PPase: NADH p 43.5 0.8 1.7E-05 21.2 -3.5 7 64-70 22-28 (32)
188 PF14311 DUF4379: Domain of un 43.1 12 0.00025 19.4 0.6 23 42-69 33-55 (55)
189 PRK11088 rrmA 23S rRNA methylt 42.9 18 0.00039 24.8 1.7 25 22-47 3-27 (272)
190 PF09889 DUF2116: Uncharacteri 42.6 20 0.00043 19.2 1.5 15 63-77 3-17 (59)
191 KOG4323 Polycomb-like PHD Zn-f 41.7 8.9 0.00019 29.0 0.1 51 21-71 168-223 (464)
192 PF10083 DUF2321: Uncharacteri 40.4 29 0.00062 22.4 2.2 27 43-76 26-52 (158)
193 smart00647 IBR In Between Ring 40.1 4.8 0.0001 21.0 -1.2 14 42-55 45-58 (64)
194 smart00290 ZnF_UBP Ubiquitin C 39.9 25 0.00054 17.4 1.6 21 24-48 2-22 (50)
195 KOG1140 N-end rule pathway, re 39.9 38 0.00083 29.9 3.4 31 42-72 1150-1196(1738)
196 KOG1356 Putative transcription 39.4 8 0.00017 31.3 -0.5 51 19-71 227-279 (889)
197 PF13717 zinc_ribbon_4: zinc-r 39.1 15 0.00032 17.5 0.6 7 23-29 4-10 (36)
198 PRK00418 DNA gyrase inhibitor; 38.5 20 0.00044 19.4 1.2 11 64-74 7-17 (62)
199 PF13913 zf-C2HC_2: zinc-finge 38.1 9.3 0.0002 16.6 -0.2 15 64-78 3-17 (25)
200 TIGR02652 conserved hypothetic 37.9 14 0.0003 23.5 0.5 17 63-79 9-25 (163)
201 PF09654 DUF2396: Protein of u 36.6 15 0.00033 23.3 0.5 17 63-79 6-22 (161)
202 COG2816 NPY1 NTP pyrophosphohy 36.3 6.8 0.00015 27.6 -1.2 31 43-73 109-139 (279)
203 KOG0955 PHD finger protein BR1 34.9 23 0.00049 29.6 1.3 38 16-53 214-252 (1051)
204 PF00130 C1_1: Phorbol esters/ 34.0 26 0.00057 17.6 1.1 34 20-54 10-45 (53)
205 PF02148 zf-UBP: Zn-finger in 33.9 24 0.00051 18.7 1.0 24 24-50 1-24 (63)
206 PF13771 zf-HC5HC2H: PHD-like 33.0 38 0.00083 18.9 1.8 33 19-54 34-68 (90)
207 TIGR00627 tfb4 transcription f 31.7 28 0.00062 24.5 1.3 9 64-72 270-278 (279)
208 PF05715 zf-piccolo: Piccolo Z 31.6 27 0.00059 18.8 0.9 11 64-74 3-13 (61)
209 PF09237 GAGA: GAGA factor; I 30.4 13 0.00028 19.5 -0.4 13 62-74 23-35 (54)
210 PF09538 FYDLN_acid: Protein o 30.3 20 0.00042 21.6 0.3 13 64-76 27-39 (108)
211 smart00109 C1 Protein kinase C 29.9 65 0.0014 15.3 2.2 34 20-54 10-44 (49)
212 PF09943 DUF2175: Uncharacteri 29.5 47 0.001 19.8 1.8 36 22-59 3-38 (101)
213 PF13719 zinc_ribbon_5: zinc-r 29.0 25 0.00054 16.7 0.5 7 23-29 4-10 (37)
214 PF15446 zf-PHD-like: PHD/FYVE 28.3 44 0.00096 21.9 1.6 32 24-55 2-35 (175)
215 KOG1729 FYVE finger containing 28.2 21 0.00046 25.3 0.2 55 19-73 166-224 (288)
216 PF09986 DUF2225: Uncharacteri 27.4 22 0.00049 23.8 0.2 17 63-79 5-21 (214)
217 KOG0956 PHD finger protein AF1 27.1 83 0.0018 25.5 3.1 30 38-71 41-70 (900)
218 COG4694 Uncharacterized protei 27.0 19 0.00041 28.2 -0.2 23 51-73 263-288 (758)
219 COG5242 TFB4 RNA polymerase II 26.8 25 0.00054 24.3 0.3 10 64-73 275-284 (296)
220 PRK11827 hypothetical protein; 26.5 29 0.00063 18.7 0.5 11 64-74 9-19 (60)
221 KOG2789 Putative Zn-finger pro 26.5 25 0.00054 26.3 0.3 34 21-56 74-107 (482)
222 PF13453 zf-TFIIB: Transcripti 26.3 36 0.00078 16.4 0.8 14 65-78 1-14 (41)
223 cd00730 rubredoxin Rubredoxin; 26.2 48 0.001 17.0 1.3 13 17-29 30-42 (50)
224 KOG1818 Membrane trafficking a 26.0 33 0.00072 27.1 0.9 48 21-69 165-217 (634)
225 COG2835 Uncharacterized conser 24.8 38 0.00082 18.3 0.7 11 64-74 9-19 (60)
226 COG4068 Uncharacterized protei 24.7 61 0.0013 17.5 1.5 17 63-79 8-24 (64)
227 PF06676 DUF1178: Protein of u 24.2 19 0.00041 23.0 -0.6 25 43-72 10-41 (148)
228 cd00350 rubredoxin_like Rubred 23.7 49 0.0011 15.2 0.9 8 64-71 18-25 (33)
229 KOG2979 Protein involved in DN 23.6 46 0.001 23.3 1.2 46 22-72 177-222 (262)
230 KOG3576 Ovo and related transc 23.2 25 0.00055 24.0 -0.2 26 8-34 104-129 (267)
231 PF14768 RPA_interact_C: Repli 23.1 75 0.0016 17.9 1.8 22 23-44 1-22 (82)
232 PF10013 DUF2256: Uncharacteri 22.9 62 0.0013 16.1 1.2 13 62-74 7-19 (42)
233 cd00029 C1 Protein kinase C co 22.8 57 0.0012 15.8 1.2 33 21-54 11-45 (50)
234 KOG0006 E3 ubiquitin-protein l 22.6 78 0.0017 23.1 2.1 37 19-59 219-257 (446)
235 PF03119 DNA_ligase_ZBD: NAD-d 22.5 28 0.0006 15.6 -0.1 10 65-74 1-10 (28)
236 PF11023 DUF2614: Protein of u 22.4 1.1E+02 0.0024 18.7 2.5 14 64-77 86-99 (114)
237 PF03107 C1_2: C1 domain; Int 21.9 69 0.0015 14.2 1.3 27 23-51 2-29 (30)
238 PF07227 DUF1423: Protein of u 21.7 57 0.0012 24.7 1.4 15 42-56 151-165 (446)
239 PF03884 DUF329: Domain of unk 21.7 26 0.00057 18.6 -0.2 11 64-74 3-13 (57)
240 COG4306 Uncharacterized protei 21.5 87 0.0019 19.6 1.9 24 46-76 29-52 (160)
241 PF06750 DiS_P_DiS: Bacterial 21.3 1.1E+02 0.0024 17.7 2.3 20 52-75 51-70 (92)
242 PF00643 zf-B_box: B-box zinc 21.2 92 0.002 14.6 1.7 30 21-54 3-32 (42)
243 PF06937 EURL: EURL protein; 20.9 1.2E+02 0.0026 21.5 2.8 43 21-67 30-74 (285)
244 COG3364 Zn-ribbon containing p 20.8 55 0.0012 19.7 0.9 25 39-71 4-28 (112)
245 PF01485 IBR: IBR domain; Int 20.4 5.1 0.00011 20.8 -3.3 14 42-55 45-58 (64)
246 PF13894 zf-C2H2_4: C2H2-type 20.2 34 0.00074 13.4 -0.0 10 65-74 2-11 (24)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.59 E-value=4.5e-16 Score=79.87 Aligned_cols=44 Identities=45% Similarity=1.228 Sum_probs=37.7
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP 70 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr 70 (103)
.+|+||++ .+..+..+..++|+|.||..||..|++.+ .+||+||
T Consensus 1 d~C~IC~~-~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~----~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLE-EFEDGEKVVKLPCGHVFHRSCIKEWLKRN----NSCPVCR 44 (44)
T ss_dssp -CETTTTC-BHHTTSCEEEETTSEEEEHHHHHHHHHHS----SB-TTTH
T ss_pred CCCcCCCh-hhcCCCeEEEccCCCeeCHHHHHHHHHhC----CcCCccC
Confidence 37999999 77667777788999999999999999998 7999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.46 E-value=4.6e-14 Score=99.31 Aligned_cols=52 Identities=42% Similarity=0.968 Sum_probs=46.1
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~ 77 (103)
..|+||+| +|..+..++.|||.|.||..||.+|+.... ..||+|+..++...
T Consensus 230 ~~CaIClE-dY~~GdklRiLPC~H~FH~~CIDpWL~~~r---~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 230 DTCAICLE-DYEKGDKLRILPCSHKFHVNCIDPWLTQTR---TFCPVCKRDIRTDS 281 (348)
T ss_pred ceEEEeec-ccccCCeeeEecCCCchhhccchhhHhhcC---ccCCCCCCcCCCCC
Confidence 49999999 999999999999999999999999998772 56999999876443
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.36 E-value=6.9e-13 Score=74.92 Aligned_cols=45 Identities=42% Similarity=1.068 Sum_probs=34.1
Q ss_pred ccccccccccccCC----------CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSD----------ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP 70 (103)
Q Consensus 21 ~~~C~IC~~~~~~~----------~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr 70 (103)
+..|+||++ .+.. ...+...+|+|.||..||.+|+... .+||+||
T Consensus 19 ~d~C~IC~~-~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~----~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICRE-PLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN----NTCPLCR 73 (73)
T ss_dssp CSBETTTTS-BTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS----SB-TTSS
T ss_pred CCcccccCh-hhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC----CcCCCCC
Confidence 445999999 5521 1234445799999999999999988 7999997
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.32 E-value=1.8e-12 Score=87.68 Aligned_cols=51 Identities=37% Similarity=0.879 Sum_probs=39.8
Q ss_pred CCccccccccccccCCCCc-----eEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESA-----MIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~-----~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
..+.+|+||++ .+...+. ....+|+|.||..||..|+... .+||+||..+.
T Consensus 172 ~~~~eC~ICle-~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~----~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICME-KVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK----NTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCc-ccccCccccccceecCCCCCcccHHHHHHHHhcC----CCCCCCCCEee
Confidence 45689999999 5444321 2334699999999999999877 79999998764
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=1.6e-12 Score=89.66 Aligned_cols=53 Identities=36% Similarity=0.923 Sum_probs=45.4
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHH-hcCCCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLE-ERLGKSCACPVCPFQMPLP 76 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~-~~~~~~~~CP~Cr~~~~~~ 76 (103)
+-+.+|+||++ .+.....+..+||.|.||..|+.+|+. .+ ..||+||..++++
T Consensus 321 ~~GveCaICms-~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~----~~CPvCrt~iPPp 374 (374)
T COG5540 321 DKGVECAICMS-NFIKNDRLRVLPCDHRFHVGCVDKWLLGYS----NKCPVCRTAIPPP 374 (374)
T ss_pred CCCceEEEEhh-hhcccceEEEeccCceechhHHHHHHhhhc----ccCCccCCCCCCC
Confidence 34578999999 777777788889999999999999998 44 7899999998753
No 6
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.30 E-value=5.5e-12 Score=82.51 Aligned_cols=57 Identities=25% Similarity=0.640 Sum_probs=41.8
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc------------CCCCCCCCCCCCCCCCCChh
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER------------LGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~------------~~~~~~CP~Cr~~~~~~~~~ 79 (103)
.++..|+||++ .+ ..+. .++|||.||..||..|+... ..+...||+||..+....+.
T Consensus 16 ~~~~~CpICld-~~-~dPV--vT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 16 GGDFDCNICLD-QV-RDPV--VTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred CCccCCccCCC-cC-CCcE--EcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 56789999999 43 3333 34899999999999998642 12346899999988654443
No 7
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=3.9e-12 Score=84.75 Aligned_cols=57 Identities=28% Similarity=0.745 Sum_probs=45.5
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
....++|.||++ ...++++. .|||.||..||.+|+... .....||+|+..+..+.+.
T Consensus 44 ~~~~FdCNICLd--~akdPVvT--lCGHLFCWpClyqWl~~~-~~~~~cPVCK~~Vs~~~vv 100 (230)
T KOG0823|consen 44 DGGFFDCNICLD--LAKDPVVT--LCGHLFCWPCLYQWLQTR-PNSKECPVCKAEVSIDTVV 100 (230)
T ss_pred CCCceeeeeecc--ccCCCEEe--ecccceehHHHHHHHhhc-CCCeeCCccccccccceEE
Confidence 467789999999 45555544 799999999999999887 4567899999888655544
No 8
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.28 E-value=4.2e-12 Score=86.90 Aligned_cols=61 Identities=26% Similarity=0.631 Sum_probs=47.4
Q ss_pred CCCCCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 11 EGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 11 ~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
+............|.+|++ .... ...+||||.||..||..|...+ .-||+||..+.+.++.
T Consensus 229 s~~~~~i~~a~~kC~LCLe--~~~~--pSaTpCGHiFCWsCI~~w~~ek----~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 229 SNSLSSIPEATRKCSLCLE--NRSN--PSATPCGHIFCWSCILEWCSEK----AECPLCREKFQPSKVI 289 (293)
T ss_pred ccCCccCCCCCCceEEEec--CCCC--CCcCcCcchHHHHHHHHHHccc----cCCCcccccCCCccee
Confidence 3444555677789999999 3333 3455999999999999999998 7799999988766543
No 9
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=2.6e-12 Score=90.75 Aligned_cols=54 Identities=31% Similarity=0.857 Sum_probs=44.0
Q ss_pred CCCCCCccccccccccccCCCC----------ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 15 SNHTDEEAECAICLEKEYSDES----------AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 15 ~~~~~~~~~C~IC~~~~~~~~~----------~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
.+...++..|.||++ ++...+ ...++||||.+|..|++.|+++. .+||+||.++
T Consensus 281 eql~n~D~~C~ICmd-e~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq----QTCPICr~p~ 344 (491)
T COG5243 281 EQLTNSDRTCTICMD-EMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ----QTCPICRRPV 344 (491)
T ss_pred hhhcCCCCeEEEecc-cccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc----cCCCcccCcc
Confidence 444678889999999 533222 34678999999999999999999 8999999884
No 10
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.26 E-value=4.3e-12 Score=66.64 Aligned_cols=47 Identities=30% Similarity=0.872 Sum_probs=37.0
Q ss_pred CccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
++..|.||++ . ...+..+||||. ||..|+..|+... ..||+||+++.
T Consensus 1 ~~~~C~iC~~-~---~~~~~~~pCgH~~~C~~C~~~~~~~~----~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFE-N---PRDVVLLPCGHLCFCEECAERLLKRK----KKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSS-S---BSSEEEETTCEEEEEHHHHHHHHHTT----SBBTTTTBB-S
T ss_pred CcCCCccCCc-c---CCceEEeCCCChHHHHHHhHHhcccC----CCCCcCChhhc
Confidence 3578999999 3 333566799999 9999999999976 89999998764
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.24 E-value=3.9e-12 Score=64.54 Aligned_cols=42 Identities=31% Similarity=0.887 Sum_probs=29.9
Q ss_pred cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C 69 (103)
|+||++ +...+ ..++|||+||..||..|+.........||.|
T Consensus 1 CpiC~~--~~~~P--v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLD--LFKDP--VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTS--B-SSE--EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccch--hhCCc--cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 899999 45554 4459999999999999998764444789987
No 12
>PHA02926 zinc finger-like protein; Provisional
Probab=99.17 E-value=3.6e-11 Score=79.94 Aligned_cols=55 Identities=35% Similarity=0.725 Sum_probs=39.6
Q ss_pred CCccccccccccccCCC-----CceEe-cCCCchhhHHHHHHHHHhcC--CCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDE-----SAMIR-MQCSHIFHADCITPWLEERL--GKSCACPVCPFQMP 74 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~-----~~~~~-~~C~H~f~~~Cl~~~~~~~~--~~~~~CP~Cr~~~~ 74 (103)
..+.+|+||++ ....+ ..... .+|+|.||..||..|...++ +...+||+||..+.
T Consensus 168 SkE~eCgICmE-~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYE-VVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCcc-ccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 55789999999 43222 11223 36999999999999998642 34567999998763
No 13
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.14 E-value=6.3e-11 Score=76.25 Aligned_cols=53 Identities=26% Similarity=0.723 Sum_probs=41.5
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~ 77 (103)
...+.|||||+ .+..... ....|||+||..||+..+... ..||+|++.+..+.
T Consensus 129 ~~~~~CPiCl~-~~sek~~-vsTkCGHvFC~~Cik~alk~~----~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 129 EGTYKCPICLD-SVSEKVP-VSTKCGHVFCSQCIKDALKNT----NKCPTCRKKITHKQ 181 (187)
T ss_pred ccccCCCceec-chhhccc-cccccchhHHHHHHHHHHHhC----CCCCCcccccchhh
Confidence 45678999999 5444432 224799999999999999888 89999998776544
No 14
>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=99.14 E-value=3.7e-11 Score=59.96 Aligned_cols=39 Identities=44% Similarity=1.083 Sum_probs=30.8
Q ss_pred cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C 69 (103)
|+||++ .+.. .+..++|||.||..|+.+|++.. ..||+|
T Consensus 1 C~iC~~-~~~~--~~~~~~CGH~fC~~C~~~~~~~~----~~CP~C 39 (39)
T PF13923_consen 1 CPICLD-ELRD--PVVVTPCGHSFCKECIEKYLEKN----PKCPVC 39 (39)
T ss_dssp ETTTTS-B-SS--EEEECTTSEEEEHHHHHHHHHCT----SB-TTT
T ss_pred CCCCCC-cccC--cCEECCCCCchhHHHHHHHHHCc----CCCcCC
Confidence 899999 4433 33556899999999999999886 899987
No 15
>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=99.12 E-value=1.2e-10 Score=58.79 Aligned_cols=45 Identities=38% Similarity=1.064 Sum_probs=34.3
Q ss_pred ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
.|+||++ .+ ...+...+|+|.||..|+..|+... ...||+|+..+
T Consensus 1 ~C~iC~~-~~--~~~~~~~~C~H~~c~~C~~~~~~~~---~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLE-EF--REPVVLLPCGHVFCRSCIDKWLKSG---KNTCPLCRTPI 45 (45)
T ss_pred CCCcCch-hh--hCceEecCCCChhcHHHHHHHHHhC---cCCCCCCCCcC
Confidence 5899999 54 2333444699999999999999872 26899998753
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.09 E-value=1.3e-10 Score=59.40 Aligned_cols=44 Identities=36% Similarity=0.854 Sum_probs=35.1
Q ss_pred ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
.|+||++ .+........++|||.||..|+...... ...||+||+
T Consensus 1 ~C~~C~~-~~~~~~~~~l~~CgH~~C~~C~~~~~~~----~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFE-KYSEERRPRLTSCGHIFCEKCLKKLKGK----SVKCPICRK 44 (44)
T ss_pred CCcCcCc-cccCCCCeEEcccCCHHHHHHHHhhcCC----CCCCcCCCC
Confidence 4899999 6644455677789999999999998732 379999984
No 17
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.02 E-value=4.9e-10 Score=64.42 Aligned_cols=53 Identities=28% Similarity=0.762 Sum_probs=37.3
Q ss_pred CccccccccccccCC----------CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSD----------ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~----------~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.+..|.||.. .|.. .-.+..-.|+|.||..||.+|+.... ...+||+||+.+.
T Consensus 20 ~dd~CgICr~-~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~-~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRM-PFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQS-SKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEec-ccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHcccc-CCCCCCCcCCeee
Confidence 3667888877 4321 11223336999999999999998752 3469999998764
No 18
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.01 E-value=2.8e-10 Score=57.15 Aligned_cols=41 Identities=46% Similarity=1.177 Sum_probs=32.1
Q ss_pred cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C 69 (103)
|+||++ .+... ...++|+|.||..|+..|+... +...||+|
T Consensus 1 C~iC~~-~~~~~--~~~~~C~H~fC~~C~~~~~~~~--~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLE-PFEDP--VILLPCGHSFCRDCLRKWLENS--GSVKCPLC 41 (41)
T ss_dssp ETTTSS-BCSSE--EEETTTSEEEEHHHHHHHHHHT--SSSBTTTT
T ss_pred CCcCCc-cccCC--CEEecCCCcchHHHHHHHHHhc--CCccCCcC
Confidence 799999 43332 2466899999999999999963 44789987
No 19
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.96 E-value=3.3e-10 Score=82.76 Aligned_cols=55 Identities=33% Similarity=0.832 Sum_probs=42.0
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCCCCCCCChh
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~~~~~~~~~ 79 (103)
+..||||++ ......++.|||.||..||.+++... ..+...||+||..+..+++.
T Consensus 186 ~~~CPICL~----~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLE----PPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccC----CCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 788999999 33333444699999999999998766 34667899999887664443
No 20
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.95 E-value=4.1e-10 Score=84.23 Aligned_cols=52 Identities=35% Similarity=0.848 Sum_probs=42.6
Q ss_pred CCCCccccccccccccCCCCc--eEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 17 HTDEEAECAICLEKEYSDESA--MIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 17 ~~~~~~~C~IC~~~~~~~~~~--~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
....+..|+||++ .+..... ..+++|+|.||..|+..|+++. .+||+||..+
T Consensus 287 ~~~~~~~C~IC~e-~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~----qtCP~CR~~~ 340 (543)
T KOG0802|consen 287 LALSDELCIICLE-ELHSGHNITPKRLPCGHIFHDSCLRSWFERQ----QTCPTCRTVL 340 (543)
T ss_pred hhhcCCeeeeech-hhccccccccceeecccchHHHHHHHHHHHh----CcCCcchhhh
Confidence 3355789999999 6665432 5667999999999999999998 8999999844
No 21
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.94 E-value=1.1e-09 Score=59.74 Aligned_cols=50 Identities=18% Similarity=0.311 Sum_probs=39.5
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
..|+||.+ . ...+. .++|||+|+..||..|+... ..||+|+..+...++.
T Consensus 2 ~~Cpi~~~-~-~~~Pv--~~~~G~v~~~~~i~~~~~~~----~~cP~~~~~~~~~~l~ 51 (63)
T smart00504 2 FLCPISLE-V-MKDPV--ILPSGQTYERRAIEKWLLSH----GTDPVTGQPLTHEDLI 51 (63)
T ss_pred cCCcCCCC-c-CCCCE--ECCCCCEEeHHHHHHHHHHC----CCCCCCcCCCChhhce
Confidence 57999999 4 44443 34899999999999999875 7999999887554443
No 22
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.94 E-value=8.9e-10 Score=56.00 Aligned_cols=43 Identities=28% Similarity=0.700 Sum_probs=24.0
Q ss_pred cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACP 67 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP 67 (103)
|+||.+ ..........|+|||+|+..|+.+++..+..+...||
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 4344445566799999999999999986633456776
No 23
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.90 E-value=2.5e-09 Score=52.16 Aligned_cols=39 Identities=41% Similarity=1.079 Sum_probs=30.3
Q ss_pred cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C 69 (103)
|+||++ . ......++|+|.||..|+..|+... ...||+|
T Consensus 1 C~iC~~-~---~~~~~~~~C~H~~c~~C~~~~~~~~---~~~CP~C 39 (39)
T smart00184 1 CPICLE-E---LKDPVVLPCGHTFCRSCIRKWLKSG---NNTCPIC 39 (39)
T ss_pred CCcCcc-C---CCCcEEecCCChHHHHHHHHHHHhC---cCCCCCC
Confidence 789999 3 3334556899999999999999832 2679987
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.88 E-value=2.2e-09 Score=77.37 Aligned_cols=51 Identities=29% Similarity=0.622 Sum_probs=40.7
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~ 76 (103)
.+....|+||++ .+ ..+. .++|+|.||..||..|+... ..||+|+..+...
T Consensus 23 Le~~l~C~IC~d-~~-~~Pv--itpCgH~FCs~CI~~~l~~~----~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKD-FF-DVPV--LTSCSHTFCSLCIRRCLSNQ----PKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCch-hh-hCcc--CCCCCCchhHHHHHHHHhCC----CCCCCCCCccccc
Confidence 366789999999 44 4443 35899999999999999876 6899999887543
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.82 E-value=2.7e-09 Score=72.53 Aligned_cols=53 Identities=23% Similarity=0.614 Sum_probs=40.2
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHH-HHHhcCCCCCCCCCCCCCCCCCCh
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITP-WLEERLGKSCACPVCPFQMPLPSF 78 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~-~~~~~~~~~~~CP~Cr~~~~~~~~ 78 (103)
..+..|+||++ .......++|||.||..||.. |-.++ ...||+||+...++.+
T Consensus 213 ~~d~kC~lC~e----~~~~ps~t~CgHlFC~~Cl~~~~t~~k---~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLE----EPEVPSCTPCGHLFCLSCLLISWTKKK---YEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeec----ccCCcccccccchhhHHHHHHHHHhhc---cccCchhhhhccchhh
Confidence 56788999999 333345568999999999999 66555 2459999998765544
No 26
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.82 E-value=1.2e-09 Score=76.73 Aligned_cols=53 Identities=30% Similarity=0.715 Sum_probs=43.9
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
+.-..|-||++ |+..+.++ ||+|.||..||+.++..+ ..||.|+..+....+.
T Consensus 21 D~lLRC~IC~e--yf~ip~it--pCsHtfCSlCIR~~L~~~----p~CP~C~~~~~Es~Lr 73 (442)
T KOG0287|consen 21 DDLLRCGICFE--YFNIPMIT--PCSHTFCSLCIRKFLSYK----PQCPTCCVTVTESDLR 73 (442)
T ss_pred HHHHHHhHHHH--HhcCceec--cccchHHHHHHHHHhccC----CCCCceecccchhhhh
Confidence 56678999999 56655555 899999999999999998 8999999888655543
No 27
>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=98.71 E-value=1.5e-08 Score=70.75 Aligned_cols=55 Identities=20% Similarity=0.551 Sum_probs=39.9
Q ss_pred CccccccccccccCCCCceEec-CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSDESAMIRM-QCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~ 77 (103)
++..||||....+..+.....+ +|||.||..|+...+... ...||.|+..+....
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~---~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRG---SGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCC---CCCCCCCCCccchhh
Confidence 3568999999445555432222 699999999999977543 268999998876544
No 28
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=6.2e-09 Score=71.10 Aligned_cols=68 Identities=26% Similarity=0.630 Sum_probs=47.6
Q ss_pred CCccccccccccccCCCC-------ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChhhhhhhhccCCcc
Q 034125 19 DEEAECAICLEKEYSDES-------AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELSSKVKSNNWI 91 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~-------~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~~ 91 (103)
-++..|+||-. .+.... .+..+.|+|+||..||+.|..-. +..+||.|+..+. .+.+.+|.|.
T Consensus 222 l~d~vCaVCg~-~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivG--KkqtCPYCKekVd-------l~rmfsnpWe 291 (328)
T KOG1734|consen 222 LSDSVCAVCGQ-QIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVG--KKQTCPYCKEKVD-------LKRMFSNPWE 291 (328)
T ss_pred CCcchhHhhcc-hheeecchhhhhhhheeeecccchHHHhhhhheeec--CCCCCchHHHHhh-------HhhhccCccc
Confidence 56778999987 443332 45677899999999999998644 3479999977553 3334456666
Q ss_pred ccchh
Q 034125 92 KEDAY 96 (103)
Q Consensus 92 ~~~~~ 96 (103)
+....
T Consensus 292 kph~~ 296 (328)
T KOG1734|consen 292 KPHVW 296 (328)
T ss_pred cchhH
Confidence 55543
No 29
>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=98.60 E-value=1.1e-07 Score=49.56 Aligned_cols=44 Identities=30% Similarity=0.805 Sum_probs=32.5
Q ss_pred ccccccccccCCCCceEecCCC-----chhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125 23 ECAICLEKEYSDESAMIRMQCS-----HIFHADCITPWLEERLGKSCACPVCP 70 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Cl~~~~~~~~~~~~~CP~Cr 70 (103)
.|-||++ .. .+......||. +.+|..|+.+|+..+ +..+||+|+
T Consensus 1 ~CrIC~~-~~-~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~--~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EG-DEGDPLVSPCRCKGSLKYVHQECLERWINES--GNKTCEICK 49 (49)
T ss_pred CccCCCC-CC-CCCCeeEeccccCCchhHHHHHHHHHHHHHc--CCCcCCCCC
Confidence 4889998 33 33334456874 889999999999877 336899994
No 30
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.60 E-value=2.1e-08 Score=72.56 Aligned_cols=54 Identities=30% Similarity=0.852 Sum_probs=39.5
Q ss_pred CCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 15 SNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.....+..+||||++..-.....+....|.|.||..|+..|... +||+||.-..
T Consensus 169 ~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~------scpvcR~~q~ 222 (493)
T KOG0804|consen 169 PTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS------SCPVCRYCQS 222 (493)
T ss_pred CCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC------cChhhhhhcC
Confidence 33447888999999922222224455579999999999999774 5999997554
No 31
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=1.3e-07 Score=66.76 Aligned_cols=50 Identities=22% Similarity=0.687 Sum_probs=40.7
Q ss_pred CCCCccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 17 HTDEEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
..+...+|.||+. ..+.+..|||.|. .|..|.+...-+. ..||+||..+.
T Consensus 286 ~~~~gkeCVICls----e~rdt~vLPCRHLCLCs~Ca~~Lr~q~----n~CPICRqpi~ 336 (349)
T KOG4265|consen 286 ESESGKECVICLS----ESRDTVVLPCRHLCLCSGCAKSLRYQT----NNCPICRQPIE 336 (349)
T ss_pred cccCCCeeEEEec----CCcceEEecchhhehhHhHHHHHHHhh----cCCCccccchH
Confidence 3466889999999 5556788899997 8999998876555 78999999874
No 32
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.53 E-value=6.1e-08 Score=71.03 Aligned_cols=54 Identities=28% Similarity=0.757 Sum_probs=38.1
Q ss_pred CCccccccccccccCC--C-----------CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSD--E-----------SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL 75 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~--~-----------~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~ 75 (103)
.....|+||+.+.... + ......||.|.||..|+.+|+..-+ ..||+||.+++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~yk---l~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYK---LICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhc---ccCCccCCCCCC
Confidence 3456899999822110 0 0012348999999999999999441 699999998864
No 33
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.51 E-value=4.4e-08 Score=67.75 Aligned_cols=47 Identities=30% Similarity=0.530 Sum_probs=38.2
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
+....|-||.+ +...+.. .+|||.||..||...+... ..||+||...
T Consensus 23 Ds~lrC~IC~~--~i~ip~~--TtCgHtFCslCIR~hL~~q----p~CP~Cr~~~ 69 (391)
T COG5432 23 DSMLRCRICDC--RISIPCE--TTCGHTFCSLCIRRHLGTQ----PFCPVCREDP 69 (391)
T ss_pred hhHHHhhhhhh--eeeccee--cccccchhHHHHHHHhcCC----CCCccccccH
Confidence 55678999999 4444433 3899999999999999988 8999999765
No 34
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.49 E-value=6e-08 Score=75.68 Aligned_cols=53 Identities=25% Similarity=0.696 Sum_probs=39.5
Q ss_pred CCccccccccccccC-CC---CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYS-DE---SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~-~~---~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
....+|+||+. .+. .+ +.-++..|.|.||..|+.+|++++ +..+||+||..++
T Consensus 1467 sG~eECaICYs-vL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss--~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYS-VLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS--ARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHH-HHHHHhccCCccccchhhhhhhHHHHHHHHHhc--CCCCCCccccccc
Confidence 45678999997 433 11 122344599999999999999987 5689999997664
No 35
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=1.2e-07 Score=65.77 Aligned_cols=56 Identities=27% Similarity=0.497 Sum_probs=40.6
Q ss_pred CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChhhhh
Q 034125 20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELS 82 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 82 (103)
-..+|+||+. .......++|+|.||..||+...... ..+|++||+++........+
T Consensus 6 ~~~eC~IC~n----t~n~Pv~l~C~HkFCyiCiKGsy~nd---k~~CavCR~pids~i~~~ps 61 (324)
T KOG0824|consen 6 KKKECLICYN----TGNCPVNLYCFHKFCYICIKGSYKND---KKTCAVCRFPIDSTIDFEPS 61 (324)
T ss_pred cCCcceeeec----cCCcCccccccchhhhhhhcchhhcC---CCCCceecCCCCcchhcchh
Confidence 3568999999 33333567899999999998855444 26799999998755444333
No 36
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.46 E-value=2.9e-07 Score=52.09 Aligned_cols=29 Identities=34% Similarity=0.861 Sum_probs=26.7
Q ss_pred CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 42 QCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 42 ~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.|.|.||..||.+|+..+ ..||++|+.+.
T Consensus 53 ~CnHaFH~HCI~rWL~Tk----~~CPld~q~w~ 81 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTK----GVCPLDRQTWV 81 (88)
T ss_pred ecchHHHHHHHHHHHhhC----CCCCCCCceeE
Confidence 499999999999999998 89999998764
No 37
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.45 E-value=2.6e-08 Score=55.75 Aligned_cols=53 Identities=26% Similarity=0.599 Sum_probs=23.7
Q ss_pred ccccccccccccC-CCC--ceEec--CCCchhhHHHHHHHHHhcCC-------CCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYS-DES--AMIRM--QCSHIFHADCITPWLEERLG-------KSCACPVCPFQMP 74 (103)
Q Consensus 21 ~~~C~IC~~~~~~-~~~--~~~~~--~C~H~f~~~Cl~~~~~~~~~-------~~~~CP~Cr~~~~ 74 (103)
+..|.||+. ... .+. .+..- .|+..||..||..|+..... -...||.|+.++.
T Consensus 2 ~~~C~IC~~-~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYS-YRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS---SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCc-EecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 468999999 443 222 22222 58999999999999976411 1135999988764
No 38
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=7.8e-08 Score=65.50 Aligned_cols=47 Identities=36% Similarity=0.781 Sum_probs=37.8
Q ss_pred CCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
...+...|+||++ .+... ..++|+|.||..|+..++.. ...||.||.
T Consensus 9 ~~~~~~~C~iC~~-~~~~p---~~l~C~H~~c~~C~~~~~~~----~~~Cp~cr~ 55 (386)
T KOG2177|consen 9 VLQEELTCPICLE-YFREP---VLLPCGHNFCRACLTRSWEG----PLSCPVCRP 55 (386)
T ss_pred hccccccChhhHH-HhhcC---ccccccchHhHHHHHHhcCC----CcCCcccCC
Confidence 3467889999999 55554 55689999999999998882 389999993
No 39
>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=98.34 E-value=2e-07 Score=52.46 Aligned_cols=53 Identities=19% Similarity=0.384 Sum_probs=37.6
Q ss_pred CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
+.+.|+|+.+ +...+++. ++||.|...+|..|+... ...||+++..+....+.
T Consensus 3 ~~f~CpIt~~--lM~dPVi~--~~G~tyer~~I~~~l~~~---~~~~P~t~~~l~~~~l~ 55 (73)
T PF04564_consen 3 DEFLCPITGE--LMRDPVIL--PSGHTYERSAIERWLEQN---GGTDPFTRQPLSESDLI 55 (73)
T ss_dssp GGGB-TTTSS--B-SSEEEE--TTSEEEEHHHHHHHHCTT---SSB-TTT-SB-SGGGSE
T ss_pred cccCCcCcCc--HhhCceeC--CcCCEEcHHHHHHHHHcC---CCCCCCCCCcCCcccce
Confidence 5688999999 55555444 899999999999999982 28999998887654443
No 40
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.28 E-value=4.9e-07 Score=64.67 Aligned_cols=51 Identities=33% Similarity=0.945 Sum_probs=37.0
Q ss_pred ccccccccccccCCCCceEec-CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRM-QCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
...|.||.+ .+.....+..+ .|||+||..|+.+|+...+ ....||+|+-.+
T Consensus 4 ~A~C~Ic~d-~~p~~~~l~~i~~cGhifh~~cl~qwfe~~P-s~R~cpic~ik~ 55 (465)
T KOG0827|consen 4 MAECHICID-GRPNDHELGPIGTCGHIFHTTCLTQWFEGDP-SNRGCPICQIKL 55 (465)
T ss_pred cceeeEecc-CCccccccccccchhhHHHHHHHHHHHccCC-ccCCCCceeecc
Confidence 357999977 44444444433 4999999999999999873 225899998333
No 41
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=2.5e-07 Score=48.76 Aligned_cols=46 Identities=26% Similarity=0.634 Sum_probs=33.3
Q ss_pred ccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
..+|.||++ ...+.++. .|||. .|..|..+.+... +..||+||+++
T Consensus 7 ~dECTICye--~pvdsVlY--tCGHMCmCy~Cg~rl~~~~---~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYE--HPVDSVLY--TCGHMCMCYACGLRLKKAL---HGCCPICRAPI 53 (62)
T ss_pred ccceeeecc--CcchHHHH--HcchHHhHHHHHHHHHHcc---CCcCcchhhHH
Confidence 479999999 33333332 69997 8899988766532 27899999876
No 42
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=3.1e-07 Score=51.56 Aligned_cols=32 Identities=38% Similarity=0.882 Sum_probs=26.8
Q ss_pred CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 42 QCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 42 ~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.|.|.||..||.+|+.... +...||+||+.+.
T Consensus 50 ~C~h~fh~hCI~~wl~~~t-sq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 50 YCLHAFHAHCILKWLNTPT-SQGQCPMCRQTWQ 81 (84)
T ss_pred HHHHHHHHHHHHHHhcCcc-ccccCCcchheeE
Confidence 4999999999999998763 3378999998764
No 43
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=6.1e-07 Score=68.48 Aligned_cols=54 Identities=22% Similarity=0.575 Sum_probs=41.2
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
.+-..|++|.. . ........|+|.||..|+...+..++ ..||.|...|...++.
T Consensus 641 K~~LkCs~Cn~-R---~Kd~vI~kC~H~FC~~Cvq~r~etRq---RKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 641 KELLKCSVCNT-R---WKDAVITKCGHVFCEECVQTRYETRQ---RKCPKCNAAFGANDVH 694 (698)
T ss_pred HhceeCCCccC-c---hhhHHHHhcchHHHHHHHHHHHHHhc---CCCCCCCCCCCccccc
Confidence 45678999998 3 22233346999999999999987764 7899999998766553
No 44
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=1.4e-06 Score=62.05 Aligned_cols=54 Identities=30% Similarity=0.752 Sum_probs=38.6
Q ss_pred CCccccccccccccCCCC----ceEec-CCCchhhHHHHHHHHHhcC---CCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDES----AMIRM-QCSHIFHADCITPWLEERL---GKSCACPVCPFQM 73 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~----~~~~~-~C~H~f~~~Cl~~~~~~~~---~~~~~CP~Cr~~~ 73 (103)
..+.+|.||++ ...... ....+ +|.|.||..|+..|....+ .-+..||+||...
T Consensus 159 s~~k~CGICme-~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICME-TINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhh-hccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 56789999999 433322 12233 4999999999999985542 1257899999764
No 45
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.13 E-value=4.2e-07 Score=49.57 Aligned_cols=51 Identities=29% Similarity=0.677 Sum_probs=23.6
Q ss_pred CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
.-..|++|.+ +...+ +....|.|.||..|+...+. ..||+|+.+.-..++.
T Consensus 6 ~lLrCs~C~~--~l~~p-v~l~~CeH~fCs~Ci~~~~~------~~CPvC~~Paw~qD~~ 56 (65)
T PF14835_consen 6 ELLRCSICFD--ILKEP-VCLGGCEHIFCSSCIRDCIG------SECPVCHTPAWIQDIQ 56 (65)
T ss_dssp HTTS-SSS-S----SS--B---SSS--B-TTTGGGGTT------TB-SSS--B-S-SS--
T ss_pred HhcCCcHHHH--HhcCC-ceeccCccHHHHHHhHHhcC------CCCCCcCChHHHHHHH
Confidence 3467999999 44443 23336999999999976433 3499998876555544
No 46
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=3e-06 Score=50.23 Aligned_cols=28 Identities=39% Similarity=0.949 Sum_probs=25.5
Q ss_pred CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 42 QCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 42 ~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
.|+|.||..||.+|++.+ ..||++.+..
T Consensus 80 ~CNHaFH~hCisrWlktr----~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTR----NVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhc----CcCCCcCcce
Confidence 499999999999999999 8999997654
No 47
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.03 E-value=1.9e-06 Score=62.05 Aligned_cols=46 Identities=24% Similarity=0.805 Sum_probs=36.7
Q ss_pred ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
-|.||-+ .+..+.+-||||..|..|+..|-.+. .+.+||+||..+.
T Consensus 371 LCKICae----ndKdvkIEPCGHLlCt~CLa~WQ~sd--~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 371 LCKICAE----NDKDVKIEPCGHLLCTSCLAAWQDSD--EGQTCPFCRCEIK 416 (563)
T ss_pred HHHHhhc----cCCCcccccccchHHHHHHHhhcccC--CCCCCCceeeEec
Confidence 4899999 44445555999999999999997654 4589999998774
No 48
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=3.7e-06 Score=60.60 Aligned_cols=52 Identities=33% Similarity=0.948 Sum_probs=38.5
Q ss_pred CCccccccccccccCCC-C-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDE-S-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~-~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
+...+||||++ .+... . .+..+.|||.|...||++|+.+. ....||.|...-
T Consensus 2 d~g~tcpicld-s~~~~g~hr~vsl~cghlFgs~cie~wl~k~--~~~~cp~c~~ka 55 (463)
T KOG1645|consen 2 DCGTTCPICLD-SYTTAGNHRIVSLQCGHLFGSQCIEKWLGKK--TKMQCPLCSGKA 55 (463)
T ss_pred CccccCceeee-eeeecCceEEeeecccccccHHHHHHHHhhh--hhhhCcccCChh
Confidence 34678999999 55433 2 34445799999999999999533 457899997654
No 49
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=9.1e-07 Score=62.59 Aligned_cols=49 Identities=33% Similarity=0.656 Sum_probs=36.5
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
..+..|+||++ .+... +...-|.|.||..||..-+... +..||.||+.+
T Consensus 41 ~~~v~c~icl~-llk~t--mttkeClhrfc~~ci~~a~r~g---n~ecptcRk~l 89 (381)
T KOG0311|consen 41 DIQVICPICLS-LLKKT--MTTKECLHRFCFDCIWKALRSG---NNECPTCRKKL 89 (381)
T ss_pred hhhhccHHHHH-HHHhh--cccHHHHHHHHHHHHHHHHHhc---CCCCchHHhhc
Confidence 45778999999 43332 2223599999999998877655 37999999876
No 50
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=1.1e-05 Score=55.48 Aligned_cols=55 Identities=25% Similarity=0.511 Sum_probs=39.7
Q ss_pred CCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 15 SNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
++....+.+|++|-+ . ...+. ...+|+|.||..|+..-.... .+.+||.|..+..
T Consensus 233 ss~~t~~~~C~~Cg~-~-PtiP~-~~~~C~HiyCY~Ci~ts~~~~--asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 233 SSTGTSDTECPVCGE-P-PTIPH-VIGKCGHIYCYYCIATSRLWD--ASFTCPLCGENVE 287 (298)
T ss_pred cccccCCceeeccCC-C-CCCCe-eeccccceeehhhhhhhhcch--hhcccCccCCCCc
Confidence 344577889999999 3 33332 233699999999998866543 3489999987664
No 51
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.84 E-value=5.6e-06 Score=57.68 Aligned_cols=53 Identities=28% Similarity=0.706 Sum_probs=41.5
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc-------------------CCCCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-------------------LGKSCACPVCPFQMP 74 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~-------------------~~~~~~CP~Cr~~~~ 74 (103)
...|.||+- -|..++.++..+|.|.||..|+.+++..- ......||+||..+.
T Consensus 115 ~gqCvICLy-gfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 115 NGQCVICLY-GFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCceEEEEE-eecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 457999999 88888878888999999999999987421 112346999998774
No 52
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.79 E-value=4.5e-06 Score=64.40 Aligned_cols=50 Identities=24% Similarity=0.536 Sum_probs=37.6
Q ss_pred CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
....|++|+. .+.........+|+|.||..||..|-+.. .+||+||..+.
T Consensus 122 ~~~~CP~Ci~-s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a----qTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLK-SCNDQLEESEKHTAHYFCEECVGSWSRCA----QTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHH-HHHHHhhccccccccccHHHHhhhhhhhc----ccCchhhhhhh
Confidence 3445677776 44444444445799999999999999988 89999998764
No 53
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.69 E-value=2.2e-05 Score=58.54 Aligned_cols=78 Identities=24% Similarity=0.543 Sum_probs=48.9
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCCCCCCCC----hhhhhhhhccCCcccc
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVCPFQMPLPS----FEELSSKVKSNNWIKE 93 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~~~~~~~----~~~~~~~~~~~~~~~~ 93 (103)
.+..+|.+|.+ ..... ....|.|.||..|+..++..- .+.+.+||.|-..+..+. +.......-.+..+-+
T Consensus 534 k~~~~C~lc~d--~aed~--i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~sSIln 609 (791)
T KOG1002|consen 534 KGEVECGLCHD--PAEDY--IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKASSILN 609 (791)
T ss_pred cCceeecccCC--hhhhh--HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcchhhhhhHHHhh
Confidence 55678999999 23332 333799999999999988654 234589999987665332 2223333333444444
Q ss_pred chhhhhh
Q 034125 94 DAYWETW 100 (103)
Q Consensus 94 ~~~~~~w 100 (103)
.-+++.|
T Consensus 610 Rinm~~~ 616 (791)
T KOG1002|consen 610 RINMDDW 616 (791)
T ss_pred hcchhhh
Confidence 4445454
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.68 E-value=2.2e-05 Score=56.97 Aligned_cols=50 Identities=24% Similarity=0.598 Sum_probs=40.1
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~ 76 (103)
..++.|.||+. ....+.+. +|||.||..||.+-+... ..||.||..+...
T Consensus 82 ~sef~c~vc~~--~l~~pv~t--pcghs~c~~Cl~r~ld~~----~~cp~Cr~~l~e~ 131 (398)
T KOG4159|consen 82 RSEFECCVCSR--ALYPPVVT--PCGHSFCLECLDRSLDQE----TECPLCRDELVEL 131 (398)
T ss_pred cchhhhhhhHh--hcCCCccc--cccccccHHHHHHHhccC----CCCcccccccccc
Confidence 56789999998 45554444 999999999999977765 8999999988753
No 55
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.66 E-value=4e-05 Score=59.63 Aligned_cols=54 Identities=28% Similarity=0.679 Sum_probs=41.2
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc---CCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER---LGKSCACPVCPF 71 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~---~~~~~~CP~Cr~ 71 (103)
.....+|.||.+..-...+....-.|.|+||..||..|..+. ......||.|..
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 355678999999443445556666799999999999999765 235689999973
No 56
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.65 E-value=2.7e-05 Score=63.79 Aligned_cols=62 Identities=31% Similarity=0.658 Sum_probs=45.5
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc------CCCCCCCCCCCCCCCCCChhh
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER------LGKSCACPVCPFQMPLPSFEE 80 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~------~~~~~~CP~Cr~~~~~~~~~~ 80 (103)
.+.+..|.||+. +-......+.|.|+|.||..|....++.+ -.+-.+||+|+.++..-.+++
T Consensus 3483 QD~DDmCmICFT-E~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~LkD 3550 (3738)
T KOG1428|consen 3483 QDADDMCMICFT-EALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIVLKD 3550 (3738)
T ss_pred cccCceEEEEeh-hhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHHHHH
Confidence 366789999999 44444445667899999999999988876 123457999998876444443
No 57
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=0.00011 Score=49.46 Aligned_cols=76 Identities=24% Similarity=0.571 Sum_probs=51.0
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc----CCCCCCCCCCCCCCCCC------Chhhhhhhhcc
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER----LGKSCACPVCPFQMPLP------SFEELSSKVKS 87 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~----~~~~~~CP~Cr~~~~~~------~~~~~~~~~~~ 87 (103)
.+....|..|-. .+..+. .+++.|.|.||..|+..|...- ...+..||-|..++..+ ....+.+....
T Consensus 47 sDY~pNC~LC~t-~La~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~NlvsPva~aLre~L~q 124 (299)
T KOG3970|consen 47 SDYNPNCRLCNT-PLASGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINLVSPVAEALREQLKQ 124 (299)
T ss_pred cCCCCCCceeCC-ccccCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccccchhHHHHHHHHHh
Confidence 356677999988 555555 4456799999999999998654 23457899998876422 23344444555
Q ss_pred CCccccch
Q 034125 88 NNWIKEDA 95 (103)
Q Consensus 88 ~~~~~~~~ 95 (103)
.+|.+...
T Consensus 125 vNWaRagL 132 (299)
T KOG3970|consen 125 VNWARAGL 132 (299)
T ss_pred hhHHhhcc
Confidence 66665543
No 58
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.52 E-value=5.3e-05 Score=54.67 Aligned_cols=48 Identities=33% Similarity=0.753 Sum_probs=37.6
Q ss_pred ccccccccccccC-CCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYS-DESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 21 ~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
+..|..|-+ .+- .++.+..+||.|+||..|+..++.++ ...+||.||+
T Consensus 365 ~L~Cg~CGe-~~Glk~e~LqALpCsHIfH~rCl~e~L~~n--~~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGE-SIGLKNERLQALPCSHIFHLRCLQEILENN--GTRSCPNCRK 413 (518)
T ss_pred hhhhhhhhh-hhcCCcccccccchhHHHHHHHHHHHHHhC--CCCCCccHHH
Confidence 567888988 443 33456678999999999999999766 4578999984
No 59
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.38 E-value=8.2e-05 Score=54.08 Aligned_cols=50 Identities=32% Similarity=0.699 Sum_probs=39.6
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.+++..|++|.. .+..+... ..|||.||..|+..|+... ..||.|+..+.
T Consensus 18 ~~~~l~C~~C~~-vl~~p~~~--~~cgh~fC~~C~~~~~~~~----~~cp~~~~~~~ 67 (391)
T KOG0297|consen 18 LDENLLCPICMS-VLRDPVQT--TTCGHRFCAGCLLESLSNH----QKCPVCRQELT 67 (391)
T ss_pred CcccccCccccc-cccCCCCC--CCCCCcccccccchhhccC----cCCcccccccc
Confidence 467889999999 44333222 4799999999999999986 89999987664
No 60
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.00016 Score=51.73 Aligned_cols=49 Identities=27% Similarity=0.458 Sum_probs=39.1
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
+.++..||||+. -....+.. ||+|.-|..||.+.+-.. +.|=+|++.+.
T Consensus 419 ~sEd~lCpICyA--~pi~Avf~--PC~H~SC~~CI~qHlmN~----k~CFfCktTv~ 467 (489)
T KOG4692|consen 419 DSEDNLCPICYA--GPINAVFA--PCSHRSCYGCITQHLMNC----KRCFFCKTTVI 467 (489)
T ss_pred CcccccCcceec--ccchhhcc--CCCCchHHHHHHHHHhcC----CeeeEecceee
Confidence 478889999998 22333333 899999999999988877 78999988765
No 61
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.00021 Score=51.80 Aligned_cols=51 Identities=24% Similarity=0.553 Sum_probs=37.5
Q ss_pred CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc----CCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER----LGKSCACPVCPF 71 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~----~~~~~~CP~Cr~ 71 (103)
....|.||++ .......+..+||+|+||..|+..+.... ..+...||-+..
T Consensus 183 slf~C~ICf~-e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFE-EQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeeh-hhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 4568999999 44444567778999999999999998544 223457877654
No 62
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.28 E-value=8.1e-05 Score=52.41 Aligned_cols=48 Identities=29% Similarity=0.716 Sum_probs=37.3
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
....+|.+|-. |..+.. .+.-|-|.||..||..++... ..||.|...+
T Consensus 13 n~~itC~LC~G--YliDAT-TI~eCLHTFCkSCivk~l~~~----~~CP~C~i~i 60 (331)
T KOG2660|consen 13 NPHITCRLCGG--YLIDAT-TITECLHTFCKSCIVKYLEES----KYCPTCDIVI 60 (331)
T ss_pred ccceehhhccc--eeecch-hHHHHHHHHHHHHHHHHHHHh----ccCCccceec
Confidence 45568999999 444432 223599999999999999997 8999998655
No 63
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.26 E-value=0.00054 Score=43.81 Aligned_cols=51 Identities=25% Similarity=0.661 Sum_probs=36.7
Q ss_pred CCCCccccccccccccCCCCceEecCCC--c---hhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 17 HTDEEAECAICLEKEYSDESAMIRMQCS--H---IFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~--H---~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
....+..|-||++ ... ... .||. . ..|..|+..|+..+ +...|++|+.++.
T Consensus 4 ~s~~~~~CRIC~~-~~~--~~~--~PC~CkGs~k~VH~sCL~rWi~~s--~~~~CeiC~~~Y~ 59 (162)
T PHA02825 4 VSLMDKCCWICKD-EYD--VVT--NYCNCKNENKIVHKECLEEWINTS--KNKSCKICNGPYN 59 (162)
T ss_pred cCCCCCeeEecCC-CCC--Ccc--CCcccCCCchHHHHHHHHHHHhcC--CCCcccccCCeEE
Confidence 3456779999999 422 222 3653 3 57999999999876 5578999987653
No 64
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.18 E-value=0.00021 Score=38.34 Aligned_cols=46 Identities=24% Similarity=0.629 Sum_probs=28.0
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPV 68 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~ 68 (103)
......|||.+. .+ ..+ +....|+|.|-...|..|+... +...||+
T Consensus 8 ~~~~~~CPiT~~-~~-~~P-V~s~~C~H~fek~aI~~~i~~~--~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQ-PF-EDP-VKSKKCGHTFEKEAILQYIQRN--GSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSS-B--SSE-EEESSS--EEEHHHHHHHCTTT--S-EE-SC
T ss_pred cEeccCCCCcCC-hh-hCC-cCcCCCCCeecHHHHHHHHHhc--CCCCCCC
Confidence 345678999999 43 333 4444799999999999999433 4578998
No 65
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.10 E-value=0.00025 Score=36.50 Aligned_cols=42 Identities=29% Similarity=0.834 Sum_probs=26.3
Q ss_pred cccccccccCCCCceEecCC--Cc---hhhHHHHHHHHHhcCCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQC--SH---IFHADCITPWLEERLGKSCACPVC 69 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C--~H---~f~~~Cl~~~~~~~~~~~~~CP~C 69 (103)
|-||++ ...... ....|| .- ..|..||.+|+..+ +..+|++|
T Consensus 1 CrIC~~-~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~--~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLE-GEEEDE-PLISPCRCKGSMKYVHRSCLERWIRES--GNRKCEIC 47 (47)
T ss_dssp ETTTTE-E-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHH--T-SB-TTT
T ss_pred CeEeCC-cCCCCC-ceecccccCCCcchhHHHHHHHHHHhc--CCCcCCCC
Confidence 679998 433333 233465 33 68999999999876 34678887
No 66
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=97.01 E-value=0.00027 Score=49.02 Aligned_cols=47 Identities=28% Similarity=0.656 Sum_probs=36.2
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
...||||.+..+...+.+..++|||..|..|+....... .+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~----y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG----YTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC----CCCCcccc
Confidence 344999999333344456667899999999998877666 99999987
No 67
>PHA02862 5L protein; Provisional
Probab=96.99 E-value=0.00094 Score=42.11 Aligned_cols=47 Identities=21% Similarity=0.587 Sum_probs=34.1
Q ss_pred ccccccccccccCCCCceEecCCC-----chhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCS-----HIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
...|=||++ .. ++... ||. ...|..|+.+|+..+ +...|++|+.+..
T Consensus 2 ~diCWIC~~-~~--~e~~~--PC~C~GS~K~VHq~CL~~WIn~S--~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICND-VC--DERNN--FCGCNEEYKVVHIKCMQLWINYS--KKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecC-cC--CCCcc--cccccCcchhHHHHHHHHHHhcC--CCcCccCCCCeEE
Confidence 357999999 32 22233 653 468999999999765 5589999998764
No 68
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.88 E-value=0.0003 Score=47.64 Aligned_cols=46 Identities=20% Similarity=0.717 Sum_probs=33.2
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL 75 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~ 75 (103)
..|..|.- +..+.....+.|.|+||..|...- ....||+|+..+..
T Consensus 4 VhCn~C~~--~~~~~~f~LTaC~HvfC~~C~k~~------~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 4 VHCNKCFR--FPSQDPFFLTACRHVFCEPCLKAS------SPDVCPLCKKSIRI 49 (233)
T ss_pred EEeccccc--cCCCCceeeeechhhhhhhhcccC------Cccccccccceeee
Confidence 35888888 445556666689999999998531 11389999988653
No 69
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.85 E-value=0.0005 Score=45.62 Aligned_cols=48 Identities=23% Similarity=0.498 Sum_probs=36.9
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.-.+.|-||-. .|..+ ++. .|||.||..|...-++.. ..|-+|.+...
T Consensus 194 ~IPF~C~iCKk-dy~sp-vvt--~CGH~FC~~Cai~~y~kg----~~C~~Cgk~t~ 241 (259)
T COG5152 194 KIPFLCGICKK-DYESP-VVT--ECGHSFCSLCAIRKYQKG----DECGVCGKATY 241 (259)
T ss_pred CCceeehhchh-hccch-hhh--hcchhHHHHHHHHHhccC----Ccceecchhhc
Confidence 34568999999 65554 223 699999999998877776 89999977654
No 70
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.84 E-value=0.00098 Score=34.43 Aligned_cols=46 Identities=24% Similarity=0.543 Sum_probs=21.4
Q ss_pred ccccccccc-CCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 24 CAICLEKEY-SDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 24 C~IC~~~~~-~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
||+|.+ .+ ..+..+.--+|+..+|..|....+.. ....||-||.+.
T Consensus 1 cp~C~e-~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~---~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDE-ELDETDKDFYPCECGFQICRFCYHDILEN---EGGRCPGCREPY 47 (48)
T ss_dssp -TTTS--B--CCCTT--SSTTS----HHHHHHHTTS---S-SB-TTT--B-
T ss_pred CCCccc-ccccCCCccccCcCCCcHHHHHHHHHHhc---cCCCCCCCCCCC
Confidence 788988 44 23333332248999999998887753 237899999753
No 71
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.80 E-value=0.00045 Score=40.97 Aligned_cols=33 Identities=27% Similarity=0.799 Sum_probs=25.9
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHH
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCIT 53 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~ 53 (103)
++...|++|.. .+.. ......||||.||..|+.
T Consensus 76 ~~~~~C~vC~k-~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGK-PLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCC-cCCC-ceEEEeCCCeEEeccccc
Confidence 55678999999 4443 556677999999999974
No 72
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.79 E-value=0.00057 Score=36.19 Aligned_cols=44 Identities=18% Similarity=0.464 Sum_probs=29.4
Q ss_pred ccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~ 76 (103)
.|..|.. .+.+-..++|+|..+..|+.-+-- ..||+|.+++...
T Consensus 9 ~~~~~~~----~~~~~~~~pCgH~I~~~~f~~~rY------ngCPfC~~~~~~~ 52 (55)
T PF14447_consen 9 PCVFCGF----VGTKGTVLPCGHLICDNCFPGERY------NGCPFCGTPFEFD 52 (55)
T ss_pred eEEEccc----cccccccccccceeeccccChhhc------cCCCCCCCcccCC
Confidence 4555555 333345569999999999864322 5699998887544
No 73
>PHA03096 p28-like protein; Provisional
Probab=96.75 E-value=0.0011 Score=46.31 Aligned_cols=48 Identities=27% Similarity=0.431 Sum_probs=33.1
Q ss_pred cccccccccccCCC----CceEecC-CCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDE----SAMIRMQ-CSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 22 ~~C~IC~~~~~~~~----~~~~~~~-C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
..|.||++ ..... .....|+ |.|.||..|+..|...+. ...+||.||.
T Consensus 179 k~c~ic~e-~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~-~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLE-NIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL-YKETEPENRR 231 (284)
T ss_pred hhcccchh-hhhhhccccccccccccCCcHHHHHHHHHHHHhhh-hcccCccccc
Confidence 67999999 43322 2233444 999999999999997662 3356666654
No 74
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.74 E-value=0.0017 Score=44.83 Aligned_cols=56 Identities=14% Similarity=0.361 Sum_probs=41.3
Q ss_pred CCCccccccccccccCCC-CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 18 TDEEAECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
....+.|||... .+... ..+...+|||+|...++.... .. ..||+|-.++...++.
T Consensus 110 ~~~~~~CPvt~~-~~~~~~~fv~l~~cG~V~s~~alke~k-~~----~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 110 SEGRFICPVTGK-EFNGKHKFVYLRPCGCVFSEKALKELK-KS----KKCPVCGKPFTEEDII 166 (260)
T ss_pred CCceeECCCCCc-ccCCceeEEEEcCCCCEeeHHHHHhhc-cc----ccccccCCccccCCEE
Confidence 466789999998 55332 245556899999999999873 23 6799999888655444
No 75
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.74 E-value=0.0013 Score=45.02 Aligned_cols=59 Identities=10% Similarity=0.238 Sum_probs=46.5
Q ss_pred CccccccccccccCCCCceEe-cCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChhhhhh
Q 034125 20 EEAECAICLEKEYSDESAMIR-MQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEELSS 83 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~-~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~ 83 (103)
.-+.||||.+ .+.+.-.... -+|||+|+..|..+++... ..||+|-.++..+++..+..
T Consensus 220 ~ryiCpvtrd-~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D----~v~pv~d~plkdrdiI~Lqr 279 (303)
T KOG3039|consen 220 KRYICPVTRD-TLTNTTPCAVLRPSGHVVTKECVEKLIRKD----MVDPVTDKPLKDRDIIGLQR 279 (303)
T ss_pred cceecccchh-hhcCccceEEeccCCcEeeHHHHHHhcccc----ccccCCCCcCcccceEeeec
Confidence 5678999999 6665443333 3799999999999999888 89999999888777765443
No 76
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.72 E-value=0.0016 Score=46.57 Aligned_cols=57 Identities=19% Similarity=0.403 Sum_probs=37.1
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~ 77 (103)
.+++..||+|+++.-..+....--+||...|.-|.....+.- ...||.||.......
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~l---ngrcpacrr~y~den 67 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNL---NGRCPACRRKYDDEN 67 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhc---cCCChHhhhhccccc
Confidence 345556999999332333333333799999999977655443 368999998664443
No 77
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.71 E-value=0.00011 Score=51.16 Aligned_cols=41 Identities=24% Similarity=0.703 Sum_probs=30.2
Q ss_pred ccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
..-|.||++ .+..-..|+|||. -|..|...+ ..||+||+.+
T Consensus 300 ~~LC~ICmD----aP~DCvfLeCGHmVtCt~CGkrm--------~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMD----APRDCVFLECGHMVTCTKCGKRM--------NECPICRQYI 341 (350)
T ss_pred HHHHHHHhc----CCcceEEeecCcEEeehhhcccc--------ccCchHHHHH
Confidence 678999999 3333455689996 678886543 4799999765
No 78
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.71 E-value=0.0026 Score=39.59 Aligned_cols=55 Identities=24% Similarity=0.410 Sum_probs=39.1
Q ss_pred CccccccccccccCCCCceEecC--CCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSDESAMIRMQ--CSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~--C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~ 77 (103)
--.+|.||.+ ...+...+. .. ||-..|..|-...++.. .-...||+|++++....
T Consensus 79 ~lYeCnIC~e-tS~ee~FLK-PneCCgY~iCn~Cya~LWK~~-~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKE-TSAEERFLK-PNECCGYSICNACYANLWKFC-NLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCccc-ccchhhcCC-cccccchHHHHHHHHHHHHHc-ccCCCCCcccccccccc
Confidence 4568999999 433332222 12 89999999999977765 24578999999886544
No 79
>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=96.68 E-value=0.0041 Score=39.80 Aligned_cols=57 Identities=21% Similarity=0.535 Sum_probs=35.3
Q ss_pred CccccccccccccCCCCceEe----------cCCCc-hhhHHHHHHHHHhcC---------------------------C
Q 034125 20 EEAECAICLEKEYSDESAMIR----------MQCSH-IFHADCITPWLEERL---------------------------G 61 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~----------~~C~H-~f~~~Cl~~~~~~~~---------------------------~ 61 (103)
++..||||++ +.-+.++.+ .-|+. .-|..||.++.+... .
T Consensus 1 ed~~CpICme--~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (162)
T PF07800_consen 1 EDVTCPICME--HPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ 78 (162)
T ss_pred CCccCceecc--CCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence 4678999999 443332221 11543 357889999875430 0
Q ss_pred CCCCCCCCCCCCCCCCh
Q 034125 62 KSCACPVCPFQMPLPSF 78 (103)
Q Consensus 62 ~~~~CP~Cr~~~~~~~~ 78 (103)
....||+||..+....+
T Consensus 79 ~~L~CPLCRG~V~GWtv 95 (162)
T PF07800_consen 79 PELACPLCRGEVKGWTV 95 (162)
T ss_pred ccccCccccCceeceEE
Confidence 24579999998864443
No 80
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.65 E-value=0.0041 Score=44.64 Aligned_cols=48 Identities=23% Similarity=0.540 Sum_probs=34.9
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHH--HhcCCCCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWL--EERLGKSCACPVCPFQM 73 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~--~~~~~~~~~CP~Cr~~~ 73 (103)
+++...|.||.+ ..+. ..++||+|..|-.|..+.- -.. ..||+||+..
T Consensus 58 DEen~~C~ICA~-~~TY---s~~~PC~H~~CH~Ca~RlRALY~~----K~C~~CrTE~ 107 (493)
T COG5236 58 DEENMNCQICAG-STTY---SARYPCGHQICHACAVRLRALYMQ----KGCPLCRTET 107 (493)
T ss_pred ccccceeEEecC-CceE---EEeccCCchHHHHHHHHHHHHHhc----cCCCcccccc
Confidence 355667999999 4332 4567999999999987642 233 6899999864
No 81
>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=96.63 E-value=0.0022 Score=44.63 Aligned_cols=49 Identities=18% Similarity=0.558 Sum_probs=37.9
Q ss_pred ccccccccccCCCCceEec-CCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 23 ECAICLEKEYSDESAMIRM-QCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.||+|..+.|..+.....+ +|+|..|..|+...+...+ ..||-|...+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~---~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGP---AQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCC---CCCCcccchhh
Confidence 5999998667766644333 6999999999999887653 78999976554
No 82
>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=96.57 E-value=0.002 Score=43.93 Aligned_cols=49 Identities=22% Similarity=0.576 Sum_probs=37.1
Q ss_pred CCccccccccccccCCCCceE-ecC-CCchhhHHHHHHHHHhcCCCCCCCC--CCC
Q 034125 19 DEEAECAICLEKEYSDESAMI-RMQ-CSHIFHADCITPWLEERLGKSCACP--VCP 70 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~-~~~-C~H~f~~~Cl~~~~~~~~~~~~~CP--~Cr 70 (103)
..+..||||..+.|..+.... .-| |.|..|.+|..+.+...+ ..|| -|.
T Consensus 8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~Gp---AqCP~~gC~ 60 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGP---AQCPYKGCG 60 (314)
T ss_pred hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCC---CCCCCccHH
Confidence 445689999986666665433 335 999999999999887664 7899 664
No 83
>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=96.56 E-value=0.0015 Score=40.69 Aligned_cols=38 Identities=29% Similarity=0.742 Sum_probs=27.9
Q ss_pred ccccccccccccCCCCceEecCCC------chhhHHHHHHHHHhc
Q 034125 21 EAECAICLEKEYSDESAMIRMQCS------HIFHADCITPWLEER 59 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~------H~f~~~Cl~~~~~~~ 59 (103)
..+|.||++ .+.....+..++|+ |.||..|+.+|-+..
T Consensus 26 ~~EC~IC~~-~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~~ 69 (134)
T PF05883_consen 26 TVECQICFD-RIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRER 69 (134)
T ss_pred Ceeehhhhh-hhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhhc
Confidence 568999999 55553445555664 789999999995444
No 84
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.51 E-value=0.003 Score=44.74 Aligned_cols=49 Identities=18% Similarity=0.521 Sum_probs=36.2
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
..+...||||+. ...++-++. .-|-+||..|+..++... ..||+=..+.
T Consensus 297 ~~~~~~CpvClk-~r~Nptvl~--vSGyVfCY~Ci~~Yv~~~----~~CPVT~~p~ 345 (357)
T KOG0826|consen 297 PPDREVCPVCLK-KRQNPTVLE--VSGYVFCYPCIFSYVVNY----GHCPVTGYPA 345 (357)
T ss_pred CCccccChhHHh-ccCCCceEE--ecceEEeHHHHHHHHHhc----CCCCccCCcc
Confidence 355678999999 433333222 479999999999999987 8899865544
No 85
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.46 E-value=0.0029 Score=41.38 Aligned_cols=34 Identities=32% Similarity=0.757 Sum_probs=25.4
Q ss_pred cCCCchhhHHHHHHHHHhc--CCC-----CCCCCCCCCCCC
Q 034125 41 MQCSHIFHADCITPWLEER--LGK-----SCACPVCPFQMP 74 (103)
Q Consensus 41 ~~C~H~f~~~Cl~~~~~~~--~~~-----~~~CP~Cr~~~~ 74 (103)
..||..||.-|+..|++.- ..+ -..||+|..++.
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 4699999999999999754 111 135999987764
No 86
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.41 E-value=0.0024 Score=46.17 Aligned_cols=53 Identities=25% Similarity=0.551 Sum_probs=38.5
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
...+.|||=.+ .-........|.|||+....-+.+..+.. ..++.||+|-...
T Consensus 332 HSvF~CPVlKe-qtsdeNPPm~L~CGHVISkdAlnrLS~ng-~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 332 HSVFICPVLKE-QTSDENPPMMLICGHVISKDALNRLSKNG-SQSFKCPYCPVEQ 384 (394)
T ss_pred cceeecccchh-hccCCCCCeeeeccceecHHHHHHHhhCC-CeeeeCCCCCccc
Confidence 34678999877 44444455667899999999999876655 2358999996543
No 87
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.37 E-value=0.003 Score=44.06 Aligned_cols=49 Identities=31% Similarity=0.668 Sum_probs=37.2
Q ss_pred ccccccccccccCCCC---ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDES---AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~---~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
...|-||-+ +|.... ..+.+.|||.||..|+.+.+... ...||+||...
T Consensus 3 ~~~c~~c~~-~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~---~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNE-DYSSEDGDHIPRVLKCGHTICQNCASKLLGNS---RILCPFCRETT 54 (296)
T ss_pred CCceeecCc-cccccCcccCCcccccCceehHhHHHHHhcCc---eeeccCCCCcc
Confidence 357999998 666542 34555799999999999877654 26789999874
No 88
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.35 E-value=0.001 Score=46.38 Aligned_cols=46 Identities=24% Similarity=0.447 Sum_probs=35.8
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.+.|-||.. . +..+++. .|+|.||..|...-++.. ..|++|.+.+.
T Consensus 241 Pf~c~icr~-~-f~~pVvt--~c~h~fc~~ca~~~~qk~----~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRK-Y-FYRPVVT--KCGHYFCEVCALKPYQKG----EKCYVCSQQTH 286 (313)
T ss_pred Ccccccccc-c-cccchhh--cCCceeehhhhccccccC----Ccceecccccc
Confidence 456999999 4 4444444 799999999998877766 78999987664
No 89
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.29 E-value=0.0038 Score=43.97 Aligned_cols=44 Identities=25% Similarity=0.554 Sum_probs=31.8
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
+.|+.|.. +...+.-. --|+|.||..||...+.... +.||.|..
T Consensus 275 LkCplc~~--Llrnp~kT-~cC~~~fc~eci~~al~dsD---f~CpnC~r 318 (427)
T COG5222 275 LKCPLCHC--LLRNPMKT-PCCGHTFCDECIGTALLDSD---FKCPNCSR 318 (427)
T ss_pred ccCcchhh--hhhCcccC-ccccchHHHHHHhhhhhhcc---ccCCCccc
Confidence 78999988 44433222 23899999999998665442 89999954
No 90
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.23 E-value=0.0025 Score=45.57 Aligned_cols=46 Identities=24% Similarity=0.579 Sum_probs=30.6
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.....-|.||++ .. .....+||||.-| |..-... - ..||+||..+.
T Consensus 302 ~~~p~lcVVcl~-e~---~~~~fvpcGh~cc--ct~cs~~-l----~~CPvCR~rI~ 347 (355)
T KOG1571|consen 302 LPQPDLCVVCLD-EP---KSAVFVPCGHVCC--CTLCSKH-L----PQCPVCRQRIR 347 (355)
T ss_pred cCCCCceEEecC-Cc---cceeeecCCcEEE--chHHHhh-C----CCCchhHHHHH
Confidence 355667999999 32 2245669999865 5543222 2 56999998764
No 91
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.17 E-value=0.0019 Score=32.56 Aligned_cols=41 Identities=27% Similarity=0.685 Sum_probs=21.3
Q ss_pred cccccccccCCCCceEec--CCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRM--QCSHIFHADCITPWLEERLGKSCACPVC 69 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~--~C~H~f~~~Cl~~~~~~~~~~~~~CP~C 69 (103)
|.+|.+ ....+. ... .|+-.+|..|+..+++... ...||.|
T Consensus 1 C~~C~~-iv~~G~--~C~~~~C~~r~H~~C~~~y~r~~~--~~~CP~C 43 (43)
T PF08746_consen 1 CEACKE-IVTQGQ--RCSNRDCNVRLHDDCFKKYFRHRS--NPKCPNC 43 (43)
T ss_dssp -TTT-S-B-SSSE--E-SS--S--EE-HHHHHHHTTT-S--S-B-TTT
T ss_pred Ccccch-hHeeec--cCCCCccCchHHHHHHHHHHhcCC--CCCCcCC
Confidence 567777 444442 222 4888999999999998772 2379987
No 92
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.03 E-value=0.0074 Score=41.55 Aligned_cols=57 Identities=25% Similarity=0.695 Sum_probs=37.3
Q ss_pred CCCCCccccccccccccCCCC-ceEecCC-----CchhhHHHHHHHHHhcC----CCCCCCCCCCCCC
Q 034125 16 NHTDEEAECAICLEKEYSDES-AMIRMQC-----SHIFHADCITPWLEERL----GKSCACPVCPFQM 73 (103)
Q Consensus 16 ~~~~~~~~C~IC~~~~~~~~~-~~~~~~C-----~H~f~~~Cl~~~~~~~~----~~~~~CP~Cr~~~ 73 (103)
+..+.+..|-||+..+ .... ..=.-|| .|..|..|+..|...+. .+...||.|++..
T Consensus 15 ~~~e~eR~CWiCF~Td-eDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 15 DNQELERCCWICFATD-EDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred CccccceeEEEEeccC-cccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 3345566789999822 2222 1112255 47899999999997662 3556899998764
No 93
>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=95.86 E-value=0.008 Score=43.36 Aligned_cols=35 Identities=23% Similarity=0.834 Sum_probs=27.3
Q ss_pred CCchhhHHHHHHHHHhcCC---------CCCCCCCCCCCCCCCC
Q 034125 43 CSHIFHADCITPWLEERLG---------KSCACPVCPFQMPLPS 77 (103)
Q Consensus 43 C~H~f~~~Cl~~~~~~~~~---------~~~~CP~Cr~~~~~~~ 77 (103)
|....|..|+-+|+.++++ +...||+||+.+...+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 4567899999999987732 4678999999886544
No 94
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.50 E-value=0.003 Score=32.43 Aligned_cols=31 Identities=29% Similarity=0.771 Sum_probs=21.4
Q ss_pred CC-CchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125 42 QC-SHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76 (103)
Q Consensus 42 ~C-~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~ 76 (103)
.| .|..|..|+...+..+ ..||+|..+++.+
T Consensus 17 ~C~dHYLCl~CLt~ml~~s----~~C~iC~~~LPtk 48 (50)
T PF03854_consen 17 KCSDHYLCLNCLTLMLSRS----DRCPICGKPLPTK 48 (50)
T ss_dssp E-SS-EEEHHHHHHT-SSS----SEETTTTEE----
T ss_pred eecchhHHHHHHHHHhccc----cCCCcccCcCccc
Confidence 57 5999999999988877 8999999887643
No 95
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.21 E-value=0.0065 Score=39.18 Aligned_cols=31 Identities=35% Similarity=0.883 Sum_probs=26.9
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhH
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHA 49 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~ 49 (103)
.++..+|.||++ ++..+..+.+|||-.+||.
T Consensus 174 ~ddkGECvICLE-dL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLE-DLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhh-hccCCCceeccceEEEeec
Confidence 467789999999 9999999999999888874
No 96
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.01 E-value=0.031 Score=39.48 Aligned_cols=46 Identities=24% Similarity=0.654 Sum_probs=32.5
Q ss_pred CCCCccccccccccccCCCCceEecCC--CchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 17 HTDEEAECAICLEKEYSDESAMIRMQC--SHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C--~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
...+-.+||||.+ .+.. + +. +| ||..|..|-.+ .. ..||.||.++.
T Consensus 44 ~~~~lleCPvC~~-~l~~-P-i~--QC~nGHlaCssC~~~---~~----~~CP~Cr~~~g 91 (299)
T KOG3002|consen 44 LDLDLLDCPVCFN-PLSP-P-IF--QCDNGHLACSSCRTK---VS----NKCPTCRLPIG 91 (299)
T ss_pred cchhhccCchhhc-cCcc-c-ce--ecCCCcEehhhhhhh---hc----ccCCccccccc
Confidence 3456778999999 4333 2 23 46 79999888642 23 68999998886
No 97
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.89 E-value=0.014 Score=42.49 Aligned_cols=49 Identities=29% Similarity=0.704 Sum_probs=32.6
Q ss_pred CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc--CCCCCCCCC
Q 034125 20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER--LGKSCACPV 68 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~--~~~~~~CP~ 68 (103)
...+|.||+..............|+|.||..|+.+.+..+ .+....||.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~ 195 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH 195 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence 4678999994133332333344699999999999998765 223445644
No 98
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.76 E-value=0.018 Score=45.43 Aligned_cols=42 Identities=24% Similarity=0.656 Sum_probs=29.4
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ 72 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~ 72 (103)
...|..|-. .+.. +.+. ..|+|.||..|+. . +...||.|+..
T Consensus 840 ~skCs~C~~-~Ldl-P~Vh-F~CgHsyHqhC~e---~----~~~~CP~C~~e 881 (933)
T KOG2114|consen 840 VSKCSACEG-TLDL-PFVH-FLCGHSYHQHCLE---D----KEDKCPKCLPE 881 (933)
T ss_pred eeeecccCC-cccc-ceee-eecccHHHHHhhc---c----CcccCCccchh
Confidence 357999987 3333 3232 2599999999997 2 33789999763
No 99
>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 COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.42 E-value=0.063 Score=42.62 Aligned_cols=53 Identities=21% Similarity=0.720 Sum_probs=37.9
Q ss_pred CCCccccccccccccCCCCceEecCCC-----chhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCS-----HIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.+++..|-||..+.....+. ..||. ...|.+|+..|+..+ +...|-+|..++.
T Consensus 9 N~d~~~CRICr~e~~~d~pL--fhPCKC~GSIkYiH~eCL~eW~~~s--~~~kCdiChy~~~ 66 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPL--FHPCKCSGSIKYIHRECLMEWMECS--GTKKCDICHYEYK 66 (1175)
T ss_pred CccchhceeecCCCCCCCcC--cccccccchhHHHHHHHHHHHHhcC--CCcceeeecceee
Confidence 45668999999833333333 33664 358999999999965 5578999987654
No 101
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.22 E-value=0.027 Score=43.87 Aligned_cols=46 Identities=24% Similarity=0.656 Sum_probs=34.5
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
..|.||.+ .....+ .+|+|.||..|+...+.... ...||.||..+.
T Consensus 455 ~~c~ic~~---~~~~~i--t~c~h~~c~~c~~~~i~~~~--~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD---LDSFFI--TRCGHDFCVECLKKSIQQSE--NAPCPLCRNVLK 500 (674)
T ss_pred cccccccc---ccccee--ecccchHHHHHHHhcccccc--CCCCcHHHHHHH
Confidence 79999999 222222 37999999999999887662 248999987653
No 102
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.20 E-value=0.031 Score=37.46 Aligned_cols=38 Identities=26% Similarity=0.685 Sum_probs=28.0
Q ss_pred cccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
|-+|.+ ....+..+||.|. +|..|-.. ...||+|+...
T Consensus 161 Cr~C~~----~~~~VlllPCrHl~lC~~C~~~--------~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGE----REATVLLLPCRHLCLCGICDES--------LRICPICRSPK 199 (207)
T ss_pred ceecCc----CCceEEeecccceEeccccccc--------CccCCCCcChh
Confidence 888888 4555778899985 77778532 26799998754
No 103
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.17 E-value=0.021 Score=40.13 Aligned_cols=40 Identities=18% Similarity=0.483 Sum_probs=30.3
Q ss_pred CCchhhHHHHHHHHHhcC---------CCCCCCCCCCCCCCCCChhhhh
Q 034125 43 CSHIFHADCITPWLEERL---------GKSCACPVCPFQMPLPSFEELS 82 (103)
Q Consensus 43 C~H~f~~~Cl~~~~~~~~---------~~~~~CP~Cr~~~~~~~~~~~~ 82 (103)
|....|.+|+-+|+..++ .++.+||+||+.+...++..+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v~ 373 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCVD 373 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEEE
Confidence 567889999999986652 2568999999998766655443
No 104
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.13 E-value=0.034 Score=44.10 Aligned_cols=37 Identities=22% Similarity=0.548 Sum_probs=27.8
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHH
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLE 57 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~ 57 (103)
+-+..|.+|.. .+...+ ....+|||.||..|+.+-..
T Consensus 815 ep~d~C~~C~~-~ll~~p-F~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 815 EPQDSCDHCGR-PLLIKP-FYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred cCccchHHhcc-hhhcCc-ceeeeccchHHHHHHHHHHH
Confidence 45678999999 444443 44458999999999998764
No 105
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.58 E-value=0.05 Score=40.40 Aligned_cols=37 Identities=30% Similarity=0.646 Sum_probs=28.7
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER 59 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~ 59 (103)
+++..|+||.. |...+ ++++|+|..|..|....+.+.
T Consensus 2 eeelkc~vc~~--f~~ep--iil~c~h~lc~~ca~~~~~~t 38 (699)
T KOG4367|consen 2 EEELKCPVCGS--FYREP--IILPCSHNLCQACARNILVQT 38 (699)
T ss_pred cccccCceehh--hccCc--eEeecccHHHHHHHHhhcccC
Confidence 46789999999 44444 455999999999998766544
No 106
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=93.49 E-value=0.034 Score=39.45 Aligned_cols=28 Identities=25% Similarity=0.778 Sum_probs=20.6
Q ss_pred EecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125 39 IRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ 72 (103)
Q Consensus 39 ~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~ 72 (103)
+.++|.|+||.+|... . ..+.||.|-..
T Consensus 105 RmIPCkHvFCl~CAr~--~----~dK~Cp~C~d~ 132 (389)
T KOG2932|consen 105 RMIPCKHVFCLECARS--D----SDKICPLCDDR 132 (389)
T ss_pred cccccchhhhhhhhhc--C----ccccCcCcccH
Confidence 4458999999999753 2 23789999643
No 107
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.33 E-value=0.036 Score=45.63 Aligned_cols=45 Identities=27% Similarity=0.685 Sum_probs=36.7
Q ss_pred CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
....|.||.+ .......+. .|||.+|..|+..|+..+ ..||+|..
T Consensus 1152 ~~~~c~ic~d-il~~~~~I~--~cgh~~c~~c~~~~l~~~----s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLD-ILRNQGGIA--GCGHEPCCRCDELWLYAS----SRCPICKS 1196 (1394)
T ss_pred cccchHHHHH-HHHhcCCee--eechhHhhhHHHHHHHHh----ccCcchhh
Confidence 4558999999 655444444 699999999999999998 89999974
No 108
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.81 E-value=0.065 Score=42.22 Aligned_cols=39 Identities=31% Similarity=0.710 Sum_probs=27.1
Q ss_pred cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPV 68 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~ 68 (103)
|.||.- -..+....+..|+|+.|..|.+.|++.. ..||.
T Consensus 1031 C~~C~l--~V~gss~~Cg~C~Hv~H~sc~~eWf~~g----d~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHL--AVRGSSNFCGTCGHVGHTSCMMEWFRTG----DVCPS 1069 (1081)
T ss_pred eeeEee--EeeccchhhccccccccHHHHHHHHhcC----CcCCC
Confidence 555544 1223334456799999999999999988 56764
No 109
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.31 E-value=0.17 Score=37.58 Aligned_cols=39 Identities=31% Similarity=0.805 Sum_probs=30.8
Q ss_pred CCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc
Q 034125 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER 59 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~ 59 (103)
......|-||.+ .+.. .+..+.|+|.||..|+..++..+
T Consensus 67 ~~~~~~c~ic~~-~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 67 KKGDVQCGICVE-SYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CCccccCCcccC-CCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 356678999999 4333 45566899999999999999877
No 110
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.03 E-value=0.11 Score=37.10 Aligned_cols=51 Identities=22% Similarity=0.482 Sum_probs=35.4
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
..-+.|||=-+ .-........+.|||+.-..-+...-+.+ ...+.||+|-.
T Consensus 334 Hs~FiCPVlKe-~~t~ENpP~ml~CgHVIskeal~~LS~nG-~~~FKCPYCP~ 384 (396)
T COG5109 334 HSLFICPVLKE-LCTDENPPVMLECGHVISKEALSVLSQNG-VLSFKCPYCPE 384 (396)
T ss_pred cceeeccccHh-hhcccCCCeeeeccceeeHHHHHHHhhcC-cEEeeCCCCCc
Confidence 34578998766 33333344566899999998888765554 34689999954
No 111
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.73 E-value=0.0081 Score=43.61 Aligned_cols=54 Identities=24% Similarity=0.620 Sum_probs=40.8
Q ss_pred CccccccccccccCCC-CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125 20 EEAECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF 78 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~ 78 (103)
....|+||.. .+... ..+..+.|||.+|..||.+|+... ..||.|+..++....
T Consensus 195 lv~sl~I~~~-slK~~y~k~~~~~~g~~~~~~kL~k~L~~~----~kl~~~~rel~~~~~ 249 (465)
T KOG0827|consen 195 LVGSLSICFE-SLKQNYDKISAIVCGHIYHHGKLSKWLATK----RKLPSCRRELPKNGF 249 (465)
T ss_pred HHhhhHhhHH-HHHHHHHHHHHHhhcccchhhHHHHHHHHH----HHhHHHHhhhhhhhH
Confidence 3557899988 55443 334445699999999999999988 789999988764433
No 112
>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=91.36 E-value=0.12 Score=26.78 Aligned_cols=46 Identities=20% Similarity=0.501 Sum_probs=18.5
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVCPF 71 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~ 71 (103)
..|||-.. .+.. .++...|.|.-|.+ +..|+... ..+...||+|.+
T Consensus 3 L~CPls~~-~i~~--P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQ-RIRI--PVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSS-B-SS--EEEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCC-EEEe--CccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 46887777 3333 34555799975433 23344332 124478999975
No 113
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.32 E-value=0.028 Score=35.26 Aligned_cols=57 Identities=21% Similarity=0.377 Sum_probs=36.0
Q ss_pred CCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125 16 NHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ 72 (103)
Q Consensus 16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~ 72 (103)
....++.+|-||+...|..+-......|.-.||..|..+.-..+......|-+|+..
T Consensus 60 aGv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cccCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 334778899999995666655555445666677777655333222234578889754
No 114
>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=91.30 E-value=0.49 Score=28.39 Aligned_cols=51 Identities=20% Similarity=0.410 Sum_probs=32.3
Q ss_pred CCccccccccccccCCCCceEe------cCC---CchhhHHHHHHHHHhc-----CCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIR------MQC---SHIFHADCITPWLEER-----LGKSCACPVCPF 71 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~------~~C---~H~f~~~Cl~~~~~~~-----~~~~~~CP~Cr~ 71 (103)
.....|-.|.. . ..+..+.. ..| .-.||..||....... .+....||.||.
T Consensus 5 ~~g~~CHqCrq-K-t~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 5 VNGKTCHQCRQ-K-TLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCCchhhcC-C-CCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 34556777776 2 22222332 345 6679999999877543 345688999985
No 115
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.89 E-value=0.11 Score=40.25 Aligned_cols=41 Identities=24% Similarity=0.627 Sum_probs=28.4
Q ss_pred CccccccccccccCCC-CceEecCCCchhhHHHHHHHHHhcCCCCCCCC
Q 034125 20 EEAECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEERLGKSCACP 67 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP 67 (103)
+...|+||+. .+... .....+.|||..|..|+....+ .+||
T Consensus 10 ~~l~c~ic~n-~f~~~~~~Pvsl~cghtic~~c~~~lyn------~scp 51 (861)
T KOG3161|consen 10 LLLLCDICLN-LFVVQRLEPVSLQCGHTICGHCVQLLYN------ASCP 51 (861)
T ss_pred HHhhchHHHH-HHHHHhcCcccccccchHHHHHHHhHhh------ccCC
Confidence 3456999977 44433 2344557999999999987555 3588
No 116
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=90.83 E-value=0.39 Score=25.36 Aligned_cols=35 Identities=20% Similarity=0.651 Sum_probs=25.4
Q ss_pred CCccccccccccccC-CCCceEecCCCchhhHHHHHH
Q 034125 19 DEEAECAICLEKEYS-DESAMIRMQCSHIFHADCITP 54 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~ 54 (103)
.....|++|-+ .+. .+..+....|+-.+|+.|...
T Consensus 3 ~~~~~C~~Cg~-~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 3 YEGCKCPVCGK-KFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccCccChhhCC-cccCCCCEEECCCCCCcccHHHHhh
Confidence 34568999999 665 444455555999999999754
No 117
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=89.91 E-value=0.082 Score=41.11 Aligned_cols=53 Identities=26% Similarity=0.621 Sum_probs=38.4
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~ 76 (103)
.-..+|+||.. -+..+ ..+.|.|.|+..|+..-+.... ....||+|+..+...
T Consensus 19 ~k~lEc~ic~~-~~~~p---~~~kc~~~~l~~~~n~~f~~~~-~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 19 QKILECPICLE-HVKEP---SLLKCDHIFLKFCLNKLFESKK-GPKQCALCKSDIEKR 71 (684)
T ss_pred hhhccCCceeE-Eeecc---chhhhhHHHHhhhhhceeeccC-ccccchhhhhhhhhh
Confidence 34578999999 44443 4457999999999988776552 257899998666433
No 118
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.84 E-value=0.45 Score=33.18 Aligned_cols=53 Identities=23% Similarity=0.610 Sum_probs=35.2
Q ss_pred CCccccccccccccCCCC-ceEecCCC-----chhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDES-AMIRMQCS-----HIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~-~~~~~~C~-----H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.++..|-||.. ...... .....||. ...|..|+..|...+ +...|.+|.....
T Consensus 76 ~~~~~cRIc~~-~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~--~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 76 SSGPICRICHE-EDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIK--GNITCEICKSFFI 134 (323)
T ss_pred CCCCcEEEEec-ccccccccccccCccccCcHHHHHHHHHHhhhccc--cCeeeecccccce
Confidence 34578999999 332211 02333553 457999999999855 4489999976543
No 119
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=88.71 E-value=0.22 Score=38.20 Aligned_cols=44 Identities=23% Similarity=0.638 Sum_probs=27.4
Q ss_pred CCccccccccccccC----CCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYS----DESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~----~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C 69 (103)
...+.|.+|...... .........|+++||..|+.. + +..||.|
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r----~---s~~CPrC 556 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR----K---SPCCPRC 556 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc----c---CCCCCch
Confidence 345678888542211 112244556999999999854 2 2459999
No 120
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=87.98 E-value=0.22 Score=33.56 Aligned_cols=50 Identities=24% Similarity=0.511 Sum_probs=36.8
Q ss_pred CCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
..++-..|.+|.. ....+ +++-.|+-.+|..|+..++++. ..||.|.--+
T Consensus 177 y~dnlk~Cn~Ch~-LvIqg--~rCg~c~i~~h~~c~qty~q~~----~~cphc~d~w 226 (235)
T KOG4718|consen 177 YADNLKNCNLCHC-LVIQG--IRCGSCNIQYHRGCIQTYLQRR----DICPHCGDLW 226 (235)
T ss_pred hHHHHHHHhHhHH-Hhhee--eccCcccchhhhHHHHHHhccc----CcCCchhccc
Confidence 3456678999998 32222 3444688889999999999987 8999995444
No 121
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=87.24 E-value=0.4 Score=31.96 Aligned_cols=42 Identities=24% Similarity=0.663 Sum_probs=27.6
Q ss_pred CccccccccccccCC----CCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSD----ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP 70 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~----~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr 70 (103)
-++.|.||.+++..- ...+..-.|+..||..|+.. ..||-|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~---------~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK---------KSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC---------CCCCCcH
Confidence 357888888623211 12334445999999999862 4699994
No 122
>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=85.94 E-value=0.27 Score=25.06 Aligned_cols=47 Identities=21% Similarity=0.566 Sum_probs=30.8
Q ss_pred ccccccccccCCCCceEecCCCchhhHHHHHHHHHhc--CCCCCCCCCCC
Q 034125 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER--LGKSCACPVCP 70 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~--~~~~~~CP~Cr 70 (103)
.|.||.. ....+..+..-.|+..||..|+..-.... ......||.|+
T Consensus 1 ~C~vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCC-cCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 4788888 54555556655799999999987654322 11246777663
No 123
>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=84.24 E-value=0.48 Score=21.16 Aligned_cols=7 Identities=29% Similarity=0.767 Sum_probs=3.9
Q ss_pred ccccccc
Q 034125 23 ECAICLE 29 (103)
Q Consensus 23 ~C~IC~~ 29 (103)
.||-|..
T Consensus 2 ~CP~C~~ 8 (26)
T PF10571_consen 2 TCPECGA 8 (26)
T ss_pred cCCCCcC
Confidence 4555655
No 124
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.50 E-value=1.1 Score=31.11 Aligned_cols=54 Identities=13% Similarity=0.189 Sum_probs=36.3
Q ss_pred CCccccccccccccCCCC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 19 DEEAECAICLEKEYSDES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
...+.|||=-- .+...- .....+|||+|-..-+.+... ..|++|...+...+..
T Consensus 109 ~a~fiCPvtgl-eMng~~~F~~l~~CGcV~SerAlKeika------s~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 109 RARFICPVTGL-EMNGKYRFCALRCCGCVFSERALKEIKA------SVCHVCGAAYQEDDVI 163 (293)
T ss_pred cceeecccccc-eecceEEEEEEeccceeccHHHHHHhhh------ccccccCCcccccCeE
Confidence 55678998655 333322 334457999999988877542 6799998877655543
No 125
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=82.71 E-value=1.1 Score=32.19 Aligned_cols=52 Identities=19% Similarity=0.389 Sum_probs=33.4
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
.-...|+||.++.........-.+|++..|..|+....... ..||.||....
T Consensus 247 ~v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~----~~~~~~rk~~~ 298 (327)
T KOG2068|consen 247 SVPPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGD----GRCPGCRKPYE 298 (327)
T ss_pred ccCCCCCCCCCcccccccccccccccccchhhhhhcccccC----CCCCccCCccc
Confidence 33468999999222222222322578887777777665555 89999996653
No 126
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.22 E-value=0.66 Score=36.82 Aligned_cols=40 Identities=20% Similarity=0.618 Sum_probs=28.7
Q ss_pred CccccccccccccCCC---CceEecCCCchhhHHHHHHHHHhc
Q 034125 20 EEAECAICLEKEYSDE---SAMIRMQCSHIFHADCITPWLEER 59 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~---~~~~~~~C~H~f~~~Cl~~~~~~~ 59 (103)
.+..|.-|+++....+ ..+....|+|.||..|+.....+.
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~ 825 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN 825 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc
Confidence 3448999999444333 334556799999999998876655
No 127
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=80.85 E-value=2.4 Score=30.51 Aligned_cols=46 Identities=24% Similarity=0.440 Sum_probs=33.9
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
...|-.|.+ ........+.-.|.+.||.+|-.-.-+.- ..||.|-.
T Consensus 330 ~~~Cf~C~~-~~~~~~~y~C~~Ck~~FCldCDv~iHesL----h~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQG-ELLSSGRYRCESCKNVFCLDCDVFIHESL----HNCPGCEH 375 (378)
T ss_pred Ccceeeecc-ccCCCCcEEchhccceeeccchHHHHhhh----hcCCCcCC
Confidence 344888977 55666666666799999999977655555 68999963
No 128
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=80.55 E-value=0.81 Score=38.72 Aligned_cols=54 Identities=26% Similarity=0.515 Sum_probs=41.0
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
.....|.||.. .......+....|.-.||..|+..-+...+.+...||-||..-
T Consensus 1106 ~~~~~c~~cr~-k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRR-KKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cchhhhhhhhh-cccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 45568999998 4333344444458899999999999988877789999998654
No 129
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=80.17 E-value=1.6 Score=34.71 Aligned_cols=43 Identities=19% Similarity=0.414 Sum_probs=30.0
Q ss_pred CccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPV 68 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~ 68 (103)
....|.+|-. ...+..+-.-.|+|.-|..|+.+|+... ..||.
T Consensus 778 a~~~CtVC~~--vi~G~~~~c~~C~H~gH~sh~~sw~~~~----s~ca~ 820 (839)
T KOG0269|consen 778 ASAKCTVCDL--VIRGVDVWCQVCGHGGHDSHLKSWFFKA----SPCAK 820 (839)
T ss_pred hhcCceeecc--eeeeeEeecccccccccHHHHHHHHhcC----CCCcc
Confidence 3446888877 3333333333599999999999999887 55655
No 130
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=78.18 E-value=3.4 Score=29.76 Aligned_cols=59 Identities=22% Similarity=0.463 Sum_probs=34.8
Q ss_pred CCCCCCccccccccccccC---------------CC-CceEecCCCchhhHHHHHHHHHhc--C---CCCCCCCCCCCCC
Q 034125 15 SNHTDEEAECAICLEKEYS---------------DE-SAMIRMQCSHIFHADCITPWLEER--L---GKSCACPVCPFQM 73 (103)
Q Consensus 15 ~~~~~~~~~C~IC~~~~~~---------------~~-~~~~~~~C~H~f~~~Cl~~~~~~~--~---~~~~~CP~Cr~~~ 73 (103)
.+......+||+|+. .-. .+ +.....||||+--..-..-|.+-. . .=...||+|-..+
T Consensus 335 e~~g~~~r~CPmC~~-~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 335 ENTGQRERECPMCRV-VGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred cccCcccCcCCeeee-ecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 334455778999997 311 01 112334899987666666676543 1 1135799997655
Q ss_pred C
Q 034125 74 P 74 (103)
Q Consensus 74 ~ 74 (103)
.
T Consensus 414 ~ 414 (429)
T KOG3842|consen 414 A 414 (429)
T ss_pred c
Confidence 3
No 131
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=77.37 E-value=0.28 Score=34.30 Aligned_cols=50 Identities=24% Similarity=0.501 Sum_probs=34.0
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
-..|.||-. .-.....+..=.|...||..||.+-+...+.++.+|.+|-.
T Consensus 281 ck~csicgt-senddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~ 330 (336)
T KOG1244|consen 281 CKYCSICGT-SENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLE 330 (336)
T ss_pred cceeccccC-cCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHH
Confidence 345678877 32222222323588899999999988777678899999843
No 132
>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=77.26 E-value=1.8 Score=23.77 Aligned_cols=14 Identities=29% Similarity=0.847 Sum_probs=10.0
Q ss_pred hhhHHHHHHHHHhc
Q 034125 46 IFHADCITPWLEER 59 (103)
Q Consensus 46 ~f~~~Cl~~~~~~~ 59 (103)
.||..||.+|....
T Consensus 11 gFCRNCLskWy~~a 24 (68)
T PF06844_consen 11 GFCRNCLSKWYREA 24 (68)
T ss_dssp S--HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 49999999998654
No 133
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=75.70 E-value=0.56 Score=29.90 Aligned_cols=27 Identities=33% Similarity=0.706 Sum_probs=21.2
Q ss_pred hhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 47 FHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 47 f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
||..||.+=|..-+.+...||.|...-
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~ 28 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEK 28 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCC
Confidence 788898887766666778999998654
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=75.55 E-value=1.6 Score=22.77 Aligned_cols=25 Identities=32% Similarity=0.620 Sum_probs=14.5
Q ss_pred cCCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125 41 MQCSHIFHADCITPWLEERLGKSCACPVC 69 (103)
Q Consensus 41 ~~C~H~f~~~Cl~~~~~~~~~~~~~CP~C 69 (103)
-.|++.||.+|=.-.-+.- -+||-|
T Consensus 25 ~~C~~~FC~dCD~fiHE~L----H~CPGC 49 (51)
T PF07975_consen 25 PKCKNHFCIDCDVFIHETL----HNCPGC 49 (51)
T ss_dssp TTTT--B-HHHHHTTTTTS-----SSSTT
T ss_pred CCCCCccccCcChhhhccc----cCCcCC
Confidence 3599999999965433433 679988
No 135
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=74.69 E-value=1.1 Score=35.83 Aligned_cols=55 Identities=25% Similarity=0.602 Sum_probs=35.4
Q ss_pred CCCCCCccccccccccccCCCCceEecCCCch-hhHHHHHHHHHhcCCCCCCCCCCC
Q 034125 15 SNHTDEEAECAICLEKEYSDESAMIRMQCSHI-FHADCITPWLEERLGKSCACPVCP 70 (103)
Q Consensus 15 ~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~Cl~~~~~~~~~~~~~CP~Cr 70 (103)
.....+...|.||.. .-...-.+++-.|.-. ||..||..=+....-..+.|+.|-
T Consensus 209 ~~~~~E~~~C~IC~~-~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~ 264 (1134)
T KOG0825|consen 209 SGLSQEEVKCDICTV-HDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCS 264 (1134)
T ss_pred cCcccccccceeecc-CChHHhheeecccccceeeccccCcccccccccceecCcch
Confidence 444567778999998 2122222333358877 999999985433333458999994
No 136
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.01 E-value=2.5 Score=32.25 Aligned_cols=47 Identities=34% Similarity=0.711 Sum_probs=34.1
Q ss_pred CCCCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125 17 HTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPL 75 (103)
Q Consensus 17 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~ 75 (103)
...-...|.||+. .. ..+..+|. |..|+..|+..+ ..||+|+..+..
T Consensus 475 l~~~~~~~~~~~~-~~----~~~~~~~~---~~~~l~~~~~~~----~~~pl~~~~~~~ 521 (543)
T KOG0802|consen 475 LREPNDVCAICYQ-EM----SARITPCS---HALCLRKWLYVQ----EVCPLCHTYMKE 521 (543)
T ss_pred hhcccCcchHHHH-HH----Hhcccccc---chhHHHhhhhhc----cccCCCchhhhc
Confidence 3455678999999 44 22223566 788999999888 899999877643
No 137
>PLN02189 cellulose synthase
Probab=73.00 E-value=3.8 Score=33.79 Aligned_cols=51 Identities=20% Similarity=0.425 Sum_probs=33.4
Q ss_pred CccccccccccccC---CCC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYS---DES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 20 ~~~~C~IC~~~~~~---~~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
....|.||-+ .+. .++ .+.+--|+--.|..|.+- -++ .++..||.|++...
T Consensus 33 ~~~~C~iCgd-~vg~~~~g~~fvaC~~C~fpvCr~Cyey-er~--eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGD-EIGLTVDGDLFVACNECGFPVCRPCYEY-ERR--EGTQNCPQCKTRYK 87 (1040)
T ss_pred cCcccccccc-ccCcCCCCCEEEeeccCCCccccchhhh-hhh--cCCccCcccCCchh
Confidence 3448999999 432 222 234445888899999843 222 35589999987664
No 138
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.86 E-value=7.7 Score=27.57 Aligned_cols=57 Identities=19% Similarity=0.349 Sum_probs=36.2
Q ss_pred CCccccccccccccCCCCceEecC-CCchhhHHHHHHHHHhcC-C------CCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQ-CSHIFHADCITPWLEERL-G------KSCACPVCPFQMPLP 76 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~-C~H~f~~~Cl~~~~~~~~-~------~~~~CP~Cr~~~~~~ 76 (103)
...+.|.+|.+ .+.....+.+-. =.|.||..|-+..++... . ....||+-...++..
T Consensus 266 ~apLcCTLC~E-RLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~vPWA 330 (352)
T KOG3579|consen 266 SAPLCCTLCHE-RLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNVPWA 330 (352)
T ss_pred CCceeehhhhh-hhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCcccHH
Confidence 45678999999 544443333211 279999999998776541 1 235677776665533
No 139
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=71.68 E-value=8 Score=32.14 Aligned_cols=51 Identities=16% Similarity=0.393 Sum_probs=33.9
Q ss_pred CccccccccccccCC---CC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSD---ES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~---~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
....|.||-+ .+-. ++ .+.+.-|+--.|..|.+ +-++ .++..||.|++...
T Consensus 16 ~~qiCqICGD-~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~--eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGD-NVGKTVDGEPFVACDVCAFPVCRPCYE-YERK--DGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeeccc-ccCcCCCCCEEEEeccCCCccccchhh-hhhh--cCCccCCccCCchh
Confidence 4458999999 4322 22 34555577789999984 3222 35689999987664
No 140
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=71.32 E-value=1.3 Score=32.59 Aligned_cols=54 Identities=17% Similarity=0.405 Sum_probs=0.0
Q ss_pred ccccccccccccC---------------CCCceEecCCCchhhHHHHHHHHHhc-CCC----CCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYS---------------DESAMIRMQCSHIFHADCITPWLEER-LGK----SCACPVCPFQMP 74 (103)
Q Consensus 21 ~~~C~IC~~~~~~---------------~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~----~~~CP~Cr~~~~ 74 (103)
..+||+|+..... ..+.....||||+.-.....-|.+-. +.+ ...||+|-..+.
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp --------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 6789999971111 01123345899987777777776543 111 257999977664
No 141
>PLN02195 cellulose synthase A
Probab=71.26 E-value=8.5 Score=31.67 Aligned_cols=51 Identities=20% Similarity=0.316 Sum_probs=34.9
Q ss_pred CccccccccccccCC---C-CceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSD---E-SAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~---~-~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
....|.||-+ .+-. + .-+.+.-|+--.|..|.+ +-+ + .++..||.|++...
T Consensus 5 ~~~~c~~cgd-~~~~~~~g~~fvaC~eC~~pvCrpCye-yer-~-eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGE-EVGVDSNGEAFVACHECSYPLCKACLE-YEI-K-EGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceeccc-ccCcCCCCCeEEEeccCCCccccchhh-hhh-h-cCCccCCccCCccc
Confidence 4458999998 4322 1 235555688889999984 322 2 36689999998877
No 142
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=71.08 E-value=3.6 Score=28.14 Aligned_cols=28 Identities=14% Similarity=0.261 Sum_probs=20.5
Q ss_pred hhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125 47 FHADCITPWLEERLGKSCACPVCPFQMPLPSF 78 (103)
Q Consensus 47 f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~ 78 (103)
-|..|....-+.. ..||+|+.....+..
T Consensus 196 ~C~sC~qqIHRNA----PiCPlCK~KsRSrnp 223 (230)
T PF10146_consen 196 TCQSCHQQIHRNA----PICPLCKAKSRSRNP 223 (230)
T ss_pred hhHhHHHHHhcCC----CCCcccccccccCCC
Confidence 5677877766666 899999887655443
No 143
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=68.99 E-value=9.5 Score=31.64 Aligned_cols=52 Identities=15% Similarity=0.398 Sum_probs=34.5
Q ss_pred CCccccccccccccCC---CC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSD---ES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~---~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
-....|.||-+ .+-. ++ .+.+.-|+--.|..|.+ +-++ .++..||.|++...
T Consensus 13 ~~~~~c~iCGd-~vg~~~~Ge~FVAC~eC~fpvCr~cye-ye~~--~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 13 ADAKTCRVCGD-EVGVKEDGQPFVACHVCGFPVCKPCYE-YERS--EGNQCCPQCNTRYK 68 (1044)
T ss_pred CCcchhhcccc-ccCcCCCCCEEEEeccCCCccccchhh-hhhh--cCCccCCccCCchh
Confidence 35668999999 4322 22 34555578789999984 3222 35689999987654
No 144
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=67.67 E-value=1.5 Score=23.72 Aligned_cols=35 Identities=20% Similarity=0.511 Sum_probs=16.7
Q ss_pred CCccccccccccccCC-CCceEecCCCchhhHHHHHH
Q 034125 19 DEEAECAICLEKEYSD-ESAMIRMQCSHIFHADCITP 54 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~-~~~~~~~~C~H~f~~~Cl~~ 54 (103)
.+...|.+|.. .|.. ......-.||+.||..|...
T Consensus 7 ~~~~~C~~C~~-~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 7 SEASNCMICGK-KFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GG-SB-TTT---B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCCcCcCcCC-cCCCceeeEccCCCCCEECCchhCC
Confidence 45568999999 5533 33444456999999888643
No 145
>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 KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.13 E-value=5.2 Score=27.86 Aligned_cols=39 Identities=10% Similarity=0.276 Sum_probs=27.7
Q ss_pred CCCCCCCccccccccccccCCCCceEecCCCchhhHHHHHHHH
Q 034125 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWL 56 (103)
Q Consensus 14 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~ 56 (103)
..++...-.-|..|+. ....+++. +=||.|+..||..++
T Consensus 36 grDsiK~FdcCsLtLq--Pc~dPvit--~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 36 GRDSIKPFDCCSLTLQ--PCRDPVIT--PDGYLFDREAILEYI 74 (303)
T ss_pred cccccCCcceeeeecc--cccCCccC--CCCeeeeHHHHHHHH
Confidence 3444455667889998 34444444 789999999999875
No 147
>PLN02436 cellulose synthase A
Probab=67.09 E-value=9.7 Score=31.70 Aligned_cols=51 Identities=22% Similarity=0.434 Sum_probs=33.5
Q ss_pred CccccccccccccC---CCC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYS---DES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 20 ~~~~C~IC~~~~~~---~~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
....|.||-+ ++- .++ .+.+--|+--.|..|.+- -++ .++..||.|++...
T Consensus 35 ~~~iCqICGD-~Vg~t~dGe~FVACn~C~fpvCr~Cyey-er~--eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGD-EIELTVDGEPFVACNECAFPVCRPCYEY-ERR--EGNQACPQCKTRYK 89 (1094)
T ss_pred CCcccccccc-ccCcCCCCCEEEeeccCCCccccchhhh-hhh--cCCccCcccCCchh
Confidence 3448999999 532 222 244445787899999843 222 35589999987654
No 148
>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=66.41 E-value=0.52 Score=33.00 Aligned_cols=50 Identities=18% Similarity=0.276 Sum_probs=19.6
Q ss_pred CCCCCccccccccccccCCCCceEecC---CCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 16 NHTDEEAECAICLEKEYSDESAMIRMQ---CSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 16 ~~~~~~~~C~IC~~~~~~~~~~~~~~~---C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
...+....||||-. ..... .+..-. =.+.+|..|-..|.-.+ ..||.|-.
T Consensus 167 ~~~w~~g~CPvCGs-~P~~s-~l~~~~~~G~R~L~Cs~C~t~W~~~R----~~Cp~Cg~ 219 (290)
T PF04216_consen 167 PEGWQRGYCPVCGS-PPVLS-VLRGGEREGKRYLHCSLCGTEWRFVR----IKCPYCGN 219 (290)
T ss_dssp ---TT-SS-TTT----EEEE-EEE------EEEEEETTT--EEE--T----TS-TTT--
T ss_pred cCCccCCcCCCCCC-cCceE-EEecCCCCccEEEEcCCCCCeeeecC----CCCcCCCC
Confidence 34466789999988 21111 011000 13456667888887666 78999954
No 149
>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=66.20 E-value=7.1 Score=17.89 Aligned_cols=36 Identities=19% Similarity=0.575 Sum_probs=20.4
Q ss_pred cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
|..|.. .+....... ..=+..||..| +.|..|...+
T Consensus 2 C~~C~~-~i~~~~~~~-~~~~~~~H~~C------------f~C~~C~~~L 37 (39)
T smart00132 2 CAGCGK-PIRGGELVL-RALGKVWHPEC------------FKCSKCGKPL 37 (39)
T ss_pred ccccCC-cccCCcEEE-EeCCccccccC------------CCCcccCCcC
Confidence 667777 333321222 12466788777 5677776655
No 150
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=66.03 E-value=5 Score=29.30 Aligned_cols=12 Identities=25% Similarity=0.637 Sum_probs=9.8
Q ss_pred CCCccccccccc
Q 034125 18 TDEEAECAICLE 29 (103)
Q Consensus 18 ~~~~~~C~IC~~ 29 (103)
.+.+.-||||-+
T Consensus 12 edl~ElCPVCGD 23 (475)
T KOG4218|consen 12 EDLGELCPVCGD 23 (475)
T ss_pred cccccccccccC
Confidence 466778999999
No 151
>PLN02400 cellulose synthase
Probab=65.74 E-value=7.7 Score=32.26 Aligned_cols=51 Identities=18% Similarity=0.466 Sum_probs=33.9
Q ss_pred CccccccccccccCC---CC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYSD---ES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~---~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
....|.||-+ ++-. ++ .+.+.-|+--.|..|.+ + +.+ .++..||.|++...
T Consensus 35 ~gqiCqICGD-~VG~t~dGe~FVAC~eCaFPVCRpCYE-Y-ERk-eGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGD-DVGVTETGDVFVACNECAFPVCRPCYE-Y-ERK-DGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeeccc-ccCcCCCCCEEEEEccCCCccccchhh-e-ecc-cCCccCcccCCccc
Confidence 3448999999 4322 22 35555688789999984 2 222 46689999987764
No 152
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.13 E-value=4.2 Score=29.83 Aligned_cols=38 Identities=21% Similarity=0.433 Sum_probs=25.1
Q ss_pred cccccccccccc--CCCCceEecCCCchhhHHHHHHHHHhc
Q 034125 21 EAECAICLEKEY--SDESAMIRMQCSHIFHADCITPWLEER 59 (103)
Q Consensus 21 ~~~C~IC~~~~~--~~~~~~~~~~C~H~f~~~Cl~~~~~~~ 59 (103)
-..|+.|.- .+ ..+-....-.|+|.||..|...|....
T Consensus 306 wr~CpkC~~-~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~ 345 (384)
T KOG1812|consen 306 WRQCPKCKF-MIELSEGCNHMTCRCGHQFCYMCGGDWKTHN 345 (384)
T ss_pred cCcCcccce-eeeecCCcceEEeeccccchhhcCcchhhCC
Confidence 446887776 32 222222222499999999999998766
No 153
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=62.02 E-value=6.4 Score=27.07 Aligned_cols=28 Identities=14% Similarity=0.277 Sum_probs=19.4
Q ss_pred hhHHHHHHHHHhcCCCCCCCCCCCCCCCCCCh
Q 034125 47 FHADCITPWLEERLGKSCACPVCPFQMPLPSF 78 (103)
Q Consensus 47 f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~ 78 (103)
.|..|..+.-+.. ..||+|+.....++.
T Consensus 251 ~ClsChqqIHRNA----PiCPlCKaKsRSrNP 278 (286)
T KOG4451|consen 251 VCLSCHQQIHRNA----PICPLCKAKSRSRNP 278 (286)
T ss_pred HHHHHHHHHhcCC----CCCcchhhccccCCC
Confidence 5666776665655 899999877655443
No 154
>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=61.87 E-value=7.7 Score=17.44 Aligned_cols=29 Identities=17% Similarity=0.427 Sum_probs=10.0
Q ss_pred ccccccccccCCCCceEecCCCchhhHHHH
Q 034125 23 ECAICLEKEYSDESAMIRMQCSHIFHADCI 52 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl 52 (103)
.|.+|.. ............|.-.+|..|+
T Consensus 2 ~C~~C~~-~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGK-PIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS-----S--EEE-TTT-----HHHH
T ss_pred cCCcCCC-cCCCCceEECccCCCccChhcC
Confidence 5777777 3222244555668888888874
No 155
>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=61.50 E-value=6.5 Score=20.18 Aligned_cols=35 Identities=17% Similarity=0.436 Sum_probs=22.4
Q ss_pred cccccccccccCC-CCceEecCCCchhhHHHHHHHHH
Q 034125 22 AECAICLEKEYSD-ESAMIRMQCSHIFHADCITPWLE 57 (103)
Q Consensus 22 ~~C~IC~~~~~~~-~~~~~~~~C~H~f~~~Cl~~~~~ 57 (103)
..|.+|.. .|.. ........||+.||..|......
T Consensus 3 ~~C~~C~~-~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGK-PFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCc-cccCCccccccCcCcCCcChHHcCCeee
Confidence 46788876 4433 22334446999999999876443
No 156
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.47 E-value=7.5 Score=30.67 Aligned_cols=52 Identities=31% Similarity=0.445 Sum_probs=34.7
Q ss_pred ccccccccccCCCCceEecCCCc-hhhHHHHHHHHHhcC--CCCCCCCCCCCCCCCCCh
Q 034125 23 ECAICLEKEYSDESAMIRMQCSH-IFHADCITPWLEERL--GKSCACPVCPFQMPLPSF 78 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~H-~f~~~Cl~~~~~~~~--~~~~~CP~Cr~~~~~~~~ 78 (103)
.|+||-. ....+..-.|+| ..|..|..+...... .....||+||..+.....
T Consensus 2 ~c~ic~~----s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s~ 56 (669)
T KOG2231|consen 2 SCAICAF----SPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKSN 56 (669)
T ss_pred Ccceeec----CccccccccccccccchhhhhhhhhhcccccccccCcccccceeeecc
Confidence 5888888 333344457999 899999988654331 224678999987654433
No 157
>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=60.64 E-value=3.5 Score=21.36 Aligned_cols=13 Identities=23% Similarity=0.634 Sum_probs=6.6
Q ss_pred CCCCCCCCCCCCC
Q 034125 64 CACPVCPFQMPLP 76 (103)
Q Consensus 64 ~~CP~Cr~~~~~~ 76 (103)
..||+|.+++...
T Consensus 21 ~~CPlC~r~l~~e 33 (54)
T PF04423_consen 21 GCCPLCGRPLDEE 33 (54)
T ss_dssp EE-TTT--EE-HH
T ss_pred CcCCCCCCCCCHH
Confidence 3899998877543
No 158
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=60.47 E-value=12 Score=21.28 Aligned_cols=51 Identities=16% Similarity=0.394 Sum_probs=19.5
Q ss_pred CccccccccccccC---CCC-ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 20 EEAECAICLEKEYS---DES-AMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 20 ~~~~C~IC~~~~~~---~~~-~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
....|.||-+ .+- .+. .+...-|+--.|..|..-= .+ .+...||.|++...
T Consensus 8 ~~qiCqiCGD-~VGl~~~Ge~FVAC~eC~fPvCr~CyEYE--rk-eg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGD-DVGLTENGEVFVACHECAFPVCRPCYEYE--RK-EGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS---B--B-SSSSB--S-SSS-----HHHHHHH--HH-TS-SB-TTT--B--
T ss_pred CCcccccccC-ccccCCCCCEEEEEcccCCccchhHHHHH--hh-cCcccccccCCCcc
Confidence 4568999998 432 122 2344457888899998642 22 34578999987653
No 159
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=60.32 E-value=13 Score=22.59 Aligned_cols=44 Identities=23% Similarity=0.485 Sum_probs=30.1
Q ss_pred cccccccccccCCCC-----------ceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDES-----------AMIRMQCSHIFHADCITPWLEERLGKSCACPVCP 70 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~-----------~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr 70 (103)
..|--|.. .+.... ....-.|.+.||.+|-..+-+.- ..||-|-
T Consensus 56 ~~C~~C~~-~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~L----h~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQG-PFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESL----HCCPGCI 110 (112)
T ss_pred CcccCcCC-CCCCcccccccccccccceeCCCCCCccccccchhhhhhc----cCCcCCC
Confidence 45888888 444321 12234599999999987776666 6899984
No 160
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=58.36 E-value=5.9 Score=27.76 Aligned_cols=52 Identities=25% Similarity=0.556 Sum_probs=32.8
Q ss_pred ccccccccccc-CCCCceEec---CCCchhhHHHHHHHH-HhcCC----CCCCCCCCCCCCC
Q 034125 22 AECAICLEKEY-SDESAMIRM---QCSHIFHADCITPWL-EERLG----KSCACPVCPFQMP 74 (103)
Q Consensus 22 ~~C~IC~~~~~-~~~~~~~~~---~C~H~f~~~Cl~~~~-~~~~~----~~~~CP~Cr~~~~ 74 (103)
.+|-+|.. .+ ..+.....- .|.-.+|..|+...+ ....+ -...||.|++.+.
T Consensus 183 ~~celc~~-ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~ 243 (276)
T KOG3005|consen 183 VECELCEK-EILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLS 243 (276)
T ss_pred hhhHHHHH-HhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceee
Confidence 58999998 65 333222211 288899999998833 22211 2467999988554
No 161
>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=57.99 E-value=11 Score=20.05 Aligned_cols=45 Identities=29% Similarity=0.597 Sum_probs=27.1
Q ss_pred ccccccccccCCCCceEecCCC--chhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125 23 ECAICLEKEYSDESAMIRMQCS--HIFHADCITPWLEERLGKSCACPVCPFQMPL 75 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~--H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~ 75 (103)
.|-.|-. .+........ -|. ..||..|....+. ..||-|...+..
T Consensus 7 nCE~C~~-dLp~~s~~A~-ICSfECTFC~~C~e~~l~------~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDK-DLPPDSPEAY-ICSFECTFCADCAETMLN------GVCPNCGGELVR 53 (57)
T ss_pred CccccCC-CCCCCCCcce-EEeEeCcccHHHHHHHhc------CcCcCCCCcccc
Confidence 4555555 4333331111 153 3599999988774 469999877643
No 162
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.73 E-value=8.9 Score=22.51 Aligned_cols=14 Identities=29% Similarity=0.840 Sum_probs=12.4
Q ss_pred hhhHHHHHHHHHhc
Q 034125 46 IFHADCITPWLEER 59 (103)
Q Consensus 46 ~f~~~Cl~~~~~~~ 59 (103)
.||..|+..|....
T Consensus 42 gFCRNCLs~Wy~ea 55 (104)
T COG3492 42 GFCRNCLSNWYREA 55 (104)
T ss_pred HHHHHHHHHHHHHH
Confidence 59999999999765
No 163
>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=56.15 E-value=6.3 Score=20.14 Aligned_cols=40 Identities=18% Similarity=0.427 Sum_probs=25.7
Q ss_pred cccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~ 77 (103)
|..|.. .+.....+ ...-+..||..| ..|-.|+..+....
T Consensus 1 C~~C~~-~I~~~~~~-~~~~~~~~H~~C------------f~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGK-PIYGTEIV-IKAMGKFWHPEC------------FKCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSS-BESSSSEE-EEETTEEEETTT------------SBETTTTCBTTTSS
T ss_pred CCCCCC-CccCcEEE-EEeCCcEEEccc------------cccCCCCCccCCCe
Confidence 566777 43433322 124677899888 67999988876554
No 164
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=55.71 E-value=21 Score=21.17 Aligned_cols=28 Identities=14% Similarity=0.201 Sum_probs=16.7
Q ss_pred CCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 034125 43 CSHIFHADCITPWLEERLGKSCACPVCPFQMPL 75 (103)
Q Consensus 43 C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~ 75 (103)
||+--+..-+..+... ..||.|+.++.+
T Consensus 65 CGvC~~~LT~~EY~~~-----~~Cp~C~spFNp 92 (105)
T COG4357 65 CGVCRKLLTRAEYGMC-----GSCPYCQSPFNP 92 (105)
T ss_pred hhhhhhhhhHHHHhhc-----CCCCCcCCCCCc
Confidence 6665554444444332 469999887754
No 165
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=55.52 E-value=7.6 Score=20.88 Aligned_cols=21 Identities=24% Similarity=0.789 Sum_probs=13.7
Q ss_pred HHHHhc--CCCCCCCCCCCCCCC
Q 034125 54 PWLEER--LGKSCACPVCPFQMP 74 (103)
Q Consensus 54 ~~~~~~--~~~~~~CP~Cr~~~~ 74 (103)
.|++.. ......||+|..++.
T Consensus 28 gWmR~nFs~~~~p~CPlC~s~M~ 50 (59)
T PF14169_consen 28 GWMRDNFSFEEEPVCPLCKSPMV 50 (59)
T ss_pred cccccccccCCCccCCCcCCccc
Confidence 366554 224478999987764
No 166
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.29 E-value=4.7 Score=28.75 Aligned_cols=47 Identities=21% Similarity=0.451 Sum_probs=33.5
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ 72 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~ 72 (103)
.....|-||.. .+....... .|.|.|+..|...|.+.. ..||.|+..
T Consensus 103 ~~~~~~~~~~g-~l~vpt~~q--g~w~qf~~~~p~~~~~~~----~~~~d~~~~ 149 (324)
T KOG0824|consen 103 QDHDICYICYG-KLTVPTRIQ--GCWHQFCYVCPKSNFAMG----NDCPDCRGK 149 (324)
T ss_pred CCccceeeeee-eEEeccccc--CceeeeeecCCchhhhhh----hccchhhcC
Confidence 45567888888 544432222 499999999999998877 677777643
No 167
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=53.06 E-value=7.4 Score=24.41 Aligned_cols=21 Identities=33% Similarity=0.710 Sum_probs=13.6
Q ss_pred cccccccCCCCceEecCCCchhhHH
Q 034125 26 ICLEKEYSDESAMIRMQCSHIFHAD 50 (103)
Q Consensus 26 IC~~~~~~~~~~~~~~~C~H~f~~~ 50 (103)
||.+ ....+++-.|||.|+..
T Consensus 62 i~qs----~~~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQS----AQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEec----ccccEEEEeccccccCh
Confidence 5555 33335656799999864
No 168
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=52.90 E-value=17 Score=21.42 Aligned_cols=32 Identities=25% Similarity=0.595 Sum_probs=22.8
Q ss_pred CccccccccccccCCCCceEecC--CCchhhHHHHHH
Q 034125 20 EEAECAICLEKEYSDESAMIRMQ--CSHIFHADCITP 54 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~~~~~~~~--C~H~f~~~Cl~~ 54 (103)
....|.||.. . .+..+.... |...||..|...
T Consensus 54 ~~~~C~iC~~-~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGK-S--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCC-C--CceeEEcCCCCCCcCCCHHHHHH
Confidence 4678999999 3 343444433 888999999855
No 169
>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=52.03 E-value=8.2 Score=23.36 Aligned_cols=48 Identities=21% Similarity=0.406 Sum_probs=29.0
Q ss_pred Cccccccccccc-cCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125 20 EEAECAICLEKE-YSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP 70 (103)
Q Consensus 20 ~~~~C~IC~~~~-~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr 70 (103)
.+..|.+|..+. +..+.......|.|.+|..|-.. ........|-+|.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~---~~~~~~WlC~vC~ 101 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY---SKKEPIWLCKVCQ 101 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE---TSSSCCEEEHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc---CCCCCCEEChhhH
Confidence 556899998721 23344566678999999998654 1112345677763
No 170
>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=51.38 E-value=0.8 Score=25.49 Aligned_cols=39 Identities=23% Similarity=0.542 Sum_probs=17.3
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
..||.|.. .+... =++.+|..|-..+... ..||-|..++
T Consensus 2 ~~CP~C~~-~L~~~-------~~~~~C~~C~~~~~~~-----a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQ-ELEWQ-------GGHYHCEACQKDYKKE-----AFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-S-BEEEE-------TTEEEETTT--EEEEE-----EE-TTT-SB-
T ss_pred CcCCCCCC-ccEEe-------CCEEECccccccceec-----ccCCCcccHH
Confidence 56888888 32211 2555666666543332 4788887665
No 171
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=50.61 E-value=7.6 Score=30.83 Aligned_cols=50 Identities=28% Similarity=0.616 Sum_probs=34.6
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ 72 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~ 72 (103)
.+...|.||.+ .+..+..-.|--.||..|+..=+.....+...||.|-.+
T Consensus 45 ~~~e~c~ic~~----~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~p 94 (696)
T KOG0383|consen 45 AEQEACRICAD----GGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFCP 94 (696)
T ss_pred hhhhhhhhhcC----CCcEEEeccccHHHHHHccCCCCCcCCccceeeeeeccC
Confidence 45678999999 565556557889999999965443332333889988433
No 172
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=50.31 E-value=11 Score=29.90 Aligned_cols=43 Identities=19% Similarity=0.340 Sum_probs=28.4
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCP 70 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr 70 (103)
...|-+|..+......+...+.|+..||..|... -+ ..||+|.
T Consensus 654 ~r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~---~~----~~~~vC~ 696 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVCRTTFCYTPYCVACSLD---YA----SISEVCG 696 (717)
T ss_pred HHHHHHhcCCcCccccccCccccCCcchHhhhhh---hh----ccCcccC
Confidence 3468888883333333445557999999998544 33 5689993
No 173
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=50.04 E-value=9.8 Score=29.95 Aligned_cols=50 Identities=22% Similarity=0.609 Sum_probs=32.5
Q ss_pred ccccccccccccC--CCCceEecCCCchhhHHHHHHHHHhc-CCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYS--DESAMIRMQCSHIFHADCITPWLEER-LGKSCACPVCPF 71 (103)
Q Consensus 21 ~~~C~IC~~~~~~--~~~~~~~~~C~H~f~~~Cl~~~~~~~-~~~~~~CP~Cr~ 71 (103)
...|+||-. .-. .+..+..-.|+-.||..|+..|+... ..++..||-||.
T Consensus 18 ~~mc~l~~s-~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 18 CLMCPLCGS-SGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhcc-ccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 445666665 211 12233444588999999999999876 234578998874
No 174
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=49.71 E-value=19 Score=21.29 Aligned_cols=37 Identities=14% Similarity=0.312 Sum_probs=28.1
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHHHhc
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER 59 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~ 59 (103)
...|.||-. ....+......+ .-..|..|+..-...+
T Consensus 6 ewkC~VCg~-~iieGqkFTF~~-kGsVH~eCl~~s~~~k 42 (103)
T COG4847 6 EWKCYVCGG-TIIEGQKFTFTK-KGSVHYECLAESKRKK 42 (103)
T ss_pred eeeEeeeCC-EeeeccEEEEee-CCcchHHHHHHHHhcC
Confidence 467999999 777777777666 5568999998765554
No 175
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.57 E-value=17 Score=20.44 Aligned_cols=27 Identities=30% Similarity=0.527 Sum_probs=20.1
Q ss_pred CchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125 44 SHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76 (103)
Q Consensus 44 ~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~ 76 (103)
.+.||..|...-+. ..||.|...+...
T Consensus 28 EcTFCadCae~~l~------g~CPnCGGelv~R 54 (84)
T COG3813 28 ECTFCADCAENRLH------GLCPNCGGELVAR 54 (84)
T ss_pred eeehhHhHHHHhhc------CcCCCCCchhhcC
Confidence 47799999886544 5699998776533
No 176
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=48.88 E-value=8.7 Score=29.94 Aligned_cols=52 Identities=25% Similarity=0.492 Sum_probs=35.1
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhc--CCCCCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER--LGKSCACPVCPFQMP 74 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~--~~~~~~CP~Cr~~~~ 74 (103)
..|.-|.....+ ...+..=.|-..||..||.+=+... +.+...||.|...+.
T Consensus 254 ~fCsaCn~~~~F-~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k~~ 307 (613)
T KOG4299|consen 254 DFCSACNGSGLF-NDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIKSV 307 (613)
T ss_pred HHHHHhCCcccc-ccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeeeee
Confidence 378889883333 2223333488999999999864332 456789999986654
No 177
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=48.57 E-value=5.6 Score=28.43 Aligned_cols=48 Identities=15% Similarity=0.328 Sum_probs=27.9
Q ss_pred CCCccccccccccccCCCCceEe-cC--CCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 18 TDEEAECAICLEKEYSDESAMIR-MQ--CSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 18 ~~~~~~C~IC~~~~~~~~~~~~~-~~--C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
.+....||||-. ..... .+.. -. =.+.+|..|-..|--.+ ..||.|..
T Consensus 184 ~~~~~~CPvCGs-~P~~s-~v~~~~~~G~RyL~CslC~teW~~~R----~~C~~Cg~ 234 (309)
T PRK03564 184 GEQRQFCPVCGS-MPVSS-VVQIGTTQGLRYLHCNLCESEWHVVR----VKCSNCEQ 234 (309)
T ss_pred ccCCCCCCCCCC-cchhh-eeeccCCCCceEEEcCCCCCcccccC----ccCCCCCC
Confidence 346789999998 32111 1100 01 12345566777787666 78999964
No 178
>PLN02248 cellulose synthase-like protein
Probab=47.86 E-value=54 Score=27.75 Aligned_cols=28 Identities=21% Similarity=0.484 Sum_probs=23.5
Q ss_pred CCchhhHHHHHHHHHhcCCCCCCCCCCCCCCC
Q 034125 43 CSHIFHADCITPWLEERLGKSCACPVCPFQMP 74 (103)
Q Consensus 43 C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~ 74 (103)
|+..+|.+|...-+... ..||-|+.+..
T Consensus 150 ~~~~~~~~~~~~~~~~~----~~~~~~~~~~~ 177 (1135)
T PLN02248 150 CGFKICRDCYIDAVKSG----GICPGCKEPYK 177 (1135)
T ss_pred ccchhHHhHhhhhhhcC----CCCCCCccccc
Confidence 78899999998887776 79999987664
No 179
>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=47.19 E-value=9 Score=16.86 Aligned_cols=11 Identities=45% Similarity=1.141 Sum_probs=8.5
Q ss_pred CCCCCCCCCCC
Q 034125 64 CACPVCPFQMP 74 (103)
Q Consensus 64 ~~CP~Cr~~~~ 74 (103)
..||+|...+.
T Consensus 2 v~CPiC~~~v~ 12 (26)
T smart00734 2 VQCPVCFREVP 12 (26)
T ss_pred CcCCCCcCccc
Confidence 47999987773
No 180
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=45.96 E-value=1.7 Score=18.73 Aligned_cols=8 Identities=38% Similarity=0.812 Sum_probs=3.7
Q ss_pred CCCCCCCC
Q 034125 64 CACPVCPF 71 (103)
Q Consensus 64 ~~CP~Cr~ 71 (103)
..||.|.+
T Consensus 14 ~fC~~CG~ 21 (23)
T PF13240_consen 14 KFCPNCGT 21 (23)
T ss_pred cchhhhCC
Confidence 34555543
No 181
>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=45.60 E-value=5.7 Score=28.35 Aligned_cols=47 Identities=17% Similarity=0.331 Sum_probs=27.0
Q ss_pred CCccccccccccccCCCCceEec--C--CCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRM--Q--CSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~--~--C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
+....||||-. ..... .+... . =.+.+|..|-..|--.+ ..||.|..
T Consensus 182 ~~~~~CPvCGs-~P~~s-~~~~~~~~~G~RyL~CslC~teW~~~R----~~C~~Cg~ 232 (305)
T TIGR01562 182 ESRTLCPACGS-PPVAS-MVRQGGKETGLRYLSCSLCATEWHYVR----VKCSHCEE 232 (305)
T ss_pred CCCCcCCCCCC-hhhhh-hhcccCCCCCceEEEcCCCCCcccccC----ccCCCCCC
Confidence 44568999998 32111 11100 0 12345556777787666 78999965
No 182
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=44.93 E-value=8.6 Score=27.05 Aligned_cols=55 Identities=22% Similarity=0.455 Sum_probs=31.8
Q ss_pred ccccccccccccCCCCc------eEecCCCchhhHHHHH-HHHHhc------CCCCCCCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESA------MIRMQCSHIFHADCIT-PWLEER------LGKSCACPVCPFQMPLP 76 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~------~~~~~C~H~f~~~Cl~-~~~~~~------~~~~~~CP~Cr~~~~~~ 76 (103)
...|.+|-- .|..-+. +-.|+|.-.+|..-+. +||.+. ..+.+.||.|.+.|..+
T Consensus 161 a~~C~~C~K-~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADR 228 (279)
T KOG2462|consen 161 AFSCKYCGK-VYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADR 228 (279)
T ss_pred cccCCCCCc-eeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcch
Confidence 345666665 4333221 1234666666666554 587654 22458999998887544
No 183
>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=44.52 E-value=9.1 Score=19.71 Aligned_cols=11 Identities=27% Similarity=0.769 Sum_probs=7.3
Q ss_pred CCCCCCCCCCC
Q 034125 64 CACPVCPFQMP 74 (103)
Q Consensus 64 ~~CP~Cr~~~~ 74 (103)
+.||+|...+.
T Consensus 3 f~CP~C~~~~~ 13 (54)
T PF05605_consen 3 FTCPYCGKGFS 13 (54)
T ss_pred cCCCCCCCccC
Confidence 67888866443
No 184
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=44.43 E-value=28 Score=27.37 Aligned_cols=58 Identities=17% Similarity=0.319 Sum_probs=30.4
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCCChh
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFE 79 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 79 (103)
.--+.|+|... .+.... +...|.|.=|.+-+.-.-...+.....||+|.+...-..+.
T Consensus 304 ~vSL~CPl~~~-Rm~~P~--r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l~ 361 (636)
T KOG2169|consen 304 RVSLNCPLSKM-RMSLPA--RGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGLI 361 (636)
T ss_pred eeEecCCcccc-eeecCC--cccccccceecchhhhHHhccCCCeeeCccCCccccccchh
Confidence 33456887776 333322 22257765443332211122245678999998776544444
No 185
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=44.25 E-value=8.8 Score=26.83 Aligned_cols=44 Identities=23% Similarity=0.408 Sum_probs=29.0
Q ss_pred cccccccCCCCceEecC--CC-chhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 26 ICLEKEYSDESAMIRMQ--CS-HIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 26 IC~~~~~~~~~~~~~~~--C~-H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
||.. ...+..+.+-. |. -.||..|+.-- ..+.+...||.|+...
T Consensus 223 ~Cnq--vsyg~Mi~CDn~~C~~eWFH~~CVGL~--~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 223 ICNQ--VSYGKMIGCDNPGCPIEWFHFTCVGLK--TKPKGKWYCPRCKAEN 269 (274)
T ss_pred Eecc--cccccccccCCCCCCcceEEEeccccc--cCCCCcccchhhhhhh
Confidence 4555 44555555443 77 78999998642 3344569999998754
No 186
>PRK01343 zinc-binding protein; Provisional
Probab=43.98 E-value=17 Score=19.38 Aligned_cols=12 Identities=25% Similarity=0.609 Sum_probs=9.5
Q ss_pred CCCCCCCCCCCC
Q 034125 63 SCACPVCPFQMP 74 (103)
Q Consensus 63 ~~~CP~Cr~~~~ 74 (103)
...||+|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 478999998764
No 187
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=43.54 E-value=0.8 Score=21.22 Aligned_cols=7 Identities=43% Similarity=1.198 Sum_probs=3.1
Q ss_pred CCCCCCC
Q 034125 64 CACPVCP 70 (103)
Q Consensus 64 ~~CP~Cr 70 (103)
..||.|.
T Consensus 22 r~C~~Cg 28 (32)
T PF09297_consen 22 RRCPSCG 28 (32)
T ss_dssp EEESSSS
T ss_pred eECCCCc
Confidence 3444443
No 188
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=43.14 E-value=12 Score=19.37 Aligned_cols=23 Identities=26% Similarity=0.717 Sum_probs=11.8
Q ss_pred CCCchhhHHHHHHHHHhcCCCCCCCCCC
Q 034125 42 QCSHIFHADCITPWLEERLGKSCACPVC 69 (103)
Q Consensus 42 ~C~H~f~~~Cl~~~~~~~~~~~~~CP~C 69 (103)
.|||.|-..=-.+ .. ....||.|
T Consensus 33 ~Cgh~w~~~v~~R-~~----~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDR-TR----RGKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhh-cc----CCCCCCCC
Confidence 4677664322111 12 23689987
No 189
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=42.92 E-value=18 Score=24.83 Aligned_cols=25 Identities=20% Similarity=0.385 Sum_probs=15.1
Q ss_pred cccccccccccCCCCceEecCCCchh
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIF 47 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f 47 (103)
+.||||.. .+........-..+|.|
T Consensus 3 ~~CP~C~~-~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQ-PLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCc-chhcCCCEEEcCCCCCC
Confidence 67999999 55433332322447776
No 190
>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=42.61 E-value=20 Score=19.22 Aligned_cols=15 Identities=33% Similarity=0.720 Sum_probs=11.6
Q ss_pred CCCCCCCCCCCCCCC
Q 034125 63 SCACPVCPFQMPLPS 77 (103)
Q Consensus 63 ~~~CP~Cr~~~~~~~ 77 (103)
+..||.|..+++.+.
T Consensus 3 HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDE 17 (59)
T ss_pred CCcCCcCCCcCCcch
Confidence 478999998887543
No 191
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=41.72 E-value=8.9 Score=28.97 Aligned_cols=51 Identities=18% Similarity=0.456 Sum_probs=31.8
Q ss_pred ccccccccccccCCC-CceEecCCCchhhHHHHHHHHHhc----CCCCCCCCCCCC
Q 034125 21 EAECAICLEKEYSDE-SAMIRMQCSHIFHADCITPWLEER----LGKSCACPVCPF 71 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~~~~~~----~~~~~~CP~Cr~ 71 (103)
...|.+|+....... +.+.+-.|+..||..|........ ....+.|-.|..
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 345999997122222 233333588999999987765322 345678988964
No 192
>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=40.38 E-value=29 Score=22.43 Aligned_cols=27 Identities=19% Similarity=0.422 Sum_probs=19.4
Q ss_pred CCchhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125 43 CSHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76 (103)
Q Consensus 43 C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~ 76 (103)
=.+.||..|...-.. .||.|..+++..
T Consensus 26 ~~~~fC~kCG~~tI~-------~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 26 LREKFCSKCGAKTIT-------SCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHHHhhHHHHH-------HCcCCCCCCCCc
Confidence 346799999876443 589998877643
No 193
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=40.11 E-value=4.8 Score=21.01 Aligned_cols=14 Identities=36% Similarity=1.089 Sum_probs=11.8
Q ss_pred CCCchhhHHHHHHH
Q 034125 42 QCSHIFHADCITPW 55 (103)
Q Consensus 42 ~C~H~f~~~Cl~~~ 55 (103)
.|++.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 58999999998776
No 194
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=39.89 E-value=25 Score=17.42 Aligned_cols=21 Identities=19% Similarity=0.545 Sum_probs=12.7
Q ss_pred cccccccccCCCCceEecCCCchhh
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFH 48 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~ 48 (103)
|..|.. .......|.|++++|
T Consensus 2 C~~C~~----~~~l~~CL~C~~~~c 22 (50)
T smart00290 2 CSVCGT----IENLWLCLTCGQVGC 22 (50)
T ss_pred cccCCC----cCCeEEecCCCCccc
Confidence 556665 223456667887776
No 195
>KOG1140 consensus N-end rule pathway, recognition component UBR1 [Posttranslational modification, protein turnover, chaperones]
Probab=39.87 E-value=38 Score=29.90 Aligned_cols=31 Identities=23% Similarity=0.680 Sum_probs=23.4
Q ss_pred CCCchhhHHHHHHHHHhc----------------CCCCCCCCCCCCC
Q 034125 42 QCSHIFHADCITPWLEER----------------LGKSCACPVCPFQ 72 (103)
Q Consensus 42 ~C~H~f~~~Cl~~~~~~~----------------~~~~~~CP~Cr~~ 72 (103)
.|||..|..|+..++... ..+...||.|+..
T Consensus 1150 ~c~h~mh~~c~~~~~~a~r~~~n~~~~~l~~~~se~~l~lCp~c~sl 1196 (1738)
T KOG1140|consen 1150 SCGHHMHYGCFKRYVQAKRFRENARTAPLCQHYSENGLFLCPLCKSL 1196 (1738)
T ss_pred ccCCcchHHHHHHHHHHHHHHHHhhhcCcccccccCCcccCCchHhh
Confidence 699999999999987543 1144579999754
No 196
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=39.41 E-value=8 Score=31.27 Aligned_cols=51 Identities=14% Similarity=0.249 Sum_probs=31.9
Q ss_pred CCccccccccccccCCCCceEecCCCchhhHHHHHHHH--HhcCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWL--EERLGKSCACPVCPF 71 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~--~~~~~~~~~CP~Cr~ 71 (103)
.....|-.|.. ..+. -..++-.|++.+|..|+..|. .........|++|+.
T Consensus 227 g~~~mC~~C~~-tlfn-~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 227 GIREMCDRCET-TLFN-IHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred Ccchhhhhhcc-cccc-eeEEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 44567888888 3222 234445699999999999995 111223356666653
No 197
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=39.05 E-value=15 Score=17.46 Aligned_cols=7 Identities=29% Similarity=0.895 Sum_probs=3.8
Q ss_pred ccccccc
Q 034125 23 ECAICLE 29 (103)
Q Consensus 23 ~C~IC~~ 29 (103)
+|+=|..
T Consensus 4 ~Cp~C~~ 10 (36)
T PF13717_consen 4 TCPNCQA 10 (36)
T ss_pred ECCCCCC
Confidence 4555555
No 198
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=38.51 E-value=20 Score=19.41 Aligned_cols=11 Identities=27% Similarity=0.797 Sum_probs=8.9
Q ss_pred CCCCCCCCCCC
Q 034125 64 CACPVCPFQMP 74 (103)
Q Consensus 64 ~~CP~Cr~~~~ 74 (103)
..||+|++.+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 67999998763
No 199
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=38.07 E-value=9.3 Score=16.57 Aligned_cols=15 Identities=20% Similarity=0.671 Sum_probs=10.4
Q ss_pred CCCCCCCCCCCCCCh
Q 034125 64 CACPVCPFQMPLPSF 78 (103)
Q Consensus 64 ~~CP~Cr~~~~~~~~ 78 (103)
..||+|...+....+
T Consensus 3 ~~C~~CgR~F~~~~l 17 (25)
T PF13913_consen 3 VPCPICGRKFNPDRL 17 (25)
T ss_pred CcCCCCCCEECHHHH
Confidence 469999877755444
No 200
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=37.93 E-value=14 Score=23.52 Aligned_cols=17 Identities=24% Similarity=0.673 Sum_probs=12.5
Q ss_pred CCCCCCCCCCCCCCChh
Q 034125 63 SCACPVCPFQMPLPSFE 79 (103)
Q Consensus 63 ~~~CP~Cr~~~~~~~~~ 79 (103)
...||.||+.++.-.+.
T Consensus 9 ei~CPhCRQ~ipALtLT 25 (163)
T TIGR02652 9 EIRCPHCRQNIPALTLT 25 (163)
T ss_pred cCcCchhhcccchheec
Confidence 36899999988755444
No 201
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=36.59 E-value=15 Score=23.28 Aligned_cols=17 Identities=24% Similarity=0.667 Sum_probs=12.4
Q ss_pred CCCCCCCCCCCCCCChh
Q 034125 63 SCACPVCPFQMPLPSFE 79 (103)
Q Consensus 63 ~~~CP~Cr~~~~~~~~~ 79 (103)
...||.||+.++.-.+.
T Consensus 6 ei~CPhCRq~ipALtLT 22 (161)
T PF09654_consen 6 EIQCPHCRQTIPALTLT 22 (161)
T ss_pred cCcCchhhcccchheec
Confidence 36899999988654444
No 202
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=36.30 E-value=6.8 Score=27.61 Aligned_cols=31 Identities=29% Similarity=0.437 Sum_probs=19.4
Q ss_pred CCchhhHHHHHHHHHhcCCCCCCCCCCCCCC
Q 034125 43 CSHIFHADCITPWLEERLGKSCACPVCPFQM 73 (103)
Q Consensus 43 C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~ 73 (103)
=.|.||..|..+......+-...||.|+...
T Consensus 109 ~~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 109 RSHRFCGRCGTKTYPREGGWARVCPKCGHEH 139 (279)
T ss_pred hhCcCCCCCCCcCccccCceeeeCCCCCCcc
Confidence 4567777777665544434456788887654
No 203
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=34.88 E-value=23 Score=29.65 Aligned_cols=38 Identities=26% Similarity=0.642 Sum_probs=24.5
Q ss_pred CCCCCccccccccccccCCCCceE-ecCCCchhhHHHHH
Q 034125 16 NHTDEEAECAICLEKEYSDESAMI-RMQCSHIFHADCIT 53 (103)
Q Consensus 16 ~~~~~~~~C~IC~~~~~~~~~~~~-~~~C~H~f~~~Cl~ 53 (103)
...+++..|.||++..-.....+. +=.|+-..|..|..
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 445788899999993322222222 22488888888876
No 204
>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=34.04 E-value=26 Score=17.57 Aligned_cols=34 Identities=15% Similarity=0.405 Sum_probs=22.5
Q ss_pred Ccccccccccccc--CCCCceEecCCCchhhHHHHHH
Q 034125 20 EEAECAICLEKEY--SDESAMIRMQCSHIFHADCITP 54 (103)
Q Consensus 20 ~~~~C~IC~~~~~--~~~~~~~~~~C~H~f~~~Cl~~ 54 (103)
....|.+|.. .+ ..........|+-.+|..|+..
T Consensus 10 ~~~~C~~C~~-~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGK-FIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSS-BECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCCcccCc-ccCCCCCCeEEECCCCChHhhhhhhh
Confidence 4567999998 54 2444566667999999999743
No 205
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=33.92 E-value=24 Score=18.74 Aligned_cols=24 Identities=13% Similarity=0.447 Sum_probs=15.1
Q ss_pred cccccccccCCCCceEecCCCchhhHH
Q 034125 24 CAICLEKEYSDESAMIRMQCSHIFHAD 50 (103)
Q Consensus 24 C~IC~~~~~~~~~~~~~~~C~H~f~~~ 50 (103)
|.+|.. . .......|.|++.+|..
T Consensus 1 C~~C~~--~-~~~lw~CL~Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGS--T-NSNLWLCLTCGYVGCGR 24 (63)
T ss_dssp -SSSHT--C-SSSEEEETTTS-EEETT
T ss_pred CCCCCC--c-CCceEEeCCCCcccccC
Confidence 456665 1 35567788899988874
No 206
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=33.01 E-value=38 Score=18.94 Aligned_cols=33 Identities=24% Similarity=0.594 Sum_probs=22.2
Q ss_pred CCccccccccccccCCCCceEec--CCCchhhHHHHHH
Q 034125 19 DEEAECAICLEKEYSDESAMIRM--QCSHIFHADCITP 54 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~--~C~H~f~~~Cl~~ 54 (103)
.....|.+|.. . .+-.+... .|...||..|...
T Consensus 34 ~~~~~C~~C~~-~--~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 34 RRKLKCSICKK-K--GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred HhCCCCcCCCC-C--CCeEEEEeCCCCCcEEChHHHcc
Confidence 44568999998 2 24333322 4889999999764
No 207
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.70 E-value=28 Score=24.52 Aligned_cols=9 Identities=22% Similarity=0.574 Sum_probs=5.9
Q ss_pred CCCCCCCCC
Q 034125 64 CACPVCPFQ 72 (103)
Q Consensus 64 ~~CP~Cr~~ 72 (103)
..||.|...
T Consensus 270 ~~C~~Cgt~ 278 (279)
T TIGR00627 270 PICKTCKTA 278 (279)
T ss_pred CCCCCCCCC
Confidence 467777654
No 208
>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=31.56 E-value=27 Score=18.79 Aligned_cols=11 Identities=27% Similarity=0.920 Sum_probs=8.8
Q ss_pred CCCCCCCCCCC
Q 034125 64 CACPVCPFQMP 74 (103)
Q Consensus 64 ~~CP~Cr~~~~ 74 (103)
..||+|+..+.
T Consensus 3 ~~CPlCkt~~n 13 (61)
T PF05715_consen 3 SLCPLCKTTLN 13 (61)
T ss_pred ccCCcccchhh
Confidence 68999988763
No 209
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=30.42 E-value=13 Score=19.47 Aligned_cols=13 Identities=23% Similarity=0.843 Sum_probs=6.3
Q ss_pred CCCCCCCCCCCCC
Q 034125 62 KSCACPVCPFQMP 74 (103)
Q Consensus 62 ~~~~CP~Cr~~~~ 74 (103)
+..+||+|...+.
T Consensus 23 ~PatCP~C~a~~~ 35 (54)
T PF09237_consen 23 QPATCPICGAVIR 35 (54)
T ss_dssp --EE-TTT--EES
T ss_pred CCCCCCcchhhcc
Confidence 4578999987664
No 210
>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=30.34 E-value=20 Score=21.64 Aligned_cols=13 Identities=31% Similarity=0.825 Sum_probs=9.3
Q ss_pred CCCCCCCCCCCCC
Q 034125 64 CACPVCPFQMPLP 76 (103)
Q Consensus 64 ~~CP~Cr~~~~~~ 76 (103)
..||.|...+...
T Consensus 27 ivCP~CG~~~~~~ 39 (108)
T PF09538_consen 27 IVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCCCccCcc
Confidence 6789997766544
No 211
>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=29.85 E-value=65 Score=15.33 Aligned_cols=34 Identities=15% Similarity=0.415 Sum_probs=21.6
Q ss_pred CccccccccccccCCC-CceEecCCCchhhHHHHHH
Q 034125 20 EEAECAICLEKEYSDE-SAMIRMQCSHIFHADCITP 54 (103)
Q Consensus 20 ~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~Cl~~ 54 (103)
....|.+|.+ .+... .......|+-..|..|...
T Consensus 10 ~~~~C~~C~~-~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 10 KPTKCCVCRK-SIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCCcccccc-ccCcCCCCcCCCCCCchHHHHHHhh
Confidence 3456999988 43322 2334445888888888765
No 212
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=29.47 E-value=47 Score=19.83 Aligned_cols=36 Identities=14% Similarity=0.249 Sum_probs=25.4
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhc
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEER 59 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~ 59 (103)
..|.||-. .+..+...+.++= -..|..|+..-....
T Consensus 3 WkC~iCg~-~I~~gqlFTF~~k-G~VH~~C~~~~~~~k 38 (101)
T PF09943_consen 3 WKCYICGK-PIYEGQLFTFTKK-GPVHYECFREKASKK 38 (101)
T ss_pred eEEEecCC-eeeecceEEEecC-CcEeHHHHHHHHhhh
Confidence 46999999 6666666554444 568999998765544
No 213
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=29.02 E-value=25 Score=16.68 Aligned_cols=7 Identities=29% Similarity=0.890 Sum_probs=3.7
Q ss_pred ccccccc
Q 034125 23 ECAICLE 29 (103)
Q Consensus 23 ~C~IC~~ 29 (103)
.||-|..
T Consensus 4 ~CP~C~~ 10 (37)
T PF13719_consen 4 TCPNCQT 10 (37)
T ss_pred ECCCCCc
Confidence 4555554
No 214
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=28.35 E-value=44 Score=21.92 Aligned_cols=32 Identities=22% Similarity=0.565 Sum_probs=17.6
Q ss_pred cccccc--cccCCCCceEecCCCchhhHHHHHHH
Q 034125 24 CAICLE--KEYSDESAMIRMQCSHIFHADCITPW 55 (103)
Q Consensus 24 C~IC~~--~~~~~~~~~~~~~C~H~f~~~Cl~~~ 55 (103)
|.+|.. .....++.+..=-|.-.||..||-.-
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~R 35 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPR 35 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCCc
Confidence 566642 02333444433347788888887653
No 215
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=28.20 E-value=21 Score=25.28 Aligned_cols=55 Identities=22% Similarity=0.412 Sum_probs=31.1
Q ss_pred CCccccccccccccC-CCCceEecCCCchhhHHHHHHHHHhc---CCCCCCCCCCCCCC
Q 034125 19 DEEAECAICLEKEYS-DESAMIRMQCSHIFHADCITPWLEER---LGKSCACPVCPFQM 73 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~~~~~~---~~~~~~CP~Cr~~~ 73 (103)
.+...|.+|.-..|. ..+....-.||++||..|-..-+... .+....|+.|=..+
T Consensus 166 ~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 166 SEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred ccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 356679998872222 12222233699999999877632211 12233788884433
No 216
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=27.39 E-value=22 Score=23.84 Aligned_cols=17 Identities=24% Similarity=0.591 Sum_probs=12.2
Q ss_pred CCCCCCCCCCCCCCChh
Q 034125 63 SCACPVCPFQMPLPSFE 79 (103)
Q Consensus 63 ~~~CP~Cr~~~~~~~~~ 79 (103)
..+||+|...+....+.
T Consensus 5 ~~~CPvC~~~F~~~~vr 21 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVR 21 (214)
T ss_pred ceECCCCCCeeeeeEEE
Confidence 37899999887654433
No 217
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=27.13 E-value=83 Score=25.47 Aligned_cols=30 Identities=20% Similarity=0.563 Sum_probs=21.9
Q ss_pred eEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 38 MIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 38 ~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
+..+|-|..||.+|-.+--..+ ..|-+|-.
T Consensus 41 IvqVPtGpWfCrKCesqeraar----vrCeLCP~ 70 (900)
T KOG0956|consen 41 IVQVPTGPWFCRKCESQERAAR----VRCELCPH 70 (900)
T ss_pred eEecCCCchhhhhhhhhhhhcc----ceeecccC
Confidence 4456889999999987754444 77888854
No 218
>COG4694 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.03 E-value=19 Score=28.24 Aligned_cols=23 Identities=22% Similarity=0.595 Sum_probs=15.0
Q ss_pred HHHHHHHhc---CCCCCCCCCCCCCC
Q 034125 51 CITPWLEER---LGKSCACPVCPFQM 73 (103)
Q Consensus 51 Cl~~~~~~~---~~~~~~CP~Cr~~~ 73 (103)
-+..|+.+. ......||+|.+..
T Consensus 263 ~ie~WV~qGrE~~k~~q~CpFCg~et 288 (758)
T COG4694 263 SIEDWVAQGREYNKDNQICPFCGKET 288 (758)
T ss_pred CHHHHHHhhhhhhccCCCCCccchHH
Confidence 466787655 12357899998554
No 219
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=26.83 E-value=25 Score=24.34 Aligned_cols=10 Identities=20% Similarity=0.580 Sum_probs=6.6
Q ss_pred CCCCCCCCCC
Q 034125 64 CACPVCPFQM 73 (103)
Q Consensus 64 ~~CP~Cr~~~ 73 (103)
..||.|...+
T Consensus 275 ~~C~~C~skF 284 (296)
T COG5242 275 PVCKKCKSKF 284 (296)
T ss_pred CcCccccccc
Confidence 5677776655
No 220
>PRK11827 hypothetical protein; Provisional
Probab=26.46 E-value=29 Score=18.66 Aligned_cols=11 Identities=45% Similarity=0.863 Sum_probs=7.7
Q ss_pred CCCCCCCCCCC
Q 034125 64 CACPVCPFQMP 74 (103)
Q Consensus 64 ~~CP~Cr~~~~ 74 (103)
..||.|+..+.
T Consensus 9 LaCP~ckg~L~ 19 (60)
T PRK11827 9 IACPVCNGKLW 19 (60)
T ss_pred eECCCCCCcCe
Confidence 56888877664
No 221
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=26.45 E-value=25 Score=26.25 Aligned_cols=34 Identities=26% Similarity=0.743 Sum_probs=23.8
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHHHH
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWL 56 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~ 56 (103)
..+|+||+- ++....... .-|.-.+|..|+.++.
T Consensus 74 ~~ecpicfl-yyps~~n~~-rcC~~~Ic~ecf~~~~ 107 (482)
T KOG2789|consen 74 KTECPICFL-YYPSAKNLV-RCCSETICGECFAPFG 107 (482)
T ss_pred cccCceeee-ecccccchh-hhhccchhhhheeccc
Confidence 468999999 655533222 1388889999998874
No 222
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=26.29 E-value=36 Score=16.38 Aligned_cols=14 Identities=21% Similarity=0.622 Sum_probs=9.3
Q ss_pred CCCCCCCCCCCCCh
Q 034125 65 ACPVCPFQMPLPSF 78 (103)
Q Consensus 65 ~CP~Cr~~~~~~~~ 78 (103)
.||.|+..+....+
T Consensus 1 ~CP~C~~~l~~~~~ 14 (41)
T PF13453_consen 1 KCPRCGTELEPVRL 14 (41)
T ss_pred CcCCCCcccceEEE
Confidence 49999886654333
No 223
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=26.24 E-value=48 Score=17.04 Aligned_cols=13 Identities=15% Similarity=0.521 Sum_probs=9.9
Q ss_pred CCCCccccccccc
Q 034125 17 HTDEEAECAICLE 29 (103)
Q Consensus 17 ~~~~~~~C~IC~~ 29 (103)
...++..||+|-.
T Consensus 30 ~Lp~~w~CP~C~a 42 (50)
T cd00730 30 DLPDDWVCPVCGA 42 (50)
T ss_pred HCCCCCCCCCCCC
Confidence 3456789999976
No 224
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=26.00 E-value=33 Score=27.05 Aligned_cols=48 Identities=19% Similarity=0.450 Sum_probs=32.0
Q ss_pred ccccccccccccC-CCCceEecCCCchhhHHHHHHHHHhcC----CCCCCCCCC
Q 034125 21 EAECAICLEKEYS-DESAMIRMQCSHIFHADCITPWLEERL----GKSCACPVC 69 (103)
Q Consensus 21 ~~~C~IC~~~~~~-~~~~~~~~~C~H~f~~~Cl~~~~~~~~----~~~~~CP~C 69 (103)
..+|-.|.. .|. .+....+..||-+||..|...-+.... .....|-.|
T Consensus 165 ~~~C~rCr~-~F~~~~rkHHCr~CG~vFC~qcss~s~~lP~~Gi~~~VRVCd~C 217 (634)
T KOG1818|consen 165 SEECLRCRV-KFGLTNRKHHCRNCGQVFCGQCSSKSLTLPKLGIEKPVRVCDSC 217 (634)
T ss_pred ccccceeee-eeeeccccccccccchhhccCccccccCcccccccccceehhhh
Confidence 378999988 443 344555667999999999876554331 234567777
No 225
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=24.83 E-value=38 Score=18.26 Aligned_cols=11 Identities=45% Similarity=0.905 Sum_probs=8.8
Q ss_pred CCCCCCCCCCC
Q 034125 64 CACPVCPFQMP 74 (103)
Q Consensus 64 ~~CP~Cr~~~~ 74 (103)
..||.||.++.
T Consensus 9 LaCP~~kg~L~ 19 (60)
T COG2835 9 LACPVCKGPLV 19 (60)
T ss_pred eeccCcCCcce
Confidence 57999998864
No 226
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=24.65 E-value=61 Score=17.45 Aligned_cols=17 Identities=24% Similarity=0.376 Sum_probs=13.5
Q ss_pred CCCCCCCCCCCCCCChh
Q 034125 63 SCACPVCPFQMPLPSFE 79 (103)
Q Consensus 63 ~~~CP~Cr~~~~~~~~~ 79 (103)
+..|++|.+.++.+...
T Consensus 8 H~HC~VCg~aIp~de~~ 24 (64)
T COG4068 8 HRHCVVCGKAIPPDEQV 24 (64)
T ss_pred CccccccCCcCCCccch
Confidence 46899999999876654
No 227
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=24.17 E-value=19 Score=22.98 Aligned_cols=25 Identities=28% Similarity=0.655 Sum_probs=16.6
Q ss_pred CCchhhHHHHHHHHHhc-------CCCCCCCCCCCCC
Q 034125 43 CSHIFHADCITPWLEER-------LGKSCACPVCPFQ 72 (103)
Q Consensus 43 C~H~f~~~Cl~~~~~~~-------~~~~~~CP~Cr~~ 72 (103)
++|.| ..|+.+. ..+-.+||+|...
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~ 41 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGST 41 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCC
Confidence 46765 5687554 3466899999643
No 228
>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=23.67 E-value=49 Score=15.15 Aligned_cols=8 Identities=50% Similarity=1.215 Sum_probs=6.6
Q ss_pred CCCCCCCC
Q 034125 64 CACPVCPF 71 (103)
Q Consensus 64 ~~CP~Cr~ 71 (103)
..||+|..
T Consensus 18 ~~CP~Cg~ 25 (33)
T cd00350 18 WVCPVCGA 25 (33)
T ss_pred CcCcCCCC
Confidence 78999965
No 229
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=23.59 E-value=46 Score=23.29 Aligned_cols=46 Identities=22% Similarity=0.433 Sum_probs=28.4
Q ss_pred cccccccccccCCCCceEecCCCchhhHHHHHHHHHhcCCCCCCCCCCCCC
Q 034125 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQ 72 (103)
Q Consensus 22 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~~ 72 (103)
..|||=.. .+..+ ++...|||+|=..-+..++... ....||+-..+
T Consensus 177 ~rdPis~~-~I~nP--viSkkC~HvydrDsI~~~l~~~--~~i~CPv~gC~ 222 (262)
T KOG2979|consen 177 NRDPISKK-PIVNP--VISKKCGHVYDRDSIMQILCDE--ITIRCPVLGCE 222 (262)
T ss_pred ccCchhhh-hhhch--hhhcCcCcchhhhhHHHHhccC--ceeecccccCC
Confidence 45776444 22222 2333699999999999888653 23567775443
No 230
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=23.18 E-value=25 Score=23.96 Aligned_cols=26 Identities=12% Similarity=0.289 Sum_probs=17.2
Q ss_pred ccCCCCCCCCCCCccccccccccccCC
Q 034125 8 ACGEGQRSNHTDEEAECAICLEKEYSD 34 (103)
Q Consensus 8 ~~~~~~~~~~~~~~~~C~IC~~~~~~~ 34 (103)
+.+....+..+.+.++|-||.. .|..
T Consensus 104 s~k~t~gsssd~d~ftCrvCgK-~F~l 129 (267)
T KOG3576|consen 104 SPKSTIGSSSDQDSFTCRVCGK-KFGL 129 (267)
T ss_pred CCcccccCCCCCCeeeeehhhh-hhhH
Confidence 3444445555677889999998 5543
No 231
>PF14768 RPA_interact_C: Replication protein A interacting C-terminal
Probab=23.09 E-value=75 Score=17.90 Aligned_cols=22 Identities=23% Similarity=0.682 Sum_probs=11.4
Q ss_pred ccccccccccCCCCceEecCCC
Q 034125 23 ECAICLEKEYSDESAMIRMQCS 44 (103)
Q Consensus 23 ~C~IC~~~~~~~~~~~~~~~C~ 44 (103)
.||||....+........-+||
T Consensus 1 iCPVC~~~~L~~~~~~i~C~Cg 22 (82)
T PF14768_consen 1 ICPVCQKGNLRENSNVISCSCG 22 (82)
T ss_pred CCCccCCCcccccCCeEECCCc
Confidence 4888887344443333333444
No 232
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.88 E-value=62 Score=16.13 Aligned_cols=13 Identities=38% Similarity=0.736 Sum_probs=10.1
Q ss_pred CCCCCCCCCCCCC
Q 034125 62 KSCACPVCPFQMP 74 (103)
Q Consensus 62 ~~~~CP~Cr~~~~ 74 (103)
....||+|..+|.
T Consensus 7 p~K~C~~C~rpf~ 19 (42)
T PF10013_consen 7 PSKICPVCGRPFT 19 (42)
T ss_pred CCCcCcccCCcch
Confidence 3478999988775
No 233
>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=22.84 E-value=57 Score=15.77 Aligned_cols=33 Identities=15% Similarity=0.367 Sum_probs=18.8
Q ss_pred ccccccccccccCC--CCceEecCCCchhhHHHHHH
Q 034125 21 EAECAICLEKEYSD--ESAMIRMQCSHIFHADCITP 54 (103)
Q Consensus 21 ~~~C~IC~~~~~~~--~~~~~~~~C~H~f~~~Cl~~ 54 (103)
...|.+|.. .+.. ........|+-..|..|...
T Consensus 11 ~~~C~~C~~-~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRK-SIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcch-hhhccccceeEcCCCCCchhhhhhcc
Confidence 446888877 3332 22333345777777777643
No 234
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=22.58 E-value=78 Score=23.14 Aligned_cols=37 Identities=24% Similarity=0.608 Sum_probs=25.9
Q ss_pred CCccccccccccccCCCCceEecCCC--chhhHHHHHHHHHhc
Q 034125 19 DEEAECAICLEKEYSDESAMIRMQCS--HIFHADCITPWLEER 59 (103)
Q Consensus 19 ~~~~~C~IC~~~~~~~~~~~~~~~C~--H~f~~~Cl~~~~~~~ 59 (103)
.....|..|-+ ....+..++|+ |+.|..|+.-+-..+
T Consensus 219 ~~ni~C~~Ctd----v~~~vlvf~Cns~HvtC~dCFr~yc~~R 257 (446)
T KOG0006|consen 219 SRNITCITCTD----VRSPVLVFQCNSRHVTCLDCFRLYCVTR 257 (446)
T ss_pred cccceeEEecC----CccceEEEecCCceeehHHhhhhHhhhc
Confidence 44567888888 33445666898 999999988665443
No 235
>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=22.46 E-value=28 Score=15.55 Aligned_cols=10 Identities=40% Similarity=1.089 Sum_probs=4.9
Q ss_pred CCCCCCCCCC
Q 034125 65 ACPVCPFQMP 74 (103)
Q Consensus 65 ~CP~Cr~~~~ 74 (103)
.||.|...+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4899977654
No 236
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=22.43 E-value=1.1e+02 Score=18.66 Aligned_cols=14 Identities=29% Similarity=0.470 Sum_probs=11.0
Q ss_pred CCCCCCCCCCCCCC
Q 034125 64 CACPVCPFQMPLPS 77 (103)
Q Consensus 64 ~~CP~Cr~~~~~~~ 77 (103)
..|+.|++++..+.
T Consensus 86 D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 86 DACMHCKEPLTLDP 99 (114)
T ss_pred hccCcCCCcCccCc
Confidence 68999999886443
No 237
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=21.91 E-value=69 Score=14.25 Aligned_cols=27 Identities=22% Similarity=0.501 Sum_probs=13.8
Q ss_pred ccccccccccCCCC-ceEecCCCchhhHHH
Q 034125 23 ECAICLEKEYSDES-AMIRMQCSHIFHADC 51 (103)
Q Consensus 23 ~C~IC~~~~~~~~~-~~~~~~C~H~f~~~C 51 (103)
.|.||.. ...+. .-....|.-.+|..|
T Consensus 2 ~C~~C~~--~~~~~~~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRR--KIDGFYFYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCC--CcCCCEeEEeCCCCCeEcCcc
Confidence 4777766 33333 333334555555554
No 238
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=21.72 E-value=57 Score=24.66 Aligned_cols=15 Identities=33% Similarity=0.627 Sum_probs=12.3
Q ss_pred CCCchhhHHHHHHHH
Q 034125 42 QCSHIFHADCITPWL 56 (103)
Q Consensus 42 ~C~H~f~~~Cl~~~~ 56 (103)
.|+|.-|..|..+-.
T Consensus 151 ~CgH~cH~dCALr~~ 165 (446)
T PF07227_consen 151 VCGHWCHLDCALRHE 165 (446)
T ss_pred CCCceehhhhhcccc
Confidence 499999999987643
No 239
>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=21.69 E-value=26 Score=18.62 Aligned_cols=11 Identities=27% Similarity=0.887 Sum_probs=5.7
Q ss_pred CCCCCCCCCCC
Q 034125 64 CACPVCPFQMP 74 (103)
Q Consensus 64 ~~CP~Cr~~~~ 74 (103)
..||+|++.+.
T Consensus 3 v~CP~C~k~~~ 13 (57)
T PF03884_consen 3 VKCPICGKPVE 13 (57)
T ss_dssp EE-TTT--EEE
T ss_pred ccCCCCCCeec
Confidence 46999987664
No 240
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.47 E-value=87 Score=19.64 Aligned_cols=24 Identities=21% Similarity=0.567 Sum_probs=15.1
Q ss_pred hhhHHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 034125 46 IFHADCITPWLEERLGKSCACPVCPFQMPLP 76 (103)
Q Consensus 46 ~f~~~Cl~~~~~~~~~~~~~CP~Cr~~~~~~ 76 (103)
.||..|-..-. ..||.|..++..+
T Consensus 29 afcskcgeati-------~qcp~csasirgd 52 (160)
T COG4306 29 AFCSKCGEATI-------TQCPICSASIRGD 52 (160)
T ss_pred HHHhhhchHHH-------hcCCccCCccccc
Confidence 57777765422 4688887776543
No 241
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=21.30 E-value=1.1e+02 Score=17.68 Aligned_cols=20 Identities=30% Similarity=0.541 Sum_probs=14.5
Q ss_pred HHHHHHhcCCCCCCCCCCCCCCCC
Q 034125 52 ITPWLEERLGKSCACPVCPFQMPL 75 (103)
Q Consensus 52 l~~~~~~~~~~~~~CP~Cr~~~~~ 75 (103)
+..|+-.+ ..|..|+++++.
T Consensus 51 i~S~l~lr----GrCr~C~~~I~~ 70 (92)
T PF06750_consen 51 ILSYLLLR----GRCRYCGAPIPP 70 (92)
T ss_pred HHHHHHhC----CCCcccCCCCCh
Confidence 34566666 789999988864
No 242
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=21.20 E-value=92 Score=14.61 Aligned_cols=30 Identities=17% Similarity=0.467 Sum_probs=17.9
Q ss_pred ccccccccccccCCCCceEecCCCchhhHHHHHH
Q 034125 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITP 54 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~Cl~~ 54 (103)
...|..+.+ .........|+-.+|..|+..
T Consensus 3 ~~~C~~H~~----~~~~~~C~~C~~~~C~~C~~~ 32 (42)
T PF00643_consen 3 EPKCPEHPE----EPLSLFCEDCNEPLCSECTVS 32 (42)
T ss_dssp SSB-SSTTT----SBEEEEETTTTEEEEHHHHHT
T ss_pred CccCccCCc----cceEEEecCCCCccCccCCCC
Confidence 345655555 223345567888899998754
No 243
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=20.91 E-value=1.2e+02 Score=21.47 Aligned_cols=43 Identities=23% Similarity=0.308 Sum_probs=21.7
Q ss_pred ccccccccccccCCCCceE-ec-CCCchhhHHHHHHHHHhcCCCCCCCC
Q 034125 21 EAECAICLEKEYSDESAMI-RM-QCSHIFHADCITPWLEERLGKSCACP 67 (103)
Q Consensus 21 ~~~C~IC~~~~~~~~~~~~-~~-~C~H~f~~~Cl~~~~~~~~~~~~~CP 67 (103)
-..|.||++ ....+..-. .+ .=.-.-|..|+.+|-.-.. ..||
T Consensus 30 LsfChiCfE-l~iegvpks~llHtkSlRGHrdCFEK~HlIan---Q~~p 74 (285)
T PF06937_consen 30 LSFCHICFE-LSIEGVPKSNLLHTKSLRGHRDCFEKYHLIAN---QDCP 74 (285)
T ss_pred eeecceeec-cccccCccccccccccccchHHHHHHHHHHHc---CCCC
Confidence 345888888 322221111 11 1111457899999864331 4577
No 244
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=20.85 E-value=55 Score=19.70 Aligned_cols=25 Identities=20% Similarity=0.577 Sum_probs=15.3
Q ss_pred EecCCCchhhHHHHHHHHHhcCCCCCCCCCCCC
Q 034125 39 IRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71 (103)
Q Consensus 39 ~~~~C~H~f~~~Cl~~~~~~~~~~~~~CP~Cr~ 71 (103)
.++.|||.|-.. ..-+. ..||-|..
T Consensus 4 ~CtrCG~vf~~g--~~~il------~GCp~CG~ 28 (112)
T COG3364 4 QCTRCGEVFDDG--SEEIL------SGCPKCGC 28 (112)
T ss_pred eecccccccccc--cHHHH------ccCccccc
Confidence 455799988653 22233 34998854
No 245
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=20.36 E-value=5.1 Score=20.84 Aligned_cols=14 Identities=36% Similarity=0.992 Sum_probs=11.1
Q ss_pred CCCchhhHHHHHHH
Q 034125 42 QCSHIFHADCITPW 55 (103)
Q Consensus 42 ~C~H~f~~~Cl~~~ 55 (103)
.|++.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 45 SCGTEFCFKCGEPW 58 (64)
T ss_dssp SCCSEECSSSTSES
T ss_pred CCCCcCccccCccc
Confidence 48999998887665
No 246
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=20.15 E-value=34 Score=13.42 Aligned_cols=10 Identities=30% Similarity=0.982 Sum_probs=5.1
Q ss_pred CCCCCCCCCC
Q 034125 65 ACPVCPFQMP 74 (103)
Q Consensus 65 ~CP~Cr~~~~ 74 (103)
.|++|...+.
T Consensus 2 ~C~~C~~~~~ 11 (24)
T PF13894_consen 2 QCPICGKSFR 11 (24)
T ss_dssp E-SSTS-EES
T ss_pred CCcCCCCcCC
Confidence 4888866554
Done!