Query 029826
Match_columns 187
No_of_seqs 224 out of 2432
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 04:16:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029826.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029826hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2164 Predicted E3 ubiquitin 99.9 3.6E-22 7.9E-27 166.4 6.8 174 7-184 186-364 (513)
2 COG3339 Uncharacterized conser 99.6 6E-16 1.3E-20 106.8 6.9 47 127-174 46-92 (116)
3 PF06803 DUF1232: Protein of u 99.6 3.2E-16 6.9E-21 88.7 2.3 40 128-168 1-40 (40)
4 PF15227 zf-C3HC4_4: zinc fing 99.6 2.9E-15 6.2E-20 86.3 3.4 42 10-52 1-42 (42)
5 PLN03208 E3 ubiquitin-protein 99.4 4.1E-13 8.9E-18 100.8 4.7 55 4-58 15-80 (193)
6 PF13920 zf-C3HC4_3: Zinc fing 99.3 2.2E-12 4.7E-17 77.3 3.3 48 6-58 1-49 (50)
7 PF13923 zf-C3HC4_2: Zinc fing 99.3 2.4E-12 5.1E-17 73.1 3.0 38 10-52 1-39 (39)
8 smart00504 Ubox Modified RING 99.3 1E-11 2.2E-16 77.8 5.2 46 7-57 1-46 (63)
9 PHA02929 N1R/p28-like protein; 99.2 5.2E-12 1.1E-16 98.6 3.7 55 5-64 172-234 (238)
10 KOG0823 Predicted E3 ubiquitin 99.2 7.1E-12 1.5E-16 95.8 3.8 53 4-58 44-96 (230)
11 TIGR00599 rad18 DNA repair pro 99.2 1E-11 2.3E-16 103.4 5.1 51 2-57 21-71 (397)
12 KOG0287 Postreplication repair 99.2 3.2E-12 6.8E-17 102.4 1.9 67 3-85 19-86 (442)
13 PF13639 zf-RING_2: Ring finge 99.2 9.4E-12 2E-16 72.5 2.6 40 9-53 2-44 (44)
14 KOG0320 Predicted E3 ubiquitin 99.2 1.4E-11 3E-16 90.5 3.1 50 4-58 128-179 (187)
15 PHA02926 zinc finger-like prot 99.2 2.2E-11 4.8E-16 92.7 3.9 61 4-64 167-237 (242)
16 PF00097 zf-C3HC4: Zinc finger 99.2 3.2E-11 7E-16 69.1 3.6 40 10-52 1-41 (41)
17 KOG0317 Predicted E3 ubiquitin 99.2 1.7E-11 3.6E-16 96.5 2.9 49 4-57 236-284 (293)
18 PF04564 U-box: U-box domain; 99.1 8.8E-11 1.9E-15 75.9 4.7 49 5-57 2-50 (73)
19 PF13445 zf-RING_UBOX: RING-ty 99.1 5.3E-11 1.2E-15 68.5 2.9 39 10-50 1-43 (43)
20 cd00162 RING RING-finger (Real 99.0 5.5E-10 1.2E-14 64.5 3.6 43 9-55 1-44 (45)
21 TIGR00570 cdk7 CDK-activating 99.0 5.8E-10 1.3E-14 89.7 4.3 105 6-114 2-112 (309)
22 PF14835 zf-RING_6: zf-RING of 98.9 1.4E-10 3.1E-15 71.4 -0.0 45 5-56 5-50 (65)
23 COG5432 RAD18 RING-finger-cont 98.9 3.9E-10 8.4E-15 88.8 1.9 50 3-57 21-70 (391)
24 PF14634 zf-RING_5: zinc-RING 98.9 7.7E-10 1.7E-14 64.3 2.6 41 9-54 1-44 (44)
25 smart00184 RING Ring finger. E 98.8 3.2E-09 6.9E-14 59.2 3.4 39 10-52 1-39 (39)
26 COG5574 PEX10 RING-finger-cont 98.8 2.7E-09 5.9E-14 83.2 2.7 50 4-56 212-261 (271)
27 KOG2177 Predicted E3 ubiquitin 98.7 2.9E-09 6.2E-14 85.6 1.3 47 3-54 9-55 (386)
28 PF12678 zf-rbx1: RING-H2 zinc 98.7 1.9E-08 4.1E-13 64.9 3.3 41 8-53 20-73 (73)
29 KOG0311 Predicted E3 ubiquitin 98.6 1.5E-08 3.2E-13 82.0 0.5 49 5-57 41-90 (381)
30 KOG0824 Predicted E3 ubiquitin 98.5 6.5E-08 1.4E-12 76.8 2.5 54 1-58 1-54 (324)
31 PF12861 zf-Apc11: Anaphase-pr 98.5 1.8E-07 3.8E-12 61.3 3.5 49 6-56 20-81 (85)
32 KOG0978 E3 ubiquitin ligase in 98.4 5E-08 1.1E-12 86.0 0.9 48 6-57 642-689 (698)
33 KOG4159 Predicted E3 ubiquitin 98.4 1.2E-07 2.6E-12 79.4 2.4 49 5-58 82-130 (398)
34 KOG0802 E3 ubiquitin ligase [P 98.4 1.4E-07 3E-12 82.7 2.2 46 6-56 290-340 (543)
35 KOG2660 Locus-specific chromos 98.4 2E-07 4.3E-12 75.0 2.7 53 5-62 13-66 (331)
36 KOG4628 Predicted E3 ubiquitin 98.3 5.4E-07 1.2E-11 73.8 4.0 48 8-59 230-280 (348)
37 COG5243 HRD1 HRD ubiquitin lig 98.3 4.1E-07 8.9E-12 74.3 3.2 48 5-57 285-345 (491)
38 COG5152 Uncharacterized conser 98.3 2E-07 4.3E-12 69.9 1.1 46 7-57 196-241 (259)
39 KOG1039 Predicted E3 ubiquitin 98.3 7.6E-07 1.7E-11 73.2 4.5 61 5-65 159-229 (344)
40 KOG4172 Predicted E3 ubiquitin 98.3 2.5E-07 5.4E-12 54.9 0.6 50 5-58 5-55 (62)
41 PF11789 zf-Nse: Zinc-finger o 98.2 1E-06 2.2E-11 53.9 2.7 47 2-51 6-53 (57)
42 KOG4265 Predicted E3 ubiquitin 98.2 1E-06 2.2E-11 71.7 3.4 55 5-64 288-343 (349)
43 KOG1002 Nucleotide excision re 98.2 4.4E-07 9.5E-12 77.1 0.8 55 5-59 534-588 (791)
44 KOG1813 Predicted E3 ubiquitin 98.1 7.7E-07 1.7E-11 70.6 0.9 46 8-58 242-287 (313)
45 COG5222 Uncharacterized conser 98.0 5.1E-06 1.1E-10 66.2 3.4 49 2-54 269-318 (427)
46 KOG2879 Predicted E3 ubiquitin 98.0 5.7E-06 1.2E-10 65.1 3.0 50 5-57 237-287 (298)
47 KOG0297 TNF receptor-associate 97.9 3.7E-06 8E-11 70.9 1.9 49 4-57 18-67 (391)
48 KOG0804 Cytoplasmic Zn-finger 97.8 8E-06 1.7E-10 68.3 1.3 47 4-57 172-222 (493)
49 KOG1493 Anaphase-promoting com 97.5 2.7E-05 5.8E-10 49.6 0.5 46 9-56 22-80 (84)
50 KOG4692 Predicted E3 ubiquitin 97.5 7.5E-05 1.6E-09 60.9 2.9 49 5-58 420-468 (489)
51 KOG1734 Predicted RING-contain 97.4 5.1E-05 1.1E-09 59.7 0.6 49 5-56 222-280 (328)
52 PF11793 FANCL_C: FANCL C-term 97.4 4.9E-05 1.1E-09 48.5 0.4 51 7-57 2-66 (70)
53 KOG1785 Tyrosine kinase negati 97.4 8.3E-05 1.8E-09 61.6 1.6 49 8-59 370-418 (563)
54 KOG4367 Predicted Zn-finger pr 97.3 0.00012 2.7E-09 61.3 2.1 38 5-42 2-39 (699)
55 COG5194 APC11 Component of SCF 97.1 0.00054 1.2E-08 44.1 3.0 28 24-56 53-80 (88)
56 PF07800 DUF1644: Protein of u 97.0 0.00079 1.7E-08 49.1 3.6 58 6-63 1-97 (162)
57 KOG1645 RING-finger-containing 97.0 0.00051 1.1E-08 57.1 2.7 50 5-57 2-56 (463)
58 KOG3800 Predicted E3 ubiquitin 96.9 0.00066 1.4E-08 54.1 2.9 98 9-112 2-108 (300)
59 PF02891 zf-MIZ: MIZ/SP-RING z 96.8 0.00036 7.8E-09 41.4 0.3 48 7-55 2-50 (50)
60 KOG0825 PHD Zn-finger protein 96.8 0.00028 6.1E-09 63.0 -0.3 52 7-63 123-177 (1134)
61 PF14447 Prok-RING_4: Prokaryo 96.7 0.00064 1.4E-08 40.7 1.0 44 7-57 7-50 (55)
62 KOG0827 Predicted E3 ubiquitin 96.7 0.0011 2.3E-08 55.0 2.3 48 7-56 4-55 (465)
63 smart00744 RINGv The RING-vari 96.7 0.0024 5.1E-08 37.7 3.1 42 9-53 1-49 (49)
64 KOG4185 Predicted E3 ubiquitin 96.6 0.0012 2.6E-08 53.7 2.3 46 7-56 3-54 (296)
65 KOG1001 Helicase-like transcri 96.6 0.00078 1.7E-08 60.5 1.3 47 8-58 455-501 (674)
66 PHA03096 p28-like protein; Pro 96.6 0.00097 2.1E-08 53.8 1.4 49 8-58 179-235 (284)
67 COG5220 TFB3 Cdk activating ki 96.5 0.0013 2.9E-08 51.1 1.8 101 6-113 9-122 (314)
68 PF14570 zf-RING_4: RING/Ubox 96.4 0.0023 4.9E-08 37.5 2.0 43 10-56 1-47 (48)
69 COG5236 Uncharacterized conser 96.2 0.0044 9.5E-08 50.8 3.1 53 3-58 57-109 (493)
70 PF05290 Baculo_IE-1: Baculovi 96.2 0.0044 9.5E-08 43.9 2.7 50 6-57 79-132 (140)
71 KOG0826 Predicted E3 ubiquitin 96.1 0.0042 9.2E-08 50.4 2.5 48 4-56 297-345 (357)
72 KOG3161 Predicted E3 ubiquitin 95.8 0.0035 7.6E-08 55.1 1.0 38 6-50 10-51 (861)
73 KOG1814 Predicted E3 ubiquitin 95.8 0.012 2.5E-07 49.3 4.0 49 6-54 183-237 (445)
74 KOG2817 Predicted E3 ubiquitin 95.6 0.01 2.3E-07 49.4 2.8 46 6-53 333-381 (394)
75 KOG4739 Uncharacterized protei 95.5 0.0028 6E-08 49.4 -0.5 44 8-58 4-49 (233)
76 KOG3039 Uncharacterized conser 95.4 0.011 2.5E-07 46.2 2.5 48 5-57 219-270 (303)
77 PF04641 Rtf2: Rtf2 RING-finge 95.3 0.023 5E-07 45.4 3.9 49 4-58 110-162 (260)
78 KOG3002 Zn finger protein [Gen 95.2 0.012 2.7E-07 47.8 2.1 45 6-58 47-92 (299)
79 KOG2930 SCF ubiquitin ligase, 95.0 0.016 3.4E-07 39.2 1.9 28 24-56 80-107 (114)
80 KOG3579 Predicted E3 ubiquitin 94.5 0.02 4.3E-07 45.7 1.7 47 5-51 266-316 (352)
81 KOG2932 E3 ubiquitin ligase in 94.5 0.011 2.5E-07 47.6 0.3 42 9-57 92-134 (389)
82 KOG4362 Transcriptional regula 94.4 0.0089 1.9E-07 53.3 -0.5 50 6-57 20-69 (684)
83 KOG1941 Acetylcholine receptor 94.2 0.022 4.8E-07 47.5 1.2 49 6-57 364-416 (518)
84 PF10272 Tmpp129: Putative tra 93.6 0.051 1.1E-06 45.3 2.5 34 25-58 311-352 (358)
85 PHA02825 LAP/PHD finger-like p 93.4 0.11 2.5E-06 38.1 3.6 53 1-57 1-59 (162)
86 KOG0298 DEAD box-containing he 93.1 0.03 6.5E-07 53.0 0.3 46 6-56 1152-1198(1394)
87 PF08746 zf-RING-like: RING-li 92.1 0.19 4.1E-06 28.7 2.7 40 10-52 1-43 (43)
88 KOG3039 Uncharacterized conser 92.1 0.12 2.5E-06 40.7 2.4 38 5-42 41-78 (303)
89 KOG1428 Inhibitor of type V ad 91.8 0.16 3.5E-06 49.2 3.3 53 5-58 3484-3545(3738)
90 KOG1812 Predicted E3 ubiquitin 91.8 0.11 2.3E-06 44.1 2.0 46 6-51 145-195 (384)
91 KOG1815 Predicted E3 ubiquitin 91.7 0.13 2.8E-06 44.4 2.4 52 5-56 68-125 (444)
92 PF05883 Baculo_RING: Baculovi 91.2 0.12 2.6E-06 36.9 1.5 36 5-40 24-68 (134)
93 COG5109 Uncharacterized conser 90.9 0.18 3.9E-06 41.1 2.4 47 6-54 335-384 (396)
94 KOG3268 Predicted E3 ubiquitin 90.8 0.23 5E-06 37.2 2.7 56 5-60 163-231 (234)
95 KOG3970 Predicted E3 ubiquitin 90.7 0.65 1.4E-05 36.1 5.1 53 4-56 47-104 (299)
96 COG5175 MOT2 Transcriptional r 90.3 0.2 4.3E-06 41.2 2.1 50 5-58 12-65 (480)
97 KOG3899 Uncharacterized conser 90.2 0.19 4.1E-06 40.5 1.9 34 25-58 325-366 (381)
98 PF03854 zf-P11: P-11 zinc fin 89.0 0.18 3.9E-06 29.2 0.7 32 21-57 14-46 (50)
99 KOG2114 Vacuolar assembly/sort 88.6 0.11 2.3E-06 47.5 -0.6 41 8-56 841-882 (933)
100 PF07191 zinc-ribbons_6: zinc- 88.3 0.021 4.6E-07 36.1 -3.7 46 7-62 1-46 (70)
101 PHA02862 5L protein; Provision 87.5 0.69 1.5E-05 33.5 3.0 46 8-57 3-53 (156)
102 KOG4445 Uncharacterized conser 85.7 0.4 8.7E-06 38.8 1.2 54 5-58 113-187 (368)
103 KOG3053 Uncharacterized conser 85.4 0.56 1.2E-05 37.2 1.9 61 4-64 17-89 (293)
104 KOG1952 Transcription factor N 84.6 0.6 1.3E-05 42.9 1.9 50 5-54 189-244 (950)
105 KOG0825 PHD Zn-finger protein 84.1 0.61 1.3E-05 42.6 1.7 60 4-63 93-160 (1134)
106 KOG1940 Zn-finger protein [Gen 83.7 0.74 1.6E-05 37.1 1.9 42 8-54 159-204 (276)
107 KOG4604 Uncharacterized conser 81.2 1.2 2.7E-05 29.4 1.9 79 69-152 11-89 (91)
108 PF14569 zf-UDP: Zinc-binding 80.2 2.8 6.1E-05 27.0 3.2 49 6-58 8-63 (80)
109 PLN02189 cellulose synthase 80.1 2 4.3E-05 40.6 3.6 47 8-58 35-88 (1040)
110 PF10497 zf-4CXXC_R1: Zinc-fin 79.5 2.1 4.6E-05 29.4 2.8 53 4-56 4-71 (105)
111 PF10571 UPF0547: Uncharacteri 79.0 0.97 2.1E-05 22.8 0.7 9 9-17 2-10 (26)
112 PF05605 zf-Di19: Drought indu 76.8 3.1 6.8E-05 24.6 2.7 39 6-54 1-39 (54)
113 PLN02436 cellulose synthase A 76.7 3 6.4E-05 39.7 3.6 47 8-58 37-90 (1094)
114 COG0068 HypF Hydrogenase matur 76.7 1.4 3.1E-05 39.8 1.6 54 4-57 98-184 (750)
115 PF04216 FdhE: Protein involve 75.9 0.45 9.7E-06 38.6 -1.7 45 7-56 172-221 (290)
116 PF06906 DUF1272: Protein of u 75.4 2.2 4.7E-05 25.7 1.6 42 8-56 6-51 (57)
117 KOG3113 Uncharacterized conser 74.8 3.4 7.5E-05 32.8 3.0 45 6-57 110-158 (293)
118 PF12906 RINGv: RING-variant d 74.1 3.1 6.8E-05 24.0 2.1 40 10-52 1-47 (47)
119 COG3813 Uncharacterized protei 72.9 2.3 5E-05 27.0 1.4 26 24-56 26-51 (84)
120 PLN02638 cellulose synthase A 72.4 4.5 9.8E-05 38.5 3.7 47 8-58 18-71 (1079)
121 KOG4185 Predicted E3 ubiquitin 72.2 0.71 1.5E-05 37.4 -1.3 44 8-55 208-265 (296)
122 PLN02400 cellulose synthase 71.1 3.8 8.2E-05 39.1 2.9 48 8-59 37-91 (1085)
123 PRK03564 formate dehydrogenase 70.6 1.5 3.2E-05 36.1 0.1 44 6-54 186-234 (309)
124 COG4589 Predicted CDP-diglycer 69.4 6 0.00013 31.6 3.2 36 131-166 221-260 (303)
125 COG5183 SSM4 Protein involved 68.7 4.1 9E-05 37.6 2.5 50 5-57 10-66 (1175)
126 TIGR01562 FdhE formate dehydro 68.6 1.4 3.1E-05 36.0 -0.3 44 7-55 184-233 (305)
127 KOG3842 Adaptor protein Pellin 66.0 7 0.00015 32.2 3.1 52 5-57 339-414 (429)
128 KOG0824 Predicted E3 ubiquitin 65.9 2 4.4E-05 34.9 0.1 49 5-58 103-152 (324)
129 PF06844 DUF1244: Protein of u 65.5 4.3 9.4E-05 25.3 1.4 15 28-42 11-25 (68)
130 smart00064 FYVE Protein presen 64.9 5.6 0.00012 24.5 2.0 33 6-38 9-45 (68)
131 KOG1812 Predicted E3 ubiquitin 63.7 3.5 7.6E-05 35.0 1.1 36 7-42 306-346 (384)
132 KOG0748 Predicted membrane pro 62.6 24 0.00052 28.7 5.7 52 128-185 216-276 (286)
133 PF01363 FYVE: FYVE zinc finge 61.6 2 4.4E-05 26.6 -0.5 32 5-36 7-42 (69)
134 KOG2034 Vacuolar sorting prote 61.5 5.7 0.00012 37.0 2.0 36 5-40 815-852 (911)
135 PF10235 Cript: Microtubule-as 59.2 6.2 0.00013 26.3 1.4 35 8-56 45-79 (90)
136 PF14353 CpXC: CpXC protein 58.7 9.7 0.00021 26.7 2.5 50 7-58 1-50 (128)
137 PF09538 FYDLN_acid: Protein o 58.7 7.2 0.00016 26.9 1.7 14 45-58 25-38 (108)
138 KOG2068 MOT2 transcription fac 58.3 8.8 0.00019 31.7 2.5 46 8-58 250-299 (327)
139 PLN02915 cellulose synthase A 58.1 14 0.00029 35.4 3.9 49 6-58 14-69 (1044)
140 TIGR00143 hypF [NiFe] hydrogen 58.0 6 0.00013 36.4 1.6 55 4-58 65-152 (711)
141 COG4647 AcxC Acetone carboxyla 57.6 5.5 0.00012 28.3 1.0 20 12-31 62-81 (165)
142 PF02701 zf-Dof: Dof domain, z 56.5 20 0.00044 22.0 3.2 50 4-54 2-57 (63)
143 PF14446 Prok-RING_1: Prokaryo 55.9 15 0.00032 22.0 2.5 31 6-36 4-38 (54)
144 KOG2789 Putative Zn-finger pro 55.5 18 0.0004 30.7 3.9 33 7-39 74-108 (482)
145 PF09723 Zn-ribbon_8: Zinc rib 54.2 3.8 8.1E-05 23.0 -0.2 9 46-54 26-34 (42)
146 PF04710 Pellino: Pellino; In 52.2 4.7 0.0001 34.1 0.0 47 8-57 278-339 (416)
147 PF07975 C1_4: TFIIH C1-like d 51.9 12 0.00025 22.2 1.6 24 24-52 26-49 (51)
148 PF10146 zf-C4H2: Zinc finger- 51.4 9.6 0.00021 30.0 1.6 23 29-56 196-218 (230)
149 KOG4218 Nuclear hormone recept 51.0 13 0.00028 31.0 2.3 14 5-18 13-26 (475)
150 KOG2231 Predicted E3 ubiquitin 50.6 13 0.00028 33.8 2.4 50 9-58 2-53 (669)
151 TIGR00622 ssl1 transcription f 50.2 16 0.00034 25.4 2.3 41 8-53 56-110 (112)
152 COG3086 RseC Positive regulato 49.7 35 0.00075 24.9 4.1 22 154-175 97-118 (150)
153 KOG4718 Non-SMC (structural ma 49.0 13 0.00028 28.8 1.9 44 8-56 182-226 (235)
154 PF07503 zf-HYPF: HypF finger; 48.6 17 0.00036 19.7 1.8 29 29-57 1-32 (35)
155 PF10122 Mu-like_Com: Mu-like 47.4 11 0.00023 22.3 1.0 17 46-63 24-40 (51)
156 PF10083 DUF2321: Uncharacteri 46.9 11 0.00024 27.7 1.2 26 25-58 26-51 (158)
157 KOG3799 Rab3 effector RIM1 and 46.7 3.2 6.9E-05 29.7 -1.5 49 5-58 63-119 (169)
158 smart00249 PHD PHD zinc finger 46.3 7.8 0.00017 21.2 0.3 43 10-52 2-47 (47)
159 cd00065 FYVE FYVE domain; Zinc 46.2 15 0.00032 21.6 1.5 31 8-38 3-37 (57)
160 PLN02195 cellulose synthase A 46.1 22 0.00048 33.8 3.3 46 8-57 7-59 (977)
161 KOG2169 Zn-finger transcriptio 44.3 15 0.00033 33.3 2.0 50 7-57 306-356 (636)
162 PF11809 DUF3330: Domain of un 43.3 11 0.00024 23.5 0.7 37 6-42 10-52 (70)
163 PRK04023 DNA polymerase II lar 42.6 18 0.00039 34.5 2.2 46 5-57 624-674 (1121)
164 KOG3726 Uncharacterized conser 42.5 13 0.00029 33.6 1.3 38 9-54 656-697 (717)
165 KOG2979 Protein involved in DN 42.1 14 0.0003 29.5 1.2 44 7-53 176-220 (262)
166 KOG2462 C2H2-type Zn-finger pr 41.9 16 0.00035 29.4 1.5 52 5-56 159-225 (279)
167 CHL00186 psaI photosystem I su 41.7 57 0.0012 17.8 3.2 29 146-174 4-32 (36)
168 smart00154 ZnF_AN1 AN1-like Zi 41.6 18 0.0004 19.9 1.3 22 10-31 1-24 (39)
169 PF08273 Prim_Zn_Ribbon: Zinc- 40.7 12 0.00025 21.0 0.4 26 8-33 4-32 (40)
170 TIGR02605 CxxC_CxxC_SSSS putat 39.9 9.2 0.0002 22.2 -0.1 9 46-54 26-34 (52)
171 smart00834 CxxC_CXXC_SSSS Puta 39.3 10 0.00022 20.6 0.0 10 47-56 27-36 (41)
172 PF04423 Rad50_zn_hook: Rad50 39.0 11 0.00024 22.3 0.1 9 48-56 22-30 (54)
173 PF06750 DiS_P_DiS: Bacterial 38.7 35 0.00076 22.7 2.6 10 48-57 60-69 (92)
174 PF10186 Atg14: UV radiation r 38.7 20 0.00043 28.7 1.7 22 9-38 1-22 (302)
175 PRK14559 putative protein seri 38.6 26 0.00056 32.0 2.5 37 8-57 2-38 (645)
176 PRK11595 DNA utilization prote 37.7 24 0.00052 27.5 1.9 24 156-179 190-213 (227)
177 PF14369 zf-RING_3: zinc-finge 37.4 6.2 0.00013 21.3 -1.0 29 28-56 3-31 (35)
178 KOG4451 Uncharacterized conser 37.4 24 0.00052 27.7 1.8 23 29-56 251-273 (286)
179 PRK11877 psaI photosystem I re 37.3 66 0.0014 17.8 3.0 27 147-173 9-35 (38)
180 smart00647 IBR In Between Ring 37.0 5.3 0.00012 24.0 -1.5 17 21-37 41-58 (64)
181 COG3492 Uncharacterized protei 36.9 20 0.00042 23.9 1.1 15 28-42 42-56 (104)
182 KOG0289 mRNA splicing factor [ 36.8 69 0.0015 27.8 4.5 45 8-57 1-46 (506)
183 PRK09400 secE preprotein trans 36.6 78 0.0017 19.4 3.7 25 99-123 8-32 (61)
184 PF11431 Transport_MerF: Membr 36.3 17 0.00038 20.9 0.7 29 155-183 16-44 (46)
185 KOG4050 Glutamate transporter 36.2 1.2E+02 0.0027 22.5 5.2 18 130-147 60-77 (188)
186 TIGR01523 ATPase-IID_K-Na pota 36.2 2.3E+02 0.0051 27.6 8.5 57 106-184 51-108 (1053)
187 smart00734 ZnF_Rad18 Rad18-lik 35.6 16 0.00035 18.2 0.5 9 9-17 3-11 (26)
188 PRK05208 hypothetical protein; 35.6 67 0.0014 24.0 3.9 33 150-182 56-88 (168)
189 PRK11088 rrmA 23S rRNA methylt 35.6 23 0.00049 28.2 1.5 11 8-18 3-13 (272)
190 KOG2041 WD40 repeat protein [G 35.3 17 0.00037 33.5 0.8 53 4-57 1128-1185(1189)
191 PF14348 DUF4400: Domain of un 35.3 1.6E+02 0.0035 22.2 6.1 23 131-154 156-179 (198)
192 TIGR02300 FYDLN_acid conserved 35.0 22 0.00048 25.3 1.2 11 46-56 26-36 (129)
193 TIGR03052 PS_I_psaI photosyste 34.9 58 0.0012 17.1 2.5 26 148-173 3-28 (31)
194 KOG1729 FYVE finger containing 34.3 10 0.00022 30.9 -0.7 51 6-56 167-224 (288)
195 PF09297 zf-NADH-PPase: NADH p 33.2 4.5 9.8E-05 21.2 -2.0 27 27-54 3-29 (32)
196 PF06827 zf-FPG_IleRS: Zinc fi 32.7 13 0.00029 18.9 -0.2 25 9-33 3-27 (30)
197 KOG2462 C2H2-type Zn-finger pr 32.4 40 0.00087 27.2 2.4 51 7-57 187-254 (279)
198 cd00730 rubredoxin Rubredoxin; 32.1 20 0.00042 21.1 0.5 12 4-15 31-42 (50)
199 PF13719 zinc_ribbon_5: zinc-r 32.1 29 0.00063 18.8 1.1 13 8-20 3-15 (37)
200 PF09889 DUF2116: Uncharacteri 32.0 45 0.00097 20.3 2.1 28 7-40 3-31 (59)
201 smart00831 Cation_ATPase_N Cat 31.9 1.1E+02 0.0025 18.1 4.6 12 106-117 35-46 (64)
202 PF00301 Rubredoxin: Rubredoxi 31.8 17 0.00037 21.0 0.2 12 4-15 31-42 (47)
203 PF02318 FYVE_2: FYVE-type zin 31.6 24 0.00052 24.5 1.0 46 6-55 53-103 (118)
204 PF13465 zf-H2C2_2: Zinc-finge 30.6 29 0.00064 17.0 0.9 12 45-56 13-24 (26)
205 PF01428 zf-AN1: AN1-like Zinc 30.4 28 0.0006 19.5 0.9 20 13-32 6-26 (43)
206 KOG0314 Predicted E3 ubiquitin 30.3 11 0.00025 32.5 -1.0 38 4-41 216-256 (448)
207 TIGR00645 HI0507 conserved hyp 30.2 71 0.0015 23.8 3.3 33 150-182 52-84 (167)
208 COG3402 Uncharacterized conser 30.1 2.1E+02 0.0045 21.2 5.5 52 134-185 29-80 (161)
209 PF15616 TerY-C: TerY-C metal 30.0 34 0.00073 24.5 1.5 40 7-57 77-116 (131)
210 COG4306 Uncharacterized protei 29.9 29 0.00062 24.6 1.1 23 28-58 29-51 (160)
211 PF08372 PRT_C: Plant phosphor 29.5 15 0.00033 27.0 -0.3 15 132-146 103-117 (156)
212 PRK01343 zinc-binding protein; 29.2 47 0.001 20.1 1.8 13 6-18 8-20 (57)
213 PF04186 FxsA: FxsA cytoplasmi 29.1 1.2E+02 0.0025 21.2 4.1 29 153-183 82-110 (119)
214 KOG0827 Predicted E3 ubiquitin 28.9 17 0.00037 30.8 -0.2 44 9-57 198-245 (465)
215 PF07787 DUF1625: Protein of u 28.6 83 0.0018 24.8 3.7 37 121-158 181-217 (248)
216 PRK00418 DNA gyrase inhibitor; 28.3 30 0.00065 21.4 0.8 10 47-56 7-16 (62)
217 PF06676 DUF1178: Protein of u 28.2 13 0.00028 27.2 -0.9 28 24-56 9-42 (148)
218 COG4736 CcoQ Cbb3-type cytochr 27.8 1.3E+02 0.0027 18.5 3.5 31 155-185 6-36 (60)
219 PF00412 LIM: LIM domain; Int 27.3 62 0.0014 18.7 2.2 29 8-36 27-56 (58)
220 PF01485 IBR: IBR domain; Int 26.6 22 0.00047 21.1 0.0 31 7-37 18-58 (64)
221 COG4357 Zinc finger domain con 26.3 39 0.00085 22.8 1.2 11 48-58 82-92 (105)
222 PF13240 zinc_ribbon_2: zinc-r 26.2 8.4 0.00018 18.7 -1.5 6 48-53 15-20 (23)
223 COG2816 NPY1 NTP pyrophosphohy 26.2 14 0.00031 29.9 -1.1 32 25-57 109-140 (279)
224 cd00350 rubredoxin_like Rubred 25.4 42 0.0009 17.6 1.0 8 48-55 19-26 (33)
225 COG2443 Sss1 Preprotein transl 25.4 1.7E+02 0.0038 18.2 3.9 23 101-123 11-33 (65)
226 PHA03029 hypothetical protein; 25.3 1.9E+02 0.0042 18.5 5.4 45 131-186 7-51 (92)
227 PLN03086 PRLI-interacting fact 25.3 96 0.0021 27.9 3.7 13 5-17 451-463 (567)
228 KOG4080 Mitochondrial ribosoma 25.2 58 0.0013 24.2 2.0 27 7-40 93-119 (176)
229 KOG0956 PHD finger protein AF1 25.0 42 0.00092 30.8 1.5 29 21-54 42-70 (900)
230 PF13717 zinc_ribbon_4: zinc-r 24.9 24 0.00051 19.1 -0.0 11 8-18 3-13 (36)
231 KOG2909 Vacuolar H+-ATPase V1 24.8 1.7E+02 0.0038 24.6 4.8 41 139-180 33-77 (381)
232 TIGR01522 ATPase-IIA2_Ca golgi 24.6 3.9E+02 0.0085 25.4 7.8 17 167-183 90-106 (884)
233 PRK07375 putative monovalent c 24.5 2.4E+02 0.0052 19.4 5.0 35 144-179 66-100 (112)
234 KOG2857 Predicted MYND Zn-fing 24.5 34 0.00074 24.8 0.7 29 7-35 5-34 (157)
235 TIGR01524 ATPase-IIIB_Mg magne 24.5 4.5E+02 0.0097 25.0 8.2 19 165-183 96-114 (867)
236 PF00628 PHD: PHD-finger; Int 24.4 4.2 9E-05 23.5 -3.4 45 9-53 1-49 (51)
237 COG1379 PHP family phosphoeste 24.2 3E+02 0.0065 23.2 6.1 48 9-56 228-275 (403)
238 PF13451 zf-trcl: Probable zin 24.1 37 0.0008 19.9 0.7 20 36-55 22-42 (49)
239 PRK06266 transcription initiat 23.9 19 0.00042 27.1 -0.7 35 47-90 137-171 (178)
240 PF14494 DUF4436: Domain of un 23.7 34 0.00074 27.4 0.6 45 131-177 202-247 (256)
241 PF09237 GAGA: GAGA factor; I 23.5 25 0.00053 20.9 -0.1 12 45-56 23-34 (54)
242 KOG0269 WD40 repeat-containing 23.5 80 0.0017 29.3 2.9 38 9-51 781-820 (839)
243 PRK08389 putative monovalent c 23.3 2.6E+02 0.0056 19.3 5.6 35 144-179 67-101 (114)
244 PTZ00478 Sec superfamily; Prov 22.9 2.1E+02 0.0046 18.6 4.1 44 99-142 21-66 (81)
245 PTZ00303 phosphatidylinositol 22.7 49 0.0011 31.0 1.5 29 8-36 461-498 (1374)
246 PF00096 zf-C2H2: Zinc finger, 22.7 28 0.00061 16.0 0.0 11 9-19 2-12 (23)
247 PF12660 zf-TFIIIC: Putative z 22.7 7 0.00015 26.4 -3.0 47 8-56 15-65 (99)
248 PF08882 Acetone_carb_G: Aceto 22.6 47 0.001 23.0 1.0 12 20-31 24-35 (112)
249 PRK04949 putative sulfate tran 22.0 4.1E+02 0.0089 21.1 8.4 17 170-186 175-191 (251)
250 PF11781 RRN7: RNA polymerase 21.9 52 0.0011 17.8 1.0 24 7-33 8-31 (36)
251 smart00132 LIM Zinc-binding do 21.9 61 0.0013 16.7 1.3 10 10-19 2-11 (39)
252 COG3305 Predicted membrane pro 21.7 3.1E+02 0.0068 19.6 5.0 25 121-147 88-112 (152)
253 PF12773 DZR: Double zinc ribb 21.7 59 0.0013 18.4 1.3 28 27-56 12-39 (50)
254 PF03884 DUF329: Domain of unk 21.6 25 0.00055 21.3 -0.4 11 47-57 3-13 (57)
255 PLN02248 cellulose synthase-li 21.5 62 0.0013 31.4 1.9 29 24-57 149-177 (1135)
256 PF12132 DUF3587: Protein of u 21.1 69 0.0015 24.6 1.8 25 16-40 150-178 (199)
257 PF08114 PMP1_2: ATPase proteo 21.1 1.7E+02 0.0037 16.4 3.3 11 175-185 29-39 (43)
258 PRK11463 fxsA phage T7 F exclu 21.0 1.5E+02 0.0032 21.6 3.4 27 157-183 88-114 (148)
259 TIGR00327 secE_euk_arch protei 20.9 2.2E+02 0.0047 17.5 4.3 21 103-123 8-28 (61)
260 PF10642 Tom5: Mitochondrial i 20.9 51 0.0011 19.3 0.8 13 132-145 28-40 (49)
261 smart00290 ZnF_UBP Ubiquitin C 20.7 65 0.0014 18.2 1.3 23 10-32 2-24 (50)
262 TIGR02652 conserved hypothetic 20.5 48 0.001 24.0 0.8 13 46-58 9-21 (163)
263 MTH00195 ND1 NADH dehydrogenas 20.4 4.8E+02 0.01 21.3 7.6 45 82-128 31-75 (307)
264 PF09654 DUF2396: Protein of u 20.4 49 0.0011 23.9 0.8 13 46-58 6-18 (161)
265 KOG1609 Protein involved in mR 20.3 90 0.002 25.1 2.5 51 4-57 75-134 (323)
266 PTZ00218 40S ribosomal protein 20.2 69 0.0015 19.2 1.3 31 7-39 16-46 (54)
267 KOG1356 Putative transcription 20.0 30 0.00066 32.3 -0.4 52 6-57 228-282 (889)
No 1
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.86 E-value=3.6e-22 Score=166.45 Aligned_cols=174 Identities=27% Similarity=0.504 Sum_probs=146.5
Q ss_pred CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc--ccCCCcccccCCCcchhhHHHhH---
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL--LIPNDDSLRQRHDPAVGDILQKV--- 81 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~--~~~~~~~~~~~~~~~~~~v~~~i--- 81 (187)
+..||||++....|+.++|||.||..||.++|..+...+...||+||..++. +.|..+....+.++ .+...+.
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~qkke~--l~~~~~~ng~ 263 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDDQKKEE--LKLHQDPNGI 263 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccccccHH--HHHHhcccCC
Confidence 7899999999999999999999999999999999877788899999999987 77877644422222 2222222
Q ss_pred HHhhhhhCCCCCCCccchhhcchhHHHHHHHHhhcCCCCchhHHHHHHHHHHHHHHHHhhhcccccCcchhhhHHHHHHH
Q 029826 82 ESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDD 161 (187)
Q Consensus 82 ~~y~~~~s~~~~~~~~~~~l~~~p~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~~~P~D~iPd~~~~~~G~~DD 161 (187)
..|++.|++.. ++.+.+++.+++.+++.+++.++.. ..+..+...+.....++..+|+..|.+.+|+.+.|.+|++||
T Consensus 264 ~~~~r~F~~d~-~r~~p~fl~dl~~~a~~~i~~~~~~-~~l~i~~~~~i~~v~i~~~~~~~~~~~~~~q~~~~~is~lde 341 (513)
T KOG2164|consen 264 PDYNRRFSGDP-ARFVPDFLMDLPTYARINIRNMFNN-HILTIVDQVCIAAVFICQYLSFLLPRRMVPQAIKGRISFLDE 341 (513)
T ss_pred CccccceecCc-ccccHHHHHhHHHHHHHHHHHhhcc-cceeehhhHhHHHHHHHHHhcccchhhhcchhhcCccCchhh
Confidence 27889998875 4788999999999999999997764 366777778888899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 029826 162 LLIALLCFLHVAALYRAVLYNRH 184 (187)
Q Consensus 162 ~~v~~~~~~~~~~~~~~~~~~r~ 184 (187)
..+-..++...++.+++|...|-
T Consensus 342 ~~~~~l~ls~~s~~dne~n~s~~ 364 (513)
T KOG2164|consen 342 CTNDQLILSEMSRIDNEYNASRG 364 (513)
T ss_pred hcchhhhhhhhhhhhhhhhhhhc
Confidence 99999999999999998776653
No 2
>COG3339 Uncharacterized conserved protein [Function unknown]
Probab=99.64 E-value=6e-16 Score=106.80 Aligned_cols=47 Identities=28% Similarity=0.552 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHhhhcccccCcchhhhHHHHHHHHHHHHHHHHHHHH
Q 029826 127 RARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAA 174 (187)
Q Consensus 127 ~~~~~~~~~~~~~Y~~~P~D~iPd~~~~~~G~~DD~~v~~~~~~~~~~ 174 (187)
+++.+..+.++++|++||+|+|||+ +|++||+||++|+++++..+++
T Consensus 46 p~~~~l~i~aal~Y~V~PiDiIPD~-lp~iG~iDDi~V~~~~v~~i~~ 92 (116)
T COG3339 46 PKYAKLIILAALGYFVSPIDIIPDF-LPVIGFIDDIAVLTLAVTAISK 92 (116)
T ss_pred hHHHHHHHHHHHHHHHchhhhchhh-hhccchHHHHHHHHHHHHHHHH
Confidence 4888999999999999999999995 8899999999999999999998
No 3
>PF06803 DUF1232: Protein of unknown function (DUF1232); InterPro: IPR010652 This family represents a conserved region of approximately 60 residues within a number of hypothetical bacterial and archaeal proteins of unknown function.
Probab=99.60 E-value=3.2e-16 Score=88.70 Aligned_cols=40 Identities=28% Similarity=0.605 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhhhcccccCcchhhhHHHHHHHHHHHHHH
Q 029826 128 ARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLC 168 (187)
Q Consensus 128 ~~~~~~~~~~~~Y~~~P~D~iPd~~~~~~G~~DD~~v~~~~ 168 (187)
|+.++.++++++|++||+|+|||+ +|++|++||++++.++
T Consensus 1 w~~~~~~~~al~Y~isP~D~iPD~-~p~~G~lDD~~v~~~v 40 (40)
T PF06803_consen 1 WKAKLLILAALAYFISPIDLIPDF-IPVIGYLDDAAVLAFV 40 (40)
T ss_pred ChHHHHHHHHHHHHhchhhhCCCc-cccccHHHHHHHHHhC
Confidence 567899999999999999999995 8999999999998764
No 4
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.56 E-value=2.9e-15 Score=86.32 Aligned_cols=42 Identities=33% Similarity=0.928 Sum_probs=33.1
Q ss_pred cccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC 52 (187)
Q Consensus 10 C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C 52 (187)
||||++++.+|++++|||+||.+|+.++|+..... ...||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~-~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGS-GFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSS-T---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCc-CCCCcCC
Confidence 89999999999999999999999999999876532 2689987
No 5
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.38 E-value=4.1e-13 Score=100.81 Aligned_cols=55 Identities=22% Similarity=0.528 Sum_probs=46.0
Q ss_pred CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCC-----------CCCCCCCccccccccc
Q 029826 4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS-----------TLQACRCPLCRRRITL 58 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~-----------~~~~~~Cp~Cr~~~~~ 58 (187)
..++++|+||.+.+++|+.++|||.||..|+.+|+...+ ..+...||.||.+++.
T Consensus 15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 356799999999999999999999999999999986432 1234599999999974
No 6
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.29 E-value=2.2e-12 Score=77.28 Aligned_cols=48 Identities=27% Similarity=0.709 Sum_probs=40.9
Q ss_pred CCcccccccccccCcEEccCCCc-ccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 6 CGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 6 ~~~~C~iC~~~~~~pv~~~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
|+..|+||++...+++.++|||. ||..|+.++++... .||.||++++.
T Consensus 1 ~~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~~~~-----~CP~Cr~~i~~ 49 (50)
T PF13920_consen 1 EDEECPICFENPRDVVLLPCGHLCFCEECAERLLKRKK-----KCPICRQPIES 49 (50)
T ss_dssp -HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHHTTS-----BBTTTTBB-SE
T ss_pred CcCCCccCCccCCceEEeCCCChHHHHHHhHHhcccCC-----CCCcCChhhcC
Confidence 46799999999999999999999 99999999998554 99999998853
No 7
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.29 E-value=2.4e-12 Score=73.09 Aligned_cols=38 Identities=32% Similarity=0.986 Sum_probs=32.6
Q ss_pred cccccccccCc-EEccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826 10 CSVCHGNFNVP-CQANCSHWFCGNCIMLVWDHGSTLQACRCPLC 52 (187)
Q Consensus 10 C~iC~~~~~~p-v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C 52 (187)
|+||.+.+.+| +.++|||+||.+|+.+|++.+. +||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~~~-----~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEKNP-----KCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHCTS-----B-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHCcC-----CCcCC
Confidence 89999999999 5789999999999999998843 99987
No 8
>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=99.26 E-value=1e-11 Score=77.79 Aligned_cols=46 Identities=11% Similarity=0.087 Sum_probs=41.7
Q ss_pred CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
++.||||.+.+.+|+.++|||+||.+|+.+|++... .||.|+++++
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~~~-----~cP~~~~~~~ 46 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLSHG-----TDPVTGQPLT 46 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHHCC-----CCCCCcCCCC
Confidence 468999999999999999999999999999998743 8999998873
No 9
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.24 E-value=5.2e-12 Score=98.58 Aligned_cols=55 Identities=25% Similarity=0.580 Sum_probs=45.1
Q ss_pred CCCcccccccccccCc--------EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCCc
Q 029826 5 PCGDVCSVCHGNFNVP--------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDD 64 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~p--------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~ 64 (187)
.++.+|+||++.+.++ +.++|+|.||..|+.+|.+... +||+||.++..+.+++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~-----tCPlCR~~~~~v~~~r~ 234 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN-----TCPVCRTPFISVIKSRF 234 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC-----CCCCCCCEeeEEeeeee
Confidence 4568999999976543 5668999999999999987655 99999999987766653
No 10
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=7.1e-12 Score=95.85 Aligned_cols=53 Identities=21% Similarity=0.549 Sum_probs=47.7
Q ss_pred CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
+...+.|.||++..++||+|.|||-||..||.+|.+....++ .||.|+..++.
T Consensus 44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~--~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSK--ECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCe--eCCcccccccc
Confidence 456789999999999999999999999999999999887555 89999999974
No 11
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.23 E-value=1e-11 Score=103.36 Aligned_cols=51 Identities=33% Similarity=0.734 Sum_probs=45.8
Q ss_pred CCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 2 EGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 2 ~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
+..++.+.|+||.+.+.+|+.++|||+||..|+..|+.... .||.|+..+.
T Consensus 21 ~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~~-----~CP~Cr~~~~ 71 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQP-----KCPLCRAEDQ 71 (397)
T ss_pred cccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCCC-----CCCCCCCccc
Confidence 45678899999999999999999999999999999997644 8999999874
No 12
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=99.22 E-value=3.2e-12 Score=102.36 Aligned_cols=67 Identities=31% Similarity=0.588 Sum_probs=53.7
Q ss_pred CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCCcccccCCCcchhhHHHhH-
Q 029826 3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKV- 81 (187)
Q Consensus 3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~~~~~~~~~~~~~v~~~i- 81 (187)
..++-++|.||.++|..|+.++|+|+||.-||+.++..+. .||.|+.++. ..+...+.++++|
T Consensus 19 ~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~p-----~CP~C~~~~~-----------Es~Lr~n~il~Eiv 82 (442)
T KOG0287|consen 19 TLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYKP-----QCPTCCVTVT-----------ESDLRNNRILDEIV 82 (442)
T ss_pred hhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHhccCC-----CCCceecccc-----------hhhhhhhhHHHHHH
Confidence 4466789999999999999999999999999999999887 9999988772 2334445566665
Q ss_pred HHhh
Q 029826 82 ESYN 85 (187)
Q Consensus 82 ~~y~ 85 (187)
+.|+
T Consensus 83 ~S~~ 86 (442)
T KOG0287|consen 83 KSLN 86 (442)
T ss_pred HHHH
Confidence 4443
No 13
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.20 E-value=9.4e-12 Score=72.48 Aligned_cols=40 Identities=30% Similarity=0.790 Sum_probs=34.6
Q ss_pred cccccccccc---CcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826 9 VCSVCHGNFN---VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCR 53 (187)
Q Consensus 9 ~C~iC~~~~~---~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr 53 (187)
+|+||++.+. ..+.++|||.||.+|+.+|++.+. +||.||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~-----~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNN-----SCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSS-----B-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCC-----cCCccC
Confidence 7999999884 567889999999999999999865 999997
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=1.4e-11 Score=90.51 Aligned_cols=50 Identities=32% Similarity=0.820 Sum_probs=42.8
Q ss_pred CCCCccccccccccc--CcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 4 PPCGDVCSVCHGNFN--VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~--~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
++....||||++.+. .|+.+.|||.||+.||+...+.+. .||+|++.++.
T Consensus 128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~-----~CP~C~kkIt~ 179 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTN-----KCPTCRKKITH 179 (187)
T ss_pred cccccCCCceecchhhccccccccchhHHHHHHHHHHHhCC-----CCCCcccccch
Confidence 456689999999775 467789999999999999998877 99999987753
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=99.17 E-value=2.2e-11 Score=92.66 Aligned_cols=61 Identities=21% Similarity=0.444 Sum_probs=47.4
Q ss_pred CCCCcccccccccccC---------cEEccCCCcccHHHHHHHHHhCCC-CCCCCCcccccccccccCCCc
Q 029826 4 PPCGDVCSVCHGNFNV---------PCQANCSHWFCGNCIMLVWDHGST-LQACRCPLCRRRITLLIPNDD 64 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~---------pv~~~C~H~fC~~Ci~~~~~~~~~-~~~~~Cp~Cr~~~~~~~~~~~ 64 (187)
..++.+|+||++...+ ++..+|+|+||..||.+|.+.+.. ....+||+||..+....|++.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf 237 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKF 237 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeeccccc
Confidence 3567899999997532 456689999999999999876432 123479999999988888764
No 16
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.16 E-value=3.2e-11 Score=69.07 Aligned_cols=40 Identities=33% Similarity=0.958 Sum_probs=35.6
Q ss_pred cccccccccCcE-EccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826 10 CSVCHGNFNVPC-QANCSHWFCGNCIMLVWDHGSTLQACRCPLC 52 (187)
Q Consensus 10 C~iC~~~~~~pv-~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C 52 (187)
|+||.+.+.+|+ .++|||.||..|+.+|++.. +...||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~---~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENS---GSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHT---SSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhc---CCccCCcC
Confidence 899999999999 88999999999999999962 23589987
No 17
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=1.7e-11 Score=96.49 Aligned_cols=49 Identities=35% Similarity=0.839 Sum_probs=44.9
Q ss_pred CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
++.+..|.+|++...+|.-|+|||.||.+||.+|...+. .||.||+.+.
T Consensus 236 ~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~-----eCPlCR~~~~ 284 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA-----ECPLCREKFQ 284 (293)
T ss_pred CCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc-----CCCcccccCC
Confidence 466789999999999999999999999999999998877 7999999874
No 18
>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=99.12 E-value=8.8e-11 Score=75.88 Aligned_cols=49 Identities=14% Similarity=0.225 Sum_probs=39.7
Q ss_pred CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
++.+.|||+.+++.+||.+++||+|++.||++|++... ..||.|+++++
T Consensus 2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~----~~~P~t~~~l~ 50 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWLEQNG----GTDPFTRQPLS 50 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTS----SB-TTT-SB-S
T ss_pred CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCC----CCCCCCCCcCC
Confidence 57899999999999999999999999999999998833 29999999884
No 19
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.11 E-value=5.3e-11 Score=68.54 Aligned_cols=39 Identities=28% Similarity=0.878 Sum_probs=24.2
Q ss_pred cccccccccC----cEEccCCCcccHHHHHHHHHhCCCCCCCCCc
Q 029826 10 CSVCHGNFNV----PCQANCSHWFCGNCIMLVWDHGSTLQACRCP 50 (187)
Q Consensus 10 C~iC~~~~~~----pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp 50 (187)
||||.+ +.+ |+.++|||+||.+|++++++.+. .+.++||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~-~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSD-RNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S--S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCC-CCeeeCc
Confidence 899999 777 99999999999999999998754 3456887
No 20
>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=98.98 E-value=5.5e-10 Score=64.53 Aligned_cols=43 Identities=37% Similarity=0.884 Sum_probs=36.6
Q ss_pred ccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccc
Q 029826 9 VCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRR 55 (187)
Q Consensus 9 ~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~ 55 (187)
.|+||.+.+.+++.+. |||.||..|+.+|++... ..||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~----~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGK----NTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCc----CCCCCCCCc
Confidence 5999999997887776 999999999999988733 289999875
No 21
>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=98.96 E-value=5.8e-10 Score=89.66 Aligned_cols=105 Identities=18% Similarity=0.347 Sum_probs=64.8
Q ss_pred CCccccccccc-ccCcE---Ec-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCCcccccCCCcchhhHHHh
Q 029826 6 CGDVCSVCHGN-FNVPC---QA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQK 80 (187)
Q Consensus 6 ~~~~C~iC~~~-~~~pv---~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~~~~~~~~~~~~~v~~~ 80 (187)
++..||+|... ..+|. .+ +|||.||.+|+...|...+ ..||.|+.++..--...+.-....-+....+++.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~----~~CP~C~~~lrk~~fr~q~F~D~~vekEV~iRkr 77 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGS----GSCPECDTPLRKNNFRVQLFEDPTVEKEVDIRKR 77 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCC----CCCCCCCCccchhhccccccccHHHHHHHHHHHH
Confidence 35689999983 34443 33 5999999999999986544 3899999988642111100011111222344455
Q ss_pred H-HHhhhhhCCCCCCCccchhhcchhHHHHHHHHh
Q 029826 81 V-ESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRE 114 (187)
Q Consensus 81 i-~~y~~~~s~~~~~~~~~~~l~~~p~ll~~l~~~ 114 (187)
+ .-||+.-.+-...+.+.+||...-+++..|...
T Consensus 78 v~~i~Nk~e~dF~~l~~yNdYLE~vEdii~nL~~~ 112 (309)
T TIGR00570 78 VLKIYNKREEDFPSLREYNDYLEEVEDIVYNLTNN 112 (309)
T ss_pred HHHHHccchhccCCHHHHHHHHHHHHHHHHHhhcC
Confidence 4 556665544433377778888887777766653
No 22
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.94 E-value=1.4e-10 Score=71.36 Aligned_cols=45 Identities=31% Similarity=0.712 Sum_probs=25.0
Q ss_pred CCCcccccccccccCcEE-ccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~-~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
++.+.|++|.+.+++|+. ..|.|.||+.|+...+. + .||.|+.|.
T Consensus 5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~--~-----~CPvC~~Pa 50 (65)
T PF14835_consen 5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG--S-----ECPVCHTPA 50 (65)
T ss_dssp HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT--T-----B-SSS--B-
T ss_pred HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC--C-----CCCCcCChH
Confidence 466899999999999986 56999999999976332 2 799998876
No 23
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.92 E-value=3.9e-10 Score=88.84 Aligned_cols=50 Identities=30% Similarity=0.767 Sum_probs=45.2
Q ss_pred CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
+.+..+.|-||.+.+..|+.|+|||+||.-||++++..+. .||.||.+..
T Consensus 21 ~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp-----~CP~Cr~~~~ 70 (391)
T COG5432 21 GLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQP-----FCPVCREDPC 70 (391)
T ss_pred cchhHHHhhhhhheeecceecccccchhHHHHHHHhcCCC-----CCccccccHH
Confidence 3456789999999999999999999999999999998877 8999998774
No 24
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.92 E-value=7.7e-10 Score=64.33 Aligned_cols=41 Identities=29% Similarity=1.003 Sum_probs=33.7
Q ss_pred ccccccccc---cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 9 VCSVCHGNF---NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 9 ~C~iC~~~~---~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
+|++|.+.+ ..|..++|||+||..|+.+... ....||.||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~-----~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKG-----KSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcC-----CCCCCcCCCC
Confidence 589999988 3578899999999999998771 2249999985
No 25
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.84 E-value=3.2e-09 Score=59.19 Aligned_cols=39 Identities=33% Similarity=0.931 Sum_probs=34.1
Q ss_pred cccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826 10 CSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLC 52 (187)
Q Consensus 10 C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C 52 (187)
|+||.+....++.++|||.||..|+.+|++... ..||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~----~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGN----NTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCc----CCCCCC
Confidence 799999999999999999999999999988332 379987
No 26
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=2.7e-09 Score=83.15 Aligned_cols=50 Identities=32% Similarity=0.856 Sum_probs=42.5
Q ss_pred CCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 4 PPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
|+.+..|+||++....|..++|||.||..|+...|..++. -.||.||+..
T Consensus 212 p~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~---~~CplCRak~ 261 (271)
T COG5574 212 PLADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKY---EFCPLCRAKV 261 (271)
T ss_pred cccccceeeeecccCCcccccccchhhHHHHHHHHHhhcc---ccCchhhhhc
Confidence 4678999999999999999999999999999996555431 2699999876
No 27
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=2.9e-09 Score=85.61 Aligned_cols=47 Identities=30% Similarity=0.786 Sum_probs=41.9
Q ss_pred CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
..++.+.|+||++.+.+|..++|||+||..|+..+|. ....||.||.
T Consensus 9 ~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-----~~~~Cp~cr~ 55 (386)
T KOG2177|consen 9 VLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-----GPLSCPVCRP 55 (386)
T ss_pred hccccccChhhHHHhhcCccccccchHhHHHHHHhcC-----CCcCCcccCC
Confidence 4578899999999999998899999999999999998 2359999994
No 28
>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=98.67 E-value=1.9e-08 Score=64.90 Aligned_cols=41 Identities=34% Similarity=0.822 Sum_probs=32.4
Q ss_pred cccccccccccC------------cE-EccCCCcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826 8 DVCSVCHGNFNV------------PC-QANCSHWFCGNCIMLVWDHGSTLQACRCPLCR 53 (187)
Q Consensus 8 ~~C~iC~~~~~~------------pv-~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr 53 (187)
..|+||++.+.+ ++ ..+|||.|...||.+|++.+. .||+||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-----~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-----TCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-----B-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-----cCCCCC
Confidence 359999998832 23 346999999999999998876 999997
No 29
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=1.5e-08 Score=82.02 Aligned_cols=49 Identities=27% Similarity=0.764 Sum_probs=43.7
Q ss_pred CCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
..++.|+||+++++...++. |+|.||.+||...++.+.+ .||.||+.+.
T Consensus 41 ~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~----ecptcRk~l~ 90 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNN----ECPTCRKKLV 90 (381)
T ss_pred hhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCC----CCchHHhhcc
Confidence 45789999999999998887 9999999999988887765 9999999874
No 30
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=6.5e-08 Score=76.81 Aligned_cols=54 Identities=28% Similarity=0.530 Sum_probs=46.4
Q ss_pred CCCCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 1 MEGPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 1 ~~~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
|.+..-.-+|+||+....-|+.+.|+|.||..||+....... ..|++||.++.+
T Consensus 1 ~ap~~~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk----~~CavCR~pids 54 (324)
T KOG0824|consen 1 MAPRTKKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDK----KTCAVCRFPIDS 54 (324)
T ss_pred CCCcccCCcceeeeccCCcCccccccchhhhhhhcchhhcCC----CCCceecCCCCc
Confidence 455666789999999999999999999999999988766554 279999999985
No 31
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.46 E-value=1.8e-07 Score=61.33 Aligned_cols=49 Identities=35% Similarity=0.731 Sum_probs=38.1
Q ss_pred CCcccccccccccC------------cEEc-cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 6 CGDVCSVCHGNFNV------------PCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 6 ~~~~C~iC~~~~~~------------pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
++..|+||...|.. |+.. .|+|.|...||.+|+++++..+ .||+||++.
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 46788888876641 4333 5999999999999999864334 999999976
No 32
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=5e-08 Score=85.96 Aligned_cols=48 Identities=25% Similarity=0.674 Sum_probs=43.4
Q ss_pred CCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 6 ~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.-+.||+|....++.+.+.|||.||..|+++......+ +||.|...|.
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqR----KCP~Cn~aFg 689 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQR----KCPKCNAAFG 689 (698)
T ss_pred hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcC----CCCCCCCCCC
Confidence 45789999999999999999999999999999888775 9999998883
No 33
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=1.2e-07 Score=79.35 Aligned_cols=49 Identities=31% Similarity=0.714 Sum_probs=44.3
Q ss_pred CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
.+++.|.||...+..|+.++|||+||..|+.+.+.+.. .||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld~~~-----~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLDQET-----ECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccccccccccHHHHHHHhccCC-----CCccccccccc
Confidence 56899999999999999999999999999999777655 99999998854
No 34
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=1.4e-07 Score=82.74 Aligned_cols=46 Identities=24% Similarity=0.759 Sum_probs=42.0
Q ss_pred CCcccccccccccC-----cEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 6 CGDVCSVCHGNFNV-----PCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 6 ~~~~C~iC~~~~~~-----pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
.+..|+||.+.+.. |..++|+|.|+..|+.+|+++.+ .||+||..+
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~q-----tCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQ-----TCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhC-----cCCcchhhh
Confidence 47899999999988 89999999999999999999977 999999944
No 35
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=98.38 E-value=2e-07 Score=74.99 Aligned_cols=53 Identities=26% Similarity=0.551 Sum_probs=45.4
Q ss_pred CCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCC
Q 029826 5 PCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN 62 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~ 62 (187)
.....|.+|.+++.++.++. |-|+||++||.+++.... .||.|...+.+..|.
T Consensus 13 n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~~~-----~CP~C~i~ih~t~pl 66 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEESK-----YCPTCDIVIHKTHPL 66 (331)
T ss_pred ccceehhhccceeecchhHHHHHHHHHHHHHHHHHHHhc-----cCCccceeccCcccc
Confidence 45679999999999998876 999999999999999855 999998887654433
No 36
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=5.4e-07 Score=73.82 Aligned_cols=48 Identities=33% Similarity=0.656 Sum_probs=40.4
Q ss_pred cccccccccccCc---EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826 8 DVCSVCHGNFNVP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL 59 (187)
Q Consensus 8 ~~C~iC~~~~~~p---v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~ 59 (187)
..|.||+|.+... +.+||+|.|-..||..|+.+... .||.|++.+..-
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~----~CPvCK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRT----FCPVCKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCc----cCCCCCCcCCCC
Confidence 4999999988754 46899999999999999988642 799999988653
No 37
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=4.1e-07 Score=74.25 Aligned_cols=48 Identities=23% Similarity=0.696 Sum_probs=41.7
Q ss_pred CCCcccccccccc-c------------CcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 5 PCGDVCSVCHGNF-N------------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 5 ~~~~~C~iC~~~~-~------------~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.+|..|.||.+.+ . .|..++|||.+-.+|++.|++++. .||.||.++-
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ-----TCPICr~p~i 345 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-----TCPICRRPVI 345 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc-----CCCcccCccc
Confidence 5678999999974 2 357899999999999999999987 9999999954
No 38
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.30 E-value=2e-07 Score=69.93 Aligned_cols=46 Identities=24% Similarity=0.805 Sum_probs=41.0
Q ss_pred CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.+.|.||...+..||.+.|||+||..|..+-++... .|-.|.+...
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg~-----~C~~Cgk~t~ 241 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKGD-----ECGVCGKATY 241 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHhccCC-----cceecchhhc
Confidence 468999999999999999999999999988777766 8999987664
No 39
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=7.6e-07 Score=73.18 Aligned_cols=61 Identities=26% Similarity=0.552 Sum_probs=46.9
Q ss_pred CCCcccccccccccCcE-----E---ccCCCcccHHHHHHHHHhCC--CCCCCCCcccccccccccCCCcc
Q 029826 5 PCGDVCSVCHGNFNVPC-----Q---ANCSHWFCGNCIMLVWDHGS--TLQACRCPLCRRRITLLIPNDDS 65 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv-----~---~~C~H~fC~~Ci~~~~~~~~--~~~~~~Cp~Cr~~~~~~~~~~~~ 65 (187)
.++..|.||++...+.. . .+|.|.||..|+..|..... ..-...||.||.+.+...+...+
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~~W 229 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSSFW 229 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccccee
Confidence 56789999999776655 3 57999999999999884433 11134999999999988888633
No 40
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=2.5e-07 Score=54.88 Aligned_cols=50 Identities=24% Similarity=0.508 Sum_probs=42.3
Q ss_pred CCCcccccccccccCcEEccCCC-cccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQANCSH-WFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C~H-~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
+.+.+|.||.+-..+.|.-.||| -.|..|-.+.|+.... .||.||+++..
T Consensus 5 ~~~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g----~CPiCRapi~d 55 (62)
T KOG4172|consen 5 QWSDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHG----CCPICRAPIKD 55 (62)
T ss_pred ccccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCC----cCcchhhHHHH
Confidence 45689999999999999999999 4799999998886443 99999998853
No 41
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.22 E-value=1e-06 Score=53.91 Aligned_cols=47 Identities=26% Similarity=0.507 Sum_probs=31.7
Q ss_pred CCCCCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcc
Q 029826 2 EGPPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPL 51 (187)
Q Consensus 2 ~~~~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~ 51 (187)
++-.-++.|||.+..+.+|+.. .|||+|.++.|.++++. .+...||.
T Consensus 6 ~~~~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~---~~~~~CPv 53 (57)
T PF11789_consen 6 EGGTISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQR---NGSKRCPV 53 (57)
T ss_dssp -SSB--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTT---TS-EE-SC
T ss_pred eccEeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHh---cCCCCCCC
Confidence 3445678999999999999986 69999999999999943 23458998
No 42
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=1e-06 Score=71.72 Aligned_cols=55 Identities=24% Similarity=0.575 Sum_probs=45.8
Q ss_pred CCCcccccccccccCcEEccCCCc-ccHHHHHHHHHhCCCCCCCCCcccccccccccCCCc
Q 029826 5 PCGDVCSVCHGNFNVPCQANCSHW-FCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDD 64 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C~H~-fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~ 64 (187)
++..+|-||+...++-+.+||.|. .|..|.+...-+.+ .||+||+++..++....
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr~q~n-----~CPICRqpi~~ll~i~~ 343 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLRYQTN-----NCPICRQPIEELLEIYV 343 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHHHHhhc-----CCCccccchHhhheecc
Confidence 457899999999999999999994 69999988765544 89999999977665543
No 43
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=98.18 E-value=4.4e-07 Score=77.12 Aligned_cols=55 Identities=22% Similarity=0.480 Sum_probs=47.6
Q ss_pred CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL 59 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~ 59 (187)
.++..|.+|-+...+++.+.|.|.||+.|+.+|...-..+...+||.|...++.-
T Consensus 534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 4568999999999999999999999999999998876655558999998877643
No 44
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=7.7e-07 Score=70.63 Aligned_cols=46 Identities=26% Similarity=0.780 Sum_probs=41.1
Q ss_pred cccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
+.|-||...+.+||++.|+|.||..|....++.+. .|+.|.+.+..
T Consensus 242 f~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~-----~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGE-----KCYVCSQQTHG 287 (313)
T ss_pred ccccccccccccchhhcCCceeehhhhccccccCC-----cceeccccccc
Confidence 56999999999999999999999999988777665 99999988754
No 45
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.00 E-value=5.1e-06 Score=66.16 Aligned_cols=49 Identities=31% Similarity=0.748 Sum_probs=41.0
Q ss_pred CCCCCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 2 EGPPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 2 ~~~~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
-.+.-.+.||.|..++.+|+.++ |+|.||.+||...+-.+. +.||.|..
T Consensus 269 ~~~~i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsD----f~CpnC~r 318 (427)
T COG5222 269 QPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSD----FKCPNCSR 318 (427)
T ss_pred CCCCccccCcchhhhhhCcccCccccchHHHHHHhhhhhhcc----ccCCCccc
Confidence 34555699999999999999997 999999999987766543 49999965
No 46
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.96 E-value=5.7e-06 Score=65.11 Aligned_cols=50 Identities=26% Similarity=0.656 Sum_probs=42.0
Q ss_pred CCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.++.+||+|.+..+.|-+.. |||.||.-|+........ .+.||.|..+..
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~a---sf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDA---SFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchh---hcccCccCCCCc
Confidence 57789999999999998887 999999999988665432 359999988774
No 47
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.95 E-value=3.7e-06 Score=70.91 Aligned_cols=49 Identities=29% Similarity=0.831 Sum_probs=43.9
Q ss_pred CCCCcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 4 PPCGDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.++++.|++|...+.+|+.+ .|||.||..|+..|..... .||.|+.+..
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~~~-----~cp~~~~~~~ 67 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSNHQ-----KCPVCRQELT 67 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhccCc-----CCcccccccc
Confidence 47889999999999999995 8999999999999888744 9999988775
No 48
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.79 E-value=8e-06 Score=68.31 Aligned_cols=47 Identities=30% Similarity=0.694 Sum_probs=38.6
Q ss_pred CCCCcccccccccccCcE----EccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 4 PPCGDVCSVCHGNFNVPC----QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv----~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
+.|-.+||||++.+..-+ .+.|.|+|-..|+..||.. +||.||---+
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~-------scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS-------SCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC-------cChhhhhhcC
Confidence 456789999999887654 4569999999999999986 8999986443
No 49
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=2.7e-05 Score=49.56 Aligned_cols=46 Identities=28% Similarity=0.738 Sum_probs=36.0
Q ss_pred ccccccccccC------------cEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 9 VCSVCHGNFNV------------PCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 9 ~C~iC~~~~~~------------pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
.|.||.-.|.. |.+.. |.|.|-..||.+|...+++.+ .||+||+..
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~--~CPmcRq~~ 80 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQG--QCPMCRQTW 80 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccc--cCCcchhee
Confidence 78888766532 44444 999999999999998876545 999999976
No 50
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=7.5e-05 Score=60.92 Aligned_cols=49 Identities=24% Similarity=0.504 Sum_probs=43.6
Q ss_pred CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
.|+..||||..-..+++..||+|.-|..||.+.+...+ .|-+|+..+..
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k-----~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCK-----RCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHHhcCC-----eeeEecceeee
Confidence 57889999999999999999999999999999888766 89999887753
No 51
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=5.1e-05 Score=59.72 Aligned_cols=49 Identities=31% Similarity=0.677 Sum_probs=38.7
Q ss_pred CCCcccccccccccCc----------EEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 5 PCGDVCSVCHGNFNVP----------CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~p----------v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
.++..|.+|.+.+... ..++|+|.|-.-||+.|---++ ++ .||+|++.+
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK-kq--tCPYCKekV 280 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK-KQ--TCPYCKEKV 280 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC-CC--CCchHHHHh
Confidence 4678899999866433 4679999999999999976544 23 999998766
No 52
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.38 E-value=4.9e-05 Score=48.49 Aligned_cols=51 Identities=20% Similarity=0.358 Sum_probs=24.7
Q ss_pred Cccccccccccc-C---cEE----ccCCCcccHHHHHHHHHhCCCCC----C--CCCcccccccc
Q 029826 7 GDVCSVCHGNFN-V---PCQ----ANCSHWFCGNCIMLVWDHGSTLQ----A--CRCPLCRRRIT 57 (187)
Q Consensus 7 ~~~C~iC~~~~~-~---pv~----~~C~H~fC~~Ci~~~~~~~~~~~----~--~~Cp~Cr~~~~ 57 (187)
+.+|+||..... + |.. ..|++.|-..|+.+|+......+ . -.||.|+++++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 578999998654 2 322 15899999999999997633211 1 17999999884
No 53
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.35 E-value=8.3e-05 Score=61.59 Aligned_cols=49 Identities=29% Similarity=0.635 Sum_probs=39.2
Q ss_pred cccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826 8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL 59 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~ 59 (187)
..|-||-+.-++-..-+|||-.|..|+..|-.... .+ .||.||..+...
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~-gq--~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDE-GQ--TCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhcccCC-CC--CCCceeeEeccc
Confidence 36999999877777778999999999988664432 22 999999999753
No 54
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=97.31 E-value=0.00012 Score=61.25 Aligned_cols=38 Identities=24% Similarity=0.466 Sum_probs=34.2
Q ss_pred CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCC
Q 029826 5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS 42 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~ 42 (187)
+|++.|+||...+.+|+.++|+|+.|..|......++.
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~~tp 39 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNILVQTP 39 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhhcccCC
Confidence 68899999999999999999999999999987665544
No 55
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=97.10 E-value=0.00054 Score=44.06 Aligned_cols=28 Identities=36% Similarity=0.657 Sum_probs=25.6
Q ss_pred cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 24 NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 24 ~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
-|.|.|-..||.+|+..+. .||++|++.
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~-----~CPld~q~w 80 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKG-----VCPLDRQTW 80 (88)
T ss_pred ecchHHHHHHHHHHHhhCC-----CCCCCCcee
Confidence 3999999999999999866 999999977
No 56
>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=97.02 E-value=0.00079 Score=49.12 Aligned_cols=58 Identities=22% Similarity=0.481 Sum_probs=40.0
Q ss_pred CCcccccccccccCcEEccCC-C------ccc------HHHHHHHHHhCCCC--------------------------CC
Q 029826 6 CGDVCSVCHGNFNVPCQANCS-H------WFC------GNCIMLVWDHGSTL--------------------------QA 46 (187)
Q Consensus 6 ~~~~C~iC~~~~~~pv~~~C~-H------~fC------~~Ci~~~~~~~~~~--------------------------~~ 46 (187)
|+..||||++...++|.+-|. | -.| ..|+.++-+..... ..
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE 80 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence 578999999999999998554 1 122 46887765432210 14
Q ss_pred CCCcccccccccccCCC
Q 029826 47 CRCPLCRRRITLLIPND 63 (187)
Q Consensus 47 ~~Cp~Cr~~~~~~~~~~ 63 (187)
..||+||..+..+....
T Consensus 81 L~CPLCRG~V~GWtvve 97 (162)
T PF07800_consen 81 LACPLCRGEVKGWTVVE 97 (162)
T ss_pred ccCccccCceeceEEch
Confidence 68999999998765554
No 57
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.00051 Score=57.12 Aligned_cols=50 Identities=28% Similarity=0.777 Sum_probs=39.3
Q ss_pred CCCcccccccccccCc-----EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 5 PCGDVCSVCHGNFNVP-----CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~p-----v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
+....||||++....| +.+.|||.|-.+|+++|+-+ +....||.|.....
T Consensus 2 d~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k---~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 2 DCGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGK---KTKMQCPLCSGKAT 56 (463)
T ss_pred CccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhh---hhhhhCcccCChhH
Confidence 4567999999977665 34579999999999999953 23569999976654
No 58
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=96.95 E-value=0.00066 Score=54.11 Aligned_cols=98 Identities=17% Similarity=0.406 Sum_probs=53.7
Q ss_pred ccccccc-cccCcE---Ec-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCCcccccCCCcchhhHHHhH-H
Q 029826 9 VCSVCHG-NFNVPC---QA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKV-E 82 (187)
Q Consensus 9 ~C~iC~~-~~~~pv---~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~~~~~~~~~~~~~~v~~~i-~ 82 (187)
.||+|.. .+.+|- .. +|+|..|.+|..+.+..+.. .||-|...+.+.--..+.-+...-+...++++.+ .
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~----~CpeC~~iLRk~nfr~q~fED~~vekEv~iRrri~~ 77 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPA----QCPECMVILRKNNFRVQTFEDPTVEKEVDIRRRILR 77 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCC----CCCcccchhhhcccchhhcchhHHHHHHHHHHHHHH
Confidence 5999987 334442 12 69999999999999887664 9999976553211111111111112223445555 5
Q ss_pred Hhhhh---hCCCCCCCccchhhcchhHHHHHHH
Q 029826 83 SYNRI---FGGPTTANGLFQRIQDLPFLLRRLV 112 (187)
Q Consensus 83 ~y~~~---~s~~~~~~~~~~~l~~~p~ll~~l~ 112 (187)
.||+. |.+.. ....+++...-+++..+.
T Consensus 78 ~~nk~~eeF~~~L--aeyndylEe~Ediv~nl~ 108 (300)
T KOG3800|consen 78 IFNKKEEEFTGSL--AEYNDYLEEVEDIVFNLG 108 (300)
T ss_pred HhccchhhhhhhH--HHHhcccHHHHHHHHHhh
Confidence 55553 33333 445555555555444443
No 59
>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=96.80 E-value=0.00036 Score=41.43 Aligned_cols=48 Identities=17% Similarity=0.535 Sum_probs=23.9
Q ss_pred CcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccc
Q 029826 7 GDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRR 55 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~ 55 (187)
.+.||+....+..|+... |.|.-|.+= +.+++.....+...||.|.++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl-~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDL-ESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEH-HHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECH-HHHHHHhhccCCeECcCCcCc
Confidence 368999999999999875 999987652 233333222334699999764
No 60
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.80 E-value=0.00028 Score=62.97 Aligned_cols=52 Identities=19% Similarity=0.435 Sum_probs=39.8
Q ss_pred CcccccccccccCcE---EccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCCC
Q 029826 7 GDVCSVCHGNFNVPC---QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPND 63 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv---~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~~ 63 (187)
...||+|+..+.+.. ...|+|.||..|+..|-+... .||.||..+....+..
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aq-----TCPiDR~EF~~v~V~e 177 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQ-----TCPVDRGEFGEVKVLE 177 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcc-----cCchhhhhhheeeeec
Confidence 356888887665443 236999999999999888776 9999999998655443
No 61
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.73 E-value=0.00064 Score=40.74 Aligned_cols=44 Identities=23% Similarity=0.484 Sum_probs=34.5
Q ss_pred CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
...|-.|...-...+.++|||..|..|....-. + .||.|..++.
T Consensus 7 ~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rY--n-----gCPfC~~~~~ 50 (55)
T PF14447_consen 7 EQPCVFCGFVGTKGTVLPCGHLICDNCFPGERY--N-----GCPFCGTPFE 50 (55)
T ss_pred ceeEEEccccccccccccccceeeccccChhhc--c-----CCCCCCCccc
Confidence 456777777778889999999999999864222 2 8999998884
No 62
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.68 E-value=0.0011 Score=54.98 Aligned_cols=48 Identities=19% Similarity=0.589 Sum_probs=35.5
Q ss_pred CcccccccccccCcEE---c-cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 7 GDVCSVCHGNFNVPCQ---A-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~---~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
.-.|.||.+...+-.. + .|||+|--.|+.+|+....++. .||.|+-.+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R--~cpic~ik~ 55 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNR--GCPICQIKL 55 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccC--CCCceeecc
Confidence 3479999765543222 2 4999999999999999887543 899998333
No 63
>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=96.67 E-value=0.0024 Score=37.73 Aligned_cols=42 Identities=19% Similarity=0.675 Sum_probs=33.0
Q ss_pred ccccccc--cccCcEEccCC-----CcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826 9 VCSVCHG--NFNVPCQANCS-----HWFCGNCIMLVWDHGSTLQACRCPLCR 53 (187)
Q Consensus 9 ~C~iC~~--~~~~pv~~~C~-----H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr 53 (187)
.|-||++ .-.++...||. |.+-..|+.+|+..+.. ..||.|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~---~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGN---KTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCC---CcCCCCC
Confidence 4889997 44677888885 77889999999987652 3899984
No 64
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.63 E-value=0.0012 Score=53.66 Aligned_cols=46 Identities=26% Similarity=0.774 Sum_probs=37.9
Q ss_pred Cccccccccccc------CcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 7 GDVCSVCHGNFN------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 7 ~~~C~iC~~~~~------~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
...|-||.+.+. .|..+.|||++|..|+........ ..||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~----i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSR----ILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCce----eeccCCCCcc
Confidence 357999998764 578888999999999998777654 3889999985
No 65
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.63 E-value=0.00078 Score=60.51 Aligned_cols=47 Identities=26% Similarity=0.686 Sum_probs=41.2
Q ss_pred cccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
..|++|.+ ...++.+.|||.||.+|+...++.... . .||.||..+..
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~~~~-~--~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQSEN-A--PCPLCRNVLKE 501 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccccccC-C--CCcHHHHHHHH
Confidence 68999999 888899999999999999999988663 2 89999988863
No 66
>PHA03096 p28-like protein; Provisional
Probab=96.58 E-value=0.00097 Score=53.83 Aligned_cols=49 Identities=22% Similarity=0.283 Sum_probs=34.4
Q ss_pred ccccccccccc--------CcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 8 DVCSVCHGNFN--------VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 8 ~~C~iC~~~~~--------~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
-.|.||++... ......|.|.||..|+..|...+... -.||.||...+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~--e~~~~c~~~~~~ 235 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYK--ETEPENRRLNTV 235 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhc--ccCccccchhhH
Confidence 47999998543 22344699999999999988776533 367666665443
No 67
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=96.53 E-value=0.0013 Score=51.11 Aligned_cols=101 Identities=19% Similarity=0.453 Sum_probs=57.8
Q ss_pred CCcccccccc-cccCc-EE--c-c-CCCcccHHHHHHHHHhCCCCCCCCCc--cccccccccc-CCCcccccCCCcchhh
Q 029826 6 CGDVCSVCHG-NFNVP-CQ--A-N-CSHWFCGNCIMLVWDHGSTLQACRCP--LCRRRITLLI-PNDDSLRQRHDPAVGD 76 (187)
Q Consensus 6 ~~~~C~iC~~-~~~~p-v~--~-~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp--~Cr~~~~~~~-~~~~~~~~~~~~~~~~ 76 (187)
++..||+|.. .+-+| +. + | |-|..|.+|..+.+..+.. .|| -|..-+.+.- ....... -+-+..-.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpA----qCP~~gC~kILRK~kf~~qtFeD-~~vEkEvd 83 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPA----QCPYKGCGKILRKIKFIKQTFED-ITVEKEVD 83 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCC----CCCCccHHHHHHHhcccccccch-hhhhhhhh
Confidence 4568999997 33344 21 2 3 9999999999999987664 999 5765443211 1111111 11111122
Q ss_pred HHHhH-HHhh---hhhCCCCCCCccchhhcchhHHHHHHHH
Q 029826 77 ILQKV-ESYN---RIFGGPTTANGLFQRIQDLPFLLRRLVR 113 (187)
Q Consensus 77 v~~~i-~~y~---~~~s~~~~~~~~~~~l~~~p~ll~~l~~ 113 (187)
++..+ +.|| ..|+|.. ..+.+|+...-+++..+..
T Consensus 84 vRkr~~r~Fnk~~~eF~gdl--~~YNdYLEevE~l~f~l~~ 122 (314)
T COG5220 84 VRKRLLRAFNKEEEEFGGDL--AKYNDYLEEVEELVFELLE 122 (314)
T ss_pred HHHHHHHHhccchhhhCccH--HHHHHHHHHHHHHHHHHHH
Confidence 33333 3333 4566655 6677778777777665553
No 68
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.44 E-value=0.0023 Score=37.46 Aligned_cols=43 Identities=23% Similarity=0.633 Sum_probs=20.4
Q ss_pred ccccccccc--CcEEc--cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 10 CSVCHGNFN--VPCQA--NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 10 C~iC~~~~~--~pv~~--~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
||+|.+.+. +-... +||+..|..|+....+... + .||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~--g--~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEG--G--RCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS---S--B-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccC--C--CCCCCCCCC
Confidence 788888763 22233 5999999999988776333 2 999999875
No 69
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.20 E-value=0.0044 Score=50.76 Aligned_cols=53 Identities=23% Similarity=0.515 Sum_probs=41.1
Q ss_pred CCCCCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 3 GPPCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 3 ~~~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
.-+++..|-||-+-.+....+||+|..|.-|..+...--. ...||.||.....
T Consensus 57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~---~K~C~~CrTE~e~ 109 (493)
T COG5236 57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYM---QKGCPLCRTETEA 109 (493)
T ss_pred cccccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHh---ccCCCccccccce
Confidence 3477889999999999999999999999999865432211 1289999987653
No 70
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.18 E-value=0.0044 Score=43.93 Aligned_cols=50 Identities=18% Similarity=0.487 Sum_probs=42.4
Q ss_pred CCcccccccccccCcEEcc----CCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 6 CGDVCSVCHGNFNVPCQAN----CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 6 ~~~~C~iC~~~~~~pv~~~----C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.-.+|.||.|...+...+. ||-..|..|....|++.+ -...||.|+.++.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~--~ypvCPvCkTSFK 132 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN--LYPVCPVCKTSFK 132 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc--cCCCCCccccccc
Confidence 4578999999998888763 999999999999999876 3459999988774
No 71
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.09 E-value=0.0042 Score=50.42 Aligned_cols=48 Identities=27% Similarity=0.515 Sum_probs=39.7
Q ss_pred CCCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 4 PPCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
+.+...||+|.....+|..+. -|-.||..|+-.++...+ .||.=..+.
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~~~-----~CPVT~~p~ 345 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVNYG-----HCPVTGYPA 345 (357)
T ss_pred CCccccChhHHhccCCCceEEecceEEeHHHHHHHHHhcC-----CCCccCCcc
Confidence 466789999999999998877 599999999999998655 898754444
No 72
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.80 E-value=0.0035 Score=55.08 Aligned_cols=38 Identities=32% Similarity=0.893 Sum_probs=31.3
Q ss_pred CCcccccccccc----cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCc
Q 029826 6 CGDVCSVCHGNF----NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCP 50 (187)
Q Consensus 6 ~~~~C~iC~~~~----~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp 50 (187)
+-+.|+||...+ ..|+.+.|||+.|+.|++...+. +||
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~-------scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA-------SCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc-------cCC
Confidence 346799998866 36899999999999999876654 788
No 73
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.80 E-value=0.012 Score=49.32 Aligned_cols=49 Identities=20% Similarity=0.362 Sum_probs=36.2
Q ss_pred CCcccccccccccC---cEEccCCCcccHHHHHHHHHhCCC---CCCCCCccccc
Q 029826 6 CGDVCSVCHGNFNV---PCQANCSHWFCGNCIMLVWDHGST---LQACRCPLCRR 54 (187)
Q Consensus 6 ~~~~C~iC~~~~~~---pv~~~C~H~fC~~Ci~~~~~~~~~---~~~~~Cp~Cr~ 54 (187)
..+.|.||.+.... =+.++|+|.||..|+..|+..... .+.++||-+..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 45789999997654 246799999999999999865432 23457777644
No 74
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.56 E-value=0.01 Score=49.38 Aligned_cols=46 Identities=26% Similarity=0.522 Sum_probs=35.8
Q ss_pred CCcccccccccc---cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826 6 CGDVCSVCHGNF---NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCR 53 (187)
Q Consensus 6 ~~~~C~iC~~~~---~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr 53 (187)
+-+.|||=.+.- +.|.++.|||..|.+-+.+..+.+. ..++||+|-
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~--~sfKCPYCP 381 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGS--QSFKCPYCP 381 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCC--eeeeCCCCC
Confidence 457899866533 5689999999999999988766544 357999993
No 75
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=95.54 E-value=0.0028 Score=49.42 Aligned_cols=44 Identities=30% Similarity=0.729 Sum_probs=29.9
Q ss_pred cccccccccc-cCcE-EccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 8 DVCSVCHGNF-NVPC-QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 8 ~~C~iC~~~~-~~pv-~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
..|-.|.... .+|- .|+|+|.||..|.... . . -.||.|++++..
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~--~-~----~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKAS--S-P----DVCPLCKKSIRI 49 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccC--C-c----cccccccceeee
Confidence 4566666533 3333 5679999999997531 1 1 189999998753
No 76
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.44 E-value=0.011 Score=46.21 Aligned_cols=48 Identities=10% Similarity=0.214 Sum_probs=40.3
Q ss_pred CCCcccccccccccCcE----EccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 5 PCGDVCSVCHGNFNVPC----QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv----~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
+..+.||+|.+.+.+.+ .-+|||.+|.+|.++.+.... .||.|-.+++
T Consensus 219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-----v~pv~d~plk 270 (303)
T KOG3039|consen 219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-----VDPVTDKPLK 270 (303)
T ss_pred ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-----cccCCCCcCc
Confidence 45678999999988743 447999999999999888765 9999988885
No 77
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.29 E-value=0.023 Score=45.44 Aligned_cols=49 Identities=20% Similarity=0.424 Sum_probs=37.6
Q ss_pred CCCCcccccccccccCc----EEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 4 PPCGDVCSVCHGNFNVP----CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~p----v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
....+.|||....+..- ..-+|||.|+..++.+.- ... .||.|-.++..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~-----~Cp~c~~~f~~ 162 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSK-----KCPVCGKPFTE 162 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccc-----cccccCCcccc
Confidence 35678999999888532 234899999999999873 122 89999999873
No 78
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.19 E-value=0.012 Score=47.84 Aligned_cols=45 Identities=29% Similarity=0.580 Sum_probs=35.9
Q ss_pred CCcccccccccccCcE-EccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 6 CGDVCSVCHGNFNVPC-QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 6 ~~~~C~iC~~~~~~pv-~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
+-+.||||.+.+..|+ +-+=||.-|..|-.+ ... .||.||.++..
T Consensus 47 ~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~---~~~-----~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK---VSN-----KCPTCRLPIGN 92 (299)
T ss_pred hhccCchhhccCcccceecCCCcEehhhhhhh---hcc-----cCCcccccccc
Confidence 4579999999999886 345689999999753 222 99999999973
No 79
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=95.04 E-value=0.016 Score=39.24 Aligned_cols=28 Identities=29% Similarity=0.507 Sum_probs=24.8
Q ss_pred cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 24 NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 24 ~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
.|.|.|-.-||.+|+++.. .||+|.++-
T Consensus 80 ~CNHaFH~hCisrWlktr~-----vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRN-----VCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcC-----cCCCcCcce
Confidence 4999999999999999877 999997653
No 80
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.54 E-value=0.02 Score=45.74 Aligned_cols=47 Identities=23% Similarity=0.490 Sum_probs=39.2
Q ss_pred CCCcccccccccccCcEEccC----CCcccHHHHHHHHHhCCCCCCCCCcc
Q 029826 5 PCGDVCSVCHGNFNVPCQANC----SHWFCGNCIMLVWDHGSTLQACRCPL 51 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C----~H~fC~~Ci~~~~~~~~~~~~~~Cp~ 51 (187)
...+.|.+|.+.+.+-....| .|.||..|-++.++.+..++..-||.
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPS 316 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPS 316 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCC
Confidence 455899999999988877766 59999999999999888777776665
No 81
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.50 E-value=0.011 Score=47.65 Aligned_cols=42 Identities=31% Similarity=0.630 Sum_probs=29.6
Q ss_pred ccccccc-cccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 9 VCSVCHG-NFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 9 ~C~iC~~-~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.|.-|.- +.....+++|.|.||.+|... ... ..||.|-.++.
T Consensus 92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~--~~d-----K~Cp~C~d~Vq 134 (389)
T KOG2932|consen 92 FCDRCDFPIAIYGRMIPCKHVFCLECARS--DSD-----KICPLCDDRVQ 134 (389)
T ss_pred eecccCCcceeeecccccchhhhhhhhhc--Ccc-----ccCcCcccHHH
Confidence 3555654 334567889999999999864 222 28999987775
No 82
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=94.44 E-value=0.0089 Score=53.29 Aligned_cols=50 Identities=22% Similarity=0.549 Sum_probs=42.1
Q ss_pred CCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 6 ~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
..++|+||.....+|+.+.|.|.||..|+...+..... ...||+|+....
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~--~~~~~lc~~~~e 69 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKG--PKQCALCKSDIE 69 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCc--cccchhhhhhhh
Confidence 46799999999999999999999999999877766553 459999986664
No 83
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=94.15 E-value=0.022 Score=47.47 Aligned_cols=49 Identities=22% Similarity=0.537 Sum_probs=36.7
Q ss_pred CCccccccccccc-Cc---EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 6 CGDVCSVCHGNFN-VP---CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 6 ~~~~C~iC~~~~~-~p---v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
-++-|..|.+.+- .| --++|.|.|-..|+.+++.+.. +-+||.||+-.+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~---~rsCP~CrklrS 416 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG---TRSCPNCRKLRS 416 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC---CCCCccHHHHHh
Confidence 3577999998652 12 2468999999999999997644 459999995444
No 84
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=93.65 E-value=0.051 Score=45.31 Aligned_cols=34 Identities=24% Similarity=0.739 Sum_probs=25.5
Q ss_pred CCCcccHHHHHHHHHhCCC--------CCCCCCccccccccc
Q 029826 25 CSHWFCGNCIMLVWDHGST--------LQACRCPLCRRRITL 58 (187)
Q Consensus 25 C~H~fC~~Ci~~~~~~~~~--------~~~~~Cp~Cr~~~~~ 58 (187)
|....|.+|+-+|+..+.. ++...||+||+.+-.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 4445588999999977652 357799999998743
No 85
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=93.35 E-value=0.11 Score=38.07 Aligned_cols=53 Identities=15% Similarity=0.423 Sum_probs=37.8
Q ss_pred CCC-CCCCcccccccccccCcEEccCCC--c---ccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 1 MEG-PPCGDVCSVCHGNFNVPCQANCSH--W---FCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 1 ~~~-~~~~~~C~iC~~~~~~pv~~~C~H--~---fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
||+ ...+..|-||.+.-. +-..+|.. + --.+|+++|...++ ...|+.|+++.+
T Consensus 1 ~~~~s~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~~s~---~~~CeiC~~~Y~ 59 (162)
T PHA02825 1 MEDVSLMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWINTSK---NKSCKICNGPYN 59 (162)
T ss_pred CCCcCCCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHhcCC---CCcccccCCeEE
Confidence 453 466788999998754 33445543 2 26899999998754 459999998884
No 86
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.10 E-value=0.03 Score=53.05 Aligned_cols=46 Identities=30% Similarity=0.554 Sum_probs=38.7
Q ss_pred CCccccccccccc-CcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 6 CGDVCSVCHGNFN-VPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 6 ~~~~C~iC~~~~~-~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
....|+||.+.+. ..-...|||.+|..|...|..++. .||.|....
T Consensus 1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s-----~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASS-----RCPICKSIK 1198 (1394)
T ss_pred cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhc-----cCcchhhhh
Confidence 4458999999998 556778999999999999998877 999997433
No 87
>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=92.14 E-value=0.19 Score=28.68 Aligned_cols=40 Identities=23% Similarity=0.635 Sum_probs=24.3
Q ss_pred cccccccccCcEEcc---CCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826 10 CSVCHGNFNVPCQAN---CSHWFCGNCIMLVWDHGSTLQACRCPLC 52 (187)
Q Consensus 10 C~iC~~~~~~pv~~~---C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C 52 (187)
|.+|.++....+.=+ |+-.+-..|+..+|+..+. ..||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~---~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSN---PKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS----B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCC---CCCcCC
Confidence 678888887777654 8888889999999988663 169987
No 88
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.10 E-value=0.12 Score=40.70 Aligned_cols=38 Identities=16% Similarity=0.028 Sum_probs=33.2
Q ss_pred CCCcccccccccccCcEEccCCCcccHHHHHHHHHhCC
Q 029826 5 PCGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGS 42 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~ 42 (187)
.+...|+.|+.-..+|+.++=||.||++||.+++-.+.
T Consensus 41 K~FdcCsLtLqPc~dPvit~~GylfdrEaILe~ilaqK 78 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDPVITPDGYLFDREAILEYILAQK 78 (303)
T ss_pred CCcceeeeecccccCCccCCCCeeeeHHHHHHHHHHHH
Confidence 45567899999999999999999999999999986544
No 89
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=91.81 E-value=0.16 Score=49.18 Aligned_cols=53 Identities=28% Similarity=0.622 Sum_probs=40.6
Q ss_pred CCCcccccccccc---cCcEEccCCCcccHHHHHHHHHhCCCCC------CCCCccccccccc
Q 029826 5 PCGDVCSVCHGNF---NVPCQANCSHWFCGNCIMLVWDHGSTLQ------ACRCPLCRRRITL 58 (187)
Q Consensus 5 ~~~~~C~iC~~~~---~~pv~~~C~H~fC~~Ci~~~~~~~~~~~------~~~Cp~Cr~~~~~ 58 (187)
+.+..|-||+... ...+++.|+|.|-..|.++.++..- +| -++||.|..++++
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW-~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRW-LGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcc-cCCeeEEeeeecccccchhhh
Confidence 4567899998733 3457899999999999988777643 44 3499999999865
No 90
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.76 E-value=0.11 Score=44.06 Aligned_cols=46 Identities=22% Similarity=0.512 Sum_probs=31.5
Q ss_pred CCcccccccccccCc----EEccCCCcccHHHHHHHHHhCCCC-CCCCCcc
Q 029826 6 CGDVCSVCHGNFNVP----CQANCSHWFCGNCIMLVWDHGSTL-QACRCPL 51 (187)
Q Consensus 6 ~~~~C~iC~~~~~~p----v~~~C~H~fC~~Ci~~~~~~~~~~-~~~~Cp~ 51 (187)
...+|.||......+ ....|+|.||..|+.+++..+... ..+.||-
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~ 195 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH 195 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence 356899999433222 245699999999999999865322 2456754
No 91
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.67 E-value=0.13 Score=44.39 Aligned_cols=52 Identities=19% Similarity=0.457 Sum_probs=38.4
Q ss_pred CCCcccccccccccC-cEEccCCCcccHHHHHHHHHhCCCCCC---CCCcc--ccccc
Q 029826 5 PCGDVCSVCHGNFNV-PCQANCSHWFCGNCIMLVWDHGSTLQA---CRCPL--CRRRI 56 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~-pv~~~C~H~fC~~Ci~~~~~~~~~~~~---~~Cp~--Cr~~~ 56 (187)
....+|.||.+.... .+...|||.||..|+..++..+-..+. ++||. |++.+
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v 125 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALV 125 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccC
Confidence 455899999998875 667789999999999999987653221 45654 65544
No 92
>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=91.19 E-value=0.12 Score=36.92 Aligned_cols=36 Identities=17% Similarity=0.442 Sum_probs=26.7
Q ss_pred CCCcccccccccccC--cE-EccCC------CcccHHHHHHHHHh
Q 029826 5 PCGDVCSVCHGNFNV--PC-QANCS------HWFCGNCIMLVWDH 40 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~--pv-~~~C~------H~fC~~Ci~~~~~~ 40 (187)
+...+|.||.+...+ .+ .++|| |.||.+|+++|-+.
T Consensus 24 ~~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 24 RCTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred ccCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 347899999997766 44 34455 67999999998543
No 93
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.93 E-value=0.18 Score=41.08 Aligned_cols=47 Identities=21% Similarity=0.497 Sum_probs=35.6
Q ss_pred CCcccccccccc---cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 6 CGDVCSVCHGNF---NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 6 ~~~~C~iC~~~~---~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
.-+.||+=.+.- +.|+++.|||..-.+-+.+.-+.+. ..++||+|-.
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~--~~FKCPYCP~ 384 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGV--LSFKCPYCPE 384 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCc--EEeeCCCCCc
Confidence 346788866643 5689999999999998887665544 3679999943
No 94
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.79 E-value=0.23 Score=37.16 Aligned_cols=56 Identities=23% Similarity=0.383 Sum_probs=34.6
Q ss_pred CCCcccccccccccC---c--E--EccCCCcccHHHHHHHHHhCCC-CCCC-----CCccccccccccc
Q 029826 5 PCGDVCSVCHGNFNV---P--C--QANCSHWFCGNCIMLVWDHGST-LQAC-----RCPLCRRRITLLI 60 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~---p--v--~~~C~H~fC~~Ci~~~~~~~~~-~~~~-----~Cp~Cr~~~~~~~ 60 (187)
++...|.||...--+ | + ...||..|-.-|+..|++.-.. .+.+ .||+|..++...+
T Consensus 163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 444556666553211 1 1 2369999999999999865221 1111 8999998886433
No 95
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.73 E-value=0.65 Score=36.13 Aligned_cols=53 Identities=19% Similarity=0.433 Sum_probs=39.7
Q ss_pred CCCCccccccccccc--CcEEccCCCcccHHHHHHHHHhCCCC---CCCCCccccccc
Q 029826 4 PPCGDVCSVCHGNFN--VPCQANCSHWFCGNCIMLVWDHGSTL---QACRCPLCRRRI 56 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~--~pv~~~C~H~fC~~Ci~~~~~~~~~~---~~~~Cp~Cr~~~ 56 (187)
.+-+-.|..|...+. +.+.+.|-|.|-..|+.++-.+-..+ ....||.|.+++
T Consensus 47 sDY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred cCCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 345567889988664 56788999999999999876553322 235999998877
No 96
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=90.25 E-value=0.2 Score=41.24 Aligned_cols=50 Identities=24% Similarity=0.507 Sum_probs=34.2
Q ss_pred CCCccccccccccc--CcE--EccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 5 PCGDVCSVCHGNFN--VPC--QANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 5 ~~~~~C~iC~~~~~--~pv--~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
+|+.-||.|.+.+. +-- --+||-..|.-|+....+.- +| .||.||+....
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~l--ng--rcpacrr~y~d 65 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNL--NG--RCPACRRKYDD 65 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhc--cC--CChHhhhhccc
Confidence 34445999999653 222 23688888999987654443 24 99999987753
No 97
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.24 E-value=0.19 Score=40.51 Aligned_cols=34 Identities=21% Similarity=0.759 Sum_probs=25.1
Q ss_pred CCCcccHHHHHHHHHhCCC--------CCCCCCccccccccc
Q 029826 25 CSHWFCGNCIMLVWDHGST--------LQACRCPLCRRRITL 58 (187)
Q Consensus 25 C~H~fC~~Ci~~~~~~~~~--------~~~~~Cp~Cr~~~~~ 58 (187)
|....|.+|+.+|+..... .+...||+||+.+..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 5556788999999865542 246699999998853
No 98
>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=88.96 E-value=0.18 Score=29.24 Aligned_cols=32 Identities=34% Similarity=0.994 Sum_probs=22.0
Q ss_pred EEccCC-CcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 21 CQANCS-HWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 21 v~~~C~-H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
-.+.|. |-.|..|+...+..+. .||.|..++.
T Consensus 14 ~Li~C~dHYLCl~CLt~ml~~s~-----~C~iC~~~LP 46 (50)
T PF03854_consen 14 GLIKCSDHYLCLNCLTLMLSRSD-----RCPICGKPLP 46 (50)
T ss_dssp SEEE-SS-EEEHHHHHHT-SSSS-----EETTTTEE--
T ss_pred CeeeecchhHHHHHHHHHhcccc-----CCCcccCcCc
Confidence 355676 8889999998777665 9999998874
No 99
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.57 E-value=0.11 Score=47.47 Aligned_cols=41 Identities=29% Similarity=0.822 Sum_probs=33.1
Q ss_pred cccccccccccCcEE-ccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 8 DVCSVCHGNFNVPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~-~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
-.|..|...+.-|.+ -.|||+|-..|+. +.. ..||.|+...
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e---~~~-----~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE---DKE-----DKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhc---cCc-----ccCCccchhh
Confidence 589999999998864 5799999999998 222 2999998744
No 100
>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=88.28 E-value=0.021 Score=36.07 Aligned_cols=46 Identities=20% Similarity=0.540 Sum_probs=25.4
Q ss_pred CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccccccCC
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLLIPN 62 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~~~~ 62 (187)
+..||.|...+.- .+ +|.+|..|-..+.... .||.|.+++..+...
T Consensus 1 e~~CP~C~~~L~~---~~-~~~~C~~C~~~~~~~a------~CPdC~~~Le~LkAC 46 (70)
T PF07191_consen 1 ENTCPKCQQELEW---QG-GHYHCEACQKDYKKEA------FCPDCGQPLEVLKAC 46 (70)
T ss_dssp --B-SSS-SBEEE---ET-TEEEETTT--EEEEEE------E-TTT-SB-EEEEET
T ss_pred CCcCCCCCCccEE---eC-CEEECccccccceecc------cCCCcccHHHHHHHh
Confidence 3689999987532 11 7889999987644432 899999998755443
No 101
>PHA02862 5L protein; Provisional
Probab=87.45 E-value=0.69 Score=33.49 Aligned_cols=46 Identities=20% Similarity=0.509 Sum_probs=32.8
Q ss_pred cccccccccccCcEEccCCC-----cccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 8 DVCSVCHGNFNVPCQANCSH-----WFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~~~C~H-----~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
..|=||.+.-.+. ..||.. .--.+|+++|.+.+. ...|+.|+.+..
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn~S~---k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWINYSK---KKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHhcCC---CcCccCCCCeEE
Confidence 4788999875444 355543 235799999997643 459999998874
No 102
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=85.71 E-value=0.4 Score=38.84 Aligned_cols=54 Identities=24% Similarity=0.580 Sum_probs=37.2
Q ss_pred CCCccccccccccc-Cc--EEccCCCcccHHHHHHHHHh------------------CCCCCCCCCccccccccc
Q 029826 5 PCGDVCSVCHGNFN-VP--CQANCSHWFCGNCIMLVWDH------------------GSTLQACRCPLCRRRITL 58 (187)
Q Consensus 5 ~~~~~C~iC~~~~~-~p--v~~~C~H~fC~~Ci~~~~~~------------------~~~~~~~~Cp~Cr~~~~~ 58 (187)
..+-.|.||+-=|. .| +.|+|-|-|-..|+.+|+.. ......-.||.||.++..
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 34568999998554 34 56789999999999877632 110011269999999863
No 103
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.39 E-value=0.56 Score=37.17 Aligned_cols=61 Identities=20% Similarity=0.497 Sum_probs=43.4
Q ss_pred CCCCcccccccccccCcEE----ccC-----CCcccHHHHHHHHHhCCC---CCCCCCcccccccccccCCCc
Q 029826 4 PPCGDVCSVCHGNFNVPCQ----ANC-----SHWFCGNCIMLVWDHGST---LQACRCPLCRRRITLLIPNDD 64 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~----~~C-----~H~fC~~Ci~~~~~~~~~---~~~~~Cp~Cr~~~~~~~~~~~ 64 (187)
-+.+..|=||+..=.+-.. -|| .|+--.+|+.+|+..+.. .++..||.|+......+|.-.
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~P~l~ 89 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVFPQLG 89 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeeccccC
Confidence 4567788999985443222 233 256678999999988764 557799999998877777653
No 104
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=84.61 E-value=0.6 Score=42.86 Aligned_cols=50 Identities=26% Similarity=0.526 Sum_probs=37.4
Q ss_pred CCCcccccccccccC--cEE--ccCCCcccHHHHHHHHHhCCCC--CCCCCccccc
Q 029826 5 PCGDVCSVCHGNFNV--PCQ--ANCSHWFCGNCIMLVWDHGSTL--QACRCPLCRR 54 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~--pv~--~~C~H~fC~~Ci~~~~~~~~~~--~~~~Cp~Cr~ 54 (187)
.+..+|.||.+.+.. |+- .+|-|.|-..||.+|-++.... ..+.||.|+.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 456899999997753 332 2588999999999998774322 3679999973
No 105
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=84.13 E-value=0.61 Score=42.58 Aligned_cols=60 Identities=13% Similarity=0.169 Sum_probs=42.4
Q ss_pred CCCCcccccccccccCcE-------EccCCCcccHHHHHHHHHhCC-CCCCCCCcccccccccccCCC
Q 029826 4 PPCGDVCSVCHGNFNVPC-------QANCSHWFCGNCIMLVWDHGS-TLQACRCPLCRRRITLLIPND 63 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv-------~~~C~H~fC~~Ci~~~~~~~~-~~~~~~Cp~Cr~~~~~~~~~~ 63 (187)
+.+...|++|.-.+.+|+ .-+|+|.+|..||..|.++-- ...++.|++|...+..+..+.
T Consensus 93 ~a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a 160 (1134)
T KOG0825|consen 93 TAESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA 160 (1134)
T ss_pred cccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc
Confidence 455678888887766633 224999999999999887643 234568899988886554443
No 106
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=83.69 E-value=0.74 Score=37.08 Aligned_cols=42 Identities=21% Similarity=0.668 Sum_probs=32.9
Q ss_pred cccccccccc----cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 8 DVCSVCHGNF----NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 8 ~~C~iC~~~~----~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
..||||.+.+ ..|..++|||..-..|.+++.... ..||.|..
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-----y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-----YTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-----CCCCcccc
Confidence 4499999855 356678899998888888766654 49999987
No 107
>KOG4604 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.24 E-value=1.2 Score=29.40 Aligned_cols=79 Identities=22% Similarity=0.180 Sum_probs=48.7
Q ss_pred CCCcchhhHHHhHHHhhhhhCCCCCCCccchhhcchhHHHHHHHHhhcCCCCchhHHHHHHHHHHHHHHHHhhhcccccC
Q 029826 69 RHDPAVGDILQKVESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDII 148 (187)
Q Consensus 69 ~~~~~~~~v~~~i~~y~~~~s~~~~~~~~~~~l~~~p~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~~~P~D~i 148 (187)
+.++......-+...++..+.+.+ .....-+-.++++.++.+=.+.+. +...-+.+. ---......|+++|+|++
T Consensus 11 ~~~e~~~~~~~d~clad~l~kg~s--g~~ig~v~s~~ffr~~~wpiw~gt--gvglGvay~-~cq~~l~a~y~i~~~~~~ 85 (91)
T KOG4604|consen 11 RNSESELGRKWDRCLADSLVKGGS--GLGIGIVVSLLFFRRREWPIWLGT--GVGLGVAYS-NCQARLNAVYIIHGIDII 85 (91)
T ss_pred CCcHhhhhhhhhHHHHHHHhccCc--ceeeehhhhhhhhcceeeeeecCc--ccccchhhH-HHHHHhccceeecCCCCC
Confidence 334444444445577888888877 666666767777777766555553 322222221 123445567999999999
Q ss_pred cchh
Q 029826 149 PEAL 152 (187)
Q Consensus 149 Pd~~ 152 (187)
|+..
T Consensus 86 ~~~~ 89 (91)
T KOG4604|consen 86 PEGV 89 (91)
T ss_pred cccc
Confidence 9863
No 108
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=80.22 E-value=2.8 Score=27.01 Aligned_cols=49 Identities=22% Similarity=0.636 Sum_probs=19.4
Q ss_pred CCccccccccccc----CcEEc---cCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 6 CGDVCSVCHGNFN----VPCQA---NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 6 ~~~~C~iC~~~~~----~pv~~---~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
....|.||.+..- .-+.. .|+-..|+.|.+--.+.... .||.|+.+...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q----~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQ----VCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-S----B-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcc----cccccCCCccc
Confidence 3457999998552 11222 48888899999755554432 99999977753
No 109
>PLN02189 cellulose synthase
Probab=80.09 E-value=2 Score=40.65 Aligned_cols=47 Identities=26% Similarity=0.651 Sum_probs=32.2
Q ss_pred ccccccccccc-----Cc-EEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 8 DVCSVCHGNFN-----VP-CQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 8 ~~C~iC~~~~~-----~p-v~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
..|.||.+.+- ++ |--+ |+-.-|..|.+--.+..+ -.||.|+.+...
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~----q~CpqCkt~Y~r 88 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGT----QNCPQCKTRYKR 88 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCC----ccCcccCCchhh
Confidence 48999999753 12 2223 777899999954333333 299999998873
No 110
>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=79.53 E-value=2.1 Score=29.36 Aligned_cols=53 Identities=23% Similarity=0.518 Sum_probs=32.4
Q ss_pred CCCCcccccccccccCcEE--------ccC---CCcccHHHHHHHHHhCC----CCCCCCCccccccc
Q 029826 4 PPCGDVCSVCHGNFNVPCQ--------ANC---SHWFCGNCIMLVWDHGS----TLQACRCPLCRRRI 56 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~--------~~C---~H~fC~~Ci~~~~~~~~----~~~~~~Cp~Cr~~~ 56 (187)
++....|..|...-.+..+ ..| .-.||..|+........ ......||.||.--
T Consensus 4 ~~~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 4 SVNGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred CCCCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 4555677788774433221 235 66799999876654321 23456899998744
No 111
>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=79.02 E-value=0.97 Score=22.81 Aligned_cols=9 Identities=22% Similarity=0.800 Sum_probs=5.3
Q ss_pred ccccccccc
Q 029826 9 VCSVCHGNF 17 (187)
Q Consensus 9 ~C~iC~~~~ 17 (187)
.||-|....
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 466666644
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=76.83 E-value=3.1 Score=24.63 Aligned_cols=39 Identities=23% Similarity=0.502 Sum_probs=21.5
Q ss_pred CCcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 6 CGDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 6 ~~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
+.+.||.|.+.+... .++.-|... .....+...||+|..
T Consensus 1 ~~f~CP~C~~~~~~~-------~L~~H~~~~---H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 1 DSFTCPYCGKGFSES-------SLVEHCEDE---HRSESKNVVCPICSS 39 (54)
T ss_pred CCcCCCCCCCccCHH-------HHHHHHHhH---CcCCCCCccCCCchh
Confidence 468899999954431 122233322 122223469999965
No 113
>PLN02436 cellulose synthase A
Probab=76.72 E-value=3 Score=39.70 Aligned_cols=47 Identities=26% Similarity=0.702 Sum_probs=32.0
Q ss_pred ccccccccccc-----Cc-EEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 8 DVCSVCHGNFN-----VP-CQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 8 ~~C~iC~~~~~-----~p-v~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
..|.||.+..- ++ |--+ |+-.-|..|.+--.+..+ -.||.|+.+...
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~----~~Cpqckt~Y~r 90 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGN----QACPQCKTRYKR 90 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCC----ccCcccCCchhh
Confidence 48999999752 12 2223 777899999954333333 399999998873
No 114
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=76.65 E-value=1.4 Score=39.83 Aligned_cols=54 Identities=28% Similarity=0.514 Sum_probs=39.3
Q ss_pred CCCCcccccccccccCcE----------EccCCCcc--------------------cHHHHHHHHHhCCC---CCCCCCc
Q 029826 4 PPCGDVCSVCHGNFNVPC----------QANCSHWF--------------------CGNCIMLVWDHGST---LQACRCP 50 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv----------~~~C~H~f--------------------C~~Ci~~~~~~~~~---~~~~~Cp 50 (187)
|++--.|+-|++.+.+|- -|+||..| |..|-++|-+...+ -++..||
T Consensus 98 ~pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp 177 (750)
T COG0068 98 PPDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACP 177 (750)
T ss_pred CCchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCc
Confidence 566678999999877663 24677776 99999988655432 2467999
Q ss_pred ccccccc
Q 029826 51 LCRRRIT 57 (187)
Q Consensus 51 ~Cr~~~~ 57 (187)
.|.-.+.
T Consensus 178 ~CGP~~~ 184 (750)
T COG0068 178 KCGPHLF 184 (750)
T ss_pred ccCCCeE
Confidence 9976564
No 115
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=75.95 E-value=0.45 Score=38.64 Aligned_cols=45 Identities=18% Similarity=0.296 Sum_probs=21.6
Q ss_pred CcccccccccccCcEEccC-----CCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 7 GDVCSVCHGNFNVPCQANC-----SHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C-----~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
.-.||+|.....-.+...= .|-+|.-|-.+|--... .||.|-..-
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~-----~Cp~Cg~~~ 221 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRI-----KCPYCGNTD 221 (290)
T ss_dssp -SS-TTT---EEEEEEE------EEEEEETTT--EEE--TT-----S-TTT---S
T ss_pred CCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCC-----CCcCCCCCC
Confidence 4699999996654444432 46789999888755543 999996544
No 116
>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=75.44 E-value=2.2 Score=25.70 Aligned_cols=42 Identities=24% Similarity=0.646 Sum_probs=27.6
Q ss_pred cccccccccccCcE--EccCC--CcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 8 DVCSVCHGNFNVPC--QANCS--HWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 8 ~~C~iC~~~~~~pv--~~~C~--H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
-.|--|...+.... -.-|. .+||..|.+..+.. .||-|...+
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~~-------~CPNCgGel 51 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLNG-------VCPNCGGEL 51 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhcC-------cCcCCCCcc
Confidence 34666666553222 22255 58999999987643 899997765
No 117
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.85 E-value=3.4 Score=32.77 Aligned_cols=45 Identities=13% Similarity=0.263 Sum_probs=32.4
Q ss_pred CCcccccccccc----cCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 6 CGDVCSVCHGNF----NVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 6 ~~~~C~iC~~~~----~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
..+.|||=.-.+ +.-..-.|||.|-.+-+.+.-. ..|+.|.+.+.
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeika-------s~C~~C~a~y~ 158 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKA-------SVCHVCGAAYQ 158 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHhhh-------ccccccCCccc
Confidence 346788765444 4455668999999887776432 29999999885
No 118
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=74.08 E-value=3.1 Score=24.03 Aligned_cols=40 Identities=18% Similarity=0.504 Sum_probs=23.2
Q ss_pred ccccccccc--CcEEccCCCc-----ccHHHHHHHHHhCCCCCCCCCccc
Q 029826 10 CSVCHGNFN--VPCQANCSHW-----FCGNCIMLVWDHGSTLQACRCPLC 52 (187)
Q Consensus 10 C~iC~~~~~--~pv~~~C~H~-----fC~~Ci~~~~~~~~~~~~~~Cp~C 52 (187)
|-||.+.-. +|...+|+-. --.+|+++|+..+. ..+|+.|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~---~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESG---NRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT----SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcC---CCcCCCC
Confidence 567877443 2567776532 35689999998743 2378877
No 119
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.90 E-value=2.3 Score=26.98 Aligned_cols=26 Identities=23% Similarity=0.576 Sum_probs=20.2
Q ss_pred cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 24 NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 24 ~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
.=-|+||..|.+..+.. .||.|...+
T Consensus 26 tfEcTFCadCae~~l~g-------~CPnCGGel 51 (84)
T COG3813 26 TFECTFCADCAENRLHG-------LCPNCGGEL 51 (84)
T ss_pred EEeeehhHhHHHHhhcC-------cCCCCCchh
Confidence 34589999999875543 899997766
No 120
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=72.37 E-value=4.5 Score=38.53 Aligned_cols=47 Identities=26% Similarity=0.689 Sum_probs=32.0
Q ss_pred ccccccccccc-----Cc-EEc-cCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 8 DVCSVCHGNFN-----VP-CQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 8 ~~C~iC~~~~~-----~p-v~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
..|.||.+..- +| |-- .|+-.-|+.|.+--.+..+ -.||.|+.+...
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~----q~CPqCktrYkr 71 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGN----QSCPQCKTKYKR 71 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCC----ccCCccCCchhh
Confidence 48999999652 22 222 3888899999954333333 299999998874
No 121
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.25 E-value=0.71 Score=37.42 Aligned_cols=44 Identities=23% Similarity=0.702 Sum_probs=34.0
Q ss_pred ccccccccccc------CcEEcc--------CCCcccHHHHHHHHHhCCCCCCCCCcccccc
Q 029826 8 DVCSVCHGNFN------VPCQAN--------CSHWFCGNCIMLVWDHGSTLQACRCPLCRRR 55 (187)
Q Consensus 8 ~~C~iC~~~~~------~pv~~~--------C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~ 55 (187)
..|.||...+. .|.... |||+.|..|+.....+.. ..||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~----~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAG----IKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhh----hcCCcccce
Confidence 45788877554 366666 999999999998877654 499999865
No 122
>PLN02400 cellulose synthase
Probab=71.06 E-value=3.8 Score=39.06 Aligned_cols=48 Identities=21% Similarity=0.594 Sum_probs=31.8
Q ss_pred ccccccccccc-----CcE-Ec-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccccc
Q 029826 8 DVCSVCHGNFN-----VPC-QA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITLL 59 (187)
Q Consensus 8 ~~C~iC~~~~~-----~pv-~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~~ 59 (187)
..|.||.+..- +|- -- .|+-.-|+.|.+--.+..+ -.||.|+.+....
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGn----q~CPQCkTrYkR~ 91 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGT----QCCPQCKTRYRRH 91 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCC----ccCcccCCccccc
Confidence 48999999652 121 11 3777899999953222222 3999999988743
No 123
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=70.56 E-value=1.5 Score=36.05 Aligned_cols=44 Identities=16% Similarity=0.277 Sum_probs=30.8
Q ss_pred CCcccccccccccCcEE-c--c--CCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 6 CGDVCSVCHGNFNVPCQ-A--N--CSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 6 ~~~~C~iC~~~~~~pv~-~--~--C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
..-.||+|.....-.+. . . =.|-+|.-|-.+|--... .||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~-----~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRV-----KCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCc-----cCCCCCC
Confidence 46799999997654432 1 2 235678999888766544 9999975
No 124
>COG4589 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]
Probab=69.39 E-value=6 Score=31.55 Aligned_cols=36 Identities=17% Similarity=0.450 Sum_probs=26.3
Q ss_pred HHHHHHHHHhhhcccccC----cchhhhHHHHHHHHHHHH
Q 029826 131 YIAMIFSAVYIFSPIDII----PEALLGIVGLLDDLLIAL 166 (187)
Q Consensus 131 ~~~~~~~~~Y~~~P~D~i----Pd~~~~~~G~~DD~~v~~ 166 (187)
...+++++++.+.|+|.. +-.+++..||+.|+++.+
T Consensus 221 t~~~~~~~l~~lTp~~~lqa~~~~~~I~l~GF~GdlvmSa 260 (303)
T COG4589 221 TTMIASAILGLLTPLNTLQALLAGLLIGLSGFCGDLVMSA 260 (303)
T ss_pred HHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHhhhHHHHHH
Confidence 356777788899999964 444566789999987543
No 125
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=68.66 E-value=4.1 Score=37.61 Aligned_cols=50 Identities=16% Similarity=0.398 Sum_probs=38.8
Q ss_pred CCCcccccccc--cccCcEEccCCCc-----ccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 5 PCGDVCSVCHG--NFNVPCQANCSHW-----FCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 5 ~~~~~C~iC~~--~~~~pv~~~C~H~-----fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
+|+..|-||.. .-.+|.--||..+ ...+|+.+|+..++ ..+|-.|..++.
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~---~~kCdiChy~~~ 66 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSG---TKKCDICHYEYK 66 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCC---Ccceeeecceee
Confidence 67789999886 4567877787754 35789999998754 459999998875
No 126
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=68.56 E-value=1.4 Score=36.05 Aligned_cols=44 Identities=14% Similarity=0.298 Sum_probs=30.1
Q ss_pred CcccccccccccCcEEc----cC--CCcccHHHHHHHHHhCCCCCCCCCcccccc
Q 029826 7 GDVCSVCHGNFNVPCQA----NC--SHWFCGNCIMLVWDHGSTLQACRCPLCRRR 55 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~----~C--~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~ 55 (187)
.-.||+|.....-.+.. .= .+-+|.-|-.+|--... +||.|...
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~-----~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRV-----KCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCc-----cCCCCCCC
Confidence 45899999976443322 12 35678889888766544 99999764
No 127
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=66.03 E-value=7 Score=32.16 Aligned_cols=52 Identities=19% Similarity=0.510 Sum_probs=32.5
Q ss_pred CCCccccccccccc-----------------Cc--EEccCCCcccHHHHHHHHHhCCC-----CCCCCCcccccccc
Q 029826 5 PCGDVCSVCHGNFN-----------------VP--CQANCSHWFCGNCIMLVWDHGST-----LQACRCPLCRRRIT 57 (187)
Q Consensus 5 ~~~~~C~iC~~~~~-----------------~p--v~~~C~H~fC~~Ci~~~~~~~~~-----~~~~~Cp~Cr~~~~ 57 (187)
..+.+||+|...-. .| ...+||| .|.+=...||.+-.- .-+-.||+|-+.+.
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGH-v~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGH-VCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCCccc-ccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 34678999986321 11 1237999 577777778876431 11348999977663
No 128
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.88 E-value=2 Score=34.87 Aligned_cols=49 Identities=35% Similarity=0.810 Sum_probs=39.4
Q ss_pred CCCcccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
.++..|-+|...+..|...+ |+|-||.-|...+..... .||-|+...+.
T Consensus 103 ~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~~~-----~~~d~~~~~~p 152 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAMGN-----DCPDCRGKISP 152 (324)
T ss_pred CCccceeeeeeeEEecccccCceeeeeecCCchhhhhhh-----ccchhhcCcCc
Confidence 34567889999998888776 999999999988887766 78888776663
No 129
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=65.51 E-value=4.3 Score=25.28 Aligned_cols=15 Identities=27% Similarity=0.696 Sum_probs=10.6
Q ss_pred cccHHHHHHHHHhCC
Q 029826 28 WFCGNCIMLVWDHGS 42 (187)
Q Consensus 28 ~fC~~Ci~~~~~~~~ 42 (187)
.||+.|+.+|.....
T Consensus 11 gFCRNCLskWy~~aA 25 (68)
T PF06844_consen 11 GFCRNCLSKWYREAA 25 (68)
T ss_dssp S--HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 599999999987643
No 130
>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 KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.68 E-value=3.5 Score=34.95 Aligned_cols=36 Identities=22% Similarity=0.328 Sum_probs=26.0
Q ss_pred Cccccccccccc-----CcEEccCCCcccHHHHHHHHHhCC
Q 029826 7 GDVCSVCHGNFN-----VPCQANCSHWFCGNCIMLVWDHGS 42 (187)
Q Consensus 7 ~~~C~iC~~~~~-----~pv~~~C~H~fC~~Ci~~~~~~~~ 42 (187)
-..||.|..... +..+-.|||-||..|...|...+.
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~ 346 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNG 346 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCc
Confidence 467999987653 334445999999999988766544
No 132
>KOG0748 consensus Predicted membrane proteins, contain hemolysin III domain [General function prediction only; Signal transduction mechanisms]
Probab=62.58 E-value=24 Score=28.73 Aligned_cols=52 Identities=19% Similarity=0.314 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHhhhcccccCcchhhhHHHHHHH---------HHHHHHHHHHHHHHHHHHHHhhhc
Q 029826 128 ARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDD---------LLIALLCFLHVAALYRAVLYNRHG 185 (187)
Q Consensus 128 ~~~~~~~~~~~~Y~~~P~D~iPd~~~~~~G~~DD---------~~v~~~~~~~~~~~~~~~~~~r~~ 185 (187)
+...+.++++++|..- |||-..| |-.|. ++|++.++.......+.+..++..
T Consensus 216 ~~~~~yi~ga~fY~~r----iPER~~P--GkfD~~G~SHQifHv~vv~~a~~~~~a~~~~~~~~~~~ 276 (286)
T KOG0748|consen 216 LMAVLYLLGALFYATR----IPERWFP--GKFDIWGHSHQIFHVLVVLAALFHLEAVLLDYEWRHSH 276 (286)
T ss_pred HHHHHHHHHHHHhhcC----CCcccCC--CccceeCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5557889999999987 9999878 88888 568888888888888777766554
No 133
>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=61.65 E-value=2 Score=26.65 Aligned_cols=32 Identities=22% Similarity=0.595 Sum_probs=15.9
Q ss_pred CCCcccccccccccCcEE----ccCCCcccHHHHHH
Q 029826 5 PCGDVCSVCHGNFNVPCQ----ANCSHWFCGNCIML 36 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~----~~C~H~fC~~Ci~~ 36 (187)
.+...|.+|...|..-.. -.||+.||..|...
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~ 42 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQ 42 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-E
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCC
Confidence 456789999997743211 25999999988753
No 134
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=61.50 E-value=5.7 Score=36.97 Aligned_cols=36 Identities=22% Similarity=0.434 Sum_probs=27.8
Q ss_pred CCCcccccccccc-cCc-EEccCCCcccHHHHHHHHHh
Q 029826 5 PCGDVCSVCHGNF-NVP-CQANCSHWFCGNCIMLVWDH 40 (187)
Q Consensus 5 ~~~~~C~iC~~~~-~~p-v~~~C~H~fC~~Ci~~~~~~ 40 (187)
+.+.+|.+|...+ ..| ..-+|||.|-+.|+.+....
T Consensus 815 ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~ 852 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLS 852 (911)
T ss_pred cCccchHHhcchhhcCcceeeeccchHHHHHHHHHHHc
Confidence 4567899999844 345 45689999999999887654
No 135
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=59.20 E-value=6.2 Score=26.28 Aligned_cols=35 Identities=23% Similarity=0.806 Sum_probs=25.3
Q ss_pred cccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
-.|-+|...+..+ ||.||..|.-. .. .|.+|-..+
T Consensus 45 ~~C~~CK~~v~q~-----g~~YCq~CAYk----kG-----iCamCGKki 79 (90)
T PF10235_consen 45 SKCKICKTKVHQP-----GAKYCQTCAYK----KG-----ICAMCGKKI 79 (90)
T ss_pred ccccccccccccC-----CCccChhhhcc----cC-----cccccCCee
Confidence 4688887754432 88999999632 22 999998877
No 136
>PF14353 CpXC: CpXC protein
Probab=58.68 E-value=9.7 Score=26.75 Aligned_cols=50 Identities=20% Similarity=0.323 Sum_probs=28.3
Q ss_pred CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
+.+||-|...+...+-+.-.-..=..=.++.+ .+. .-...||.|...+..
T Consensus 1 ~itCP~C~~~~~~~v~~~I~~~~~p~l~e~il-~g~-l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 1 EITCPHCGHEFEFEVWTSINADEDPELKEKIL-DGS-LFSFTCPSCGHKFRL 50 (128)
T ss_pred CcCCCCCCCeeEEEEEeEEcCcCCHHHHHHHH-cCC-cCEEECCCCCCceec
Confidence 36899999877665544322222122233333 222 335599999988864
No 137
>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=58.66 E-value=7.2 Score=26.93 Aligned_cols=14 Identities=21% Similarity=0.586 Sum_probs=9.6
Q ss_pred CCCCCccccccccc
Q 029826 45 QACRCPLCRRRITL 58 (187)
Q Consensus 45 ~~~~Cp~Cr~~~~~ 58 (187)
.++.||.|...+..
T Consensus 25 ~PivCP~CG~~~~~ 38 (108)
T PF09538_consen 25 DPIVCPKCGTEFPP 38 (108)
T ss_pred CCccCCCCCCccCc
Confidence 45688888776653
No 138
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=58.34 E-value=8.8 Score=31.67 Aligned_cols=46 Identities=24% Similarity=0.600 Sum_probs=33.2
Q ss_pred cccccccccc--cCc--EEccCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 8 DVCSVCHGNF--NVP--CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 8 ~~C~iC~~~~--~~p--v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
-.||+|.+.. .+- +-.+|++..|..|+........ .||.||.+...
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~-----~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDG-----RCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCC-----CCCccCCcccc
Confidence 5799999955 222 2335899889999877665544 99999976643
No 139
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=58.07 E-value=14 Score=35.38 Aligned_cols=49 Identities=24% Similarity=0.572 Sum_probs=32.9
Q ss_pred CCccccccccccc-----CcE-Ec-cCCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 6 CGDVCSVCHGNFN-----VPC-QA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 6 ~~~~C~iC~~~~~-----~pv-~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
....|.||.+..- +|- -- .|+-.-|..|.+--.+..+ -.||.|+.+...
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~----~~cp~c~t~y~~ 69 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGN----QCCPQCNTRYKR 69 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCC----ccCCccCCchhh
Confidence 3467999999652 222 22 3888899999954333332 399999998874
No 140
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=57.97 E-value=6 Score=36.36 Aligned_cols=55 Identities=24% Similarity=0.490 Sum_probs=39.7
Q ss_pred CCCCcccccccccccCcEE----------ccCCCcc--------------------cHHHHHHHHHhCCC---CCCCCCc
Q 029826 4 PPCGDVCSVCHGNFNVPCQ----------ANCSHWF--------------------CGNCIMLVWDHGST---LQACRCP 50 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~----------~~C~H~f--------------------C~~Ci~~~~~~~~~---~~~~~Cp 50 (187)
|++--.|+-|+..+.+|.. |+||..| |..|..++.....+ -+...||
T Consensus 65 ppD~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~~~C~ 144 (711)
T TIGR00143 65 PADVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQPIACP 144 (711)
T ss_pred CCchhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCCccCC
Confidence 4566789999998877642 4577665 99999998654332 2466999
Q ss_pred cccccccc
Q 029826 51 LCRRRITL 58 (187)
Q Consensus 51 ~Cr~~~~~ 58 (187)
.|--++..
T Consensus 145 ~Cgp~l~l 152 (711)
T TIGR00143 145 RCGPQLNF 152 (711)
T ss_pred CCCcEEEE
Confidence 99877754
No 141
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=57.56 E-value=5.5 Score=28.34 Aligned_cols=20 Identities=20% Similarity=0.531 Sum_probs=13.2
Q ss_pred cccccccCcEEccCCCcccH
Q 029826 12 VCHGNFNVPCQANCSHWFCG 31 (187)
Q Consensus 12 iC~~~~~~pv~~~C~H~fC~ 31 (187)
||++--..-+.-.|||+||.
T Consensus 62 i~qs~~~rv~rcecghsf~d 81 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGD 81 (165)
T ss_pred EEecccccEEEEeccccccC
Confidence 56654444345679999996
No 142
>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 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 consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent
Probab=56.48 E-value=20 Score=22.03 Aligned_cols=50 Identities=26% Similarity=0.559 Sum_probs=27.9
Q ss_pred CCCCccccccccccc-----CcEEccCCCcccHHHHHHHHHhCCCCC-CCCCccccc
Q 029826 4 PPCGDVCSVCHGNFN-----VPCQANCSHWFCGNCIMLVWDHGSTLQ-ACRCPLCRR 54 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~-----~pv~~~C~H~fC~~Ci~~~~~~~~~~~-~~~Cp~Cr~ 54 (187)
|++.+.||-|...-+ +=..++=--.||..|-.- |..+..+. ...+.-||+
T Consensus 2 ~~~~~~CPRC~S~nTKFcYyNNy~~~QPR~~Ck~C~ry-wT~GG~lRnVPvggg~Rk 57 (63)
T PF02701_consen 2 PEQPLPCPRCDSTNTKFCYYNNYNLSQPRYFCKSCRRY-WTHGGTLRNVPVGGGCRK 57 (63)
T ss_pred CccCCCCCCcCCCCCEEEeecCCCCCCcchhhHHHHHH-HHhcceecCCccCCCccc
Confidence 678899999986322 111223334599999865 55444222 224444544
No 143
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=55.85 E-value=15 Score=22.04 Aligned_cols=31 Identities=23% Similarity=0.445 Sum_probs=23.5
Q ss_pred CCcccccccccc--cCcEE-cc-CCCcccHHHHHH
Q 029826 6 CGDVCSVCHGNF--NVPCQ-AN-CSHWFCGNCIML 36 (187)
Q Consensus 6 ~~~~C~iC~~~~--~~pv~-~~-C~H~fC~~Ci~~ 36 (187)
+.-.|++|.+.+ .+.++ -+ ||-.+-++|+.+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 456899999988 45544 34 999999999754
No 144
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=55.48 E-value=18 Score=30.70 Aligned_cols=33 Identities=21% Similarity=0.496 Sum_probs=24.6
Q ss_pred CcccccccccccCcEEc--cCCCcccHHHHHHHHH
Q 029826 7 GDVCSVCHGNFNVPCQA--NCSHWFCGNCIMLVWD 39 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~--~C~H~fC~~Ci~~~~~ 39 (187)
..+||||+-.......+ -|.-+.|.+|+.+.-.
T Consensus 74 ~~ecpicflyyps~~n~~rcC~~~Ic~ecf~~~~~ 108 (482)
T KOG2789|consen 74 KTECPICFLYYPSAKNLVRCCSETICGECFAPFGC 108 (482)
T ss_pred cccCceeeeecccccchhhhhccchhhhheecccC
Confidence 46899999876554433 3899999999977543
No 145
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=54.18 E-value=3.8 Score=23.04 Aligned_cols=9 Identities=33% Similarity=0.962 Sum_probs=7.3
Q ss_pred CCCCccccc
Q 029826 46 ACRCPLCRR 54 (187)
Q Consensus 46 ~~~Cp~Cr~ 54 (187)
...||.|..
T Consensus 26 ~~~CP~Cg~ 34 (42)
T PF09723_consen 26 PVPCPECGS 34 (42)
T ss_pred CCcCCCCCC
Confidence 459999987
No 146
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=52.19 E-value=4.7 Score=34.09 Aligned_cols=47 Identities=23% Similarity=0.383 Sum_probs=0.0
Q ss_pred cccccccccccCc--------------EEccCCCcccHHHHHHHHHhCC-CCCCCCCcccccccc
Q 029826 8 DVCSVCHGNFNVP--------------CQANCSHWFCGNCIMLVWDHGS-TLQACRCPLCRRRIT 57 (187)
Q Consensus 8 ~~C~iC~~~~~~p--------------v~~~C~H~fC~~Ci~~~~~~~~-~~~~~~Cp~Cr~~~~ 57 (187)
.+||+=++.+..| |-++|||.+-.. .|-.... ......||+||+.-.
T Consensus 278 pQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 278 PQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp -----------------------------------------------------------------
T ss_pred CCCCcCCCccccccccccccccccCceeeccccceeeec---ccccccccccccccCCCccccCC
Confidence 4677666544333 346899987553 2322111 112449999997543
No 147
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=51.85 E-value=12 Score=22.19 Aligned_cols=24 Identities=38% Similarity=1.061 Sum_probs=13.2
Q ss_pred cCCCcccHHHHHHHHHhCCCCCCCCCccc
Q 029826 24 NCSHWFCGNCIMLVWDHGSTLQACRCPLC 52 (187)
Q Consensus 24 ~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~C 52 (187)
.|++.||.+|=. +.+.. +. .||=|
T Consensus 26 ~C~~~FC~dCD~--fiHE~-LH--~CPGC 49 (51)
T PF07975_consen 26 KCKNHFCIDCDV--FIHET-LH--NCPGC 49 (51)
T ss_dssp TTT--B-HHHHH--TTTTT-S---SSSTT
T ss_pred CCCCccccCcCh--hhhcc-cc--CCcCC
Confidence 499999999953 33332 22 88887
No 148
>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=51.38 E-value=9.6 Score=29.98 Aligned_cols=23 Identities=26% Similarity=0.800 Sum_probs=19.2
Q ss_pred ccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 29 FCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 29 fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
-|.+|-+...+.+. .||+|+...
T Consensus 196 ~C~sC~qqIHRNAP-----iCPlCK~Ks 218 (230)
T PF10146_consen 196 TCQSCHQQIHRNAP-----ICPLCKAKS 218 (230)
T ss_pred hhHhHHHHHhcCCC-----CCccccccc
Confidence 49999998877766 999998755
No 149
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=51.02 E-value=13 Score=31.00 Aligned_cols=14 Identities=29% Similarity=0.861 Sum_probs=10.7
Q ss_pred CCCccccccccccc
Q 029826 5 PCGDVCSVCHGNFN 18 (187)
Q Consensus 5 ~~~~~C~iC~~~~~ 18 (187)
+.+.-||+|.+...
T Consensus 13 dl~ElCPVCGDkVS 26 (475)
T KOG4218|consen 13 DLGELCPVCGDKVS 26 (475)
T ss_pred ccccccccccCccc
Confidence 45568999999765
No 150
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.60 E-value=13 Score=33.84 Aligned_cols=50 Identities=22% Similarity=0.603 Sum_probs=38.0
Q ss_pred ccccccccccCcEEccCCC-cccHHHHHHHHHhCC-CCCCCCCccccccccc
Q 029826 9 VCSVCHGNFNVPCQANCSH-WFCGNCIMLVWDHGS-TLQACRCPLCRRRITL 58 (187)
Q Consensus 9 ~C~iC~~~~~~pv~~~C~H-~fC~~Ci~~~~~~~~-~~~~~~Cp~Cr~~~~~ 58 (187)
.|+||-.-...+..-+||| .-|..|..+...... .+....||.||..+..
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 5999999888888889999 899999987654333 2224478999986653
No 151
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=50.22 E-value=16 Score=25.40 Aligned_cols=41 Identities=34% Similarity=0.742 Sum_probs=23.5
Q ss_pred cccccccccccCcE--------------EccCCCcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826 8 DVCSVCHGNFNVPC--------------QANCSHWFCGNCIMLVWDHGSTLQACRCPLCR 53 (187)
Q Consensus 8 ~~C~iC~~~~~~pv--------------~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr 53 (187)
..|--|+..+..+. =..|++.||.+|=.=+.+.-. .||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh-----~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLH-----CCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhcc-----CCcCCC
Confidence 34777777665431 124778888777543333222 677774
No 152
>COG3086 RseC Positive regulator of sigma E activity [Signal transduction mechanisms]
Probab=49.66 E-value=35 Score=24.89 Aligned_cols=22 Identities=5% Similarity=-0.141 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 029826 154 GIVGLLDDLLIALLCFLHVAAL 175 (187)
Q Consensus 154 ~~~G~~DD~~v~~~~~~~~~~~ 175 (187)
+-+|+.|++.++..++..+...
T Consensus 97 ~~L~~~e~~~~~~~~lg~~l~f 118 (150)
T COG3086 97 QYLFFSELIVIFGAFLGLALGF 118 (150)
T ss_pred HHHhhhhHHHHHHHHHHHHHHH
Confidence 5577888887777666554443
No 153
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=48.99 E-value=13 Score=28.84 Aligned_cols=44 Identities=20% Similarity=0.494 Sum_probs=33.6
Q ss_pred cccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 8 DVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
..|.+|..+.-..+.- +|+-.+-..|+.++++... .||-|.--.
T Consensus 182 k~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~-----~cphc~d~w 226 (235)
T KOG4718|consen 182 KNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRD-----ICPHCGDLW 226 (235)
T ss_pred HHHhHhHHHhheeeccCcccchhhhHHHHHHhcccC-----cCCchhccc
Confidence 4688998877655544 5887888999999998855 899995433
No 154
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=48.57 E-value=17 Score=19.66 Aligned_cols=29 Identities=24% Similarity=0.643 Sum_probs=15.7
Q ss_pred ccHHHHHHHHHhCCC---CCCCCCcccccccc
Q 029826 29 FCGNCIMLVWDHGST---LQACRCPLCRRRIT 57 (187)
Q Consensus 29 fC~~Ci~~~~~~~~~---~~~~~Cp~Cr~~~~ 57 (187)
.|.+|.+++....+. -...+|+.|.-.++
T Consensus 1 lC~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~ 32 (35)
T PF07503_consen 1 LCDDCLKEYFDPSNRRFHYQFISCTNCGPRYS 32 (35)
T ss_dssp --HHHHHHHCSTTSTTTT-TT--BTTCC-SCC
T ss_pred CCHHHHHHHcCCCCCcccCcCccCCCCCCCEE
Confidence 488899888665442 23558999966553
No 155
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=47.38 E-value=11 Score=22.31 Aligned_cols=17 Identities=24% Similarity=0.702 Sum_probs=11.5
Q ss_pred CCCCcccccccccccCCC
Q 029826 46 ACRCPLCRRRITLLIPND 63 (187)
Q Consensus 46 ~~~Cp~Cr~~~~~~~~~~ 63 (187)
.++||.|+. ++++...+
T Consensus 24 eIKCpRC~t-iN~~~a~~ 40 (51)
T PF10122_consen 24 EIKCPRCKT-INHVRATS 40 (51)
T ss_pred EEECCCCCc-cceEeccC
Confidence 569999976 65544443
No 156
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=46.89 E-value=11 Score=27.69 Aligned_cols=26 Identities=27% Similarity=0.549 Sum_probs=20.9
Q ss_pred CCCcccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 25 CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 25 C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
=.+.||..|=.+-+. +||.|..++..
T Consensus 26 ~~~~fC~kCG~~tI~--------~Cp~C~~~IrG 51 (158)
T PF10083_consen 26 LREKFCSKCGAKTIT--------SCPNCSTPIRG 51 (158)
T ss_pred HHHHHHHHhhHHHHH--------HCcCCCCCCCC
Confidence 346799999887665 89999998874
No 157
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.72 E-value=3.2 Score=29.70 Aligned_cols=49 Identities=31% Similarity=0.628 Sum_probs=28.0
Q ss_pred CCCccccccccc-ccCcEEccCCCc-------ccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 5 PCGDVCSVCHGN-FNVPCQANCSHW-------FCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 5 ~~~~~C~iC~~~-~~~pv~~~C~H~-------fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
.++-.|.||... |.+ .|||. ||..|=-+.-. .+++....|..|+.....
T Consensus 63 ~ddatC~IC~KTKFAD----G~GH~C~YCq~r~CARCGGrv~l-rsNKv~wvcnlc~k~q~i 119 (169)
T KOG3799|consen 63 GDDATCGICHKTKFAD----GCGHNCSYCQTRFCARCGGRVSL-RSNKVMWVCNLCRKQQEI 119 (169)
T ss_pred CcCcchhhhhhccccc----ccCcccchhhhhHHHhcCCeeee-ccCceEEeccCCcHHHHH
Confidence 678899999973 333 36663 44444332211 112234578888876654
No 158
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the 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=46.15 E-value=15 Score=21.62 Aligned_cols=31 Identities=26% Similarity=0.594 Sum_probs=21.0
Q ss_pred cccccccccccCc----EEccCCCcccHHHHHHHH
Q 029826 8 DVCSVCHGNFNVP----CQANCSHWFCGNCIMLVW 38 (187)
Q Consensus 8 ~~C~iC~~~~~~p----v~~~C~H~fC~~Ci~~~~ 38 (187)
..|..|...|..- .-..||+.||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 4688887755431 123699999999986543
No 160
>PLN02195 cellulose synthase A
Probab=46.11 E-value=22 Score=33.78 Aligned_cols=46 Identities=20% Similarity=0.502 Sum_probs=31.2
Q ss_pred ccccccccccc-----CcE-Ec-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 8 DVCSVCHGNFN-----VPC-QA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 8 ~~C~iC~~~~~-----~pv-~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
..|.||.+..- +|- -- .|+-.-|+.|.+--.+..+ -.||.|+.+..
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~----q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGR----KVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCC----ccCCccCCccc
Confidence 38999999552 222 22 3888899999953233322 39999998886
No 161
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=44.34 E-value=15 Score=33.33 Aligned_cols=50 Identities=18% Similarity=0.539 Sum_probs=34.5
Q ss_pred CcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 7 GDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.+.||++...+..|... .|+|.-|..=.. +.+.......+.||.|.+...
T Consensus 306 SL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~-~lq~n~~~pTW~CPVC~~~~~ 356 (636)
T KOG2169|consen 306 SLNCPLSKMRMSLPARGHTCKHLQCFDALS-YLQMNEQKPTWRCPVCQKAAP 356 (636)
T ss_pred EecCCcccceeecCCcccccccceecchhh-hHHhccCCCeeeCccCCcccc
Confidence 47899999888877654 588877766442 333333456779999977663
No 162
>PF11809 DUF3330: Domain of unknown function (DUF3330); InterPro: IPR021767 This family of proteins are functionally uncharacterised. This family is only found in bacteria.
Probab=43.27 E-value=11 Score=23.52 Aligned_cols=37 Identities=19% Similarity=0.285 Sum_probs=25.1
Q ss_pred CCcccccccc-cccCcEEccCC----CcccH-HHHHHHHHhCC
Q 029826 6 CGDVCSVCHG-NFNVPCQANCS----HWFCG-NCIMLVWDHGS 42 (187)
Q Consensus 6 ~~~~C~iC~~-~~~~pv~~~C~----H~fC~-~Ci~~~~~~~~ 42 (187)
+...|.+|.. +..+...++-| ++||+ +|..+|..+.+
T Consensus 10 ~~~sC~vC~KEIPl~~a~t~E~~eYV~hFCGLeCY~~w~a~~k 52 (70)
T PF11809_consen 10 KTTSCCVCCKEIPLDAAFTPEAAEYVEHFCGLECYQRWQARAK 52 (70)
T ss_pred ccchHHHHhhhCChhhccCcchHHHHHHHhhHHHHHHHHHHHh
Confidence 3478888776 44555666654 56887 59999886653
No 163
>PRK04023 DNA polymerase II large subunit; Validated
Probab=42.65 E-value=18 Score=34.46 Aligned_cols=46 Identities=20% Similarity=0.385 Sum_probs=29.8
Q ss_pred CCCcccccccccccCcEEccCCC-----cccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 5 PCGDVCSVCHGNFNVPCQANCSH-----WFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~pv~~~C~H-----~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.....|+-|........-..||. .||..|-.. .....||.|....+
T Consensus 624 Vg~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~~-------~~~y~CPKCG~El~ 674 (1121)
T PRK04023 624 IGRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGIE-------VEEDECEKCGREPT 674 (1121)
T ss_pred ccCccCCCCCCcCCcccCCCCCCCCCcceeCccccCc-------CCCCcCCCCCCCCC
Confidence 45568999998754433335884 599999221 12237999987774
No 164
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.54 E-value=13 Score=33.64 Aligned_cols=38 Identities=24% Similarity=0.465 Sum_probs=25.9
Q ss_pred cccccccc----ccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 9 VCSVCHGN----FNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 9 ~C~iC~~~----~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
.|-+|+.. ..-+..+.|+..||..|... -++ .||.|.-
T Consensus 656 ~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~---~~~-----~~~vC~~ 697 (717)
T KOG3726|consen 656 TCKVCQLPEDSETDVCRTTFCYTPYCVACSLD---YAS-----ISEVCGP 697 (717)
T ss_pred HHHHhcCCcCccccccCccccCCcchHhhhhh---hhc-----cCcccCc
Confidence 57778762 22355678999999998543 433 7999954
No 165
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=42.14 E-value=14 Score=29.52 Aligned_cols=44 Identities=18% Similarity=0.369 Sum_probs=32.6
Q ss_pred CcccccccccccCcEEc-cCCCcccHHHHHHHHHhCCCCCCCCCcccc
Q 029826 7 GDVCSVCHGNFNVPCQA-NCSHWFCGNCIMLVWDHGSTLQACRCPLCR 53 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr 53 (187)
++.||+=.....+|+.. .|||.|=+.-+..+.... ..+.||.=.
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~---~~i~CPv~g 220 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDE---ITIRCPVLG 220 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHhccC---ceeeccccc
Confidence 46899877777888754 599999999988876652 245888743
No 166
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=41.92 E-value=16 Score=29.42 Aligned_cols=52 Identities=19% Similarity=0.431 Sum_probs=32.8
Q ss_pred CCCcccccccccccC-c--------EEccCCCcccHHHHH-HHHHhCC-----CCCCCCCccccccc
Q 029826 5 PCGDVCSVCHGNFNV-P--------CQANCSHWFCGNCIM-LVWDHGS-----TLQACRCPLCRRRI 56 (187)
Q Consensus 5 ~~~~~C~iC~~~~~~-p--------v~~~C~H~fC~~Ci~-~~~~~~~-----~~~~~~Cp~Cr~~~ 56 (187)
.....|++|...+.. | -.++|...+|+.=.. .|+-++. .-+++.||-|++.+
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAF 225 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAF 225 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchh
Confidence 445788899875531 1 124677777776554 4444432 23478999999877
No 167
>CHL00186 psaI photosystem I subunit VIII; Validated
Probab=41.70 E-value=57 Score=17.77 Aligned_cols=29 Identities=24% Similarity=0.366 Sum_probs=23.2
Q ss_pred ccCcchhhhHHHHHHHHHHHHHHHHHHHH
Q 029826 146 DIIPEALLGIVGLLDDLLIALLCFLHVAA 174 (187)
Q Consensus 146 D~iPd~~~~~~G~~DD~~v~~~~~~~~~~ 174 (187)
+.+|-.+.|++|++=-+...++++.++-+
T Consensus 4 s~LPsI~VPlVGlvfPai~Ma~lf~yIe~ 32 (36)
T CHL00186 4 SNLPSILVPLVGLVFPAIAMASLFLYIQK 32 (36)
T ss_pred ccCchhHHhHHHHHHHHHHHHHHHHHhhh
Confidence 45788888999999888888888777643
No 168
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=41.55 E-value=18 Score=19.91 Aligned_cols=22 Identities=27% Similarity=0.952 Sum_probs=13.8
Q ss_pred cccccccccC-cEEcc-CCCcccH
Q 029826 10 CSVCHGNFNV-PCQAN-CSHWFCG 31 (187)
Q Consensus 10 C~iC~~~~~~-pv~~~-C~H~fC~ 31 (187)
|.+|.....- |..-+ |+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 4556654444 66666 8888876
No 169
>PF08273 Prim_Zn_Ribbon: Zinc-binding domain of primase-helicase; InterPro: IPR013237 This entry is represented by bacteriophage T7 Gp4. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents a zinc binding domain found in the N-terminal region of the bacteriophage T7 Gp4 and P4 alpha protein. P4 is a multifunctional protein with origin recognition, helicase and primase activities [, , ].; GO: 0003896 DNA primase activity, 0004386 helicase activity, 0008270 zinc ion binding; PDB: 1NUI_B.
Probab=40.65 E-value=12 Score=20.99 Aligned_cols=26 Identities=23% Similarity=0.767 Sum_probs=12.3
Q ss_pred cccccccccccCcEEcc---CCCcccHHH
Q 029826 8 DVCSVCHGNFNVPCQAN---CSHWFCGNC 33 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~~~---C~H~fC~~C 33 (187)
.-||+|...=...+... =||++|..|
T Consensus 4 ~pCP~CGG~DrFri~~d~~~~G~~~C~~C 32 (40)
T PF08273_consen 4 GPCPICGGKDRFRIFDDKDGRGTWICRQC 32 (40)
T ss_dssp E--TTTT-TTTEEEETT----S-EEETTT
T ss_pred CCCCCCcCccccccCcCcccCCCEECCCC
Confidence 35899987332222222 488888887
No 170
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=39.94 E-value=9.2 Score=22.23 Aligned_cols=9 Identities=33% Similarity=0.922 Sum_probs=7.2
Q ss_pred CCCCccccc
Q 029826 46 ACRCPLCRR 54 (187)
Q Consensus 46 ~~~Cp~Cr~ 54 (187)
...||.|..
T Consensus 26 ~~~CP~Cg~ 34 (52)
T TIGR02605 26 LATCPECGG 34 (52)
T ss_pred CCCCCCCCC
Confidence 458999987
No 171
>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=39.32 E-value=10 Score=20.65 Aligned_cols=10 Identities=30% Similarity=0.963 Sum_probs=7.5
Q ss_pred CCCccccccc
Q 029826 47 CRCPLCRRRI 56 (187)
Q Consensus 47 ~~Cp~Cr~~~ 56 (187)
..||.|...+
T Consensus 27 ~~CP~Cg~~~ 36 (41)
T smart00834 27 ATCPECGGDV 36 (41)
T ss_pred CCCCCCCCcc
Confidence 4899997754
No 172
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=39.00 E-value=11 Score=22.25 Aligned_cols=9 Identities=56% Similarity=1.405 Sum_probs=5.6
Q ss_pred CCccccccc
Q 029826 48 RCPLCRRRI 56 (187)
Q Consensus 48 ~Cp~Cr~~~ 56 (187)
.||+|.+++
T Consensus 22 ~CPlC~r~l 30 (54)
T PF04423_consen 22 CCPLCGRPL 30 (54)
T ss_dssp E-TTT--EE
T ss_pred cCCCCCCCC
Confidence 899999988
No 173
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=38.69 E-value=35 Score=22.68 Aligned_cols=10 Identities=40% Similarity=0.946 Sum_probs=7.3
Q ss_pred CCcccccccc
Q 029826 48 RCPLCRRRIT 57 (187)
Q Consensus 48 ~Cp~Cr~~~~ 57 (187)
+|..|+++++
T Consensus 60 rCr~C~~~I~ 69 (92)
T PF06750_consen 60 RCRYCGAPIP 69 (92)
T ss_pred CCcccCCCCC
Confidence 7777877764
No 174
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=38.66 E-value=20 Score=28.68 Aligned_cols=22 Identities=27% Similarity=0.924 Sum_probs=17.3
Q ss_pred ccccccccccCcEEccCCCcccHHHHHHHH
Q 029826 9 VCSVCHGNFNVPCQANCSHWFCGNCIMLVW 38 (187)
Q Consensus 9 ~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~ 38 (187)
.|++|. .+..+.+|..|+...+
T Consensus 1 ~C~iC~--------~~~~~~~C~~C~~~~L 22 (302)
T PF10186_consen 1 QCPICH--------NSRRRFYCANCVNNRL 22 (302)
T ss_pred CCCCCC--------CCCCCeECHHHHHHHH
Confidence 599999 3566789999997754
No 175
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=38.62 E-value=26 Score=31.97 Aligned_cols=37 Identities=27% Similarity=0.743 Sum_probs=0.0
Q ss_pred cccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 8 DVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
..||-|.....+ ++.||.+| +.......||.|...+.
T Consensus 2 ~~Cp~Cg~~n~~------~akFC~~C-------G~~l~~~~Cp~CG~~~~ 38 (645)
T PRK14559 2 LICPQCQFENPN------NNRFCQKC-------GTSLTHKPCPQCGTEVP 38 (645)
T ss_pred CcCCCCCCcCCC------CCcccccc-------CCCCCCCcCCCCCCCCC
No 176
>PRK11595 DNA utilization protein GntX; Provisional
Probab=37.69 E-value=24 Score=27.47 Aligned_cols=24 Identities=17% Similarity=0.228 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 029826 156 VGLLDDLLIALLCFLHVAALYRAV 179 (187)
Q Consensus 156 ~G~~DD~~v~~~~~~~~~~~~~~~ 179 (187)
+-++||++--..-+..++..+++.
T Consensus 190 vllvDDv~tTG~Tl~~~~~~L~~~ 213 (227)
T PRK11595 190 MAIVDDVVTTGSTVAEIAQLLLRN 213 (227)
T ss_pred EEEEeeeecchHHHHHHHHHHHHc
Confidence 667899988888888888877653
No 177
>PF14369 zf-RING_3: zinc-finger
Probab=37.43 E-value=6.2 Score=21.32 Aligned_cols=29 Identities=24% Similarity=0.560 Sum_probs=14.2
Q ss_pred cccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 28 WFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 28 ~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
-+|..|-+.............||.|...+
T Consensus 3 ywCh~C~~~V~~~~~~~~~~~CP~C~~gF 31 (35)
T PF14369_consen 3 YWCHQCNRFVRIAPSPDSDVACPRCHGGF 31 (35)
T ss_pred EeCccCCCEeEeCcCCCCCcCCcCCCCcE
Confidence 35666654332221111223599997654
No 178
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=37.40 E-value=24 Score=27.69 Aligned_cols=23 Identities=26% Similarity=0.784 Sum_probs=18.8
Q ss_pred ccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 29 FCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 29 fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
-|.+|.++..+... .||+|+...
T Consensus 251 ~ClsChqqIHRNAP-----iCPlCKaKs 273 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAP-----ICPLCKAKS 273 (286)
T ss_pred HHHHHHHHHhcCCC-----CCcchhhcc
Confidence 49999988777766 999998765
No 179
>PRK11877 psaI photosystem I reaction center subunit VIII; Reviewed
Probab=37.28 E-value=66 Score=17.76 Aligned_cols=27 Identities=15% Similarity=0.171 Sum_probs=21.7
Q ss_pred cCcchhhhHHHHHHHHHHHHHHHHHHH
Q 029826 147 IIPEALLGIVGLLDDLLIALLCFLHVA 173 (187)
Q Consensus 147 ~iPd~~~~~~G~~DD~~v~~~~~~~~~ 173 (187)
.+|-.+.|++|++=-+...++++.+|-
T Consensus 9 ~LPsI~VPlVGlvfPai~Mallf~yIe 35 (38)
T PRK11877 9 WLPWIFVPLVGWVFPAVFMVLLGRYIT 35 (38)
T ss_pred hCchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 367778899999988888888877764
No 180
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=36.98 E-value=5.3 Score=23.99 Aligned_cols=17 Identities=24% Similarity=0.579 Sum_probs=13.2
Q ss_pred EEc-cCCCcccHHHHHHH
Q 029826 21 CQA-NCSHWFCGNCIMLV 37 (187)
Q Consensus 21 v~~-~C~H~fC~~Ci~~~ 37 (187)
+.- .|+|.||..|-.+|
T Consensus 41 v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 41 VTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eECCCCCCeECCCCCCcC
Confidence 344 58999999998775
No 181
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.86 E-value=20 Score=23.91 Aligned_cols=15 Identities=27% Similarity=0.676 Sum_probs=12.9
Q ss_pred cccHHHHHHHHHhCC
Q 029826 28 WFCGNCIMLVWDHGS 42 (187)
Q Consensus 28 ~fC~~Ci~~~~~~~~ 42 (187)
.||..|+..|.+...
T Consensus 42 gFCRNCLs~Wy~eaa 56 (104)
T COG3492 42 GFCRNCLSNWYREAA 56 (104)
T ss_pred HHHHHHHHHHHHHHH
Confidence 599999999998755
No 182
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=36.84 E-value=69 Score=27.75 Aligned_cols=45 Identities=16% Similarity=0.219 Sum_probs=40.4
Q ss_pred cccccccccccCcEEcc-CCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 8 DVCSVCHGNFNVPCQAN-CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 8 ~~C~iC~~~~~~pv~~~-C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
+.|.|-.+...+||..+ -||.|=++-|+++....+ +||.=.++++
T Consensus 1 m~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e~G-----~DPIt~~pLs 46 (506)
T KOG0289|consen 1 MVCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAETG-----KDPITNEPLS 46 (506)
T ss_pred CeecccCCCCCCccccccccchHHHHHHHHHHHHcC-----CCCCCCCcCC
Confidence 36999999999999887 899999999999999877 8999888887
No 183
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=36.61 E-value=78 Score=19.39 Aligned_cols=25 Identities=12% Similarity=0.206 Sum_probs=13.7
Q ss_pred hhhcchhHHHHHHHHhhcCCCCchh
Q 029826 99 QRIQDLPFLLRRLVRELVDPHRSLP 123 (187)
Q Consensus 99 ~~l~~~p~ll~~l~~~~~~~~~~~~ 123 (187)
+.+++...--+++++....++..+|
T Consensus 8 e~~~~f~~d~~rvl~~~~KPd~~Ef 32 (61)
T PRK09400 8 ENVKNFLEDYKRVLKVARKPTREEF 32 (61)
T ss_pred HhHHHHHHHHHHHHHHhcCCCHHHH
Confidence 4444444555566666666654444
No 184
>PF11431 Transport_MerF: Membrane transport protein MerF; InterPro: IPR021091 This entry represents Mercury ion transport protein MerF, which has a core helix-loop-helix domain. It also has two vicinal pairs of cysteine residues which are involved in the transport of Hg(II) across the membrane and are exposed to the cytoplasm []. ; PDB: 1WAZ_A 2LJ2_A 2H3O_A.
Probab=36.30 E-value=17 Score=20.88 Aligned_cols=29 Identities=28% Similarity=0.393 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029826 155 IVGLLDDLLIALLCFLHVAALYRAVLYNR 183 (187)
Q Consensus 155 ~~G~~DD~~v~~~~~~~~~~~~~~~~~~r 183 (187)
++|++|-+.+-++++.-...+|.-...+|
T Consensus 16 ~vgyLDyvL~PaLa~fi~lt~yal~r~~~ 44 (46)
T PF11431_consen 16 LVGYLDYVLLPALAVFIGLTIYALWRRRR 44 (46)
T ss_dssp HHSHTTTSTTTTHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 46677776665555555555554444443
No 185
>KOG4050 consensus Glutamate transporter EAAC1-interacting protein GTRAP3-18 [Amino acid transport and metabolism; Signal transduction mechanisms]
Probab=36.25 E-value=1.2e+02 Score=22.51 Aligned_cols=18 Identities=33% Similarity=0.375 Sum_probs=13.7
Q ss_pred HHHHHHHHHHhhhccccc
Q 029826 130 VYIAMIFSAVYIFSPIDI 147 (187)
Q Consensus 130 ~~~~~~~~~~Y~~~P~D~ 147 (187)
..+.++.++.=|+||.|+
T Consensus 60 v~~it~~~l~~f~sp~~i 77 (188)
T KOG4050|consen 60 VTFITLFLLHGFISPQDI 77 (188)
T ss_pred HHHHHHHHHHHHcCHHHH
Confidence 346666777788999996
No 186
>TIGR01523 ATPase-IID_K-Na potassium and/or sodium efflux P-type ATPase, fungal-type. The Leishmania sequence (GP|3192903), which falls between trusted and noise in this model, may very well turn out to be an active potassium pump.
Probab=36.23 E-value=2.3e+02 Score=27.57 Aligned_cols=57 Identities=7% Similarity=0.139 Sum_probs=32.3
Q ss_pred HHHHHHHHhhcCCCCchhHHHHHHHHHHHHHHHHhhhcccccCcchhhhHHHHHHH-HHHHHHHHHHHHHHHHHHHHhhh
Q 029826 106 FLLRRLVRELVDPHRSLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGLLDD-LLIALLCFLHVAALYRAVLYNRH 184 (187)
Q Consensus 106 ~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~~~P~D~iPd~~~~~~G~~DD-~~v~~~~~~~~~~~~~~~~~~r~ 184 (187)
...+.+++.+.++ + ..+++++++++++. + .+.|= +++++.++..+...++++.++|.
T Consensus 51 s~~~~~l~q~~~~---------~-~~iL~~aails~~~----------~--~~~~~~iIl~vv~in~~i~~~QE~~aeka 108 (1053)
T TIGR01523 51 DAKAMLLHQVCNA---------M-CMVLIIAAAISFAM----------H--DWIEGGVISAIIALNILIGFIQEYKAEKT 108 (1053)
T ss_pred CHHHHHHHHHhCH---------H-HHHHHHHHHHHHHH----------h--hHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 4556677777763 2 24566666666653 1 12222 23444555667777888877763
No 187
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=35.65 E-value=16 Score=18.19 Aligned_cols=9 Identities=33% Similarity=0.933 Sum_probs=4.6
Q ss_pred ccccccccc
Q 029826 9 VCSVCHGNF 17 (187)
Q Consensus 9 ~C~iC~~~~ 17 (187)
.||||...+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 455555543
No 188
>PRK05208 hypothetical protein; Provisional
Probab=35.64 E-value=67 Score=24.03 Aligned_cols=33 Identities=21% Similarity=0.368 Sum_probs=29.2
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 029826 150 EALLGIVGLLDDLLIALLCFLHVAALYRAVLYN 182 (187)
Q Consensus 150 d~~~~~~G~~DD~~v~~~~~~~~~~~~~~~~~~ 182 (187)
|.+.+++|.+|-..+...++.-.-+.|+.|+..
T Consensus 56 ~~il~vl~lIDl~Lia~lLlIv~~ggYElFISk 88 (168)
T PRK05208 56 DLILVVLSLIDVVLVANLLVMVIFSGYENFVSR 88 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHhhcc
Confidence 457899999999999999999999999998753
No 189
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=35.61 E-value=23 Score=28.25 Aligned_cols=11 Identities=27% Similarity=0.833 Sum_probs=9.3
Q ss_pred ccccccccccc
Q 029826 8 DVCSVCHGNFN 18 (187)
Q Consensus 8 ~~C~iC~~~~~ 18 (187)
+.||+|...+.
T Consensus 3 ~~CP~C~~~l~ 13 (272)
T PRK11088 3 YQCPLCHQPLT 13 (272)
T ss_pred ccCCCCCcchh
Confidence 78999999774
No 190
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=35.34 E-value=17 Score=33.48 Aligned_cols=53 Identities=26% Similarity=0.573 Sum_probs=28.8
Q ss_pred CCCCcccccccccccCcEEc-----cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 4 PPCGDVCSVCHGNFNVPCQA-----NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~pv~~-----~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
++.+++||-|+..+...+.+ .=--+.|..|-.....+.- ++...||+|.....
T Consensus 1128 ~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EI-s~y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1128 DPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEI-SKYNCCPLCHSMES 1185 (1189)
T ss_pred CccCCCChhhcCcCceeeccCCccccceEEEccccccccccccc-cccccCccccChhh
Confidence 46778898888866432211 1113445555544333322 33448999977653
No 191
>PF14348 DUF4400: Domain of unknown function (DUF4400)
Probab=35.28 E-value=1.6e+02 Score=22.24 Aligned_cols=23 Identities=22% Similarity=0.440 Sum_probs=16.1
Q ss_pred HHHHHHH-HHhhhcccccCcchhhh
Q 029826 131 YIAMIFS-AVYIFSPIDIIPEALLG 154 (187)
Q Consensus 131 ~~~~~~~-~~Y~~~P~D~iPd~~~~ 154 (187)
+..+++. ++|++.|+-+-|.. ++
T Consensus 156 ~~~~~~~~~lyL~lP~~i~P~~-~~ 179 (198)
T PF14348_consen 156 IPLLILPWVLYLSLPFSIPPNL-VP 179 (198)
T ss_pred HHHHHHHHHHHHHcccccChHH-HH
Confidence 3445555 89999999876764 44
No 192
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. 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=34.95 E-value=22 Score=25.26 Aligned_cols=11 Identities=9% Similarity=0.241 Sum_probs=7.0
Q ss_pred CCCCccccccc
Q 029826 46 ACRCPLCRRRI 56 (187)
Q Consensus 46 ~~~Cp~Cr~~~ 56 (187)
+..||.|...+
T Consensus 26 p~vcP~cg~~~ 36 (129)
T TIGR02300 26 PAVSPYTGEQF 36 (129)
T ss_pred CccCCCcCCcc
Confidence 45777776654
No 193
>TIGR03052 PS_I_psaI photosystem I reaction center subunit VIII. Members of this protein family are PsaI, subunit VIII of the photosystem I reaction center. This protein is found in both the Cyanobacteria and the chloroplasts of plants, but is absent from non-oxygenic photosynthetic bacteria such as Rhodobacter sphaeroides. Species that contain photosystem I also contain photosystem II, which splits water and releases molecular oxygen.
Probab=34.92 E-value=58 Score=17.13 Aligned_cols=26 Identities=23% Similarity=0.428 Sum_probs=20.5
Q ss_pred CcchhhhHHHHHHHHHHHHHHHHHHH
Q 029826 148 IPEALLGIVGLLDDLLIALLCFLHVA 173 (187)
Q Consensus 148 iPd~~~~~~G~~DD~~v~~~~~~~~~ 173 (187)
+|-.+.|++|++=-+...++++.++-
T Consensus 3 LPsI~VPlVglvfPai~Ma~lf~yIe 28 (31)
T TIGR03052 3 LPSIFVPLVGLVFPAVFMALLFRYIE 28 (31)
T ss_pred CceeehhHHHHHHHHHHHHHHHHhee
Confidence 67777899999988888887777653
No 194
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=34.34 E-value=10 Score=30.92 Aligned_cols=51 Identities=20% Similarity=0.479 Sum_probs=30.6
Q ss_pred CCcccccccc-cccCc----EEccCCCcccHHHHHHHH-HhCCCCCCC-CCccccccc
Q 029826 6 CGDVCSVCHG-NFNVP----CQANCSHWFCGNCIMLVW-DHGSTLQAC-RCPLCRRRI 56 (187)
Q Consensus 6 ~~~~C~iC~~-~~~~p----v~~~C~H~fC~~Ci~~~~-~~~~~~~~~-~Cp~Cr~~~ 56 (187)
+...|.+|.- .|..- .--+||+.||..|-..-+ ......++. .|+.|=..+
T Consensus 167 ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred cceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 6678999988 33211 123799999999976522 221122333 788884444
No 195
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=33.17 E-value=4.5 Score=21.17 Aligned_cols=27 Identities=37% Similarity=0.661 Sum_probs=11.0
Q ss_pred CcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 27 HWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 27 H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
|.||..|=.+...... --...||.|..
T Consensus 3 ~rfC~~CG~~t~~~~~-g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPG-GWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SS-SS-EEESSSS-
T ss_pred CcccCcCCccccCCCC-cCEeECCCCcC
Confidence 6677777544322222 12347777754
No 196
>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=32.68 E-value=13 Score=18.94 Aligned_cols=25 Identities=20% Similarity=0.508 Sum_probs=9.6
Q ss_pred ccccccccccCcEEccCCCcccHHH
Q 029826 9 VCSVCHGNFNVPCQANCSHWFCGNC 33 (187)
Q Consensus 9 ~C~iC~~~~~~pv~~~C~H~fC~~C 33 (187)
.|+.|...+.+-..-+=+..||..|
T Consensus 3 ~C~rC~~~~~~~~~~~r~~~~C~rC 27 (30)
T PF06827_consen 3 KCPRCWNYIEDIGINGRSTYLCPRC 27 (30)
T ss_dssp B-TTT--BBEEEEETTEEEEE-TTT
T ss_pred cCccCCCcceEeEecCCCCeECcCC
Confidence 4666666654433333333444444
No 197
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=32.45 E-value=40 Score=27.22 Aligned_cols=51 Identities=22% Similarity=0.529 Sum_probs=29.5
Q ss_pred CcccccccccccCcEEc-------------cCCC---cccHH-HHHHHHHhCCCCCCCCCcccccccc
Q 029826 7 GDVCSVCHGNFNVPCQA-------------NCSH---WFCGN-CIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~-------------~C~H---~fC~~-Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
..+|.||...|..|=.+ .|.| .|=.+ =++..++..+.-+...|+.|.+.+.
T Consensus 187 ~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~C~KsFs 254 (279)
T KOG2462|consen 187 PCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPRCGKSFA 254 (279)
T ss_pred CcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHHHHHhhcCCccccCcchhhHHH
Confidence 35788888888755332 2332 23222 2333444444445679999988874
No 198
>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=32.14 E-value=20 Score=21.09 Aligned_cols=12 Identities=42% Similarity=0.731 Sum_probs=7.1
Q ss_pred CCCCcccccccc
Q 029826 4 PPCGDVCSVCHG 15 (187)
Q Consensus 4 ~~~~~~C~iC~~ 15 (187)
.+++..||+|..
T Consensus 31 Lp~~w~CP~C~a 42 (50)
T cd00730 31 LPDDWVCPVCGA 42 (50)
T ss_pred CCCCCCCCCCCC
Confidence 355666666654
No 199
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=32.12 E-value=29 Score=18.77 Aligned_cols=13 Identities=38% Similarity=0.925 Sum_probs=8.3
Q ss_pred cccccccccccCc
Q 029826 8 DVCSVCHGNFNVP 20 (187)
Q Consensus 8 ~~C~iC~~~~~~p 20 (187)
.+||-|...+..|
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 4677777766543
No 200
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=31.96 E-value=45 Score=20.33 Aligned_cols=28 Identities=21% Similarity=0.463 Sum_probs=14.3
Q ss_pred CcccccccccccCcEEccCCCcccH-HHHHHHHHh
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCG-NCIMLVWDH 40 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~-~Ci~~~~~~ 40 (187)
.-.|++|...... .-.||+ .|-+.|.+.
T Consensus 3 HkHC~~CG~~Ip~------~~~fCS~~C~~~~~k~ 31 (59)
T PF09889_consen 3 HKHCPVCGKPIPP------DESFCSPKCREEYRKR 31 (59)
T ss_pred CCcCCcCCCcCCc------chhhhCHHHHHHHHHH
Confidence 3467777543221 244663 566665544
No 201
>smart00831 Cation_ATPase_N Cation transporter/ATPase, N-terminus. This entry represents the conserved N-terminal region found in several classes of cation-transporting P-type ATPases, including those that transport H+, Na+, Ca2+, Na+/K+, and H+/K+. In the H+/K+- and Na+/K+-exchange P-ATPases, this domain is found in the catalytic alpha chain. In gastric H+/K+-ATPases, this domain undergoes reversible sequential phosphorylation inducing conformational changes that may be important for regulating the function of these ATPases PUBMED:12480547, PUBMED:12529322.
Probab=31.95 E-value=1.1e+02 Score=18.06 Aligned_cols=12 Identities=25% Similarity=0.384 Sum_probs=7.7
Q ss_pred HHHHHHHHhhcC
Q 029826 106 FLLRRLVRELVD 117 (187)
Q Consensus 106 ~ll~~l~~~~~~ 117 (187)
..++.+++.+.+
T Consensus 35 s~~~~~l~~~~~ 46 (64)
T smart00831 35 SPLLRFLRQFHN 46 (64)
T ss_pred CHHHHHHHHHHh
Confidence 455667777766
No 202
>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=31.83 E-value=17 Score=21.02 Aligned_cols=12 Identities=42% Similarity=0.731 Sum_probs=5.4
Q ss_pred CCCCcccccccc
Q 029826 4 PPCGDVCSVCHG 15 (187)
Q Consensus 4 ~~~~~~C~iC~~ 15 (187)
.+++..||+|..
T Consensus 31 Lp~~w~CP~C~a 42 (47)
T PF00301_consen 31 LPDDWVCPVCGA 42 (47)
T ss_dssp S-TT-B-TTTSS
T ss_pred CCCCCcCcCCCC
Confidence 356666776654
No 203
>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=31.57 E-value=24 Score=24.49 Aligned_cols=46 Identities=20% Similarity=0.547 Sum_probs=28.7
Q ss_pred CCccccccccccc----CcEE-ccCCCcccHHHHHHHHHhCCCCCCCCCcccccc
Q 029826 6 CGDVCSVCHGNFN----VPCQ-ANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRR 55 (187)
Q Consensus 6 ~~~~C~iC~~~~~----~pv~-~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~ 55 (187)
.+..|.+|...+. .... ..|+|.+|..|-.. ........|..|.+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~----~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY----SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE----TSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc----CCCCCCEEChhhHHH
Confidence 5678999987542 2333 45999999999654 222335589999653
No 204
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=30.59 E-value=29 Score=16.99 Aligned_cols=12 Identities=25% Similarity=1.029 Sum_probs=8.6
Q ss_pred CCCCCccccccc
Q 029826 45 QACRCPLCRRRI 56 (187)
Q Consensus 45 ~~~~Cp~Cr~~~ 56 (187)
.+..|+.|...+
T Consensus 13 k~~~C~~C~k~F 24 (26)
T PF13465_consen 13 KPYKCPYCGKSF 24 (26)
T ss_dssp SSEEESSSSEEE
T ss_pred CCCCCCCCcCee
Confidence 456888887655
No 205
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=30.36 E-value=28 Score=19.48 Aligned_cols=20 Identities=25% Similarity=0.662 Sum_probs=10.9
Q ss_pred ccccccCcEEcc-CCCcccHH
Q 029826 13 CHGNFNVPCQAN-CSHWFCGN 32 (187)
Q Consensus 13 C~~~~~~pv~~~-C~H~fC~~ 32 (187)
|......|..=+ |+..||.+
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~ 26 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLK 26 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TT
T ss_pred CcCccCCCeECCCCCcccCcc
Confidence 666666777766 88888875
No 206
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.33 E-value=11 Score=32.46 Aligned_cols=38 Identities=24% Similarity=0.448 Sum_probs=30.1
Q ss_pred CCCCcccccc-cccccCcEEcc--CCCcccHHHHHHHHHhC
Q 029826 4 PPCGDVCSVC-HGNFNVPCQAN--CSHWFCGNCIMLVWDHG 41 (187)
Q Consensus 4 ~~~~~~C~iC-~~~~~~pv~~~--C~H~fC~~Ci~~~~~~~ 41 (187)
.++++.|++| .+.+.+...+. |..+||..|+++....+
T Consensus 216 ~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~~ 256 (448)
T KOG0314|consen 216 LPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALISK 256 (448)
T ss_pred CCccccCceecchhhHHHHHhhhhhcccCCccccccccccc
Confidence 3678899999 77777777773 88999999998766554
No 207
>TIGR00645 HI0507 conserved hypothetical transmembrane protein. This conserved hypothetical protein with four predicted transmembrane regions is found in E. coli, Haemophilus influenzae, and Helicobacter pylori, among completed genomes. A similar protein from Aquifex aeolicus appears to share a central region of homology and a similar overall arrangement of hydrophobic stretches, and forms a bidirectional best hit with several members of the seed alignment. However, it is uncertain whether the observed similarity represents full-length homology and/or equivalent function, and so it is excluded from the seed and scores below the trusted cutoff.
Probab=30.15 E-value=71 Score=23.85 Aligned_cols=33 Identities=24% Similarity=0.418 Sum_probs=29.0
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 029826 150 EALLGIVGLLDDLLIALLCFLHVAALYRAVLYN 182 (187)
Q Consensus 150 d~~~~~~G~~DD~~v~~~~~~~~~~~~~~~~~~ 182 (187)
|.+.+++|.+|-..+...++.-.-+.|+.|+..
T Consensus 52 ~~il~vl~lID~~Lia~lLlIv~~ggYElFISk 84 (167)
T TIGR00645 52 DLMLGVLNLVDVVMIAGLLVMVTIGGYEIFVSK 84 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccHhHhhcc
Confidence 558899999999999999999999999998753
No 208
>COG3402 Uncharacterized conserved protein [Function unknown]
Probab=30.12 E-value=2.1e+02 Score=21.23 Aligned_cols=52 Identities=10% Similarity=-0.038 Sum_probs=24.8
Q ss_pred HHHHHHhhhcccccCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 029826 134 MIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNRHG 185 (187)
Q Consensus 134 ~~~~~~Y~~~P~D~iPd~~~~~~G~~DD~~v~~~~~~~~~~~~~~~~~~r~~ 185 (187)
+++++.+.+.=++..|+.-.+.++..-=+++.+++..-+....-+|..||+.
T Consensus 29 Ll~av~~~~~~~~~~~~~~w~~~a~~av~l~~~vv~l~iiP~~~Ryr~wry~ 80 (161)
T COG3402 29 LLIAVAAGVLLYFVGLDPNWSSVAAVAVILLAAVVTLFIIPQLVRYRVWRYE 80 (161)
T ss_pred HHHHHHHHHHHheeccCCccHHHHHHHHHHHHHHHHhhhhhHHHhhhhheee
Confidence 3333333333333344433344444433444444444455545678888864
No 209
>PF15616 TerY-C: TerY-C metal binding domain
Probab=29.97 E-value=34 Score=24.48 Aligned_cols=40 Identities=23% Similarity=0.650 Sum_probs=29.0
Q ss_pred CcccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.-.||-|.+.....+- .||+.+|.. . .+...||-|.+...
T Consensus 77 ~PgCP~CGn~~~fa~C-~CGkl~Ci~--------g--~~~~~CPwCg~~g~ 116 (131)
T PF15616_consen 77 APGCPHCGNQYAFAVC-GCGKLFCID--------G--EGEVTCPWCGNEGS 116 (131)
T ss_pred CCCCCCCcChhcEEEe-cCCCEEEeC--------C--CCCEECCCCCCeee
Confidence 3689999998666544 899999863 1 12359999988764
No 210
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.93 E-value=29 Score=24.65 Aligned_cols=23 Identities=30% Similarity=0.745 Sum_probs=17.3
Q ss_pred cccHHHHHHHHHhCCCCCCCCCccccccccc
Q 029826 28 WFCGNCIMLVWDHGSTLQACRCPLCRRRITL 58 (187)
Q Consensus 28 ~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~~ 58 (187)
.||+.|=+.-.. .||.|..++..
T Consensus 29 afcskcgeati~--------qcp~csasirg 51 (160)
T COG4306 29 AFCSKCGEATIT--------QCPICSASIRG 51 (160)
T ss_pred HHHhhhchHHHh--------cCCccCCcccc
Confidence 589988765433 89999888863
No 211
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=29.52 E-value=15 Score=27.04 Aligned_cols=15 Identities=20% Similarity=0.518 Sum_probs=6.6
Q ss_pred HHHHHHHHhhhcccc
Q 029826 132 IAMIFSAVYIFSPID 146 (187)
Q Consensus 132 ~~~~~~~~Y~~~P~D 146 (187)
++++++++..+.|+-
T Consensus 103 ~clv~avvly~vP~r 117 (156)
T PF08372_consen 103 FCLVAAVVLYFVPFR 117 (156)
T ss_pred HHHHHHHHHHHhhHH
Confidence 334444433343663
No 212
>PRK01343 zinc-binding protein; Provisional
Probab=29.18 E-value=47 Score=20.13 Aligned_cols=13 Identities=15% Similarity=0.245 Sum_probs=8.8
Q ss_pred CCccccccccccc
Q 029826 6 CGDVCSVCHGNFN 18 (187)
Q Consensus 6 ~~~~C~iC~~~~~ 18 (187)
....||||...+.
T Consensus 8 p~~~CP~C~k~~~ 20 (57)
T PRK01343 8 PTRPCPECGKPST 20 (57)
T ss_pred CCCcCCCCCCcCc
Confidence 4567888887654
No 213
>PF04186 FxsA: FxsA cytoplasmic membrane protein ; InterPro: IPR007313 This is a bacterial family of cytoplasmic membrane proteins. It includes two transmembrane regions. The molecular function of FxsA is unknown, but in Escherichia coli its overexpression has been shown to alleviate the exclusion of phage T7 in those cells with an F plasmid.; GO: 0016020 membrane
Probab=29.12 E-value=1.2e+02 Score=21.20 Aligned_cols=29 Identities=38% Similarity=0.530 Sum_probs=21.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029826 153 LGIVGLLDDLLIALLCFLHVAALYRAVLYNR 183 (187)
Q Consensus 153 ~~~~G~~DD~~v~~~~~~~~~~~~~~~~~~r 183 (187)
+| |++-|++-+.+++--+.+.+++.+..|
T Consensus 82 ~P--GflTD~lGllLllP~~R~~~~~~l~~~ 110 (119)
T PF04186_consen 82 IP--GFLTDILGLLLLLPPVRRLLRRLLMKR 110 (119)
T ss_pred hh--HHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 46 888888888888777777776665544
No 214
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.89 E-value=17 Score=30.80 Aligned_cols=44 Identities=18% Similarity=0.400 Sum_probs=35.3
Q ss_pred ccccccccccCc----EEccCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 9 VCSVCHGNFNVP----CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 9 ~C~iC~~~~~~p----v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
+|.||...++.- -.+-|||.+-..|++.|+.... +||.|+..+.
T Consensus 198 sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~-----kl~~~~rel~ 245 (465)
T KOG0827|consen 198 SLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKR-----KLPSCRRELP 245 (465)
T ss_pred hhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHH-----HhHHHHhhhh
Confidence 578888766432 3456999999999999998855 9999998875
No 215
>PF07787 DUF1625: Protein of unknown function (DUF1625); InterPro: IPR012430 Sequences making up this family are derived from hypothetical proteins expressed by both prokaryotic and eukaryotic species. The region in question is approximately 250 residues long.
Probab=28.57 E-value=83 Score=24.79 Aligned_cols=37 Identities=19% Similarity=0.417 Sum_probs=24.6
Q ss_pred chhHHHHHHHHHHHHHHHHhhhcccccCcchhhhHHHH
Q 029826 121 SLPLVIRARVYIAMIFSAVYIFSPIDIIPEALLGIVGL 158 (187)
Q Consensus 121 ~~~~~~~~~~~~~~~~~~~Y~~~P~D~iPd~~~~~~G~ 158 (187)
...+.+|.-..+++..++.-+.+|+..+=+. +|++|=
T Consensus 181 ~~tW~lR~~G~llmf~G~~~~~~~l~~l~~~-~P~lg~ 217 (248)
T PF07787_consen 181 TLTWILRFIGWLLMFIGFFLLFSPLYTLVDW-IPLLGN 217 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hceeec
Confidence 4455555555666777777778888877775 677773
No 216
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=28.33 E-value=30 Score=21.36 Aligned_cols=10 Identities=30% Similarity=1.115 Sum_probs=8.8
Q ss_pred CCCccccccc
Q 029826 47 CRCPLCRRRI 56 (187)
Q Consensus 47 ~~Cp~Cr~~~ 56 (187)
..||.|++++
T Consensus 7 v~CP~C~k~~ 16 (62)
T PRK00418 7 VNCPTCGKPV 16 (62)
T ss_pred ccCCCCCCcc
Confidence 5899999987
No 217
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=28.20 E-value=13 Score=27.19 Aligned_cols=28 Identities=18% Similarity=0.336 Sum_probs=16.9
Q ss_pred cCCCcccHHHHHHHHHhCC------CCCCCCCccccccc
Q 029826 24 NCSHWFCGNCIMLVWDHGS------TLQACRCPLCRRRI 56 (187)
Q Consensus 24 ~C~H~fC~~Ci~~~~~~~~------~~~~~~Cp~Cr~~~ 56 (187)
.+||.| +.|+.++. ..+-+.||.|...-
T Consensus 9 ~~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~ 42 (148)
T PF06676_consen 9 ENGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTE 42 (148)
T ss_pred CCCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCe
Confidence 467877 23443322 24677999997544
No 218
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=27.80 E-value=1.3e+02 Score=18.47 Aligned_cols=31 Identities=19% Similarity=0.316 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 029826 155 IVGLLDDLLIALLCFLHVAALYRAVLYNRHG 185 (187)
Q Consensus 155 ~~G~~DD~~v~~~~~~~~~~~~~~~~~~r~~ 185 (187)
..|+.|-++++.+.+..++-++--|...+.|
T Consensus 6 ~~~~a~a~~t~~~~l~fiavi~~ayr~~~K~ 36 (60)
T COG4736 6 MRGFADAWGTIAFTLFFIAVIYFAYRPGKKG 36 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccchh
Confidence 4688899999988888888888777776655
No 219
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=27.31 E-value=62 Score=18.67 Aligned_cols=29 Identities=21% Similarity=0.365 Sum_probs=15.7
Q ss_pred cccccccccccCc-EEccCCCcccHHHHHH
Q 029826 8 DVCSVCHGNFNVP-CQANCSHWFCGNCIML 36 (187)
Q Consensus 8 ~~C~iC~~~~~~p-v~~~C~H~fC~~Ci~~ 36 (187)
+.|..|...+... ....=|..||..|..+
T Consensus 27 f~C~~C~~~l~~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 27 FKCSKCGKPLNDGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp SBETTTTCBTTTSSEEEETTEEEEHHHHHH
T ss_pred cccCCCCCccCCCeeEeECCEEECHHHHhh
Confidence 5566666655443 2333455666666544
No 220
>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=26.55 E-value=22 Score=21.13 Aligned_cols=31 Identities=19% Similarity=0.314 Sum_probs=15.0
Q ss_pred Cccccc--ccccccC-----c--EEcc-CCCcccHHHHHHH
Q 029826 7 GDVCSV--CHGNFNV-----P--CQAN-CSHWFCGNCIMLV 37 (187)
Q Consensus 7 ~~~C~i--C~~~~~~-----p--v~~~-C~H~fC~~Ci~~~ 37 (187)
-..||- |...+.. . +.=+ |++.||..|-..|
T Consensus 18 ~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 18 IRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred ccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 346765 7764421 1 3334 8888888876554
No 221
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=26.35 E-value=39 Score=22.76 Aligned_cols=11 Identities=27% Similarity=0.908 Sum_probs=9.2
Q ss_pred CCccccccccc
Q 029826 48 RCPLCRRRITL 58 (187)
Q Consensus 48 ~Cp~Cr~~~~~ 58 (187)
+||.|+.+++-
T Consensus 82 ~Cp~C~spFNp 92 (105)
T COG4357 82 SCPYCQSPFNP 92 (105)
T ss_pred CCCCcCCCCCc
Confidence 79999998864
No 222
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=26.22 E-value=8.4 Score=18.67 Aligned_cols=6 Identities=50% Similarity=1.298 Sum_probs=2.6
Q ss_pred CCcccc
Q 029826 48 RCPLCR 53 (187)
Q Consensus 48 ~Cp~Cr 53 (187)
-||.|.
T Consensus 15 fC~~CG 20 (23)
T PF13240_consen 15 FCPNCG 20 (23)
T ss_pred chhhhC
Confidence 344443
No 223
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=26.17 E-value=14 Score=29.87 Aligned_cols=32 Identities=31% Similarity=0.552 Sum_probs=21.4
Q ss_pred CCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 25 CSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 25 C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
=.|.||..|-.+...... .-...||.|+....
T Consensus 109 ~~~RFCg~CG~~~~~~~~-g~~~~C~~cg~~~f 140 (279)
T COG2816 109 RSHRFCGRCGTKTYPREG-GWARVCPKCGHEHF 140 (279)
T ss_pred hhCcCCCCCCCcCccccC-ceeeeCCCCCCccC
Confidence 468899999866443332 23458999987664
No 224
>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=25.45 E-value=42 Score=17.57 Aligned_cols=8 Identities=38% Similarity=1.161 Sum_probs=4.2
Q ss_pred CCcccccc
Q 029826 48 RCPLCRRR 55 (187)
Q Consensus 48 ~Cp~Cr~~ 55 (187)
.||.|..+
T Consensus 19 ~CP~Cg~~ 26 (33)
T cd00350 19 VCPVCGAP 26 (33)
T ss_pred cCcCCCCc
Confidence 55555543
No 225
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=25.42 E-value=1.7e+02 Score=18.17 Aligned_cols=23 Identities=13% Similarity=0.182 Sum_probs=11.5
Q ss_pred hcchhHHHHHHHHhhcCCCCchh
Q 029826 101 IQDLPFLLRRLVRELVDPHRSLP 123 (187)
Q Consensus 101 l~~~p~ll~~l~~~~~~~~~~~~ 123 (187)
+++.-.--+++++....++...|
T Consensus 11 ~~~~lke~~rvl~~arKP~~eEy 33 (65)
T COG2443 11 LREFLKEYRRVLKVARKPDWEEY 33 (65)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHH
Confidence 33333344556666666554444
No 226
>PHA03029 hypothetical protein; Provisional
Probab=25.34 E-value=1.9e+02 Score=18.51 Aligned_cols=45 Identities=24% Similarity=0.425 Sum_probs=28.7
Q ss_pred HHHHHHHHHhhhcccccCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 029826 131 YIAMIFSAVYIFSPIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAVLYNRHGG 186 (187)
Q Consensus 131 ~~~~~~~~~Y~~~P~D~iPd~~~~~~G~~DD~~v~~~~~~~~~~~~~~~~~~r~~~ 186 (187)
...+++.++|.+. ++.++|++=-. ++-+.++...+.|-+..|++|
T Consensus 7 ~~~ii~~iiyiil--------ila~igiiwg~---llsi~k~raai~qnirsrrkg 51 (92)
T PHA03029 7 VFLIIAIIIYIIL--------ILAIIGIIWGF---LLSINKIRAAIDQNIRSRRKG 51 (92)
T ss_pred hHHHHHHHHHHHH--------HHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhh
Confidence 3556677788875 44555554332 344667777777777777765
No 227
>PLN03086 PRLI-interacting factor K; Provisional
Probab=25.33 E-value=96 Score=27.90 Aligned_cols=13 Identities=23% Similarity=0.439 Sum_probs=7.2
Q ss_pred CCCcccccccccc
Q 029826 5 PCGDVCSVCHGNF 17 (187)
Q Consensus 5 ~~~~~C~iC~~~~ 17 (187)
++.+.|+.|...+
T Consensus 451 ~~H~~C~~Cgk~f 463 (567)
T PLN03086 451 KNHVHCEKCGQAF 463 (567)
T ss_pred ccCccCCCCCCcc
Confidence 4445666665543
No 228
>KOG4080 consensus Mitochondrial ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=25.23 E-value=58 Score=24.25 Aligned_cols=27 Identities=22% Similarity=0.453 Sum_probs=17.5
Q ss_pred CcccccccccccCcEEccCCCcccHHHHHHHHHh
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWDH 40 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~ 40 (187)
-..||+|..+- =.|+.|..|.....+.
T Consensus 93 l~~CP~CGh~k-------~a~~LC~~Cy~kV~ke 119 (176)
T KOG4080|consen 93 LNTCPACGHIK-------PAHTLCDYCYAKVHKE 119 (176)
T ss_pred cccCcccCccc-------cccccHHHHHHHHHHH
Confidence 35788877752 2477888888665443
No 229
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=24.98 E-value=42 Score=30.76 Aligned_cols=29 Identities=31% Similarity=0.744 Sum_probs=19.7
Q ss_pred EEccCCCcccHHHHHHHHHhCCCCCCCCCccccc
Q 029826 21 CQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRR 54 (187)
Q Consensus 21 v~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~ 54 (187)
|+.+-|.|||++|-.+-... ++.|-+|-.
T Consensus 42 vqVPtGpWfCrKCesqeraa-----rvrCeLCP~ 70 (900)
T KOG0956|consen 42 VQVPTGPWFCRKCESQERAA-----RVRCELCPH 70 (900)
T ss_pred EecCCCchhhhhhhhhhhhc-----cceeecccC
Confidence 34578999999997653222 348888844
No 230
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=24.94 E-value=24 Score=19.07 Aligned_cols=11 Identities=18% Similarity=0.785 Sum_probs=6.8
Q ss_pred ccccccccccc
Q 029826 8 DVCSVCHGNFN 18 (187)
Q Consensus 8 ~~C~iC~~~~~ 18 (187)
.+||-|...+.
T Consensus 3 i~Cp~C~~~y~ 13 (36)
T PF13717_consen 3 ITCPNCQAKYE 13 (36)
T ss_pred EECCCCCCEEe
Confidence 45777776554
No 231
>KOG2909 consensus Vacuolar H+-ATPase V1 sector, subunit C [Energy production and conversion]
Probab=24.79 E-value=1.7e+02 Score=24.56 Aligned_cols=41 Identities=22% Similarity=0.240 Sum_probs=24.0
Q ss_pred HhhhcccccCcchhhh----HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029826 139 VYIFSPIDIIPEALLG----IVGLLDDLLIALLCFLHVAALYRAVL 180 (187)
Q Consensus 139 ~Y~~~P~D~iPd~~~~----~~G~~DD~~v~~~~~~~~~~~~~~~~ 180 (187)
+-.+++|+ |||+-.| ++|..||++=+=.-...+.+-+.+|+
T Consensus 33 ~~~vs~F~-IP~fkvgsLD~Lv~~se~L~Kld~~~e~~i~ki~~~~ 77 (381)
T KOG2909|consen 33 LSTVSKFN-IPDFKVGSLDVLVGLSEELGKLDTFVEGLIKKIAGYL 77 (381)
T ss_pred cccccccc-CCCcccccHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence 34578999 8998433 57777877654443333333334443
No 232
>TIGR01522 ATPase-IIA2_Ca golgi membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1 the former of which is modelled by TIGR01116.
Probab=24.60 E-value=3.9e+02 Score=25.42 Aligned_cols=17 Identities=0% Similarity=0.071 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHhh
Q 029826 167 LCFLHVAALYRAVLYNR 183 (187)
Q Consensus 167 ~~~~~~~~~~~~~~~~r 183 (187)
.++..+...+++|.++|
T Consensus 90 i~~~~~i~~~qe~~a~~ 106 (884)
T TIGR01522 90 ILIVVTVGFVQEYRSEK 106 (884)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44455666777776654
No 233
>PRK07375 putative monovalent cation/H+ antiporter subunit C; Reviewed
Probab=24.55 E-value=2.4e+02 Score=19.35 Aligned_cols=35 Identities=17% Similarity=0.315 Sum_probs=28.0
Q ss_pred ccccCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029826 144 PIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAV 179 (187)
Q Consensus 144 P~D~iPd~~~~~~G~~DD~~v~~~~~~~~~~~~~~~ 179 (187)
+.|-+|.. +-+...+=.+++.++++.-+...||++
T Consensus 66 ~~dplpQa-lvLtaIVI~~a~~A~~Lal~i~~yr~~ 100 (112)
T PRK07375 66 YADPLPQA-LVLTAIVIGFATTAVMLALIVKLYKDY 100 (112)
T ss_pred cCCCchHH-HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45888885 677888888888888888888888775
No 234
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=24.47 E-value=34 Score=24.78 Aligned_cols=29 Identities=21% Similarity=0.442 Sum_probs=16.7
Q ss_pred CcccccccccccCcEEccCCCcccHH-HHH
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGN-CIM 35 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~-Ci~ 35 (187)
...|.||.+....-.-..|.-.||+- |++
T Consensus 5 t~tC~ic~e~~~KYKCpkC~vPYCSl~CfK 34 (157)
T KOG2857|consen 5 TTTCVICLESEIKYKCPKCSVPYCSLPCFK 34 (157)
T ss_pred eeeehhhhcchhhccCCCCCCccccchhhh
Confidence 35677887754332233577777763 543
No 235
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=24.46 E-value=4.5e+02 Score=25.02 Aligned_cols=19 Identities=5% Similarity=0.006 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 029826 165 ALLCFLHVAALYRAVLYNR 183 (187)
Q Consensus 165 ~~~~~~~~~~~~~~~~~~r 183 (187)
+++++..+...+.++.++|
T Consensus 96 ~iv~~~~~i~~~~e~~a~k 114 (867)
T TIGR01524 96 LMVLASGLLGFIQESRAER 114 (867)
T ss_pred hHHHHHHHHHHHHHHHHHH
Confidence 3444555556666666654
No 236
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=24.42 E-value=4.2 Score=23.48 Aligned_cols=45 Identities=22% Similarity=0.535 Sum_probs=24.0
Q ss_pred ccccccccccCcEEc---cCCCcccHHHHHHHHHhCC-CCCCCCCcccc
Q 029826 9 VCSVCHGNFNVPCQA---NCSHWFCGNCIMLVWDHGS-TLQACRCPLCR 53 (187)
Q Consensus 9 ~C~iC~~~~~~pv~~---~C~H~fC~~Ci~~~~~~~~-~~~~~~Cp~Cr 53 (187)
.|.+|...-.+--++ .|+.+|-..|+........ ..+...||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 377887733332233 4777777777744332111 11246888875
No 237
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=24.23 E-value=3e+02 Score=23.16 Aligned_cols=48 Identities=19% Similarity=0.282 Sum_probs=28.2
Q ss_pred ccccccccccCcEEccCCCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 9 VCSVCHGNFNVPCQANCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 9 ~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
.|.|-.+.=-+|..=.=.-+-|..|..++--.........||.|...+
T Consensus 228 g~~ivaNyGLdP~LGKY~~TAC~rC~t~y~le~A~~~~wrCpkCGg~i 275 (403)
T COG1379 228 GCKIVANYGLDPRLGKYHLTACSRCYTRYSLEEAKSLRWRCPKCGGKI 275 (403)
T ss_pred CceEEEecCcCccccchhHHHHHHhhhccCcchhhhhcccCcccccch
Confidence 344444444455433333467899986654443333456999998766
No 238
>PF13451 zf-trcl: Probable zinc-binding domain
Probab=24.11 E-value=37 Score=19.88 Aligned_cols=20 Identities=25% Similarity=0.609 Sum_probs=13.1
Q ss_pred HHHHhCC-CCCCCCCcccccc
Q 029826 36 LVWDHGS-TLQACRCPLCRRR 55 (187)
Q Consensus 36 ~~~~~~~-~~~~~~Cp~Cr~~ 55 (187)
+||..+. .+.+..||.||+.
T Consensus 22 ~fy~eKgf~n~p~RC~~CR~~ 42 (49)
T PF13451_consen 22 KFYAEKGFDNEPKRCPSCRQA 42 (49)
T ss_pred HHHHhcCCcCCCccCHHHHHH
Confidence 4555444 2467799999874
No 239
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=23.88 E-value=19 Score=27.05 Aligned_cols=35 Identities=11% Similarity=0.351 Sum_probs=19.3
Q ss_pred CCCcccccccccccCCCcccccCCCcchhhHHHhHHHhhhhhCC
Q 029826 47 CRCPLCRRRITLLIPNDDSLRQRHDPAVGDILQKVESYNRIFGG 90 (187)
Q Consensus 47 ~~Cp~Cr~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~y~~~~s~ 90 (187)
+.||.|..++.. ..+.+..+.+.+.|+........
T Consensus 137 F~Cp~Cg~~L~~---------~dn~~~~~~l~~~I~~l~~~~~~ 171 (178)
T PRK06266 137 FRCPQCGEMLEE---------YDNSELIKELKEQIKELEEELKL 171 (178)
T ss_pred CcCCCCCCCCee---------cccHHHHHHHHHHHHHHHHHhcc
Confidence 599999887732 12233444455555555554443
No 240
>PF14494 DUF4436: Domain of unknown function (DUF4436)
Probab=23.72 E-value=34 Score=27.38 Aligned_cols=45 Identities=18% Similarity=0.351 Sum_probs=33.1
Q ss_pred HHHHHHHHHhhhccc-ccCcchhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 029826 131 YIAMIFSAVYIFSPI-DIIPEALLGIVGLLDDLLIALLCFLHVAALYR 177 (187)
Q Consensus 131 ~~~~~~~~~Y~~~P~-D~iPd~~~~~~G~~DD~~v~~~~~~~~~~~~~ 177 (187)
.+...+|+++.+-|+ +++|.. |++|-.=|++++++++..++-..=
T Consensus 202 ~l~w~aA~LFAlp~lRN~lPGa--PP~G~~iD~~~vlW~~i~l~~~m~ 247 (256)
T PF14494_consen 202 MLTWMAAMLFALPPLRNILPGA--PPIGSWIDFAGVLWVLIALVASMV 247 (256)
T ss_pred hHHHHHHHHHhhhhHhccCCCC--CCCcceEeeeehHHHHHHHHHHHH
Confidence 345566667777676 788995 568999999999888877765443
No 241
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=23.54 E-value=25 Score=20.89 Aligned_cols=12 Identities=42% Similarity=1.030 Sum_probs=5.9
Q ss_pred CCCCCccccccc
Q 029826 45 QACRCPLCRRRI 56 (187)
Q Consensus 45 ~~~~Cp~Cr~~~ 56 (187)
.+-+||.|...+
T Consensus 23 ~PatCP~C~a~~ 34 (54)
T PF09237_consen 23 QPATCPICGAVI 34 (54)
T ss_dssp --EE-TTT--EE
T ss_pred CCCCCCcchhhc
Confidence 455999998876
No 242
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=23.50 E-value=80 Score=29.33 Aligned_cols=38 Identities=18% Similarity=0.209 Sum_probs=26.3
Q ss_pred ccccccccccCcE-Ec-cCCCcccHHHHHHHHHhCCCCCCCCCcc
Q 029826 9 VCSVCHGNFNVPC-QA-NCSHWFCGNCIMLVWDHGSTLQACRCPL 51 (187)
Q Consensus 9 ~C~iC~~~~~~pv-~~-~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~ 51 (187)
.|.+|...+..-. .- .|||.--.+|+..|+...+ .||.
T Consensus 781 ~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s-----~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKAS-----PCAK 820 (839)
T ss_pred CceeecceeeeeEeecccccccccHHHHHHHHhcCC-----CCcc
Confidence 5667766554322 22 3999888999999998876 5655
No 243
>PRK08389 putative monovalent cation/H+ antiporter subunit C; Reviewed
Probab=23.32 E-value=2.6e+02 Score=19.28 Aligned_cols=35 Identities=23% Similarity=0.318 Sum_probs=28.5
Q ss_pred ccccCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 029826 144 PIDIIPEALLGIVGLLDDLLIALLCFLHVAALYRAV 179 (187)
Q Consensus 144 P~D~iPd~~~~~~G~~DD~~v~~~~~~~~~~~~~~~ 179 (187)
+.|-+|.. +-+.+.+=.+++.++++.-+...||++
T Consensus 67 ~~dplpQa-lvLtaIVI~~a~~A~~Lal~i~~yr~~ 101 (114)
T PRK08389 67 YVDPIPQA-LVLTAIVIGVSTTALALSVAIKLYEKY 101 (114)
T ss_pred CCCchhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45888885 677888888889999988888888865
No 244
>PTZ00478 Sec superfamily; Provisional
Probab=22.92 E-value=2.1e+02 Score=18.63 Aligned_cols=44 Identities=18% Similarity=0.119 Sum_probs=22.7
Q ss_pred hhhcchhHHHHHHHHhhcCCCCchhHHHHHHH--HHHHHHHHHhhh
Q 029826 99 QRIQDLPFLLRRLVRELVDPHRSLPLVIRARV--YIAMIFSAVYIF 142 (187)
Q Consensus 99 ~~l~~~p~ll~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~Y~~ 142 (187)
+.+++.-..-+++++....++..+|...-..+ -+++.|.+.|++
T Consensus 21 ~~~~eF~kds~r~vkrctKPdrkEf~kiakat~iGf~imG~IGy~I 66 (81)
T PTZ00478 21 SGVQEFANDSRRLIRKCTKPDAKEYTNIAYACSVGFFIMGFIGYSI 66 (81)
T ss_pred HHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34444444446677777766655553322211 244555666665
No 245
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=22.75 E-value=49 Score=30.98 Aligned_cols=29 Identities=28% Similarity=0.594 Sum_probs=21.3
Q ss_pred cccccccccccC-c-------E-EccCCCcccHHHHHH
Q 029826 8 DVCSVCHGNFNV-P-------C-QANCSHWFCGNCIML 36 (187)
Q Consensus 8 ~~C~iC~~~~~~-p-------v-~~~C~H~fC~~Ci~~ 36 (187)
..|..|...|.. . . --.||..||..|-..
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSn 498 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITK 498 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCC
Confidence 579999998842 1 1 136999999999754
No 246
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=22.73 E-value=28 Score=16.04 Aligned_cols=11 Identities=27% Similarity=0.911 Sum_probs=5.5
Q ss_pred ccccccccccC
Q 029826 9 VCSVCHGNFNV 19 (187)
Q Consensus 9 ~C~iC~~~~~~ 19 (187)
.|++|...+..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 45555554443
No 247
>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=22.69 E-value=7 Score=26.45 Aligned_cols=47 Identities=23% Similarity=0.601 Sum_probs=13.8
Q ss_pred cccccccccc--cCcEEccC--CCcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 8 DVCSVCHGNF--NVPCQANC--SHWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 8 ~~C~iC~~~~--~~pv~~~C--~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
..|++|.+.+ .++....| ||.| ..|......-.. .+...|+.|...+
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l~i~~-~~~r~C~~C~~~~ 65 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVW-PRCALTFLPIQT-PGVRVCPVCGRRA 65 (99)
T ss_dssp --------------SSEEE-TTS-EE-EB-SSS-SBS-S-S-EEE-TTT--EE
T ss_pred ccccccccccccCCcCEeECCCCCEE-eeeeeeeeeecc-CCeeEcCCCCCEE
Confidence 5899999854 45544544 5776 445444332222 2235899998766
No 248
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=22.58 E-value=47 Score=23.01 Aligned_cols=12 Identities=33% Similarity=0.961 Sum_probs=9.2
Q ss_pred cEEccCCCcccH
Q 029826 20 PCQANCSHWFCG 31 (187)
Q Consensus 20 pv~~~C~H~fC~ 31 (187)
-+.-.|||.||.
T Consensus 24 ~vkc~CGh~f~d 35 (112)
T PF08882_consen 24 VVKCDCGHEFCD 35 (112)
T ss_pred eeeccCCCeecC
Confidence 345579999997
No 249
>PRK04949 putative sulfate transport protein CysZ; Validated
Probab=22.01 E-value=4.1e+02 Score=21.11 Aligned_cols=17 Identities=18% Similarity=0.212 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHhhhcC
Q 029826 170 LHVAALYRAVLYNRHGG 186 (187)
Q Consensus 170 ~~~~~~~~~~~~~r~~~ 186 (187)
-.++..|-+|-..|||-
T Consensus 175 wll~~ey~d~~~~r~~~ 191 (251)
T PRK04949 175 WMMAIQYCDYPFDNHKV 191 (251)
T ss_pred HHHHHHHhHhHHHHCCC
Confidence 35778888898888864
No 250
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=21.92 E-value=52 Score=17.77 Aligned_cols=24 Identities=21% Similarity=0.822 Sum_probs=13.7
Q ss_pred CcccccccccccCcEEccCCCcccHHH
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNC 33 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~C 33 (187)
...|++|..... ...=|..||.+|
T Consensus 8 ~~~C~~C~~~~~---~~~dG~~yC~~c 31 (36)
T PF11781_consen 8 NEPCPVCGSRWF---YSDDGFYYCDRC 31 (36)
T ss_pred CCcCCCCCCeEe---EccCCEEEhhhC
Confidence 346999988732 233455555544
No 251
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=21.90 E-value=61 Score=16.67 Aligned_cols=10 Identities=20% Similarity=0.514 Sum_probs=6.1
Q ss_pred cccccccccC
Q 029826 10 CSVCHGNFNV 19 (187)
Q Consensus 10 C~iC~~~~~~ 19 (187)
|..|.+.+..
T Consensus 2 C~~C~~~i~~ 11 (39)
T smart00132 2 CAGCGKPIRG 11 (39)
T ss_pred ccccCCcccC
Confidence 6667665544
No 252
>COG3305 Predicted membrane protein [Function unknown]
Probab=21.69 E-value=3.1e+02 Score=19.64 Aligned_cols=25 Identities=32% Similarity=0.619 Sum_probs=20.9
Q ss_pred chhHHHHHHHHHHHHHHHHhhhccccc
Q 029826 121 SLPLVIRARVYIAMIFSAVYIFSPIDI 147 (187)
Q Consensus 121 ~~~~~~~~~~~~~~~~~~~Y~~~P~D~ 147 (187)
|+...-+|...+..+.+.+|+ |||+
T Consensus 88 GLW~~k~W~e~fa~vs~aIyL--PfeV 112 (152)
T COG3305 88 GLWLLKRWGEYFAVVSTAIYL--PFEV 112 (152)
T ss_pred HHHHHHHHHHHHHHHHHhhhc--chHH
Confidence 788888888888899898986 8874
No 253
>PF12773 DZR: Double zinc ribbon
Probab=21.67 E-value=59 Score=18.43 Aligned_cols=28 Identities=21% Similarity=0.354 Sum_probs=14.5
Q ss_pred CcccHHHHHHHHHhCCCCCCCCCccccccc
Q 029826 27 HWFCGNCIMLVWDHGSTLQACRCPLCRRRI 56 (187)
Q Consensus 27 H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~ 56 (187)
-.||..|=....... .....||.|...+
T Consensus 12 ~~fC~~CG~~l~~~~--~~~~~C~~Cg~~~ 39 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPD--QSKKICPNCGAEN 39 (50)
T ss_pred ccCChhhcCChhhcc--CCCCCCcCCcCCC
Confidence 346666654433111 1234788887754
No 254
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=21.56 E-value=25 Score=21.28 Aligned_cols=11 Identities=27% Similarity=1.207 Sum_probs=6.2
Q ss_pred CCCcccccccc
Q 029826 47 CRCPLCRRRIT 57 (187)
Q Consensus 47 ~~Cp~Cr~~~~ 57 (187)
..||.|++++.
T Consensus 3 v~CP~C~k~~~ 13 (57)
T PF03884_consen 3 VKCPICGKPVE 13 (57)
T ss_dssp EE-TTT--EEE
T ss_pred ccCCCCCCeec
Confidence 38999999884
No 255
>PLN02248 cellulose synthase-like protein
Probab=21.48 E-value=62 Score=31.42 Aligned_cols=29 Identities=24% Similarity=0.717 Sum_probs=24.1
Q ss_pred cCCCcccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 24 NCSHWFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 24 ~C~H~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
.|++..|.+|......... .||-|+++..
T Consensus 149 ~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~ 177 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGG-----ICPGCKEPYK 177 (1135)
T ss_pred cccchhHHhHhhhhhhcCC-----CCCCCccccc
Confidence 4888999999988777644 9999999885
No 256
>PF12132 DUF3587: Protein of unknown function (DUF3587); InterPro: IPR021982 This entry is represented by Hyposoter fugitivus ichnovirus, Gp7; it is a family of uncharacterised viral proteins.
Probab=21.11 E-value=69 Score=24.64 Aligned_cols=25 Identities=20% Similarity=0.573 Sum_probs=18.1
Q ss_pred cccCcEEccCC----CcccHHHHHHHHHh
Q 029826 16 NFNVPCQANCS----HWFCGNCIMLVWDH 40 (187)
Q Consensus 16 ~~~~pv~~~C~----H~fC~~Ci~~~~~~ 40 (187)
.+..|....|. |+||..++..|+..
T Consensus 150 ~f~~p~~~~C~~gHfHHyCs~HV~~WL~~ 178 (199)
T PF12132_consen 150 KFVKPSVDECEYGHFHHYCSQHVNSWLNN 178 (199)
T ss_pred cccCCCCCCCCCCCcChhhHHHHHHHHHH
Confidence 34556555565 78999999988875
No 257
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=21.06 E-value=1.7e+02 Score=16.41 Aligned_cols=11 Identities=18% Similarity=0.383 Sum_probs=7.8
Q ss_pred HHHHHHHhhhc
Q 029826 175 LYRAVLYNRHG 185 (187)
Q Consensus 175 ~~~~~~~~r~~ 185 (187)
+||...+++++
T Consensus 29 iYRKw~aRkr~ 39 (43)
T PF08114_consen 29 IYRKWQARKRA 39 (43)
T ss_pred HHHHHHHHHHH
Confidence 57777777765
No 258
>PRK11463 fxsA phage T7 F exclusion suppressor FxsA; Reviewed
Probab=20.96 E-value=1.5e+02 Score=21.61 Aligned_cols=27 Identities=37% Similarity=0.491 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 029826 157 GLLDDLLIALLCFLHVAALYRAVLYNR 183 (187)
Q Consensus 157 G~~DD~~v~~~~~~~~~~~~~~~~~~r 183 (187)
||+-|++-+++++--..+.+++.+.++
T Consensus 88 Gf~tD~~Gllll~P~~R~~~~~~l~~~ 114 (148)
T PRK11463 88 GFVTDILGLLLLLPPTRALLRPKLMKR 114 (148)
T ss_pred HHHHHHHHHHHHcchhHHHHHHHHHHH
Confidence 888898888888877777777766543
No 259
>TIGR00327 secE_euk_arch protein translocase SEC61 complex gamma subunit, archaeal and eukaryotic. This model describes archaeal SEC61-like and eukaryotic SEC61 but not bacterial secE proteins, for which a Pfam pfam00584 (SecE) has been created.
Probab=20.91 E-value=2.2e+02 Score=17.47 Aligned_cols=21 Identities=10% Similarity=-0.083 Sum_probs=10.5
Q ss_pred chhHHHHHHHHhhcCCCCchh
Q 029826 103 DLPFLLRRLVRELVDPHRSLP 123 (187)
Q Consensus 103 ~~p~ll~~l~~~~~~~~~~~~ 123 (187)
+.-.--.++++....++..+|
T Consensus 8 ~f~k~~~r~lk~~~KPd~~Ef 28 (61)
T TIGR00327 8 EFIKEGTRVLAVCKKPDLEEY 28 (61)
T ss_pred HHHHHHHHHHHHhcCCCHHHH
Confidence 333344555555555554444
No 260
>PF10642 Tom5: Mitochondrial import receptor subunit or translocase; InterPro: IPR019603 This entry represents a short family of yeast proteins. Tom5 is one of three very small translocases of the mitochondrial outer membrane. Tom5 links mitochondrial preprotein receptors to the general import pore []. Although Tom5 has allegedly been identified in vertebrates this could not be confirmed.
Probab=20.91 E-value=51 Score=19.31 Aligned_cols=13 Identities=31% Similarity=0.516 Sum_probs=8.7
Q ss_pred HHHHHHHHhhhccc
Q 029826 132 IAMIFSAVYIFSPI 145 (187)
Q Consensus 132 ~~~~~~~~Y~~~P~ 145 (187)
++.+++++| +||+
T Consensus 28 a~~~a~~Ly-lsP~ 40 (49)
T PF10642_consen 28 AAAAAALLY-LSPF 40 (49)
T ss_pred HHHHHHHHH-HhHH
Confidence 556667778 5675
No 261
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=20.74 E-value=65 Score=18.19 Aligned_cols=23 Identities=35% Similarity=0.567 Sum_probs=13.1
Q ss_pred cccccccccCcEEccCCCcccHH
Q 029826 10 CSVCHGNFNVPCQANCSHWFCGN 32 (187)
Q Consensus 10 C~iC~~~~~~pv~~~C~H~fC~~ 32 (187)
|..|...-..=+-+.|+|.+|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCC
Confidence 56666543322445688888754
No 262
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=20.48 E-value=48 Score=24.01 Aligned_cols=13 Identities=46% Similarity=1.068 Sum_probs=10.2
Q ss_pred CCCCccccccccc
Q 029826 46 ACRCPLCRRRITL 58 (187)
Q Consensus 46 ~~~Cp~Cr~~~~~ 58 (187)
.+.||-||+.+.-
T Consensus 9 ei~CPhCRQ~ipA 21 (163)
T TIGR02652 9 EIRCPHCRQNIPA 21 (163)
T ss_pred cCcCchhhcccch
Confidence 3589999998863
No 263
>MTH00195 ND1 NADH dehydrogenase subunit 1; Provisional
Probab=20.39 E-value=4.8e+02 Score=21.33 Aligned_cols=45 Identities=16% Similarity=0.126 Sum_probs=27.0
Q ss_pred HHhhhhhCCCCCCCccchhhcchhHHHHHHHHhhcCCCCchhHHHHH
Q 029826 82 ESYNRIFGGPTTANGLFQRIQDLPFLLRRLVRELVDPHRSLPLVIRA 128 (187)
Q Consensus 82 ~~y~~~~s~~~~~~~~~~~l~~~p~ll~~l~~~~~~~~~~~~~~~~~ 128 (187)
...++|.+..+ .+...-++..-|.+|.+.|+..-+.+.....+..
T Consensus 31 a~~Q~R~GP~~--~g~~GilQp~~D~~KLl~Ke~i~p~~~~~~lf~~ 75 (307)
T MTH00195 31 GYIQLRKGPNK--VGPYGLLQPIADAVKLFIKEPVKPSTSSLWLFFF 75 (307)
T ss_pred HHHcCCCCCCc--cCccccchHHhHHHHHHHhcCcchhhhhHHHHHH
Confidence 44455555554 4555567788888888888866544443333333
No 264
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=20.38 E-value=49 Score=23.91 Aligned_cols=13 Identities=38% Similarity=0.974 Sum_probs=9.9
Q ss_pred CCCCccccccccc
Q 029826 46 ACRCPLCRRRITL 58 (187)
Q Consensus 46 ~~~Cp~Cr~~~~~ 58 (187)
.+.||-||+.+.-
T Consensus 6 ei~CPhCRq~ipA 18 (161)
T PF09654_consen 6 EIQCPHCRQTIPA 18 (161)
T ss_pred cCcCchhhcccch
Confidence 3589999988763
No 265
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=20.30 E-value=90 Score=25.09 Aligned_cols=51 Identities=20% Similarity=0.559 Sum_probs=34.4
Q ss_pred CCCCcccccccccccC----cEEccCCC-----cccHHHHHHHHHhCCCCCCCCCcccccccc
Q 029826 4 PPCGDVCSVCHGNFNV----PCQANCSH-----WFCGNCIMLVWDHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 4 ~~~~~~C~iC~~~~~~----pv~~~C~H-----~fC~~Ci~~~~~~~~~~~~~~Cp~Cr~~~~ 57 (187)
|.++..|-||...... +...+|.- ..-..|++.|...+. ...|..|.....
T Consensus 75 ~~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~---~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 75 PSSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKG---NITCEICKSFFI 134 (323)
T ss_pred CCCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhcccc---Ceeeecccccce
Confidence 4445789999985432 45666542 235789999988543 459999987664
No 266
>PTZ00218 40S ribosomal protein S29; Provisional
Probab=20.20 E-value=69 Score=19.16 Aligned_cols=31 Identities=16% Similarity=0.314 Sum_probs=23.2
Q ss_pred CcccccccccccCcEEccCCCcccHHHHHHHHH
Q 029826 7 GDVCSVCHGNFNVPCQANCSHWFCGNCIMLVWD 39 (187)
Q Consensus 7 ~~~C~iC~~~~~~pv~~~C~H~fC~~Ci~~~~~ 39 (187)
...|.+|... ..+.-..|-..|..|..++-.
T Consensus 16 sr~C~vCg~~--~gliRkygL~~CRqCFRe~A~ 46 (54)
T PTZ00218 16 SRQCRVCSNR--HGLIRKYGLNVCRQCFRENAE 46 (54)
T ss_pred CCeeecCCCc--chhhhhcCcchhhHHHHHhhH
Confidence 4689999883 456667787899999987654
No 267
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=20.02 E-value=30 Score=32.26 Aligned_cols=52 Identities=13% Similarity=0.301 Sum_probs=30.8
Q ss_pred CCcccccccccccCc--EEccCCCcccHHHHHHHH-HhCCCCCCCCCcccccccc
Q 029826 6 CGDVCSVCHGNFNVP--CQANCSHWFCGNCIMLVW-DHGSTLQACRCPLCRRRIT 57 (187)
Q Consensus 6 ~~~~C~iC~~~~~~p--v~~~C~H~fC~~Ci~~~~-~~~~~~~~~~Cp~Cr~~~~ 57 (187)
....|..|.....+- +-..||+.+|..|+..|. +.......-.|++|+..-+
T Consensus 228 ~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C~ 282 (889)
T KOG1356|consen 228 IREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKCN 282 (889)
T ss_pred cchhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhcC
Confidence 345688888866542 233599999999998874 1111111225666555443
Done!