Query 025405
Match_columns 253
No_of_seqs 131 out of 170
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 05:28:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025405.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025405hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11789 zf-Nse: Zinc-finger o 99.9 2.8E-23 6.1E-28 148.5 2.2 57 144-207 1-57 (57)
2 KOG2979 Protein involved in DN 99.8 8.1E-20 1.8E-24 164.1 11.6 72 154-229 173-246 (262)
3 COG5627 MMS21 DNA repair prote 99.6 3.1E-16 6.8E-21 139.5 5.4 100 123-229 149-262 (275)
4 smart00504 Ubox Modified RING 99.1 3.7E-11 8E-16 85.5 4.2 60 158-226 2-61 (63)
5 PF04564 U-box: U-box domain; 99.1 4.4E-11 9.4E-16 89.0 4.2 65 157-229 4-68 (73)
6 PF02891 zf-MIZ: MIZ/SP-RING z 98.3 2.8E-07 6.1E-12 64.2 1.6 47 156-208 1-49 (50)
7 KOG0320 Predicted E3 ubiquitin 98.1 1.2E-06 2.7E-11 75.7 1.9 53 157-216 131-183 (187)
8 PLN03208 E3 ubiquitin-protein 98.0 4.3E-06 9.3E-11 73.4 3.9 55 157-217 18-85 (193)
9 PF13445 zf-RING_UBOX: RING-ty 97.5 3.7E-05 8.1E-10 52.0 1.5 38 160-202 1-43 (43)
10 TIGR00570 cdk7 CDK-activating 97.4 0.00023 5E-09 66.6 5.7 71 158-235 4-86 (309)
11 PF13923 zf-C3HC4_2: Zinc fing 97.3 0.00012 2.6E-09 47.7 2.0 38 160-203 1-38 (39)
12 PF04641 Rtf2: Rtf2 RING-finge 97.2 0.00027 5.9E-09 64.3 3.7 55 156-216 112-166 (260)
13 COG5222 Uncharacterized conser 97.2 0.00024 5.1E-09 66.3 3.1 65 154-225 271-336 (427)
14 TIGR00599 rad18 DNA repair pro 97.2 0.0004 8.6E-09 67.2 4.8 64 157-229 26-89 (397)
15 PF15227 zf-C3HC4_4: zinc fing 97.1 0.00036 7.8E-09 46.7 2.0 40 160-203 1-41 (42)
16 KOG2164 Predicted E3 ubiquitin 97.0 0.00047 1E-08 68.0 2.8 55 157-217 186-242 (513)
17 KOG2169 Zn-finger transcriptio 96.6 0.0021 4.6E-08 65.6 4.1 74 141-223 293-368 (636)
18 PF04641 Rtf2: Rtf2 RING-finge 96.4 0.0025 5.4E-08 58.0 3.3 56 157-216 34-89 (260)
19 KOG0823 Predicted E3 ubiquitin 96.2 0.0036 7.9E-08 56.3 2.8 55 157-217 47-101 (230)
20 PF13639 zf-RING_2: Ring finge 96.2 0.0022 4.7E-08 42.6 1.0 41 159-203 2-42 (44)
21 PF00097 zf-C3HC4: Zinc finger 96.0 0.0039 8.6E-08 40.5 1.9 40 160-203 1-40 (41)
22 cd00162 RING RING-finger (Real 96.0 0.0065 1.4E-07 38.8 2.7 43 159-208 1-43 (45)
23 KOG2817 Predicted E3 ubiquitin 96.0 0.0037 8E-08 60.1 2.0 56 157-215 334-389 (394)
24 KOG0978 E3 ubiquitin ligase in 95.8 0.022 4.8E-07 58.6 7.1 53 157-217 643-695 (698)
25 KOG3039 Uncharacterized conser 95.7 0.0049 1.1E-07 56.3 1.5 35 155-193 40-75 (303)
26 KOG0289 mRNA splicing factor [ 95.5 0.0067 1.5E-07 59.2 1.8 52 158-217 1-52 (506)
27 PF14835 zf-RING_6: zf-RING of 95.2 0.029 6.2E-07 41.3 3.8 56 157-222 7-62 (65)
28 KOG0317 Predicted E3 ubiquitin 95.0 0.014 2.9E-07 54.3 2.0 51 157-216 239-289 (293)
29 PHA02929 N1R/p28-like protein; 95.0 0.023 5E-07 51.6 3.4 47 157-210 174-226 (238)
30 KOG3113 Uncharacterized conser 94.5 0.021 4.6E-07 52.3 2.1 53 157-216 111-163 (293)
31 KOG2177 Predicted E3 ubiquitin 94.2 0.081 1.8E-06 45.5 5.0 55 157-222 13-67 (386)
32 COG3364 Zn-ribbon containing p 93.9 0.028 6.1E-07 45.0 1.3 37 173-216 2-38 (112)
33 KOG3039 Uncharacterized conser 93.9 0.035 7.6E-07 50.8 2.1 53 156-216 220-275 (303)
34 KOG0297 TNF receptor-associate 93.5 0.071 1.5E-06 51.5 3.7 60 157-224 21-80 (391)
35 KOG0826 Predicted E3 ubiquitin 93.5 0.044 9.6E-07 51.8 2.1 47 157-209 300-346 (357)
36 PF09845 DUF2072: Zn-ribbon co 93.3 0.044 9.6E-07 45.6 1.6 30 173-209 1-30 (131)
37 KOG1813 Predicted E3 ubiquitin 93.2 0.068 1.5E-06 50.0 2.8 62 154-225 238-299 (313)
38 smart00184 RING Ring finger. E 93.2 0.074 1.6E-06 32.4 2.2 38 160-203 1-38 (39)
39 KOG2660 Locus-specific chromos 93.2 0.03 6.5E-07 52.9 0.5 59 157-223 15-77 (331)
40 KOG0287 Postreplication repair 92.9 0.041 8.8E-07 52.5 0.9 61 157-226 23-83 (442)
41 COG5109 Uncharacterized conser 92.6 0.053 1.2E-06 51.2 1.3 53 157-212 336-388 (396)
42 COG5220 TFB3 Cdk activating ki 92.5 0.05 1.1E-06 49.7 0.9 74 157-234 10-95 (314)
43 PF13920 zf-C3HC4_3: Zinc fing 92.2 0.13 2.9E-06 34.9 2.5 46 157-211 2-48 (50)
44 COG5574 PEX10 RING-finger-cont 91.9 0.082 1.8E-06 48.7 1.6 52 156-215 214-266 (271)
45 KOG0311 Predicted E3 ubiquitin 91.1 0.037 8E-07 52.8 -1.6 78 155-239 41-134 (381)
46 PF02146 SIR2: Sir2 family; I 90.9 0.22 4.7E-06 42.4 3.1 65 174-248 106-174 (178)
47 PF14634 zf-RING_5: zinc-RING 90.0 0.32 6.9E-06 32.3 2.7 42 160-207 2-43 (44)
48 cd01408 SIRT1 SIRT1: Eukaryoti 89.4 0.55 1.2E-05 42.1 4.6 68 174-248 117-186 (235)
49 PRK14138 NAD-dependent deacety 89.0 0.62 1.3E-05 42.1 4.6 65 174-248 120-189 (244)
50 PRK05333 NAD-dependent deacety 88.8 0.84 1.8E-05 42.1 5.4 66 174-248 129-225 (285)
51 COG5432 RAD18 RING-finger-cont 87.6 0.3 6.5E-06 45.9 1.7 55 157-220 25-79 (391)
52 cd01410 SIRT7 SIRT7: Eukaryoti 87.3 0.94 2E-05 39.9 4.6 67 173-248 95-166 (206)
53 cd00350 rubredoxin_like Rubred 86.9 0.36 7.7E-06 30.5 1.2 24 174-208 2-25 (33)
54 PHA00626 hypothetical protein 86.1 0.54 1.2E-05 33.8 1.9 20 171-190 21-40 (59)
55 PLN03086 PRLI-interacting fact 85.6 0.55 1.2E-05 47.7 2.5 40 168-210 448-487 (567)
56 KOG3800 Predicted E3 ubiquitin 85.3 1 2.2E-05 42.1 3.9 51 159-216 2-56 (300)
57 KOG1645 RING-finger-containing 84.9 0.37 8E-06 47.0 0.8 58 158-221 5-66 (463)
58 KOG2042 Ubiquitin fusion degra 84.7 1.1 2.3E-05 48.0 4.2 64 157-228 870-933 (943)
59 TIGR02605 CxxC_CxxC_SSSS putat 84.5 0.4 8.6E-06 32.8 0.6 29 174-206 6-34 (52)
60 cd01413 SIR2_Af2 SIR2_Af2: Arc 83.6 2.3 5E-05 37.7 5.3 64 174-248 114-182 (222)
61 COG5152 Uncharacterized conser 82.9 0.65 1.4E-05 41.5 1.5 53 146-208 186-238 (259)
62 smart00834 CxxC_CXXC_SSSS Puta 82.0 0.59 1.3E-05 30.1 0.6 30 174-209 6-35 (41)
63 cd01407 SIR2-fam SIR2 family o 81.9 1 2.3E-05 39.6 2.4 64 174-248 110-178 (218)
64 KOG1002 Nucleotide excision re 81.0 0.73 1.6E-05 46.6 1.2 51 157-213 536-588 (791)
65 cd01411 SIR2H SIR2H: Uncharact 80.5 2.5 5.4E-05 37.6 4.3 59 174-248 119-182 (225)
66 KOG2979 Protein involved in DN 80.2 1.1 2.5E-05 41.2 2.1 49 156-211 212-260 (262)
67 PF09723 Zn-ribbon_8: Zinc rib 80.0 0.63 1.4E-05 31.0 0.3 29 174-208 6-34 (42)
68 PF12861 zf-Apc11: Anaphase-pr 78.9 2.5 5.4E-05 32.8 3.3 53 156-212 31-83 (85)
69 PHA02926 zinc finger-like prot 78.9 2 4.3E-05 39.0 3.1 48 157-209 170-228 (242)
70 cd01409 SIRT4 SIRT4: Eukaryoti 78.7 2.9 6.4E-05 38.1 4.3 18 174-191 119-136 (260)
71 smart00806 AIP3 Actin interact 78.2 21 0.00046 35.2 10.1 81 18-107 210-290 (426)
72 PTZ00410 NAD-dependent SIR2; P 77.7 3.1 6.6E-05 40.0 4.2 64 174-248 148-216 (349)
73 TIGR02300 FYDLN_acid conserved 77.6 1.5 3.2E-05 36.4 1.8 30 158-187 10-40 (129)
74 PRK00481 NAD-dependent deacety 77.3 4.6 0.0001 36.1 5.1 61 174-248 123-188 (242)
75 PF10571 UPF0547: Uncharacteri 77.2 1.7 3.7E-05 26.3 1.5 25 159-185 2-26 (26)
76 KOG2879 Predicted E3 ubiquitin 76.9 1.8 4E-05 40.3 2.4 47 156-208 238-284 (298)
77 PTZ00409 Sir2 (Silent Informat 76.4 5.2 0.00011 36.9 5.3 65 174-248 138-210 (271)
78 COG5113 UFD2 Ubiquitin fusion 76.0 3.3 7.1E-05 42.9 4.1 64 157-230 854-919 (929)
79 smart00531 TFIIE Transcription 74.6 1.9 4.1E-05 36.0 1.7 37 175-214 101-137 (147)
80 PF12678 zf-rbx1: RING-H2 zinc 74.4 2.5 5.4E-05 31.3 2.1 28 173-203 44-71 (73)
81 KOG1814 Predicted E3 ubiquitin 74.4 1.2 2.7E-05 43.5 0.6 61 177-237 203-273 (445)
82 cd00729 rubredoxin_SM Rubredox 74.2 1.9 4.1E-05 27.5 1.3 24 174-206 3-26 (34)
83 PF05605 zf-Di19: Drought indu 74.1 2.4 5.3E-05 29.3 1.9 34 174-209 3-40 (54)
84 COG3357 Predicted transcriptio 73.2 1.7 3.7E-05 34.2 1.0 30 170-208 55-84 (97)
85 PTZ00408 NAD-dependent deacety 71.5 4.6 0.0001 36.6 3.6 65 174-248 118-183 (242)
86 KOG1812 Predicted E3 ubiquitin 69.4 2.5 5.4E-05 40.9 1.5 41 176-216 165-208 (384)
87 smart00647 IBR In Between Ring 68.9 3.4 7.3E-05 28.6 1.7 31 183-213 3-33 (64)
88 PF03915 AIP3: Actin interacti 68.8 67 0.0014 31.8 11.2 83 16-107 204-286 (424)
89 PF09538 FYDLN_acid: Protein o 68.2 3.5 7.5E-05 33.2 1.8 29 158-186 10-39 (108)
90 cd00296 SIR2 SIR2 superfamily 67.6 3.7 8.1E-05 35.6 2.1 65 174-248 114-180 (222)
91 COG4530 Uncharacterized protei 66.5 4.1 8.8E-05 33.3 1.9 33 158-190 10-43 (129)
92 KOG0883 Cyclophilin type, U bo 66.5 3.4 7.3E-05 40.5 1.7 50 158-216 41-90 (518)
93 PF01485 IBR: IBR domain; Int 65.9 1.9 4.2E-05 29.7 -0.0 36 183-218 3-38 (64)
94 KOG4362 Transcriptional regula 65.6 3.1 6.8E-05 43.1 1.4 56 156-217 20-75 (684)
95 PF11793 FANCL_C: FANCL C-term 65.5 3.7 8E-05 30.2 1.4 55 157-213 2-68 (70)
96 KOG1734 Predicted RING-contain 63.8 2.8 6E-05 39.2 0.6 58 171-232 245-302 (328)
97 COG5540 RING-finger-containing 63.7 3.9 8.4E-05 38.8 1.5 48 158-210 324-371 (374)
98 COG1773 Rubredoxin [Energy pro 63.2 4 8.7E-05 29.2 1.1 13 174-186 4-16 (55)
99 PHA00732 hypothetical protein 62.8 7.5 0.00016 29.4 2.7 37 173-211 1-38 (79)
100 cd00730 rubredoxin Rubredoxin; 62.7 4.6 0.0001 28.1 1.4 35 174-208 2-44 (50)
101 cd01412 SIRT5_Af1_CobB SIRT5_A 61.9 11 0.00024 33.2 4.0 48 174-228 110-162 (224)
102 PRK11088 rrmA 23S rRNA methylt 60.9 4.7 0.0001 36.4 1.5 36 157-193 2-39 (272)
103 PF14311 DUF4379: Domain of un 59.8 5.8 0.00013 27.5 1.5 26 174-203 29-54 (55)
104 KOG1815 Predicted E3 ubiquitin 59.6 14 0.0003 36.2 4.6 77 157-236 70-157 (444)
105 KOG2682 NAD-dependent histone 59.6 4.4 9.5E-05 37.5 1.0 63 178-248 158-223 (314)
106 PRK11827 hypothetical protein; 59.5 6 0.00013 28.7 1.5 35 158-192 9-46 (60)
107 PF10426 zf-RAG1: Recombinatio 59.4 2.4 5.2E-05 26.7 -0.5 15 199-213 3-17 (30)
108 COG1592 Rubrerythrin [Energy p 59.2 4.8 0.0001 34.9 1.1 27 158-185 135-161 (166)
109 PF13719 zinc_ribbon_5: zinc-r 57.2 4.5 9.8E-05 26.1 0.5 12 173-184 25-36 (37)
110 PF13717 zinc_ribbon_4: zinc-r 57.1 4.6 9.9E-05 26.1 0.5 10 174-183 26-35 (36)
111 PF06416 DUF1076: Protein of u 56.1 8.9 0.00019 31.2 2.1 36 157-193 40-78 (113)
112 KOG4642 Chaperone-dependent E3 55.1 10 0.00022 35.2 2.6 62 157-226 211-272 (284)
113 COG0846 SIR2 NAD-dependent pro 52.8 19 0.00042 32.9 4.1 62 173-241 122-189 (250)
114 KOG2462 C2H2-type Zn-finger pr 52.0 7 0.00015 36.4 1.1 37 172-210 214-253 (279)
115 KOG0824 Predicted E3 ubiquitin 51.7 9.5 0.00021 36.1 1.9 45 159-211 9-53 (324)
116 KOG4628 Predicted E3 ubiquitin 49.8 10 0.00023 36.4 1.9 51 159-214 231-281 (348)
117 smart00659 RPOLCX RNA polymera 49.6 8.9 0.00019 25.9 1.0 25 174-208 3-27 (44)
118 TIGR00373 conserved hypothetic 48.5 14 0.00031 31.3 2.4 33 174-214 110-142 (158)
119 PF03604 DNA_RNApol_7kD: DNA d 48.5 9.7 0.00021 24.2 1.0 11 171-181 15-25 (32)
120 PF06008 Laminin_I: Laminin Do 48.5 62 0.0014 29.2 6.7 35 14-48 76-110 (264)
121 PF14353 CpXC: CpXC protein 48.3 12 0.00026 30.0 1.8 34 174-209 2-47 (128)
122 PF13779 DUF4175: Domain of un 47.8 1E+02 0.0022 33.1 8.9 55 12-68 428-482 (820)
123 PF01530 zf-C2HC: Zinc finger, 47.5 8.5 0.00018 24.4 0.6 11 199-209 2-12 (31)
124 TIGR02302 aProt_lowcomp conser 47.1 1.1E+02 0.0023 33.1 8.9 53 15-69 462-514 (851)
125 KOG0827 Predicted E3 ubiquitin 46.7 12 0.00027 36.6 1.9 46 162-210 11-61 (465)
126 PF02176 zf-TRAF: TRAF-type zi 46.3 4.2 9.1E-05 28.1 -1.0 44 173-216 9-58 (60)
127 PRK00398 rpoP DNA-directed RNA 45.7 10 0.00022 25.4 0.8 28 173-209 3-30 (46)
128 PF04799 Fzo_mitofusin: fzo-li 45.6 97 0.0021 27.0 7.0 39 10-48 82-121 (171)
129 KOG0828 Predicted E3 ubiquitin 45.3 8.4 0.00018 38.8 0.5 26 178-205 605-630 (636)
130 COG5627 MMS21 DNA repair prote 45.0 7.8 0.00017 35.6 0.2 42 157-211 231-272 (275)
131 PRK00448 polC DNA polymerase I 44.8 34 0.00074 38.7 5.2 76 145-236 879-961 (1437)
132 COG1996 RPC10 DNA-directed RNA 44.1 10 0.00022 26.5 0.7 28 174-210 7-34 (49)
133 PF03966 Trm112p: Trm112p-like 42.4 13 0.00029 26.8 1.1 10 174-183 54-63 (68)
134 KOG1001 Helicase-like transcri 39.9 10 0.00022 39.5 0.2 53 158-218 455-507 (674)
135 COG2331 Uncharacterized protei 39.8 10 0.00023 28.9 0.2 30 173-208 12-41 (82)
136 PF00301 Rubredoxin: Rubredoxi 39.0 12 0.00027 25.7 0.4 34 174-207 2-43 (47)
137 PRK06266 transcription initiat 38.7 29 0.00063 30.0 2.8 46 176-229 120-166 (178)
138 cd00924 Cyt_c_Oxidase_Vb Cytoc 38.6 14 0.0003 29.2 0.8 14 171-184 77-90 (97)
139 COG1655 Uncharacterized protei 38.4 15 0.00033 33.7 1.0 32 185-220 8-39 (267)
140 PHA00733 hypothetical protein 38.4 53 0.0011 26.9 4.2 39 171-211 71-110 (128)
141 PLN03086 PRLI-interacting fact 37.8 23 0.00049 36.3 2.3 44 173-216 407-451 (567)
142 PF06676 DUF1178: Protein of u 35.6 29 0.00063 29.5 2.3 32 174-208 6-42 (148)
143 KOG4797 Transcriptional regula 34.8 2.5E+02 0.0055 22.9 7.4 39 5-43 21-59 (123)
144 COG1545 Predicted nucleic-acid 34.5 21 0.00045 29.7 1.2 19 174-203 30-48 (140)
145 PF13465 zf-H2C2_2: Zinc-finge 34.4 19 0.00041 21.2 0.7 14 171-184 12-25 (26)
146 COG5219 Uncharacterized conser 34.3 23 0.0005 38.7 1.7 35 174-211 1489-1523(1525)
147 KOG2462 C2H2-type Zn-finger pr 34.1 35 0.00077 31.9 2.7 35 173-209 187-224 (279)
148 PF12325 TMF_TATA_bd: TATA ele 32.9 2.7E+02 0.0059 22.7 10.7 35 5-39 10-44 (120)
149 PF06013 WXG100: Proteins of 1 32.5 1.7E+02 0.0037 20.3 7.7 29 57-88 53-81 (86)
150 PRK03824 hypA hydrogenase nick 30.7 24 0.00053 29.1 1.0 13 174-186 71-83 (135)
151 KOG2683 Sirtuin 4 and related 30.6 37 0.0008 31.5 2.2 21 173-193 157-177 (305)
152 KOG2684 Sirtuin 5 and related 30.3 31 0.00066 34.0 1.7 32 174-208 204-235 (412)
153 COG1592 Rubrerythrin [Energy p 30.1 30 0.00066 29.9 1.5 23 174-208 135-157 (166)
154 PRK11032 hypothetical protein; 29.7 3.6E+02 0.0079 23.2 11.2 35 174-217 125-160 (160)
155 PF10915 DUF2709: Protein of u 28.9 33 0.00072 30.7 1.6 52 157-223 87-141 (238)
156 KOG0804 Cytoplasmic Zn-finger 28.8 28 0.0006 34.7 1.2 43 159-211 177-222 (493)
157 PF08265 YL1_C: YL1 nuclear pr 28.3 35 0.00076 21.4 1.2 16 159-175 2-17 (30)
158 PRK03681 hypA hydrogenase nick 28.2 30 0.00066 27.7 1.1 25 174-208 71-95 (114)
159 KOG3113 Uncharacterized conser 27.3 37 0.00079 31.6 1.6 34 157-193 34-67 (293)
160 PF13913 zf-C2HC_2: zinc-finge 27.3 46 0.00099 19.6 1.5 20 174-193 3-22 (25)
161 COG0229 Conserved domain frequ 27.2 44 0.00094 28.2 1.9 34 152-185 62-107 (140)
162 PF13912 zf-C2H2_6: C2H2-type 27.1 32 0.0007 19.7 0.9 15 173-187 1-15 (27)
163 PF10157 DUF2365: Uncharacteri 26.7 4E+02 0.0086 22.6 9.1 36 13-48 54-89 (149)
164 KOG2150 CCR4-NOT transcription 26.3 4.3E+02 0.0094 27.3 9.0 75 27-108 10-90 (575)
165 PRK12380 hydrogenase nickel in 26.3 34 0.00074 27.4 1.1 23 174-205 71-93 (113)
166 COG3024 Uncharacterized protei 26.0 33 0.00071 25.3 0.9 27 156-182 6-36 (65)
167 COG4640 Predicted membrane pro 25.7 38 0.00083 33.4 1.5 25 159-185 3-27 (465)
168 PF01155 HypA: Hydrogenase exp 25.7 18 0.0004 28.8 -0.6 24 174-208 71-94 (113)
169 PF11172 DUF2959: Protein of u 25.3 5E+02 0.011 23.3 10.2 71 11-86 25-95 (201)
170 PF01608 I_LWEQ: I/LWEQ domain 24.9 3.5E+02 0.0076 23.1 7.0 20 67-86 127-146 (152)
171 KOG4159 Predicted E3 ubiquitin 24.9 45 0.00098 32.7 1.8 46 157-211 84-129 (398)
172 PRK10869 recombination and rep 23.4 7.7E+02 0.017 24.9 10.4 101 7-109 218-337 (553)
173 PF15076 DUF4543: Domain of un 23.1 50 0.0011 24.6 1.3 18 216-233 31-48 (75)
174 KOG1493 Anaphase-promoting com 22.7 32 0.00069 26.4 0.3 53 156-212 30-82 (84)
175 KOG3277 Uncharacterized conser 22.1 32 0.00069 29.7 0.2 33 170-208 76-112 (165)
176 PF06739 SBBP: Beta-propeller 21.6 65 0.0014 20.7 1.5 17 231-247 20-36 (38)
177 KOG0802 E3 ubiquitin ligase [P 21.6 40 0.00088 33.9 0.8 46 158-211 292-341 (543)
178 PRK05452 anaerobic nitric oxid 21.3 44 0.00096 33.1 1.0 38 171-208 423-468 (479)
179 KOG3850 Predicted membrane pro 21.2 7.1E+02 0.015 24.8 9.0 80 17-98 262-352 (455)
180 TIGR01206 lysW lysine biosynth 21.0 68 0.0015 22.7 1.7 10 158-167 3-12 (54)
181 PF05769 DUF837: Protein of un 20.7 5E+02 0.011 22.5 7.4 72 18-89 24-101 (181)
182 PRK01343 zinc-binding protein; 20.6 52 0.0011 23.7 1.0 27 156-182 8-34 (57)
183 PF07282 OrfB_Zn_ribbon: Putat 20.5 66 0.0014 22.8 1.5 31 157-187 28-60 (69)
184 PLN02294 cytochrome c oxidase 20.4 45 0.00098 29.1 0.8 14 171-184 139-152 (174)
185 KOG3507 DNA-directed RNA polym 20.1 43 0.00093 24.4 0.5 12 171-182 35-46 (62)
No 1
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=99.87 E-value=2.8e-23 Score=148.54 Aligned_cols=57 Identities=23% Similarity=0.577 Sum_probs=39.1
Q ss_pred cceeeecccCccccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccc
Q 025405 144 EDIVMTSTQSNILNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQ 207 (253)
Q Consensus 144 dDi~v~~~q~~~~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~ 207 (253)
|||+|++ +++|++||||+++ |++||+|++|||+|||++|++||+ +++..+||++||+
T Consensus 1 ddi~i~~---~~~~~~CPiT~~~---~~~PV~s~~C~H~fek~aI~~~i~-~~~~~~CPv~GC~ 57 (57)
T PF11789_consen 1 DDIVIEG---GTISLKCPITLQP---FEDPVKSKKCGHTFEKEAILQYIQ-RNGSKRCPVAGCN 57 (57)
T ss_dssp S-----S---SB--SB-TTTSSB----SSEEEESSS--EEEHHHHHHHCT-TTS-EE-SCCC-S
T ss_pred CceEEec---cEeccCCCCcCCh---hhCCcCcCCCCCeecHHHHHHHHH-hcCCCCCCCCCCC
Confidence 6889886 4579999999976 599999999999999999999996 7789999999996
No 2
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=99.82 E-value=8.1e-20 Score=164.08 Aligned_cols=72 Identities=25% Similarity=0.345 Sum_probs=67.1
Q ss_pred ccccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccc--ccccCcccccHhHhhHhHHHH
Q 025405 154 NILNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL--YFNWKKCVFKYHLKGHMLFMQ 229 (253)
Q Consensus 154 ~~~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~--~l~~~dL~~D~~l~~~~~~~~ 229 (253)
++++++||||++|| +|||+|++|||+|+|++|++|+. ....++|||+||++ .+....+.+|..|++++|.||
T Consensus 173 e~fs~rdPis~~~I---~nPviSkkC~HvydrDsI~~~l~-~~~~i~CPv~gC~~~~~~~~~~l~~d~el~~kIr~~q 246 (262)
T KOG2979|consen 173 EVFSNRDPISKKPI---VNPVISKKCGHVYDRDSIMQILC-DEITIRCPVLGCENPYYIQPGHLDEDKELQQKIRQSQ 246 (262)
T ss_pred hhhcccCchhhhhh---hchhhhcCcCcchhhhhHHHHhc-cCceeecccccCCccccccccccCchHHHHHHHHHhc
Confidence 56899999999986 99999999999999999999998 56789999999995 799999999999999999987
No 3
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=99.62 E-value=3.1e-16 Score=139.48 Aligned_cols=100 Identities=15% Similarity=0.134 Sum_probs=83.2
Q ss_pred hhHHHHhhhccCCCC--------CCCCC-CcceeeecccCccccccCCCCccccccccCCcccCCCCcccchhhHhhhhh
Q 025405 123 KFREAVWNVHHAGEL--------MPGEE-QEDIVMTSTQSNILNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCS 193 (253)
Q Consensus 123 ~Fke~I~~v~~~g~p--------~p~de-ddDi~v~~~q~~~~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~ 193 (253)
.|+++||+..+...+ .|.|+ -|||.|.+ +.++.+||||++|. .-|.-|++|+|.||+++|..|++
T Consensus 149 ~~~~yIw~~~~~~~~d~~~mks~npee~~~d~i~I~~---~~~~nrCpitl~p~---~~pils~kcnh~~e~D~I~~~lq 222 (275)
T COG5627 149 SMDEYIWRAEALKAADNIVMKSPNPEEGLVDKILIHQ---ELLSNRCPITLNPD---FYPILSSKCNHKPEMDLINKKLQ 222 (275)
T ss_pred EeehhhhcCccccccccccccCCChhhhhhhhhhhhh---hhhcccCCcccCcc---hhHHHHhhhcccccHHHHHHHhc
Confidence 999999998653222 22222 26788765 45899999999996 89999999999999999999997
Q ss_pred cCCCCCCccccccccccccCcccccHhHhhH-----hHHHH
Q 025405 194 LDCYFPRCNHFGCQLYFNWKKCVFKYHLKGH-----MLFMQ 229 (253)
Q Consensus 194 ~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~-----~~~~~ 229 (253)
......||++||++.+.+++++.|++|.+| ||..|
T Consensus 223 -~~~trvcp~~~Csq~~~~~~~v~d~IlE~R~~~~~ir~sq 262 (275)
T COG5627 223 -VECTRVCPRLICSQKEVVDPYVCDHILEKREAMKYIRNSQ 262 (275)
T ss_pred -CCceeecchhhcchheeccchhhhHHHHHHHHHHHHHhhh
Confidence 556678999999999999999999999999 77776
No 4
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.15 E-value=3.7e-11 Score=85.46 Aligned_cols=60 Identities=17% Similarity=0.143 Sum_probs=52.2
Q ss_pred ccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhHhH
Q 025405 158 ISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGHML 226 (253)
Q Consensus 158 ~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~~~ 226 (253)
+.||||+.+ |.+||.. .|||+|+|.+|.+|++. ...||+ |...++.++|+++..|++.+.
T Consensus 2 ~~Cpi~~~~---~~~Pv~~-~~G~v~~~~~i~~~~~~---~~~cP~--~~~~~~~~~l~~~~~l~~~i~ 61 (63)
T smart00504 2 FLCPISLEV---MKDPVIL-PSGQTYERRAIEKWLLS---HGTDPV--TGQPLTHEDLIPNLALKSAIQ 61 (63)
T ss_pred cCCcCCCCc---CCCCEEC-CCCCEEeHHHHHHHHHH---CCCCCC--CcCCCChhhceeCHHHHHHHH
Confidence 689999975 6999986 69999999999999983 457999 667789999999999998764
No 5
>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=99.14 E-value=4.4e-11 Score=89.00 Aligned_cols=65 Identities=14% Similarity=0.078 Sum_probs=50.5
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhHhHHHH
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGHMLFMQ 229 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~~~~~~ 229 (253)
.|.||||+. .|.+||... |||+|||.+|.+||+ .....||+. ...|+.++|+++..||..+....
T Consensus 4 ~f~CpIt~~---lM~dPVi~~-~G~tyer~~I~~~l~--~~~~~~P~t--~~~l~~~~l~pn~~Lk~~I~~~~ 68 (73)
T PF04564_consen 4 EFLCPITGE---LMRDPVILP-SGHTYERSAIERWLE--QNGGTDPFT--RQPLSESDLIPNRALKSAIEEWC 68 (73)
T ss_dssp GGB-TTTSS---B-SSEEEET-TSEEEEHHHHHHHHC--TTSSB-TTT---SB-SGGGSEE-HHHHHHHHHHH
T ss_pred ccCCcCcCc---HhhCceeCC-cCCEEcHHHHHHHHH--cCCCCCCCC--CCcCCcccceECHHHHHHHHHHH
Confidence 689999995 479999975 889999999999997 356789995 56799999999999999986543
No 6
>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=98.29 E-value=2.8e-07 Score=64.19 Aligned_cols=47 Identities=26% Similarity=0.393 Sum_probs=32.5
Q ss_pred ccccCCCCccccccccCCcccCCCCcc--cchhhHhhhhhcCCCCCCcccccccc
Q 025405 156 LNISCPLSGKPITELAEPVRRYQILQI--YPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s~~CgHv--Yek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
++++||||.++ |..|+|.+.|.|. ||-++.+++.. +.+.-+||+ |++
T Consensus 1 vsL~CPls~~~---i~~P~Rg~~C~H~~CFDl~~fl~~~~-~~~~W~CPi--C~~ 49 (50)
T PF02891_consen 1 VSLRCPLSFQR---IRIPVRGKNCKHLQCFDLESFLESNQ-RTPKWKCPI--CNK 49 (50)
T ss_dssp EESB-TTTSSB----SSEEEETT--SS--EEHHHHHHHHH-HS---B-TT--T--
T ss_pred CeeeCCCCCCE---EEeCccCCcCcccceECHHHHHHHhh-ccCCeECcC--CcC
Confidence 47999999965 5999999999998 99999999987 556689999 654
No 7
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.10 E-value=1.2e-06 Score=75.71 Aligned_cols=53 Identities=15% Similarity=0.298 Sum_probs=42.4
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~ 216 (253)
-++|||.+-++.+ +.|| +++|||+|.+..|..-++ ....||+ |.+.|+..+|.
T Consensus 131 ~~~CPiCl~~~se-k~~v-sTkCGHvFC~~Cik~alk---~~~~CP~--C~kkIt~k~~~ 183 (187)
T KOG0320|consen 131 TYKCPICLDSVSE-KVPV-STKCGHVFCSQCIKDALK---NTNKCPT--CRKKITHKQFH 183 (187)
T ss_pred ccCCCceecchhh-cccc-ccccchhHHHHHHHHHHH---hCCCCCC--cccccchhhhe
Confidence 4899999977533 4555 689999999999999997 5678999 66678777664
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.03 E-value=4.3e-06 Score=73.37 Aligned_cols=55 Identities=13% Similarity=0.181 Sum_probs=45.9
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhc-------------CCCCCCccccccccccccCcccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSL-------------DCYFPRCNHFGCQLYFNWKKCVF 217 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~-------------~~~~~~CPv~GC~~~l~~~dL~~ 217 (253)
.+.|||.+.+ +.+||. +.|||+|-+.-|..|+.. .++..+||+ |...|+.++|+|
T Consensus 18 ~~~CpICld~---~~dPVv-T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPv--CR~~Is~~~LvP 85 (193)
T PLN03208 18 DFDCNICLDQ---VRDPVV-TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPV--CKSDVSEATLVP 85 (193)
T ss_pred ccCCccCCCc---CCCcEE-cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCC--CCCcCChhcEEE
Confidence 6889999964 699998 579999999999999852 124578999 999999988875
No 9
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=97.54 E-value=3.7e-05 Score=52.04 Aligned_cols=38 Identities=11% Similarity=0.283 Sum_probs=22.8
Q ss_pred CCCCccccccccC----CcccCCCCcccchhhHhhhhhcC-CCCCCcc
Q 025405 160 CPLSGKPITELAE----PVRRYQILQIYPRFSFLPFCSLD-CYFPRCN 202 (253)
Q Consensus 160 CPlT~~~i~~l~~----Pv~s~~CgHvYek~aI~~~i~~~-~~~~~CP 202 (253)
|||+.. +.+ ||.= .|||+|.+++|..+++.+ ...++||
T Consensus 1 CpIc~e----~~~~~n~P~~L-~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE----FSTEENPPMVL-PCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT--------TTSS-EEE--SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc----ccCCCCCCEEE-eCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899974 466 7874 499999999999999843 3688998
No 10
>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=97.43 E-value=0.00023 Score=66.65 Aligned_cols=71 Identities=7% Similarity=0.045 Sum_probs=54.0
Q ss_pred ccCCCCccccccccCC----cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCc----ccccHhHhh----Hh
Q 025405 158 ISCPLSGKPITELAEP----VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKK----CVFKYHLKG----HM 225 (253)
Q Consensus 158 ~~CPlT~~~i~~l~~P----v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~d----L~~D~~l~~----~~ 225 (253)
..||+.+.. .+.+| +.| .|||.|.+..|..++. .+...|| +|...|+.++ +.+|....+ |-
T Consensus 4 ~~CP~Ck~~--~y~np~~kl~i~-~CGH~~C~sCv~~l~~--~~~~~CP--~C~~~lrk~~fr~q~F~D~~vekEV~iRk 76 (309)
T TIGR00570 4 QGCPRCKTT--KYRNPSLKLMVN-VCGHTLCESCVDLLFV--RGSGSCP--ECDTPLRKNNFRVQLFEDPTVEKEVDIRK 76 (309)
T ss_pred CCCCcCCCC--CccCcccccccC-CCCCcccHHHHHHHhc--CCCCCCC--CCCCccchhhccccccccHHHHHHHHHHH
Confidence 479999863 35566 567 7999999999999986 3556899 6999999888 557776554 34
Q ss_pred HHHHhhccCC
Q 025405 226 LFMQVLEYDG 235 (253)
Q Consensus 226 ~~~~~~~~~~ 235 (253)
|+++.+|++-
T Consensus 77 rv~~i~Nk~e 86 (309)
T TIGR00570 77 RVLKIYNKRE 86 (309)
T ss_pred HHHHHHccch
Confidence 5677777764
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=97.34 E-value=0.00012 Score=47.74 Aligned_cols=38 Identities=21% Similarity=0.393 Sum_probs=30.8
Q ss_pred CCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccc
Q 025405 160 CPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNH 203 (253)
Q Consensus 160 CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv 203 (253)
|||-+ ..+.+|+....|||+|-++-|.+|++ + +.+||+
T Consensus 1 C~iC~---~~~~~~~~~~~CGH~fC~~C~~~~~~-~--~~~CP~ 38 (39)
T PF13923_consen 1 CPICL---DELRDPVVVTPCGHSFCKECIEKYLE-K--NPKCPV 38 (39)
T ss_dssp ETTTT---SB-SSEEEECTTSEEEEHHHHHHHHH-C--TSB-TT
T ss_pred CCCCC---CcccCcCEECCCCCchhHHHHHHHHH-C--cCCCcC
Confidence 67887 45799988889999999999999998 2 478997
No 12
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.23 E-value=0.00027 Score=64.32 Aligned_cols=55 Identities=15% Similarity=0.213 Sum_probs=41.7
Q ss_pred ccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc
Q 025405 156 LNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~ 216 (253)
..|.||||+++|+.-..=|--..|||||+..+|.+.= ....||+ |+..++..|++
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k----~~~~Cp~--c~~~f~~~DiI 166 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK----KSKKCPV--CGKPFTEEDII 166 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc----ccccccc--cCCccccCCEE
Confidence 4789999997653322234446899999999999982 3456999 99988888877
No 13
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.21 E-value=0.00024 Score=66.35 Aligned_cols=65 Identities=12% Similarity=0.059 Sum_probs=54.3
Q ss_pred ccccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccc-ccccCcccccHhHhhHh
Q 025405 154 NILNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL-YFNWKKCVFKYHLKGHM 225 (253)
Q Consensus 154 ~~~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~-~l~~~dL~~D~~l~~~~ 225 (253)
--++++|||+... +.+||+-+-|||.|.+++|..-|- ..-..||. |.. .+-+..|.||...++-+
T Consensus 271 ~~i~LkCplc~~L---lrnp~kT~cC~~~fc~eci~~al~--dsDf~Cpn--C~rkdvlld~l~pD~dk~~Ev 336 (427)
T COG5222 271 PNISLKCPLCHCL---LRNPMKTPCCGHTFCDECIGTALL--DSDFKCPN--CSRKDVLLDGLTPDIDKKLEV 336 (427)
T ss_pred CCccccCcchhhh---hhCcccCccccchHHHHHHhhhhh--hccccCCC--cccccchhhccCccHHHHHHH
Confidence 3468999999964 699999989999999999997664 35688999 988 68889999998876654
No 14
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.21 E-value=0.0004 Score=67.19 Aligned_cols=64 Identities=13% Similarity=0.189 Sum_probs=52.7
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhHhHHHH
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGHMLFMQ 229 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~~~~~~ 229 (253)
.+.|||.+. .+.+||. ..|||+|....|..|+. . ...||+ |...+...+|..+..|..-+...+
T Consensus 26 ~l~C~IC~d---~~~~Pvi-tpCgH~FCs~CI~~~l~-~--~~~CP~--Cr~~~~~~~Lr~N~~L~~iVe~~~ 89 (397)
T TIGR00599 26 SLRCHICKD---FFDVPVL-TSCSHTFCSLCIRRCLS-N--QPKCPL--CRAEDQESKLRSNWLVSEIVESFK 89 (397)
T ss_pred ccCCCcCch---hhhCccC-CCCCCchhHHHHHHHHh-C--CCCCCC--CCCccccccCccchHHHHHHHHHH
Confidence 678999984 4799997 67999999999999997 2 347997 999888888988888777665444
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.05 E-value=0.00036 Score=46.71 Aligned_cols=40 Identities=15% Similarity=0.200 Sum_probs=29.0
Q ss_pred CCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCC-CCccc
Q 025405 160 CPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYF-PRCNH 203 (253)
Q Consensus 160 CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~-~~CPv 203 (253)
|||-+ ..|.+||. -.|||+|-+.-|.++.+...+. ..||+
T Consensus 1 CpiC~---~~~~~Pv~-l~CGH~FC~~Cl~~~~~~~~~~~~~CP~ 41 (42)
T PF15227_consen 1 CPICL---DLFKDPVS-LPCGHSFCRSCLERLWKEPSGSGFSCPE 41 (42)
T ss_dssp ETTTT---SB-SSEEE--SSSSEEEHHHHHHHHCCSSSST---SS
T ss_pred CCccc---hhhCCccc-cCCcCHHHHHHHHHHHHccCCcCCCCcC
Confidence 78888 56899997 6799999999999999744333 68986
No 16
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.97 E-value=0.00047 Score=67.99 Aligned_cols=55 Identities=20% Similarity=0.332 Sum_probs=45.8
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcC--CCCCCccccccccccccCcccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLD--CYFPRCNHFGCQLYFNWKKCVF 217 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~--~~~~~CPv~GC~~~l~~~dL~~ 217 (253)
...|||.+-| -.-|++ +.|||+|.=..|++|+... .+..+||. |...|++.||.+
T Consensus 186 ~~~CPICL~~---~~~p~~-t~CGHiFC~~CiLqy~~~s~~~~~~~CPi--C~s~I~~kdl~p 242 (513)
T KOG2164|consen 186 DMQCPICLEP---PSVPVR-TNCGHIFCGPCILQYWNYSAIKGPCSCPI--CRSTITLKDLLP 242 (513)
T ss_pred CCcCCcccCC---CCcccc-cccCceeeHHHHHHHHhhhcccCCccCCc--hhhhccccceee
Confidence 7889999855 366776 4599999999999999632 46788999 999999999984
No 17
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=96.56 E-value=0.0021 Score=65.57 Aligned_cols=74 Identities=20% Similarity=0.353 Sum_probs=58.1
Q ss_pred CCCcceeeecccCccccccCCCCccccccccCCcccCCCCcc--cchhhHhhhhhcCCCCCCccccccccccccCccccc
Q 025405 141 EEQEDIVMTSTQSNILNISCPLSGKPITELAEPVRRYQILQI--YPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFK 218 (253)
Q Consensus 141 deddDi~v~~~q~~~~n~~CPlT~~~i~~l~~Pv~s~~CgHv--Yek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D 218 (253)
++|.||+.+... +++.|||++ +.|.=|+|...|+|. |+-...+++-. ....-+||| |.+..-..+|.-|
T Consensus 293 ~~d~~i~tt~~~---vSL~CPl~~---~Rm~~P~r~~~CkHlQcFD~~~~lq~n~-~~pTW~CPV--C~~~~~~e~l~iD 363 (636)
T KOG2169|consen 293 GPDSEIATTSLR---VSLNCPLSK---MRMSLPARGHTCKHLQCFDALSYLQMNE-QKPTWRCPV--CQKAAPFEGLIID 363 (636)
T ss_pred CCcccceeccce---eEecCCccc---ceeecCCcccccccceecchhhhHHhcc-CCCeeeCcc--CCccccccchhhh
Confidence 455577766543 799999999 567999999999975 76666666654 467789998 9999999999999
Q ss_pred HhHhh
Q 025405 219 YHLKG 223 (253)
Q Consensus 219 ~~l~~ 223 (253)
..+..
T Consensus 364 ~~~~~ 368 (636)
T KOG2169|consen 364 GYFLN 368 (636)
T ss_pred HHHHH
Confidence 87643
No 18
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.43 E-value=0.0025 Score=58.05 Aligned_cols=56 Identities=18% Similarity=0.184 Sum_probs=39.1
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~ 216 (253)
=..|+||+.|+ ..||.+...|+.|.|++|++||-.+... .-...-+.|.-++.||+
T Consensus 34 w~~CaLS~~pL---~~PiV~d~~G~LynKeaile~Ll~~~~~-~~~~~~~~hI~~LKDl~ 89 (260)
T PF04641_consen 34 WTHCALSQQPL---EDPIVSDRLGRLYNKEAILEFLLDKKKN-KDLPKTFSHIKSLKDLV 89 (260)
T ss_pred cCcccCcCCcc---CCCeeeCCCCeeEcHHHHHHHHHhcCcC-CCCccccccccCcccee
Confidence 45699999985 8899888899999999999999633221 11112233544566665
No 19
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.17 E-value=0.0036 Score=56.35 Aligned_cols=55 Identities=11% Similarity=0.121 Sum_probs=48.1
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVF 217 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~ 217 (253)
.|-|-|.+.. -++||. +.|||-|.=-.|.+|+..+..+..||| |...++.+.|+|
T Consensus 47 ~FdCNICLd~---akdPVv-TlCGHLFCWpClyqWl~~~~~~~~cPV--CK~~Vs~~~vvP 101 (230)
T KOG0823|consen 47 FFDCNICLDL---AKDPVV-TLCGHLFCWPCLYQWLQTRPNSKECPV--CKAEVSIDTVVP 101 (230)
T ss_pred ceeeeeeccc---cCCCEE-eecccceehHHHHHHHhhcCCCeeCCc--cccccccceEEe
Confidence 7889999854 599998 579999999999999986777788999 999999888874
No 20
>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=96.16 E-value=0.0022 Score=42.64 Aligned_cols=41 Identities=15% Similarity=0.303 Sum_probs=30.2
Q ss_pred cCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccc
Q 025405 159 SCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNH 203 (253)
Q Consensus 159 ~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv 203 (253)
.|||-+.++.. .+.+....|||+|-++-|.+|++. +..||+
T Consensus 2 ~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~---~~~CP~ 42 (44)
T PF13639_consen 2 ECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKR---NNSCPV 42 (44)
T ss_dssp CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHH---SSB-TT
T ss_pred CCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHh---CCcCCc
Confidence 48999876533 345555569999999999999983 248997
No 21
>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=96.05 E-value=0.0039 Score=40.49 Aligned_cols=40 Identities=15% Similarity=0.225 Sum_probs=33.4
Q ss_pred CCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccc
Q 025405 160 CPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNH 203 (253)
Q Consensus 160 CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv 203 (253)
|||-.. .+.+|++-..|||+|-+.-|.+|+++ .+..+||.
T Consensus 1 C~iC~~---~~~~~~~~~~C~H~fC~~C~~~~~~~-~~~~~CP~ 40 (41)
T PF00097_consen 1 CPICLE---PFEDPVILLPCGHSFCRDCLRKWLEN-SGSVKCPL 40 (41)
T ss_dssp ETTTSS---BCSSEEEETTTSEEEEHHHHHHHHHH-TSSSBTTT
T ss_pred CCcCCc---cccCCCEEecCCCcchHHHHHHHHHh-cCCccCCc
Confidence 677774 46889966789999999999999983 67788996
No 22
>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=95.99 E-value=0.0065 Score=38.75 Aligned_cols=43 Identities=19% Similarity=0.339 Sum_probs=33.9
Q ss_pred cCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 159 SCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 159 ~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
.|||-... +.+|+.-..|||.|-+.-+..|++ .+..+||+ |..
T Consensus 1 ~C~iC~~~---~~~~~~~~~C~H~~c~~C~~~~~~--~~~~~Cp~--C~~ 43 (45)
T cd00162 1 ECPICLEE---FREPVVLLPCGHVFCRSCIDKWLK--SGKNTCPL--CRT 43 (45)
T ss_pred CCCcCchh---hhCceEecCCCChhcHHHHHHHHH--hCcCCCCC--CCC
Confidence 37787754 477888777999999999999997 25678997 664
No 23
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.96 E-value=0.0037 Score=60.15 Aligned_cols=56 Identities=11% Similarity=0.093 Sum_probs=43.4
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKC 215 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL 215 (253)
-|.||+++.. +.=+||=..-.||||-+|+||..+.++...+.+||. |+..-..++.
T Consensus 334 vF~CPVlKeq-tsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPY--CP~e~~~~~~ 389 (394)
T KOG2817|consen 334 VFICPVLKEQ-TSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPY--CPVEQLASDT 389 (394)
T ss_pred eeecccchhh-ccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCC--CCcccCHHhc
Confidence 5789999865 344777777899999999999999973333499999 9986555543
No 24
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=95.85 E-value=0.022 Score=58.63 Aligned_cols=53 Identities=11% Similarity=0.194 Sum_probs=44.0
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVF 217 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~ 217 (253)
-++||+.. +..++-|.. +|||+|....|...+. ....+||. |+..|..+|+.+
T Consensus 643 ~LkCs~Cn---~R~Kd~vI~-kC~H~FC~~Cvq~r~e--tRqRKCP~--Cn~aFganDv~~ 695 (698)
T KOG0978|consen 643 LLKCSVCN---TRWKDAVIT-KCGHVFCEECVQTRYE--TRQRKCPK--CNAAFGANDVHR 695 (698)
T ss_pred ceeCCCcc---CchhhHHHH-hcchHHHHHHHHHHHH--HhcCCCCC--CCCCCCcccccc
Confidence 57899997 445777774 6999999999999997 44568998 999999999864
No 25
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.68 E-value=0.0049 Score=56.33 Aligned_cols=35 Identities=23% Similarity=0.393 Sum_probs=29.9
Q ss_pred ccccc-CCCCccccccccCCcccCCCCcccchhhHhhhhh
Q 025405 155 ILNIS-CPLSGKPITELAEPVRRYQILQIYPRFSFLPFCS 193 (253)
Q Consensus 155 ~~n~~-CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~ 193 (253)
+-.|- |-||++|. -+||.++. ||+|+|++|++||-
T Consensus 40 iK~FdcCsLtLqPc---~dPvit~~-GylfdrEaILe~il 75 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPC---RDPVITPD-GYLFDREAILEYIL 75 (303)
T ss_pred cCCcceeeeecccc---cCCccCCC-CeeeeHHHHHHHHH
Confidence 33454 89999996 99999875 99999999999984
No 26
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=95.50 E-value=0.0067 Score=59.17 Aligned_cols=52 Identities=13% Similarity=0.155 Sum_probs=41.5
Q ss_pred ccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccc
Q 025405 158 ISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVF 217 (253)
Q Consensus 158 ~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~ 217 (253)
+.|-||+.- =++||.|.+-||+|||.-|.+||+ .+ -+||+.| ..++..+|++
T Consensus 1 m~CaISgEv---P~~PVvS~~Sg~vfEkrLIEqyI~-e~--G~DPIt~--~pLs~eelV~ 52 (506)
T KOG0289|consen 1 MVCAISGEV---PEEPVVSPVSGHVFEKRLIEQYIA-ET--GKDPITN--EPLSIEELVE 52 (506)
T ss_pred CeecccCCC---CCCccccccccchHHHHHHHHHHH-Hc--CCCCCCC--CcCCHHHeee
Confidence 469999953 499999999999999999999998 33 3599954 4567677663
No 27
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=95.18 E-value=0.029 Score=41.34 Aligned_cols=56 Identities=16% Similarity=0.165 Sum_probs=29.3
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHh
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLK 222 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~ 222 (253)
.++|++.. ..|.+||.=..|.|+|-..-|-+.|. ..||| |...-...|++-..-|.
T Consensus 7 lLrCs~C~---~~l~~pv~l~~CeH~fCs~Ci~~~~~-----~~CPv--C~~Paw~qD~~~NrqLd 62 (65)
T PF14835_consen 7 LLRCSICF---DILKEPVCLGGCEHIFCSSCIRDCIG-----SECPV--CHTPAWIQDIQINRQLD 62 (65)
T ss_dssp TTS-SSS----S--SS-B---SSS--B-TTTGGGGTT-----TB-SS--S--B-S-SS----HHHH
T ss_pred hcCCcHHH---HHhcCCceeccCccHHHHHHhHHhcC-----CCCCC--cCChHHHHHHHhhhhhh
Confidence 57899998 56899997788999999999998885 35999 98877778877665554
No 28
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=94.97 E-value=0.014 Score=54.28 Aligned_cols=51 Identities=22% Similarity=0.355 Sum_probs=43.2
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~ 216 (253)
+.+|-|.+ ....+|= ++-|||+|.=..|++|.. .+..||. |...++.++++
T Consensus 239 ~~kC~LCL---e~~~~pS-aTpCGHiFCWsCI~~w~~---ek~eCPl--CR~~~~pskvi 289 (293)
T KOG0317|consen 239 TRKCSLCL---ENRSNPS-ATPCGHIFCWSCILEWCS---EKAECPL--CREKFQPSKVI 289 (293)
T ss_pred CCceEEEe---cCCCCCC-cCcCcchHHHHHHHHHHc---cccCCCc--ccccCCCccee
Confidence 68899998 4457886 688999999999999996 5567999 99998888765
No 29
>PHA02929 N1R/p28-like protein; Provisional
Probab=94.97 E-value=0.023 Score=51.63 Aligned_cols=47 Identities=9% Similarity=0.189 Sum_probs=34.6
Q ss_pred cccCCCCccccccccCCcc------cCCCCcccchhhHhhhhhcCCCCCCcccccccccc
Q 025405 157 NISCPLSGKPITELAEPVR------RYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYF 210 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~------s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l 210 (253)
...|||.+.++ ...|+. -..|||+|.++.|.++++ ....||+ |...+
T Consensus 174 ~~eC~ICle~~--~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~---~~~tCPl--CR~~~ 226 (238)
T PHA02929 174 DKECAICMEKV--YDKEIKNMYFGILSNCNHVFCIECIDIWKK---EKNTCPV--CRTPF 226 (238)
T ss_pred CCCCccCCccc--ccCccccccceecCCCCCcccHHHHHHHHh---cCCCCCC--CCCEe
Confidence 46799998643 233332 247999999999999997 3457999 98854
No 30
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.54 E-value=0.021 Score=52.33 Aligned_cols=53 Identities=9% Similarity=0.187 Sum_probs=40.6
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~ 216 (253)
-|+||||+-+|+..-.=+-..-|||||+..|..+.= .-.|++ |++.....|.+
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik-----as~C~~--C~a~y~~~dvI 163 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK-----ASVCHV--CGAAYQEDDVI 163 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHhh-----hccccc--cCCcccccCeE
Confidence 689999996654433334467899999999887764 356999 99988888876
No 31
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.21 E-value=0.081 Score=45.48 Aligned_cols=55 Identities=15% Similarity=0.130 Sum_probs=41.9
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHh
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLK 222 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~ 222 (253)
-+.|||.+ .+|.+| +--.|||+|.+..|...+. ....||+ |.. ... .+.+...+.
T Consensus 13 ~~~C~iC~---~~~~~p-~~l~C~H~~c~~C~~~~~~---~~~~Cp~--cr~-~~~-~~~~n~~l~ 67 (386)
T KOG2177|consen 13 ELTCPICL---EYFREP-VLLPCGHNFCRACLTRSWE---GPLSCPV--CRP-PSR-NLRPNVLLA 67 (386)
T ss_pred cccChhhH---HHhhcC-ccccccchHhHHHHHHhcC---CCcCCcc--cCC-chh-ccCccHHHH
Confidence 57799998 568999 5567999999999999997 6689999 884 222 444444443
No 32
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=93.91 E-value=0.028 Score=44.96 Aligned_cols=37 Identities=14% Similarity=0.186 Sum_probs=27.2
Q ss_pred CcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc
Q 025405 173 PVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~ 216 (253)
|.+|++|||+|+.. =+.+++ + ||--||++.+...+=+
T Consensus 2 pH~CtrCG~vf~~g-~~~il~---G---Cp~CG~nkF~yv~~e~ 38 (112)
T COG3364 2 PHQCTRCGEVFDDG-SEEILS---G---CPKCGCNKFLYVPEEK 38 (112)
T ss_pred Cceecccccccccc-cHHHHc---c---CccccchheEeccccc
Confidence 78999999999976 233443 3 9999999976554433
No 33
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.86 E-value=0.035 Score=50.84 Aligned_cols=53 Identities=6% Similarity=-0.049 Sum_probs=43.3
Q ss_pred ccccCCCCccccccccCCccc---CCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc
Q 025405 156 LNISCPLSGKPITELAEPVRR---YQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s---~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~ 216 (253)
..+.||+|. ..|.|-+.| +.||||+-++.+..+|+ +-..||| |...++-.|++
T Consensus 220 ~ryiCpvtr---d~LtNt~~ca~Lr~sg~Vv~~ecvEklir---~D~v~pv--~d~plkdrdiI 275 (303)
T KOG3039|consen 220 KRYICPVTR---DTLTNTTPCAVLRPSGHVVTKECVEKLIR---KDMVDPV--TDKPLKDRDII 275 (303)
T ss_pred cceecccch---hhhcCccceEEeccCCcEeeHHHHHHhcc---ccccccC--CCCcCcccceE
Confidence 479999998 457888877 57999999999999997 5678999 66666666665
No 34
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=93.52 E-value=0.071 Score=51.50 Aligned_cols=60 Identities=17% Similarity=0.197 Sum_probs=49.7
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhH
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGH 224 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~ 224 (253)
|+.||+-..+ +.+|+.+..|||.|-...|..++.. ...||+ |.+.+..+...+.+...++
T Consensus 21 ~l~C~~C~~v---l~~p~~~~~cgh~fC~~C~~~~~~~---~~~cp~--~~~~~~~~~~~~~~~~~~~ 80 (391)
T KOG0297|consen 21 NLLCPICMSV---LRDPVQTTTCGHRFCAGCLLESLSN---HQKCPV--CRQELTQAEELPVPRALRR 80 (391)
T ss_pred cccCcccccc---ccCCCCCCCCCCcccccccchhhcc---CcCCcc--cccccchhhccCchHHHHH
Confidence 7999999865 6999998889999999999999972 678998 9888888888884443333
No 35
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=93.49 E-value=0.044 Score=51.85 Aligned_cols=47 Identities=13% Similarity=0.175 Sum_probs=40.6
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLY 209 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~ 209 (253)
.-.||+..|-. +||-....-|.||....|.+|+. +-.+|||.||+..
T Consensus 300 ~~~CpvClk~r---~Nptvl~vSGyVfCY~Ci~~Yv~---~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 300 REVCPVCLKKR---QNPTVLEVSGYVFCYPCIFSYVV---NYGHCPVTGYPAS 346 (357)
T ss_pred cccChhHHhcc---CCCceEEecceEEeHHHHHHHHH---hcCCCCccCCcch
Confidence 45699999764 99999999999999999999997 3457999999973
No 36
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=93.28 E-value=0.044 Score=45.55 Aligned_cols=30 Identities=17% Similarity=0.169 Sum_probs=24.4
Q ss_pred CcccCCCCcccchhhHhhhhhcCCCCCCccccccccc
Q 025405 173 PVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLY 209 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~ 209 (253)
|.+|++||++|+..+.. +|+ + ||.=||++.
T Consensus 1 PH~Ct~Cg~~f~dgs~e-il~---G---CP~CGg~kF 30 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGSKE-ILS---G---CPECGGNKF 30 (131)
T ss_pred CcccCcCCCCcCCCcHH-HHc---c---CcccCCcce
Confidence 78999999999966654 664 3 999999984
No 37
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.22 E-value=0.068 Score=49.98 Aligned_cols=62 Identities=15% Similarity=0.154 Sum_probs=46.8
Q ss_pred ccccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhHh
Q 025405 154 NILNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGHM 225 (253)
Q Consensus 154 ~~~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~~ 225 (253)
..+.++|=|..++ +.+||+. +|||.|-+.+-+..++ +..+|++ |++.+. +.+-+...|...+
T Consensus 238 ~~~Pf~c~icr~~---f~~pVvt-~c~h~fc~~ca~~~~q---k~~~c~v--C~~~t~-g~~~~akeL~~~L 299 (313)
T KOG1813|consen 238 ELLPFKCFICRKY---FYRPVVT-KCGHYFCEVCALKPYQ---KGEKCYV--CSQQTH-GSFNVAKELLVSL 299 (313)
T ss_pred ccCCccccccccc---cccchhh-cCCceeehhhhccccc---cCCccee--cccccc-cccchHHHHHHHH
Confidence 4568899999965 5999996 6999999999888886 5578999 998544 3444555555444
No 38
>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=93.20 E-value=0.074 Score=32.41 Aligned_cols=38 Identities=18% Similarity=0.273 Sum_probs=28.2
Q ss_pred CCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccc
Q 025405 160 CPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNH 203 (253)
Q Consensus 160 CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv 203 (253)
|||-+.. ..+|+.- .|||+|-..-|..|++ .+..+||+
T Consensus 1 C~iC~~~---~~~~~~~-~C~H~~c~~C~~~~~~--~~~~~CP~ 38 (39)
T smart00184 1 CPICLEE---LKDPVVL-PCGHTFCRSCIRKWLK--SGNNTCPI 38 (39)
T ss_pred CCcCccC---CCCcEEe-cCCChHHHHHHHHHHH--hCcCCCCC
Confidence 5666532 3566654 6999999999999997 45567986
No 39
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=93.19 E-value=0.03 Score=52.89 Aligned_cols=59 Identities=15% Similarity=0.305 Sum_probs=47.8
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccc----cCcccccHhHhh
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN----WKKCVFKYHLKG 223 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~----~~dL~~D~~l~~ 223 (253)
-+.|+|.. .+|.++=+=..|-|+|.|..|+.||.. ..-||. |...|. ...+..|-.|+.
T Consensus 15 ~itC~LC~---GYliDATTI~eCLHTFCkSCivk~l~~---~~~CP~--C~i~ih~t~pl~ni~~Drtlqd 77 (331)
T KOG2660|consen 15 HITCRLCG---GYLIDATTITECLHTFCKSCIVKYLEE---SKYCPT--CDIVIHKTHPLLNIRSDRTLQD 77 (331)
T ss_pred ceehhhcc---ceeecchhHHHHHHHHHHHHHHHHHHH---hccCCc--cceeccCccccccCCcchHHHH
Confidence 56799999 678999999999999999999999982 567999 766554 446777777654
No 40
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=92.90 E-value=0.041 Score=52.51 Aligned_cols=61 Identities=15% Similarity=0.194 Sum_probs=52.2
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhHhH
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGHML 226 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~~~ 226 (253)
.++|-|.. .+|.-||.-. |+|+|.--.|..||. ....||. |-..++.++|....+|.+-+.
T Consensus 23 lLRC~IC~---eyf~ip~itp-CsHtfCSlCIR~~L~---~~p~CP~--C~~~~~Es~Lr~n~il~Eiv~ 83 (442)
T KOG0287|consen 23 LLRCGICF---EYFNIPMITP-CSHTFCSLCIRKFLS---YKPQCPT--CCVTVTESDLRNNRILDEIVK 83 (442)
T ss_pred HHHHhHHH---HHhcCceecc-ccchHHHHHHHHHhc---cCCCCCc--eecccchhhhhhhhHHHHHHH
Confidence 57899997 6889999965 999999999999996 5678998 999999999998877766543
No 41
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.63 E-value=0.053 Score=51.23 Aligned_cols=53 Identities=9% Similarity=0.151 Sum_probs=41.4
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccccccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNW 212 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~ 212 (253)
=|+||..+.. ..=+||=..-.||||-+|+|....=++..-+.+||. |+..=..
T Consensus 336 ~FiCPVlKe~-~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPY--CP~~~~~ 388 (396)
T COG5109 336 LFICPVLKEL-CTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPY--CPEMSKY 388 (396)
T ss_pred eeeccccHhh-hcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCC--CCcchhh
Confidence 3679999755 444888888999999999999988874445689999 9885433
No 42
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=92.50 E-value=0.05 Score=49.72 Aligned_cols=74 Identities=11% Similarity=0.138 Sum_probs=53.4
Q ss_pred cccCCCCccccccccCC----cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc----ccH----hHhhH
Q 025405 157 NISCPLSGKPITELAEP----VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV----FKY----HLKGH 224 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~P----v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~----~D~----~l~~~ 224 (253)
.-+||+.+.- .+-+| +.|..|=|--..+.+...+. .+.++||..||++.|+...++ .|. ...=|
T Consensus 10 d~~CPvCksD--rYLnPdik~linPECyHrmCESCvdRIFs--~GpAqCP~~gC~kILRK~kf~~qtFeD~~vEkEvdvR 85 (314)
T COG5220 10 DRRCPVCKSD--RYLNPDIKILINPECYHRMCESCVDRIFS--RGPAQCPYKGCGKILRKIKFIKQTFEDITVEKEVDVR 85 (314)
T ss_pred cccCCccccc--cccCCCeEEEECHHHHHHHHHHHHHHHhc--CCCCCCCCccHHHHHHHhcccccccchhhhhhhhhHH
Confidence 4579999864 36677 45888999999899888885 678999999999988876665 333 33333
Q ss_pred hHHHHhhccC
Q 025405 225 MLFMQVLEYD 234 (253)
Q Consensus 225 ~~~~~~~~~~ 234 (253)
-|+..+.+++
T Consensus 86 kr~~r~Fnk~ 95 (314)
T COG5220 86 KRLLRAFNKE 95 (314)
T ss_pred HHHHHHhccc
Confidence 4445555554
No 43
>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=92.18 E-value=0.13 Score=34.92 Aligned_cols=46 Identities=11% Similarity=0.153 Sum_probs=35.0
Q ss_pred cccCCCCccccccccCCcccCCCCcc-cchhhHhhhhhcCCCCCCccccccccccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQI-YPRFSFLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHv-Yek~aI~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
+..|+|-+.. ..+++.- .|||. |-..-+..+++ ...+||+ |.+.|+
T Consensus 2 ~~~C~iC~~~---~~~~~~~-pCgH~~~C~~C~~~~~~---~~~~CP~--Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFEN---PRDVVLL-PCGHLCFCEECAERLLK---RKKKCPI--CRQPIE 48 (50)
T ss_dssp HSB-TTTSSS---BSSEEEE-TTCEEEEEHHHHHHHHH---TTSBBTT--TTBB-S
T ss_pred cCCCccCCcc---CCceEEe-CCCChHHHHHHhHHhcc---cCCCCCc--CChhhc
Confidence 4568998743 4677664 69999 99999999997 5678999 888664
No 44
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.92 E-value=0.082 Score=48.69 Aligned_cols=52 Identities=17% Similarity=0.090 Sum_probs=41.9
Q ss_pred ccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCC-ccccccccccccCcc
Q 025405 156 LNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPR-CNHFGCQLYFNWKKC 215 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~-CPv~GC~~~l~~~dL 215 (253)
-+++|+|.. +.+.+|+. +-|||+|.=..|+.+.. .++.. ||. |.+...+++.
T Consensus 214 ~d~kC~lC~---e~~~~ps~-t~CgHlFC~~Cl~~~~t--~~k~~~Cpl--CRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCL---EEPEVPSC-TPCGHLFCLSCLLISWT--KKKYEFCPL--CRAKVYPKKV 266 (271)
T ss_pred cccceeeee---cccCCccc-ccccchhhHHHHHHHHH--hhccccCch--hhhhccchhh
Confidence 389999998 45689985 78999999999999754 34445 999 9998877765
No 45
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.11 E-value=0.037 Score=52.83 Aligned_cols=78 Identities=12% Similarity=0.157 Sum_probs=61.0
Q ss_pred cccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccc-ccccCcccccHhHhh----------
Q 025405 155 ILNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL-YFNWKKCVFKYHLKG---------- 223 (253)
Q Consensus 155 ~~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~-~l~~~dL~~D~~l~~---------- 223 (253)
...+.|||.+ ..|+.-+.-+.|+|-|..+.|.--++ .+...||- |.+ -.+...|.+|+....
T Consensus 41 ~~~v~c~icl---~llk~tmttkeClhrfc~~ci~~a~r--~gn~ecpt--cRk~l~SkrsLr~Dp~fdaLis~i~~sie 113 (381)
T KOG0311|consen 41 DIQVICPICL---SLLKKTMTTKECLHRFCFDCIWKALR--SGNNECPT--CRKKLVSKRSLRIDPNFDALISKIYPSIE 113 (381)
T ss_pred hhhhccHHHH---HHHHhhcccHHHHHHHHHHHHHHHHH--hcCCCCch--HHhhccccccCCCCccHHHHHHHHhccHH
Confidence 4678999998 45799999999999999999999996 55678999 998 578899999986543
Q ss_pred -----HhHHHHhhccCCCeEE
Q 025405 224 -----HMLFMQVLEYDGDIYL 239 (253)
Q Consensus 224 -----~~~~~~~~~~~~~~~~ 239 (253)
--+||+..++.+.=||
T Consensus 114 ~~e~~q~~~~ekd~~~~~q~i 134 (381)
T KOG0311|consen 114 EYEAPQPRFMEKDDSAQIQYI 134 (381)
T ss_pred HHhccchhHHhhHHHHhHHHH
Confidence 3366666666554443
No 46
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=90.89 E-value=0.22 Score=42.38 Aligned_cols=65 Identities=22% Similarity=0.264 Sum_probs=39.7
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccccc----HhHhhHhHHHHhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFK----YHLKGHMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D----~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|++.|+...+...+. .....+||. |+..++.+=+--+ ..+.+.+..+ ..-|+. |..||||
T Consensus 106 ~~C~~C~~~~~~~~~~~~~~-~~~~~~C~~--C~~~lrp~vv~fgE~~~~~~~~~~~~~----~~~Dl~---lviGTSl 174 (178)
T PF02146_consen 106 LRCSKCGKEYDREDIVDSID-EEEPPRCPK--CGGLLRPDVVLFGESLPEEIEEAIEDA----EEADLL---LVIGTSL 174 (178)
T ss_dssp EEETTTSBEEEGHHHHHHHH-TTSSCBCTT--TSCBEEEEE--BTSB-SHHHHHHHHHH----HH-SEE---EEESS-S
T ss_pred eeecCCCccccchhhccccc-ccccccccc--cCccCCCCeeecCCCCHHHHHHHHHHH----HcCCEE---EEEccCc
Confidence 57889999999998887776 455568997 8886665433322 3444444422 234544 4567776
No 47
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=90.03 E-value=0.32 Score=32.34 Aligned_cols=42 Identities=12% Similarity=0.136 Sum_probs=30.2
Q ss_pred CCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccc
Q 025405 160 CPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQ 207 (253)
Q Consensus 160 CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~ 207 (253)
||+-.+++ .-..|..-..|||+|-..-|.... .....||+ |.
T Consensus 2 C~~C~~~~-~~~~~~~l~~CgH~~C~~C~~~~~---~~~~~CP~--C~ 43 (44)
T PF14634_consen 2 CNICFEKY-SEERRPRLTSCGHIFCEKCLKKLK---GKSVKCPI--CR 43 (44)
T ss_pred CcCcCccc-cCCCCeEEcccCCHHHHHHHHhhc---CCCCCCcC--CC
Confidence 55555432 114456668899999999999988 46789998 64
No 48
>cd01408 SIRT1 SIRT1: Eukaryotic group (class1) which includes human sirtuins SIRT1-3 and yeast Hst1-4; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The nuclear SIRT1 has been shown to target the p53 tumor suppressor protein for deacetylation to suppress DNA damage, and the cytoplasmic SIRT2 homolog has been shown to target alpha-tubulin for deacetylation for the maintenance of cell integrity.
Probab=89.41 E-value=0.55 Score=42.12 Aligned_cols=68 Identities=21% Similarity=0.243 Sum_probs=39.6
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhh-HhHHH-HhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKG-HMLFM-QVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~-~~~~~-~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|+|.|+.+.+...+. .....+||. |+..|+.+=+--++.+-. .+..+ +.++ .-|+.| ..||||
T Consensus 117 ~~C~~C~~~~~~~~~~~~~~-~~~~p~C~~--Cgg~lrP~Vv~FGE~lp~~~~~~~~~~~~-~aDlll---vvGTSl 186 (235)
T cd01408 117 AHCIKCKHKYPGDWMREDIF-NQEVPKCPR--CGGLVKPDIVFFGESLPSRFFSHMEEDKE-EADLLI---VIGTSL 186 (235)
T ss_pred cccccCCCcCCHHHHHHHHh-CCCCccCCC--CCCCccCcEEECCCCCCHHHHHHHHHHHh-cCCEEE---EECCCC
Confidence 56888999999887777665 333578998 876555444333333222 12222 3444 356544 367775
No 49
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=89.05 E-value=0.62 Score=42.08 Aligned_cols=65 Identities=14% Similarity=0.219 Sum_probs=40.8
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcc-----cccHhHhhHhHHHHhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKC-----VFKYHLKGHMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL-----~~D~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|++.|+.+.+.+.+. .....+||. |+..+..+=+ .|+..+.+.. +.++ ..|+.|+ .||||
T Consensus 120 ~~C~~C~~~~~~~~~~~~~~-~~~~p~Cp~--Cgg~lrP~Vv~FgE~~p~~~~~~~~---~~~~-~aDl~lv---iGTSl 189 (244)
T PRK14138 120 YYCVRCGKRYTVEDVIEKLE-KSDVPRCDD--CSGLIRPNIVFFGEALPQDALREAI---RLSS-KASLMIV---MGSSL 189 (244)
T ss_pred eEECCCCCcccHHHHHHHHh-cCCCCCCCC--CCCeECCCEEECCCcCCHHHHHHHH---HHHh-cCCEEEE---eCcCC
Confidence 66888999999988888765 334578998 8765544333 3333333333 2333 5676654 67775
No 50
>PRK05333 NAD-dependent deacetylase; Provisional
Probab=88.78 E-value=0.84 Score=42.07 Aligned_cols=66 Identities=20% Similarity=0.236 Sum_probs=40.4
Q ss_pred cccCCCCcccchhhHhhhhhcC--------------------------CCCCCccccccccccc-----cCcccccHhHh
Q 025405 174 VRRYQILQIYPRFSFLPFCSLD--------------------------CYFPRCNHFGCQLYFN-----WKKCVFKYHLK 222 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~--------------------------~~~~~CPv~GC~~~l~-----~~dL~~D~~l~ 222 (253)
++|..|+|.|..+.|...+... ....+||. |+..+. .....+|..+.
T Consensus 129 ~~C~~C~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iP~C~~--Cgg~lrP~Vv~FgE~lp~~~~~ 206 (285)
T PRK05333 129 VRCMGCGARHPRAEIQHVLEAANPEWLALEAAPAPDGDADLEWAAFDHFRVPACPA--CGGILKPDVVFFGENVPRERVA 206 (285)
T ss_pred EEECCCCCcCCHHHHHHHHhhcCcchhhhhcccCCCccccccccccccCCCCCCCC--CCCcccCCEEEcCCCCCHHHHH
Confidence 6788999999987766543210 12367997 887555 34445665555
Q ss_pred hHhHHHHhhccCCCeEEEecccCCcc
Q 025405 223 GHMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
+....+ +. .|+.|+ .|||+
T Consensus 207 ~a~~~~---~~-~Dlllv---vGTSl 225 (285)
T PRK05333 207 AARAAL---DA-ADAVLV---VGSSL 225 (285)
T ss_pred HHHHHH---hc-CCEEEE---ECcCc
Confidence 554443 33 666555 67776
No 51
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=87.64 E-value=0.3 Score=45.90 Aligned_cols=55 Identities=9% Similarity=0.086 Sum_probs=42.3
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHh
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYH 220 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~ 220 (253)
.++|-|.. .+|.-|+. +-|||+|..-.|..||+ ...-||+ |......+.|.-...
T Consensus 25 ~lrC~IC~---~~i~ip~~-TtCgHtFCslCIR~hL~---~qp~CP~--Cr~~~~esrlr~~s~ 79 (391)
T COG5432 25 MLRCRICD---CRISIPCE-TTCGHTFCSLCIRRHLG---TQPFCPV--CREDPCESRLRGSSG 79 (391)
T ss_pred HHHhhhhh---heeeccee-cccccchhHHHHHHHhc---CCCCCcc--ccccHHhhhcccchh
Confidence 56788887 46788998 56999999999999996 4567999 888655555544333
No 52
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=87.33 E-value=0.94 Score=39.90 Aligned_cols=67 Identities=18% Similarity=0.035 Sum_probs=38.3
Q ss_pred CcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc-----ccHhHhhHhHHHHhhccCCCeEEEecccCCc
Q 025405 173 PVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV-----FKYHLKGHMLFMQVLEYDGDIYLLGLASGTS 247 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~-----~D~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (253)
-++|..|++.|..+.+..-+.......+||. |...++.+=+- |+..+.+. ++.+. .-|+.|+ .|||
T Consensus 95 ~~~C~~C~~~~~~~~~~~~~~~~~~~p~C~~--Cgg~lrP~VV~FgE~lp~~~~~~a---~~~~~-~aDlllv---iGTS 165 (206)
T cd01410 95 IEVCKSCGPEYVRDDVVETRGDKETGRRCHA--CGGILKDTIVDFGERLPPENWMGA---AAAAC-RADLFLC---LGTS 165 (206)
T ss_pred cccCCCCCCccchHHHHHHhhcCCCCCcCCC--CcCccCCcEEECCCCCCHHHHHHH---HHHHh-cCCEEEE---ECcC
Confidence 3668889999987766544421234578998 87755443333 33333333 33333 3565544 6777
Q ss_pred c
Q 025405 248 L 248 (253)
Q Consensus 248 ~ 248 (253)
|
T Consensus 166 l 166 (206)
T cd01410 166 L 166 (206)
T ss_pred c
Confidence 5
No 53
>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=86.89 E-value=0.36 Score=30.54 Aligned_cols=24 Identities=17% Similarity=-0.078 Sum_probs=17.9
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
.++..|||+|+-.. ..-+||+ |..
T Consensus 2 ~~C~~CGy~y~~~~---------~~~~CP~--Cg~ 25 (33)
T cd00350 2 YVCPVCGYIYDGEE---------APWVCPV--CGA 25 (33)
T ss_pred EECCCCCCEECCCc---------CCCcCcC--CCC
Confidence 46889999998552 5678999 654
No 54
>PHA00626 hypothetical protein
Probab=86.08 E-value=0.54 Score=33.81 Aligned_cols=20 Identities=5% Similarity=-0.210 Sum_probs=17.8
Q ss_pred cCCcccCCCCcccchhhHhh
Q 025405 171 AEPVRRYQILQIYPRFSFLP 190 (253)
Q Consensus 171 ~~Pv~s~~CgHvYek~aI~~ 190 (253)
.+.++|+.|||.|.|+|+-+
T Consensus 21 snrYkCkdCGY~ft~~~~~~ 40 (59)
T PHA00626 21 SDDYVCCDCGYNDSKDAFGE 40 (59)
T ss_pred CcceEcCCCCCeechhhhhh
Confidence 68899999999999998754
No 55
>PLN03086 PRLI-interacting factor K; Provisional
Probab=85.58 E-value=0.55 Score=47.66 Aligned_cols=40 Identities=13% Similarity=0.085 Sum_probs=32.5
Q ss_pred ccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccccc
Q 025405 168 TELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYF 210 (253)
Q Consensus 168 ~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l 210 (253)
.++.+++.|..||..|.+..+..+.+..+....|| |+..+
T Consensus 448 ~el~~H~~C~~Cgk~f~~s~LekH~~~~Hkpv~Cp---Cg~~~ 487 (567)
T PLN03086 448 EEAKNHVHCEKCGQAFQQGEMEKHMKVFHEPLQCP---CGVVL 487 (567)
T ss_pred cccccCccCCCCCCccchHHHHHHHHhcCCCccCC---CCCCc
Confidence 46789999999999999888888887546778899 87644
No 56
>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=85.29 E-value=1 Score=42.12 Aligned_cols=51 Identities=12% Similarity=0.153 Sum_probs=40.6
Q ss_pred cCCCCccccccccCC----cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc
Q 025405 159 SCPLSGKPITELAEP----VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 159 ~CPlT~~~i~~l~~P----v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~ 216 (253)
.||..+. ..+-|| +.| .|||.-..+.+-..+. .+...|| ||...|+.+.+.
T Consensus 2 ~Cp~CKt--~~Y~np~lk~~in-~C~H~lCEsCvd~iF~--~g~~~Cp--eC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKT--DRYLNPDLKLMIN-ECGHRLCESCVDRIFS--LGPAQCP--ECMVILRKNNFR 56 (300)
T ss_pred CCccccc--ceecCccceeeec-cccchHHHHHHHHHHh--cCCCCCC--cccchhhhcccc
Confidence 4888775 345666 345 8999999999988886 6778999 999999988876
No 57
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.90 E-value=0.37 Score=47.04 Aligned_cols=58 Identities=12% Similarity=0.154 Sum_probs=43.3
Q ss_pred ccCCCCccccccccCCc----ccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhH
Q 025405 158 ISCPLSGKPITELAEPV----RRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHL 221 (253)
Q Consensus 158 ~~CPlT~~~i~~l~~Pv----~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l 221 (253)
.+|||.+.. ++-|+ .+-.|||-|..+.|..+|. +....+||. |...-+.++|.+-..+
T Consensus 5 ~tcpiclds---~~~~g~hr~vsl~cghlFgs~cie~wl~-k~~~~~cp~--c~~katkr~i~~e~al 66 (463)
T KOG1645|consen 5 TTCPICLDS---YTTAGNHRIVSLQCGHLFGSQCIEKWLG-KKTKMQCPL--CSGKATKRQIRPEYAL 66 (463)
T ss_pred ccCceeeee---eeecCceEEeeecccccccHHHHHHHHh-hhhhhhCcc--cCChhHHHHHHHHHHH
Confidence 569998743 45554 4779999999999999997 667789998 8766666655554443
No 58
>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]
Probab=84.71 E-value=1.1 Score=47.97 Aligned_cols=64 Identities=13% Similarity=-0.080 Sum_probs=55.7
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhHhHHH
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGHMLFM 228 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~~~~~ 228 (253)
.+.+||+. +.|.+||+=..=|++=+|..|..|+- ..+.=|. |..-|+.+++.||..||++++..
T Consensus 870 ef~DPlm~---Tlm~dPV~LP~Srv~vDRsti~rhlL---s~~tdPF--NR~pLt~d~v~pn~eLK~kI~~~ 933 (943)
T KOG2042|consen 870 EFLDPLMS---TLMSDPVVLPSSRVTVDRSTIERHLL---SDCTDPF--NREPLTEDMVSPNEELKAKIRCW 933 (943)
T ss_pred hhhCcccc---ccCCCCccCCcccccccHHHHHHHHh---cCCCCcc--ccccCchhhcCCCHHHHHHHHHH
Confidence 67899998 66899999887799999999999997 2344566 88999999999999999999864
No 59
>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=84.50 E-value=0.4 Score=32.80 Aligned_cols=29 Identities=17% Similarity=0.120 Sum_probs=20.0
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGC 206 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC 206 (253)
++|..|||.||.. ..+. ......||.=|-
T Consensus 6 y~C~~Cg~~fe~~---~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 6 YRCTACGHRFEVL---QKMS-DDPLATCPECGG 34 (52)
T ss_pred EEeCCCCCEeEEE---EecC-CCCCCCCCCCCC
Confidence 5799999999954 3333 245678999443
No 60
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=83.55 E-value=2.3 Score=37.69 Aligned_cols=64 Identities=16% Similarity=0.220 Sum_probs=39.2
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccc-----cCcccccHhHhhHhHHHHhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN-----WKKCVFKYHLKGHMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~-----~~dL~~D~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|++.|+.+.+..+.. ....+||. |...+. ..+..|+..+.+.. +.++ .-|+.| ..||||
T Consensus 114 ~~C~~C~~~~~~~~~~~~~~--~~~p~C~~--Cgg~lrP~Vv~fgE~lp~~~~~~a~---~~~~-~~Dl~l---vvGTSl 182 (222)
T cd01413 114 AYCVNCGSKYDLEEVKYAKK--HEVPRCPK--CGGIIRPDVVLFGEPLPQALLREAI---EAAK-EADLFI---VLGSSL 182 (222)
T ss_pred ceECCCCCCcchhHHHHhcc--CCCCcCCC--CCCccCCCEEECCCCCCHHHHHHHH---HHHh-cCCEEE---EEccCC
Confidence 66888999999887743332 34578997 776443 34445665555444 3333 356554 367775
No 61
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=82.89 E-value=0.65 Score=41.54 Aligned_cols=53 Identities=13% Similarity=0.229 Sum_probs=37.7
Q ss_pred eeeecccCccccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 146 IVMTSTQSNILNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 146 i~v~~~q~~~~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
.+++. ....|.|.|-|.++ .++.||. +.|||.|.......-.+ +...|-+ |.+
T Consensus 186 ~v~~~-~~e~IPF~C~iCKk---dy~spvv-t~CGH~FC~~Cai~~y~---kg~~C~~--Cgk 238 (259)
T COG5152 186 PVISG-PGEKIPFLCGICKK---DYESPVV-TECGHSFCSLCAIRKYQ---KGDECGV--CGK 238 (259)
T ss_pred ccccC-CCCCCceeehhchh---hccchhh-hhcchhHHHHHHHHHhc---cCCccee--cch
Confidence 45544 33568999999995 5799998 67999998765444333 4577888 655
No 62
>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=81.95 E-value=0.59 Score=30.10 Aligned_cols=30 Identities=17% Similarity=0.180 Sum_probs=20.5
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLY 209 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~ 209 (253)
++|..|||+||...-. . ......||. |+..
T Consensus 6 y~C~~Cg~~fe~~~~~---~-~~~~~~CP~--Cg~~ 35 (41)
T smart00834 6 YRCEDCGHTFEVLQKI---S-DDPLATCPE--CGGD 35 (41)
T ss_pred EEcCCCCCEEEEEEec---C-CCCCCCCCC--CCCc
Confidence 5789999999854322 1 145678998 6663
No 63
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=81.85 E-value=1 Score=39.62 Aligned_cols=64 Identities=25% Similarity=0.270 Sum_probs=38.7
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccccccc-----CcccccHhHhhHhHHHHhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNW-----KKCVFKYHLKGHMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~-----~dL~~D~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|++.|..+.+...+. .....+||. |...+.. .+..++. +.+.+..++. -|++| ..|||+
T Consensus 110 ~~C~~C~~~~~~~~~~~~~~-~~~~p~C~~--Cg~~lrP~Vv~fgE~~p~~-~~~a~~~~~~----~Dl~l---vlGTSl 178 (218)
T cd01407 110 VRCTKCGKEYPRDELQADID-REEVPRCPK--CGGLLRPDVVFFGESLPEE-LDEAAEALAK----ADLLL---VIGTSL 178 (218)
T ss_pred ceeCCCcCCCcHHHHhHhhc-cCCCCcCCC--CCCccCCCeEECCCCCcHH-HHHHHHHHhc----CCEEE---EeCCCc
Confidence 66888999999886654443 344678997 8775443 3334555 5555544443 35543 345664
No 64
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=81.00 E-value=0.73 Score=46.57 Aligned_cols=51 Identities=12% Similarity=0.327 Sum_probs=39.2
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhc--CCCCCCccccccccccccC
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSL--DCYFPRCNHFGCQLYFNWK 213 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~--~~~~~~CPv~GC~~~l~~~ 213 (253)
+..|-|.-.|- ++|+.+ .|.|+|.|-.|.+|+.+ .+.++.||+ |..-|+..
T Consensus 536 ~~~C~lc~d~a---ed~i~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~--C~i~LsiD 588 (791)
T KOG1002|consen 536 EVECGLCHDPA---EDYIES-SCHHKFCRLCIKEYVESFMENNNVTCPV--CHIGLSID 588 (791)
T ss_pred ceeecccCChh---hhhHhh-hhhHHHHHHHHHHHHHhhhcccCCCCcc--cccccccc
Confidence 45688887663 788886 59999999999999852 245599999 88765544
No 65
>cd01411 SIR2H SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=80.47 E-value=2.5 Score=37.63 Aligned_cols=59 Identities=10% Similarity=0.083 Sum_probs=35.2
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccccccc-----CcccccHhHhhHhHHHHhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNW-----KKCVFKYHLKGHMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~-----~dL~~D~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|++.|+.+.. + ...+||. |+..+.. .+..++..+.+.+..++ . -|+.|+ .|||+
T Consensus 119 ~~C~~C~~~~~~~~~---~----~~p~C~~--Cgg~lrP~vv~fge~~~~~~~~~~~~~~~---~-~Dlllv---iGTSl 182 (225)
T cd01411 119 IYCTVCGKTVDWEEY---L----KSPYHAK--CGGVIRPDIVLYEEMLNESVIEEAIQAIE---K-ADLLVI---VGTSF 182 (225)
T ss_pred eEeCCCCCccchhhc---C----CCCCCCC--CCCEeCCCEEEcCCCCCHHHHHHHHHHHh---c-CCEEEE---ECcCC
Confidence 567789999986432 2 2478997 8875443 34445555555544433 3 455544 66775
No 66
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=80.23 E-value=1.1 Score=41.18 Aligned_cols=49 Identities=14% Similarity=0.069 Sum_probs=41.9
Q ss_pred ccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccc
Q 025405 156 LNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
+.++||+.+. ++|++. .|+|.=+..-.+.+|+ +.....||..||+..+.
T Consensus 212 ~~i~CPv~gC-----~~~~~~-~~~~l~~d~el~~kIr-~~qe~~~~~~~~s~~~~ 260 (262)
T KOG2979|consen 212 ITIRCPVLGC-----ENPYYI-QPGHLDEDKELQQKIR-QSQEPAIPDETSSEEDD 260 (262)
T ss_pred ceeecccccC-----Cccccc-cccccCchHHHHHHHH-Hhccccccccccchhhc
Confidence 4678999996 588986 6999999999999999 66788999999998654
No 67
>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=79.98 E-value=0.63 Score=30.97 Aligned_cols=29 Identities=14% Similarity=0.068 Sum_probs=20.6
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
++|..|||.||.- .-+. ......||. |..
T Consensus 6 y~C~~Cg~~fe~~---~~~~-~~~~~~CP~--Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVL---QSIS-EDDPVPCPE--CGS 34 (42)
T ss_pred EEeCCCCCEEEEE---EEcC-CCCCCcCCC--CCC
Confidence 6789999999854 2333 246788998 655
No 68
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=78.94 E-value=2.5 Score=32.78 Aligned_cols=53 Identities=15% Similarity=0.227 Sum_probs=40.1
Q ss_pred ccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccccccc
Q 025405 156 LNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNW 212 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~ 212 (253)
++-.||-.+-|= -.-|+.--+|+|.|--.-|+.+|.+...+..||. |.+....
T Consensus 31 fdg~Cp~Ck~Pg--d~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPm--CR~~w~~ 83 (85)
T PF12861_consen 31 FDGCCPDCKFPG--DDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPM--CRQPWKF 83 (85)
T ss_pred cccCCCCccCCC--CCCceeeccCccHHHHHHHHHHHccccCCCCCCC--cCCeeee
Confidence 455688777652 3557666789999999999999985555679999 8876543
No 69
>PHA02926 zinc finger-like protein; Provisional
Probab=78.89 E-value=2 Score=39.05 Aligned_cols=48 Identities=8% Similarity=0.100 Sum_probs=33.8
Q ss_pred cccCCCCccccccccCC--------cccCCCCcccchhhHhhhhhcC---CCCCCccccccccc
Q 025405 157 NISCPLSGKPITELAEP--------VRRYQILQIYPRFSFLPFCSLD---CYFPRCNHFGCQLY 209 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~P--------v~s~~CgHvYek~aI~~~i~~~---~~~~~CPv~GC~~~ 209 (253)
...|||.+..+ ++.| +- ..|+|+|--..|..|-+.+ +....||+ |...
T Consensus 170 E~eCgICmE~I--~eK~~~~eRrFGIL-~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPi--CR~~ 228 (242)
T PHA02926 170 EKECGICYEVV--YSKRLENDRYFGLL-DSCNHIFCITCINIWHRTRRETGASDNCPI--CRTR 228 (242)
T ss_pred CCCCccCcccc--cccccccccccccc-CCCCchHHHHHHHHHHHhccccCcCCcCCC--Ccce
Confidence 67799998533 2222 22 2699999999999999732 23456999 8874
No 70
>cd01409 SIRT4 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=78.71 E-value=2.9 Score=38.10 Aligned_cols=18 Identities=17% Similarity=-0.114 Sum_probs=13.9
Q ss_pred cccCCCCcccchhhHhhh
Q 025405 174 VRRYQILQIYPRFSFLPF 191 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~ 191 (253)
++|..|++.|.++.+.+-
T Consensus 119 ~~C~~C~~~~~~~~~~~~ 136 (260)
T cd01409 119 VVCLSCGFRTPRAELQDR 136 (260)
T ss_pred EEeCCCcCccCHHHHHHH
Confidence 568889999987776653
No 71
>smart00806 AIP3 Actin interacting protein 3. Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.
Probab=78.17 E-value=21 Score=35.24 Aligned_cols=81 Identities=19% Similarity=0.229 Sum_probs=50.3
Q ss_pred HhHhhhcccchhHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHhhcCCCCCcchH
Q 025405 18 NAATTLYNDNNTVIGEIRRALGMIKEIAVDLEKDNQSQMVKELEDATIQLMEAFGDCTHHSAAIQSVGNTYQPGTELTDF 97 (253)
Q Consensus 18 ~a~~~~~~~~~~~~~di~~a~~~ikevA~~lE~~~~~~~vkeLe~~v~eL~~~~~e~~~~~~Alq~l~~~yq~~~e~~df 97 (253)
..=..+..+.+.+++.+++-=++|-++=.|...-+-.+.-++|+.+.+++-.+..+++....-|+ .+.+.+
T Consensus 210 ~~k~kL~~~Sd~lltkVDDLQD~vE~LRkDV~~RgVRp~~~qLe~v~kdi~~a~keL~~m~~~i~---------~eKP~W 280 (426)
T smart00806 210 SSKKKLSEDSDSLLTKVDDLQDIIEALRKDVAQRGVRPSKKQLETVQKELETARKELKKMEEYID---------IEKPIW 280 (426)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh---------hcChHH
Confidence 33344455555566665555555554444554334445677888888888776666665555543 255788
Q ss_pred HHHHHHHHHh
Q 025405 98 KKLLVDEDAK 107 (253)
Q Consensus 98 ~k~~~~e~~~ 107 (253)
++.|+.|+..
T Consensus 281 kKiWE~EL~~ 290 (426)
T smart00806 281 KKIWEAELDK 290 (426)
T ss_pred HHHHHHHHHH
Confidence 9999998864
No 72
>PTZ00410 NAD-dependent SIR2; Provisional
Probab=77.68 E-value=3.1 Score=39.98 Aligned_cols=64 Identities=14% Similarity=0.165 Sum_probs=36.7
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccC-----cccccHhHhhHhHHHHhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWK-----KCVFKYHLKGHMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~-----dL~~D~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|++.|+.+.+..-+. .....+||. |...|..+ +-.|+..+. ..+.++ .-|+.|+ .||||
T Consensus 148 ~~C~~C~~~~~~~~~~~~~~-~~~vP~C~~--CgG~lRPdVVlFGE~lp~~~~~----a~~~~~-~aDllLV---IGTSL 216 (349)
T PTZ00410 148 ASCIECHTPYDIEQAYLEAR-SGKVPHCST--CGGIVKPDVVFFGENLPDAFFN----VHHDIP-EAELLLI---IGTSL 216 (349)
T ss_pred eEeCCCCCCcchhHHHHHhh-cCCCCCCCC--CCCccCCcEEecCCcCCHHHHH----HHHHHH-hCCEEEE---ECcCC
Confidence 56888999998766544443 234578997 87654433 333443332 233343 3565544 67775
No 73
>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=77.59 E-value=1.5 Score=36.43 Aligned_cols=30 Identities=20% Similarity=0.320 Sum_probs=25.5
Q ss_pred ccCCCCccccccc-cCCcccCCCCcccchhh
Q 025405 158 ISCPLSGKPITEL-AEPVRRYQILQIYPRFS 187 (253)
Q Consensus 158 ~~CPlT~~~i~~l-~~Pv~s~~CgHvYek~a 187 (253)
-.||=+++.|-.| ++|+.|.+||.+|....
T Consensus 10 r~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~~ 40 (129)
T TIGR02300 10 RICPNTGSKFYDLNRRPAVSPYTGEQFPPEE 40 (129)
T ss_pred ccCCCcCccccccCCCCccCCCcCCccCcch
Confidence 4599999887666 78999999999998773
No 74
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=77.30 E-value=4.6 Score=36.11 Aligned_cols=61 Identities=21% Similarity=0.329 Sum_probs=36.4
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccc-----cCcccccHhHhhHhHHHHhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN-----WKKCVFKYHLKGHMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~-----~~dL~~D~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|++.|+.+.+. . ....+||. |...+. ..+..+|..+.+.+..++ .. |+.|. .|||+
T Consensus 123 ~~C~~C~~~~~~~~~~---~--~~~p~C~~--Cgg~lrP~Vv~fge~~~~~~~~~a~~~~~---~~-dl~lv---iGTsl 188 (242)
T PRK00481 123 ARCTKCGQTYDLDEYL---K--PEPPRCPK--CGGILRPDVVLFGEMLPELAIDEAYEALE---EA-DLFIV---IGTSL 188 (242)
T ss_pred eeeCCCCCCcChhhhc---c--CCCCCCCC--CCCccCCCeEECCCCCCHHHHHHHHHHHh---cC-CEEEE---ECCCc
Confidence 5678899999876543 2 23456997 876444 445556665655555444 32 55443 45665
No 75
>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=77.21 E-value=1.7 Score=26.32 Aligned_cols=25 Identities=12% Similarity=0.121 Sum_probs=16.5
Q ss_pred cCCCCccccccccCCcccCCCCcccch
Q 025405 159 SCPLSGKPITELAEPVRRYQILQIYPR 185 (253)
Q Consensus 159 ~CPlT~~~i~~l~~Pv~s~~CgHvYek 185 (253)
+||--.+.| -..=..+..|||.|++
T Consensus 2 ~CP~C~~~V--~~~~~~Cp~CG~~F~~ 26 (26)
T PF10571_consen 2 TCPECGAEV--PESAKFCPHCGYDFEA 26 (26)
T ss_pred cCCCCcCCc--hhhcCcCCCCCCCCcC
Confidence 477766543 3444567889999974
No 76
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.92 E-value=1.8 Score=40.29 Aligned_cols=47 Identities=19% Similarity=0.212 Sum_probs=37.7
Q ss_pred ccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 156 LNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
-...||+.+.+- +.|+.=-+|||+|..-.|..-.- -.-+..||. |+.
T Consensus 238 ~~~~C~~Cg~~P---tiP~~~~~C~HiyCY~Ci~ts~~-~~asf~Cp~--Cg~ 284 (298)
T KOG2879|consen 238 SDTECPVCGEPP---TIPHVIGKCGHIYCYYCIATSRL-WDASFTCPL--CGE 284 (298)
T ss_pred CCceeeccCCCC---CCCeeeccccceeehhhhhhhhc-chhhcccCc--cCC
Confidence 367899999775 88999889999999999887764 234678999 554
No 77
>PTZ00409 Sir2 (Silent Information Regulator) protein; Provisional
Probab=76.42 E-value=5.2 Score=36.87 Aligned_cols=65 Identities=22% Similarity=0.238 Sum_probs=36.6
Q ss_pred cccCCCCcccchhhHhhhh-h--cCCCCCCccccccccccc-----cCcccccHhHhhHhHHHHhhccCCCeEEEecccC
Q 025405 174 VRRYQILQIYPRFSFLPFC-S--LDCYFPRCNHFGCQLYFN-----WKKCVFKYHLKGHMLFMQVLEYDGDIYLLGLASG 245 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i-~--~~~~~~~CPv~GC~~~l~-----~~dL~~D~~l~~~~~~~~~~~~~~~~~~~~~~~~ 245 (253)
++|..|++.|+....+..- . ......+|| |...+. ..+-.|+..+.+.+.. ++ ..|+.|+ .|
T Consensus 138 ~~C~~C~~~~~~~~~~~~~~~~~~~~~~P~C~---Cgg~lrP~VV~FGE~lp~~~~~~a~~~---~~-~aDlllv---iG 207 (271)
T PTZ00409 138 ARCCTCRKTIQLNKIMLQKTSHFMHQLPPECP---CGGIFKPNVILFGEVIPKSLLKQAEKE---ID-KCDLLLV---VG 207 (271)
T ss_pred ceeCCCCCCcccCHHHHhhhhhhccCCCCCCC---CCCcccCcEEEeCCcCCHHHHHHHHHH---HH-cCCEEEE---EC
Confidence 6688899998855433211 0 011236798 876444 3444555556555443 33 3677665 67
Q ss_pred Ccc
Q 025405 246 TSL 248 (253)
Q Consensus 246 ~~~ 248 (253)
|||
T Consensus 208 TSl 210 (271)
T PTZ00409 208 TSS 210 (271)
T ss_pred CCC
Confidence 776
No 78
>COG5113 UFD2 Ubiquitin fusion degradation protein 2 [Posttranslational modification, protein turnover, chaperones]
Probab=75.98 E-value=3.3 Score=42.94 Aligned_cols=64 Identities=16% Similarity=0.062 Sum_probs=52.2
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCC--CCCCccccccccccccCcccccHhHhhHhHHHHh
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDC--YFPRCNHFGCQLYFNWKKCVFKYHLKGHMLFMQV 230 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~--~~~~CPv~GC~~~l~~~dL~~D~~l~~~~~~~~~ 230 (253)
.+.+||+- +.|++||+=..-+-+-+|+.|..++-+.. ...|-| |++.|+.||..|++++.+-..
T Consensus 854 eFlDPLmf---timkdPV~Lp~S~i~IDRSTikahllsd~tDPFNRmP-------LtlddVtpn~eLrekIn~f~k 919 (929)
T COG5113 854 EFLDPLMF---TIMKDPVKLPTSRITIDRSTIKAHLLSDGTDPFNRMP-------LTLDDVTPNAELREKINRFYK 919 (929)
T ss_pred hhhCchhh---hcccCCeecccccccccHHHHHHHHhcCCCCccccCC-------CchhhcCCCHHHHHHHHHHHh
Confidence 67899997 66899999988999999999999986332 333333 799999999999999987544
No 79
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=74.55 E-value=1.9 Score=35.99 Aligned_cols=37 Identities=8% Similarity=-0.040 Sum_probs=25.0
Q ss_pred ccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCc
Q 025405 175 RRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKK 214 (253)
Q Consensus 175 ~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~d 214 (253)
.|..||+.|+-.-.+.+.. ..+...||. |+..|...|
T Consensus 101 ~Cp~C~~~y~~~ea~~~~d-~~~~f~Cp~--Cg~~l~~~d 137 (147)
T smart00531 101 KCPNCQSKYTFLEANQLLD-MDGTFTCPR--CGEELEEDD 137 (147)
T ss_pred ECcCCCCEeeHHHHHHhcC-CCCcEECCC--CCCEEEEcC
Confidence 3446999998666655554 245599998 888765543
No 80
>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=74.39 E-value=2.5 Score=31.25 Aligned_cols=28 Identities=11% Similarity=0.118 Sum_probs=20.5
Q ss_pred CcccCCCCcccchhhHhhhhhcCCCCCCccc
Q 025405 173 PVRRYQILQIYPRFSFLPFCSLDCYFPRCNH 203 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv 203 (253)
|+.-..|||.|=..-|.++|. . ...||.
T Consensus 44 ~i~~~~C~H~FH~~Ci~~Wl~-~--~~~CP~ 71 (73)
T PF12678_consen 44 PIVWGPCGHIFHFHCISQWLK-Q--NNTCPL 71 (73)
T ss_dssp -EEEETTSEEEEHHHHHHHHT-T--SSB-TT
T ss_pred ceEecccCCCEEHHHHHHHHh-c--CCcCCC
Confidence 344456999999999999997 2 238997
No 81
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.36 E-value=1.2 Score=43.46 Aligned_cols=61 Identities=11% Similarity=0.198 Sum_probs=43.5
Q ss_pred CCCCcccchhhHhhhhhc-----CCCCCCccccccccccc---cCcccccHhHhh--HhHHHHhhccCCCe
Q 025405 177 YQILQIYPRFSFLPFCSL-----DCYFPRCNHFGCQLYFN---WKKCVFKYHLKG--HMLFMQVLEYDGDI 237 (253)
Q Consensus 177 ~~CgHvYek~aI~~~i~~-----~~~~~~CPv~GC~~~l~---~~dL~~D~~l~~--~~~~~~~~~~~~~~ 237 (253)
.-|+|+|-|....+|... .-+..+||..||...-. +..++-|.+..| ++..-|.|+-.-|+
T Consensus 203 lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe~l~lqk~l~~msdv 273 (445)
T KOG1814|consen 203 LPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVGDELFARYEKLMLQKTLELMSDV 273 (445)
T ss_pred cccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 469999999999999642 23668999999999544 455556666555 55566666665554
No 82
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, 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), 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=74.15 E-value=1.9 Score=27.54 Aligned_cols=24 Identities=13% Similarity=-0.196 Sum_probs=17.2
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGC 206 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC 206 (253)
.+|..|||+|+-+ .....||+=|=
T Consensus 3 ~~C~~CG~i~~g~---------~~p~~CP~Cg~ 26 (34)
T cd00729 3 WVCPVCGYIHEGE---------EAPEKCPICGA 26 (34)
T ss_pred EECCCCCCEeECC---------cCCCcCcCCCC
Confidence 5789999999753 23468999443
No 83
>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=74.09 E-value=2.4 Score=29.29 Aligned_cols=34 Identities=12% Similarity=0.106 Sum_probs=24.7
Q ss_pred cccCCCCcccchhhHhhhhhcC----CCCCCccccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLD----CYFPRCNHFGCQLY 209 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~----~~~~~CPv~GC~~~ 209 (253)
++|.-||--|+..++..++... .+...||+ |+..
T Consensus 3 f~CP~C~~~~~~~~L~~H~~~~H~~~~~~v~CPi--C~~~ 40 (54)
T PF05605_consen 3 FTCPYCGKGFSESSLVEHCEDEHRSESKNVVCPI--CSSR 40 (54)
T ss_pred cCCCCCCCccCHHHHHHHHHhHCcCCCCCccCCC--chhh
Confidence 3455577778888998888632 35688999 9874
No 84
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=73.25 E-value=1.7 Score=34.20 Aligned_cols=30 Identities=20% Similarity=0.249 Sum_probs=23.3
Q ss_pred ccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 170 LAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 170 l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
+..|-+|++||.+|..+-| +..-+||. |-.
T Consensus 55 lv~Pa~CkkCGfef~~~~i-------k~pSRCP~--CKS 84 (97)
T COG3357 55 LVRPARCKKCGFEFRDDKI-------KKPSRCPK--CKS 84 (97)
T ss_pred EecChhhcccCcccccccc-------CCcccCCc--chh
Confidence 5779999999999976432 45678998 765
No 85
>PTZ00408 NAD-dependent deacetylase; Provisional
Probab=71.54 E-value=4.6 Score=36.56 Aligned_cols=65 Identities=20% Similarity=0.158 Sum_probs=33.6
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccH-hHhhHhHHHHhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKY-HLKGHMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|+|.|+.+... . ....+||.-||...++.+=+--++ .+... ...+.++. -|+.|+ .||||
T Consensus 118 ~~C~~C~~~~~~~~~~---~--~~~p~C~~Cg~~g~lrP~vV~FGE~~~~~~-~~~~~~~~-~Dlllv---iGTSl 183 (242)
T PTZ00408 118 VRCTATGHVFDWTEDV---V--HGSSRCKCCGCVGTLRPHIVWFGEMPLYMD-EIESVMSK-TDLFVA---VGTSG 183 (242)
T ss_pred EEECCCCcccCchhhh---h--cCCCccccCCCCCCCCCCEEEcCCCCCcHH-HHHHHHHh-CCEEEE---EccCC
Confidence 5688899999865422 1 235789986664544433332232 11111 12233443 566543 57775
No 86
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.42 E-value=2.5 Score=40.90 Aligned_cols=41 Identities=15% Similarity=0.254 Sum_probs=34.8
Q ss_pred cCCCCcccchhhHhhhhhcC---CCCCCccccccccccccCccc
Q 025405 176 RYQILQIYPRFSFLPFCSLD---CYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 176 s~~CgHvYek~aI~~~i~~~---~~~~~CPv~GC~~~l~~~dL~ 216 (253)
.-+|+|-|-++...+||..+ ...++||..||...|+..++.
T Consensus 165 ~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~ 208 (384)
T KOG1812|consen 165 VLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCR 208 (384)
T ss_pred HhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHh
Confidence 46899999999999999743 567999999999988877654
No 87
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=68.93 E-value=3.4 Score=28.57 Aligned_cols=31 Identities=13% Similarity=0.226 Sum_probs=24.4
Q ss_pred cchhhHhhhhhcCCCCCCccccccccccccC
Q 025405 183 YPRFSFLPFCSLDCYFPRCNHFGCQLYFNWK 213 (253)
Q Consensus 183 Yek~aI~~~i~~~~~~~~CPv~GC~~~l~~~ 213 (253)
|++-.+.++|..+.....||..||...+...
T Consensus 3 y~~~~~~~~i~~~~~~~~CP~~~C~~~~~~~ 33 (64)
T smart00647 3 YERLLLESYVESNPDLKWCPAPDCSAAIIVT 33 (64)
T ss_pred HHHHHHHHHHhcCCCccCCCCCCCcceEEec
Confidence 7778888899854566779999999877654
No 88
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=68.78 E-value=67 Score=31.77 Aligned_cols=83 Identities=13% Similarity=0.215 Sum_probs=46.4
Q ss_pred HHHhHhhhcccchhHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHhhcCCCCCcc
Q 025405 16 IRNAATTLYNDNNTVIGEIRRALGMIKEIAVDLEKDNQSQMVKELEDATIQLMEAFGDCTHHSAAIQSVGNTYQPGTELT 95 (253)
Q Consensus 16 ~~~a~~~~~~~~~~~~~di~~a~~~ikevA~~lE~~~~~~~vkeLe~~v~eL~~~~~e~~~~~~Alq~l~~~yq~~~e~~ 95 (253)
|...=..+..+.+.+++.+++-=++|-++-.|...-+--...++|+...+++-.+..+++.+..-+..++ +
T Consensus 204 ~~~~k~~L~~~sd~Ll~kVdDLQD~VE~LRkDV~~RgvRp~~~qle~v~kdi~~a~~~L~~m~~~i~~~k---------p 274 (424)
T PF03915_consen 204 MESGKKKLSEESDRLLTKVDDLQDLVEDLRKDVVQRGVRPSPKQLETVAKDISRASKELKKMKEYIKTEK---------P 274 (424)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------H
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhC---------H
Confidence 3344444445555566555555445544444443333335667788888888777776666666654433 4
Q ss_pred hHHHHHHHHHHh
Q 025405 96 DFKKLLVDEDAK 107 (253)
Q Consensus 96 df~k~~~~e~~~ 107 (253)
.|++.|+.++..
T Consensus 275 ~WkKiWE~EL~~ 286 (424)
T PF03915_consen 275 IWKKIWESELQK 286 (424)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 677788877754
No 89
>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=68.20 E-value=3.5 Score=33.18 Aligned_cols=29 Identities=21% Similarity=0.398 Sum_probs=23.7
Q ss_pred ccCCCCccccccc-cCCcccCCCCcccchh
Q 025405 158 ISCPLSGKPITEL-AEPVRRYQILQIYPRF 186 (253)
Q Consensus 158 ~~CPlT~~~i~~l-~~Pv~s~~CgHvYek~ 186 (253)
-.||=+++.|=.| ++|+.|.+||.+|.-+
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 3599998876444 5899999999999877
No 90
>cd00296 SIR2 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer. Also included in this superfamily is a group of uncharacterized Sir2-like proteins which lack certain key catalytic
Probab=67.59 E-value=3.7 Score=35.61 Aligned_cols=65 Identities=29% Similarity=0.266 Sum_probs=35.2
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhh--HhHHHHhhccCCCeEEEecccCCcc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKG--HMLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~--~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
++|..|++.|+...+..- ....+||. |...+...-+--+..+.. -.+..+.+... |..| ..|||+
T Consensus 114 ~~C~~C~~~~~~~~~~~~----~~~p~C~~--C~~~l~p~v~~fge~~~~~~~~~~~~~~~~~-d~ll---viGtSl 180 (222)
T cd00296 114 VRCTSCGKEYPRDEVLER----EKPPRCPK--CGGLLRPDVVDFGEALPKEWFDRALEALLEA-DLVL---VIGTSL 180 (222)
T ss_pred cEECCCCCCcchhhhhhc----cCCCCCCC--CCCcccCceEECCCCCCHHHHHHHHHHHhcC-CEEE---EECCCc
Confidence 457789999987655422 45678999 766555444433333322 22333444443 4332 345654
No 91
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=66.54 E-value=4.1 Score=33.29 Aligned_cols=33 Identities=27% Similarity=0.340 Sum_probs=26.3
Q ss_pred ccCCCCccccccc-cCCcccCCCCcccchhhHhh
Q 025405 158 ISCPLSGKPITEL-AEPVRRYQILQIYPRFSFLP 190 (253)
Q Consensus 158 ~~CPlT~~~i~~l-~~Pv~s~~CgHvYek~aI~~ 190 (253)
-+||=|++-|-.| .+|+.|..||.+|.++++.+
T Consensus 10 ridPetg~KFYDLNrdPiVsPytG~s~P~s~fe~ 43 (129)
T COG4530 10 RIDPETGKKFYDLNRDPIVSPYTGKSYPRSYFEE 43 (129)
T ss_pred ccCccccchhhccCCCccccCcccccchHHHHHh
Confidence 3699999876444 57999999999998876655
No 92
>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=66.47 E-value=3.4 Score=40.51 Aligned_cols=50 Identities=16% Similarity=0.204 Sum_probs=36.7
Q ss_pred ccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccc
Q 025405 158 ISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 158 ~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~ 216 (253)
..|-||+.|+ ++|| |..=|-|||-.+|..||+ ..+ .-|+.| +.+..+||+
T Consensus 41 ~hC~lt~~Pf---e~Pv-C~~dg~vFd~~~Ivp~lk-k~g--~nP~tG--~kl~~~dLI 90 (518)
T KOG0883|consen 41 NHCSLTMLPF---EDPV-CTVDGTVFDLTAIVPWLK-KHG--TNPITG--QKLDGKDLI 90 (518)
T ss_pred hhceeccccc---cCcc-cccCCcEEeeehhhHHHH-HcC--CCCCCC--Cccccccce
Confidence 3599999885 9999 677899999999999998 322 345544 344555554
No 93
>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=65.90 E-value=1.9 Score=29.74 Aligned_cols=36 Identities=14% Similarity=0.276 Sum_probs=16.7
Q ss_pred cchhhHhhhhhcCCCCCCccccccccccccCccccc
Q 025405 183 YPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFK 218 (253)
Q Consensus 183 Yek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D 218 (253)
|++-.+..||........||.+||...+...+....
T Consensus 3 y~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~ 38 (64)
T PF01485_consen 3 YQKFLLKRYLESDPNIRWCPNPDCEYIIEKDDGCNS 38 (64)
T ss_dssp HHHCCCHS---S---CC--TTSST---ECS-SSTTS
T ss_pred HHHHHHHHHHHCCCCccCCCCCCCcccEEecCCCCC
Confidence 566667778864445568999999998777665443
No 94
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=65.60 E-value=3.1 Score=43.12 Aligned_cols=56 Identities=14% Similarity=0.234 Sum_probs=45.5
Q ss_pred ccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccc
Q 025405 156 LNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVF 217 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~ 217 (253)
.-+.|||+..+ +.+|+ +.+|.|.|.+..+.--+...+...+||+ |.+.+....+..
T Consensus 20 k~lEc~ic~~~---~~~p~-~~kc~~~~l~~~~n~~f~~~~~~~~~~l--c~~~~eK~s~~E 75 (684)
T KOG4362|consen 20 KILECPICLEH---VKEPS-LLKCDHIFLKFCLNKLFESKKGPKQCAL--CKSDIEKRSLRE 75 (684)
T ss_pred hhccCCceeEE---eeccc-hhhhhHHHHhhhhhceeeccCccccchh--hhhhhhhhhccc
Confidence 46779999865 48885 4679999999999888865566899999 998888777766
No 95
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=65.47 E-value=3.7 Score=30.18 Aligned_cols=55 Identities=11% Similarity=0.155 Sum_probs=23.9
Q ss_pred cccCCCCccccc-cccCCcc---cCCCCcccchhhHhhhhhcCCC--------CCCccccccccccccC
Q 025405 157 NISCPLSGKPIT-ELAEPVR---RYQILQIYPRFSFLPFCSLDCY--------FPRCNHFGCQLYFNWK 213 (253)
Q Consensus 157 n~~CPlT~~~i~-~l~~Pv~---s~~CgHvYek~aI~~~i~~~~~--------~~~CPv~GC~~~l~~~ 213 (253)
++.|||-...+. .-..|.. |..|+++|=..-+.+|+....+ .-+||. |.+.|+.+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~--C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPY--CSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TT--T-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcC--CCCeeeEe
Confidence 456888775321 1122332 3589999999999999963211 125998 99888765
No 96
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.80 E-value=2.8 Score=39.18 Aligned_cols=58 Identities=16% Similarity=0.289 Sum_probs=46.9
Q ss_pred cCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhHhHHHHhhc
Q 025405 171 AEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGHMLFMQVLE 232 (253)
Q Consensus 171 ~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~~~~~~~~~ 232 (253)
+|-++ -.|+|+|-...|..+.- -+++.-||. |...+..+.+...+-=|-+..+=|+|+
T Consensus 245 enty~-LsCnHvFHEfCIrGWci-vGKkqtCPY--CKekVdl~rmfsnpWekph~~yg~Lld 302 (328)
T KOG1734|consen 245 ENTYK-LSCNHVFHEFCIRGWCI-VGKKQTCPY--CKEKVDLKRMFSNPWEKPHVWYGQLLD 302 (328)
T ss_pred hhhee-eecccchHHHhhhhhee-ecCCCCCch--HHHHhhHhhhccCccccchhHHHHHHH
Confidence 45555 35999999999999964 356678999 999999999988888888887777765
No 97
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.68 E-value=3.9 Score=38.85 Aligned_cols=48 Identities=10% Similarity=0.195 Sum_probs=33.2
Q ss_pred ccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccccc
Q 025405 158 ISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYF 210 (253)
Q Consensus 158 ~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l 210 (253)
.-|-|.+.-+. =.+-|+-.-|+|.|-...|..||- ..+.+||| |+..|
T Consensus 324 veCaICms~fi-K~d~~~vlPC~H~FH~~Cv~kW~~--~y~~~CPv--Crt~i 371 (374)
T COG5540 324 VECAICMSNFI-KNDRLRVLPCDHRFHVGCVDKWLL--GYSNKCPV--CRTAI 371 (374)
T ss_pred ceEEEEhhhhc-ccceEEEeccCceechhHHHHHHh--hhcccCCc--cCCCC
Confidence 34655553331 123355567999999999999994 56789999 87644
No 98
>COG1773 Rubredoxin [Energy production and conversion]
Probab=63.21 E-value=4 Score=29.18 Aligned_cols=13 Identities=15% Similarity=-0.133 Sum_probs=11.2
Q ss_pred cccCCCCcccchh
Q 025405 174 VRRYQILQIYPRF 186 (253)
Q Consensus 174 v~s~~CgHvYek~ 186 (253)
++|+.||++|+-+
T Consensus 4 ~~C~~CG~vYd~e 16 (55)
T COG1773 4 WRCSVCGYVYDPE 16 (55)
T ss_pred eEecCCceEeccc
Confidence 6799999999865
No 99
>PHA00732 hypothetical protein
Probab=62.75 E-value=7.5 Score=29.43 Aligned_cols=37 Identities=8% Similarity=0.114 Sum_probs=25.5
Q ss_pred CcccCCCCcccch-hhHhhhhhcCCCCCCccccccccccc
Q 025405 173 PVRRYQILQIYPR-FSFLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 173 Pv~s~~CgHvYek-~aI~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
|+.|..||..|.. .++..+++......+||. |+..+.
T Consensus 1 py~C~~Cgk~F~s~s~Lk~H~r~~H~~~~C~~--CgKsF~ 38 (79)
T PHA00732 1 MFKCPICGFTTVTLFALKQHARRNHTLTKCPV--CNKSYR 38 (79)
T ss_pred CccCCCCCCccCCHHHHHHHhhcccCCCccCC--CCCEeC
Confidence 7789999999955 456666652233457886 988665
No 100
>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=62.66 E-value=4.6 Score=28.14 Aligned_cols=35 Identities=11% Similarity=-0.299 Sum_probs=20.2
Q ss_pred cccCCCCcccchhh--Hhhhhhc------CCCCCCcccccccc
Q 025405 174 VRRYQILQIYPRFS--FLPFCSL------DCYFPRCNHFGCQL 208 (253)
Q Consensus 174 v~s~~CgHvYek~a--I~~~i~~------~~~~~~CPv~GC~~ 208 (253)
++|+.||++|+.+. -.+-|.. -...-+||+-|-++
T Consensus 2 y~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~K 44 (50)
T cd00730 2 YECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAGK 44 (50)
T ss_pred cCCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCcH
Confidence 46899999999641 1111110 12356899965544
No 101
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=61.94 E-value=11 Score=33.16 Aligned_cols=48 Identities=15% Similarity=0.126 Sum_probs=27.6
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccc-----cCcccccHhHhhHhHHH
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN-----WKKCVFKYHLKGHMLFM 228 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~-----~~dL~~D~~l~~~~~~~ 228 (253)
++|..|++.|..... +. .....+||. |...+. ..+..|| .+.+.+..+
T Consensus 110 ~~C~~C~~~~~~~~~---~~-~~~~p~C~~--Cgg~lrp~Vv~fge~~p~-~~~~~~~~~ 162 (224)
T cd01412 110 VRCSSCGYVGENNEE---IP-EEELPRCPK--CGGLLRPGVVWFGESLPL-ALLEAVEAL 162 (224)
T ss_pred cccCCCCCCCCcchh---hh-ccCCCCCCC--CCCccCCceEECCCCCHH-HHHHHHHHH
Confidence 556778988877621 11 234578998 876443 3444455 455444433
No 102
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=60.94 E-value=4.7 Score=36.37 Aligned_cols=36 Identities=14% Similarity=0.205 Sum_probs=28.0
Q ss_pred cccCCCCccccccccCCcccCCCCcccch--hhHhhhhh
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPR--FSFLPFCS 193 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek--~aI~~~i~ 193 (253)
.|.||+.+.|+..=.+.++|. +||+||. +.+..++.
T Consensus 2 ~~~CP~C~~~l~~~~~~~~C~-~~h~fd~a~~Gy~~ll~ 39 (272)
T PRK11088 2 SYQCPLCHQPLTLEENSWICP-QNHQFDCAKEGYVNLLP 39 (272)
T ss_pred cccCCCCCcchhcCCCEEEcC-CCCCCccccCceEEecc
Confidence 478999999975445779997 4999964 57888875
No 103
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=59.81 E-value=5.8 Score=27.49 Aligned_cols=26 Identities=8% Similarity=-0.193 Sum_probs=16.8
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNH 203 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv 203 (253)
=+|.+|||.|.. .|-... .....||.
T Consensus 29 W~C~~Cgh~w~~-~v~~R~---~~~~~CP~ 54 (55)
T PF14311_consen 29 WKCPKCGHEWKA-SVNDRT---RRGKGCPY 54 (55)
T ss_pred EECCCCCCeeEc-cHhhhc---cCCCCCCC
Confidence 457789999974 344443 24567886
No 104
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.60 E-value=14 Score=36.24 Aligned_cols=77 Identities=9% Similarity=0.112 Sum_probs=48.9
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcC---C--CCCCccccccccccc---cCccccc---HhHhhHh
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLD---C--YFPRCNHFGCQLYFN---WKKCVFK---YHLKGHM 225 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~---~--~~~~CPv~GC~~~l~---~~dL~~D---~~l~~~~ 225 (253)
...|.|..-. .......--|||.|.+..+..||..+ + ..++||..||...+. ...+..+ ...-.+.
T Consensus 70 ~~~c~ic~~~---~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s~~~~~~ky~~~ 146 (444)
T KOG1815|consen 70 DVQCGICVES---YDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVSDKEDKEKYQRY 146 (444)
T ss_pred cccCCcccCC---CcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecCCHHHHHHHHHH
Confidence 3567776522 22235566899999999999999743 2 227899999999654 3334444 3344444
Q ss_pred HHHHhhccCCC
Q 025405 226 LFMQVLEYDGD 236 (253)
Q Consensus 226 ~~~~~~~~~~~ 236 (253)
..-..+|....
T Consensus 147 i~~syve~~~~ 157 (444)
T KOG1815|consen 147 ILRSYVEDNVP 157 (444)
T ss_pred HHHHHHhcCCc
Confidence 44456666655
No 105
>KOG2682 consensus NAD-dependent histone deacetylases and class I sirtuins (SIR2 family) [Chromatin structure and dynamics; Transcription]
Probab=59.59 E-value=4.4 Score=37.46 Aligned_cols=63 Identities=24% Similarity=0.194 Sum_probs=40.6
Q ss_pred CCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhH---hHHHHhhccCCCeEEEecccCCcc
Q 025405 178 QILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGH---MLFMQVLEYDGDIYLLGLASGTSL 248 (253)
Q Consensus 178 ~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~ 248 (253)
.|+|.|+-+.+.+-|- ...-.+|++ |... ++||...=.- +||......|--..=|-|..||||
T Consensus 158 ~C~~~yp~e~~ka~i~-~~~vpkC~v--C~~l-----VKP~IVFfGE~LP~rF~e~~~~D~~~~dl~lV~GTSL 223 (314)
T KOG2682|consen 158 SCRHEYPLEWMKAKIM-SEVVPKCEV--CQGL-----VKPDIVFFGESLPARFFECMQSDFLKVDLLLVMGTSL 223 (314)
T ss_pred hhcCcCCHHHHHHHHH-hccCCCCch--hhcc-----ccccEEEecCCccHHHHHHHhhcccccceEEEeccce
Confidence 6999999999988886 345569999 8753 3455443222 334333344544444566788887
No 106
>PRK11827 hypothetical protein; Provisional
Probab=59.52 E-value=6 Score=28.72 Aligned_cols=35 Identities=14% Similarity=0.139 Sum_probs=24.0
Q ss_pred ccCCCCcccccccc--CCcccCCCCcccc-hhhHhhhh
Q 025405 158 ISCPLSGKPITELA--EPVRRYQILQIYP-RFSFLPFC 192 (253)
Q Consensus 158 ~~CPlT~~~i~~l~--~Pv~s~~CgHvYe-k~aI~~~i 192 (253)
+-||+++.++.+-+ +-+.|+.||..|. ++.|=-+|
T Consensus 9 LaCP~ckg~L~~~~~~~~Lic~~~~laYPI~dgIPVlL 46 (60)
T PRK11827 9 IACPVCNGKLWYNQEKQELICKLDNLAFPLRDGIPVLL 46 (60)
T ss_pred eECCCCCCcCeEcCCCCeEECCccCeeccccCCccccC
Confidence 45999998875433 3488999999996 34443333
No 107
>PF10426 zf-RAG1: Recombination-activating protein 1 zinc-finger domain; InterPro: IPR019485 During lymphocyte development, the genes encoding immunoglobulins and T-cell receptors are assembled from variable (V), diversity (D), and joining (J) gene segments. This combinatorial process, known as V(D)J recombination, allows the generation of an enormous range of binding specificities from a limited amount of genetic information. The V(D)J recombination-activating proteins 1 and 2 (RAG1 and RAG2) form a complex that initiates this process by binding to the conserved recombination signal sequences (RSS) and introducing a double-strand break between the RSS and the adjacent coding segment. These breaks are generated in two steps, nicking of one strand (hydrolysis), followed by hairpin formation (transesterification). RAG1/2 has also been shown to function as a transposase in vitro, and to possess RSS-independent endonuclease activity (end processing) and hairpin opening. RAG1 alone can bind to RSS but stable, efficient binding requires RAG2. All known catalytic activities require the presence of both proteins. For more information see []. 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. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a C2H2-type zinc-finger domain found in the RAG1 protein. The structure contains the characteristic two-stranded beta-sheet and alpha-helix of a classical zinc-finger. The domain binds one zinc and, in complex with an adjacent RING-type zinc finger domain, helps to stabilise the whole of the dimerisation region of recombination activating protein 1 (RAG1) []. The function of the whole is to bind double-stranded DNA. ; GO: 0016788 hydrolase activity, acting on ester bonds, 0016881 acid-amino acid ligase activity; PDB: 1RMD_A.
Probab=59.37 E-value=2.4 Score=26.72 Aligned_cols=15 Identities=20% Similarity=0.321 Sum_probs=7.2
Q ss_pred CCccccccccccccC
Q 025405 199 PRCNHFGCQLYFNWK 213 (253)
Q Consensus 199 ~~CPv~GC~~~l~~~ 213 (253)
.||||.+|...+.+.
T Consensus 3 vrCPvkdC~EEv~lg 17 (30)
T PF10426_consen 3 VRCPVKDCDEEVSLG 17 (30)
T ss_dssp EE--STT---EEEHH
T ss_pred cccccccCcchhhhh
Confidence 589999999876643
No 108
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=59.21 E-value=4.8 Score=34.85 Aligned_cols=27 Identities=15% Similarity=0.101 Sum_probs=16.5
Q ss_pred ccCCCCccccccccCCcccCCCCcccch
Q 025405 158 ISCPLSGKPITELAEPVRRYQILQIYPR 185 (253)
Q Consensus 158 ~~CPlT~~~i~~l~~Pv~s~~CgHvYek 185 (253)
.+||+.+=.... +.|=+|..|||..++
T Consensus 135 ~vC~vCGy~~~g-e~P~~CPiCga~k~~ 161 (166)
T COG1592 135 WVCPVCGYTHEG-EAPEVCPICGAPKEK 161 (166)
T ss_pred EEcCCCCCcccC-CCCCcCCCCCChHHH
Confidence 456766655433 667777777766554
No 109
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=57.21 E-value=4.5 Score=26.13 Aligned_cols=12 Identities=17% Similarity=0.188 Sum_probs=10.5
Q ss_pred CcccCCCCcccc
Q 025405 173 PVRRYQILQIYP 184 (253)
Q Consensus 173 Pv~s~~CgHvYe 184 (253)
-|+|.+|+|+|.
T Consensus 25 ~vrC~~C~~~f~ 36 (37)
T PF13719_consen 25 KVRCPKCGHVFR 36 (37)
T ss_pred EEECCCCCcEee
Confidence 589999999984
No 110
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=57.15 E-value=4.6 Score=26.06 Aligned_cols=10 Identities=20% Similarity=0.315 Sum_probs=8.9
Q ss_pred cccCCCCccc
Q 025405 174 VRRYQILQIY 183 (253)
Q Consensus 174 v~s~~CgHvY 183 (253)
|+|.+|||+|
T Consensus 26 v~C~~C~~~f 35 (36)
T PF13717_consen 26 VRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEe
Confidence 7899999987
No 111
>PF06416 DUF1076: Protein of unknown function (DUF1076); InterPro: IPR010489 This entry is represented by Bacteriophage 2851, Orf74 (EP2851_74). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 2KKX_A 2KKY_A.
Probab=56.11 E-value=8.9 Score=31.21 Aligned_cols=36 Identities=8% Similarity=0.173 Sum_probs=24.2
Q ss_pred cccCCCCcccc---ccccCCcccCCCCcccchhhHhhhhh
Q 025405 157 NISCPLSGKPI---TELAEPVRRYQILQIYPRFSFLPFCS 193 (253)
Q Consensus 157 n~~CPlT~~~i---~~l~~Pv~s~~CgHvYek~aI~~~i~ 193 (253)
.++||||+..- +.++|-..|..| .-||++|+.+.++
T Consensus 40 ~L~CPITL~iPe~GVFvkNs~~S~VC-~LyD~~Al~~Lv~ 78 (113)
T PF06416_consen 40 HLTCPITLCIPENGVFVKNSSGSDVC-SLYDKEALSRLVR 78 (113)
T ss_dssp HH-BTTTTC--SCEEEEECTTTSSEE-EEEEHHHHHHHHH
T ss_pred HcCCCeEEeecCCceEEecCCCCccc-eecCHHHHHHHHH
Confidence 78899997310 123444456666 5799999999997
No 112
>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=55.14 E-value=10 Score=35.21 Aligned_cols=62 Identities=11% Similarity=-0.068 Sum_probs=49.0
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCcccccHhHhhHhH
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYHLKGHML 226 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~l~~~~~ 226 (253)
-+.|-||. ..|.+||+.. -|=+|++..|.++++ +-+.+ =||. ...|+...++|...|+..+-
T Consensus 211 ~lcgkIt~---el~~~pvi~p-sgIty~ra~I~Ehl~-rvghf-dpvt--r~~Lte~q~ipN~alkevIa 272 (284)
T KOG4642|consen 211 YLCGKITL---ELMREPVITP-SGITYDRADIEEHLQ-RVGHF-DPVT--RWPLTEYQLIPNLALKEVIA 272 (284)
T ss_pred hhhhhhhH---HhhcCCccCc-cccchhHHHHHHHHH-HhccC-Cchh--cccCCHHhhccchHHHHHHH
Confidence 35678997 5589999986 699999999999998 43333 3663 45689999999999999843
No 113
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=52.80 E-value=19 Score=32.92 Aligned_cols=62 Identities=19% Similarity=0.242 Sum_probs=39.0
Q ss_pred CcccCCCCcccchhhHhhhhhcCCCCCCcccccccc-ccccCc-----ccccHhHhhHhHHHHhhccCCCeEEEe
Q 025405 173 PVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL-YFNWKK-----CVFKYHLKGHMLFMQVLEYDGDIYLLG 241 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~-~l~~~d-----L~~D~~l~~~~~~~~~~~~~~~~~~~~ 241 (253)
.++|.+||..|..+....++. ..-..+||. |.. .|+..= -.|+..++ ...+.+ ...|+.++-
T Consensus 122 ~~~C~~C~~~~~~~~~~~~~~-~~~~p~C~~--Cg~~~lrP~VV~fGE~lp~~~~~---~~~~~~-~~~d~livi 189 (250)
T COG0846 122 RVRCSKCGNQYYDEDVIKFIE-DGLIPRCPK--CGGPVLRPDVVWFGEPLPASFLD---EALEAL-KEADLLIVI 189 (250)
T ss_pred eeEeCCCcCccchhhhhhhcc-cCCCCcCcc--CCCccccCCEEEeCCCCCHHHHH---HHHHHh-ccCCEEEEE
Confidence 478999999999888666665 223688998 887 443322 22333322 233444 778877664
No 114
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=52.00 E-value=7 Score=36.44 Aligned_cols=37 Identities=14% Similarity=0.228 Sum_probs=18.5
Q ss_pred CCcccCCCCccc-chhhHhhhhhcC--CCCCCcccccccccc
Q 025405 172 EPVRRYQILQIY-PRFSFLPFCSLD--CYFPRCNHFGCQLYF 210 (253)
Q Consensus 172 ~Pv~s~~CgHvY-ek~aI~~~i~~~--~~~~~CPv~GC~~~l 210 (253)
.|+.|..||..| ||.-+.++++.. -++.+||. |.+.+
T Consensus 214 KPF~C~hC~kAFADRSNLRAHmQTHS~~K~~qC~~--C~KsF 253 (279)
T KOG2462|consen 214 KPFSCPHCGKAFADRSNLRAHMQTHSDVKKHQCPR--CGKSF 253 (279)
T ss_pred CCccCCcccchhcchHHHHHHHHhhcCCccccCcc--hhhHH
Confidence 455555555555 455555555421 24455555 55543
No 115
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.75 E-value=9.5 Score=36.12 Aligned_cols=45 Identities=11% Similarity=0.162 Sum_probs=36.2
Q ss_pred cCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccc
Q 025405 159 SCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 159 ~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
.|||.+ ..+..|| +--|+|.|-.-.|..-+. +++..||+ |..-|.
T Consensus 9 eC~IC~---nt~n~Pv-~l~C~HkFCyiCiKGsy~--ndk~~Cav--CR~pid 53 (324)
T KOG0824|consen 9 ECLICY---NTGNCPV-NLYCFHKFCYICIKGSYK--NDKKTCAV--CRFPID 53 (324)
T ss_pred cceeee---ccCCcCc-cccccchhhhhhhcchhh--cCCCCCce--ecCCCC
Confidence 489988 5678895 578999999999998886 55667999 887554
No 116
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.80 E-value=10 Score=36.41 Aligned_cols=51 Identities=12% Similarity=0.197 Sum_probs=32.9
Q ss_pred cCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCc
Q 025405 159 SCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKK 214 (253)
Q Consensus 159 ~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~d 214 (253)
.|=|.+-.. .--+=+|==-|+|.|-...|-.||.+. +.-||+ |...+....
T Consensus 231 ~CaIClEdY-~~GdklRiLPC~H~FH~~CIDpWL~~~--r~~CPv--CK~di~~~~ 281 (348)
T KOG4628|consen 231 TCAICLEDY-EKGDKLRILPCSHKFHVNCIDPWLTQT--RTFCPV--CKRDIRTDS 281 (348)
T ss_pred eEEEeeccc-ccCCeeeEecCCCchhhccchhhHhhc--CccCCC--CCCcCCCCC
Confidence 466665221 011234444699999999999999722 456999 888554433
No 117
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=49.60 E-value=8.9 Score=25.93 Aligned_cols=25 Identities=12% Similarity=-0.020 Sum_probs=17.0
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
++|..||+.|+-+ ....++||- |++
T Consensus 3 Y~C~~Cg~~~~~~--------~~~~irC~~--CG~ 27 (44)
T smart00659 3 YICGECGRENEIK--------SKDVVRCRE--CGY 27 (44)
T ss_pred EECCCCCCEeecC--------CCCceECCC--CCc
Confidence 5677888888743 346688886 544
No 118
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=48.54 E-value=14 Score=31.25 Aligned_cols=33 Identities=6% Similarity=0.115 Sum_probs=21.5
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKK 214 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~d 214 (253)
+.|..|+.-|+-.-.+++ .+.||+ |+..|..-|
T Consensus 110 Y~Cp~c~~r~tf~eA~~~------~F~Cp~--Cg~~L~~~d 142 (158)
T TIGR00373 110 FICPNMCVRFTFNEAMEL------NFTCPR--CGAMLDYLD 142 (158)
T ss_pred EECCCCCcEeeHHHHHHc------CCcCCC--CCCEeeecc
Confidence 345557777766555542 589999 888755444
No 119
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=48.52 E-value=9.7 Score=24.16 Aligned_cols=11 Identities=18% Similarity=0.326 Sum_probs=9.2
Q ss_pred cCCcccCCCCc
Q 025405 171 AEPVRRYQILQ 181 (253)
Q Consensus 171 ~~Pv~s~~CgH 181 (253)
.+||+|+.|||
T Consensus 15 ~~~irC~~CG~ 25 (32)
T PF03604_consen 15 GDPIRCPECGH 25 (32)
T ss_dssp SSTSSBSSSS-
T ss_pred CCcEECCcCCC
Confidence 67999999998
No 120
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=48.47 E-value=62 Score=29.19 Aligned_cols=35 Identities=11% Similarity=0.135 Sum_probs=15.7
Q ss_pred hHHHHhHhhhcccchhHHHHHHHHHHHHHHHHHHH
Q 025405 14 GRIRNAATTLYNDNNTVIGEIRRALGMIKEIAVDL 48 (253)
Q Consensus 14 ~~~~~a~~~~~~~~~~~~~di~~a~~~ikevA~~l 48 (253)
+.+.+++.......+.+...|.....-|.++..++
T Consensus 76 ~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~ 110 (264)
T PF06008_consen 76 QQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQV 110 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444444444444443
No 121
>PF14353 CpXC: CpXC protein
Probab=48.34 E-value=12 Score=30.04 Aligned_cols=34 Identities=6% Similarity=-0.092 Sum_probs=20.5
Q ss_pred cccCCCCcccchh------------hHhhhhhcCCCCCCccccccccc
Q 025405 174 VRRYQILQIYPRF------------SFLPFCSLDCYFPRCNHFGCQLY 209 (253)
Q Consensus 174 v~s~~CgHvYek~------------aI~~~i~~~~~~~~CPv~GC~~~ 209 (253)
++|..|||.|+.+ .....|...-....||. |++.
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~--Cg~~ 47 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPS--CGHK 47 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCC--CCCc
Confidence 4677888888643 23333332234688999 6664
No 122
>PF13779 DUF4175: Domain of unknown function (DUF4175)
Probab=47.83 E-value=1e+02 Score=33.07 Aligned_cols=55 Identities=18% Similarity=0.199 Sum_probs=37.8
Q ss_pred HHhHHHHhHhhhcccchhHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHH
Q 025405 12 VTGRIRNAATTLYNDNNTVIGEIRRALGMIKEIAVDLEKDNQSQMVKELEDATIQLM 68 (253)
Q Consensus 12 ~~~~~~~a~~~~~~~~~~~~~di~~a~~~ikevA~~lE~~~~~~~vkeLe~~v~eL~ 68 (253)
+--.|+.+...+... ....+++...+.++++|+.+|+.+.++-.+.|+.+=..|-
T Consensus 428 ~yL~Lr~a~~rL~~~--~~~~~~~~v~~~LW~lAl~iEdG~ls~A~~~Lr~AQe~L~ 482 (820)
T PF13779_consen 428 HYLGLRSARRRLERA--RTDEALREVADLLWDLALRIEDGDLSDAERRLRAAQEALR 482 (820)
T ss_pred HHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHHH
Confidence 334566666666522 2456779999999999999998877766666665544443
No 123
>PF01530 zf-C2HC: Zinc finger, C2HC type; InterPro: IPR002515 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 CysCysHisCys (C2HC) type zinc finger domain found in eukaryotes. Proteins containing these domains include: MYST family histone acetyltransferases [, [] Myelin transcription factor Myt1 [] Suppressor of tumourigenicity protein 18 (ST18) [] More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2CS8_A 1PXE_A 2JX1_A 2JYD_A.
Probab=47.55 E-value=8.5 Score=24.44 Aligned_cols=11 Identities=27% Similarity=0.594 Sum_probs=7.4
Q ss_pred CCccccccccc
Q 025405 199 PRCNHFGCQLY 209 (253)
Q Consensus 199 ~~CPv~GC~~~ 209 (253)
.+||..||...
T Consensus 2 ~~CPtpGCdg~ 12 (31)
T PF01530_consen 2 LKCPTPGCDGS 12 (31)
T ss_dssp TSSSSTT--SC
T ss_pred CcCCCCCCCcc
Confidence 47999999874
No 124
>TIGR02302 aProt_lowcomp conserved hypothetical protein TIGR02302. Members of this family are long (~850 residue) bacterial proteins from the alpha Proteobacteria. Each has 2-3 predicted transmembrane helices near the N-terminus and a long C-terminal region that includes stretches of Gln/Gly-rich low complexity sequence, predicted by TMHMM to be outside the membrane. In Bradyrhizobium japonicum, two tandem reading frames are together homologous the single members found in other species; the cutoffs scores are set low enough that the longer scores above the trusted cutoff and the shorter above the noise cutoff for this model.
Probab=47.11 E-value=1.1e+02 Score=33.13 Aligned_cols=53 Identities=17% Similarity=0.184 Sum_probs=36.7
Q ss_pred HHHHhHhhhcccchhHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHH
Q 025405 15 RIRNAATTLYNDNNTVIGEIRRALGMIKEIAVDLEKDNQSQMVKELEDATIQLME 69 (253)
Q Consensus 15 ~~~~a~~~~~~~~~~~~~di~~a~~~ikevA~~lE~~~~~~~vkeLe~~v~eL~~ 69 (253)
.|+.+...+.... ..+++++..+.++++|+.+|+.+.++-.+.|+.+=..|-+
T Consensus 462 ~Lr~a~~rL~~a~--~~~~l~~v~~~LW~lAl~iEdG~ls~A~~~Lr~AQ~aL~e 514 (851)
T TIGR02302 462 GLYTIRTRLERAR--TDDALRDVADNLWSLALGIEDGDLSDAERRLRAAQDALKD 514 (851)
T ss_pred HHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Confidence 4555555554432 3356788999999999999988877777777766555544
No 125
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.74 E-value=12 Score=36.62 Aligned_cols=46 Identities=11% Similarity=0.104 Sum_probs=28.9
Q ss_pred CCccccccccCCcccC-CCCcccchhhHhhhhhcCCCCCCccc----ccccccc
Q 025405 162 LSGKPITELAEPVRRY-QILQIYPRFSFLPFCSLDCYFPRCNH----FGCQLYF 210 (253)
Q Consensus 162 lT~~~i~~l~~Pv~s~-~CgHvYek~aI~~~i~~~~~~~~CPv----~GC~~~l 210 (253)
+-++|. .+-+-.. .|||+|.-..+.+|+........||+ .||.+++
T Consensus 11 ~d~~p~---~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~ 61 (465)
T KOG0827|consen 11 IDGRPN---DHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA 61 (465)
T ss_pred ccCCcc---ccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence 455554 2233333 39999999999999973322246886 3455554
No 126
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=46.27 E-value=4.2 Score=28.09 Aligned_cols=44 Identities=16% Similarity=0.176 Sum_probs=27.6
Q ss_pred CcccCC--CCcccchhhHhhhhhcC--CCCCCccc--cccccccccCccc
Q 025405 173 PVRRYQ--ILQIYPRFSFLPFCSLD--CYFPRCNH--FGCQLYFNWKKCV 216 (253)
Q Consensus 173 Pv~s~~--CgHvYek~aI~~~i~~~--~~~~~CPv--~GC~~~l~~~dL~ 216 (253)
||.+.. |.-.+-|..+.+++... ...+.||. .||...+.+.+|.
T Consensus 9 ~v~C~~~cc~~~i~r~~l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~ 58 (60)
T PF02176_consen 9 PVPCPNGCCNEMIPRKELDDHLENECPKRPVPCPYSPYGCKERVPREDLE 58 (60)
T ss_dssp EEE-TT--S-BEEECCCHHHHHHTTSTTSEEE-SS----S--EEEHHHHH
T ss_pred EeeCCCCCcccceeHHHHHHHHHccCCCCcEECCCCCCCCCCccchhHHh
Confidence 567766 56679999999999832 35678999 9999988776653
No 127
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=45.75 E-value=10 Score=25.37 Aligned_cols=28 Identities=11% Similarity=-0.005 Sum_probs=19.0
Q ss_pred CcccCCCCcccchhhHhhhhhcCCCCCCccccccccc
Q 025405 173 PVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLY 209 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~ 209 (253)
.++|..||..|+-+.- ....+||. |++.
T Consensus 3 ~y~C~~CG~~~~~~~~-------~~~~~Cp~--CG~~ 30 (46)
T PRK00398 3 EYKCARCGREVELDEY-------GTGVRCPY--CGYR 30 (46)
T ss_pred EEECCCCCCEEEECCC-------CCceECCC--CCCe
Confidence 5788899988876422 22578998 5553
No 128
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=45.57 E-value=97 Score=27.02 Aligned_cols=39 Identities=13% Similarity=0.120 Sum_probs=6.5
Q ss_pred hhHHhHHHHhHhhhcccch-hHHHHHHHHHHHHHHHHHHH
Q 025405 10 DAVTGRIRNAATTLYNDNN-TVIGEIRRALGMIKEIAVDL 48 (253)
Q Consensus 10 ~~~~~~~~~a~~~~~~~~~-~~~~di~~a~~~ikevA~~l 48 (253)
+-++.||+-.|..-++.-+ -++.++...+.-+.......
T Consensus 82 ~hAt~KLr~iv~~tsancs~QVqqeL~~tf~rL~~~Vd~~ 121 (171)
T PF04799_consen 82 DHATEKLRLIVSFTSANCSHQVQQELSSTFARLCQQVDQT 121 (171)
T ss_dssp ----------------------------HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677766665555544 37777777777665544433
No 129
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.30 E-value=8.4 Score=38.85 Aligned_cols=26 Identities=19% Similarity=0.300 Sum_probs=21.4
Q ss_pred CCCcccchhhHhhhhhcCCCCCCccccc
Q 025405 178 QILQIYPRFSFLPFCSLDCYFPRCNHFG 205 (253)
Q Consensus 178 ~CgHvYek~aI~~~i~~~~~~~~CPv~G 205 (253)
-|.|+|.+..+++++. ..+..||+--
T Consensus 605 PC~HifH~~CL~~WMd--~ykl~CPvCR 630 (636)
T KOG0828|consen 605 PCHHIFHRQCLLQWMD--TYKLICPVCR 630 (636)
T ss_pred chHHHHHHHHHHHHHh--hhcccCCccC
Confidence 6999999999999995 4456899833
No 130
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=44.98 E-value=7.8 Score=35.58 Aligned_cols=42 Identities=17% Similarity=0.390 Sum_probs=31.0
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
-+.| +++. -.+|++ |+|+-||..-+.||+ +. . |+.||+..++
T Consensus 231 ~~~C--sq~~---~~~~~v---~d~IlE~R~~~~~ir-~s-q---eq~~~~~~~~ 272 (275)
T COG5627 231 RLIC--SQKE---VVDPYV---CDHILEKREAMKYIR-NS-Q---EQIGCNKRLT 272 (275)
T ss_pred hhhc--chhe---eccchh---hhHHHHHHHHHHHHH-hh-h---hhhchhhhhh
Confidence 3445 6643 366665 999999999999998 22 2 9999998654
No 131
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=44.84 E-value=34 Score=38.75 Aligned_cols=76 Identities=18% Similarity=0.173 Sum_probs=39.6
Q ss_pred ceeeecccCccccccCCCCccccccccCCc----ccCCCCcccchhhHhh-hhhcC--CCCCCccccccccccccCcccc
Q 025405 145 DIVMTSTQSNILNISCPLSGKPITELAEPV----RRYQILQIYPRFSFLP-FCSLD--CYFPRCNHFGCQLYFNWKKCVF 217 (253)
Q Consensus 145 Di~v~~~q~~~~n~~CPlT~~~i~~l~~Pv----~s~~CgHvYek~aI~~-~i~~~--~~~~~CPv~GC~~~l~~~dL~~ 217 (253)
.+.|++-++..-|+.|=+.+ |++ .||+ +|.+|.|+= .+.. -+.+. -....||. |+..+..
T Consensus 879 g~lVG~RGS~~gSlVAy~lg--ITe-VdPL~phy~C~~C~~~e---f~~~~~~~sG~Dlpdk~Cp~--Cg~~~~k----- 945 (1437)
T PRK00448 879 GYLVGSRGSVGSSFVATMIG--ITE-VNPLPPHYVCPNCKYSE---FFTDGSVGSGFDLPDKDCPK--CGTKLKK----- 945 (1437)
T ss_pred CceECCCCcHHHHHHHHHhc--CCC-cCCCCccccCccccccc---ccccccccccccCccccCcc--ccccccc-----
Confidence 46664422222344444333 222 7787 599998751 1111 01111 24478998 8764433
Q ss_pred cHhHhhHhHHHHhhccCCC
Q 025405 218 KYHLKGHMLFMQVLEYDGD 236 (253)
Q Consensus 218 D~~l~~~~~~~~~~~~~~~ 236 (253)
| .+.+.|=.||+++|+
T Consensus 946 d---g~~l~FErFL~~~r~ 961 (1437)
T PRK00448 946 D---GHDIPFETFLGFKGD 961 (1437)
T ss_pred c---CCCceeeeccCCCCC
Confidence 2 356777777777774
No 132
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=44.11 E-value=10 Score=26.49 Aligned_cols=28 Identities=11% Similarity=0.034 Sum_probs=19.6
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYF 210 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l 210 (253)
++|..||-.|| .++ ....++||. |++.|
T Consensus 7 Y~C~~Cg~~~~------~~~-~~~~irCp~--Cg~rI 34 (49)
T COG1996 7 YKCARCGREVE------LDQ-ETRGIRCPY--CGSRI 34 (49)
T ss_pred EEhhhcCCeee------hhh-ccCceeCCC--CCcEE
Confidence 67888999883 232 456688998 87744
No 133
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=42.42 E-value=13 Score=26.82 Aligned_cols=10 Identities=10% Similarity=-0.101 Sum_probs=6.0
Q ss_pred cccCCCCccc
Q 025405 174 VRRYQILQIY 183 (253)
Q Consensus 174 v~s~~CgHvY 183 (253)
+.|..|||.|
T Consensus 54 L~Cp~c~r~Y 63 (68)
T PF03966_consen 54 LICPECGREY 63 (68)
T ss_dssp EEETTTTEEE
T ss_pred EEcCCCCCEE
Confidence 4456666666
No 134
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=39.90 E-value=10 Score=39.52 Aligned_cols=53 Identities=11% Similarity=-0.001 Sum_probs=42.3
Q ss_pred ccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccccc
Q 025405 158 ISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFK 218 (253)
Q Consensus 158 ~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D 218 (253)
+.|+|... .+.|+. ..|||.|-++.+..+|... ....||. |.+.+...+|...
T Consensus 455 ~~c~ic~~----~~~~~i-t~c~h~~c~~c~~~~i~~~-~~~~~~~--cr~~l~~~~l~s~ 507 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFI-TRCGHDFCVECLKKSIQQS-ENAPCPL--CRNVLKEKKLLSA 507 (674)
T ss_pred cccccccc----ccccee-ecccchHHHHHHHhccccc-cCCCCcH--HHHHHHHHHHhhc
Confidence 78999973 577777 5699999999999999833 3347888 9998887777764
No 135
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.82 E-value=10 Score=28.94 Aligned_cols=30 Identities=10% Similarity=0.190 Sum_probs=23.0
Q ss_pred CcccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 173 PVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
-++|..|||.|+ +++.+. ...-..||- |+.
T Consensus 12 ~Y~c~~cg~~~d---vvq~~~-ddplt~ce~--c~a 41 (82)
T COG2331 12 SYECTECGNRFD---VVQAMT-DDPLTTCEE--CGA 41 (82)
T ss_pred EEeecccchHHH---HHHhcc-cCccccChh--hCh
Confidence 378999999995 677776 556688998 665
No 136
>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=38.99 E-value=12 Score=25.67 Aligned_cols=34 Identities=9% Similarity=-0.321 Sum_probs=17.9
Q ss_pred cccCCCCcccchhhHh--hhhhc------CCCCCCccccccc
Q 025405 174 VRRYQILQIYPRFSFL--PFCSL------DCYFPRCNHFGCQ 207 (253)
Q Consensus 174 v~s~~CgHvYek~aI~--~~i~~------~~~~~~CPv~GC~ 207 (253)
++|+.||++|+.+.=. +=|.. -...-+||+=|-+
T Consensus 2 y~C~~CgyvYd~~~Gd~~~~i~pGt~F~~Lp~~w~CP~C~a~ 43 (47)
T PF00301_consen 2 YQCPVCGYVYDPEKGDPENGIPPGTPFEDLPDDWVCPVCGAP 43 (47)
T ss_dssp EEETTTSBEEETTTBBGGGTB-TT--GGGS-TT-B-TTTSSB
T ss_pred cCCCCCCEEEcCCcCCcccCcCCCCCHHHCCCCCcCcCCCCc
Confidence 4688999999876421 11110 1245689994443
No 137
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=38.67 E-value=29 Score=30.04 Aligned_cols=46 Identities=13% Similarity=0.029 Sum_probs=25.0
Q ss_pred cCCCCcccchhhHhhhhhcCCCCCCccccccccccccCccccc-HhHhhHhHHHH
Q 025405 176 RYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFK-YHLKGHMLFMQ 229 (253)
Q Consensus 176 s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D-~~l~~~~~~~~ 229 (253)
|..|+.-|+-.-.++ ..+.||+ |+..|..-|=..- ..|++++..+.
T Consensus 120 Cp~C~~rytf~eA~~------~~F~Cp~--Cg~~L~~~dn~~~~~~l~~~I~~l~ 166 (178)
T PRK06266 120 CPNCHIRFTFDEAME------YGFRCPQ--CGEMLEEYDNSELIKELKEQIKELE 166 (178)
T ss_pred CCCCCcEEeHHHHhh------cCCcCCC--CCCCCeecccHHHHHHHHHHHHHHH
Confidence 444665555443332 3689999 9987655433222 22555555543
No 138
>cd00924 Cyt_c_Oxidase_Vb Cytochrome c oxidase subunit Vb. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Vb is one of three mammalian subunits that lacks a transmembrane region. Subunit Vb is located on the matrix side of the membrane and binds the regulatory subunit of protein kinase A. The abnormally extended conformation is stable only in the CcO assembly.
Probab=38.62 E-value=14 Score=29.19 Aligned_cols=14 Identities=14% Similarity=0.287 Sum_probs=12.2
Q ss_pred cCCcccCCCCcccc
Q 025405 171 AEPVRRYQILQIYP 184 (253)
Q Consensus 171 ~~Pv~s~~CgHvYe 184 (253)
..|.||..|||+|-
T Consensus 77 g~~~rC~eCG~~fk 90 (97)
T cd00924 77 GKPKRCPECGHVFK 90 (97)
T ss_pred CCceeCCCCCcEEE
Confidence 46999999999994
No 139
>COG1655 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.43 E-value=15 Score=33.69 Aligned_cols=32 Identities=13% Similarity=0.066 Sum_probs=26.2
Q ss_pred hhhHhhhhhcCCCCCCccccccccccccCcccccHh
Q 025405 185 RFSFLPFCSLDCYFPRCNHFGCQLYFNWKKCVFKYH 220 (253)
Q Consensus 185 k~aI~~~i~~~~~~~~CPv~GC~~~l~~~dL~~D~~ 220 (253)
|.+|++++- .+.+.||| |+..+....+..+..
T Consensus 8 K~s~~s~f~--kk~ieCPv--C~tkFkkeev~tgsi 39 (267)
T COG1655 8 KTSINSLFY--KKTIECPV--CNTKFKKEEVKTGSI 39 (267)
T ss_pred hhhHHHHHh--hceeccCc--ccchhhhhheeccce
Confidence 678999995 67899999 999888877776654
No 140
>PHA00733 hypothetical protein
Probab=38.38 E-value=53 Score=26.88 Aligned_cols=39 Identities=13% Similarity=0.071 Sum_probs=26.1
Q ss_pred cCCcccCCCCcccchhh-HhhhhhcCCCCCCccccccccccc
Q 025405 171 AEPVRRYQILQIYPRFS-FLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 171 ~~Pv~s~~CgHvYek~a-I~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
..|+.|..||..|...+ +..+++.......|++ |+..+.
T Consensus 71 ~kPy~C~~Cgk~Fss~s~L~~H~r~h~~~~~C~~--CgK~F~ 110 (128)
T PHA00733 71 VSPYVCPLCLMPFSSSVSLKQHIRYTEHSKVCPV--CGKEFR 110 (128)
T ss_pred CCCccCCCCCCcCCCHHHHHHHHhcCCcCccCCC--CCCccC
Confidence 45888999999988655 4455642234568887 876443
No 141
>PLN03086 PRLI-interacting factor K; Provisional
Probab=37.80 E-value=23 Score=36.31 Aligned_cols=44 Identities=16% Similarity=0.126 Sum_probs=35.1
Q ss_pred CcccCCCCcccchhhHhhhhhcC-CCCCCccccccccccccCccc
Q 025405 173 PVRRYQILQIYPRFSFLPFCSLD-CYFPRCNHFGCQLYFNWKKCV 216 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~~i~~~-~~~~~CPv~GC~~~l~~~dL~ 216 (253)
=|+|+.|+..-....+..+...- ...+.||..||...+.+.++.
T Consensus 407 ~V~C~NC~~~i~l~~l~lHe~~C~r~~V~Cp~~~Cg~v~~r~el~ 451 (567)
T PLN03086 407 TVECRNCKHYIPSRSIALHEAYCSRHNVVCPHDGCGIVLRVEEAK 451 (567)
T ss_pred eEECCCCCCccchhHHHHHHhhCCCcceeCCcccccceeeccccc
Confidence 36788899999999999887521 356889999999988877774
No 142
>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=35.63 E-value=29 Score=29.49 Aligned_cols=32 Identities=13% Similarity=-0.022 Sum_probs=20.9
Q ss_pred cccCCCCcccch-----hhHhhhhhcCCCCCCcccccccc
Q 025405 174 VRRYQILQIYPR-----FSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 174 v~s~~CgHvYek-----~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
++|. |||.||- +++.... ..+-..||+=|...
T Consensus 6 L~C~-~gH~FEgWF~ss~~fd~Q~--~~glv~CP~Cgs~~ 42 (148)
T PF06676_consen 6 LRCE-NGHEFEGWFRSSAAFDRQQ--ARGLVSCPVCGSTE 42 (148)
T ss_pred EecC-CCCccceecCCHHHHHHHH--HcCCccCCCCCCCe
Confidence 5676 8999983 2222222 26789999966655
No 143
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=34.79 E-value=2.5e+02 Score=22.92 Aligned_cols=39 Identities=13% Similarity=0.186 Sum_probs=25.2
Q ss_pred ccccchhHHhHHHHhHhhhcccchhHHHHHHHHHHHHHH
Q 025405 5 SASRHDAVTGRIRNAATTLYNDNNTVIGEIRRALGMIKE 43 (253)
Q Consensus 5 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~di~~a~~~ike 43 (253)
+|...+.+..++..|+....-..-...+.|..||+++|.
T Consensus 21 ~gdp~~~~~s~~~~a~ha~~~~VvaIDNKIeQAMDLVKt 59 (123)
T KOG4797|consen 21 GGDPTSNASSALSVAAHASSGSVVAIDNKIEQAMDLVKT 59 (123)
T ss_pred cCCcccCchhHHHHhccCCCCceEeechHHHHHHHHHHH
Confidence 344444445556666554444455578899999999987
No 144
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=34.52 E-value=21 Score=29.72 Aligned_cols=19 Identities=11% Similarity=0.048 Sum_probs=12.6
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNH 203 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv 203 (253)
.+|++|||+| -....-||.
T Consensus 30 ~kC~~CG~v~-----------~PPr~~Cp~ 48 (140)
T COG1545 30 TKCKKCGRVY-----------FPPRAYCPK 48 (140)
T ss_pred EEcCCCCeEE-----------cCCcccCCC
Confidence 4577888887 345556766
No 145
>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=34.39 E-value=19 Score=21.18 Aligned_cols=14 Identities=7% Similarity=0.076 Sum_probs=11.3
Q ss_pred cCCcccCCCCcccc
Q 025405 171 AEPVRRYQILQIYP 184 (253)
Q Consensus 171 ~~Pv~s~~CgHvYe 184 (253)
+.|+.|..|+..|.
T Consensus 12 ~k~~~C~~C~k~F~ 25 (26)
T PF13465_consen 12 EKPYKCPYCGKSFS 25 (26)
T ss_dssp SSSEEESSSSEEES
T ss_pred CCCCCCCCCcCeeC
Confidence 57888999988874
No 146
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=34.31 E-value=23 Score=38.65 Aligned_cols=35 Identities=9% Similarity=0.138 Sum_probs=29.3
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
-||..|+|-|--..+..|++ ..++.+||. |...|+
T Consensus 1489 krC~TCknKFH~~CLyKWf~-Ss~~s~CPl--CRseit 1523 (1525)
T COG5219 1489 KRCATCKNKFHTRCLYKWFA-SSARSNCPL--CRSEIT 1523 (1525)
T ss_pred cccchhhhhhhHHHHHHHHH-hcCCCCCCc--cccccc
Confidence 35788999999999999998 556789999 887654
No 147
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=34.10 E-value=35 Score=31.87 Aligned_cols=35 Identities=17% Similarity=0.112 Sum_probs=22.8
Q ss_pred CcccCCCCcccchhhHhh-hhhcC--CCCCCccccccccc
Q 025405 173 PVRRYQILQIYPRFSFLP-FCSLD--CYFPRCNHFGCQLY 209 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~-~i~~~--~~~~~CPv~GC~~~ 209 (253)
|..|..||.-|+|-.+++ +|+.. -+.+.||. |++.
T Consensus 187 ~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~h--C~kA 224 (279)
T KOG2462|consen 187 PCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPH--CGKA 224 (279)
T ss_pred CcccccccccccchHHhhcccccccCCCCccCCc--ccch
Confidence 666777777777776654 46532 35677775 7763
No 148
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=32.91 E-value=2.7e+02 Score=22.69 Aligned_cols=35 Identities=14% Similarity=0.161 Sum_probs=24.1
Q ss_pred ccccchhHHhHHHHhHhhhcccchhHHHHHHHHHH
Q 025405 5 SASRHDAVTGRIRNAATTLYNDNNTVIGEIRRALG 39 (253)
Q Consensus 5 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~di~~a~~ 39 (253)
+++...+..+|+...++.+-.+...+..++...-.
T Consensus 10 ~~~~~~~~ve~L~s~lr~~E~E~~~l~~el~~l~~ 44 (120)
T PF12325_consen 10 SGGPSVQLVERLQSQLRRLEGELASLQEELARLEA 44 (120)
T ss_pred cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455677889999999887777776666554433
No 149
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=32.50 E-value=1.7e+02 Score=20.28 Aligned_cols=29 Identities=24% Similarity=0.261 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHhHhHHHHHHHHHHHhhc
Q 025405 57 VKELEDATIQLMEAFGDCTHHSAAIQSVGNTY 88 (253)
Q Consensus 57 vkeLe~~v~eL~~~~~e~~~~~~Alq~l~~~y 88 (253)
..++...+.++. ..+..+.+.|....+.|
T Consensus 53 ~~~~~~~~~~~~---~~L~~~~~~l~~~~~~~ 81 (86)
T PF06013_consen 53 FEEWNQAFRQLN---EALEELSQALRQAAQNY 81 (86)
T ss_dssp HHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence 334444444443 35556666666666555
No 150
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=30.72 E-value=24 Score=29.13 Aligned_cols=13 Identities=0% Similarity=-0.184 Sum_probs=11.0
Q ss_pred cccCCCCcccchh
Q 025405 174 VRRYQILQIYPRF 186 (253)
Q Consensus 174 v~s~~CgHvYek~ 186 (253)
++|..|||+|+-.
T Consensus 71 ~~C~~CG~~~~~~ 83 (135)
T PRK03824 71 LKCRNCGNEWSLK 83 (135)
T ss_pred EECCCCCCEEecc
Confidence 6799999999765
No 151
>KOG2683 consensus Sirtuin 4 and related class II sirtuins (SIR2 family) [Chromatin structure and dynamics; Transcription]
Probab=30.64 E-value=37 Score=31.54 Aligned_cols=21 Identities=24% Similarity=0.150 Sum_probs=18.2
Q ss_pred CcccCCCCcccchhhHhhhhh
Q 025405 173 PVRRYQILQIYPRFSFLPFCS 193 (253)
Q Consensus 173 Pv~s~~CgHvYek~aI~~~i~ 193 (253)
-|+|..||.++.|.-..+-|+
T Consensus 157 ~VkCl~C~y~~~R~~~Qdrl~ 177 (305)
T KOG2683|consen 157 QVKCLSCGYIEPRQTFQDRLK 177 (305)
T ss_pred EEEecccCcccchHHHHHHHH
Confidence 488999999999998877775
No 152
>KOG2684 consensus Sirtuin 5 and related class III sirtuins (SIR2 family) [Chromatin structure and dynamics; Transcription]
Probab=30.26 E-value=31 Score=33.97 Aligned_cols=32 Identities=13% Similarity=0.030 Sum_probs=28.0
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
++|.+|++.++-++|.+-++ +.....||. |..
T Consensus 204 ~sCt~C~~k~~~~~~~~~~~-~~~vp~CP~--C~~ 235 (412)
T KOG2684|consen 204 ASCTKCGYKKPFEELREDIR-NQEVPVCPD--CEG 235 (412)
T ss_pred eeecccccccChHHHHHHHh-cCcCccCcc--ccc
Confidence 67999999999999999888 777889997 755
No 153
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=30.09 E-value=30 Score=29.93 Aligned_cols=23 Identities=9% Similarity=-0.252 Sum_probs=18.3
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
.+|.+|||+.+-+ ..-+||+ |++
T Consensus 135 ~vC~vCGy~~~ge----------~P~~CPi--Cga 157 (166)
T COG1592 135 WVCPVCGYTHEGE----------APEVCPI--CGA 157 (166)
T ss_pred EEcCCCCCcccCC----------CCCcCCC--CCC
Confidence 8899999998743 5678999 664
No 154
>PRK11032 hypothetical protein; Provisional
Probab=29.73 E-value=3.6e+02 Score=23.15 Aligned_cols=35 Identities=11% Similarity=0.108 Sum_probs=19.6
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccc-ccccCcccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL-YFNWKKCVF 217 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~-~l~~~dL~~ 217 (253)
++|.+|||... |.....-..||- |.+ .+++.-|.|
T Consensus 125 LvC~~Cg~~~~-------~~~p~~i~pCp~--C~~~~F~R~~~~P 160 (160)
T PRK11032 125 LVCEKCHHHLA-------FYTPEVLPLCPK--CGHDQFQRRPFEP 160 (160)
T ss_pred EEecCCCCEEE-------ecCCCcCCCCCC--CCCCeeeeCCCCC
Confidence 56888988752 110123355776 776 466555543
No 155
>PF10915 DUF2709: Protein of unknown function (DUF2709); InterPro: IPR024484 Members of this family appear restricted to Chlamydiales. Their function is unknown.
Probab=28.91 E-value=33 Score=30.74 Aligned_cols=52 Identities=15% Similarity=0.210 Sum_probs=30.1
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccc-ccccCc--ccccHhHhh
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL-YFNWKK--CVFKYHLKG 223 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~-~l~~~d--L~~D~~l~~ 223 (253)
-++||.|+|-+. .|- |-=..+||.+|+. +||.--=.. -++... +..|+.+-+
T Consensus 87 IYICPFTGKVF~--DNt-------~~nPQDAIYDWvS------kCPeN~ER~~G~rVKRF~VSeDPevIk 141 (238)
T PF10915_consen 87 IYICPFTGKVFG--DNT-------HPNPQDAIYDWVS------KCPENTERQGGVRVKRFFVSEDPEVIK 141 (238)
T ss_pred EEEcCCcCcccc--CCC-------CCChHHHHHHHHh------hCCccchhccCeEEEEEeecCCHHHHH
Confidence 478999998652 222 3345699999996 377532222 122222 336776543
No 156
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=28.81 E-value=28 Score=34.75 Aligned_cols=43 Identities=9% Similarity=0.268 Sum_probs=31.6
Q ss_pred cCCCCccccccccCCc---ccCCCCcccchhhHhhhhhcCCCCCCccccccccccc
Q 025405 159 SCPLSGKPITELAEPV---RRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 159 ~CPlT~~~i~~l~~Pv---~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
+||+.+- .|..-+ ....|.|+|--..++.|= ...||| |....+
T Consensus 177 TCpVCLE---RMD~s~~gi~t~~c~Hsfh~~cl~~w~-----~~scpv--cR~~q~ 222 (493)
T KOG0804|consen 177 TCPVCLE---RMDSSTTGILTILCNHSFHCSCLMKWW-----DSSCPV--CRYCQS 222 (493)
T ss_pred CcchhHh---hcCccccceeeeecccccchHHHhhcc-----cCcChh--hhhhcC
Confidence 5999984 455555 778999999988877664 346888 776555
No 157
>PF08265 YL1_C: YL1 nuclear protein C-terminal domain; InterPro: IPR013272 This domain is found at the C terminus in proteins of the YL1 family []. These proteins have been shown to be DNA-binding and may be transcription factors []. This domain is also found in proteins that do not belong to the YL1 family.
Probab=28.33 E-value=35 Score=21.36 Aligned_cols=16 Identities=25% Similarity=0.710 Sum_probs=10.3
Q ss_pred cCCCCccccccccCCcc
Q 025405 159 SCPLSGKPITELAEPVR 175 (253)
Q Consensus 159 ~CPlT~~~i~~l~~Pv~ 175 (253)
.||||+.| ..+.+|.+
T Consensus 2 ~C~iTglp-A~Y~DP~T 17 (30)
T PF08265_consen 2 YCDITGLP-ARYRDPKT 17 (30)
T ss_pred cccccCCC-ccccCCCC
Confidence 37888776 45566654
No 158
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=28.19 E-value=30 Score=27.72 Aligned_cols=25 Identities=16% Similarity=0.154 Sum_probs=16.3
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
.+|..||+.|+.. .....+||. |..
T Consensus 71 ~~C~~Cg~~~~~~--------~~~~~~CP~--Cgs 95 (114)
T PRK03681 71 CWCETCQQYVTLL--------TQRVRRCPQ--CHG 95 (114)
T ss_pred EEcccCCCeeecC--------CccCCcCcC--cCC
Confidence 5688999988653 122256998 554
No 159
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.32 E-value=37 Score=31.64 Aligned_cols=34 Identities=24% Similarity=0.460 Sum_probs=29.0
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhh
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCS 193 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~ 193 (253)
=..|-||+.| |..|+..-.-|.-|.|++|+++|=
T Consensus 34 w~~CaLtqep---L~~Piv~c~lGrLYNKe~vi~~LL 67 (293)
T KOG3113|consen 34 WRNCALTQEP---LRRPIVACGLGRLYNKESVIEFLL 67 (293)
T ss_pred HhhcccccCc---cccceeeehhhccccHHHHHHHHH
Confidence 3469999977 599998766789999999999984
No 160
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=27.27 E-value=46 Score=19.59 Aligned_cols=20 Identities=5% Similarity=-0.273 Sum_probs=16.5
Q ss_pred cccCCCCcccchhhHhhhhh
Q 025405 174 VRRYQILQIYPRFSFLPFCS 193 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~ 193 (253)
+.|..||-.|-.++|..+++
T Consensus 3 ~~C~~CgR~F~~~~l~~H~~ 22 (25)
T PF13913_consen 3 VPCPICGRKFNPDRLEKHEK 22 (25)
T ss_pred CcCCCCCCEECHHHHHHHHH
Confidence 45788999999999988874
No 161
>COG0229 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=27.17 E-value=44 Score=28.24 Aligned_cols=34 Identities=21% Similarity=0.265 Sum_probs=24.5
Q ss_pred cCccccccCCCCccccccccCC--------cccCCC----Ccccch
Q 025405 152 QSNILNISCPLSGKPITELAEP--------VRRYQI----LQIYPR 185 (253)
Q Consensus 152 q~~~~n~~CPlT~~~i~~l~~P--------v~s~~C----gHvYek 185 (253)
+.++.+|.-||+...|.+..+= |+|..| ||||+-
T Consensus 62 gcGWPSF~~pi~~~~I~~~~D~S~gM~RtEVrc~~c~sHLGHVF~D 107 (140)
T COG0229 62 GCGWPSFTKPISPDAITYKEDRSHGMVRTEVRCANCDSHLGHVFPD 107 (140)
T ss_pred CCCCccccccCCcccceEeeccCCCcEEEEEEecCCCCccccccCC
Confidence 4578999999987655554443 678777 699974
No 162
>PF13912 zf-C2H2_6: C2H2-type zinc finger; PDB: 1JN7_A 1FU9_A 2L1O_A 1NJQ_A 2EN8_A 2EMM_A 1FV5_A 1Y0J_B 2L6Z_B.
Probab=27.13 E-value=32 Score=19.74 Aligned_cols=15 Identities=13% Similarity=0.217 Sum_probs=12.0
Q ss_pred CcccCCCCcccchhh
Q 025405 173 PVRRYQILQIYPRFS 187 (253)
Q Consensus 173 Pv~s~~CgHvYek~a 187 (253)
|.+|..|+-.|....
T Consensus 1 ~~~C~~C~~~F~~~~ 15 (27)
T PF13912_consen 1 PFECDECGKTFSSLS 15 (27)
T ss_dssp SEEETTTTEEESSHH
T ss_pred CCCCCccCCccCChh
Confidence 678999999996543
No 163
>PF10157 DUF2365: Uncharacterized conserved protein (DUF2365); InterPro: IPR019314 This entry is found in a highly conserved family of proteins which have no known function.
Probab=26.69 E-value=4e+02 Score=22.61 Aligned_cols=36 Identities=14% Similarity=0.293 Sum_probs=25.2
Q ss_pred HhHHHHhHhhhcccchhHHHHHHHHHHHHHHHHHHH
Q 025405 13 TGRIRNAATTLYNDNNTVIGEIRRALGMIKEIAVDL 48 (253)
Q Consensus 13 ~~~~~~a~~~~~~~~~~~~~di~~a~~~ikevA~~l 48 (253)
-..|-.-+.......+.++..++.++..|+.+.++.
T Consensus 54 L~~LE~~a~~ia~svd~ll~~L~~~L~~mS~~Tv~~ 89 (149)
T PF10157_consen 54 LHDLERDAQAIAESVDSLLRSLRSSLHSMSAITVEH 89 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555556678888888888888888876
No 164
>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=26.29 E-value=4.3e+02 Score=27.29 Aligned_cols=75 Identities=15% Similarity=0.258 Sum_probs=39.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHhhcCCCCCc------chHHHH
Q 025405 27 NNTVIGEIRRALGMIKEIAVDLEKDNQSQMVKELEDATIQLMEAFGDCTHHSAAIQSVGNTYQPGTEL------TDFKKL 100 (253)
Q Consensus 27 ~~~~~~di~~a~~~ikevA~~lE~~~~~~~vkeLe~~v~eL~~~~~e~~~~~~Alq~l~~~yq~~~e~------~df~k~ 100 (253)
..-|+.-|.+++++.-++=.-+...+...+-.+||.-++.=++ ++..+++-|+ .++.++++ .+..++
T Consensus 10 Idr~lkKv~Egve~Fd~i~ek~~~~~n~sqkeK~e~DLKkEIK---KLQRlRdQIK----tW~ss~dIKDK~~L~d~Rrl 82 (575)
T KOG2150|consen 10 IDRCLKKVDEGVEIFDEIYEKLHSANNVSQKEKLESDLKKEIK---KLQRLRDQIK----TWQSSSDIKDKDSLLDNRRL 82 (575)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHH---HHHHHHHHHH----hhhcccccccHHHHHHHHHH
Confidence 3445666666777777777767666544445555554432222 3333333332 24444443 345677
Q ss_pred HHHHHHhh
Q 025405 101 LVDEDAKS 108 (253)
Q Consensus 101 ~~~e~~~~ 108 (253)
|+.++.++
T Consensus 83 IE~~MErf 90 (575)
T KOG2150|consen 83 IEQRMERF 90 (575)
T ss_pred HHHHHHHH
Confidence 77777543
No 165
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=26.28 E-value=34 Score=27.37 Aligned_cols=23 Identities=13% Similarity=0.140 Sum_probs=16.1
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFG 205 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~G 205 (253)
++|..||+.|+... ....||.=|
T Consensus 71 ~~C~~Cg~~~~~~~---------~~~~CP~Cg 93 (113)
T PRK12380 71 AWCWDCSQVVEIHQ---------HDAQCPHCH 93 (113)
T ss_pred EEcccCCCEEecCC---------cCccCcCCC
Confidence 57899999997642 234599844
No 166
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.03 E-value=33 Score=25.34 Aligned_cols=27 Identities=26% Similarity=0.502 Sum_probs=20.2
Q ss_pred ccccCCCCcccccc----ccCCcccCCCCcc
Q 025405 156 LNISCPLSGKPITE----LAEPVRRYQILQI 182 (253)
Q Consensus 156 ~n~~CPlT~~~i~~----l~~Pv~s~~CgHv 182 (253)
+..+||..+||+.. =-.|.-|+.|.-|
T Consensus 6 ~~v~CP~Cgkpv~w~~~s~frPFCSkRCklI 36 (65)
T COG3024 6 ITVPCPTCGKPVVWGEESPFRPFCSKRCKLI 36 (65)
T ss_pred ccccCCCCCCcccccccCCcCcchhHhhhhc
Confidence 57889999999754 3457778888754
No 167
>COG4640 Predicted membrane protein [Function unknown]
Probab=25.73 E-value=38 Score=33.38 Aligned_cols=25 Identities=20% Similarity=0.336 Sum_probs=20.6
Q ss_pred cCCCCccccccccCCcccCCCCcccch
Q 025405 159 SCPLSGKPITELAEPVRRYQILQIYPR 185 (253)
Q Consensus 159 ~CPlT~~~i~~l~~Pv~s~~CgHvYek 185 (253)
.||-++. ...++-|.|++|||-|.-
T Consensus 3 fC~kcG~--qk~Ed~~qC~qCG~~~t~ 27 (465)
T COG4640 3 FCPKCGS--QKAEDDVQCTQCGHKFTS 27 (465)
T ss_pred ccccccc--ccccccccccccCCcCCc
Confidence 5999985 346999999999999864
No 168
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=25.72 E-value=18 Score=28.83 Aligned_cols=24 Identities=17% Similarity=0.171 Sum_probs=15.1
Q ss_pred cccCCCCcccchhhHhhhhhcCCCCCCcccccccc
Q 025405 174 VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 174 v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
++|..|||.|+-+.. ...||. |..
T Consensus 71 ~~C~~Cg~~~~~~~~---------~~~CP~--Cgs 94 (113)
T PF01155_consen 71 ARCRDCGHEFEPDEF---------DFSCPR--CGS 94 (113)
T ss_dssp EEETTTS-EEECHHC---------CHH-SS--SSS
T ss_pred EECCCCCCEEecCCC---------CCCCcC--CcC
Confidence 569999999986532 245998 555
No 169
>PF11172 DUF2959: Protein of unknown function (DUF2959); InterPro: IPR021342 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=25.25 E-value=5e+02 Score=23.27 Aligned_cols=71 Identities=15% Similarity=0.272 Sum_probs=44.3
Q ss_pred hHHhHHHHhHhhhcccchhHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHh
Q 025405 11 AVTGRIRNAATTLYNDNNTVIGEIRRALGMIKEIAVDLEKDNQSQMVKELEDATIQLMEAFGDCTHHSAAIQSVGN 86 (253)
Q Consensus 11 ~~~~~~~~a~~~~~~~~~~~~~di~~a~~~ikevA~~lE~~~~~~~vkeLe~~v~eL~~~~~e~~~~~~Alq~l~~ 86 (253)
-+++|+..|-... ++-.+.|..|++-++.+ +.+.+.+..+..+.|.+.+...-+.-.++..+.++++++.+
T Consensus 25 ilvdrVe~Ardsq----~eaqeQF~sALe~f~sl-~~~~ggdLe~~Y~~ln~~ye~s~~~A~~V~~RI~~vE~Va~ 95 (201)
T PF11172_consen 25 ILVDRVEDARDSQ----QEAQEQFKSALEQFKSL-VNFDGGDLEDKYNALNDEYESSEDAAEEVSDRIDAVEDVAD 95 (201)
T ss_pred HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHh-hCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555544333 45667777777777554 33444445566666777777776666777777777777655
No 170
>PF01608 I_LWEQ: I/LWEQ domain; InterPro: IPR002558 I/LWEQ domains bind to actin. It has been shown that the I/LWEQ domains from mouse talin P26039 from SWISSPROT and yeast Sla2p P33338 from SWISSPROT interact with F-actin []. The domain has four conserved blocks, the name of the domain is derived from the initial conserved amino acid of each of the four blocks []. I/LWEQ domains can be placed into four major groups based on sequence similarity: Metazoan talin. Dictyostelium discoideum (Slime mould) TalA/TalB P54633 from SWISSPROT and SLA110. Metazoan Hip1p O00291 from SWISSPROT. Saccharomyces cerevisiae Sla2p P33338 from SWISSPROT. ; GO: 0003779 actin binding; PDB: 2QDQ_A 2JSW_A 1R0D_B.
Probab=24.88 E-value=3.5e+02 Score=23.09 Aligned_cols=20 Identities=0% Similarity=0.084 Sum_probs=10.9
Q ss_pred HHHHHhHhHHHHHHHHHHHh
Q 025405 67 LMEAFGDCTHHSAAIQSVGN 86 (253)
Q Consensus 67 L~~~~~e~~~~~~Alq~l~~ 86 (253)
.+++++++..-+.-|-+++.
T Consensus 127 iL~lE~eLe~ar~kL~~lRk 146 (152)
T PF01608_consen 127 ILKLEKELEKARKKLAELRK 146 (152)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 55555555555555555543
No 171
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.86 E-value=45 Score=32.68 Aligned_cols=46 Identities=13% Similarity=0.114 Sum_probs=35.7
Q ss_pred cccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCccccccccccc
Q 025405 157 NISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 157 n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
+|-|=+.. ..+.+||.. -|||+|....|+.-+. ....||- |...+.
T Consensus 84 ef~c~vc~---~~l~~pv~t-pcghs~c~~Cl~r~ld---~~~~cp~--Cr~~l~ 129 (398)
T KOG4159|consen 84 EFECCVCS---RALYPPVVT-PCGHSFCLECLDRSLD---QETECPL--CRDELV 129 (398)
T ss_pred hhhhhhhH---hhcCCCccc-cccccccHHHHHHHhc---cCCCCcc--cccccc
Confidence 66777776 347999986 7999999998888553 6678998 877544
No 172
>PRK10869 recombination and repair protein; Provisional
Probab=23.43 E-value=7.7e+02 Score=24.95 Aligned_cols=101 Identities=18% Similarity=0.233 Sum_probs=0.0
Q ss_pred ccchhHHhHHHHhHhhhcc-cchhHHHHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHh-------------
Q 025405 7 SRHDAVTGRIRNAATTLYN-DNNTVIGEIRRALGMIKEIAVDLEKDNQSQMVKELEDATIQLMEAFG------------- 72 (253)
Q Consensus 7 ~~~~~~~~~~~~a~~~~~~-~~~~~~~di~~a~~~ikevA~~lE~~~~~~~vkeLe~~v~eL~~~~~------------- 72 (253)
+.+......+..+...+.. +.+..+..+..++..+..++.- .+.-......|+++..+|-++.+
T Consensus 218 ~n~e~i~~~~~~~~~~L~~~~~~~~~~~l~~~~~~l~~~~~~--d~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~dp 295 (553)
T PRK10869 218 ANSGQLLTTSQNALQLLADGEEVNILSQLYSAKQLLSELIGM--DSKLSGVLDMLEEALIQIQEASDELRHYLDRLDLDP 295 (553)
T ss_pred HHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHHhhh--CHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCH
Q ss_pred ----HhHHHHHHHHHHHhhcCCC-CCcchHHHHHHHHHHhhh
Q 025405 73 ----DCTHHSAAIQSVGNTYQPG-TELTDFKKLLVDEDAKSR 109 (253)
Q Consensus 73 ----e~~~~~~Alq~l~~~yq~~-~e~~df~k~~~~e~~~~k 109 (253)
++..+...++.+..+|.++ ++...|.+.++.++..+.
T Consensus 296 ~~l~~ie~Rl~~l~~L~rKyg~~~~~~~~~~~~l~~eL~~L~ 337 (553)
T PRK10869 296 NRLAELEQRLSKQISLARKHHVSPEELPQHHQQLLEEQQQLD 337 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHhh
No 173
>PF15076 DUF4543: Domain of unknown function (DUF4543)
Probab=23.06 E-value=50 Score=24.65 Aligned_cols=18 Identities=28% Similarity=0.283 Sum_probs=16.0
Q ss_pred cccHhHhhHhHHHHhhcc
Q 025405 216 VFKYHLKGHMLFMQVLEY 233 (253)
Q Consensus 216 ~~D~~l~~~~~~~~~~~~ 233 (253)
.||.-|++.|+-||.||-
T Consensus 31 fpdepmrE~ml~l~~Leq 48 (75)
T PF15076_consen 31 FPDEPMREYMLHLQALEQ 48 (75)
T ss_pred CCcchHHHHHHHHHHHHH
Confidence 389999999999999974
No 174
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=22.75 E-value=32 Score=26.43 Aligned_cols=53 Identities=15% Similarity=0.325 Sum_probs=38.0
Q ss_pred ccccCCCCccccccccCCcccCCCCcccchhhHhhhhhcCCCCCCcccccccccccc
Q 025405 156 LNISCPLSGKPITELAEPVRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFNW 212 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~~ 212 (253)
++=.||-.+-| .+ .=|+.=-.|.|.|-.-.|..++........||. |.+..+.
T Consensus 30 Fdg~Cp~Ck~P-gD-dCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPm--cRq~~~~ 82 (84)
T KOG1493|consen 30 FDGCCPDCKLP-GD-DCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPM--CRQTWQF 82 (84)
T ss_pred cCCcCCCCcCC-CC-CCccHHHHHHHHHHHHHHHHHhcCccccccCCc--chheeEe
Confidence 34456766654 12 345555589999999999999975566789998 8876544
No 175
>KOG3277 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.07 E-value=32 Score=29.68 Aligned_cols=33 Identities=9% Similarity=0.202 Sum_probs=20.7
Q ss_pred ccCCcccCCCC----cccchhhHhhhhhcCCCCCCcccccccc
Q 025405 170 LAEPVRRYQIL----QIYPRFSFLPFCSLDCYFPRCNHFGCQL 208 (253)
Q Consensus 170 l~~Pv~s~~Cg----HvYek~aI~~~i~~~~~~~~CPv~GC~~ 208 (253)
|.--++|++|| |+++|.| |=+ .-=-++|| ||.+
T Consensus 76 m~l~yTCkvCntRs~ktisk~A---Y~~-GvVivqC~--gC~~ 112 (165)
T KOG3277|consen 76 MQLAYTCKVCNTRSTKTISKQA---YEK-GVVIVQCP--GCKN 112 (165)
T ss_pred eEEEEEeeccCCccccccChhh---hhC-ceEEEECC--CCcc
Confidence 44557888886 6777765 322 11236787 7998
No 176
>PF06739 SBBP: Beta-propeller repeat; InterPro: IPR010620 This family is related to IPR001680 from INTERPRO and is likely to also form a beta-propeller. SBBP stands for Seven Bladed Beta Propeller.
Probab=21.64 E-value=65 Score=20.73 Aligned_cols=17 Identities=29% Similarity=0.815 Sum_probs=13.4
Q ss_pred hccCCCeEEEecccCCc
Q 025405 231 LEYDGDIYLLGLASGTS 247 (253)
Q Consensus 231 ~~~~~~~~~~~~~~~~~ 247 (253)
+-+.|.||+.|-..|..
T Consensus 20 vD~~GNiYv~G~T~~~~ 36 (38)
T PF06739_consen 20 VDSNGNIYVTGYTNGND 36 (38)
T ss_pred ECCCCCEEEEEeecCCC
Confidence 45789999999887743
No 177
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.62 E-value=40 Score=33.89 Aligned_cols=46 Identities=15% Similarity=0.254 Sum_probs=33.0
Q ss_pred ccCCCCccccccccCC----cccCCCCcccchhhHhhhhhcCCCCCCccccccccccc
Q 025405 158 ISCPLSGKPITELAEP----VRRYQILQIYPRFSFLPFCSLDCYFPRCNHFGCQLYFN 211 (253)
Q Consensus 158 ~~CPlT~~~i~~l~~P----v~s~~CgHvYek~aI~~~i~~~~~~~~CPv~GC~~~l~ 211 (253)
-.|||... .|..+ .+--.|||+|=-..+.+|++. .--||. |...+.
T Consensus 292 ~~C~IC~e---~l~~~~~~~~~rL~C~Hifh~~CL~~W~er---~qtCP~--CR~~~~ 341 (543)
T KOG0802|consen 292 ELCIICLE---ELHSGHNITPKRLPCGHIFHDSCLRSWFER---QQTCPT--CRTVLY 341 (543)
T ss_pred Ceeeeech---hhccccccccceeecccchHHHHHHHHHHH---hCcCCc--chhhhh
Confidence 45888874 45674 333579999999999999983 345888 666333
No 178
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=21.32 E-value=44 Score=33.14 Aligned_cols=38 Identities=8% Similarity=-0.181 Sum_probs=22.6
Q ss_pred cCCcccCCCCcccchhhH--hhhhhc------CCCCCCcccccccc
Q 025405 171 AEPVRRYQILQIYPRFSF--LPFCSL------DCYFPRCNHFGCQL 208 (253)
Q Consensus 171 ~~Pv~s~~CgHvYek~aI--~~~i~~------~~~~~~CPv~GC~~ 208 (253)
..-++|..||++|+-+.= .+=|.. -...-.||+-|.++
T Consensus 423 ~~~~~c~~c~~~yd~~~g~~~~~~~~gt~~~~lp~~~~cp~c~~~k 468 (479)
T PRK05452 423 GPRMQCSVCQWIYDPAKGEPMQDVAPGTPWSEVPDNFLCPECSLGK 468 (479)
T ss_pred CCeEEECCCCeEECCCCCCcccCCCCCCChhhCCCCCcCcCCCCcH
Confidence 345789999999996511 011110 02346899966665
No 179
>KOG3850 consensus Predicted membrane protein [Function unknown]
Probab=21.19 E-value=7.1e+02 Score=24.76 Aligned_cols=80 Identities=18% Similarity=0.202 Sum_probs=40.0
Q ss_pred HHhHhhhcccchhHHHHHHHHHHHHHH--------HHHHHhhcchhHHHHHHHHHHHHHHHHHh-HhHHHHHHHHHHHh-
Q 025405 17 RNAATTLYNDNNTVIGEIRRALGMIKE--------IAVDLEKDNQSQMVKELEDATIQLMEAFG-DCTHHSAAIQSVGN- 86 (253)
Q Consensus 17 ~~a~~~~~~~~~~~~~di~~a~~~ike--------vA~~lE~~~~~~~vkeLe~~v~eL~~~~~-e~~~~~~Alq~l~~- 86 (253)
-+|+..-..+.-..+..+.+.++.+|+ ++..|++..= ....||+.+.++.++.. ++..++..+..+..
T Consensus 262 l~aileeL~eIk~~q~~Leesye~Lke~~krdy~fi~etLQEERy--R~erLEEqLNdlteLqQnEi~nLKqElasmeer 339 (455)
T KOG3850|consen 262 LDAILEELREIKETQALLEESYERLKEQIKRDYKFIAETLQEERY--RYERLEEQLNDLTELQQNEIANLKQELASMEER 339 (455)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555556666666666655 3333332211 12357777777776654 44445544433333
Q ss_pred -hcCCCCCcchHH
Q 025405 87 -TYQPGTELTDFK 98 (253)
Q Consensus 87 -~yq~~~e~~df~ 98 (253)
.||..+-..|+.
T Consensus 340 vaYQsyERaRdIq 352 (455)
T KOG3850|consen 340 VAYQSYERARDIQ 352 (455)
T ss_pred HHHHHHHHHHHHH
Confidence 355544334443
No 180
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=21.05 E-value=68 Score=22.68 Aligned_cols=10 Identities=40% Similarity=0.869 Sum_probs=5.9
Q ss_pred ccCCCCcccc
Q 025405 158 ISCPLSGKPI 167 (253)
Q Consensus 158 ~~CPlT~~~i 167 (253)
++||..+..|
T Consensus 3 ~~CP~CG~~i 12 (54)
T TIGR01206 3 FECPDCGAEI 12 (54)
T ss_pred cCCCCCCCEE
Confidence 4566666553
No 181
>PF05769 DUF837: Protein of unknown function (DUF837); InterPro: IPR008555 This family consists of several eukaryotic proteins of unknown function. One of the family members (O02197 from SWISSPROT) is a circulating cathodic antigen (CCA) found in Schistosoma mansoni (Blood fluke) [].
Probab=20.73 E-value=5e+02 Score=22.52 Aligned_cols=72 Identities=15% Similarity=0.236 Sum_probs=37.1
Q ss_pred HhHhhhcccchhHHHHHHHH------HHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHhhcC
Q 025405 18 NAATTLYNDNNTVIGEIRRA------LGMIKEIAVDLEKDNQSQMVKELEDATIQLMEAFGDCTHHSAAIQSVGNTYQ 89 (253)
Q Consensus 18 ~a~~~~~~~~~~~~~di~~a------~~~ikevA~~lE~~~~~~~vkeLe~~v~eL~~~~~e~~~~~~Alq~l~~~yq 89 (253)
++|..+.++...+...|... +..+++++..--.......-.++.+...|.-.+..-+.-|..|++-+-.+|.
T Consensus 24 ~~ad~Ll~qa~~l~~~i~sm~~y~eei~~l~~~~~~~~~~~l~~En~qi~~Lq~EN~eL~~~leEhq~alelIM~KyR 101 (181)
T PF05769_consen 24 NAADSLLSQAEALNKQIESMRQYQEEIQELNELSKNRPRAGLQQENRQIRQLQQENRELRQSLEEHQSALELIMSKYR 101 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666666666665555422 2333333331111111122233445555666666677778888877777765
No 182
>PRK01343 zinc-binding protein; Provisional
Probab=20.62 E-value=52 Score=23.70 Aligned_cols=27 Identities=33% Similarity=0.417 Sum_probs=18.7
Q ss_pred ccccCCCCccccccccCCcccCCCCcc
Q 025405 156 LNISCPLSGKPITELAEPVRRYQILQI 182 (253)
Q Consensus 156 ~n~~CPlT~~~i~~l~~Pv~s~~CgHv 182 (253)
...+||+.++++..=..|.-|+.|.-+
T Consensus 8 p~~~CP~C~k~~~~~~rPFCS~RC~~i 34 (57)
T PRK01343 8 PTRPCPECGKPSTREAYPFCSERCRDI 34 (57)
T ss_pred CCCcCCCCCCcCcCCCCcccCHHHhhh
Confidence 467899999987543446667777543
No 183
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=20.47 E-value=66 Score=22.80 Aligned_cols=31 Identities=13% Similarity=0.025 Sum_probs=18.0
Q ss_pred cccCCCCcccccc--ccCCcccCCCCcccchhh
Q 025405 157 NISCPLSGKPITE--LAEPVRRYQILQIYPRFS 187 (253)
Q Consensus 157 n~~CPlT~~~i~~--l~~Pv~s~~CgHvYek~a 187 (253)
|-.||..+..... -..=+.|..||+.++++-
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~ 60 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDV 60 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHH
Confidence 5568877754322 112244677888877764
No 184
>PLN02294 cytochrome c oxidase subunit Vb
Probab=20.41 E-value=45 Score=29.14 Aligned_cols=14 Identities=7% Similarity=0.002 Sum_probs=12.4
Q ss_pred cCCcccCCCCcccc
Q 025405 171 AEPVRRYQILQIYP 184 (253)
Q Consensus 171 ~~Pv~s~~CgHvYe 184 (253)
-.|.+|..|||+|.
T Consensus 139 Gkp~RCpeCG~~fk 152 (174)
T PLN02294 139 GKSFECPVCTQYFE 152 (174)
T ss_pred CCceeCCCCCCEEE
Confidence 56999999999995
No 185
>KOG3507 consensus DNA-directed RNA polymerase, subunit RPB7.0 [Transcription]
Probab=20.09 E-value=43 Score=24.40 Aligned_cols=12 Identities=8% Similarity=-0.072 Sum_probs=10.7
Q ss_pred cCCcccCCCCcc
Q 025405 171 AEPVRRYQILQI 182 (253)
Q Consensus 171 ~~Pv~s~~CgHv 182 (253)
.++++|+.|||-
T Consensus 35 ~D~irCReCG~R 46 (62)
T KOG3507|consen 35 GDVIRCRECGYR 46 (62)
T ss_pred CCcEehhhcchH
Confidence 789999999994
Done!