Query 024340
Match_columns 269
No_of_seqs 207 out of 1407
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 03:50:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024340.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024340hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03208 E3 ubiquitin-protein 99.2 9.5E-11 2.1E-15 101.4 10.4 67 35-105 10-79 (193)
2 PF15227 zf-C3HC4_4: zinc fing 99.2 8E-12 1.7E-16 82.9 2.5 42 46-100 1-42 (42)
3 TIGR00599 rad18 DNA repair pro 99.1 3.8E-11 8.3E-16 114.6 5.2 78 32-133 15-92 (397)
4 smart00504 Ubox Modified RING 99.1 1.1E-10 2.3E-15 83.1 5.1 62 43-128 1-62 (63)
5 PF13445 zf-RING_UBOX: RING-ty 99.1 1E-10 2.2E-15 78.0 3.0 34 46-80 1-34 (43)
6 KOG0287 Postreplication repair 99.1 7.2E-11 1.6E-15 108.9 2.8 76 34-133 14-89 (442)
7 PF04564 U-box: U-box domain; 99.0 4E-10 8.7E-15 83.3 4.0 70 42-134 3-72 (73)
8 PF13639 zf-RING_2: Ring finge 98.9 4.8E-10 1E-14 74.7 2.3 43 45-101 2-44 (44)
9 KOG2177 Predicted E3 ubiquitin 98.9 1.8E-09 3.9E-14 95.6 4.1 73 36-134 6-78 (386)
10 KOG0320 Predicted E3 ubiquitin 98.9 1.2E-09 2.6E-14 92.8 2.7 52 39-105 127-178 (187)
11 PF13923 zf-C3HC4_2: Zinc fing 98.8 1.5E-09 3.3E-14 70.5 2.3 31 46-80 1-32 (39)
12 PF13920 zf-C3HC4_3: Zinc fing 98.8 2.1E-09 4.6E-14 73.5 3.1 47 42-105 1-48 (50)
13 PF14835 zf-RING_6: zf-RING of 98.8 5.6E-10 1.2E-14 80.0 0.1 62 39-126 3-65 (65)
14 PF14634 zf-RING_5: zinc-RING 98.8 2E-09 4.3E-14 71.9 2.5 44 45-102 1-44 (44)
15 COG5432 RAD18 RING-finger-cont 98.8 4.2E-09 9.1E-14 95.7 3.4 79 28-130 10-88 (391)
16 PF00097 zf-C3HC4: Zinc finger 98.8 5.1E-09 1.1E-13 68.4 2.7 40 46-100 1-41 (41)
17 PHA02929 N1R/p28-like protein; 98.7 7.1E-09 1.5E-13 93.0 3.4 52 41-105 172-227 (238)
18 KOG0823 Predicted E3 ubiquitin 98.7 1.5E-08 3.3E-13 89.5 4.7 51 40-104 44-94 (230)
19 KOG0317 Predicted E3 ubiquitin 98.7 1.4E-08 3.1E-13 92.2 3.6 51 38-105 234-284 (293)
20 PHA02926 zinc finger-like prot 98.6 5.4E-08 1.2E-12 85.7 4.0 60 39-105 166-230 (242)
21 cd00162 RING RING-finger (Real 98.5 6.5E-08 1.4E-12 62.9 3.3 43 45-103 1-44 (45)
22 smart00184 RING Ring finger. E 98.4 3.9E-07 8.5E-12 57.1 3.2 30 46-79 1-30 (39)
23 KOG2164 Predicted E3 ubiquitin 98.3 4E-07 8.8E-12 88.4 2.6 51 43-105 186-236 (513)
24 KOG4628 Predicted E3 ubiquitin 98.2 5.3E-07 1.2E-11 84.7 2.8 48 44-104 230-277 (348)
25 COG5574 PEX10 RING-finger-cont 98.2 6.8E-07 1.5E-11 80.5 2.2 48 41-104 213-261 (271)
26 PF12678 zf-rbx1: RING-H2 zinc 98.2 1.2E-06 2.7E-11 64.8 2.9 44 45-101 21-73 (73)
27 KOG4185 Predicted E3 ubiquitin 98.1 2.8E-06 6.1E-11 78.2 4.7 74 43-130 3-78 (296)
28 KOG0311 Predicted E3 ubiquitin 98.0 9.4E-07 2E-11 82.4 -0.5 52 37-104 37-89 (381)
29 TIGR00570 cdk7 CDK-activating 98.0 3.7E-06 8E-11 77.9 3.3 52 42-105 2-54 (309)
30 KOG4367 Predicted Zn-finger pr 98.0 7.6E-06 1.7E-10 78.3 4.4 87 40-133 1-159 (699)
31 COG5243 HRD1 HRD ubiquitin lig 98.0 5E-06 1.1E-10 78.1 3.1 51 41-104 285-344 (491)
32 KOG0802 E3 ubiquitin ligase [P 97.9 4.7E-06 1E-10 83.2 2.6 51 40-103 288-339 (543)
33 PF12861 zf-Apc11: Anaphase-pr 97.9 1.3E-05 2.8E-10 60.9 3.8 53 42-104 20-81 (85)
34 KOG0978 E3 ubiquitin ligase in 97.9 4.5E-06 9.7E-11 84.5 0.9 55 35-105 635-689 (698)
35 COG5540 RING-finger-containing 97.8 1.7E-05 3.6E-10 72.9 3.9 52 40-104 320-371 (374)
36 KOG4159 Predicted E3 ubiquitin 97.8 9E-06 2E-10 78.0 1.9 51 38-105 79-129 (398)
37 KOG2660 Locus-specific chromos 97.7 1.7E-05 3.6E-10 73.6 2.8 72 37-128 9-81 (331)
38 KOG0824 Predicted E3 ubiquitin 97.7 1.2E-05 2.5E-10 73.8 1.2 47 43-105 7-53 (324)
39 PF11793 FANCL_C: FANCL C-term 97.5 4.3E-05 9.3E-10 56.1 1.7 61 43-105 2-66 (70)
40 KOG0804 Cytoplasmic Zn-finger 97.5 4.7E-05 1E-09 73.2 2.0 52 37-103 169-220 (493)
41 COG5152 Uncharacterized conser 97.4 0.00011 2.4E-09 64.0 2.5 47 41-104 194-240 (259)
42 KOG2879 Predicted E3 ubiquitin 97.3 0.00016 3.5E-09 65.6 3.4 51 39-104 235-286 (298)
43 KOG1813 Predicted E3 ubiquitin 97.3 9.7E-05 2.1E-09 67.7 1.8 45 43-104 241-285 (313)
44 PF11789 zf-Nse: Zinc-finger o 97.3 0.00014 3E-09 51.3 2.2 45 40-99 8-53 (57)
45 COG5222 Uncharacterized conser 97.1 0.00042 9.2E-09 63.8 4.0 45 43-103 274-319 (427)
46 KOG4265 Predicted E3 ubiquitin 96.9 0.00071 1.5E-08 63.6 3.5 48 41-105 288-336 (349)
47 KOG1039 Predicted E3 ubiquitin 96.9 0.00079 1.7E-08 63.7 3.5 63 41-109 159-225 (344)
48 KOG3161 Predicted E3 ubiquitin 96.8 0.00053 1.1E-08 68.6 1.6 71 39-127 7-77 (861)
49 KOG1645 RING-finger-containing 96.8 0.00098 2.1E-08 63.6 3.2 53 42-105 3-56 (463)
50 KOG0297 TNF receptor-associate 96.7 0.00061 1.3E-08 65.6 1.4 49 39-104 17-66 (391)
51 KOG0825 PHD Zn-finger protein 96.6 0.00066 1.4E-08 69.3 1.0 56 42-111 122-177 (1134)
52 KOG1734 Predicted RING-contain 96.6 0.0005 1.1E-08 62.5 0.1 51 42-104 223-280 (328)
53 KOG1002 Nucleotide excision re 96.6 0.00082 1.8E-08 66.0 1.5 56 38-105 531-586 (791)
54 KOG1785 Tyrosine kinase negati 96.4 0.0011 2.4E-08 63.2 0.9 45 45-104 371-415 (563)
55 COG5194 APC11 Component of SCF 96.3 0.0039 8.5E-08 46.7 3.1 50 43-105 31-81 (88)
56 KOG4172 Predicted E3 ubiquitin 96.3 0.00086 1.9E-08 46.7 -0.3 45 44-104 8-53 (62)
57 KOG0827 Predicted E3 ubiquitin 96.2 0.0024 5.3E-08 60.7 1.9 49 43-101 4-52 (465)
58 COG5219 Uncharacterized conser 96.2 0.002 4.2E-08 67.2 1.2 53 41-104 1467-1522(1525)
59 smart00744 RINGv The RING-vari 96.0 0.0082 1.8E-07 40.9 3.3 44 45-101 1-49 (49)
60 KOG3039 Uncharacterized conser 95.7 0.0078 1.7E-07 54.2 2.9 54 38-104 216-269 (303)
61 KOG1493 Anaphase-promoting com 95.6 0.0029 6.2E-08 47.1 -0.2 50 45-104 22-80 (84)
62 KOG4692 Predicted E3 ubiquitin 95.5 0.0029 6.2E-08 59.6 -0.8 47 41-104 420-466 (489)
63 COG5236 Uncharacterized conser 95.3 0.026 5.6E-07 53.2 4.7 61 35-110 53-113 (493)
64 PF14447 Prok-RING_4: Prokaryo 95.2 0.01 2.2E-07 41.5 1.5 44 43-105 7-50 (55)
65 COG5175 MOT2 Transcriptional r 95.1 0.02 4.4E-07 53.7 3.7 50 43-104 14-63 (480)
66 KOG4275 Predicted E3 ubiquitin 95.1 0.0032 7E-08 57.9 -1.8 44 41-105 298-342 (350)
67 KOG3002 Zn finger protein [Gen 95.0 0.036 7.8E-07 51.6 5.0 64 36-130 41-106 (299)
68 PF05290 Baculo_IE-1: Baculovi 94.8 0.021 4.5E-07 46.9 2.5 49 42-104 79-131 (140)
69 KOG1571 Predicted E3 ubiquitin 94.7 0.016 3.5E-07 54.7 1.8 47 38-104 300-346 (355)
70 KOG2817 Predicted E3 ubiquitin 94.6 0.025 5.4E-07 54.0 2.9 54 39-103 330-383 (394)
71 PF14570 zf-RING_4: RING/Ubox 94.6 0.019 4E-07 39.1 1.5 46 46-103 1-46 (48)
72 PF04641 Rtf2: Rtf2 RING-finge 94.5 0.033 7.2E-07 50.7 3.3 54 38-105 108-161 (260)
73 KOG3970 Predicted E3 ubiquitin 94.2 0.31 6.8E-06 43.6 8.5 58 41-105 48-105 (299)
74 KOG3800 Predicted E3 ubiquitin 94.1 0.043 9.4E-07 50.5 3.2 48 45-104 2-50 (300)
75 KOG1814 Predicted E3 ubiquitin 94.0 0.024 5.2E-07 54.4 1.4 58 40-103 181-238 (445)
76 KOG1941 Acetylcholine receptor 93.9 0.02 4.3E-07 54.7 0.5 52 41-103 363-414 (518)
77 PF07800 DUF1644: Protein of u 93.6 0.11 2.5E-06 43.8 4.5 59 42-104 1-90 (162)
78 KOG0828 Predicted E3 ubiquitin 93.5 0.035 7.7E-07 54.5 1.5 53 40-104 568-633 (636)
79 KOG4362 Transcriptional regula 92.5 0.048 1E-06 55.7 1.0 53 38-104 16-68 (684)
80 KOG0826 Predicted E3 ubiquitin 92.5 0.14 2.9E-06 48.1 3.7 47 41-104 298-345 (357)
81 KOG1001 Helicase-like transcri 92.3 0.058 1.3E-06 55.5 1.2 45 44-104 455-499 (674)
82 PHA03096 p28-like protein; Pro 92.3 0.082 1.8E-06 48.9 2.1 37 44-80 179-219 (284)
83 PF03854 zf-P11: P-11 zinc fin 91.4 0.079 1.7E-06 35.9 0.7 42 44-104 3-45 (50)
84 COG5109 Uncharacterized conser 91.2 0.14 3.1E-06 47.7 2.4 56 38-104 331-386 (396)
85 KOG4739 Uncharacterized protei 90.9 0.093 2E-06 47.1 0.8 42 45-104 5-47 (233)
86 PF10367 Vps39_2: Vacuolar sor 90.4 0.1 2.2E-06 40.2 0.6 35 39-75 74-108 (109)
87 KOG2114 Vacuolar assembly/sort 89.7 0.23 4.9E-06 51.8 2.6 40 43-102 840-880 (933)
88 KOG4185 Predicted E3 ubiquitin 88.8 0.14 3.1E-06 47.0 0.3 49 43-103 207-265 (296)
89 KOG2930 SCF ubiquitin ligase, 88.2 0.33 7.2E-06 38.3 2.0 28 64-104 80-107 (114)
90 KOG1812 Predicted E3 ubiquitin 88.1 0.31 6.8E-06 47.0 2.2 40 42-81 145-184 (384)
91 KOG1940 Zn-finger protein [Gen 87.7 0.29 6.3E-06 45.1 1.6 47 43-102 158-204 (276)
92 KOG2932 E3 ubiquitin ligase in 87.0 0.37 8E-06 45.0 1.9 45 45-107 92-136 (389)
93 PF05883 Baculo_RING: Baculovi 85.8 0.99 2.1E-05 37.3 3.6 35 43-78 26-66 (134)
94 KOG0298 DEAD box-containing he 85.5 0.61 1.3E-05 50.8 2.8 51 37-103 1147-1197(1394)
95 KOG2789 Putative Zn-finger pro 82.7 0.66 1.4E-05 44.7 1.5 73 42-116 73-156 (482)
96 PHA02825 LAP/PHD finger-like p 81.8 1.6 3.4E-05 37.1 3.3 51 40-104 5-58 (162)
97 KOG3268 Predicted E3 ubiquitin 81.7 1.8 3.8E-05 37.6 3.6 64 39-105 161-228 (234)
98 KOG1428 Inhibitor of type V ad 81.6 1.7 3.6E-05 48.4 4.0 63 41-108 3484-3547(3738)
99 PF02891 zf-MIZ: MIZ/SP-RING z 80.8 1.4 3E-05 30.0 2.2 47 43-102 2-49 (50)
100 COG5220 TFB3 Cdk activating ki 79.8 0.7 1.5E-05 41.8 0.6 39 42-80 9-49 (314)
101 PF12906 RINGv: RING-variant d 79.5 2 4.3E-05 28.9 2.6 33 46-80 1-38 (47)
102 KOG1952 Transcription factor N 78.9 1.2 2.7E-05 46.6 2.1 55 41-103 189-245 (950)
103 KOG0825 PHD Zn-finger protein 78.6 2.3 5E-05 44.4 3.8 42 38-79 91-135 (1134)
104 PF08746 zf-RING-like: RING-li 77.2 2.8 6E-05 27.7 2.7 40 46-100 1-43 (43)
105 PF10272 Tmpp129: Putative tra 77.1 1.8 3.8E-05 41.5 2.4 39 66-105 312-351 (358)
106 PF14494 DUF4436: Domain of un 76.3 4.5 9.7E-05 37.0 4.7 33 218-250 170-216 (256)
107 KOG3053 Uncharacterized conser 75.9 3.7 8E-05 37.5 4.0 63 38-105 15-82 (293)
108 KOG3039 Uncharacterized conser 75.5 2 4.4E-05 39.0 2.2 40 37-80 37-76 (303)
109 PF07234 DUF1426: Protein of u 74.8 7.6 0.00016 30.5 4.9 32 220-251 11-42 (117)
110 KOG3579 Predicted E3 ubiquitin 74.8 1.7 3.7E-05 40.2 1.6 38 42-83 267-308 (352)
111 PHA02702 ORF033 IMV membrane p 73.7 3.1 6.7E-05 30.9 2.4 23 235-257 46-68 (78)
112 PF05605 zf-Di19: Drought indu 73.3 1.3 2.7E-05 30.5 0.3 14 42-55 1-14 (54)
113 KOG2034 Vacuolar sorting prote 73.1 1.8 3.9E-05 45.6 1.5 37 39-78 813-850 (911)
114 PF07191 zinc-ribbons_6: zinc- 72.0 0.62 1.3E-05 34.2 -1.6 41 43-105 1-41 (70)
115 PF15616 TerY-C: TerY-C metal 71.5 2.8 6E-05 34.5 2.0 44 38-104 72-115 (131)
116 KOG1815 Predicted E3 ubiquitin 69.9 3.3 7.1E-05 40.6 2.4 38 41-81 68-105 (444)
117 KOG1100 Predicted E3 ubiquitin 65.9 2.4 5.2E-05 37.5 0.6 38 46-104 161-199 (207)
118 PHA02862 5L protein; Provision 64.3 5.4 0.00012 33.4 2.3 45 44-104 3-52 (156)
119 KOG4445 Uncharacterized conser 63.0 3.8 8.2E-05 38.3 1.3 39 40-79 112-150 (368)
120 PF10571 UPF0547: Uncharacteri 60.4 3.9 8.5E-05 24.1 0.6 9 46-54 3-11 (26)
121 PF10497 zf-4CXXC_R1: Zinc-fin 59.9 7.8 0.00017 30.5 2.4 56 41-104 5-71 (105)
122 cd00065 FYVE FYVE domain; Zinc 58.2 6 0.00013 26.9 1.3 34 44-77 3-36 (57)
123 KOG3113 Uncharacterized conser 57.6 11 0.00023 34.5 3.2 54 36-104 104-157 (293)
124 KOG4767 Cytochrome c oxidase, 57.3 30 0.00065 30.6 5.7 15 241-255 75-89 (231)
125 smart00064 FYVE Protein presen 56.6 8.5 0.00018 27.2 2.0 35 43-77 10-44 (68)
126 PHA03055 Hypothetical protein; 55.7 11 0.00023 28.3 2.4 18 240-257 54-71 (79)
127 PHA03062 putative IMV membrane 52.7 13 0.00028 27.8 2.4 18 240-257 55-72 (78)
128 PF05293 ASFV_L11L: African sw 50.8 43 0.00092 24.2 4.7 43 211-263 8-54 (78)
129 PF01363 FYVE: FYVE zinc finge 50.7 6.9 0.00015 27.8 0.7 34 42-76 8-42 (69)
130 KOG2169 Zn-finger transcriptio 49.6 18 0.00038 37.3 3.7 73 37-131 300-375 (636)
131 PF02790 COX2_TM: Cytochrome C 49.3 43 0.00094 24.3 4.9 19 243-261 65-83 (84)
132 KOG2927 Membrane component of 49.1 20 0.00042 34.3 3.5 42 217-258 198-251 (372)
133 PF06906 DUF1272: Protein of u 48.8 33 0.00071 24.2 3.7 47 43-104 5-51 (57)
134 PF06844 DUF1244: Protein of u 48.8 11 0.00025 27.3 1.5 15 68-82 11-25 (68)
135 KOG2068 MOT2 transcription fac 47.1 12 0.00025 35.5 1.7 49 43-104 249-297 (327)
136 PF13198 DUF4014: Protein of u 47.1 42 0.00091 24.7 4.2 21 219-239 20-40 (72)
137 PF02318 FYVE_2: FYVE-type zin 46.8 12 0.00025 29.9 1.5 50 42-103 53-103 (118)
138 PF04713 Pox_I5: Poxvirus prot 46.2 18 0.00038 27.1 2.2 17 241-257 55-71 (77)
139 PF03839 Sec62: Translocation 45.3 24 0.00052 31.7 3.4 33 209-241 111-144 (224)
140 PF14353 CpXC: CpXC protein 40.8 26 0.00057 28.0 2.7 13 43-55 1-13 (128)
141 TIGR00869 sec62 protein transl 40.6 42 0.00091 30.3 4.2 50 209-258 119-180 (232)
142 KOG3005 GIY-YIG type nuclease 40.2 35 0.00075 31.5 3.6 55 43-103 182-241 (276)
143 KOG0314 Predicted E3 ubiquitin 38.5 57 0.0012 32.3 5.0 36 38-77 214-252 (448)
144 KOG0824 Predicted E3 ubiquitin 38.3 28 0.0006 32.7 2.7 53 36-105 98-151 (324)
145 PF14257 DUF4349: Domain of un 36.6 34 0.00074 30.8 3.1 42 195-239 217-258 (262)
146 KOG3899 Uncharacterized conser 36.1 12 0.00026 35.0 -0.0 41 65-105 325-365 (381)
147 cd00730 rubredoxin Rubredoxin; 35.9 33 0.00071 23.4 2.1 12 44-55 2-13 (50)
148 PF00301 Rubredoxin: Rubredoxi 35.6 28 0.00061 23.4 1.8 12 44-55 2-13 (47)
149 PHA03164 hypothetical protein; 34.6 34 0.00073 25.6 2.2 21 207-227 60-80 (88)
150 PF05915 DUF872: Eukaryotic pr 34.3 1.1E+02 0.0025 24.4 5.4 44 214-257 39-98 (115)
151 COG3492 Uncharacterized protei 32.8 31 0.00068 26.7 1.8 15 68-82 42-56 (104)
152 PF06143 Baculo_11_kDa: Baculo 32.6 1.1E+02 0.0023 23.4 4.6 24 188-211 14-37 (84)
153 PF12660 zf-TFIIIC: Putative z 32.4 18 0.00038 28.2 0.4 49 44-104 15-65 (99)
154 KOG2231 Predicted E3 ubiquitin 31.8 31 0.00068 35.7 2.2 49 45-104 2-51 (669)
155 COG3813 Uncharacterized protei 31.7 85 0.0018 23.3 3.8 45 45-104 7-51 (84)
156 PF08636 Pkr1: ER protein Pkr1 31.7 1.8E+02 0.0038 21.7 5.6 11 258-268 60-70 (75)
157 smart00647 IBR In Between Ring 31.5 15 0.00031 25.2 -0.2 35 43-77 18-58 (64)
158 KOG1812 Predicted E3 ubiquitin 31.4 26 0.00056 33.9 1.4 37 41-77 304-341 (384)
159 PF04246 RseC_MucC: Positive r 31.1 1.5E+02 0.0032 23.8 5.7 10 225-234 74-83 (135)
160 PF09680 Tiny_TM_bacill: Prote 29.7 52 0.0011 19.1 1.9 13 232-244 7-19 (24)
161 COG4920 Predicted membrane pro 29.5 93 0.002 27.8 4.4 62 193-254 86-160 (249)
162 TIGR03068 srtB_sig_NPQTN sorta 29.5 57 0.0012 20.4 2.2 8 225-232 12-19 (33)
163 PRK11088 rrmA 23S rRNA methylt 28.5 34 0.00074 30.8 1.7 26 43-69 2-27 (272)
164 PLN02189 cellulose synthase 28.4 46 0.001 36.2 2.8 51 43-105 34-87 (1040)
165 PF14446 Prok-RING_1: Prokaryo 28.3 41 0.00089 23.5 1.6 33 42-76 4-38 (54)
166 PF01485 IBR: IBR domain; Int 27.2 22 0.00049 24.1 0.2 34 44-77 19-58 (64)
167 PF14569 zf-UDP: Zinc-binding 26.9 84 0.0018 23.6 3.2 50 43-104 9-61 (80)
168 COG4665 FcbT2 TRAP-type mannit 26.9 42 0.0009 29.0 1.8 20 240-259 96-116 (182)
169 PF10749 DUF2534: Protein of u 26.7 47 0.001 25.2 1.8 25 226-250 42-77 (85)
170 MTH00154 COX2 cytochrome c oxi 26.4 1.4E+02 0.0031 26.5 5.3 20 245-264 66-85 (227)
171 COG5183 SSM4 Protein involved 26.3 55 0.0012 34.8 2.8 51 41-104 10-65 (1175)
172 PRK03001 M48 family peptidase; 26.0 1.1E+02 0.0024 27.9 4.5 17 243-259 34-50 (283)
173 PF13719 zinc_ribbon_5: zinc-r 25.9 54 0.0012 20.6 1.8 12 44-55 3-14 (37)
174 COG3162 Predicted membrane pro 25.9 93 0.002 24.5 3.4 16 253-268 82-97 (102)
175 TIGR01726 HEQRo_perm_3TM amine 25.8 2.4E+02 0.0051 21.2 5.7 46 200-246 41-94 (99)
176 PF08637 NCA2: ATP synthase re 25.5 47 0.001 30.8 2.1 34 228-261 144-184 (290)
177 PF13721 SecD-TM1: SecD export 25.3 64 0.0014 25.1 2.4 10 220-229 16-25 (101)
178 PLN02436 cellulose synthase A 25.2 56 0.0012 35.7 2.7 50 44-105 37-89 (1094)
179 PF06692 MNSV_P7B: Melon necro 25.0 69 0.0015 22.5 2.3 16 214-229 15-30 (61)
180 smart00834 CxxC_CXXC_SSSS Puta 24.6 41 0.0009 21.0 1.1 11 94-104 26-36 (41)
181 KOG3249 Uncharacterized conser 24.5 1.6E+02 0.0035 25.3 4.8 13 216-228 107-119 (181)
182 PF10112 Halogen_Hydrol: 5-bro 24.3 2.1E+02 0.0046 24.5 5.8 29 228-256 22-50 (199)
183 TIGR01732 tiny_TM_bacill conse 24.1 79 0.0017 18.7 2.0 13 232-244 9-21 (26)
184 KOG1609 Protein involved in mR 23.3 68 0.0015 29.1 2.7 52 42-104 77-133 (323)
185 PF04298 Zn_peptidase_2: Putat 23.0 2.1E+02 0.0045 25.7 5.5 27 199-225 111-137 (222)
186 PRK04989 psbM photosystem II r 22.5 1.4E+02 0.0031 18.9 3.1 9 218-226 6-14 (35)
187 PF06827 zf-FPG_IleRS: Zinc fi 22.3 27 0.00059 20.7 -0.1 12 44-55 2-13 (30)
188 PHA02655 hypothetical protein; 22.0 59 0.0013 24.1 1.5 22 220-241 62-83 (94)
189 KOG3726 Uncharacterized conser 22.0 50 0.0011 34.3 1.5 34 44-77 655-688 (717)
190 COG4736 CcoQ Cbb3-type cytochr 21.9 89 0.0019 22.2 2.4 18 240-257 13-30 (60)
191 MTH00047 COX2 cytochrome c oxi 21.8 1.8E+02 0.0039 25.4 4.8 21 243-263 52-72 (194)
192 PF10146 zf-C4H2: Zinc finger- 21.5 62 0.0013 29.1 1.9 24 69-105 196-219 (230)
193 PF14293 YWFCY: YWFCY protein 21.0 1E+02 0.0023 22.0 2.6 28 193-226 2-29 (61)
194 PF04341 DUF485: Protein of un 21.0 1.3E+02 0.0029 22.7 3.4 13 256-268 77-89 (91)
195 PRK05978 hypothetical protein; 20.7 2.4E+02 0.0051 23.7 5.1 8 96-103 35-42 (148)
196 PF09538 FYDLN_acid: Protein o 20.6 71 0.0015 25.3 1.9 15 41-55 7-21 (108)
197 PF05399 EVI2A: Ectropic viral 20.4 1.6E+02 0.0035 26.3 4.2 15 232-246 141-155 (227)
198 KOG3927 Na+/K+ ATPase, beta su 20.4 1.3E+02 0.0029 28.1 3.9 23 218-240 47-69 (300)
199 PF11241 DUF3043: Protein of u 20.3 2E+02 0.0044 24.7 4.7 11 185-195 65-75 (170)
200 COG5242 TFB4 RNA polymerase II 20.3 55 0.0012 29.7 1.3 40 16-55 233-272 (296)
201 cd00350 rubredoxin_like Rubred 20.3 37 0.00081 20.8 0.2 8 96-103 19-26 (33)
202 PF15013 CCSMST1: CCSMST1 fami 20.2 75 0.0016 23.8 1.8 13 227-239 35-47 (77)
203 MTH00051 COX2 cytochrome c oxi 20.1 2.2E+02 0.0047 25.5 5.2 18 246-263 69-86 (234)
204 PF10271 Tmp39: Putative trans 20.1 2.1E+02 0.0046 28.1 5.4 46 219-264 111-156 (423)
No 1
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.21 E-value=9.5e-11 Score=101.43 Aligned_cols=67 Identities=21% Similarity=0.343 Sum_probs=47.2
Q ss_pred ccccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCC---CCCCCCccccccCCcccc
Q 024340 35 SLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTL---PFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 35 s~~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~---~~~~~~~i~CP~CR~~~~ 105 (269)
....+..+.++|+||++.+.+ |++++|||.||..||.+|.......... .........||.||..+.
T Consensus 10 ~~~~~~~~~~~CpICld~~~d----PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 10 TTLVDSGGDFDCNICLDQVRD----PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred ceeccCCCccCCccCCCcCCC----cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 334455678999999999999 9999999999999999985432211000 001123458999998764
No 2
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.20 E-value=8e-12 Score=82.93 Aligned_cols=42 Identities=38% Similarity=0.896 Sum_probs=30.7
Q ss_pred cccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccC
Q 024340 46 CPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWC 100 (269)
Q Consensus 46 CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~C 100 (269)
||||+++|.+ |++++|||+||+.||.++ |+..+.. .+.||.|
T Consensus 1 CpiC~~~~~~----Pv~l~CGH~FC~~Cl~~~-~~~~~~~--------~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD----PVSLPCGHSFCRSCLERL-WKEPSGS--------GFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS----EEE-SSSSEEEHHHHHHH-HCCSSSS--------T---SSS
T ss_pred CCccchhhCC----ccccCCcCHHHHHHHHHH-HHccCCc--------CCCCcCC
Confidence 8999999999 999999999999999998 5433211 2579988
No 3
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.14 E-value=3.8e-11 Score=114.57 Aligned_cols=78 Identities=26% Similarity=0.470 Sum_probs=63.8
Q ss_pred chhccccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccC
Q 024340 32 DDASLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKG 111 (269)
Q Consensus 32 ~~~s~~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~ 111 (269)
........+++.+.|+||.+.|.+ |++++|||+||..|+..++.... .||.|+....
T Consensus 15 t~~~~l~~Le~~l~C~IC~d~~~~----PvitpCgH~FCs~CI~~~l~~~~-------------~CP~Cr~~~~------ 71 (397)
T TIGR00599 15 TPIPSLYPLDTSLRCHICKDFFDV----PVLTSCSHTFCSLCIRRCLSNQP-------------KCPLCRAEDQ------ 71 (397)
T ss_pred CCcccccccccccCCCcCchhhhC----ccCCCCCCchhHHHHHHHHhCCC-------------CCCCCCCccc------
Confidence 444556788899999999999999 99999999999999999853311 6999998764
Q ss_pred CCCCCcchHHHHHHHHHHhccc
Q 024340 112 NLKFPQKNYYLLWMVESMNGDR 133 (269)
Q Consensus 112 ~~~~~~~N~~l~~lve~~~~~~ 133 (269)
...++.|..+.++++.++..+
T Consensus 72 -~~~Lr~N~~L~~iVe~~~~~R 92 (397)
T TIGR00599 72 -ESKLRSNWLVSEIVESFKNLR 92 (397)
T ss_pred -cccCccchHHHHHHHHHHHhh
Confidence 457889999999999876433
No 4
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.11 E-value=1.1e-10 Score=83.09 Aligned_cols=62 Identities=19% Similarity=0.133 Sum_probs=52.4
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccCCCCCCcchHHH
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKGNLKFPQKNYYL 122 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~~~~~~N~~l 122 (269)
++.||||.+.+.+ |++++|||+||+.|+.++..... .||.|+..+. ..++.+|..+
T Consensus 1 ~~~Cpi~~~~~~~----Pv~~~~G~v~~~~~i~~~~~~~~-------------~cP~~~~~~~-------~~~l~~~~~l 56 (63)
T smart00504 1 EFLCPISLEVMKD----PVILPSGQTYERRAIEKWLLSHG-------------TDPVTGQPLT-------HEDLIPNLAL 56 (63)
T ss_pred CcCCcCCCCcCCC----CEECCCCCEEeHHHHHHHHHHCC-------------CCCCCcCCCC-------hhhceeCHHH
Confidence 4689999999999 99999999999999999865421 6999998865 6778888888
Q ss_pred HHHHHH
Q 024340 123 LWMVES 128 (269)
Q Consensus 123 ~~lve~ 128 (269)
++.+++
T Consensus 57 ~~~i~~ 62 (63)
T smart00504 57 KSAIQE 62 (63)
T ss_pred HHHHHh
Confidence 887763
No 5
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.06 E-value=1e-10 Score=78.01 Aligned_cols=34 Identities=53% Similarity=1.133 Sum_probs=24.0
Q ss_pred cccccccccccCCCcEEecCCCcchHhhHHHHHHh
Q 024340 46 CPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRA 80 (269)
Q Consensus 46 CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~ 80 (269)
||||.+ |.+.+|.|++|+|||+||++|+.++...
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 899999 9999999999999999999999998554
No 6
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=99.05 E-value=7.2e-11 Score=108.88 Aligned_cols=76 Identities=29% Similarity=0.502 Sum_probs=64.5
Q ss_pred hccccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccCCC
Q 024340 34 ASLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKGNL 113 (269)
Q Consensus 34 ~s~~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~ 113 (269)
..++..+++.+.|.||.++|+. |+++||||+||.-||+..+.... .||.|+.... .
T Consensus 14 ipslk~lD~lLRC~IC~eyf~i----p~itpCsHtfCSlCIR~~L~~~p-------------~CP~C~~~~~-------E 69 (442)
T KOG0287|consen 14 IPSLKTLDDLLRCGICFEYFNI----PMITPCSHTFCSLCIRKFLSYKP-------------QCPTCCVTVT-------E 69 (442)
T ss_pred CchhhhhHHHHHHhHHHHHhcC----ceeccccchHHHHHHHHHhccCC-------------CCCceecccc-------h
Confidence 4456778899999999999999 99999999999999999865433 5999998876 6
Q ss_pred CCCcchHHHHHHHHHHhccc
Q 024340 114 KFPQKNYYLLWMVESMNGDR 133 (269)
Q Consensus 114 ~~~~~N~~l~~lve~~~~~~ 133 (269)
..++.|+.+.++++.++--|
T Consensus 70 s~Lr~n~il~Eiv~S~~~~R 89 (442)
T KOG0287|consen 70 SDLRNNRILDEIVKSLNFAR 89 (442)
T ss_pred hhhhhhhHHHHHHHHHHHHH
Confidence 78899999999998876433
No 7
>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=98.99 E-value=4e-10 Score=83.34 Aligned_cols=70 Identities=20% Similarity=0.134 Sum_probs=55.0
Q ss_pred CccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccCCCCCCcchHH
Q 024340 42 EGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKGNLKFPQKNYY 121 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~~~~~~N~~ 121 (269)
+.+.|||+.++|.+ |+++++||+|++.||..|+.... ..||.|++.+. ..++..|..
T Consensus 3 ~~f~CpIt~~lM~d----PVi~~~G~tyer~~I~~~l~~~~------------~~~P~t~~~l~-------~~~l~pn~~ 59 (73)
T PF04564_consen 3 DEFLCPITGELMRD----PVILPSGHTYERSAIERWLEQNG------------GTDPFTRQPLS-------ESDLIPNRA 59 (73)
T ss_dssp GGGB-TTTSSB-SS----EEEETTSEEEEHHHHHHHHCTTS------------SB-TTT-SB-S-------GGGSEE-HH
T ss_pred cccCCcCcCcHhhC----ceeCCcCCEEcHHHHHHHHHcCC------------CCCCCCCCcCC-------cccceECHH
Confidence 68999999999999 99999999999999999865512 27999998875 678899999
Q ss_pred HHHHHHHHhcccC
Q 024340 122 LLWMVESMNGDRS 134 (269)
Q Consensus 122 l~~lve~~~~~~~ 134 (269)
++..++++..+++
T Consensus 60 Lk~~I~~~~~~~~ 72 (73)
T PF04564_consen 60 LKSAIEEWCAENK 72 (73)
T ss_dssp HHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHcc
Confidence 9999999887653
No 8
>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=98.93 E-value=4.8e-10 Score=74.68 Aligned_cols=43 Identities=35% Similarity=0.801 Sum_probs=35.2
Q ss_pred ccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCC
Q 024340 45 ECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCN 101 (269)
Q Consensus 45 ~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR 101 (269)
+|+||++.|.. +..++.++|||.||.+|+.+|+.... .||+||
T Consensus 2 ~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~~~-------------~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKRNN-------------SCPVCR 44 (44)
T ss_dssp CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHHSS-------------B-TTTH
T ss_pred CCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHhCC-------------cCCccC
Confidence 69999999976 33478889999999999999976533 699997
No 9
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=1.8e-09 Score=95.56 Aligned_cols=73 Identities=33% Similarity=0.611 Sum_probs=59.0
Q ss_pred cccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccCCCCC
Q 024340 36 LNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKGNLKF 115 (269)
Q Consensus 36 ~~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~~~ 115 (269)
.....++.+.|+||++.|.+ |++++|||+||..|+..+ +. . .+.||.||. .. ..
T Consensus 6 ~~~~~~~~~~C~iC~~~~~~----p~~l~C~H~~c~~C~~~~-~~-~-----------~~~Cp~cr~-~~--------~~ 59 (386)
T KOG2177|consen 6 LLEVLQEELTCPICLEYFRE----PVLLPCGHNFCRACLTRS-WE-G-----------PLSCPVCRP-PS--------RN 59 (386)
T ss_pred hhhhccccccChhhHHHhhc----CccccccchHhHHHHHHh-cC-C-----------CcCCcccCC-ch--------hc
Confidence 34567799999999999999 988899999999999987 33 1 348999996 32 25
Q ss_pred CcchHHHHHHHHHHhcccC
Q 024340 116 PQKNYYLLWMVESMNGDRS 134 (269)
Q Consensus 116 ~~~N~~l~~lve~~~~~~~ 134 (269)
++.|..+.++++...+...
T Consensus 60 ~~~n~~l~~~~~~~~~~~~ 78 (386)
T KOG2177|consen 60 LRPNVLLANLVERLRQLRL 78 (386)
T ss_pred cCccHHHHHHHHHHHhcCC
Confidence 6689999999998876543
No 10
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.85 E-value=1.2e-09 Score=92.84 Aligned_cols=52 Identities=29% Similarity=0.742 Sum_probs=43.3
Q ss_pred CCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 39 SREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
..+..+.||||++.+.+ ++|+.+.|||.||+.||+...+... +||+|++.+.
T Consensus 127 ~~~~~~~CPiCl~~~se--k~~vsTkCGHvFC~~Cik~alk~~~-------------~CP~C~kkIt 178 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSE--KVPVSTKCGHVFCSQCIKDALKNTN-------------KCPTCRKKIT 178 (187)
T ss_pred ccccccCCCceecchhh--ccccccccchhHHHHHHHHHHHhCC-------------CCCCcccccc
Confidence 34567999999999987 4488899999999999999876655 6999998654
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.84 E-value=1.5e-09 Score=70.54 Aligned_cols=31 Identities=39% Similarity=0.989 Sum_probs=27.0
Q ss_pred cccccccccccCCCc-EEecCCCcchHhhHHHHHHh
Q 024340 46 CPICWESFNVVENLP-YVLWCGHTLCKNCVLGLQRA 80 (269)
Q Consensus 46 CpICl~~f~~~~~~P-~~L~CGHtFC~~CL~~~~~~ 80 (269)
|+||++.+.+ | +.++|||+||..|+.++...
T Consensus 1 C~iC~~~~~~----~~~~~~CGH~fC~~C~~~~~~~ 32 (39)
T PF13923_consen 1 CPICLDELRD----PVVVTPCGHSFCKECIEKYLEK 32 (39)
T ss_dssp ETTTTSB-SS----EEEECTTSEEEEHHHHHHHHHC
T ss_pred CCCCCCcccC----cCEECCCCCchhHHHHHHHHHC
Confidence 8999999999 9 56799999999999998655
No 12
>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=98.84 E-value=2.1e-09 Score=73.54 Aligned_cols=47 Identities=36% Similarity=0.762 Sum_probs=37.9
Q ss_pred CccccccccccccccCCCcEEecCCCc-chHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 42 EGLECPICWESFNVVENLPYVLWCGHT-LCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L~CGHt-FC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
|+..|.||++...+ ++.++|||. ||..|+.++..... .||.||+.+.
T Consensus 1 ~~~~C~iC~~~~~~----~~~~pCgH~~~C~~C~~~~~~~~~-------------~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPRD----VVLLPCGHLCFCEECAERLLKRKK-------------KCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBSS----EEEETTCEEEEEHHHHHHHHHTTS-------------BBTTTTBB-S
T ss_pred CcCCCccCCccCCc----eEEeCCCChHHHHHHhHHhcccCC-------------CCCcCChhhc
Confidence 46789999999988 999999999 99999999855322 7999998764
No 13
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.84 E-value=5.6e-10 Score=79.96 Aligned_cols=62 Identities=31% Similarity=0.614 Sum_probs=33.9
Q ss_pred CCCCccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccCCCCCCc
Q 024340 39 SREEGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKGNLKFPQ 117 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~~~~~ 117 (269)
.+++.+.|++|.+++++ |+.+ .|.|.||..|+..- . ++ .||+|+.+.- .++++
T Consensus 3 ~le~lLrCs~C~~~l~~----pv~l~~CeH~fCs~Ci~~~--~----~~---------~CPvC~~Paw-------~qD~~ 56 (65)
T PF14835_consen 3 RLEELLRCSICFDILKE----PVCLGGCEHIFCSSCIRDC--I----GS---------ECPVCHTPAW-------IQDIQ 56 (65)
T ss_dssp HHHHTTS-SSS-S--SS-----B---SSS--B-TTTGGGG--T----TT---------B-SSS--B-S--------SS--
T ss_pred HHHHhcCCcHHHHHhcC----CceeccCccHHHHHHhHHh--c----CC---------CCCCcCChHH-------HHHHH
Confidence 35678999999999999 9877 89999999999762 1 11 5999999865 78889
Q ss_pred chHHHHHHH
Q 024340 118 KNYYLLWMV 126 (269)
Q Consensus 118 ~N~~l~~lv 126 (269)
.|..+.+|+
T Consensus 57 ~NrqLd~~i 65 (65)
T PF14835_consen 57 INRQLDSMI 65 (65)
T ss_dssp --HHHHHHH
T ss_pred hhhhhhccC
Confidence 999887764
No 14
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.82 E-value=2e-09 Score=71.90 Aligned_cols=44 Identities=34% Similarity=0.875 Sum_probs=35.5
Q ss_pred ccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCc
Q 024340 45 ECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNM 102 (269)
Q Consensus 45 ~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~ 102 (269)
.|++|++.| +.++.|++++|||+||.+|+.+.. . ..+.||.||+
T Consensus 1 ~C~~C~~~~-~~~~~~~l~~CgH~~C~~C~~~~~---~----------~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKY-SEERRPRLTSCGHIFCEKCLKKLK---G----------KSVKCPICRK 44 (44)
T ss_pred CCcCcCccc-cCCCCeEEcccCCHHHHHHHHhhc---C----------CCCCCcCCCC
Confidence 499999999 445569999999999999999874 1 1347999984
No 15
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.77 E-value=4.2e-09 Score=95.66 Aligned_cols=79 Identities=20% Similarity=0.291 Sum_probs=60.9
Q ss_pred cCCcchhccccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccc
Q 024340 28 ELSDDDASLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRL 107 (269)
Q Consensus 28 ~~s~~~~s~~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~ 107 (269)
+.......+...++..+.|.||.+.+.. |..++|||+||.-||++.+.... -||.||....
T Consensus 10 D~~~T~IPSL~~LDs~lrC~IC~~~i~i----p~~TtCgHtFCslCIR~hL~~qp-------------~CP~Cr~~~~-- 70 (391)
T COG5432 10 DWNQTKIPSLKGLDSMLRCRICDCRISI----PCETTCGHTFCSLCIRRHLGTQP-------------FCPVCREDPC-- 70 (391)
T ss_pred ccccccCcchhcchhHHHhhhhhheeec----ceecccccchhHHHHHHHhcCCC-------------CCccccccHH--
Confidence 3333445556777889999999999999 99999999999999998854322 6999999765
Q ss_pred cccCCCCCCcchHHHHHHHHHHh
Q 024340 108 ICKGNLKFPQKNYYLLWMVESMN 130 (269)
Q Consensus 108 ~~~~~~~~~~~N~~l~~lve~~~ 130 (269)
...++.+..+.++.|.+.
T Consensus 71 -----esrlr~~s~~~ei~es~~ 88 (391)
T COG5432 71 -----ESRLRGSSGSREINESHA 88 (391)
T ss_pred -----hhhcccchhHHHHHHhhh
Confidence 455667777777776554
No 16
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.76 E-value=5.1e-09 Score=68.40 Aligned_cols=40 Identities=40% Similarity=1.043 Sum_probs=33.8
Q ss_pred cccccccccccCCCcE-EecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccC
Q 024340 46 CPICWESFNVVENLPY-VLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWC 100 (269)
Q Consensus 46 CpICl~~f~~~~~~P~-~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~C 100 (269)
|+||.+.+.+ |. +++|||+||..|+.++... . +.+.||.|
T Consensus 1 C~iC~~~~~~----~~~~~~C~H~fC~~C~~~~~~~-~----------~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED----PVILLPCGHSFCRDCLRKWLEN-S----------GSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS----EEEETTTSEEEEHHHHHHHHHH-T----------SSSBTTTT
T ss_pred CCcCCccccC----CCEEecCCCcchHHHHHHHHHh-c----------CCccCCcC
Confidence 8999999999 99 7799999999999998554 2 13479988
No 17
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.72 E-value=7.1e-09 Score=92.97 Aligned_cols=52 Identities=27% Similarity=0.570 Sum_probs=39.8
Q ss_pred CCccccccccccccccC----CCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 41 EEGLECPICWESFNVVE----NLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~----~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
.++.+|+||++.+.+.+ ..+++++|||.||..|+.+|+.... .||.||..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~-------------tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN-------------TCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC-------------CCCCCCCEee
Confidence 45689999999877632 1245668999999999999864322 6999998764
No 18
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=1.5e-08 Score=89.50 Aligned_cols=51 Identities=25% Similarity=0.569 Sum_probs=42.5
Q ss_pred CCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 40 REEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 40 lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
....+.|.||++.-.+ |+++.|||-||..||.+|+..... ...||+|+..+
T Consensus 44 ~~~~FdCNICLd~akd----PVvTlCGHLFCWpClyqWl~~~~~----------~~~cPVCK~~V 94 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD----PVVTLCGHLFCWPCLYQWLQTRPN----------SKECPVCKAEV 94 (230)
T ss_pred CCCceeeeeeccccCC----CEEeecccceehHHHHHHHhhcCC----------CeeCCcccccc
Confidence 3467899999999999 999999999999999999655432 22699999865
No 19
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.66 E-value=1.4e-08 Score=92.16 Aligned_cols=51 Identities=27% Similarity=0.609 Sum_probs=42.4
Q ss_pred cCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
...+....|.+|++...+ |--+||||.||..||.+|..... .||+||....
T Consensus 234 ~i~~a~~kC~LCLe~~~~----pSaTpCGHiFCWsCI~~w~~ek~-------------eCPlCR~~~~ 284 (293)
T KOG0317|consen 234 SIPEATRKCSLCLENRSN----PSATPCGHIFCWSCILEWCSEKA-------------ECPLCREKFQ 284 (293)
T ss_pred cCCCCCCceEEEecCCCC----CCcCcCcchHHHHHHHHHHcccc-------------CCCcccccCC
Confidence 334566899999999999 99999999999999999854432 5999998753
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=98.56 E-value=5.4e-08 Score=85.71 Aligned_cols=60 Identities=22% Similarity=0.413 Sum_probs=40.9
Q ss_pred CCCCcccccccccccccc----CC-CcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 39 SREEGLECPICWESFNVV----EN-LPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~----~~-~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
...++.+|+||++...++ ++ -++..+|+|.||..|+.+|.......+ ....||.||..+.
T Consensus 166 ~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~-------~~rsCPiCR~~f~ 230 (242)
T PHA02926 166 RVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETG-------ASDNCPICRTRFR 230 (242)
T ss_pred hccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccC-------cCCcCCCCcceee
Confidence 344678999999976542 22 244459999999999999854321111 1336999999865
No 21
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.55 E-value=6.5e-08 Score=62.88 Aligned_cols=43 Identities=44% Similarity=1.030 Sum_probs=34.5
Q ss_pred ccccccccccccCCCcEEec-CCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 45 ECPICWESFNVVENLPYVLW-CGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 45 ~CpICl~~f~~~~~~P~~L~-CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
+|+||++.+.+ +..++ |||.||..|+.+|.... ...||.||..
T Consensus 1 ~C~iC~~~~~~----~~~~~~C~H~~c~~C~~~~~~~~------------~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFRE----PVVLLPCGHVFCRSCIDKWLKSG------------KNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhC----ceEecCCCChhcHHHHHHHHHhC------------cCCCCCCCCc
Confidence 59999999966 77775 99999999999985431 2269999864
No 22
>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=98.36 E-value=3.9e-07 Score=57.06 Aligned_cols=30 Identities=47% Similarity=1.131 Sum_probs=26.9
Q ss_pred cccccccccccCCCcEEecCCCcchHhhHHHHHH
Q 024340 46 CPICWESFNVVENLPYVLWCGHTLCKNCVLGLQR 79 (269)
Q Consensus 46 CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~ 79 (269)
|+||++...+ ++.++|||.||..|+.+|..
T Consensus 1 C~iC~~~~~~----~~~~~C~H~~c~~C~~~~~~ 30 (39)
T smart00184 1 CPICLEELKD----PVVLPCGHTFCRSCIRKWLK 30 (39)
T ss_pred CCcCccCCCC----cEEecCCChHHHHHHHHHHH
Confidence 7899999777 99999999999999999854
No 23
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=4e-07 Score=88.37 Aligned_cols=51 Identities=31% Similarity=0.706 Sum_probs=41.6
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
+..||||++...- |..+.|||.||..||... |...+-. +...||.|+..+.
T Consensus 186 ~~~CPICL~~~~~----p~~t~CGHiFC~~CiLqy-~~~s~~~-------~~~~CPiC~s~I~ 236 (513)
T KOG2164|consen 186 DMQCPICLEPPSV----PVRTNCGHIFCGPCILQY-WNYSAIK-------GPCSCPICRSTIT 236 (513)
T ss_pred CCcCCcccCCCCc----ccccccCceeeHHHHHHH-Hhhhccc-------CCccCCchhhhcc
Confidence 7899999999888 999999999999999998 5433111 2458999998765
No 24
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=5.3e-07 Score=84.67 Aligned_cols=48 Identities=27% Similarity=0.537 Sum_probs=40.7
Q ss_pred cccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 44 LECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 44 l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.+|+||+|.|..++++.. |||+|.|+.+|+..|+...++ .||+|+..+
T Consensus 230 ~~CaIClEdY~~GdklRi-LPC~H~FH~~CIDpWL~~~r~------------~CPvCK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRI-LPCSHKFHVNCIDPWLTQTRT------------FCPVCKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeE-ecCCCchhhccchhhHhhcCc------------cCCCCCCcC
Confidence 599999999999887654 999999999999999766532 599998754
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=6.8e-07 Score=80.46 Aligned_cols=48 Identities=29% Similarity=0.683 Sum_probs=39.7
Q ss_pred CCccccccccccccccCCCcEEecCCCcchHhhHHH-HHHhhccCCCCCCCCCCccccccCCccc
Q 024340 41 EEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLG-LQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~-~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
+.+.+|+||++.... |..++|||.||..||.. |..+. .-.||+||+..
T Consensus 213 ~~d~kC~lC~e~~~~----ps~t~CgHlFC~~Cl~~~~t~~k------------~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPEV----PSCTPCGHLFCLSCLLISWTKKK------------YEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccCC----cccccccchhhHHHHHHHHHhhc------------cccCchhhhhc
Confidence 458899999999999 99999999999999998 53321 22599999864
No 26
>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=98.17 E-value=1.2e-06 Score=64.76 Aligned_cols=44 Identities=32% Similarity=0.735 Sum_probs=32.6
Q ss_pred cccccccccccc--------CCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCC
Q 024340 45 ECPICWESFNVV--------ENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCN 101 (269)
Q Consensus 45 ~CpICl~~f~~~--------~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR 101 (269)
.|+||++.+.+. +..++.+ +|||.|+..||.+|+.... .||.||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-------------~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-------------TCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-------------B-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-------------cCCCCC
Confidence 499999999432 2345555 8999999999999975433 699997
No 27
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=2.8e-06 Score=78.18 Aligned_cols=74 Identities=41% Similarity=0.744 Sum_probs=62.2
Q ss_pred cccccccccccccc--CCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccCCCCCCcchH
Q 024340 43 GLECPICWESFNVV--ENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKGNLKFPQKNY 120 (269)
Q Consensus 43 ~l~CpICl~~f~~~--~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~~~~~~N~ 120 (269)
.+.|-||.+.|... ++.|..|.|||++|..|+..+... +.+.||+||..+. ++.+..+.+.+|+
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~------------~~i~cpfcR~~~~--~~~~~~~~l~kNf 68 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN------------SRILCPFCRETTE--IPDGDVKSLQKNF 68 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcC------------ceeeccCCCCccc--CCchhHhhhhhhH
Confidence 46899999999984 999999999999999999987432 2457999999874 5666688999999
Q ss_pred HHHHHHHHHh
Q 024340 121 YLLWMVESMN 130 (269)
Q Consensus 121 ~l~~lve~~~ 130 (269)
.+...++.+.
T Consensus 69 ~ll~~~~~~~ 78 (296)
T KOG4185|consen 69 ALLQAIEHMK 78 (296)
T ss_pred HHHHHHHHHh
Confidence 9999998773
No 28
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=9.4e-07 Score=82.39 Aligned_cols=52 Identities=23% Similarity=0.482 Sum_probs=43.2
Q ss_pred ccCCCCccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 37 NNSREEGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 37 ~~~lee~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
...+.-.+.|+||++++.. -++. .|+|.||..||...+...++ .||+||+..
T Consensus 37 l~~~~~~v~c~icl~llk~----tmttkeClhrfc~~ci~~a~r~gn~------------ecptcRk~l 89 (381)
T KOG0311|consen 37 LAMFDIQVICPICLSLLKK----TMTTKECLHRFCFDCIWKALRSGNN------------ECPTCRKKL 89 (381)
T ss_pred HHHhhhhhccHHHHHHHHh----hcccHHHHHHHHHHHHHHHHHhcCC------------CCchHHhhc
Confidence 4556789999999999999 7677 79999999999887665543 699999875
No 29
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.01 E-value=3.7e-06 Score=77.91 Aligned_cols=52 Identities=31% Similarity=0.510 Sum_probs=34.8
Q ss_pred Ccccccccccc-ccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 42 EGLECPICWES-FNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 42 e~l~CpICl~~-f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
++..||+|... +.+.+.+-.+-+|||.||..|+... +... ...||.|+..+.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l-~~~~-----------~~~CP~C~~~lr 54 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLL-FVRG-----------SGSCPECDTPLR 54 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHH-hcCC-----------CCCCCCCCCccc
Confidence 34689999993 4452211222279999999999997 3222 126999988653
No 30
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=97.96 E-value=7.6e-06 Score=78.29 Aligned_cols=87 Identities=26% Similarity=0.497 Sum_probs=64.0
Q ss_pred CCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCC-------------------------------
Q 024340 40 REEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLP------------------------------- 88 (269)
Q Consensus 40 lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~------------------------------- 88 (269)
+||++.|+||...|.+ |++|+|||+.|+.|.+......... ..|
T Consensus 1 meeelkc~vc~~f~~e----piil~c~h~lc~~ca~~~~~~tp~~-~spq~~~aa~s~vs~~~~~~~d~msl~~~ad~g~ 75 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYRE----PIILPCSHNLCQACARNILVQTPES-ESPQSHRAAGSGVSDYDYLDLDKMSLYSEADSGY 75 (699)
T ss_pred CcccccCceehhhccC----ceEeecccHHHHHHHHhhcccCCCC-CCchhhhhcCCCCCccccccccceeeEeeccCCC
Confidence 4789999999999999 9999999999999987653221110 000
Q ss_pred -----------------------------------------CCCCCccccccCCcccccccccCCCCCCcchHHHHHHHH
Q 024340 89 -----------------------------------------FQLPFFITCPWCNMVSLRLICKGNLKFPQKNYYLLWMVE 127 (269)
Q Consensus 89 -----------------------------------------~~~~~~i~CP~CR~~~~~~~~~~~~~~~~~N~~l~~lve 127 (269)
......+.||.|.... +....++..+++|..+..+++
T Consensus 76 ~~~~~~a~~~~t~~~~~~~g~~~~p~am~pp~t~l~~~lap~~~~~~i~c~~c~rs~--~~dd~~l~~~p~n~~le~vi~ 153 (699)
T KOG4367|consen 76 GSYGGFASAPTTPCQKSPNGVRVFPPAMPPPATHLSPALAPVPRNSCITCPQCHRSL--ILDDRGLRGFPKNRVLEGVID 153 (699)
T ss_pred CccCCeeecCCCccccCCCCceeCCCCCCCchhhccccccCCCCCceEEcchhhhhe--EecccccccCchhhHHHHHHH
Confidence 0001134699998854 356667888999999999999
Q ss_pred HHhccc
Q 024340 128 SMNGDR 133 (269)
Q Consensus 128 ~~~~~~ 133 (269)
++++..
T Consensus 154 ryq~s~ 159 (699)
T KOG4367|consen 154 RYQQSK 159 (699)
T ss_pred HHhhhh
Confidence 997654
No 31
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=97.96 E-value=5e-06 Score=78.11 Aligned_cols=51 Identities=27% Similarity=0.539 Sum_probs=42.5
Q ss_pred CCcccccccccccccc---------CCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 41 EEGLECPICWESFNVV---------ENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 41 ee~l~CpICl~~f~~~---------~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.++-.|.||.|.+... +.+|+.|||||.+...|++.|..+.. +||.||.+.
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ-------------TCPICr~p~ 344 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-------------TCPICRRPV 344 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc-------------CCCcccCcc
Confidence 4567899999985443 46789999999999999999987755 799999884
No 32
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=4.7e-06 Score=83.21 Aligned_cols=51 Identities=29% Similarity=0.531 Sum_probs=43.3
Q ss_pred CCCccccccccccccc-cCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 40 REEGLECPICWESFNV-VENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 40 lee~l~CpICl~~f~~-~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
......|+||.|.+.. ..++|..++|||.||..|+++|+++.. .||.||..
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q-------------tCP~CR~~ 339 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ-------------TCPTCRTV 339 (543)
T ss_pred hhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC-------------cCCcchhh
Confidence 3457889999999998 345678999999999999999988754 69999983
No 33
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.89 E-value=1.3e-05 Score=60.92 Aligned_cols=53 Identities=25% Similarity=0.512 Sum_probs=39.2
Q ss_pred Cccccccccccccc--------cCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 42 EGLECPICWESFNV--------VENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 42 e~l~CpICl~~f~~--------~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
++..|.||...|+. ++.-|.++ .|+|.|...||.+|+......+ .||.||+..
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~----------~CPmCR~~w 81 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKG----------QCPMCRQPW 81 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCC----------CCCCcCCee
Confidence 35568888777773 25568777 8999999999999865432111 699999875
No 34
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=4.5e-06 Score=84.51 Aligned_cols=55 Identities=25% Similarity=0.526 Sum_probs=44.7
Q ss_pred ccccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 35 SLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 35 s~~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
......++.++||+|..-+.+ -+++.|||.||..|+++...... -+||.|...+.
T Consensus 635 EElk~yK~~LkCs~Cn~R~Kd----~vI~kC~H~FC~~Cvq~r~etRq------------RKCP~Cn~aFg 689 (698)
T KOG0978|consen 635 EELKEYKELLKCSVCNTRWKD----AVITKCGHVFCEECVQTRYETRQ------------RKCPKCNAAFG 689 (698)
T ss_pred HHHHHHHhceeCCCccCchhh----HHHHhcchHHHHHHHHHHHHHhc------------CCCCCCCCCCC
Confidence 345666889999999999999 88889999999999998744322 27999998764
No 35
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=1.7e-05 Score=72.90 Aligned_cols=52 Identities=29% Similarity=0.580 Sum_probs=41.6
Q ss_pred CCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 40 REEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 40 lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
-.-+.+|+||++.|...++ -+++||.|.|+..|+.+|+-.... .||+||..+
T Consensus 320 a~~GveCaICms~fiK~d~-~~vlPC~H~FH~~Cv~kW~~~y~~------------~CPvCrt~i 371 (374)
T COG5540 320 ADKGVECAICMSNFIKNDR-LRVLPCDHRFHVGCVDKWLLGYSN------------KCPVCRTAI 371 (374)
T ss_pred cCCCceEEEEhhhhcccce-EEEeccCceechhHHHHHHhhhcc------------cCCccCCCC
Confidence 3456899999999986554 677899999999999998753321 699999875
No 36
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=9e-06 Score=78.04 Aligned_cols=51 Identities=25% Similarity=0.602 Sum_probs=42.4
Q ss_pred cCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
.....++.|.||...+.. |++++|||+||..||.+.+.... .||.||....
T Consensus 79 ~~~~sef~c~vc~~~l~~----pv~tpcghs~c~~Cl~r~ld~~~-------------~cp~Cr~~l~ 129 (398)
T KOG4159|consen 79 EEIRSEFECCVCSRALYP----PVVTPCGHSFCLECLDRSLDQET-------------ECPLCRDELV 129 (398)
T ss_pred ccccchhhhhhhHhhcCC----CccccccccccHHHHHHHhccCC-------------CCcccccccc
Confidence 344789999999999999 99999999999999988543211 6999998864
No 37
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.74 E-value=1.7e-05 Score=73.59 Aligned_cols=72 Identities=21% Similarity=0.360 Sum_probs=54.2
Q ss_pred ccCCCCccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccCCCCC
Q 024340 37 NNSREEGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKGNLKF 115 (269)
Q Consensus 37 ~~~lee~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~~~ 115 (269)
........+|.+|..+|.+ +.+. -|-||||+.||.+.+.... .||.|...+.... ....
T Consensus 9 ~~~~n~~itC~LC~GYliD----ATTI~eCLHTFCkSCivk~l~~~~-------------~CP~C~i~ih~t~---pl~n 68 (331)
T KOG2660|consen 9 LTELNPHITCRLCGGYLID----ATTITECLHTFCKSCIVKYLEESK-------------YCPTCDIVIHKTH---PLLN 68 (331)
T ss_pred hhhcccceehhhccceeec----chhHHHHHHHHHHHHHHHHHHHhc-------------cCCccceeccCcc---cccc
Confidence 3456688999999999999 8888 7999999999999876643 7999987653111 1456
Q ss_pred CcchHHHHHHHHH
Q 024340 116 PQKNYYLLWMVES 128 (269)
Q Consensus 116 ~~~N~~l~~lve~ 128 (269)
++.+..+..++-+
T Consensus 69 i~~DrtlqdiVyK 81 (331)
T KOG2660|consen 69 IRSDRTLQDIVYK 81 (331)
T ss_pred CCcchHHHHHHHH
Confidence 6667777776643
No 38
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=1.2e-05 Score=73.80 Aligned_cols=47 Identities=32% Similarity=0.684 Sum_probs=40.3
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
..+|+||+...+- |+.+.|+|.||.-||++..|...+ .|++||.++.
T Consensus 7 ~~eC~IC~nt~n~----Pv~l~C~HkFCyiCiKGsy~ndk~------------~CavCR~pid 53 (324)
T KOG0824|consen 7 KKECLICYNTGNC----PVNLYCFHKFCYICIKGSYKNDKK------------TCAVCRFPID 53 (324)
T ss_pred CCcceeeeccCCc----CccccccchhhhhhhcchhhcCCC------------CCceecCCCC
Confidence 4579999998888 999999999999999998665442 5999999864
No 39
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.52 E-value=4.3e-05 Score=56.09 Aligned_cols=61 Identities=25% Similarity=0.483 Sum_probs=27.3
Q ss_pred ccccccccccccccCCCcEEe----cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 43 GLECPICWESFNVVENLPYVL----WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L----~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
+.+|+||+....+.+..|... .|++.|...||.+|+....+... .-.+....||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~--~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQ--SFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS---TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCe--eecccccCCcCCCCeee
Confidence 578999999877544456554 59999999999999876543221 11123447999998764
No 40
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.49 E-value=4.7e-05 Score=73.16 Aligned_cols=52 Identities=21% Similarity=0.561 Sum_probs=39.9
Q ss_pred ccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 37 NNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 37 ~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
...+-|..+||||++.++..-.--+...|.|+|...|+..| |.. +||+||..
T Consensus 169 ~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w-~~~--------------scpvcR~~ 220 (493)
T KOG0804|consen 169 PTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW-WDS--------------SCPVCRYC 220 (493)
T ss_pred CCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhc-ccC--------------cChhhhhh
Confidence 34567899999999999983222234489999999999997 432 59999964
No 41
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.36 E-value=0.00011 Score=63.98 Aligned_cols=47 Identities=26% Similarity=0.625 Sum_probs=39.2
Q ss_pred CCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 41 EEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
+-.+.|-||.+-|.. |+++.|||.||..|..+-+.+.. .|-.|.+.+
T Consensus 194 ~IPF~C~iCKkdy~s----pvvt~CGH~FC~~Cai~~y~kg~-------------~C~~Cgk~t 240 (259)
T COG5152 194 KIPFLCGICKKDYES----PVVTECGHSFCSLCAIRKYQKGD-------------ECGVCGKAT 240 (259)
T ss_pred CCceeehhchhhccc----hhhhhcchhHHHHHHHHHhccCC-------------cceecchhh
Confidence 456789999999999 99999999999999876544322 699998865
No 42
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=0.00016 Score=65.65 Aligned_cols=51 Identities=31% Similarity=0.681 Sum_probs=40.3
Q ss_pred CCCCccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 39 SREEGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
....+.+||+|.+.-.. |.+. +|||.+|-.|+.+...-+. .+.||.|....
T Consensus 235 ~~t~~~~C~~Cg~~Pti----P~~~~~C~HiyCY~Ci~ts~~~~a-----------sf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTI----PHVIGKCGHIYCYYCIATSRLWDA-----------SFTCPLCGENV 286 (298)
T ss_pred cccCCceeeccCCCCCC----Ceeeccccceeehhhhhhhhcchh-----------hcccCccCCCC
Confidence 34567889999999999 9999 6999999999987532221 45899998764
No 43
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=9.7e-05 Score=67.69 Aligned_cols=45 Identities=31% Similarity=0.658 Sum_probs=37.9
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.+.|-||.+.|.+ |+++.|||+||..|-...+.+.. .|++|.+.+
T Consensus 241 Pf~c~icr~~f~~----pVvt~c~h~fc~~ca~~~~qk~~-------------~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYR----PVVTKCGHYFCEVCALKPYQKGE-------------KCYVCSQQT 285 (313)
T ss_pred Ccccccccccccc----chhhcCCceeehhhhccccccCC-------------cceeccccc
Confidence 4569999999999 99999999999999876544322 699999876
No 44
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.31 E-value=0.00014 Score=51.32 Aligned_cols=45 Identities=31% Similarity=0.514 Sum_probs=30.6
Q ss_pred CCCccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCcccccc
Q 024340 40 REEGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPW 99 (269)
Q Consensus 40 lee~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~ 99 (269)
....+.|||....|.+ |+.- .|||+|.++.|..++... +...||+
T Consensus 8 ~~~~~~CPiT~~~~~~----PV~s~~C~H~fek~aI~~~i~~~-----------~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFED----PVKSKKCGHTFEKEAILQYIQRN-----------GSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-SS----EEEESSS--EEEHHHHHHHCTTT-----------S-EE-SC
T ss_pred cEeccCCCCcCChhhC----CcCcCCCCCeecHHHHHHHHHhc-----------CCCCCCC
Confidence 4567899999999999 9987 899999999999986221 2458998
No 45
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.14 E-value=0.00042 Score=63.76 Aligned_cols=45 Identities=31% Similarity=0.755 Sum_probs=37.2
Q ss_pred ccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 43 GLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
.+.|+.|..++.+ |+-+ -|||+||..||...+-.. .+.||.|...
T Consensus 274 ~LkCplc~~Llrn----p~kT~cC~~~fc~eci~~al~ds------------Df~CpnC~rk 319 (427)
T COG5222 274 SLKCPLCHCLLRN----PMKTPCCGHTFCDECIGTALLDS------------DFKCPNCSRK 319 (427)
T ss_pred cccCcchhhhhhC----cccCccccchHHHHHHhhhhhhc------------cccCCCcccc
Confidence 3899999999999 9988 689999999999764432 3379999763
No 46
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.00071 Score=63.59 Aligned_cols=48 Identities=35% Similarity=0.672 Sum_probs=40.1
Q ss_pred CCccccccccccccccCCCcEEecCCCc-chHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 41 EEGLECPICWESFNVVENLPYVLWCGHT-LCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~CGHt-FC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
+..-+|-||+..-.+ =++|||.|. .|..|.+.+.-..+ .||.||+.+.
T Consensus 288 ~~gkeCVIClse~rd----t~vLPCRHLCLCs~Ca~~Lr~q~n-------------~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRD----TVVLPCRHLCLCSGCAKSLRYQTN-------------NCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcc----eEEecchhhehhHhHHHHHHHhhc-------------CCCccccchH
Confidence 567889999999998 889999995 59999998854444 5999999864
No 47
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00079 Score=63.67 Aligned_cols=63 Identities=25% Similarity=0.531 Sum_probs=40.8
Q ss_pred CCccccccccccccccC---C-CcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccc
Q 024340 41 EEGLECPICWESFNVVE---N-LPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLIC 109 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~---~-~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~ 109 (269)
..+.+|.||.+...++. + ..+..+|.|+||.+|+.+|..... ... .-...||.||....++.+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q-~~~-----~~sksCP~CRv~s~~v~p 225 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQ-FES-----KTSKSCPFCRVPSSFVNP 225 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhc-ccc-----ccccCCCcccCccccccc
Confidence 35788999999888721 1 112257999999999999842222 110 002269999998754333
No 48
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.00053 Score=68.62 Aligned_cols=71 Identities=35% Similarity=0.479 Sum_probs=50.2
Q ss_pred CCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccCCCCCCcc
Q 024340 39 SREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKGNLKFPQK 118 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~~~~~~ 118 (269)
...+.+.|+||+..|......|+.+.|||+.|+.|+.....+ .|| |...-. ......+....
T Consensus 7 ~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~---------------scp-~~~De~--~~~~~~~e~p~ 68 (861)
T KOG3161|consen 7 KWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA---------------SCP-TKRDED--SSLMQLKEEPR 68 (861)
T ss_pred hhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc---------------cCC-CCcccc--chhcChhhcch
Confidence 445788999999999988888999999999999999987432 477 432210 11122455667
Q ss_pred hHHHHHHHH
Q 024340 119 NYYLLWMVE 127 (269)
Q Consensus 119 N~~l~~lve 127 (269)
|+.++..+.
T Consensus 69 n~alL~~~~ 77 (861)
T KOG3161|consen 69 NYALLRREH 77 (861)
T ss_pred hHHHHHhhc
Confidence 777766553
No 49
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.00098 Score=63.63 Aligned_cols=53 Identities=26% Similarity=0.596 Sum_probs=42.3
Q ss_pred Cccccccccccccc-cCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 42 EGLECPICWESFNV-VENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 42 e~l~CpICl~~f~~-~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
...+||||++.+.- ++++=+.+.|||-|=..|+++|+- .+. ...||.|.....
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~--k~~---------~~~cp~c~~kat 56 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG--KKT---------KMQCPLCSGKAT 56 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHh--hhh---------hhhCcccCChhH
Confidence 56789999999988 677777789999999999999974 221 236999987654
No 50
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.73 E-value=0.00061 Score=65.63 Aligned_cols=49 Identities=33% Similarity=0.733 Sum_probs=41.4
Q ss_pred CCCCccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 39 SREEGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.+++.+.|++|...+.+ |... .|||.||..|+..+..... .||.|+...
T Consensus 17 ~~~~~l~C~~C~~vl~~----p~~~~~cgh~fC~~C~~~~~~~~~-------------~cp~~~~~~ 66 (391)
T KOG0297|consen 17 PLDENLLCPICMSVLRD----PVQTTTCGHRFCAGCLLESLSNHQ-------------KCPVCRQEL 66 (391)
T ss_pred CCcccccCccccccccC----CCCCCCCCCcccccccchhhccCc-------------CCccccccc
Confidence 37889999999999999 9995 9999999999999754411 699998764
No 51
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.64 E-value=0.00066 Score=69.27 Aligned_cols=56 Identities=23% Similarity=0.300 Sum_probs=40.7
Q ss_pred CccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccC
Q 024340 42 EGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKG 111 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~ 111 (269)
..-.||+|+..+.++.. ---.+|+|.||..|+..|-+... +||+||..+.+++...
T Consensus 122 ~~~~CP~Ci~s~~DqL~-~~~k~c~H~FC~~Ci~sWsR~aq-------------TCPiDR~EF~~v~V~e 177 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLE-ESEKHTAHYFCEECVGSWSRCAQ-------------TCPVDRGEFGEVKVLE 177 (1134)
T ss_pred hhhhhhHHHHHHHHHhh-ccccccccccHHHHhhhhhhhcc-------------cCchhhhhhheeeeec
Confidence 45678999998888321 11237999999999999854433 6999999887665543
No 52
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.63 E-value=0.0005 Score=62.45 Aligned_cols=51 Identities=29% Similarity=0.651 Sum_probs=38.2
Q ss_pred CccccccccccccccC-------CCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 42 EGLECPICWESFNVVE-------NLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 42 e~l~CpICl~~f~~~~-------~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
++--|+||.+.++..+ | -+.|.|+|.|.+-||++| --..|.+ +||.|++.+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvien-ty~LsCnHvFHEfCIrGW-civGKkq----------tCPYCKekV 280 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIEN-TYKLSCNHVFHEFCIRGW-CIVGKKQ----------TCPYCKEKV 280 (328)
T ss_pred CcchhHhhcchheeecchhhhhhh-heeeecccchHHHhhhhh-eeecCCC----------CCchHHHHh
Confidence 3456999999887633 3 578899999999999997 3333333 699998764
No 53
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.62 E-value=0.00082 Score=66.03 Aligned_cols=56 Identities=20% Similarity=0.498 Sum_probs=43.5
Q ss_pred cCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
...++...|.+|.+.-.+ ++...|.|.||+.|+.+........ ..++||.|.....
T Consensus 531 ~enk~~~~C~lc~d~aed----~i~s~ChH~FCrlCi~eyv~~f~~~--------~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 531 DENKGEVECGLCHDPAED----YIESSCHHKFCRLCIKEYVESFMEN--------NNVTCPVCHIGLS 586 (791)
T ss_pred ccccCceeecccCChhhh----hHhhhhhHHHHHHHHHHHHHhhhcc--------cCCCCcccccccc
Confidence 344577899999999999 9999999999999998875443321 1468999987643
No 54
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.41 E-value=0.0011 Score=63.23 Aligned_cols=45 Identities=33% Similarity=0.661 Sum_probs=35.1
Q ss_pred ccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 45 ECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 45 ~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.|.||-+.=.+ -.+-||||-.|..|+..|+.... +. .||.||..+
T Consensus 371 LCKICaendKd----vkIEPCGHLlCt~CLa~WQ~sd~--gq---------~CPFCRcEI 415 (563)
T KOG1785|consen 371 LCKICAENDKD----VKIEPCGHLLCTSCLAAWQDSDE--GQ---------TCPFCRCEI 415 (563)
T ss_pred HHHHhhccCCC----cccccccchHHHHHHHhhcccCC--CC---------CCCceeeEe
Confidence 49999997777 56669999999999999854322 22 699999765
No 55
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=96.31 E-value=0.0039 Score=46.72 Aligned_cols=50 Identities=20% Similarity=0.392 Sum_probs=38.9
Q ss_pred ccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 43 GLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
.-.|+-|..-....+..|+.. .|.|.|...||.+|+.... .||.||+...
T Consensus 31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~-------------~CPld~q~w~ 81 (88)
T COG5194 31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKG-------------VCPLDRQTWV 81 (88)
T ss_pred cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCC-------------CCCCCCceeE
Confidence 345777777666667778888 8999999999999965422 6999999864
No 56
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.30 E-value=0.00086 Score=46.74 Aligned_cols=45 Identities=33% Similarity=0.747 Sum_probs=34.7
Q ss_pred cccccccccccccCCCcEEecCCC-cchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 44 LECPICWESFNVVENLPYVLWCGH-TLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 44 l~CpICl~~f~~~~~~P~~L~CGH-tFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.+|.||++--.+ -+.-.||| -.|-.|-.++ |+.. +. .||.||.++
T Consensus 8 dECTICye~pvd----sVlYtCGHMCmCy~Cg~rl-~~~~--~g---------~CPiCRapi 53 (62)
T KOG4172|consen 8 DECTICYEHPVD----SVLYTCGHMCMCYACGLRL-KKAL--HG---------CCPICRAPI 53 (62)
T ss_pred cceeeeccCcch----HHHHHcchHHhHHHHHHHH-HHcc--CC---------cCcchhhHH
Confidence 679999997776 55559999 5699999887 5433 12 699999875
No 57
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.19 E-value=0.0024 Score=60.66 Aligned_cols=49 Identities=24% Similarity=0.419 Sum_probs=39.1
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCC
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCN 101 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR 101 (269)
...|.||-+.+...+++.-+-.|||+|..-|+..|+.... . ...||.|+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~P-s---------~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDP-S---------NRGCPICQ 52 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCC-c---------cCCCCcee
Confidence 3579999999998887777778999999999999854422 1 12699999
No 58
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.17 E-value=0.002 Score=67.16 Aligned_cols=53 Identities=25% Similarity=0.587 Sum_probs=39.4
Q ss_pred CCcccccccccccccc-CCCcEEe--cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 41 EEGLECPICWESFNVV-ENLPYVL--WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 41 ee~l~CpICl~~f~~~-~~~P~~L--~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
+...+|+||+.++..+ ...|--. .|.|.|+..|+-+|.+.+.. + +||+||..+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~-s----------~CPlCRsei 1522 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSAR-S----------NCPLCRSEI 1522 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCC-C----------CCCcccccc
Confidence 3466899999999853 3345443 69999999999999665442 2 699999765
No 59
>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=95.99 E-value=0.0082 Score=40.93 Aligned_cols=44 Identities=25% Similarity=0.435 Sum_probs=31.7
Q ss_pred ccccccccccccCCCcEEecCC-----CcchHhhHHHHHHhhccCCCCCCCCCCccccccCC
Q 024340 45 ECPICWESFNVVENLPYVLWCG-----HTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCN 101 (269)
Q Consensus 45 ~CpICl~~f~~~~~~P~~L~CG-----HtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR 101 (269)
.|-||++.. .+..|.+.||. |.+...|+.+|.....+ ..||+|+
T Consensus 1 ~CrIC~~~~--~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~-----------~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEG--DEGDPLVSPCRCKGSLKYVHQECLERWINESGN-----------KTCEICK 49 (49)
T ss_pred CccCCCCCC--CCCCeeEeccccCCchhHHHHHHHHHHHHHcCC-----------CcCCCCC
Confidence 488999822 22338888985 78999999999765432 2699995
No 60
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.71 E-value=0.0078 Score=54.21 Aligned_cols=54 Identities=19% Similarity=0.277 Sum_probs=42.1
Q ss_pred cCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
......+.||+|.+.+.+.-...+.-+|||.+|.+|++++..... .||+|-.+.
T Consensus 216 ~a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-------------v~pv~d~pl 269 (303)
T KOG3039|consen 216 IAASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-------------VDPVTDKPL 269 (303)
T ss_pred hhhccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-------------cccCCCCcC
Confidence 334578999999999999554444449999999999999865433 799998764
No 61
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=95.61 E-value=0.0029 Score=47.06 Aligned_cols=50 Identities=26% Similarity=0.598 Sum_probs=37.6
Q ss_pred ccccccccccc--------cCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 45 ECPICWESFNV--------VENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 45 ~CpICl~~f~~--------~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
+|.||...|+. +++.|.++ .|.|.|...||.+|...... .-.||.||+..
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~ts----------q~~CPmcRq~~ 80 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTS----------QGQCPMCRQTW 80 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccc----------cccCCcchhee
Confidence 77777777764 36778888 79999999999998543221 12699999875
No 62
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.48 E-value=0.0029 Score=59.60 Aligned_cols=47 Identities=23% Similarity=0.521 Sum_probs=37.5
Q ss_pred CCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 41 EEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.|+-.||||+---.+ .+..||+|.-|..||.+.+-... .|-.|+..+
T Consensus 420 sEd~lCpICyA~pi~----Avf~PC~H~SC~~CI~qHlmN~k-------------~CFfCktTv 466 (489)
T KOG4692|consen 420 SEDNLCPICYAGPIN----AVFAPCSHRSCYGCITQHLMNCK-------------RCFFCKTTV 466 (489)
T ss_pred cccccCcceecccch----hhccCCCCchHHHHHHHHHhcCC-------------eeeEeccee
Confidence 367789999986666 78889999999999998754433 699998654
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.27 E-value=0.026 Score=53.23 Aligned_cols=61 Identities=30% Similarity=0.652 Sum_probs=45.0
Q ss_pred ccccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccccccccc
Q 024340 35 SLNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICK 110 (269)
Q Consensus 35 s~~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~ 110 (269)
+..+..||...|-||-+...- -.++||+|..|.-|-.++ .+--+.. .||.||.....++..
T Consensus 53 SaddtDEen~~C~ICA~~~TY----s~~~PC~H~~CH~Ca~Rl-RALY~~K----------~C~~CrTE~e~V~fT 113 (493)
T COG5236 53 SADDTDEENMNCQICAGSTTY----SARYPCGHQICHACAVRL-RALYMQK----------GCPLCRTETEAVVFT 113 (493)
T ss_pred cccccccccceeEEecCCceE----EEeccCCchHHHHHHHHH-HHHHhcc----------CCCccccccceEEEe
Confidence 334556788899999998776 677899999999998876 3322212 599999987655543
No 64
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=95.23 E-value=0.01 Score=41.47 Aligned_cols=44 Identities=32% Similarity=0.609 Sum_probs=30.5
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
...|-.|...=.. ..+++|||..|..|.... +- + -||.|..++.
T Consensus 7 ~~~~~~~~~~~~~----~~~~pCgH~I~~~~f~~~--rY---n----------gCPfC~~~~~ 50 (55)
T PF14447_consen 7 EQPCVFCGFVGTK----GTVLPCGHLICDNCFPGE--RY---N----------GCPFCGTPFE 50 (55)
T ss_pred ceeEEEccccccc----cccccccceeeccccChh--hc---c----------CCCCCCCccc
Confidence 3445455544344 889999999999998763 21 2 4999998763
No 65
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.13 E-value=0.02 Score=53.73 Aligned_cols=50 Identities=24% Similarity=0.618 Sum_probs=36.9
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
+.-||.|.+.++..++--.-.+||-..|+-|.... +... .+ +||-||...
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~i-rq~l--ng---------rcpacrr~y 63 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNI-RQNL--NG---------RCPACRRKY 63 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHH-Hhhc--cC---------CChHhhhhc
Confidence 33499999999986655555699999999998876 2221 12 799999653
No 66
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.07 E-value=0.0032 Score=57.87 Aligned_cols=44 Identities=27% Similarity=0.655 Sum_probs=35.7
Q ss_pred CCccccccccccccccCCCcEEecCCCcc-hHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 41 EEGLECPICWESFNVVENLPYVLWCGHTL-CKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~CGHtF-C~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
.+...|.||++.-.+ -+.|+|||.. |-+|-.++. .||+||+.+.
T Consensus 298 ~~~~LC~ICmDaP~D----CvfLeCGHmVtCt~CGkrm~-----------------eCPICRqyi~ 342 (350)
T KOG4275|consen 298 ATRRLCAICMDAPRD----CVFLECGHMVTCTKCGKRMN-----------------ECPICRQYIV 342 (350)
T ss_pred hHHHHHHHHhcCCcc----eEEeecCcEEeehhhccccc-----------------cCchHHHHHH
Confidence 346779999999999 9999999954 999976651 5999998753
No 67
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.01 E-value=0.036 Score=51.64 Aligned_cols=64 Identities=22% Similarity=0.527 Sum_probs=46.0
Q ss_pred cccCCCCccccccccccccccCCCcEEecC--CCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccccccCCC
Q 024340 36 LNNSREEGLECPICWESFNVVENLPYVLWC--GHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLICKGNL 113 (269)
Q Consensus 36 ~~~~lee~l~CpICl~~f~~~~~~P~~L~C--GHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~ 113 (269)
.....-+.++||||.+.+.. |+ ..| ||..|..|-.+.. + .||.||.++.
T Consensus 41 ~~~~~~~lleCPvC~~~l~~----Pi-~QC~nGHlaCssC~~~~~---~-------------~CP~Cr~~~g-------- 91 (299)
T KOG3002|consen 41 VTLLDLDLLDCPVCFNPLSP----PI-FQCDNGHLACSSCRTKVS---N-------------KCPTCRLPIG-------- 91 (299)
T ss_pred ccccchhhccCchhhccCcc----cc-eecCCCcEehhhhhhhhc---c-------------cCCccccccc--------
Confidence 34556688999999999997 64 466 8999999986531 1 6999998752
Q ss_pred CCCcchHHHHHHHHHHh
Q 024340 114 KFPQKNYYLLWMVESMN 130 (269)
Q Consensus 114 ~~~~~N~~l~~lve~~~ 130 (269)
+ ..++.+..++|...
T Consensus 92 -~-~R~~amEkV~e~~~ 106 (299)
T KOG3002|consen 92 -N-IRCRAMEKVAEAVL 106 (299)
T ss_pred -c-HHHHHHHHHHHhce
Confidence 2 25566666666554
No 68
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.83 E-value=0.021 Score=46.92 Aligned_cols=49 Identities=31% Similarity=0.611 Sum_probs=39.7
Q ss_pred CccccccccccccccCCCcEEe----cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 42 EGLECPICWESFNVVENLPYVL----WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L----~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
...+|.||.|...+ ...| -||-+.|..|-..+ |+..... ..||.|+..+
T Consensus 79 ~lYeCnIC~etS~e----e~FLKPneCCgY~iCn~Cya~L-WK~~~~y---------pvCPvCkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAE----ERFLKPNECCGYSICNACYANL-WKFCNLY---------PVCPVCKTSF 131 (140)
T ss_pred CceeccCcccccch----hhcCCcccccchHHHHHHHHHH-HHHcccC---------CCCCcccccc
Confidence 57899999999999 6677 39999999999988 7765422 2799998764
No 69
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.71 E-value=0.016 Score=54.68 Aligned_cols=47 Identities=26% Similarity=0.615 Sum_probs=35.2
Q ss_pred cCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
........|-||.+...+ -+.+||||.-| |..-. ... + .||+||+.+
T Consensus 300 ~~~~~p~lcVVcl~e~~~----~~fvpcGh~cc--ct~cs--~~l--~----------~CPvCR~rI 346 (355)
T KOG1571|consen 300 RELPQPDLCVVCLDEPKS----AVFVPCGHVCC--CTLCS--KHL--P----------QCPVCRQRI 346 (355)
T ss_pred cccCCCCceEEecCCccc----eeeecCCcEEE--chHHH--hhC--C----------CCchhHHHH
Confidence 344466779999999999 89999999876 76543 111 1 599999875
No 70
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.65 E-value=0.025 Score=54.04 Aligned_cols=54 Identities=28% Similarity=0.542 Sum_probs=40.9
Q ss_pred CCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 39 SREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
....-+.|||=.+--. .||-|++|.|||..|+.-+.++..... ..++||.|-..
T Consensus 330 ~fHSvF~CPVlKeqts-deNPPm~L~CGHVISkdAlnrLS~ng~----------~sfKCPYCP~e 383 (394)
T KOG2817|consen 330 HFHSVFICPVLKEQTS-DENPPMMLICGHVISKDALNRLSKNGS----------QSFKCPYCPVE 383 (394)
T ss_pred cccceeecccchhhcc-CCCCCeeeeccceecHHHHHHHhhCCC----------eeeeCCCCCcc
Confidence 4456789999666444 388899999999999999999843322 24689999754
No 71
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.61 E-value=0.019 Score=39.15 Aligned_cols=46 Identities=26% Similarity=0.604 Sum_probs=21.3
Q ss_pred cccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 46 CPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 46 CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
||+|.+.++..+..=.--+||+.+|..|........ .-.||-||++
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~------------~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENE------------GGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-------------SB-TTT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhcc------------CCCCCCCCCC
Confidence 788888886643222223899999999998873311 1179999975
No 72
>PF04641 Rtf2: Rtf2 RING-finger
Probab=94.47 E-value=0.033 Score=50.68 Aligned_cols=54 Identities=22% Similarity=0.488 Sum_probs=40.3
Q ss_pred cCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
...+..+.|||....|+...+.-++.+|||.|+..++.+. ... . .||.|..++.
T Consensus 108 ~~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~---~----------~Cp~c~~~f~ 161 (260)
T PF04641_consen 108 DNSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKS---K----------KCPVCGKPFT 161 (260)
T ss_pred ccCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-ccc---c----------cccccCCccc
Confidence 3456789999999999654433334499999999999987 211 1 5999998864
No 73
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.15 E-value=0.31 Score=43.56 Aligned_cols=58 Identities=17% Similarity=0.349 Sum_probs=43.7
Q ss_pred CCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 41 EEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
+-.-.|..|...+.+++ -+.|.|-|.|..+|+.++... -+.. +.|....||.|..+++
T Consensus 48 DY~pNC~LC~t~La~gd--t~RLvCyhlfHW~ClneraA~-lPan----TAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGD--TTRLVCYHLFHWKCLNERAAN-LPAN----TAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCCceeCCccccCc--ceeehhhhhHHHHHhhHHHhh-CCCc----CCCCcccCCCCCCccC
Confidence 45667999999998866 567899999999999997332 2222 3456678999998764
No 74
>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=94.15 E-value=0.043 Score=50.48 Aligned_cols=48 Identities=27% Similarity=0.583 Sum_probs=33.6
Q ss_pred ccccccc-cccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 45 ECPICWE-SFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 45 ~CpICl~-~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.||.|.. .|.+..-+-++-+|||+.|.+|+...+.... -.||.|....
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~------------~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGP------------AQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCC------------CCCCcccchh
Confidence 4888875 5666443334449999999999999854422 2699997653
No 75
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.04 E-value=0.024 Score=54.45 Aligned_cols=58 Identities=22% Similarity=0.374 Sum_probs=41.5
Q ss_pred CCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 40 REEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 40 lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
....+.|.||.+...- .+.=+.+||+|.||+.|+........+.++ ...+.||-+.-.
T Consensus 181 ~~slf~C~ICf~e~~G-~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~-----v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 181 VNSLFDCCICFEEQMG-QHCFKFLPCSHVFCKSCLKDYFTIQIQEGQ-----VSCLKCPDPKCG 238 (445)
T ss_pred HhhcccceeeehhhcC-cceeeecccchHHHHHHHHHHHHHhhhcce-----eeeecCCCCCCc
Confidence 3567899999997764 333567799999999999998766543222 235678887654
No 76
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=93.88 E-value=0.02 Score=54.72 Aligned_cols=52 Identities=25% Similarity=0.466 Sum_probs=39.8
Q ss_pred CCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 41 EEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
+.++.|..|.+.+-.+.-.-.-|||.|.|..+|+.+.+.+.. ..+||.||+.
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~-----------~rsCP~Crkl 414 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG-----------TRSCPNCRKL 414 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC-----------CCCCccHHHH
Confidence 467899999998877433345679999999999999875433 2269999954
No 77
>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=93.59 E-value=0.11 Score=43.85 Aligned_cols=59 Identities=25% Similarity=0.487 Sum_probs=37.7
Q ss_pred CccccccccccccccCCCcEEecCC------------Ccc-hHhhHHHHHHhhccCCCCC------------------CC
Q 024340 42 EGLECPICWESFNVVENLPYVLWCG------------HTL-CKNCVLGLQRAVIRLPTLP------------------FQ 90 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L~CG------------HtF-C~~CL~~~~~~~~~~~~~~------------------~~ 90 (269)
|+.+||||++.-.+ .+.|-|. .++ ..+|+.+..+...+..... ..
T Consensus 1 ed~~CpICme~PHN----AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (162)
T PF07800_consen 1 EDVTCPICMEHPHN----AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQ 76 (162)
T ss_pred CCccCceeccCCCc----eEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccc
Confidence 56789999999888 8888763 222 3589998754433221110 01
Q ss_pred CCCccccccCCccc
Q 024340 91 LPFFITCPWCNMVS 104 (269)
Q Consensus 91 ~~~~i~CP~CR~~~ 104 (269)
....+.||+||..+
T Consensus 77 ~~~~L~CPLCRG~V 90 (162)
T PF07800_consen 77 EQPELACPLCRGEV 90 (162)
T ss_pred ccccccCccccCce
Confidence 12367899999875
No 78
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.49 E-value=0.035 Score=54.45 Aligned_cols=53 Identities=23% Similarity=0.536 Sum_probs=36.6
Q ss_pred CCCcccccccccccccc-----CCC-------cEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 40 REEGLECPICWESFNVV-----ENL-------PYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 40 lee~l~CpICl~~f~~~-----~~~-------P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.+..--|+||....+.. +.. -+++ ||.|.|...|+++|+.. . .+.||+||.+.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~-y-----------kl~CPvCR~pL 633 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT-Y-----------KLICPVCRCPL 633 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh-h-----------cccCCccCCCC
Confidence 35566799998866541 111 1344 99999999999998642 1 23699999874
No 79
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=92.54 E-value=0.048 Score=55.67 Aligned_cols=53 Identities=32% Similarity=0.565 Sum_probs=42.6
Q ss_pred cCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
..+.-.++|+||...+.+ |..+.|-|.||..|+...++..+. ...||+|+...
T Consensus 16 ~~~~k~lEc~ic~~~~~~----p~~~kc~~~~l~~~~n~~f~~~~~----------~~~~~lc~~~~ 68 (684)
T KOG4362|consen 16 NAMQKILECPICLEHVKE----PSLLKCDHIFLKFCLNKLFESKKG----------PKQCALCKSDI 68 (684)
T ss_pred HHHhhhccCCceeEEeec----cchhhhhHHHHhhhhhceeeccCc----------cccchhhhhhh
Confidence 344578999999999999 989999999999999987655332 23699998654
No 80
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=92.48 E-value=0.14 Score=48.07 Aligned_cols=47 Identities=23% Similarity=0.516 Sum_probs=37.3
Q ss_pred CCccccccccccccccCCCcEEec-CCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 41 EEGLECPICWESFNVVENLPYVLW-CGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~-CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.+.-.||+|++.-.+ |.++. -|-.||..|+-....... .||+=..+.
T Consensus 298 ~~~~~CpvClk~r~N----ptvl~vSGyVfCY~Ci~~Yv~~~~-------------~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQN----PTVLEVSGYVFCYPCIFSYVVNYG-------------HCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCC----CceEEecceEEeHHHHHHHHHhcC-------------CCCccCCcc
Confidence 456679999999999 99994 599999999998865433 699765443
No 81
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.33 E-value=0.058 Score=55.52 Aligned_cols=45 Identities=27% Similarity=0.682 Sum_probs=35.5
Q ss_pred cccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 44 LECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 44 l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
..|++|.+ ... ++...|||.||..|+........ .-.||.||..+
T Consensus 455 ~~c~ic~~-~~~----~~it~c~h~~c~~c~~~~i~~~~-----------~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-LDS----FFITRCGHDFCVECLKKSIQQSE-----------NAPCPLCRNVL 499 (674)
T ss_pred cccccccc-ccc----ceeecccchHHHHHHHhcccccc-----------CCCCcHHHHHH
Confidence 89999999 666 88889999999999987633322 11699998764
No 82
>PHA03096 p28-like protein; Provisional
Probab=92.32 E-value=0.082 Score=48.95 Aligned_cols=37 Identities=19% Similarity=0.246 Sum_probs=27.9
Q ss_pred ccccccccccccc---CCCcEEe-cCCCcchHhhHHHHHHh
Q 024340 44 LECPICWESFNVV---ENLPYVL-WCGHTLCKNCVLGLQRA 80 (269)
Q Consensus 44 l~CpICl~~f~~~---~~~P~~L-~CGHtFC~~CL~~~~~~ 80 (269)
-.|.||++.-..+ ++.=-+| .|.|.||..|++.|...
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~ 219 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTE 219 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHh
Confidence 6799999976653 3333445 79999999999998443
No 83
>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=91.38 E-value=0.079 Score=35.94 Aligned_cols=42 Identities=29% Similarity=0.703 Sum_probs=24.4
Q ss_pred cccccccccccccCCCcEEecCC-CcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 44 LECPICWESFNVVENLPYVLWCG-HTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 44 l~CpICl~~f~~~~~~P~~L~CG-HtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
+.|.-||..... ...|. |-.|.+|+..++..+. .||.|..+.
T Consensus 3 ~nCKsCWf~~k~------Li~C~dHYLCl~CLt~ml~~s~-------------~C~iC~~~L 45 (50)
T PF03854_consen 3 YNCKSCWFANKG------LIKCSDHYLCLNCLTLMLSRSD-------------RCPICGKPL 45 (50)
T ss_dssp ----SS-S--SS------EEE-SS-EEEHHHHHHT-SSSS-------------EETTTTEE-
T ss_pred ccChhhhhcCCC------eeeecchhHHHHHHHHHhcccc-------------CCCcccCcC
Confidence 457788876665 55785 9999999998865433 799998764
No 84
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=91.25 E-value=0.14 Score=47.74 Aligned_cols=56 Identities=29% Similarity=0.507 Sum_probs=42.3
Q ss_pred cCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
......+.||+=.+.-.+ ||-|+++.|||..-++-+..+.+.+ ...+.||.|-...
T Consensus 331 ~hfHs~FiCPVlKe~~t~-ENpP~ml~CgHVIskeal~~LS~nG----------~~~FKCPYCP~~~ 386 (396)
T COG5109 331 RHFHSLFICPVLKELCTD-ENPPVMLECGHVISKEALSVLSQNG----------VLSFKCPYCPEMS 386 (396)
T ss_pred ccccceeeccccHhhhcc-cCCCeeeeccceeeHHHHHHHhhcC----------cEEeeCCCCCcch
Confidence 356778999997665554 8889999999999999888873322 2366899997543
No 85
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=90.87 E-value=0.093 Score=47.12 Aligned_cols=42 Identities=29% Similarity=0.770 Sum_probs=28.4
Q ss_pred ccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 45 ECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 45 ~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
-|..|...=. ..|..| .|+|.||..|.... . + -.||.|++.+
T Consensus 5 hCn~C~~~~~---~~~f~LTaC~HvfC~~C~k~~----~--~---------~~C~lCkk~i 47 (233)
T KOG4739|consen 5 HCNKCFRFPS---QDPFFLTACRHVFCEPCLKAS----S--P---------DVCPLCKKSI 47 (233)
T ss_pred EeccccccCC---CCceeeeechhhhhhhhcccC----C--c---------ccccccccee
Confidence 4666665333 236665 89999999998642 1 1 0599999985
No 86
>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=90.44 E-value=0.1 Score=40.20 Aligned_cols=35 Identities=23% Similarity=0.561 Sum_probs=26.2
Q ss_pred CCCCccccccccccccccCCCcEEecCCCcchHhhHH
Q 024340 39 SREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVL 75 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~ 75 (269)
.+.++-.|++|.+.+.+ ..=.+.||||.++..|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~--~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGN--SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCC--ceEEEeCCCeEEeccccc
Confidence 34567789999999887 112233999999999975
No 87
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.70 E-value=0.23 Score=51.77 Aligned_cols=40 Identities=28% Similarity=0.699 Sum_probs=33.7
Q ss_pred ccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCc
Q 024340 43 GLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNM 102 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~ 102 (269)
.-.|..|.-.++- |.+- .|||.|+..|+..- .-.||.|+.
T Consensus 840 ~skCs~C~~~Ldl----P~VhF~CgHsyHqhC~e~~----------------~~~CP~C~~ 880 (933)
T KOG2114|consen 840 VSKCSACEGTLDL----PFVHFLCGHSYHQHCLEDK----------------EDKCPKCLP 880 (933)
T ss_pred eeeecccCCcccc----ceeeeecccHHHHHhhccC----------------cccCCccch
Confidence 4579999999999 9998 99999999999831 116999975
No 88
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.78 E-value=0.14 Score=46.97 Aligned_cols=49 Identities=35% Similarity=0.663 Sum_probs=39.6
Q ss_pred cccccccccccc--ccCCCcEEec--------CCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 43 GLECPICWESFN--VVENLPYVLW--------CGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 43 ~l~CpICl~~f~--~~~~~P~~L~--------CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
...|.+|...|. +...+|.++. |||+.|..|+........ +.||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~------------~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAG------------IKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhh------------hcCCcccce
Confidence 356999999998 3677899998 999999999998754432 479999874
No 89
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=88.22 E-value=0.33 Score=38.27 Aligned_cols=28 Identities=21% Similarity=0.413 Sum_probs=23.9
Q ss_pred cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 64 WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 64 ~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.|.|.|.-.||.+|++... .||+|.+..
T Consensus 80 ~CNHaFH~hCisrWlktr~-------------vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRN-------------VCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcC-------------cCCCcCcce
Confidence 6999999999999976544 699999875
No 90
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.11 E-value=0.31 Score=46.96 Aligned_cols=40 Identities=35% Similarity=0.631 Sum_probs=29.9
Q ss_pred CccccccccccccccCCCcEEecCCCcchHhhHHHHHHhh
Q 024340 42 EGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAV 81 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~ 81 (269)
...+|.||.......+..-.+..|+|.||..|+.+.....
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 4678999995555544444567899999999999875543
No 91
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=87.70 E-value=0.29 Score=45.09 Aligned_cols=47 Identities=32% Similarity=0.593 Sum_probs=38.3
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNM 102 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~ 102 (269)
...||+|.+.+......|..++|||+....|.+..-.. ..+||.|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~-------------~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE-------------GYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc-------------CCCCCcccc
Confidence 44599999998887777999999999999999876322 147999986
No 92
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=86.98 E-value=0.37 Score=45.00 Aligned_cols=45 Identities=22% Similarity=0.506 Sum_probs=30.1
Q ss_pred ccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccccc
Q 024340 45 ECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRL 107 (269)
Q Consensus 45 ~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~ 107 (269)
.|.-|-.-... .-++++|.|.||.+|.+.- . . ..||.|-..+.|+
T Consensus 92 fCd~Cd~PI~I---YGRmIPCkHvFCl~CAr~~--~-d------------K~Cp~C~d~VqrI 136 (389)
T KOG2932|consen 92 FCDRCDFPIAI---YGRMIPCKHVFCLECARSD--S-D------------KICPLCDDRVQRI 136 (389)
T ss_pred eecccCCccee---eecccccchhhhhhhhhcC--c-c------------ccCcCcccHHHHH
Confidence 46666654443 2457799999999998642 1 1 1599998766543
No 93
>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=85.85 E-value=0.99 Score=37.26 Aligned_cols=35 Identities=20% Similarity=0.536 Sum_probs=26.5
Q ss_pred ccccccccccccccCCCcEEecCC------CcchHhhHHHHH
Q 024340 43 GLECPICWESFNVVENLPYVLWCG------HTLCKNCVLGLQ 78 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CG------HtFC~~CL~~~~ 78 (269)
..+|.||++...+ ..--+.++|| |-||..|+.+|.
T Consensus 26 ~~EC~IC~~~I~~-~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDN-NDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred Ceeehhhhhhhhc-CCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 7889999999988 2223334776 679999999983
No 94
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=85.49 E-value=0.61 Score=50.76 Aligned_cols=51 Identities=24% Similarity=0.444 Sum_probs=40.6
Q ss_pred ccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 37 NNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 37 ~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
...+-+...|+||.++..+ .-.+..|||.+|..|...|+.... .||.|+..
T Consensus 1147 ~~~~~~~~~c~ic~dil~~---~~~I~~cgh~~c~~c~~~~l~~~s-------------~~~~~ksi 1197 (1394)
T KOG0298|consen 1147 LMNLSGHFVCEICLDILRN---QGGIAGCGHEPCCRCDELWLYASS-------------RCPICKSI 1197 (1394)
T ss_pred HHHhhcccchHHHHHHHHh---cCCeeeechhHhhhHHHHHHHHhc-------------cCcchhhh
Confidence 3455567799999999995 145669999999999999977655 69999854
No 95
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=82.71 E-value=0.66 Score=44.65 Aligned_cols=73 Identities=25% Similarity=0.500 Sum_probs=48.5
Q ss_pred CccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCC-----------CCCCCccccccCCccccccccc
Q 024340 42 EGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLP-----------FQLPFFITCPWCNMVSLRLICK 110 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~-----------~~~~~~i~CP~CR~~~~~~~~~ 110 (269)
-..+||||+-++.... -++--|..+.|..|+..........++.. +..+.+.+||.|....++..+.
T Consensus 73 r~~ecpicflyyps~~--n~~rcC~~~Ic~ecf~~~~~~~~~~pt~~a~v~~~~~f~~~s~p~~~~cp~c~t~~~~vey~ 150 (482)
T KOG2789|consen 73 RKTECPICFLYYPSAK--NLVRCCSETICGECFAPFGCYSFEKPTYDATVVKNLIFKRKSAPFYTPCPDCDTSWTRVEYI 150 (482)
T ss_pred ccccCceeeeeccccc--chhhhhccchhhhheecccCCCcccCccccccccccccccccccccccCCccCCcccceeee
Confidence 3478999999887711 23347999999999987632222222211 1225567899999998888887
Q ss_pred CCCCCC
Q 024340 111 GNLKFP 116 (269)
Q Consensus 111 ~~~~~~ 116 (269)
+..+.+
T Consensus 151 ~i~~~~ 156 (482)
T KOG2789|consen 151 KIVDGL 156 (482)
T ss_pred ccccCC
Confidence 766443
No 96
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=81.75 E-value=1.6 Score=37.07 Aligned_cols=51 Identities=20% Similarity=0.307 Sum_probs=33.2
Q ss_pred CCCccccccccccccccCCCcEEecCCC---cchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 40 REEGLECPICWESFNVVENLPYVLWCGH---TLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 40 lee~l~CpICl~~f~~~~~~P~~L~CGH---tFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
...+..|-||.+.-.. + ..-..|.. ..+++|+++|...+. ...|+.|+...
T Consensus 5 s~~~~~CRIC~~~~~~-~--~~PC~CkGs~k~VH~sCL~rWi~~s~-----------~~~CeiC~~~Y 58 (162)
T PHA02825 5 SLMDKCCWICKDEYDV-V--TNYCNCKNENKIVHKECLEEWINTSK-----------NKSCKICNGPY 58 (162)
T ss_pred CCCCCeeEecCCCCCC-c--cCCcccCCCchHHHHHHHHHHHhcCC-----------CCcccccCCeE
Confidence 3467789999987543 1 11123444 348999999865432 33799999875
No 97
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.66 E-value=1.8 Score=37.57 Aligned_cols=64 Identities=22% Similarity=0.519 Sum_probs=36.9
Q ss_pred CCCCccccccccccccccCCCcEE----ecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 39 SREEGLECPICWESFNVVENLPYV----LWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~~~~P~~----L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
..++..-|.||+-+--++ ..|-. ..||..|..-|+..|++.-.. +.++-+. -+-.||.|..++.
T Consensus 161 kdd~~~~cgicyayqldG-TipDqtCdN~qCgkpFHqiCL~dWLRgilT-sRQSFdi-iFGeCPYCS~Pia 228 (234)
T KOG3268|consen 161 KDDELGACGICYAYQLDG-TIPDQTCDNIQCGKPFHQICLTDWLRGILT-SRQSFDI-IFGECPYCSDPIA 228 (234)
T ss_pred cchhhhcccceeeeecCC-ccccccccccccCCcHHHHHHHHHHHHHhh-ccceeee-eeccCCCCCCcce
Confidence 334445556665543332 22322 379999999999999765332 1111111 1337999998865
No 98
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=81.59 E-value=1.7 Score=48.39 Aligned_cols=63 Identities=22% Similarity=0.363 Sum_probs=41.9
Q ss_pred CCccccccccccccccCCCc-EEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccccccc
Q 024340 41 EEGLECPICWESFNVVENLP-YVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSLRLI 108 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P-~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~~~~ 108 (269)
+.+..|-||...--. -.| +.|.|+|.|...|.++.+.+.-. .|.-.-+++.||.|..++..++
T Consensus 3484 D~DDmCmICFTE~L~--AAP~IqL~C~HiFHlqC~R~vLE~RW~---GPRItF~FisCPiC~n~InH~~ 3547 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALS--AAPAIQLDCSHIFHLQCCRRVLENRWL---GPRITFGFISCPICKNKINHIV 3547 (3738)
T ss_pred ccCceEEEEehhhhC--CCcceecCCccchhHHHHHHHHHhccc---CCeeEEeeeecccccchhhhHH
Confidence 455678888764332 124 45699999999999887654331 2223345789999998875443
No 99
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=80.81 E-value=1.4 Score=30.04 Aligned_cols=47 Identities=28% Similarity=0.623 Sum_probs=22.9
Q ss_pred ccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCc
Q 024340 43 GLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNM 102 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~ 102 (269)
.+.||+....+.. |+.- .|.|.-|-+= ..++....+.+ ...||.|++
T Consensus 2 sL~CPls~~~i~~----P~Rg~~C~H~~CFDl-~~fl~~~~~~~--------~W~CPiC~~ 49 (50)
T PF02891_consen 2 SLRCPLSFQRIRI----PVRGKNCKHLQCFDL-ESFLESNQRTP--------KWKCPICNK 49 (50)
T ss_dssp ESB-TTTSSB-SS----EEEETT--SS--EEH-HHHHHHHHHS-----------B-TTT--
T ss_pred eeeCCCCCCEEEe----CccCCcCcccceECH-HHHHHHhhccC--------CeECcCCcC
Confidence 3689999999999 9988 8999866432 22222222111 357999975
No 100
>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=79.81 E-value=0.7 Score=41.76 Aligned_cols=39 Identities=23% Similarity=0.509 Sum_probs=27.0
Q ss_pred Cccccccccc-cccccCCCcEEec-CCCcchHhhHHHHHHh
Q 024340 42 EGLECPICWE-SFNVVENLPYVLW-CGHTLCKNCVLGLQRA 80 (269)
Q Consensus 42 e~l~CpICl~-~f~~~~~~P~~L~-CGHtFC~~CL~~~~~~ 80 (269)
++-.||+|.. .|-+++.+-.+-| |-|..|.+|+.+.+..
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~ 49 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR 49 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC
Confidence 4567999985 5555332222225 9999999999998644
No 101
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=79.52 E-value=2 Score=28.86 Aligned_cols=33 Identities=27% Similarity=0.524 Sum_probs=21.6
Q ss_pred cccccccccccCCCcEEecCCC-----cchHhhHHHHHHh
Q 024340 46 CPICWESFNVVENLPYVLWCGH-----TLCKNCVLGLQRA 80 (269)
Q Consensus 46 CpICl~~f~~~~~~P~~L~CGH-----tFC~~CL~~~~~~ 80 (269)
|-||++.-.+.+ |.+.||+- ....+|+.+|...
T Consensus 1 CrIC~~~~~~~~--~li~pC~C~Gs~~~vH~~CL~~W~~~ 38 (47)
T PF12906_consen 1 CRICLEGEEEDE--PLISPCRCKGSMKYVHRSCLERWIRE 38 (47)
T ss_dssp ETTTTEE-SSSS---EE-SSS-SSCCGSEECCHHHHHHHH
T ss_pred CeEeCCcCCCCC--ceecccccCCCcchhHHHHHHHHHHh
Confidence 668888766644 77778753 4588999998765
No 102
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=78.85 E-value=1.2 Score=46.55 Aligned_cols=55 Identities=27% Similarity=0.433 Sum_probs=39.6
Q ss_pred CCccccccccccccccCCCcEEe--cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 41 EEGLECPICWESFNVVENLPYVL--WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L--~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
.+.++|-||.+.++... |+-- .|-|.|...||.+|-....+ +.+...+||.|+..
T Consensus 189 ~~~yeCmIC~e~I~~t~--~~WSC~sCYhVFHl~CI~~WArs~ek------~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTA--PVWSCKSCYHVFHLNCIKKWARSSEK------TGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccC--CceecchhhhhhhHHHHHHHHHHhhh------ccCccccCCcccch
Confidence 46889999999888732 4333 57799999999998554222 22356799999844
No 103
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.55 E-value=2.3 Score=44.39 Aligned_cols=42 Identities=17% Similarity=0.274 Sum_probs=28.6
Q ss_pred cCCCCcccccccccccccc-CCCcE--EecCCCcchHhhHHHHHH
Q 024340 38 NSREEGLECPICWESFNVV-ENLPY--VLWCGHTLCKNCVLGLQR 79 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~-~~~P~--~L~CGHtFC~~CL~~~~~ 79 (269)
..--+..+|.+|+..+.+. +-.+. +-.|+|.+|..||..|.-
T Consensus 91 eK~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~D 135 (1134)
T KOG0825|consen 91 EKTAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCND 135 (1134)
T ss_pred cccccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHH
Confidence 3344677899998888771 11121 125999999999999743
No 104
>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=77.17 E-value=2.8 Score=27.67 Aligned_cols=40 Identities=25% Similarity=0.466 Sum_probs=22.1
Q ss_pred cccccccccccCCCcEEec---CCCcchHhhHHHHHHhhccCCCCCCCCCCccccccC
Q 024340 46 CPICWESFNVVENLPYVLW---CGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWC 100 (269)
Q Consensus 46 CpICl~~f~~~~~~P~~L~---CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~C 100 (269)
|.+|.++... -+.-+ |+-.+...|+... +.....+ .||.|
T Consensus 1 C~~C~~iv~~----G~~C~~~~C~~r~H~~C~~~y-~r~~~~~----------~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQ----GQRCSNRDCNVRLHDDCFKKY-FRHRSNP----------KCPNC 43 (43)
T ss_dssp -TTT-SB-SS----SEE-SS--S--EE-HHHHHHH-TTT-SS-----------B-TTT
T ss_pred CcccchhHee----eccCCCCccCchHHHHHHHHH-HhcCCCC----------CCcCC
Confidence 6788888888 66665 9889999999987 4433211 59987
No 105
>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=77.12 E-value=1.8 Score=41.49 Aligned_cols=39 Identities=18% Similarity=0.213 Sum_probs=25.5
Q ss_pred CCcchHhhHHHHHHhhccCCCCCCC-CCCccccccCCcccc
Q 024340 66 GHTLCKNCVLGLQRAVIRLPTLPFQ-LPFFITCPWCNMVSL 105 (269)
Q Consensus 66 GHtFC~~CL~~~~~~~~~~~~~~~~-~~~~i~CP~CR~~~~ 105 (269)
.--.|..|+.+|+..... ...|.+ +.+...||.||+.+.
T Consensus 312 RPmWC~~Cm~kwFasrQd-~~~~~~Wl~~~~~CPtCRa~FC 351 (358)
T PF10272_consen 312 RPMWCLECMGKWFASRQD-QQHPETWLSGKCPCPTCRAKFC 351 (358)
T ss_pred cchHHHHHHHHHhhhcCC-CCChhhhhcCCCCCCCCcccce
Confidence 344588999998554332 222322 466779999999865
No 106
>PF14494 DUF4436: Domain of unknown function (DUF4436)
Probab=76.28 E-value=4.5 Score=36.99 Aligned_cols=33 Identities=24% Similarity=0.603 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHhhhhh
Q 024340 218 IVLILIILYAIPASAAILALYIL--------------ITIVFAIPSC 250 (269)
Q Consensus 218 ~~fl~~~~~~~~~~~~~~~~y~~--------------~~~~~~~~~~ 250 (269)
.++|+++++++++.+++.+++.+ .+.|||+|.+
T Consensus 170 ~~~i~~vm~~L~~~al~~ai~~~~~rr~~~~~~l~w~aA~LFAlp~l 216 (256)
T PF14494_consen 170 ALFICLVMWALATLALFVAIQVLRRRRKFEPPMLTWMAAMLFALPPL 216 (256)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCccccccchHHHHHHHHHhhhhH
Confidence 35788899999999999999887 5778888753
No 107
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.87 E-value=3.7 Score=37.54 Aligned_cols=63 Identities=17% Similarity=0.274 Sum_probs=41.7
Q ss_pred cCCCCccccccccccccccCCCcEEecC-----CCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWC-----GHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~C-----GHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
.+.+.+-.|=||...=.+..+.--+-|| .|-.+..|+.+|..+... .+....+.||.|+....
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~-----~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQR-----GNPLQTVSCPQCQTEYI 82 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhc-----CCCCceeechhhcchhe
Confidence 3455677899998865553333345576 256789999998655332 12234679999998764
No 108
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.47 E-value=2 Score=39.02 Aligned_cols=40 Identities=15% Similarity=0.116 Sum_probs=34.6
Q ss_pred ccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHh
Q 024340 37 NNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRA 80 (269)
Q Consensus 37 ~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~ 80 (269)
..+.++...|..|++.+.+ |++.+=||.||+.||.+..-.
T Consensus 37 rDsiK~FdcCsLtLqPc~d----Pvit~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 37 RDSIKPFDCCSLTLQPCRD----PVITPDGYLFDREAILEYILA 76 (303)
T ss_pred ccccCCcceeeeecccccC----CccCCCCeeeeHHHHHHHHHH
Confidence 4566778889999999999 999999999999999986443
No 109
>PF07234 DUF1426: Protein of unknown function (DUF1426); InterPro: IPR009871 This family consists of several Banana bunchy top virus proteins of around 120 residues in length. Q9IGU4 from SWISSPROT is annotated a movement protein whereas most other family members are hypothetical. The function of this family is unknown.
Probab=74.80 E-value=7.6 Score=30.46 Aligned_cols=32 Identities=28% Similarity=0.519 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 024340 220 LILIILYAIPASAAILALYILITIVFAIPSCL 251 (269)
Q Consensus 220 fl~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~ 251 (269)
|.=|.||.--...||-.||+|..+||-+|-++
T Consensus 11 fFEwFLF~~AIFiAItIlYILLalL~EvPkYI 42 (117)
T PF07234_consen 11 FFEWFLFFGAIFIAITILYILLALLFEVPKYI 42 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 33334443445678889999999999999763
No 110
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.78 E-value=1.7 Score=40.20 Aligned_cols=38 Identities=21% Similarity=0.454 Sum_probs=31.2
Q ss_pred CccccccccccccccCCCcEEecC----CCcchHhhHHHHHHhhcc
Q 024340 42 EGLECPICWESFNVVENLPYVLWC----GHTLCKNCVLGLQRAVIR 83 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L~C----GHtFC~~CL~~~~~~~~~ 83 (269)
+.+.|.+|.+.+.+ -....| +|.||-.|-++..+...+
T Consensus 267 apLcCTLC~ERLED----THFVQCPSVp~HKFCFPCSResIK~Qg~ 308 (352)
T KOG3579|consen 267 APLCCTLCHERLED----THFVQCPSVPSHKFCFPCSRESIKQQGA 308 (352)
T ss_pred Cceeehhhhhhhcc----CceeecCCCcccceecccCHHHHHhhcC
Confidence 45999999999999 556677 799999999987666554
No 111
>PHA02702 ORF033 IMV membrane protein; Provisional
Probab=73.69 E-value=3.1 Score=30.88 Aligned_cols=23 Identities=26% Similarity=0.658 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHhhhhhhhhhhhc
Q 024340 235 LALYILITIVFAIPSCLVLYFAL 257 (269)
Q Consensus 235 ~~~y~~~~~~~~~~~~~~~~~~~ 257 (269)
+...=++..+.-+|..++||+||
T Consensus 46 ltvle~va~l~~IPgtIiLY~aY 68 (78)
T PHA02702 46 LTVLDFVSLLTTIPCTIILYFLC 68 (78)
T ss_pred HHHHHHHHHHHHhchHHHHHHHH
Confidence 33344477777899999999999
No 112
>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=73.28 E-value=1.3 Score=30.45 Aligned_cols=14 Identities=29% Similarity=0.916 Sum_probs=11.1
Q ss_pred Cccccccccccccc
Q 024340 42 EGLECPICWESFNV 55 (269)
Q Consensus 42 e~l~CpICl~~f~~ 55 (269)
+.+.||.|.+.|+.
T Consensus 1 ~~f~CP~C~~~~~~ 14 (54)
T PF05605_consen 1 DSFTCPYCGKGFSE 14 (54)
T ss_pred CCcCCCCCCCccCH
Confidence 46889999996665
No 113
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=73.11 E-value=1.8 Score=45.57 Aligned_cols=37 Identities=22% Similarity=0.553 Sum_probs=30.0
Q ss_pred CCCCccccccccccccccCCCcEEe-cCCCcchHhhHHHHH
Q 024340 39 SREEGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQ 78 (269)
Q Consensus 39 ~lee~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~ 78 (269)
.++...+|.+|...+.. .|.++ +|||.|.++|+.+..
T Consensus 813 v~ep~d~C~~C~~~ll~---~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLI---KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred EecCccchHHhcchhhc---CcceeeeccchHHHHHHHHHH
Confidence 34667889999997765 27777 999999999998764
No 114
>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=71.95 E-value=0.62 Score=34.22 Aligned_cols=41 Identities=24% Similarity=0.496 Sum_probs=22.4
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
++.||.|...+.. .=||..|..|-.... . ...||.|.++..
T Consensus 1 e~~CP~C~~~L~~--------~~~~~~C~~C~~~~~-~-------------~a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELEW--------QGGHYHCEACQKDYK-K-------------EAFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEEE--------ETTEEEETTT--EEE-E-------------EEE-TTT-SB-E
T ss_pred CCcCCCCCCccEE--------eCCEEECccccccce-e-------------cccCCCcccHHH
Confidence 3679999996554 228899999987641 1 226999998865
No 115
>PF15616 TerY-C: TerY-C metal binding domain
Probab=71.48 E-value=2.8 Score=34.54 Aligned_cols=44 Identities=30% Similarity=0.712 Sum_probs=32.0
Q ss_pred cCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 38 NSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 38 ~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.++.....||-|...+.- .+-.||+.+|-. . +..+.||+|....
T Consensus 72 seL~g~PgCP~CGn~~~f-----a~C~CGkl~Ci~---g---------------~~~~~CPwCg~~g 115 (131)
T PF15616_consen 72 SELIGAPGCPHCGNQYAF-----AVCGCGKLFCID---G---------------EGEVTCPWCGNEG 115 (131)
T ss_pred HHhcCCCCCCCCcChhcE-----EEecCCCEEEeC---C---------------CCCEECCCCCCee
Confidence 445567899999998664 455999999963 1 1245899998764
No 116
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.92 E-value=3.3 Score=40.61 Aligned_cols=38 Identities=32% Similarity=0.649 Sum_probs=30.0
Q ss_pred CCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhh
Q 024340 41 EEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAV 81 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~ 81 (269)
....+|.||.+.+.. .-..+.|||.||..|........
T Consensus 68 ~~~~~c~ic~~~~~~---~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG---EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CccccCCcccCCCcc---hhhhcCCCcHHHHHHHHHHhhhe
Confidence 456889999998874 14556999999999999875543
No 117
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.91 E-value=2.4 Score=37.47 Aligned_cols=38 Identities=34% Similarity=0.658 Sum_probs=27.0
Q ss_pred cccccccccccCCCcEEecCCC-cchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 46 CPICWESFNVVENLPYVLWCGH-TLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 46 CpICl~~f~~~~~~P~~L~CGH-tFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
|-.|.+.=.. -..+||.| .+|..|-.+. . .||.|+.+-
T Consensus 161 Cr~C~~~~~~----VlllPCrHl~lC~~C~~~~----~-------------~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGEREAT----VLLLPCRHLCLCGICDESL----R-------------ICPICRSPK 199 (207)
T ss_pred ceecCcCCce----EEeecccceEecccccccC----c-------------cCCCCcChh
Confidence 8888774444 55569987 7899996531 1 599999753
No 118
>PHA02862 5L protein; Provisional
Probab=64.28 E-value=5.4 Score=33.45 Aligned_cols=45 Identities=18% Similarity=0.300 Sum_probs=31.2
Q ss_pred cccccccccccccCCCcEEecCC-----CcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 44 LECPICWESFNVVENLPYVLWCG-----HTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 44 l~CpICl~~f~~~~~~P~~L~CG-----HtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
..|=||.+.-++ . .-||. .-.+++|+.+|...+. ...|+.|+.+.
T Consensus 3 diCWIC~~~~~e----~-~~PC~C~GS~K~VHq~CL~~WIn~S~-----------k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVCDE----R-NNFCGCNEEYKVVHIKCMQLWINYSK-----------KKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcCCC----C-cccccccCcchhHHHHHHHHHHhcCC-----------CcCccCCCCeE
Confidence 468999997654 2 24553 3458999999975433 33799999875
No 119
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=63.04 E-value=3.8 Score=38.31 Aligned_cols=39 Identities=21% Similarity=0.341 Sum_probs=29.1
Q ss_pred CCCccccccccccccccCCCcEEecCCCcchHhhHHHHHH
Q 024340 40 REEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQR 79 (269)
Q Consensus 40 lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~ 79 (269)
......|.||+--|.+.+- =.++.|-|-|...|+.+.+.
T Consensus 112 n~p~gqCvICLygfa~~~~-ft~T~C~Hy~H~~ClaRyl~ 150 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPA-FTVTACDHYMHFACLARYLT 150 (368)
T ss_pred CCCCCceEEEEEeecCCCc-eeeehhHHHHHHHHHHHHHH
Confidence 3456789999998887321 24559999999999887653
No 120
>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=60.43 E-value=3.9 Score=24.13 Aligned_cols=9 Identities=33% Similarity=0.862 Sum_probs=4.4
Q ss_pred ccccccccc
Q 024340 46 CPICWESFN 54 (269)
Q Consensus 46 CpICl~~f~ 54 (269)
||-|.....
T Consensus 3 CP~C~~~V~ 11 (26)
T PF10571_consen 3 CPECGAEVP 11 (26)
T ss_pred CCCCcCCch
Confidence 555555443
No 121
>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=59.94 E-value=7.8 Score=30.54 Aligned_cols=56 Identities=16% Similarity=0.268 Sum_probs=32.9
Q ss_pred CCccccccccccccccCCCcEE--------ecC---CCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 41 EEGLECPICWESFNVVENLPYV--------LWC---GHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~--------L~C---GHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
+...+|+.|.+.-.+ ..+ ..| .-.||..||.......... +.......||.||...
T Consensus 5 ~~g~~CHqCrqKt~~----~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~e----v~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 5 VNGKTCHQCRQKTLD----FKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEE----VLEDPNWKCPKCRGIC 71 (105)
T ss_pred CCCCCchhhcCCCCC----CceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHH----HhcCCceECCCCCCee
Confidence 456678888874443 221 234 6679999998754332110 0111245899999753
No 122
>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=58.24 E-value=6 Score=26.85 Aligned_cols=34 Identities=21% Similarity=0.487 Sum_probs=25.6
Q ss_pred cccccccccccccCCCcEEecCCCcchHhhHHHH
Q 024340 44 LECPICWESFNVVENLPYVLWCGHTLCKNCVLGL 77 (269)
Q Consensus 44 l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~ 77 (269)
-.|..|...|..-.+...--.||+.||.+|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 4688998888874444444489999999998753
No 123
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=57.58 E-value=11 Score=34.51 Aligned_cols=54 Identities=15% Similarity=0.359 Sum_probs=39.9
Q ss_pred cccCCCCccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 36 LNNSREEGLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 36 ~~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
........+.|||-.-.|+..-+--...+|||.|=.+-+.+. .. + .|++|....
T Consensus 104 ~~D~~~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei-ka----s----------~C~~C~a~y 157 (293)
T KOG3113|consen 104 HDDTQRARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI-KA----S----------VCHVCGAAY 157 (293)
T ss_pred ccccccceeecccccceecceEEEEEEeccceeccHHHHHHh-hh----c----------cccccCCcc
Confidence 344556789999999888874443444489999999888876 22 1 599999875
No 124
>KOG4767 consensus Cytochrome c oxidase, subunit II, and related proteins [Energy production and conversion]
Probab=57.35 E-value=30 Score=30.60 Aligned_cols=15 Identities=40% Similarity=0.782 Sum_probs=10.5
Q ss_pred HHHHHhhhhhhhhhh
Q 024340 241 ITIVFAIPSCLVLYF 255 (269)
Q Consensus 241 ~~~~~~~~~~~~~~~ 255 (269)
|-++-|+|||-+||.
T Consensus 75 Ill~ialPS~~LLY~ 89 (231)
T KOG4767|consen 75 ILLLIALPSLRLLYL 89 (231)
T ss_pred HHHHHHhHHHHHHHH
Confidence 455667888887774
No 125
>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 PHA03055 Hypothetical protein; Provisional
Probab=55.71 E-value=11 Score=28.30 Aligned_cols=18 Identities=28% Similarity=0.595 Sum_probs=15.5
Q ss_pred HHHHHHhhhhhhhhhhhc
Q 024340 240 LITIVFAIPSCLVLYFAL 257 (269)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~ 257 (269)
++.++--+|..++||+||
T Consensus 54 ~va~lifIPgti~LY~aY 71 (79)
T PHA03055 54 YIGLFIYIPGTIILYATY 71 (79)
T ss_pred HHHHHHhhccHHHHHHHH
Confidence 366777799999999999
No 127
>PHA03062 putative IMV membrane protein; Provisional
Probab=52.68 E-value=13 Score=27.82 Aligned_cols=18 Identities=28% Similarity=0.613 Sum_probs=15.5
Q ss_pred HHHHHHhhhhhhhhhhhc
Q 024340 240 LITIVFAIPSCLVLYFAL 257 (269)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~ 257 (269)
++.++--+|..++||+||
T Consensus 55 ~va~lifIPgti~LY~aY 72 (78)
T PHA03062 55 YVAILIFVPGTIALYSAY 72 (78)
T ss_pred HHHHHHhhccHHHHHHHH
Confidence 366777899999999999
No 128
>PF05293 ASFV_L11L: African swine fever virus (ASFV) L11L protein; InterPro: IPR007957 L11L is an integral membrane protein of the African swine fever virus, which is expressed late in the virus replication cycle. The protein is thought to be non-essential for growth in vitro and for virus virulence in domestic pigs [].
Probab=50.78 E-value=43 Score=24.23 Aligned_cols=43 Identities=23% Similarity=0.463 Sum_probs=25.5
Q ss_pred hcchhHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccchHHH
Q 024340 211 TAKFPLIIVLILIIL----YAIPASAAILALYILITIVFAIPSCLVLYFALPILDWL 263 (269)
Q Consensus 211 t~~~~~v~~fl~~~~----~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~ 263 (269)
.+.+|+|+|||+.-+ .-+-..|+.|++.++| +==|.+|-+-|-
T Consensus 8 mapipliliflysyfkiklhklitialflgclffi----------lrdfcfppmlw~ 54 (78)
T PF05293_consen 8 MAPIPLILIFLYSYFKIKLHKLITIALFLGCLFFI----------LRDFCFPPMLWT 54 (78)
T ss_pred ecCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHccCCHHHHH
Confidence 578899999987543 3344445555544433 234566666664
No 129
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=50.71 E-value=6.9 Score=27.77 Aligned_cols=34 Identities=26% Similarity=0.617 Sum_probs=17.8
Q ss_pred CccccccccccccccCCCcEEe-cCCCcchHhhHHH
Q 024340 42 EGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLG 76 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~ 76 (269)
+...|.+|...|.-- +....- .||+.||.+|...
T Consensus 8 ~~~~C~~C~~~F~~~-~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 8 EASNCMICGKKFSLF-RRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp G-SB-TTT--B-BSS-S-EEE-TTT--EEECCCS-E
T ss_pred CCCcCcCcCCcCCCc-eeeEccCCCCCEECCchhCC
Confidence 566799999999652 334444 7999999999864
No 130
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=49.63 E-value=18 Score=37.32 Aligned_cols=73 Identities=19% Similarity=0.306 Sum_probs=44.8
Q ss_pred ccCCCCccccccccccccccCCCcEEecCCCcchH--hhHHHHHHh-hccCCCCCCCCCCccccccCCcccccccccCCC
Q 024340 37 NNSREEGLECPICWESFNVVENLPYVLWCGHTLCK--NCVLGLQRA-VIRLPTLPFQLPFFITCPWCNMVSLRLICKGNL 113 (269)
Q Consensus 37 ~~~lee~l~CpICl~~f~~~~~~P~~L~CGHtFC~--~CL~~~~~~-~~~~~~~~~~~~~~i~CP~CR~~~~~~~~~~~~ 113 (269)
....+-.+.|+++...+.- ||.+..|+ .|.....-- .++ . .....||+|.+... .
T Consensus 300 tt~~~vSL~CPl~~~Rm~~--------P~r~~~CkHlQcFD~~~~lq~n~-~------~pTW~CPVC~~~~~-------~ 357 (636)
T KOG2169|consen 300 TTSLRVSLNCPLSKMRMSL--------PARGHTCKHLQCFDALSYLQMNE-Q------KPTWRCPVCQKAAP-------F 357 (636)
T ss_pred eccceeEecCCcccceeec--------CCcccccccceecchhhhHHhcc-C------CCeeeCccCCcccc-------c
Confidence 4566788999999885554 44444444 554433111 111 1 12568999998765 6
Q ss_pred CCCcchHHHHHHHHHHhc
Q 024340 114 KFPQKNYYLLWMVESMNG 131 (269)
Q Consensus 114 ~~~~~N~~l~~lve~~~~ 131 (269)
..+.....+.+++.....
T Consensus 358 e~l~iD~~~~~iL~~~~~ 375 (636)
T KOG2169|consen 358 EGLIIDGYFLNILQSCQA 375 (636)
T ss_pred cchhhhHHHHHHHhhccC
Confidence 667677777777766554
No 131
>PF02790 COX2_TM: Cytochrome C oxidase subunit II, transmembrane domain This family corresponds to chains b and o.; InterPro: IPR011759 Cytochrome c oxidase (1.9.3.1 from EC) [, ] is an oligomeric enzymatic complex which is a component of the respiratory chain and is involved in the transfer of electrons from cytochrome c to oxygen. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. The enzyme complex consists of 3-4 subunits (prokaryotes) to up to 13 polypeptides (mammals). Subunit 2 (CO II) transfers the electrons from cytochrome c to the catalytic subunit 1. It contains two adjacent transmembrane regions in its N terminus and the major part of the protein is exposed to the periplasmic or to the mitochondrial intermembrane space, respectively. CO II provides the substrate-binding site and contains a copper centre called Cu(A) (see IPR001505 from INTERPRO), probably the primary acceptor in cytochrome c oxidase. An exception is the corresponding subunit of the cbb3-type oxidase which lacks the copper A redox-centre. Several bacterial CO II have a C-terminal extension that contains a covalently bound haem c. The N-terminal domain of cytochrome C oxidase contains two transmembrane alpha-helices. ; GO: 0004129 cytochrome-c oxidase activity, 0005507 copper ion binding, 0009055 electron carrier activity, 0022900 electron transport chain, 0016021 integral to membrane; PDB: 3VRJ_C 2EIN_B 3AG3_B 2DYR_O 3AG1_B 2EIK_O 3ASN_B 1OCR_B 2EIJ_B 1OCC_O ....
Probab=49.32 E-value=43 Score=24.31 Aligned_cols=19 Identities=37% Similarity=0.709 Sum_probs=16.0
Q ss_pred HHHhhhhhhhhhhhccchH
Q 024340 243 IVFAIPSCLVLYFALPILD 261 (269)
Q Consensus 243 ~~~~~~~~~~~~~~~~~~~ 261 (269)
+=-.+|.++++..++||+.
T Consensus 65 ~WTiiP~iiLl~l~~pSl~ 83 (84)
T PF02790_consen 65 IWTIIPAIILLFLAFPSLK 83 (84)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHhhhcc
Confidence 3457899999999999985
No 132
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.09 E-value=20 Score=34.33 Aligned_cols=42 Identities=17% Similarity=0.319 Sum_probs=22.5
Q ss_pred HHHHHHHHHH-HHHHH-----------HHHHHHHHHHHHHHhhhhhhhhhhhcc
Q 024340 217 IIVLILIILY-AIPAS-----------AAILALYILITIVFAIPSCLVLYFALP 258 (269)
Q Consensus 217 v~~fl~~~~~-~~~~~-----------~~~~~~y~~~~~~~~~~~~~~~~~~~~ 258 (269)
|++-|.|||| ++|.. ++.++.+||+..+.=+=.|.|.|.-|+
T Consensus 198 vl~tlaivLFPLWP~~mR~gvyY~sig~~gfl~~IlvLaIvRlILF~I~~il~~ 251 (372)
T KOG2927|consen 198 VLVTLAIVLFPLWPRRMRQGVYYLSIGAGGFLAFILVLAIVRLILFGITWILTG 251 (372)
T ss_pred HHHHHHHHhcccCcHHHhcceeeeecchhHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 6667778887 66643 223333333333333345566666666
No 133
>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=48.77 E-value=33 Score=24.16 Aligned_cols=47 Identities=19% Similarity=0.386 Sum_probs=29.8
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.-.|..|-.-+.....-.++-+=..|||..|....+. . .||-|....
T Consensus 5 rpnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~--~-------------~CPNCgGel 51 (57)
T PF06906_consen 5 RPNCECCDKDLPPDSPEAYICSFECTFCADCAETMLN--G-------------VCPNCGGEL 51 (57)
T ss_pred CCCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc--C-------------cCcCCCCcc
Confidence 3456667666554332244444446899999988642 1 599998764
No 134
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=48.75 E-value=11 Score=27.32 Aligned_cols=15 Identities=27% Similarity=0.680 Sum_probs=10.2
Q ss_pred cchHhhHHHHHHhhc
Q 024340 68 TLCKNCVLGLQRAVI 82 (269)
Q Consensus 68 tFC~~CL~~~~~~~~ 82 (269)
-||++||.+|.....
T Consensus 11 gFCRNCLskWy~~aA 25 (68)
T PF06844_consen 11 GFCRNCLSKWYREAA 25 (68)
T ss_dssp S--HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 399999999976644
No 135
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=47.12 E-value=12 Score=35.45 Aligned_cols=49 Identities=27% Similarity=0.570 Sum_probs=33.8
Q ss_pred ccccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.-.||+|.+.....+..-.-.+||+..|..|+.+.... .-.||.||+..
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~-------------~~~~~~~rk~~ 297 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDG-------------DGRCPGCRKPY 297 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhccccc-------------CCCCCccCCcc
Confidence 46799999977554332333489999999998875222 12799999664
No 136
>PF13198 DUF4014: Protein of unknown function (DUF4014)
Probab=47.12 E-value=42 Score=24.72 Aligned_cols=21 Identities=33% Similarity=0.569 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 024340 219 VLILIILYAIPASAAILALYI 239 (269)
Q Consensus 219 ~fl~~~~~~~~~~~~~~~~y~ 239 (269)
.||++++|++|.|-++++..+
T Consensus 20 F~ilfIvlmipI~pll~~~~i 40 (72)
T PF13198_consen 20 FFILFIVLMIPISPLLFVWII 40 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 467777788888876665443
No 137
>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=46.75 E-value=12 Score=29.87 Aligned_cols=50 Identities=24% Similarity=0.432 Sum_probs=32.2
Q ss_pred CccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 42 EGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
..-.|.+|...|.--.+..... .|+|.+|.+|-... .+ .....|-+|++.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~----~~--------~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYS----KK--------EPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEET----SS--------SCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcC----CC--------CCCEEChhhHHH
Confidence 4558999998775544556666 79999999996431 10 124579999753
No 138
>PF04713 Pox_I5: Poxvirus protein I5; InterPro: IPR006803 This entry represents the Poxvirus protein I5.
Probab=46.21 E-value=18 Score=27.07 Aligned_cols=17 Identities=35% Similarity=0.725 Sum_probs=14.9
Q ss_pred HHHHHhhhhhhhhhhhc
Q 024340 241 ITIVFAIPSCLVLYFAL 257 (269)
Q Consensus 241 ~~~~~~~~~~~~~~~~~ 257 (269)
+.++--+|..++||+||
T Consensus 55 vailifIPGTIiLY~aY 71 (77)
T PF04713_consen 55 VAILIFIPGTIILYSAY 71 (77)
T ss_pred HHHHhhcccHHHHHHHH
Confidence 66777799999999999
No 139
>PF03839 Sec62: Translocation protein Sec62; InterPro: IPR004728 Members of the NSCC2 family have been sequenced from various yeast, fungal and animals species including Saccharomyces cerevisiae, Drosophila melanogaster and Homo sapiens. These proteins are the Sec62 proteins, believed to be associated with the Sec61 and Sec63 constituents of the general protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins have been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane
Probab=45.27 E-value=24 Score=31.65 Aligned_cols=33 Identities=21% Similarity=0.233 Sum_probs=21.7
Q ss_pred hhhcchhHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q 024340 209 QLTAKFPLIIVLILIILY-AIPASAAILALYILI 241 (269)
Q Consensus 209 ~~t~~~~~v~~fl~~~~~-~~~~~~~~~~~y~~~ 241 (269)
++...+-+|++.+.+|+| ++|..+=..+.|+-+
T Consensus 111 ~~l~~~~~~~~v~a~~lFPlWP~~~r~gv~YlS~ 144 (224)
T PF03839_consen 111 QYLIGALLLVGVIAICLFPLWPRWMRQGVYYLSV 144 (224)
T ss_pred HHHHHHHHHHHHHHHHhhhcChHHHhheeehhHH
Confidence 344445567777788888 888776666556443
No 140
>PF14353 CpXC: CpXC protein
Probab=40.76 E-value=26 Score=27.97 Aligned_cols=13 Identities=31% Similarity=0.894 Sum_probs=10.4
Q ss_pred ccccccccccccc
Q 024340 43 GLECPICWESFNV 55 (269)
Q Consensus 43 ~l~CpICl~~f~~ 55 (269)
+++||.|...|..
T Consensus 1 ~itCP~C~~~~~~ 13 (128)
T PF14353_consen 1 EITCPHCGHEFEF 13 (128)
T ss_pred CcCCCCCCCeeEE
Confidence 3679999888887
No 141
>TIGR00869 sec62 protein translocation protein, Sec62 family. protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins has been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.
Probab=40.59 E-value=42 Score=30.30 Aligned_cols=50 Identities=6% Similarity=0.198 Sum_probs=28.6
Q ss_pred hhhcchhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH-----------Hhhhhhhhhhhhcc
Q 024340 209 QLTAKFPLIIVLILIILY-AIPASAAILALYILITIV-----------FAIPSCLVLYFALP 258 (269)
Q Consensus 209 ~~t~~~~~v~~fl~~~~~-~~~~~~~~~~~y~~~~~~-----------~~~~~~~~~~~~~~ 258 (269)
++...+-++++.+.+|+| ++|...=..+.|+-++++ +=+=.|+|+||..+
T Consensus 119 ~~l~~~~~~~~ila~~lFPlWP~~~r~gv~YlS~~~lgll~~~~~laivRlilF~i~~~~~g 180 (232)
T TIGR00869 119 DYLIVILVVSIILALVLFPLWPRFMRRGSWYLSLGALGIIGGFFAVAILRLILFVLTLIVVK 180 (232)
T ss_pred HHHHHHHHHHHHHHHhhcccChHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 344445567778888877 677655555555443322 22345666676643
No 142
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=40.19 E-value=35 Score=31.49 Aligned_cols=55 Identities=18% Similarity=0.282 Sum_probs=32.3
Q ss_pred ccccccccccccccCCCcEEec-----CCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcc
Q 024340 43 GLECPICWESFNVVENLPYVLW-----CGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMV 103 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~-----CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~ 103 (269)
..+|.+|.+.+.+.+ +..+. |+-.....|+...+....+..- +|..-.||.|++.
T Consensus 182 ~~~celc~~ei~e~~--~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~----~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 182 NVECELCEKEILETD--WSRATCPNPDCDSLNHLTCLAEELLEVEPGQL----IPLEGMCPKCEKF 241 (276)
T ss_pred chhhHHHHHHhcccc--ceeccCCCCCCCchhhhhhhhHHHhccCCCce----eccCCCCCchhce
Confidence 358999999996533 44454 4545556788763222221111 2334479999874
No 143
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.48 E-value=57 Score=32.27 Aligned_cols=36 Identities=31% Similarity=0.743 Sum_probs=29.4
Q ss_pred cCCCCccccccc-cccccccCCCcEEe--cCCCcchHhhHHHH
Q 024340 38 NSREEGLECPIC-WESFNVVENLPYVL--WCGHTLCKNCVLGL 77 (269)
Q Consensus 38 ~~lee~l~CpIC-l~~f~~~~~~P~~L--~CGHtFC~~CL~~~ 77 (269)
-...+++.|++| .+.|-+ -+++ -|..++|..|+++.
T Consensus 214 ~~~~e~~~c~~~~~~~~~~----~~l~~~~~~~~~~~~~i~~~ 252 (448)
T KOG0314|consen 214 GELPEGLQCPLCGKEVMLD----AALLSKCCLKSFCDKCIRDA 252 (448)
T ss_pred ccCCccccCceecchhhHH----HHHhhhhhcccCCccccccc
Confidence 345789999999 778887 6777 58899999999874
No 144
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.30 E-value=28 Score=32.67 Aligned_cols=53 Identities=23% Similarity=0.385 Sum_probs=40.8
Q ss_pred cccCCCCccccccccccccccCCCcEEe-cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 36 LNNSREEGLECPICWESFNVVENLPYVL-WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 36 ~~~~lee~l~CpICl~~f~~~~~~P~~L-~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
.+.....+-.|-+|...+.- |... .|+|.||..|...+..... .||.|+....
T Consensus 98 dA~~~~~~~~~~~~~g~l~v----pt~~qg~w~qf~~~~p~~~~~~~~-------------~~~d~~~~~~ 151 (324)
T KOG0824|consen 98 DAGFQQDHDICYICYGKLTV----PTRIQGCWHQFCYVCPKSNFAMGN-------------DCPDCRGKIS 151 (324)
T ss_pred hccccCCccceeeeeeeEEe----cccccCceeeeeecCCchhhhhhh-------------ccchhhcCcC
Confidence 34455677889999999988 8777 5999999999988755444 5888887653
No 145
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=36.59 E-value=34 Score=30.77 Aligned_cols=42 Identities=17% Similarity=0.209 Sum_probs=21.4
Q ss_pred cchhchhhhhhhHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 024340 195 RLQLSLRKSLVFFAQLTAKFPLIIVLILIILYAIPASAAILALYI 239 (269)
Q Consensus 195 ~~~~~~~k~~~~f~~~t~~~~~v~~fl~~~~~~~~~~~~~~~~y~ 239 (269)
++-.++......|..+ +-+++.|+.++++.+|+.++++++|.
T Consensus 217 ~~~~al~~~~~~~~~~---~~~lv~~l~~l~p~~~~~~~~~~~~~ 258 (262)
T PF14257_consen 217 RFRDALKNGWNALVSF---LSGLVVFLVGLLPWLPLILIIGLLVR 258 (262)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444444444444432 22455566666666666655555544
No 146
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.13 E-value=12 Score=34.98 Aligned_cols=41 Identities=15% Similarity=0.148 Sum_probs=23.2
Q ss_pred CCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 65 CGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 65 CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
|..-.|.+|+.+|+-.....--+-.=..+.-.||.||+.+.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fc 365 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFC 365 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceE
Confidence 45567889999985432210000000133557999998764
No 147
>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=35.93 E-value=33 Score=23.42 Aligned_cols=12 Identities=33% Similarity=0.742 Sum_probs=9.6
Q ss_pred cccccccccccc
Q 024340 44 LECPICWESFNV 55 (269)
Q Consensus 44 l~CpICl~~f~~ 55 (269)
..|.+|.-+|+.
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 468889888886
No 148
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=35.62 E-value=28 Score=23.43 Aligned_cols=12 Identities=25% Similarity=0.921 Sum_probs=9.8
Q ss_pred cccccccccccc
Q 024340 44 LECPICWESFNV 55 (269)
Q Consensus 44 l~CpICl~~f~~ 55 (269)
..|.+|.-+|+.
T Consensus 2 y~C~~CgyvYd~ 13 (47)
T PF00301_consen 2 YQCPVCGYVYDP 13 (47)
T ss_dssp EEETTTSBEEET
T ss_pred cCCCCCCEEEcC
Confidence 468899988887
No 149
>PHA03164 hypothetical protein; Provisional
Probab=34.62 E-value=34 Score=25.63 Aligned_cols=21 Identities=33% Similarity=0.575 Sum_probs=13.5
Q ss_pred HHhhhcchhHHHHHHHHHHHH
Q 024340 207 FAQLTAKFPLIIVLILIILYA 227 (269)
Q Consensus 207 f~~~t~~~~~v~~fl~~~~~~ 227 (269)
|+.+|.-.--+|+||.+|+|+
T Consensus 60 FlvLtgLaIamILfiifvlyv 80 (88)
T PHA03164 60 FLVLTGLAIAMILFIIFVLYV 80 (88)
T ss_pred hHHHHHHHHHHHHHHHHHHHh
Confidence 344455555677788888775
No 150
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=34.26 E-value=1.1e+02 Score=24.41 Aligned_cols=44 Identities=18% Similarity=0.318 Sum_probs=24.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH----------------HHHHHhhhhhhhhhhhc
Q 024340 214 FPLIIVLILIILYAIPASAAILALYIL----------------ITIVFAIPSCLVLYFAL 257 (269)
Q Consensus 214 ~~~v~~fl~~~~~~~~~~~~~~~~y~~----------------~~~~~~~~~~~~~~~~~ 257 (269)
.||=.|.|.+.|.++++..++++++++ +.++-.+|-+--++.+|
T Consensus 39 ~pwK~I~la~~Lli~G~~li~~g~l~~~~~i~~~~~~~~~llilG~L~fIPG~Y~~~i~y 98 (115)
T PF05915_consen 39 IPWKSIALAVFLLIFGTVLIIIGLLLFFGHIDGDRDRGWALLILGILCFIPGFYHTRIAY 98 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCcccchHHHHHHHHHhccHHHHHHHH
Confidence 344455555555555555555555444 55666677665444443
No 151
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.79 E-value=31 Score=26.70 Aligned_cols=15 Identities=27% Similarity=0.713 Sum_probs=12.4
Q ss_pred cchHhhHHHHHHhhc
Q 024340 68 TLCKNCVLGLQRAVI 82 (269)
Q Consensus 68 tFC~~CL~~~~~~~~ 82 (269)
-||++|+..|.....
T Consensus 42 gFCRNCLs~Wy~eaa 56 (104)
T COG3492 42 GFCRNCLSNWYREAA 56 (104)
T ss_pred HHHHHHHHHHHHHHH
Confidence 499999999976654
No 152
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=32.61 E-value=1.1e+02 Score=23.37 Aligned_cols=24 Identities=13% Similarity=0.296 Sum_probs=18.8
Q ss_pred cCCcccccchhchhhhhhhHHhhh
Q 024340 188 TGHLNAERLQLSLRKSLVFFAQLT 211 (269)
Q Consensus 188 ~~~~~~~~~~~~~~k~~~~f~~~t 211 (269)
++-+|.|+++.-+.+-..|+-+|.
T Consensus 14 ~si~d~DQL~qlVsrN~sfirdFv 37 (84)
T PF06143_consen 14 NSILDYDQLEQLVSRNRSFIRDFV 37 (84)
T ss_pred CCCCcHHHHHHHHHhChHHHHHHH
Confidence 366788899888888888888843
No 153
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=32.35 E-value=18 Score=28.16 Aligned_cols=49 Identities=33% Similarity=0.630 Sum_probs=16.0
Q ss_pred cccccccccccccCCCcEEecC--CCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 44 LECPICWESFNVVENLPYVLWC--GHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 44 l~CpICl~~f~~~~~~P~~L~C--GHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
-.|++|.+...-.+ +....| ||.|= .|.. ..++++.++...|+.|....
T Consensus 15 E~C~~C~~~i~~~~--~~~~~C~~GH~w~-RC~l---------T~l~i~~~~~r~C~~C~~~~ 65 (99)
T PF12660_consen 15 EKCPICGAPIPFDD--LDEAQCENGHVWP-RCAL---------TFLPIQTPGVRVCPVCGRRA 65 (99)
T ss_dssp ----------------SSEEE-TTS-EEE-B-SS---------S-SBS-SS-EEE-TTT--EE
T ss_pred ccccccccccccCC--cCEeECCCCCEEe-eeee---------eeeeeccCCeeEcCCCCCEE
Confidence 57999999654322 555666 78752 2322 33566666778999998764
No 154
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.84 E-value=31 Score=35.71 Aligned_cols=49 Identities=29% Similarity=0.506 Sum_probs=35.3
Q ss_pred ccccccccccccCCCcEEecCCC-cchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 45 ECPICWESFNVVENLPYVLWCGH-TLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 45 ~CpICl~~f~~~~~~P~~L~CGH-tFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.|+||-...+- +..-.||| ..|..|..++.-.... ..-...||+||..+
T Consensus 2 ~c~ic~~s~~~----~~~~s~~h~~v~~~~~~R~~~~~~~-------~~~~~~~~vcr~~~ 51 (669)
T KOG2231|consen 2 SCAICAFSPDF----VGRGSCGHNEVCATCVVRLRFELNN-------RKCSNECPVCRREV 51 (669)
T ss_pred CcceeecCccc----cccccccccccchhhhhhhhhhccc-------ccccccCcccccce
Confidence 59999998887 77779999 9999999887543321 01133689998753
No 155
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.71 E-value=85 Score=23.33 Aligned_cols=45 Identities=18% Similarity=0.343 Sum_probs=26.5
Q ss_pred ccccccccccccCCCcEEecCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 45 ECPICWESFNVVENLPYVLWCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 45 ~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.|..|-.-+.-...-..+..=.||||..|....+. . .||-|....
T Consensus 7 nCECCDrDLpp~s~dA~ICtfEcTFCadCae~~l~------g---------~CPnCGGel 51 (84)
T COG3813 7 NCECCDRDLPPDSTDARICTFECTFCADCAENRLH------G---------LCPNCGGEL 51 (84)
T ss_pred CCcccCCCCCCCCCceeEEEEeeehhHhHHHHhhc------C---------cCCCCCchh
Confidence 34445444333222234444568999999985421 1 699998765
No 156
>PF08636 Pkr1: ER protein Pkr1; InterPro: IPR013945 Pkr1 has been identified as an ER protein of unknown function.
Probab=31.67 E-value=1.8e+02 Score=21.67 Aligned_cols=11 Identities=18% Similarity=0.773 Sum_probs=8.8
Q ss_pred cchHHHHHHHh
Q 024340 258 PILDWLVREII 268 (269)
Q Consensus 258 ~~~~~~~~~~~ 268 (269)
=|..|.++|+-
T Consensus 60 ~Sv~WFi~EL~ 70 (75)
T PF08636_consen 60 ASVNWFIAELK 70 (75)
T ss_pred HHHHHHHHHHH
Confidence 36899999974
No 157
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=31.50 E-value=15 Score=25.17 Aligned_cols=35 Identities=23% Similarity=0.402 Sum_probs=22.0
Q ss_pred ccccc--ccccccccc---CCCcEEe-cCCCcchHhhHHHH
Q 024340 43 GLECP--ICWESFNVV---ENLPYVL-WCGHTLCKNCVLGL 77 (269)
Q Consensus 43 ~l~Cp--ICl~~f~~~---~~~P~~L-~CGHtFC~~CL~~~ 77 (269)
..-|| =|....... ....+.- .|||.||..|...|
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 33476 666555543 2223444 68999999998765
No 158
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.37 E-value=26 Score=33.86 Aligned_cols=37 Identities=22% Similarity=0.416 Sum_probs=26.3
Q ss_pred CCcccccccccccccc-CCCcEEecCCCcchHhhHHHH
Q 024340 41 EEGLECPICWESFNVV-ENLPYVLWCGHTLCKNCVLGL 77 (269)
Q Consensus 41 ee~l~CpICl~~f~~~-~~~P~~L~CGHtFC~~CL~~~ 77 (269)
+.-..||.|.-.+... .=--++-.|||-||..|...|
T Consensus 304 ~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~ 341 (384)
T KOG1812|consen 304 KRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDW 341 (384)
T ss_pred HhcCcCcccceeeeecCCcceEEeeccccchhhcCcch
Confidence 4466788888876552 222444479999999999886
No 159
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=31.14 E-value=1.5e+02 Score=23.82 Aligned_cols=10 Identities=40% Similarity=0.690 Sum_probs=4.0
Q ss_pred HHHHHHHHHH
Q 024340 225 LYAIPASAAI 234 (269)
Q Consensus 225 ~~~~~~~~~~ 234 (269)
+|.+|..+++
T Consensus 74 ~Y~lPll~li 83 (135)
T PF04246_consen 74 VYLLPLLALI 83 (135)
T ss_pred HHHHHHHHHH
Confidence 3444443333
No 160
>PF09680 Tiny_TM_bacill: Protein of unknown function (Tiny_TM_bacill); InterPro: IPR010070 This entry represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=29.67 E-value=52 Score=19.13 Aligned_cols=13 Identities=54% Similarity=0.866 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHH
Q 024340 232 AAILALYILITIV 244 (269)
Q Consensus 232 ~~~~~~y~~~~~~ 244 (269)
|+|++|++|..++
T Consensus 7 alivVLFILLiIv 19 (24)
T PF09680_consen 7 ALIVVLFILLIIV 19 (24)
T ss_pred hhHHHHHHHHHHh
Confidence 5556666665554
No 161
>COG4920 Predicted membrane protein [Function unknown]
Probab=29.54 E-value=93 Score=27.80 Aligned_cols=62 Identities=24% Similarity=0.279 Sum_probs=46.2
Q ss_pred cccchhchhhhhhhHHhhhcchhHHHHHHHHHHHHHHHHHH------------HHHHHHH-HHHHHhhhhhhhhh
Q 024340 193 AERLQLSLRKSLVFFAQLTAKFPLIIVLILIILYAIPASAA------------ILALYIL-ITIVFAIPSCLVLY 254 (269)
Q Consensus 193 ~~~~~~~~~k~~~~f~~~t~~~~~v~~fl~~~~~~~~~~~~------------~~~~y~~-~~~~~~~~~~~~~~ 254 (269)
-|.++..-+..+.+|..+.--+|-.|+|..+.+|++|..|+ -++.|+- +-.+|||-+.-++=
T Consensus 86 ee~l~E~~~~~~~~f~~m~~ml~yfIll~~f~~p~~~~~a~n~~~~~~l~~f~~Fl~Yfel~fgV~~v~~~~v~k 160 (249)
T COG4920 86 EELLNEYKRFARASFMPMLTMLPYFILLATFLFPTLPPLAENGLGPVVLREFARFLSYFELVFGVFAVISMAVFK 160 (249)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhcchHHHHHcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35667777788899999999999999999999999988764 3445553 55666666655543
No 162
>TIGR03068 srtB_sig_NPQTN sortase B signal domain, NPQTN class. This model represents one of the boutique (rare) sortase signals, recognized by sortase B (SrtB) rather than by the housekeeping-type SrtA class sortase. This sequence, beginning NPQTN, shows little similarity to several other SrtB substrates.
Probab=29.45 E-value=57 Score=20.37 Aligned_cols=8 Identities=50% Similarity=1.119 Sum_probs=5.3
Q ss_pred HHHHHHHH
Q 024340 225 LYAIPASA 232 (269)
Q Consensus 225 ~~~~~~~~ 232 (269)
+|.||+.+
T Consensus 12 ~y~Ip~v~ 19 (33)
T TIGR03068 12 IYAIPVAS 19 (33)
T ss_pred hhHHHHHH
Confidence 46677766
No 163
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=28.49 E-value=34 Score=30.78 Aligned_cols=26 Identities=19% Similarity=0.602 Sum_probs=18.5
Q ss_pred ccccccccccccccCCCcEEecCCCcc
Q 024340 43 GLECPICWESFNVVENLPYVLWCGHTL 69 (269)
Q Consensus 43 ~l~CpICl~~f~~~~~~P~~L~CGHtF 69 (269)
.+.||+|...+...+ .....+.||+|
T Consensus 2 ~~~CP~C~~~l~~~~-~~~~C~~~h~f 27 (272)
T PRK11088 2 SYQCPLCHQPLTLEE-NSWICPQNHQF 27 (272)
T ss_pred cccCCCCCcchhcCC-CEEEcCCCCCC
Confidence 378999999986422 24555668988
No 164
>PLN02189 cellulose synthase
Probab=28.37 E-value=46 Score=36.22 Aligned_cols=51 Identities=27% Similarity=0.557 Sum_probs=33.5
Q ss_pred ccccccccccccc-cCCCcEEe--cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 43 GLECPICWESFNV-VENLPYVL--WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 43 ~l~CpICl~~f~~-~~~~P~~L--~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
.-.|.||.+.... ++--|.+. .|+--.|+.|.+-- ++.. .-.||.|++...
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeye-r~eg-----------~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYE-RREG-----------TQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhh-hhcC-----------CccCcccCCchh
Confidence 3489999998664 22225555 58888999999532 2211 127999998754
No 165
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=28.34 E-value=41 Score=23.47 Aligned_cols=33 Identities=30% Similarity=0.714 Sum_probs=25.2
Q ss_pred CccccccccccccccCCCcEEe--cCCCcchHhhHHH
Q 024340 42 EGLECPICWESFNVVENLPYVL--WCGHTLCKNCVLG 76 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L--~CGHtFC~~CL~~ 76 (269)
+.-.|++|.+.|.+++ .++. .||-.+.+.|..+
T Consensus 4 ~~~~C~~Cg~~~~~~d--DiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGD--DIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCC--CEEECCCCCCcccHHHHhh
Confidence 4567999999996544 4444 7999999999765
No 166
>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=27.22 E-value=22 Score=24.13 Aligned_cols=34 Identities=21% Similarity=0.342 Sum_probs=18.8
Q ss_pred ccccc--ccccccccCCCc---EEec-CCCcchHhhHHHH
Q 024340 44 LECPI--CWESFNVVENLP---YVLW-CGHTLCKNCVLGL 77 (269)
Q Consensus 44 l~CpI--Cl~~f~~~~~~P---~~L~-CGHtFC~~CL~~~ 77 (269)
.-||- |...+...+... +.-+ |++.||..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 47877 888777643323 3335 9999999997654
No 167
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=26.95 E-value=84 Score=23.64 Aligned_cols=50 Identities=22% Similarity=0.525 Sum_probs=19.0
Q ss_pred cccccccccccccc-CCCcEEe--cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 43 GLECPICWESFNVV-ENLPYVL--WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 43 ~l~CpICl~~f~~~-~~~P~~L--~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
.-.|.||.+-.--. .--+.+. .|+--.|+.|..=-.+... -.||.|+...
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~------------q~CpqCkt~y 61 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGN------------QVCPQCKTRY 61 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-------------SB-TTT--B-
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCc------------ccccccCCCc
Confidence 45699998865442 1125555 7888899999874222222 2799999654
No 168
>COG4665 FcbT2 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=26.86 E-value=42 Score=28.97 Aligned_cols=20 Identities=45% Similarity=0.755 Sum_probs=10.6
Q ss_pred HHHHHHhhhh-hhhhhhhccc
Q 024340 240 LITIVFAIPS-CLVLYFALPI 259 (269)
Q Consensus 240 ~~~~~~~~~~-~~~~~~~~~~ 259 (269)
|-|++|.+|- +++.|++||.
T Consensus 96 lGtifFLlPfc~l~iy~~~~~ 116 (182)
T COG4665 96 LGTIFFLLPFCLLVIYLSWPY 116 (182)
T ss_pred HHHHHHHHHHHHHHHHHccHH
Confidence 3455555552 3456666664
No 169
>PF10749 DUF2534: Protein of unknown function (DUF2534); InterPro: IPR019685 This entry represents proteins with unknown function, and appear to be restricted to Enterobacteriaceae.
Probab=26.66 E-value=47 Score=25.15 Aligned_cols=25 Identities=40% Similarity=0.672 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHH-----------HHHHHhhhhh
Q 024340 226 YAIPASAAILALYIL-----------ITIVFAIPSC 250 (269)
Q Consensus 226 ~~~~~~~~~~~~y~~-----------~~~~~~~~~~ 250 (269)
|-+|+|.--..+|++ +|+|+|+|.-
T Consensus 42 YniP~s~WttsMf~~Q~ami~vYS~VFT~L~sIPlg 77 (85)
T PF10749_consen 42 YNIPFSEWTTSMFILQGAMILVYSIVFTILLSIPLG 77 (85)
T ss_pred hCCChhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556766444444433 8999999953
No 170
>MTH00154 COX2 cytochrome c oxidase subunit II; Provisional
Probab=26.45 E-value=1.4e+02 Score=26.53 Aligned_cols=20 Identities=30% Similarity=0.650 Sum_probs=15.5
Q ss_pred HhhhhhhhhhhhccchHHHH
Q 024340 245 FAIPSCLVLYFALPILDWLV 264 (269)
Q Consensus 245 ~~~~~~~~~~~~~~~~~~~~ 264 (269)
-.+|.++++.+++||+..|.
T Consensus 66 TviP~iiL~~l~~ps~~~l~ 85 (227)
T MTH00154 66 TILPAIILIFIALPSLRLLY 85 (227)
T ss_pred EehHHHHHHHHHHHHHHHHH
Confidence 45788888888888887663
No 171
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=26.27 E-value=55 Score=34.85 Aligned_cols=51 Identities=18% Similarity=0.354 Sum_probs=34.9
Q ss_pred CCccccccccccccccCCCcEEecCCC-----cchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 41 EEGLECPICWESFNVVENLPYVLWCGH-----TLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 41 ee~l~CpICl~~f~~~~~~P~~L~CGH-----tFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
+|..+|-||...=...+ |..-||.. -.+++|+.+|+.-+. ..+|-.|..+.
T Consensus 10 ~d~~~CRICr~e~~~d~--pLfhPCKC~GSIkYiH~eCL~eW~~~s~-----------~~kCdiChy~~ 65 (1175)
T COG5183 10 EDKRSCRICRTEDIRDD--PLFHPCKCSGSIKYIHRECLMEWMECSG-----------TKKCDICHYEY 65 (1175)
T ss_pred ccchhceeecCCCCCCC--cCcccccccchhHHHHHHHHHHHHhcCC-----------Ccceeeeccee
Confidence 45578999876433322 77778754 358999999865332 33799998765
No 172
>PRK03001 M48 family peptidase; Provisional
Probab=26.01 E-value=1.1e+02 Score=27.94 Aligned_cols=17 Identities=18% Similarity=0.319 Sum_probs=9.3
Q ss_pred HHHhhhhhhhhhhhccc
Q 024340 243 IVFAIPSCLVLYFALPI 259 (269)
Q Consensus 243 ~~~~~~~~~~~~~~~~~ 259 (269)
++|++...++.|+.+|.
T Consensus 34 ~~~~~~~~~~~~~~~~~ 50 (283)
T PRK03001 34 LLFALGMNFFSYWFSDK 50 (283)
T ss_pred HHHHHHHHHHHHHHhHH
Confidence 44555555566666654
No 173
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=25.87 E-value=54 Score=20.64 Aligned_cols=12 Identities=42% Similarity=1.060 Sum_probs=9.3
Q ss_pred cccccccccccc
Q 024340 44 LECPICWESFNV 55 (269)
Q Consensus 44 l~CpICl~~f~~ 55 (269)
.+||-|...|..
T Consensus 3 i~CP~C~~~f~v 14 (37)
T PF13719_consen 3 ITCPNCQTRFRV 14 (37)
T ss_pred EECCCCCceEEc
Confidence 468888888877
No 174
>COG3162 Predicted membrane protein [Function unknown]
Probab=25.87 E-value=93 Score=24.48 Aligned_cols=16 Identities=31% Similarity=0.181 Sum_probs=11.9
Q ss_pred hhhhccchHHHHHHHh
Q 024340 253 LYFALPILDWLVREII 268 (269)
Q Consensus 253 ~~~~~~~~~~~~~~~~ 268 (269)
..+|=-..|.|.+||.
T Consensus 82 v~rAn~~fDrl~~~i~ 97 (102)
T COG3162 82 VRRANGEFDRLNAEIL 97 (102)
T ss_pred hhHhhccchHHHHHHH
Confidence 4466677888888884
No 175
>TIGR01726 HEQRo_perm_3TM amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family. This model represents one of several classes of multiple membrane spanning regions found immediately N-terminal to the domain described by pfam00528, binding-protein-dependent transport systems inner membrane component. The region covered by this model generally is predicted to contain three transmembrane helices. Substrate specificities attributed to members of this family include histidine, arginine, glutamine, glutamate, and (in Agrobacterium) the opines octopine and nopaline.
Probab=25.75 E-value=2.4e+02 Score=21.24 Aligned_cols=46 Identities=26% Similarity=0.507 Sum_probs=0.0
Q ss_pred hhhhhhhHHhhhcchhHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHh
Q 024340 200 LRKSLVFFAQLTAKFPLIIVLILIILYAIP--------ASAAILALYILITIVFA 246 (269)
Q Consensus 200 ~~k~~~~f~~~t~~~~~v~~fl~~~~~~~~--------~~~~~~~~y~~~~~~~~ 246 (269)
+++....++.+...+|+++. ++++.|.+| +.++++++=+.-.--+|
T Consensus 41 ~~~~~~~~i~~~R~~P~lv~-l~~~~~~l~~~~~~~~~~~~~i~al~l~~~a~~a 94 (99)
T TIGR01726 41 LRWIATVYVELFRGTPLLVQ-LFFIYFGLPLIGIRLSPLTAAVIALTLFYGAYLA 94 (99)
T ss_pred HHHHHHHHHHHHhCchHHHH-HHHHHHHHHHhcCCcCHHHHHHHHHHHHHHHHHH
No 176
>PF08637 NCA2: ATP synthase regulation protein NCA2; InterPro: IPR013946 NCA2 (Nuclear Control of ATPase), is one of the two nuclear genes involved in the control of mitochondrial expression of subunits 6 and 8 of the Fo-F1 ATP synthase in Saccharomyces cerevisiae (Baker's yeast). Mutations in either NCA2 or NCA3 (IPR005556 from INTERPRO) dramatically lower the level of the co-transcript encoding subunits 6 and 8 [, ].
Probab=25.55 E-value=47 Score=30.83 Aligned_cols=34 Identities=24% Similarity=0.216 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHH-------HHHHHHhhhhhhhhhhhccchH
Q 024340 228 IPASAAILALYI-------LITIVFAIPSCLVLYFALPILD 261 (269)
Q Consensus 228 ~~~~~~~~~~y~-------~~~~~~~~~~~~~~~~~~~~~~ 261 (269)
+=...|+.++== .+-++-++|+|||+|+.|-.+.
T Consensus 144 VD~~~Am~gID~LLkSneL~F~iva~~Pa~li~~~~~~~l~ 184 (290)
T PF08637_consen 144 VDVEVAMSGIDKLLKSNELNFGIVAASPAFLISYGLYRWLR 184 (290)
T ss_pred HHHHHHHHHHHHHHHhchHHHHHHHHhHHHHHHHHHHHHHH
Confidence 344555555543 3788889999999999885544
No 177
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=25.30 E-value=64 Score=25.10 Aligned_cols=10 Identities=60% Similarity=1.002 Sum_probs=5.4
Q ss_pred HHHHHHHHHH
Q 024340 220 LILIILYAIP 229 (269)
Q Consensus 220 fl~~~~~~~~ 229 (269)
.++..+||+|
T Consensus 16 l~~~~lyALP 25 (101)
T PF13721_consen 16 LLLGALYALP 25 (101)
T ss_pred HHHHHHHHhh
Confidence 4455556655
No 178
>PLN02436 cellulose synthase A
Probab=25.21 E-value=56 Score=35.75 Aligned_cols=50 Identities=26% Similarity=0.569 Sum_probs=33.2
Q ss_pred cccccccccccc-cCCCcEEe--cCCCcchHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 44 LECPICWESFNV-VENLPYVL--WCGHTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 44 l~CpICl~~f~~-~~~~P~~L--~CGHtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
-.|.||.|..-. .+--|.+. .|+--.|+.|.+-- .+.. .-.||.|++...
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeye-r~eg-----------~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYE-RREG-----------NQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhh-hhcC-----------CccCcccCCchh
Confidence 379999997643 22226665 58888999999532 2211 127999998754
No 179
>PF06692 MNSV_P7B: Melon necrotic spot virus P7B protein; InterPro: IPR009575 This family consists of several Melon necrotic spot virus (MNSV) P7B proteins. The function of this family is unknown.
Probab=24.99 E-value=69 Score=22.50 Aligned_cols=16 Identities=31% Similarity=0.704 Sum_probs=9.8
Q ss_pred hhHHHHHHHHHHHHHH
Q 024340 214 FPLIIVLILIILYAIP 229 (269)
Q Consensus 214 ~~~v~~fl~~~~~~~~ 229 (269)
.|+.++||-++|+.|-
T Consensus 15 ~~lLiliis~~f~lI~ 30 (61)
T PF06692_consen 15 GPLLILIISFVFFLIT 30 (61)
T ss_pred hHHHHHHHHHHHHHHh
Confidence 4566677766665543
No 180
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=24.65 E-value=41 Score=20.96 Aligned_cols=11 Identities=36% Similarity=0.697 Sum_probs=8.0
Q ss_pred ccccccCCccc
Q 024340 94 FITCPWCNMVS 104 (269)
Q Consensus 94 ~i~CP~CR~~~ 104 (269)
...||.|....
T Consensus 26 ~~~CP~Cg~~~ 36 (41)
T smart00834 26 LATCPECGGDV 36 (41)
T ss_pred CCCCCCCCCcc
Confidence 34799998754
No 181
>KOG3249 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.50 E-value=1.6e+02 Score=25.29 Aligned_cols=13 Identities=38% Similarity=0.669 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHH
Q 024340 216 LIIVLILIILYAI 228 (269)
Q Consensus 216 ~v~~fl~~~~~~~ 228 (269)
||++.+.+|+|+|
T Consensus 107 ~v~vllW~vL~~i 119 (181)
T KOG3249|consen 107 WVIVLLWFVLAPI 119 (181)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444444
No 182
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=24.31 E-value=2.1e+02 Score=24.50 Aligned_cols=29 Identities=14% Similarity=0.167 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 024340 228 IPASAAILALYILITIVFAIPSCLVLYFA 256 (269)
Q Consensus 228 ~~~~~~~~~~y~~~~~~~~~~~~~~~~~~ 256 (269)
+.++.+.+..++++.+++++=.+.++|+.
T Consensus 22 ~~~~~~~~~~~~~l~~l~~~~~~~~~~~~ 50 (199)
T PF10112_consen 22 FLVSFFGFDHSFLLSLLIGAVAFAVVYLF 50 (199)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHh
Confidence 33444444455556666666666666654
No 183
>TIGR01732 tiny_TM_bacill conserved hypothetical tiny transmembrane protein. This model represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=24.09 E-value=79 Score=18.74 Aligned_cols=13 Identities=54% Similarity=0.881 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHH
Q 024340 232 AAILALYILITIV 244 (269)
Q Consensus 232 ~~~~~~y~~~~~~ 244 (269)
+++++||+|..++
T Consensus 9 ~livVLFILLIIi 21 (26)
T TIGR01732 9 ALIVVLFILLVIV 21 (26)
T ss_pred HHHHHHHHHHHHh
Confidence 3445555554443
No 184
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=23.26 E-value=68 Score=29.05 Aligned_cols=52 Identities=23% Similarity=0.358 Sum_probs=34.8
Q ss_pred CccccccccccccccCCCcEEecCC-----CcchHhhHHHHHHhhccCCCCCCCCCCccccccCCccc
Q 024340 42 EGLECPICWESFNVVENLPYVLWCG-----HTLCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVS 104 (269)
Q Consensus 42 e~l~CpICl~~f~~~~~~P~~L~CG-----HtFC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~ 104 (269)
+...|-||..........+...+|. +...+.|+..|.... +...|..|....
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~-----------~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIK-----------GNITCEICKSFF 133 (323)
T ss_pred CCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccc-----------cCeeeecccccc
Confidence 3578999999776632225566763 345789999974421 244799998764
No 185
>PF04298 Zn_peptidase_2: Putative neutral zinc metallopeptidase; InterPro: IPR007395 Members of this family of bacterial proteins are described as hypothetical proteins or zinc-dependent proteases. The majority have a HExxH zinc-binding motif characteristic of neutral zinc metallopeptidases, however there is no evidence to support their function as metallopeptidases.
Probab=22.99 E-value=2.1e+02 Score=25.72 Aligned_cols=27 Identities=26% Similarity=0.487 Sum_probs=21.9
Q ss_pred chhhhhhhHHhhhcchhHHHHHHHHHH
Q 024340 199 SLRKSLVFFAQLTAKFPLIIVLILIIL 225 (269)
Q Consensus 199 ~~~k~~~~f~~~t~~~~~v~~fl~~~~ 225 (269)
.+|..++.+.++..++-++++++-+++
T Consensus 111 ~lRs~lvP~~~~~s~~~~~l~~~G~~l 137 (222)
T PF04298_consen 111 RLRSALVPVANIGSNLSWILLILGLFL 137 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 378899999999999988766665555
No 186
>PRK04989 psbM photosystem II reaction center protein M; Provisional
Probab=22.55 E-value=1.4e+02 Score=18.91 Aligned_cols=9 Identities=11% Similarity=0.501 Sum_probs=4.4
Q ss_pred HHHHHHHHH
Q 024340 218 IVLILIILY 226 (269)
Q Consensus 218 ~~fl~~~~~ 226 (269)
.+|+...|+
T Consensus 6 lgfiAt~Lf 14 (35)
T PRK04989 6 LGFVASLLF 14 (35)
T ss_pred HHHHHHHHH
Confidence 345555554
No 187
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 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 zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=22.26 E-value=27 Score=20.73 Aligned_cols=12 Identities=33% Similarity=1.077 Sum_probs=6.0
Q ss_pred cccccccccccc
Q 024340 44 LECPICWESFNV 55 (269)
Q Consensus 44 l~CpICl~~f~~ 55 (269)
..|+.|+..+.+
T Consensus 2 ~~C~rC~~~~~~ 13 (30)
T PF06827_consen 2 EKCPRCWNYIED 13 (30)
T ss_dssp SB-TTT--BBEE
T ss_pred CcCccCCCcceE
Confidence 357888887665
No 188
>PHA02655 hypothetical protein; Provisional
Probab=22.01 E-value=59 Score=24.09 Aligned_cols=22 Identities=18% Similarity=0.555 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 024340 220 LILIILYAIPASAAILALYILI 241 (269)
Q Consensus 220 fl~~~~~~~~~~~~~~~~y~~~ 241 (269)
|..+-.|.|||......+-+|+
T Consensus 62 fvvftiylipfvivmisciflv 83 (94)
T PHA02655 62 FVVFTIYLIPFVIVMISCIFLV 83 (94)
T ss_pred heeehhhHHHHHHHHHHHHHhh
Confidence 5666778888877766665554
No 189
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.98 E-value=50 Score=34.30 Aligned_cols=34 Identities=18% Similarity=0.454 Sum_probs=27.4
Q ss_pred cccccccccccccCCCcEEecCCCcchHhhHHHH
Q 024340 44 LECPICWESFNVVENLPYVLWCGHTLCKNCVLGL 77 (269)
Q Consensus 44 l~CpICl~~f~~~~~~P~~L~CGHtFC~~CL~~~ 77 (269)
-+|-+|...=+.+..++.++.|+-.+|..|....
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~~ 688 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVACSLDY 688 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhhhhhh
Confidence 4688888766656667888999999999998765
No 190
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=21.88 E-value=89 Score=22.25 Aligned_cols=18 Identities=39% Similarity=0.488 Sum_probs=8.7
Q ss_pred HHHHHHhhhhhhhhhhhc
Q 024340 240 LITIVFAIPSCLVLYFAL 257 (269)
Q Consensus 240 ~~~~~~~~~~~~~~~~~~ 257 (269)
+.|++|.+=...++|++|
T Consensus 13 ~~t~~~~l~fiavi~~ay 30 (60)
T COG4736 13 WGTIAFTLFFIAVIYFAY 30 (60)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 344444444445555555
No 191
>MTH00047 COX2 cytochrome c oxidase subunit II; Provisional
Probab=21.76 E-value=1.8e+02 Score=25.37 Aligned_cols=21 Identities=24% Similarity=0.494 Sum_probs=16.4
Q ss_pred HHHhhhhhhhhhhhccchHHH
Q 024340 243 IVFAIPSCLVLYFALPILDWL 263 (269)
Q Consensus 243 ~~~~~~~~~~~~~~~~~~~~~ 263 (269)
+...+|.++++.+++|++..+
T Consensus 52 iWTviPiiill~L~~~sl~~~ 72 (194)
T MTH00047 52 LWTVVPTLLVLVLCFLNLNFI 72 (194)
T ss_pred hhhHHHHHHHHHHHHHHHHHH
Confidence 446788888888888888655
No 192
>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=21.50 E-value=62 Score=29.11 Aligned_cols=24 Identities=33% Similarity=0.861 Sum_probs=16.4
Q ss_pred chHhhHHHHHHhhccCCCCCCCCCCccccccCCcccc
Q 024340 69 LCKNCVLGLQRAVIRLPTLPFQLPFFITCPWCNMVSL 105 (269)
Q Consensus 69 FC~~CL~~~~~~~~~~~~~~~~~~~~i~CP~CR~~~~ 105 (269)
-|.+|-...-+. .+ .||+|+..+-
T Consensus 196 ~C~sC~qqIHRN---AP----------iCPlCK~KsR 219 (230)
T PF10146_consen 196 TCQSCHQQIHRN---AP----------ICPLCKAKSR 219 (230)
T ss_pred hhHhHHHHHhcC---CC----------CCcccccccc
Confidence 588887766322 22 6999998764
No 193
>PF14293 YWFCY: YWFCY protein
Probab=21.01 E-value=1e+02 Score=22.00 Aligned_cols=28 Identities=29% Similarity=0.477 Sum_probs=17.9
Q ss_pred cccchhchhhhhhhHHhhhcchhHHHHHHHHHHH
Q 024340 193 AERLQLSLRKSLVFFAQLTAKFPLIIVLILIILY 226 (269)
Q Consensus 193 ~~~~~~~~~k~~~~f~~~t~~~~~v~~fl~~~~~ 226 (269)
.|++-++++|.|+|-=- .-|+||++=+|
T Consensus 2 ~eddlr~L~KImdf~R~------iSI~~l~ih~Y 29 (61)
T PF14293_consen 2 TEDDLRALRKIMDFMRA------ISILFLVIHFY 29 (61)
T ss_pred CcHHHHHHHHHHHHHHH------HHHHHHHHHHH
Confidence 45677899999996433 23445555555
No 194
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=21.00 E-value=1.3e+02 Score=22.69 Aligned_cols=13 Identities=38% Similarity=0.204 Sum_probs=7.6
Q ss_pred hccchHHHHHHHh
Q 024340 256 ALPILDWLVREII 268 (269)
Q Consensus 256 ~~~~~~~~~~~~~ 268 (269)
|=-..|-+++||.
T Consensus 77 An~~~D~l~~~i~ 89 (91)
T PF04341_consen 77 ANREFDPLARAIR 89 (91)
T ss_pred HccccCHHHHHHH
Confidence 3345666666664
No 195
>PRK05978 hypothetical protein; Provisional
Probab=20.72 E-value=2.4e+02 Score=23.70 Aligned_cols=8 Identities=38% Similarity=0.912 Sum_probs=6.4
Q ss_pred ccccCCcc
Q 024340 96 TCPWCNMV 103 (269)
Q Consensus 96 ~CP~CR~~ 103 (269)
+||.|++-
T Consensus 35 rCP~CG~G 42 (148)
T PRK05978 35 RCPACGEG 42 (148)
T ss_pred cCCCCCCC
Confidence 69999863
No 196
>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=20.61 E-value=71 Score=25.34 Aligned_cols=15 Identities=27% Similarity=0.518 Sum_probs=9.4
Q ss_pred CCccccccccccccc
Q 024340 41 EEGLECPICWESFNV 55 (269)
Q Consensus 41 ee~l~CpICl~~f~~ 55 (269)
-....||-|...|-.
T Consensus 7 GtKR~Cp~CG~kFYD 21 (108)
T PF09538_consen 7 GTKRTCPSCGAKFYD 21 (108)
T ss_pred CCcccCCCCcchhcc
Confidence 345567777776666
No 197
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=20.45 E-value=1.6e+02 Score=26.33 Aligned_cols=15 Identities=40% Similarity=0.450 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHh
Q 024340 232 AAILALYILITIVFA 246 (269)
Q Consensus 232 ~~~~~~y~~~~~~~~ 246 (269)
.+|-.+-||-||+.|
T Consensus 141 fLICT~LfLSTVVLA 155 (227)
T PF05399_consen 141 FLICTLLFLSTVVLA 155 (227)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444555566555
No 198
>KOG3927 consensus Na+/K+ ATPase, beta subunit [Inorganic ion transport and metabolism]
Probab=20.44 E-value=1.3e+02 Score=28.15 Aligned_cols=23 Identities=22% Similarity=0.508 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 024340 218 IVLILIILYAIPASAAILALYIL 240 (269)
Q Consensus 218 ~~fl~~~~~~~~~~~~~~~~y~~ 240 (269)
|+-.++|||++.+..+.+.++++
T Consensus 47 IllfYivFY~~la~lf~~~~~~~ 69 (300)
T KOG3927|consen 47 ILLFYIVFYGVLAALFAGCMWFM 69 (300)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456788877776666666554
No 199
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=20.34 E-value=2e+02 Score=24.71 Aligned_cols=11 Identities=18% Similarity=0.591 Sum_probs=6.7
Q ss_pred ccccCCccccc
Q 024340 185 RFLTGHLNAER 195 (269)
Q Consensus 185 ~~~~~~~~~~~ 195 (269)
.|..||.|.-+
T Consensus 65 r~vRD~VDsR~ 75 (170)
T PF11241_consen 65 RYVRDYVDSRR 75 (170)
T ss_pred hhhhhhhhccc
Confidence 45567777655
No 200
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=20.27 E-value=55 Score=29.66 Aligned_cols=40 Identities=20% Similarity=0.321 Sum_probs=27.5
Q ss_pred cCCCCCCCCCCCcCCcchhccccCCCCccccccccccccc
Q 024340 16 KNDALKPSQVSSELSDDDASLNNSREEGLECPICWESFNV 55 (269)
Q Consensus 16 ~~~~~~~~~~~~~~s~~~~s~~~~lee~l~CpICl~~f~~ 55 (269)
+..-.+|++...|....=-.-.....-++-|+||+.+|..
T Consensus 233 rp~~~~pn~~svdFratCych~rvv~~GfvCsVCLsvfc~ 272 (296)
T COG5242 233 RPLGVKPNHGSVDFRATCYCHNRVVLLGFVCSVCLSVFCR 272 (296)
T ss_pred cccccCCCcccccccceeEEeccEEEEeeehhhhheeecC
Confidence 3445566676666555444445566678999999999987
No 201
>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=20.27 E-value=37 Score=20.77 Aligned_cols=8 Identities=38% Similarity=1.078 Sum_probs=6.3
Q ss_pred ccccCCcc
Q 024340 96 TCPWCNMV 103 (269)
Q Consensus 96 ~CP~CR~~ 103 (269)
.||.|...
T Consensus 19 ~CP~Cg~~ 26 (33)
T cd00350 19 VCPVCGAP 26 (33)
T ss_pred cCcCCCCc
Confidence 69999764
No 202
>PF15013 CCSMST1: CCSMST1 family
Probab=20.25 E-value=75 Score=23.77 Aligned_cols=13 Identities=31% Similarity=0.475 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHH
Q 024340 227 AIPASAAILALYI 239 (269)
Q Consensus 227 ~~~~~~~~~~~y~ 239 (269)
+|-+|+++|++||
T Consensus 35 ~is~sl~~fliyF 47 (77)
T PF15013_consen 35 PISLSLAAFLIYF 47 (77)
T ss_pred hhHHHHHHHHHHH
Confidence 3556777777774
No 203
>MTH00051 COX2 cytochrome c oxidase subunit II; Provisional
Probab=20.15 E-value=2.2e+02 Score=25.51 Aligned_cols=18 Identities=33% Similarity=0.805 Sum_probs=12.6
Q ss_pred hhhhhhhhhhhccchHHH
Q 024340 246 AIPSCLVLYFALPILDWL 263 (269)
Q Consensus 246 ~~~~~~~~~~~~~~~~~~ 263 (269)
.+|.++++.+|+||+.=|
T Consensus 69 viP~iiL~~l~~~s~~~l 86 (234)
T MTH00051 69 LIPAAILIFIAFPSLKLL 86 (234)
T ss_pred eHHHHHHHHHHHHHHHHH
Confidence 577777777777777543
No 204
>PF10271 Tmp39: Putative transmembrane protein; InterPro: IPR019397 This is a family of putative, eukaryote, transmembrane proteins but the function is unknown.
Probab=20.09 E-value=2.1e+02 Score=28.14 Aligned_cols=46 Identities=20% Similarity=0.310 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccchHHHH
Q 024340 219 VLILIILYAIPASAAILALYILITIVFAIPSCLVLYFALPILDWLV 264 (269)
Q Consensus 219 ~fl~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~ 264 (269)
...+++-+++-..+++.++++++.+..--+...+||+.||-.=+++
T Consensus 111 ~l~~~~r~~~l~~~~~~l~~~~~~l~~~~s~l~ll~L~YP~~~yl~ 156 (423)
T PF10271_consen 111 VLLIIIRYVFLTLVGWSLCWCLYHLYQKHSYLNLLFLCYPFIVYLP 156 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHH
Confidence 3445577777888888889999998888888899999999765553
Done!