Query 008382
Match_columns 567
No_of_seqs 497 out of 1815
Neff 7.8
Searched_HMMs 46136
Date Thu Mar 28 23:07:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008382.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008382hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1815 Predicted E3 ubiquitin 100.0 1E-72 2.2E-77 606.7 26.4 438 68-529 2-442 (444)
2 KOG1812 Predicted E3 ubiquitin 100.0 1.2E-34 2.7E-39 303.6 11.4 205 139-352 145-355 (384)
3 KOG1814 Predicted E3 ubiquitin 100.0 9.8E-34 2.1E-38 284.6 10.1 195 138-336 182-405 (445)
4 KOG0006 E3 ubiquitin-protein l 99.9 2E-23 4.4E-28 202.7 8.6 195 136-337 217-437 (446)
5 smart00647 IBR In Between Ring 99.3 7.5E-12 1.6E-16 98.1 5.9 63 212-274 1-64 (64)
6 PF01485 IBR: IBR domain; Int 99.1 9.8E-12 2.1E-16 97.4 0.5 63 212-274 1-64 (64)
7 PF15227 zf-C3HC4_4: zinc fing 98.6 2E-08 4.3E-13 71.6 2.9 41 143-190 1-41 (42)
8 PF13445 zf-RING_UBOX: RING-ty 98.2 9.7E-07 2.1E-11 63.0 2.6 41 143-189 1-43 (43)
9 PF13923 zf-C3HC4_2: Zinc fing 98.2 1.3E-06 2.7E-11 61.3 2.9 31 143-175 1-32 (39)
10 PF00097 zf-C3HC4: Zinc finger 98.2 1.7E-06 3.6E-11 61.3 3.4 39 143-190 1-40 (41)
11 KOG0320 Predicted E3 ubiquitin 98.1 1.3E-06 2.8E-11 80.1 3.1 56 136-202 127-182 (187)
12 PF13639 zf-RING_2: Ring finge 98.1 1.4E-06 3.1E-11 62.7 2.3 34 142-175 2-36 (44)
13 KOG4367 Predicted Zn-finger pr 98.1 2.7E-05 5.9E-10 80.1 11.3 34 139-174 3-36 (699)
14 PLN03208 E3 ubiquitin-protein 98.1 3E-06 6.4E-11 79.9 3.6 64 138-205 16-86 (193)
15 smart00647 IBR In Between Ring 97.9 1.1E-05 2.3E-10 62.9 4.1 39 297-336 17-59 (64)
16 PF01485 IBR: IBR domain; Int 97.9 4.5E-06 9.7E-11 65.0 1.9 37 298-335 18-58 (64)
17 PF13920 zf-C3HC4_3: Zinc fing 97.9 1.4E-05 2.9E-10 59.3 3.4 46 140-198 2-48 (50)
18 PF14634 zf-RING_5: zinc-RING 97.8 1.5E-05 3.3E-10 57.4 2.8 42 142-194 1-43 (44)
19 KOG2177 Predicted E3 ubiquitin 97.8 9.9E-06 2.2E-10 82.8 2.4 45 138-195 11-55 (386)
20 cd00162 RING RING-finger (Real 97.7 2.9E-05 6.2E-10 55.4 3.6 44 142-196 1-44 (45)
21 KOG0804 Cytoplasmic Zn-finger 97.7 0.0013 2.8E-08 68.7 16.5 116 69-198 86-222 (493)
22 smart00504 Ubox Modified RING 97.6 5.3E-05 1.1E-09 58.8 3.8 47 141-200 2-48 (63)
23 TIGR00599 rad18 DNA repair pro 97.6 3.9E-05 8.4E-10 80.8 3.6 65 138-215 24-89 (397)
24 KOG0317 Predicted E3 ubiquitin 97.6 2.8E-05 6.1E-10 76.8 1.7 52 138-202 237-288 (293)
25 KOG0823 Predicted E3 ubiquitin 97.5 4.1E-05 8.9E-10 73.5 2.5 56 137-202 44-99 (230)
26 KOG2164 Predicted E3 ubiquitin 97.5 3.3E-05 7.2E-10 81.9 1.6 61 140-208 186-246 (513)
27 smart00184 RING Ring finger. E 97.5 8.2E-05 1.8E-09 51.0 2.8 30 143-174 1-30 (39)
28 KOG0287 Postreplication repair 97.5 6.3E-05 1.4E-09 75.4 2.5 63 139-214 22-85 (442)
29 PHA02929 N1R/p28-like protein; 97.4 0.00012 2.6E-09 72.0 3.7 49 139-198 173-227 (238)
30 PHA02926 zinc finger-like prot 97.4 0.00012 2.7E-09 69.8 3.4 57 137-198 167-230 (242)
31 TIGR00570 cdk7 CDK-activating 97.0 0.00062 1.3E-08 69.1 3.6 53 141-204 4-60 (309)
32 KOG0978 E3 ubiquitin ligase in 96.9 0.00033 7.1E-09 78.0 0.9 55 139-205 642-696 (698)
33 PF04564 U-box: U-box domain; 96.8 0.00083 1.8E-08 54.0 2.9 50 139-200 3-52 (73)
34 PF11789 zf-Nse: Zinc-finger o 96.7 0.0013 2.7E-08 50.1 2.8 47 139-194 10-57 (57)
35 COG5540 RING-finger-containing 96.5 0.0017 3.8E-08 64.5 2.8 52 138-199 321-373 (374)
36 COG5574 PEX10 RING-finger-cont 96.4 0.0026 5.7E-08 62.3 3.2 54 138-202 213-266 (271)
37 KOG0006 E3 ubiquitin-protein l 96.3 0.0039 8.4E-08 62.2 3.9 95 159-271 341-438 (446)
38 KOG4628 Predicted E3 ubiquitin 96.2 0.0038 8.3E-08 64.4 3.7 47 141-197 230-277 (348)
39 KOG1812 Predicted E3 ubiquitin 96.2 0.0038 8.2E-08 66.4 3.8 42 227-272 304-345 (384)
40 PF14835 zf-RING_6: zf-RING of 96.0 0.0018 3.8E-08 49.8 -0.0 43 140-197 7-50 (65)
41 KOG1002 Nucleotide excision re 96.0 0.0033 7.1E-08 66.7 1.8 57 136-200 532-588 (791)
42 PF14555 UBA_4: UBA-like domai 96.0 0.016 3.4E-07 41.4 4.8 41 79-119 1-41 (43)
43 KOG1814 Predicted E3 ubiquitin 95.7 0.017 3.7E-07 60.1 5.7 89 159-267 298-403 (445)
44 PF12678 zf-rbx1: RING-H2 zinc 95.7 0.011 2.4E-07 47.4 3.5 36 140-175 19-65 (73)
45 COG5432 RAD18 RING-finger-cont 95.6 0.0075 1.6E-07 59.6 2.4 62 140-214 25-87 (391)
46 KOG2879 Predicted E3 ubiquitin 94.9 0.026 5.6E-07 55.7 3.8 52 137-198 236-287 (298)
47 KOG1815 Predicted E3 ubiquitin 94.9 0.024 5.1E-07 61.8 3.9 82 153-268 177-264 (444)
48 PF11793 FANCL_C: FANCL C-term 94.5 0.025 5.5E-07 45.0 2.3 58 140-199 2-67 (70)
49 COG5152 Uncharacterized conser 94.3 0.014 3.1E-07 54.6 0.6 31 140-172 196-226 (259)
50 KOG0824 Predicted E3 ubiquitin 94.2 0.024 5.2E-07 56.7 1.8 54 139-204 6-59 (324)
51 KOG4159 Predicted E3 ubiquitin 94.1 0.052 1.1E-06 57.6 4.3 49 138-199 82-130 (398)
52 COG5243 HRD1 HRD ubiquitin lig 93.5 0.071 1.5E-06 54.7 3.8 50 138-198 285-345 (491)
53 PF14570 zf-RING_4: RING/Ubox 93.1 0.067 1.5E-06 39.0 2.1 44 143-196 1-46 (48)
54 KOG2660 Locus-specific chromos 93.0 0.041 8.9E-07 55.9 1.1 47 139-197 14-60 (331)
55 KOG0311 Predicted E3 ubiquitin 92.1 0.022 4.7E-07 58.2 -2.0 49 138-197 41-89 (381)
56 KOG0802 E3 ubiquitin ligase [P 92.1 0.071 1.5E-06 59.6 1.7 45 140-195 291-338 (543)
57 KOG1645 RING-finger-containing 92.0 0.12 2.6E-06 53.8 3.0 49 140-197 4-55 (463)
58 PF10571 UPF0547: Uncharacteri 91.8 0.1 2.2E-06 33.0 1.4 24 299-327 1-24 (26)
59 KOG1039 Predicted E3 ubiquitin 91.2 0.15 3.2E-06 53.1 2.8 58 136-197 157-220 (344)
60 PRK00420 hypothetical protein; 91.1 1.9 4E-05 37.6 9.0 27 298-334 23-49 (112)
61 KOG1734 Predicted RING-contain 91.1 0.13 2.9E-06 50.6 2.2 71 119-198 203-281 (328)
62 KOG0826 Predicted E3 ubiquitin 91.1 0.82 1.8E-05 46.6 7.7 46 140-196 300-346 (357)
63 TIGR00570 cdk7 CDK-activating 90.5 3.3 7.2E-05 42.4 11.6 34 299-334 4-37 (309)
64 KOG4265 Predicted E3 ubiquitin 90.5 0.21 4.7E-06 51.4 3.1 66 121-199 268-337 (349)
65 PF12861 zf-Apc11: Anaphase-pr 89.8 0.33 7.1E-06 39.9 3.1 34 156-197 48-81 (85)
66 KOG0317 Predicted E3 ubiquitin 89.7 0.091 2E-06 52.5 -0.3 37 296-339 237-273 (293)
67 KOG2817 Predicted E3 ubiquitin 88.7 1.7 3.7E-05 45.5 8.1 57 139-203 333-390 (394)
68 KOG4692 Predicted E3 ubiquitin 88.6 0.27 5.8E-06 50.2 2.2 51 136-199 418-468 (489)
69 KOG0297 TNF receptor-associate 86.4 0.38 8.2E-06 51.5 1.9 37 137-175 18-55 (391)
70 KOG0828 Predicted E3 ubiquitin 85.7 0.43 9.4E-06 50.9 1.8 50 139-198 570-634 (636)
71 PF05883 Baculo_RING: Baculovi 85.2 0.35 7.6E-06 43.1 0.8 34 140-173 26-66 (134)
72 KOG1428 Inhibitor of type V ad 85.2 1.4 2.9E-05 52.8 5.5 66 140-208 3486-3554(3738)
73 PF13248 zf-ribbon_3: zinc-rib 84.8 0.53 1.1E-05 29.7 1.3 12 298-309 2-13 (26)
74 smart00744 RINGv The RING-vari 84.7 0.98 2.1E-05 33.2 2.8 42 142-190 1-47 (49)
75 COG5220 TFB3 Cdk activating ki 84.6 0.26 5.7E-06 47.7 -0.3 50 140-197 10-63 (314)
76 PF13240 zinc_ribbon_2: zinc-r 84.6 0.55 1.2E-05 28.7 1.2 10 300-309 1-10 (23)
77 PF15227 zf-C3HC4_4: zinc fing 84.6 0.35 7.6E-06 34.3 0.4 32 301-339 1-32 (42)
78 KOG4739 Uncharacterized protei 84.5 0.33 7.1E-06 47.5 0.3 54 141-207 4-57 (233)
79 KOG0827 Predicted E3 ubiquitin 84.3 0.62 1.3E-05 48.4 2.2 51 140-198 4-56 (465)
80 PF08274 PhnA_Zn_Ribbon: PhnA 83.9 0.56 1.2E-05 30.7 1.1 27 299-327 3-29 (30)
81 KOG4185 Predicted E3 ubiquitin 83.8 1.5 3.3E-05 44.9 4.9 56 140-205 3-64 (296)
82 KOG1785 Tyrosine kinase negati 83.7 0.41 9E-06 49.7 0.6 46 140-194 369-414 (563)
83 smart00661 RPOL9 RNA polymeras 83.0 0.81 1.8E-05 33.7 1.8 27 299-326 1-29 (52)
84 PLN03086 PRLI-interacting fact 82.3 1.4 3E-05 49.0 4.0 56 185-260 407-463 (567)
85 KOG1813 Predicted E3 ubiquitin 82.3 0.56 1.2E-05 47.1 0.9 32 140-173 241-272 (313)
86 PHA00626 hypothetical protein 81.4 1 2.2E-05 33.6 1.8 28 300-328 2-34 (59)
87 PRK14559 putative protein seri 81.2 1.1 2.3E-05 51.0 2.8 23 299-334 28-50 (645)
88 KOG3800 Predicted E3 ubiquitin 81.0 2 4.4E-05 43.1 4.3 49 142-200 2-53 (300)
89 PF14835 zf-RING_6: zf-RING of 80.9 1 2.2E-05 34.9 1.7 24 299-323 8-34 (65)
90 KOG4172 Predicted E3 ubiquitin 80.8 0.53 1.1E-05 35.0 0.1 45 141-197 8-53 (62)
91 KOG1001 Helicase-like transcri 80.6 0.63 1.4E-05 53.1 0.7 47 141-199 455-501 (674)
92 COG5222 Uncharacterized conser 80.2 1.3 2.8E-05 44.4 2.6 43 141-195 275-318 (427)
93 KOG0823 Predicted E3 ubiquitin 77.2 0.98 2.1E-05 43.9 0.7 32 255-309 64-95 (230)
94 PF09297 zf-NADH-PPase: NADH p 76.5 2.3 4.9E-05 28.2 2.1 29 297-326 2-30 (32)
95 KOG0978 E3 ubiquitin ligase in 76.4 0.98 2.1E-05 51.1 0.6 47 228-309 642-689 (698)
96 PF10367 Vps39_2: Vacuolar sor 76.3 3 6.5E-05 35.5 3.5 31 140-170 78-108 (109)
97 PF13719 zinc_ribbon_5: zinc-r 74.2 2.4 5.1E-05 29.2 1.8 29 230-260 3-35 (37)
98 KOG3039 Uncharacterized conser 73.7 2.1 4.6E-05 41.8 2.1 53 139-202 220-274 (303)
99 PF14952 zf-tcix: Putative tre 73.6 2.8 6.1E-05 29.7 2.1 32 292-327 5-37 (44)
100 PF13923 zf-C3HC4_2: Zinc fing 73.4 0.86 1.9E-05 31.5 -0.5 32 301-338 1-32 (39)
101 PF07191 zinc-ribbons_6: zinc- 73.3 1.4 2.9E-05 34.9 0.5 49 300-351 3-56 (70)
102 PLN03208 E3 ubiquitin-protein 72.8 1.4 3.1E-05 42.0 0.6 31 299-336 19-49 (193)
103 KOG0825 PHD Zn-finger protein 72.6 1.2 2.6E-05 50.2 0.0 18 160-177 121-138 (1134)
104 PRK14559 putative protein seri 71.9 3.3 7.2E-05 47.1 3.3 11 299-309 42-52 (645)
105 KOG4445 Uncharacterized conser 71.8 2.2 4.7E-05 43.0 1.7 39 139-177 114-153 (368)
106 PF14447 Prok-RING_4: Prokaryo 71.4 1.7 3.7E-05 32.6 0.6 45 140-199 7-51 (55)
107 PHA02926 zinc finger-like prot 70.2 2.9 6.2E-05 40.6 2.0 53 298-350 170-224 (242)
108 PRK00432 30S ribosomal protein 70.2 2.9 6.3E-05 30.9 1.6 27 298-327 20-47 (50)
109 KOG1941 Acetylcholine receptor 68.9 2 4.2E-05 44.8 0.6 47 139-194 364-412 (518)
110 KOG2807 RNA polymerase II tran 68.8 1.9 4.1E-05 43.9 0.5 35 228-269 329-364 (378)
111 KOG3002 Zn finger protein [Gen 68.7 4.1 9E-05 41.8 3.0 47 137-198 45-91 (299)
112 KOG0825 PHD Zn-finger protein 68.6 1.9 4.2E-05 48.6 0.6 51 138-199 121-172 (1134)
113 PRK00398 rpoP DNA-directed RNA 68.4 3.9 8.3E-05 29.5 2.0 28 299-327 4-31 (46)
114 PHA03096 p28-like protein; Pro 68.4 2.6 5.6E-05 43.0 1.4 38 141-178 179-222 (284)
115 KOG0320 Predicted E3 ubiquitin 68.2 1.7 3.6E-05 40.6 0.0 31 253-309 148-178 (187)
116 PF00627 UBA: UBA/TS-N domain; 68.0 14 0.00031 25.0 4.7 33 79-112 3-35 (37)
117 PF00643 zf-B_box: B-box zinc 66.8 3.2 6.9E-05 29.0 1.2 28 299-334 4-32 (42)
118 COG5175 MOT2 Transcriptional r 66.7 3 6.5E-05 42.6 1.4 54 140-203 14-69 (480)
119 PF02150 RNA_POL_M_15KD: RNA p 65.8 4.9 0.00011 27.3 1.9 27 230-259 2-29 (35)
120 KOG4275 Predicted E3 ubiquitin 65.2 3.7 7.9E-05 41.3 1.7 29 140-170 300-329 (350)
121 PF05764 YL1: YL1 nuclear prot 64.5 5.4 0.00012 39.8 2.8 8 5-12 24-31 (240)
122 PF04641 Rtf2: Rtf2 RING-finge 63.9 7.2 0.00016 39.3 3.6 59 137-207 110-170 (260)
123 KOG3970 Predicted E3 ubiquitin 63.8 7.6 0.00017 37.5 3.5 55 140-197 50-104 (299)
124 KOG0804 Cytoplasmic Zn-finger 63.7 2.2E+02 0.0048 30.8 16.6 11 493-503 437-447 (493)
125 COG5574 PEX10 RING-finger-cont 63.7 2.4 5.1E-05 42.1 0.1 34 299-339 216-250 (271)
126 COG4647 AcxC Acetone carboxyla 63.3 3.9 8.4E-05 36.0 1.3 59 250-309 69-131 (165)
127 cd00021 BBOX B-Box-type zinc f 62.5 5.3 0.00011 27.1 1.7 30 300-339 2-32 (39)
128 KOG3161 Predicted E3 ubiquitin 62.2 2.5 5.5E-05 46.7 -0.0 34 140-173 11-46 (861)
129 TIGR02098 MJ0042_CXXC MJ0042 f 62.1 4.4 9.4E-05 27.8 1.2 26 300-327 4-35 (38)
130 PF13717 zinc_ribbon_4: zinc-r 61.8 6.4 0.00014 26.9 1.9 29 230-260 3-35 (36)
131 KOG3579 Predicted E3 ubiquitin 61.7 6.6 0.00014 39.3 2.7 53 139-195 267-322 (352)
132 smart00661 RPOL9 RNA polymeras 60.6 7.7 0.00017 28.4 2.4 28 230-259 1-29 (52)
133 PHA02929 N1R/p28-like protein; 60.1 4.5 9.8E-05 40.1 1.3 38 229-268 174-212 (238)
134 PF09538 FYDLN_acid: Protein o 59.5 6 0.00013 34.3 1.8 27 299-327 10-36 (108)
135 PRK08665 ribonucleotide-diphos 58.8 6.1 0.00013 46.0 2.3 27 299-328 725-751 (752)
136 KOG2906 RNA polymerase III sub 58.7 5.7 0.00012 33.3 1.5 28 299-327 2-31 (105)
137 KOG4739 Uncharacterized protei 57.6 1.5E+02 0.0033 29.3 11.3 24 312-336 21-48 (233)
138 PF13834 DUF4193: Domain of un 57.3 4.7 0.0001 34.0 0.8 33 136-168 66-98 (99)
139 PF07282 OrfB_Zn_ribbon: Putat 56.3 6.9 0.00015 30.6 1.6 28 297-325 27-54 (69)
140 TIGR03655 anti_R_Lar restricti 55.6 8.9 0.00019 28.5 2.0 11 299-309 2-12 (53)
141 COG5219 Uncharacterized conser 55.3 6.6 0.00014 45.5 1.7 52 138-198 1467-1523(1525)
142 smart00804 TAP_C C-terminal do 55.0 43 0.00093 26.0 5.7 40 75-114 9-48 (63)
143 KOG4684 Uncharacterized conser 55.0 7.6 0.00016 37.3 1.8 18 227-244 136-153 (275)
144 PF10168 Nup88: Nuclear pore c 53.6 4.1E+02 0.0089 31.0 15.9 25 454-478 601-625 (717)
145 PF04931 DNA_pol_phi: DNA poly 53.4 12 0.00026 44.0 3.5 20 95-114 764-783 (784)
146 COG5236 Uncharacterized conser 53.3 7.7 0.00017 39.9 1.7 50 137-197 58-107 (493)
147 PF06677 Auto_anti-p27: Sjogre 53.3 12 0.00025 26.5 2.1 23 299-324 18-41 (41)
148 COG5109 Uncharacterized conser 52.2 11 0.00025 38.3 2.7 49 140-196 336-385 (396)
149 KOG2034 Vacuolar sorting prote 51.9 9 0.0002 44.3 2.1 38 139-176 816-853 (911)
150 PF14803 Nudix_N_2: Nudix N-te 51.4 12 0.00026 25.3 1.8 28 230-259 1-31 (34)
151 PF10446 DUF2457: Protein of u 50.7 15 0.00033 39.3 3.4 11 135-145 189-199 (458)
152 KOG2979 Protein involved in DN 50.5 14 0.0003 36.8 2.9 48 140-195 176-223 (262)
153 PRK05654 acetyl-CoA carboxylas 50.2 4.5 9.7E-05 41.5 -0.6 28 299-327 28-56 (292)
154 PRK04023 DNA polymerase II lar 49.7 14 0.00031 43.5 3.2 32 227-268 624-661 (1121)
155 PF07975 C1_4: TFIIH C1-like d 49.3 8 0.00017 28.7 0.8 22 250-271 20-42 (51)
156 TIGR01384 TFS_arch transcripti 49.1 10 0.00022 32.4 1.6 25 299-326 1-25 (104)
157 COG1997 RPL43A Ribosomal prote 48.9 11 0.00025 30.9 1.7 28 299-327 36-63 (89)
158 COG5432 RAD18 RING-finger-cont 48.7 6.4 0.00014 39.5 0.3 31 299-336 26-56 (391)
159 KOG1571 Predicted E3 ubiquitin 48.6 7.5 0.00016 40.4 0.8 42 140-197 305-346 (355)
160 PF04147 Nop14: Nop14-like fam 48.3 30 0.00066 41.0 5.8 19 61-79 415-436 (840)
161 KOG3039 Uncharacterized conser 48.1 13 0.00027 36.7 2.2 36 141-178 44-79 (303)
162 cd00194 UBA Ubiquitin Associat 48.0 53 0.0011 22.1 4.8 34 80-114 3-36 (38)
163 KOG4460 Nuclear pore complex, 47.9 2.2E+02 0.0048 31.6 11.5 29 494-530 658-686 (741)
164 PRK09710 lar restriction allev 47.8 13 0.00029 28.8 1.8 28 297-325 5-35 (64)
165 PRK14714 DNA polymerase II lar 47.7 16 0.00034 44.3 3.2 9 230-240 668-676 (1337)
166 KOG2114 Vacuolar assembly/sort 47.6 12 0.00026 43.1 2.2 40 141-195 841-880 (933)
167 KOG2177 Predicted E3 ubiquitin 47.2 9.1 0.0002 38.4 1.2 25 300-332 88-112 (386)
168 KOG0957 PHD finger protein [Ge 46.9 4.3E+02 0.0094 29.1 14.5 40 140-179 119-161 (707)
169 COG1198 PriA Primosomal protei 46.1 14 0.00029 42.8 2.4 35 299-334 445-484 (730)
170 TIGR00515 accD acetyl-CoA carb 44.8 6 0.00013 40.4 -0.6 28 299-327 27-55 (285)
171 smart00165 UBA Ubiquitin assoc 44.6 59 0.0013 21.7 4.6 31 81-112 4-34 (37)
172 KOG1952 Transcription factor N 43.6 17 0.00036 41.9 2.6 51 138-190 189-241 (950)
173 CHL00174 accD acetyl-CoA carbo 43.3 6.3 0.00014 40.3 -0.7 28 299-327 39-67 (296)
174 PF09889 DUF2116: Uncharacteri 42.8 5.9 0.00013 30.3 -0.7 11 299-309 4-14 (59)
175 PF13453 zf-TFIIB: Transcripti 42.7 10 0.00022 26.5 0.5 31 300-337 1-31 (41)
176 TIGR00686 phnA alkylphosphonat 42.2 19 0.00041 31.0 2.1 27 299-327 3-29 (109)
177 KOG3799 Rab3 effector RIM1 and 42.0 11 0.00024 33.5 0.7 36 300-338 67-102 (169)
178 COG1998 RPS31 Ribosomal protei 41.9 15 0.00032 26.9 1.2 26 299-325 20-45 (51)
179 PF14446 Prok-RING_1: Prokaryo 41.8 28 0.00061 26.1 2.7 33 140-172 5-39 (54)
180 KOG1991 Nuclear transport rece 41.4 45 0.00097 39.3 5.6 42 67-111 953-994 (1010)
181 COG1645 Uncharacterized Zn-fin 41.1 16 0.00035 32.6 1.6 23 299-332 29-51 (131)
182 PF14149 YhfH: YhfH-like prote 41.1 2.6 5.7E-05 28.9 -2.5 25 298-323 13-37 (37)
183 PF07417 Crl: Transcriptional 40.8 51 0.0011 29.1 4.6 47 436-482 64-110 (125)
184 PRK14892 putative transcriptio 40.7 19 0.0004 30.7 1.9 27 299-326 22-51 (99)
185 COG0266 Nei Formamidopyrimidin 40.7 19 0.00041 36.5 2.2 25 299-324 246-272 (273)
186 PF12773 DZR: Double zinc ribb 40.3 14 0.00031 26.7 1.0 11 299-309 13-23 (50)
187 KOG2906 RNA polymerase III sub 40.2 22 0.00047 30.0 2.1 28 230-259 2-30 (105)
188 COG3809 Uncharacterized protei 39.8 18 0.00038 29.2 1.5 35 299-340 2-36 (88)
189 PF14445 Prok-RING_2: Prokaryo 39.4 6.1 0.00013 28.9 -1.0 34 139-172 6-40 (57)
190 TIGR00599 rad18 DNA repair pro 39.4 11 0.00025 40.2 0.5 32 299-337 27-58 (397)
191 KOG2932 E3 ubiquitin ligase in 39.4 9 0.0002 38.9 -0.3 53 226-315 87-140 (389)
192 KOG1940 Zn-finger protein [Gen 39.2 22 0.00047 36.0 2.4 48 137-195 155-204 (276)
193 COG1594 RPB9 DNA-directed RNA 38.5 22 0.00048 31.0 2.1 26 299-327 3-32 (113)
194 KOG2164 Predicted E3 ubiquitin 38.4 13 0.00028 40.5 0.7 29 299-334 187-215 (513)
195 cd07662 BAR_SNX6 The Bin/Amphi 38.3 4E+02 0.0086 26.2 16.1 60 458-522 155-214 (218)
196 TIGR02300 FYDLN_acid conserved 38.1 21 0.00046 31.6 1.9 26 299-326 10-35 (129)
197 PF02845 CUE: CUE domain; Int 37.9 93 0.002 21.6 4.9 36 80-115 3-39 (42)
198 PRK11827 hypothetical protein; 37.9 24 0.00053 27.1 1.9 25 299-324 9-33 (60)
199 COG5194 APC11 Component of SCF 37.9 19 0.00041 29.2 1.3 17 159-175 53-69 (88)
200 KOG2662 Magnesium transporters 37.3 1.4E+02 0.003 32.0 7.9 40 491-530 220-261 (414)
201 PRK14892 putative transcriptio 37.0 61 0.0013 27.6 4.4 54 227-285 19-74 (99)
202 COG5151 SSL1 RNA polymerase II 36.9 16 0.00034 37.2 1.0 41 227-269 360-407 (421)
203 PF10446 DUF2457: Protein of u 36.8 27 0.00059 37.4 2.7 13 361-373 393-405 (458)
204 PRK14714 DNA polymerase II lar 36.3 20 0.00044 43.3 1.9 30 299-335 668-702 (1337)
205 smart00336 BBOX B-Box-type zin 36.2 30 0.00066 23.6 2.1 28 299-334 4-32 (42)
206 KOG3268 Predicted E3 ubiquitin 36.0 30 0.00066 32.3 2.6 57 140-198 165-228 (234)
207 PF09862 DUF2089: Protein of u 35.9 1.6E+02 0.0036 25.7 7.0 20 379-398 40-59 (113)
208 PHA02664 hypothetical protein; 35.7 91 0.002 32.0 6.1 10 80-89 523-532 (534)
209 PRK10220 hypothetical protein; 35.6 29 0.00062 29.9 2.2 26 299-326 4-29 (111)
210 PF03943 TAP_C: TAP C-terminal 35.4 42 0.00091 24.8 2.8 36 80-115 2-37 (51)
211 PF10475 DUF2450: Protein of u 35.3 5E+02 0.011 26.4 15.7 93 422-526 142-236 (291)
212 PF12861 zf-Apc11: Anaphase-pr 35.2 23 0.00049 29.3 1.5 36 299-339 33-68 (85)
213 PF07800 DUF1644: Protein of u 35.2 51 0.0011 30.4 3.9 35 140-176 2-49 (162)
214 KOG1493 Anaphase-promoting com 34.8 9.2 0.0002 30.6 -0.8 48 142-197 22-80 (84)
215 KOG4362 Transcriptional regula 34.0 13 0.00029 42.1 -0.1 50 139-198 20-69 (684)
216 PF03119 DNA_ligase_ZBD: NAD-d 34.0 29 0.00063 22.3 1.5 21 300-320 1-21 (28)
217 PF06827 zf-FPG_IleRS: Zinc fi 34.0 25 0.00053 22.7 1.2 24 299-323 2-27 (30)
218 PRK14811 formamidopyrimidine-D 33.8 29 0.00062 35.2 2.3 26 299-325 236-263 (269)
219 TIGR01206 lysW lysine biosynth 33.3 42 0.0009 25.3 2.5 28 231-260 4-32 (54)
220 COG0777 AccD Acetyl-CoA carbox 32.6 15 0.00032 37.0 0.0 28 299-327 29-57 (294)
221 cd07621 BAR_SNX5_6 The Bin/Amp 32.5 4.9E+02 0.011 25.5 16.6 62 458-524 156-217 (219)
222 PF09788 Tmemb_55A: Transmembr 32.1 41 0.0009 33.5 3.0 20 227-246 121-140 (256)
223 PF03854 zf-P11: P-11 zinc fin 32.0 17 0.00036 26.5 0.2 45 140-199 2-47 (50)
224 PF05715 zf-piccolo: Piccolo Z 31.8 23 0.00049 27.0 0.9 41 299-340 3-45 (61)
225 PRK12495 hypothetical protein; 31.7 32 0.00069 33.5 2.1 18 298-315 42-59 (226)
226 COG1594 RPB9 DNA-directed RNA 31.7 38 0.00082 29.6 2.4 30 229-260 2-32 (113)
227 PF12906 RINGv: RING-variant d 31.4 42 0.0009 24.3 2.2 33 143-175 1-38 (47)
228 PF14569 zf-UDP: Zinc-binding 31.2 48 0.001 26.8 2.6 59 230-316 10-69 (80)
229 KOG1701 Focal adhesion adaptor 31.2 20 0.00043 38.2 0.7 11 299-309 428-438 (468)
230 cd00065 FYVE FYVE domain; Zinc 30.6 34 0.00073 25.4 1.7 34 299-335 3-36 (57)
231 TIGR02159 PA_CoA_Oxy4 phenylac 30.4 28 0.0006 31.9 1.4 95 73-172 39-140 (146)
232 TIGR00577 fpg formamidopyrimid 30.3 36 0.00077 34.6 2.3 25 299-324 246-272 (272)
233 PRK01103 formamidopyrimidine/5 30.3 35 0.00076 34.6 2.3 25 299-324 246-272 (274)
234 PF07058 Myosin_HC-like: Myosi 30.1 6.3E+02 0.014 26.1 14.0 21 508-528 145-165 (351)
235 PF05290 Baculo_IE-1: Baculovi 29.8 46 0.001 29.8 2.6 53 137-197 77-131 (140)
236 PRK11546 zraP zinc resistance 29.8 4.4E+02 0.0094 24.1 10.0 54 452-505 46-103 (143)
237 PRK12286 rpmF 50S ribosomal pr 29.8 32 0.00069 26.2 1.4 23 297-325 26-48 (57)
238 PF06906 DUF1272: Protein of u 29.6 44 0.00095 25.2 2.0 44 141-197 6-51 (57)
239 PF02318 FYVE_2: FYVE-type zin 29.5 50 0.0011 28.9 2.9 36 297-334 53-88 (118)
240 PF01363 FYVE: FYVE zinc finge 29.4 32 0.00069 26.7 1.4 35 298-335 9-43 (69)
241 PRK14810 formamidopyrimidine-D 29.4 37 0.0008 34.5 2.2 26 298-324 244-271 (272)
242 KOG0824 Predicted E3 ubiquitin 29.3 27 0.00058 35.6 1.2 30 298-334 7-36 (324)
243 PF01599 Ribosomal_S27: Riboso 29.2 30 0.00065 25.2 1.1 26 299-325 19-46 (47)
244 PRK13945 formamidopyrimidine-D 28.9 38 0.00082 34.6 2.3 25 299-324 255-281 (282)
245 PF06160 EzrA: Septation ring 28.8 8.8E+02 0.019 27.3 14.4 27 421-447 136-163 (560)
246 PRK10445 endonuclease VIII; Pr 28.7 40 0.00086 34.0 2.4 25 299-324 236-262 (263)
247 PF08792 A2L_zn_ribbon: A2L zi 28.7 44 0.00095 22.4 1.8 11 299-309 4-14 (33)
248 PF01783 Ribosomal_L32p: Ribos 28.5 38 0.00081 25.6 1.6 22 297-324 25-46 (56)
249 PLN02189 cellulose synthase 28.5 51 0.0011 39.4 3.4 61 229-317 34-95 (1040)
250 PF08580 KAR9: Yeast cortical 28.4 7.5E+02 0.016 28.7 12.7 23 454-476 270-292 (683)
251 smart00659 RPOLCX RNA polymera 28.4 41 0.00088 24.1 1.7 24 300-325 4-27 (44)
252 PF08746 zf-RING-like: RING-li 28.4 49 0.0011 23.5 2.1 34 143-176 1-35 (43)
253 PRK04023 DNA polymerase II lar 28.3 31 0.00067 40.8 1.6 32 296-334 624-660 (1121)
254 PF09723 Zn-ribbon_8: Zinc rib 28.0 68 0.0015 22.5 2.8 12 299-310 27-39 (42)
255 TIGR00595 priA primosomal prot 27.7 42 0.0009 37.3 2.5 35 299-334 223-262 (505)
256 COG2824 PhnA Uncharacterized Z 27.4 39 0.00084 29.0 1.6 26 298-326 3-29 (112)
257 PF03604 DNA_RNApol_7kD: DNA d 26.9 46 0.00099 22.2 1.6 24 301-326 3-26 (32)
258 PF00098 zf-CCHC: Zinc knuckle 26.7 36 0.00079 19.4 1.0 16 260-275 2-17 (18)
259 KOG0943 Predicted ubiquitin-pr 26.4 47 0.001 40.0 2.6 16 458-473 2419-2434(3015)
260 COG5082 AIR1 Arginine methyltr 26.3 48 0.001 31.6 2.3 17 258-274 78-94 (190)
261 PRK09521 exosome complex RNA-b 26.0 44 0.00094 31.9 2.0 26 299-326 150-175 (189)
262 COG2816 NPY1 NTP pyrophosphohy 25.9 59 0.0013 33.0 2.9 36 290-327 104-139 (279)
263 KOG2932 E3 ubiquitin ligase in 25.9 31 0.00066 35.2 0.9 28 299-333 91-119 (389)
264 PF07754 DUF1610: Domain of un 25.9 51 0.0011 20.5 1.5 7 299-305 17-23 (24)
265 PRK12775 putative trifunctiona 25.8 1.3E+03 0.028 28.2 15.8 14 298-311 796-809 (1006)
266 PRK08115 ribonucleotide-diphos 25.8 35 0.00077 40.1 1.5 25 299-326 828-853 (858)
267 PF02891 zf-MIZ: MIZ/SP-RING z 25.6 68 0.0015 23.5 2.5 47 141-195 3-49 (50)
268 KOG0219 Mismatch repair ATPase 25.5 9.9E+02 0.021 28.2 12.5 27 490-516 458-484 (902)
269 PRK09710 lar restriction allev 25.5 72 0.0016 24.8 2.6 33 228-261 5-38 (64)
270 PF06844 DUF1244: Protein of u 25.5 42 0.00092 26.2 1.4 17 163-179 11-27 (68)
271 TIGR01031 rpmF_bact ribosomal 25.4 38 0.00083 25.5 1.2 22 298-325 26-47 (55)
272 smart00064 FYVE Protein presen 25.3 29 0.00063 26.9 0.5 34 298-334 10-43 (68)
273 TIGR00622 ssl1 transcription f 24.6 73 0.0016 27.8 2.8 39 230-270 56-101 (112)
274 PHA02325 hypothetical protein 24.5 34 0.00074 26.4 0.7 12 297-308 2-13 (72)
275 COG0021 TktA Transketolase [Ca 24.1 3.5E+02 0.0077 30.8 8.7 101 428-533 270-382 (663)
276 PF14354 Lar_restr_allev: Rest 24.0 69 0.0015 24.2 2.4 12 228-241 2-13 (61)
277 PF04803 Cor1: Cor1/Xlr/Xmr co 23.8 5.3E+02 0.012 23.1 10.4 11 376-386 47-57 (130)
278 PF14369 zf-RING_3: zinc-finge 23.7 64 0.0014 21.9 1.9 29 229-260 2-31 (35)
279 KOG2879 Predicted E3 ubiquitin 23.5 37 0.0008 34.2 0.9 31 298-334 239-269 (298)
280 PF03115 Astro_capsid: Astrovi 23.5 27 0.00058 40.7 0.0 7 90-96 721-727 (787)
281 PLN02638 cellulose synthase A 23.5 65 0.0014 38.7 3.1 60 230-317 18-78 (1079)
282 COG5220 TFB3 Cdk activating ki 23.3 44 0.00096 32.8 1.4 54 186-244 11-66 (314)
283 PF01428 zf-AN1: AN1-like Zinc 23.2 54 0.0012 23.1 1.5 29 232-267 1-30 (43)
284 KOG0161 Myosin class II heavy 23.0 1.7E+03 0.037 29.3 15.2 65 369-437 1629-1693(1930)
285 PRK05580 primosome assembly pr 22.9 57 0.0012 37.7 2.5 34 300-334 392-430 (679)
286 PRK14011 prefoldin subunit alp 22.4 4.1E+02 0.0089 24.2 7.5 35 444-478 79-113 (144)
287 PRK14873 primosome assembly pr 22.1 57 0.0012 37.6 2.2 34 299-333 393-430 (665)
288 PF11023 DUF2614: Protein of u 22.0 35 0.00075 29.6 0.4 18 299-316 70-90 (114)
289 PRK01343 zinc-binding protein; 21.9 43 0.00093 25.5 0.8 12 298-309 9-20 (57)
290 TIGR02443 conserved hypothetic 21.8 61 0.0013 24.8 1.6 27 299-326 10-40 (59)
291 PRK10984 DNA-binding transcrip 21.8 88 0.0019 27.8 2.8 49 435-483 65-114 (127)
292 KOG0801 Predicted E3 ubiquitin 21.6 30 0.00065 31.9 -0.1 27 139-165 176-203 (205)
293 PF14353 CpXC: CpXC protein 21.5 41 0.00089 29.8 0.8 46 186-243 2-50 (128)
294 KOG0298 DEAD box-containing he 21.4 47 0.001 40.3 1.4 39 137-176 1150-1188(1394)
295 PF08172 CASP_C: CASP C termin 21.3 2.2E+02 0.0047 28.6 5.9 18 511-528 18-35 (248)
296 KOG2930 SCF ubiquitin ligase, 21.3 62 0.0013 27.6 1.7 23 159-190 80-102 (114)
297 COG1315 Uncharacterized conser 21.3 5.7E+02 0.012 28.3 9.3 39 372-410 407-445 (543)
298 KOG3091 Nuclear pore complex, 21.0 9.5E+02 0.021 26.5 10.8 134 362-512 373-508 (508)
299 PF03615 GCM: GCM motif protei 20.7 87 0.0019 28.0 2.6 22 299-326 83-106 (143)
300 COG3024 Uncharacterized protei 20.6 48 0.001 25.7 0.9 13 298-310 7-19 (65)
301 COG4640 Predicted membrane pro 20.3 52 0.0011 34.8 1.3 8 299-306 2-9 (465)
302 COG1096 Predicted RNA-binding 20.2 61 0.0013 30.8 1.6 25 299-326 150-174 (188)
303 PHA02825 LAP/PHD finger-like p 20.1 1E+02 0.0022 28.6 3.0 48 139-198 7-59 (162)
304 PLN02436 cellulose synthase A 20.0 84 0.0018 37.8 3.1 60 230-317 37-97 (1094)
No 1
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1e-72 Score=606.67 Aligned_cols=438 Identities=47% Similarity=0.907 Sum_probs=399.3
Q ss_pred EecHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHcCCChhhhHHhhhcChHHHHHhcCCCCCCccccCCCCcccccccc
Q 008382 68 VLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSNARELTCGICF 147 (567)
Q Consensus 68 vl~~~~i~~~~~~~i~~v~~il~i~~~~a~~LL~~~~W~~~~l~e~~~~~~~~~~~~~gl~~~~~~~~~~~~~~~C~IC~ 147 (567)
|++.+++...|.+.|..|+++|++++.+|++||.+|.|+.+++++.|+.+++.++..+|+...+ .......|.||+
T Consensus 2 vl~~~~~~~~~~~~i~~~~~~ls~~~~~~~~ll~~~~W~~~kl~~~~~~~~~~~~~~~g~~~~~----~~~~~~~c~ic~ 77 (444)
T KOG1815|consen 2 VLTPDDIAALMREDIIEVSDILSLSHAVARILLAHFCWNVEKLLEEWVEDEETGCFFVGLLLWP----KKKGDVQCGICV 77 (444)
T ss_pred CCchHhhhHHhHhhHHHHHHhhcCCHHHHHHHHHhcCcchHHHHHHHHhcCcchhhhccccccC----CCCccccCCccc
Confidence 6789999999999999999999999999999999999999999999999999999999976553 344578999999
Q ss_pred cccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhhcCh-HHHHHHHHHHHHHHHhcC
Q 008382 148 DTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASD-EDKKKYSRYLLRSYVEDN 226 (567)
Q Consensus 148 e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~-e~~~ky~~~~~~~~v~~~ 226 (567)
+.++. .+..+.|||.||..||..|+..+|..+.... ++||.++|...+..+.|..++++ +...+|.+++.++|++.+
T Consensus 78 ~~~~~-~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~-i~cp~~~C~a~v~~~~i~~~~s~~~~~~ky~~~i~~syve~~ 155 (444)
T KOG1815|consen 78 ESYDG-EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAK-IKCPAHGCPALVGEDTVEKLVSDKEDKEKYQRYILRSYVEDN 155 (444)
T ss_pred CCCcc-hhhhcCCCcHHHHHHHHHHhhheeecccccc-ccCCCCCccccCCCceeeeecCCHHHHHHHHHHHHHHHHhcC
Confidence 98865 6888899999999999999999999887543 99999999999999999999998 599999999999999999
Q ss_pred CCcccCCCCCCCCceecccCCCCceeeecCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHHHHHhcCcCCCCCCc
Q 008382 227 RKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKR 306 (567)
Q Consensus 227 ~~~~~CP~~~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntk~CPkC~~ 306 (567)
..++|||+|+|++++.+. ......|.|.|++.|||.|+.+||.|.+|.....|+.+..+++++.+||.+|+++||+|.+
T Consensus 156 ~~lkwCP~~~C~~av~~~-~~~~~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~ 234 (444)
T KOG1815|consen 156 VPLKWCPAPGCGLAVKFG-SLESVEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKV 234 (444)
T ss_pred CccccCCCCCCCceeecc-CCCccceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCccc
Confidence 999999999999999875 4566789999999999999999999999999999999999999999999999999999999
Q ss_pred ceeecCCCCccccCCC--CccchhhccccccccCCCCCCCcccCCcchhhhhcCCCcHHHHHHHHHHHHHhhhHHHHHHH
Q 008382 307 PIEKNQGCMHMTCSPP--CKFEFCWLCLGAWSDHGERTGGFYACNRYETAKQQGDYDETERRREMAKNSLEKYTHYYERW 384 (567)
Q Consensus 307 ~IEK~~GCnhm~C~~~--C~~~FCw~C~~~~~~H~~~~g~~y~C~~~~~~~~~~~~~~~~~~~~~~k~~l~ry~~y~~r~ 384 (567)
+|||++|||||+|. . |++.|||+|++.|..|+..+ +|.||+|...+.. . .+++++..|.||.|||+||
T Consensus 235 ~iek~~gc~~~~~~-~~~c~~~FCw~Cl~~~~~h~~~~--~~~c~~~~~~~~~------~-~~~~a~~~l~r~~~~~~~~ 304 (444)
T KOG1815|consen 235 PIEKDGGCNHMTCK-SASCKHEFCWVCLASLSDHGSST--GYSCNRYVDGKSK------S-ARSKARRSLKRYTHYYNRW 304 (444)
T ss_pred chhccCCccccccc-cCCcCCeeceeeecccccccccc--eeeeeeeechhhh------h-HHHHHHHHHHHHHHHHhhH
Confidence 99999999999998 6 99999999999999999754 8999999764421 1 4678889999999999999
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHHHHHHhcccceeecccCccchhhhhHHHHhHHH
Q 008382 385 ASNQSSRQKALADLHQMQTVHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGE 464 (567)
Q Consensus 385 ~~h~~s~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~a~~~l~~~r~~L~~sy~~~yy~~~~~~~~~~~fe~~Q~~ 464 (567)
.+|+.+++++...+......+..++......++.+++|+.+++.+|.++|++|+|||+|+||+. ...++++||++|.+
T Consensus 305 ~~~q~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~e~r~~l~~s~~~~~~~~--~~~~~~~fe~~q~~ 382 (444)
T KOG1815|consen 305 MEHQVSLKLEGKLLSKVEEVKKPKLSDSLSLSWIDVQFLRDAGDVLVECRRTLKWTYAYAYYLS--ENNKRNLFEDNQTD 382 (444)
T ss_pred HhhhhhhhhhhhhHHHHHHHhhhhhhcccCeeeeeeeeechhHHHHHhhhhhhhhhhhhhhhhc--ccchhhhhHHHHHH
Confidence 9999999988877777777777777777777788999999999999999999999999999996 44567899999999
Q ss_pred HHHhHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccc
Q 008382 465 AESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLADVDSHA 529 (567)
Q Consensus 465 le~~~e~L~~~le~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~e~~l~~~~~~~ 529 (567)
|+..+|.|+..++.++. ..+...+.++|.++.++|.++++++++++..+++||.++....
T Consensus 383 ~~~~~e~ls~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 442 (444)
T KOG1815|consen 383 LESAVEPLSSCLEESLK-----DISSETLAEFKQKLTDLTSYVRNRFENLLKHLEEGLEDVGSEA 442 (444)
T ss_pred HhhhhhhhHHHhccccc-----cCCcccHHHHHhhccccchhhhhHHHHHHHHHHhccccccccc
Confidence 99999999999998776 4456789999999999999999999999999999999987654
No 2
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.2e-34 Score=303.55 Aligned_cols=205 Identities=27% Similarity=0.659 Sum_probs=176.5
Q ss_pred CcccccccccccccC-Cee-ecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhhcChHHHHHHHH
Q 008382 139 RELTCGICFDTYSCD-KVV-SAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSR 216 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~-~~~-~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~e~~~ky~~ 216 (567)
...+|.||+...+.. .++ ...|+|.||.+||++|++.+...| ..++||+.+|+..++.+....++++.+.+.|.+
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~---~~~~C~~~~C~~~l~~~~c~~llt~kl~e~~e~ 221 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSG---TVIRCPHDGCESRLTLESCRKLLTPKLREMWEQ 221 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccC---CCccCCCCCCCccCCHHHHhhhcCHHHHHHHHH
Confidence 367899999544332 343 467999999999999999985555 389999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCcccCCCCCCCCceecccC---CCCceeee-cCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHH
Q 008382 217 YLLRSYVEDNRKTKWCPAPGCEHAIDFAAG---SGNFDVSC-LCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMN 292 (567)
Q Consensus 217 ~~~~~~v~~~~~~~~CP~~~C~~~i~~~~~---~~~~~v~C-~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~ 292 (567)
++.+.++...... +||.|+|...+..... .......| .|+..||..|+.+||.+.+|..+++|......+....+
T Consensus 222 ~~~e~~i~~~~~~-ycp~~~C~~l~~~~el~~~~~~~~~~C~~C~~~fCv~C~~~wh~~~sC~eykk~~~~~~~d~~~~~ 300 (384)
T KOG1812|consen 222 RLKEEVIPSLDRV-YCPYPRCSSLMSKTELSSEVKSKRRPCVKCHELFCVKCKVPWHANLSCEEYKKLNPEEYVDDITLK 300 (384)
T ss_pred HHHHHhhhhhhcc-cCCCCCchHhhhhhhhccchhhcccccccCCCceeecCCCcCCCCCCHHHHHHhCCcccccHHHHH
Confidence 9999999988877 9999999887664322 22344568 99999999999999999999999999877777778888
Q ss_pred HHHhcCcCCCCCCcceeecCCCCccccCCCCccchhhccccccccCCCCCCCcccCCcch
Q 008382 293 WILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNRYE 352 (567)
Q Consensus 293 wi~~ntk~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~H~~~~g~~y~C~~~~ 352 (567)
|+..+++.||+|+..|++++|||||+|+ ||++|||.|+++|..|+. .+|.|.++.
T Consensus 301 ~la~~wr~CpkC~~~ie~~~GCnhm~Cr--C~~~fcy~C~~~~~~~~~---~~~~~~r~~ 355 (384)
T KOG1812|consen 301 YLAKRWRQCPKCKFMIELSEGCNHMTCR--CGHQFCYMCGGDWKTHNG---ECYECCRYK 355 (384)
T ss_pred HHHHhcCcCcccceeeeecCCcceEEee--ccccchhhcCcchhhCCc---cccCccccc
Confidence 8888999999999999999999999998 999999999999998884 567777764
No 3
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=9.8e-34 Score=284.57 Aligned_cols=195 Identities=28% Similarity=0.680 Sum_probs=169.9
Q ss_pred CCccccccccccccc-CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhhcChHHHHHHHH
Q 008382 138 ARELTCGICFDTYSC-DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSR 216 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~e~~~ky~~ 216 (567)
...+.|.|||+.... ..+..+||+|.||+.|++.|++..|++|. +..++||+++|+...++..++.++..+++++|.+
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~-v~~l~Cp~~~C~~~a~~g~vKelvg~EL~arYe~ 260 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQ-VSCLKCPDPKCGSVAPPGQVKELVGDELFARYEK 260 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcce-eeeecCCCCCCcccCCchHHHHHHHHHHHHHHHH
Confidence 457899999998765 67888999999999999999999999886 5689999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCcccCCCCCCCCceecccCCCCceeee-cCCccccccccccCCCCCCchhH--------HHHH------
Q 008382 217 YLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHRPVDCGTV--------AKWI------ 281 (567)
Q Consensus 217 ~~~~~~v~~~~~~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~p~~C~~~--------~~~~------ 281 (567)
.++++.++...++++||++.|..++.. ..+..-+.| .|.+.||..|+..||...+|... ..|.
T Consensus 261 l~lqk~l~~msdv~yCPr~~Cq~p~~~--d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~~~~~l~~~~~~~d~a~ 338 (445)
T KOG1814|consen 261 LMLQKTLELMSDVVYCPRACCQLPVKQ--DPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAEKLIELYLEYLEADEAR 338 (445)
T ss_pred HHHHHHHHhhcccccCChhhccCcccc--CchhhhhhhccCccHHHHHHHHhhcCCCcccCchHHHHHHHHHHhhcCHHH
Confidence 999999999999999999999998733 455667889 99999999999999999889643 1221
Q ss_pred -------------HHhhhhHHHHHHHHhcCcCCCCCCcceeecCCCCccccCCCCccchhhccccccc
Q 008382 282 -------------LKNCAESENMNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWS 336 (567)
Q Consensus 282 -------------~~~~~~~~~~~wi~~ntk~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~ 336 (567)
+....+..+.+|+..|.|+||+|+++|||++|||||+|. .|++.|||+|.....
T Consensus 339 k~ele~Ryg~rvve~~vn~~lsekwl~~N~krCP~C~v~IEr~eGCnKM~C~-~c~~~fc~~c~~~l~ 405 (445)
T KOG1814|consen 339 KRELEKRYGKRVVEELVNDFLSEKWLESNSKRCPKCKVVIERSEGCNKMHCT-KCGTYFCWICAELLY 405 (445)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHhcCCCCCcccceeecCCCccceeec-cccccceeehhhhcC
Confidence 111233446689999999999999999999999999999 899999999987654
No 4
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=2e-23 Score=202.72 Aligned_cols=195 Identities=32% Similarity=0.721 Sum_probs=147.9
Q ss_pred CCCCcccccccccccccCCeeecCCC--CcccHhhHHHHHHhhhcCCC------CccccccCCCCCCCccchh-HHHhhc
Q 008382 136 SNARELTCGICFDTYSCDKVVSAACG--HPFCRACWRGYISATVNDGP------GCLMLRCPDPSCCAAVGQD-MIDMLA 206 (567)
Q Consensus 136 ~~~~~~~C~IC~e~~~~~~~~~l~Cg--H~fC~~Cl~~y~~~~i~~g~------~~~~i~CP~~~C~~~v~~~-~i~~ll 206 (567)
.+....+|..|-+.- ..+..++|. |..|.+|++.|..+.+++.. -.+.+.||+ +|...+-.+ .-.+++
T Consensus 217 ~N~~ni~C~~Ctdv~--~~vlvf~Cns~HvtC~dCFr~yc~~Rl~~rqf~~~p~~gyslpc~a-gc~~s~i~e~HHF~il 293 (446)
T KOG0006|consen 217 TNSRNITCITCTDVR--SPVLVFQCNSRHVTCLDCFRLYCVTRLNDRQFVHDPQLGYSLPCVA-GCPNSLIKELHHFRIL 293 (446)
T ss_pred cccccceeEEecCCc--cceEEEecCCceeehHHhhhhHhhhcccccccccCccccccccccC-CCchHHHHhhhhheec
Confidence 466788999998864 455567898 99999999999999886542 124678997 887765433 334678
Q ss_pred ChHHHHHHHHHHHHHHHhcCCCcccCCCCCCCCceecccCCCCceeee--cCCccccccccccCCCCCCchhHHH-----
Q 008382 207 SDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSC--LCSYNFCWNCTEEAHRPVDCGTVAK----- 279 (567)
Q Consensus 207 ~~e~~~ky~~~~~~~~v~~~~~~~~CP~~~C~~~i~~~~~~~~~~v~C--~C~~~fC~~C~~~~H~p~~C~~~~~----- 279 (567)
..+.+.+|+++..+.+|.... -+-||+|+|+.-+...+ ....|+| .|++.||..|.+.+|.+. |.....
T Consensus 294 g~e~Y~rYQr~atEe~vlq~g-GVlCP~pgCG~gll~EP--D~rkvtC~~gCgf~FCR~C~e~yh~ge-C~~~~~as~t~ 369 (446)
T KOG0006|consen 294 GEEQYNRYQRYATEECVLQMG-GVLCPRPGCGAGLLPEP--DQRKVTCEGGCGFAFCRECKEAYHEGE-CSAVFEASGTT 369 (446)
T ss_pred chhHHHHHHHhhhhhheeecC-CEecCCCCCCcccccCC--CCCcccCCCCchhHhHHHHHhhhcccc-ceeeecccccc
Confidence 899999999999998887665 56899999998776644 4567999 599999999999999762 321100
Q ss_pred ---H-HHHhhh-----hHHHHHHHHhcCcCCCCCCcceeecCCCCccccC-CCCccchhhcccccccc
Q 008382 280 ---W-ILKNCA-----ESENMNWILANSKPCPKCKRPIEKNQGCMHMTCS-PPCKFEFCWLCLGAWSD 337 (567)
Q Consensus 280 ---~-~~~~~~-----~~~~~~wi~~ntk~CPkC~~~IEK~~GCnhm~C~-~~C~~~FCw~C~~~~~~ 337 (567)
+ +....+ +..+..-|...||+||+|+.|.||||||+||.|. |.||.+|||.|+-.|..
T Consensus 370 tc~y~vde~~a~~arwd~as~~TIk~tTkpCPkChvptErnGGCmHm~Ct~~~Cg~eWCw~C~tEW~r 437 (446)
T KOG0006|consen 370 TCAYRVDERAAEQARWDAASKETIKKTTKPCPKCHVPTERNGGCMHMKCTQPQCGLEWCWNCGTEWNR 437 (446)
T ss_pred ceeeecChhhhhhhhhhhhhhhhhhhccCCCCCccCccccCCceEEeecCCCCCCceeEeccCChhhh
Confidence 0 000011 1223334778899999999999999999999998 35999999999999973
No 5
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=99.26 E-value=7.5e-12 Score=98.10 Aligned_cols=63 Identities=48% Similarity=1.034 Sum_probs=56.3
Q ss_pred HHHHHHHHHHHHhcCCCcccCCCCCCCCceecccCCCCceeee-cCCccccccccccCCCCCCc
Q 008382 212 KKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHRPVDC 274 (567)
Q Consensus 212 ~ky~~~~~~~~v~~~~~~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~p~~C 274 (567)
++|.+++++++|+.+++++|||+|+|+.++......+...|.| .|++.||+.|+.+||.|.+|
T Consensus 1 ~~y~~~~~~~~i~~~~~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H~~~~C 64 (64)
T smart00647 1 EKYERLLLESYVESNPDLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHSPVSC 64 (64)
T ss_pred ChHHHHHHHHHHhcCCCccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCCCCCCC
Confidence 3789999999999989999999999999998753346678999 99999999999999999987
No 6
>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=99.13 E-value=9.8e-12 Score=97.38 Aligned_cols=63 Identities=38% Similarity=0.964 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHhcCCCcccCCCCCCCCceecccCCCCceeee-cCCccccccccccCCCCCCc
Q 008382 212 KKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHRPVDC 274 (567)
Q Consensus 212 ~ky~~~~~~~~v~~~~~~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~p~~C 274 (567)
++|.+++++.+++.+++++|||+|+|+.++..........|+| .|++.||+.|+.+||.|.+|
T Consensus 1 eky~~~~~~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~~~~C 64 (64)
T PF01485_consen 1 EKYQKFLLKRYLESDPNIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHEGVTC 64 (64)
T ss_dssp HCHHHCCCHS---S---CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCTTS-H
T ss_pred ChHHHHHHHHHHHCCCCccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCCCCCC
Confidence 4688889999998888999999999999998764433334999 69999999999999999887
No 7
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.63 E-value=2e-08 Score=71.57 Aligned_cols=41 Identities=39% Similarity=1.002 Sum_probs=30.2
Q ss_pred ccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCC
Q 008382 143 CGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPD 190 (567)
Q Consensus 143 C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~ 190 (567)
|+||++.+ .++++++|||.||..|+..+|...- +. .+.||.
T Consensus 1 CpiC~~~~--~~Pv~l~CGH~FC~~Cl~~~~~~~~--~~---~~~CP~ 41 (42)
T PF15227_consen 1 CPICLDLF--KDPVSLPCGHSFCRSCLERLWKEPS--GS---GFSCPE 41 (42)
T ss_dssp ETTTTSB---SSEEE-SSSSEEEHHHHHHHHCCSS--SS---T---SS
T ss_pred CCccchhh--CCccccCCcCHHHHHHHHHHHHccC--Cc---CCCCcC
Confidence 89999998 8999999999999999999996532 21 378984
No 8
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.19 E-value=9.7e-07 Score=63.00 Aligned_cols=41 Identities=29% Similarity=0.814 Sum_probs=23.0
Q ss_pred cccccccccc--CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccC
Q 008382 143 CGICFDTYSC--DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCP 189 (567)
Q Consensus 143 C~IC~e~~~~--~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP 189 (567)
|+||.+ +.. ..++.|+|||.||.+|+.+.+.... + ..++||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~--~---~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSD--R---NRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S------S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCC--C---CeeeCc
Confidence 899999 632 2367899999999999999987543 1 268887
No 9
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.17 E-value=1.3e-06 Score=61.31 Aligned_cols=31 Identities=39% Similarity=1.061 Sum_probs=26.4
Q ss_pred ccccccccccCCe-eecCCCCcccHhhHHHHHHh
Q 008382 143 CGICFDTYSCDKV-VSAACGHPFCRACWRGYISA 175 (567)
Q Consensus 143 C~IC~e~~~~~~~-~~l~CgH~fC~~Cl~~y~~~ 175 (567)
|+||++.+ .++ +.++|||.||..||..|+..
T Consensus 1 C~iC~~~~--~~~~~~~~CGH~fC~~C~~~~~~~ 32 (39)
T PF13923_consen 1 CPICLDEL--RDPVVVTPCGHSFCKECIEKYLEK 32 (39)
T ss_dssp ETTTTSB---SSEEEECTTSEEEEHHHHHHHHHC
T ss_pred CCCCCCcc--cCcCEECCCCCchhHHHHHHHHHC
Confidence 89999987 456 68899999999999999865
No 10
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.16 E-value=1.7e-06 Score=61.31 Aligned_cols=39 Identities=38% Similarity=1.118 Sum_probs=32.3
Q ss_pred ccccccccccCCee-ecCCCCcccHhhHHHHHHhhhcCCCCccccccCC
Q 008382 143 CGICFDTYSCDKVV-SAACGHPFCRACWRGYISATVNDGPGCLMLRCPD 190 (567)
Q Consensus 143 C~IC~e~~~~~~~~-~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~ 190 (567)
|+||++.+ ..+. .++|||.||..||..++.. .+ .+.||.
T Consensus 1 C~iC~~~~--~~~~~~~~C~H~fC~~C~~~~~~~---~~----~~~CP~ 40 (41)
T PF00097_consen 1 CPICLEPF--EDPVILLPCGHSFCRDCLRKWLEN---SG----SVKCPL 40 (41)
T ss_dssp ETTTSSBC--SSEEEETTTSEEEEHHHHHHHHHH---TS----SSBTTT
T ss_pred CCcCCccc--cCCCEEecCCCcchHHHHHHHHHh---cC----CccCCc
Confidence 89999987 4555 8999999999999999987 22 577984
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=1.3e-06 Score=80.10 Aligned_cols=56 Identities=29% Similarity=0.701 Sum_probs=43.8
Q ss_pred CCCCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHH
Q 008382 136 SNARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMI 202 (567)
Q Consensus 136 ~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 202 (567)
.+.+.+.||||++.+....+++..|||.||..|++.-+.. ...||. |+..|+...+
T Consensus 127 ~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~---------~~~CP~--C~kkIt~k~~ 182 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN---------TNKCPT--CRKKITHKQF 182 (187)
T ss_pred ccccccCCCceecchhhccccccccchhHHHHHHHHHHHh---------CCCCCC--cccccchhhh
Confidence 3455789999999998777888999999999999998754 468995 6556655443
No 12
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=98.12 E-value=1.4e-06 Score=62.74 Aligned_cols=34 Identities=35% Similarity=0.949 Sum_probs=30.2
Q ss_pred cccccccccc-cCCeeecCCCCcccHhhHHHHHHh
Q 008382 142 TCGICFDTYS-CDKVVSAACGHPFCRACWRGYISA 175 (567)
Q Consensus 142 ~C~IC~e~~~-~~~~~~l~CgH~fC~~Cl~~y~~~ 175 (567)
.|+||++.+. ...++.++|||.||.+|+..|+..
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~ 36 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR 36 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh
Confidence 5999999985 467788999999999999999965
No 13
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=98.08 E-value=2.7e-05 Score=80.09 Aligned_cols=34 Identities=32% Similarity=0.799 Sum_probs=29.5
Q ss_pred CcccccccccccccCCeeecCCCCcccHhhHHHHHH
Q 008382 139 RELTCGICFDTYSCDKVVSAACGHPFCRACWRGYIS 174 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~ 174 (567)
+++.|+||..-| .+++.++|+|..|..|-...+.
T Consensus 3 eelkc~vc~~f~--~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFY--REPIILPCSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhc--cCceEeecccHHHHHHHHhhcc
Confidence 467899999988 8899999999999999987543
No 14
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.05 E-value=3e-06 Score=79.86 Aligned_cols=64 Identities=27% Similarity=0.608 Sum_probs=46.3
Q ss_pred CCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcC-------CCCccccccCCCCCCCccchhHHHhh
Q 008382 138 ARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVND-------GPGCLMLRCPDPSCCAAVGQDMIDML 205 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~-------g~~~~~i~CP~~~C~~~v~~~~i~~l 205 (567)
.+.+.|+||++.+ .+++.++|||.||..|+..|+...-.. .......+|| .|+..+....+..+
T Consensus 16 ~~~~~CpICld~~--~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CP--vCR~~Is~~~LvPi 86 (193)
T PLN03208 16 GGDFDCNICLDQV--RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCP--VCKSDVSEATLVPI 86 (193)
T ss_pred CCccCCccCCCcC--CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCC--CCCCcCChhcEEEe
Confidence 4578999999976 778889999999999999997642110 0001257899 69998876555443
No 15
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=97.93 E-value=1.1e-05 Score=62.94 Aligned_cols=39 Identities=38% Similarity=1.031 Sum_probs=34.6
Q ss_pred cCcCCC--CCCcceeecC--CCCccccCCCCccchhhccccccc
Q 008382 297 NSKPCP--KCKRPIEKNQ--GCMHMTCSPPCKFEFCWLCLGAWS 336 (567)
Q Consensus 297 ntk~CP--kC~~~IEK~~--GCnhm~C~~~C~~~FCw~C~~~~~ 336 (567)
+.+.|| +|...|+... |..+|+|. .|++.|||.|+.+|+
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~-~C~~~fC~~C~~~~H 59 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCP-KCGFSFCFRCKVPWH 59 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECC-CCCCeECCCCCCcCC
Confidence 357899 9999999975 99999996 699999999999983
No 16
>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=97.92 E-value=4.5e-06 Score=65.04 Aligned_cols=37 Identities=43% Similarity=1.104 Sum_probs=29.2
Q ss_pred CcCCCC--CCcceeecCCCCc--cccCCCCccchhhcccccc
Q 008382 298 SKPCPK--CKRPIEKNQGCMH--MTCSPPCKFEFCWLCLGAW 335 (567)
Q Consensus 298 tk~CPk--C~~~IEK~~GCnh--m~C~~~C~~~FCw~C~~~~ 335 (567)
.+.||+ |...|.+..|+++ |+|. .|++.|||.|+++|
T Consensus 18 ~~~Cp~~~C~~~~~~~~~~~~~~~~C~-~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 18 IRWCPNPDCEYIIEKDDGCNSPIVTCP-SCGTEFCFKCGEPW 58 (64)
T ss_dssp CC--TTSST---ECS-SSTTS--CCTT-SCCSEECSSSTSES
T ss_pred ccCCCCCCCcccEEecCCCCCCeeECC-CCCCcCccccCccc
Confidence 478988 9999999999999 9998 89999999999999
No 17
>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=97.86 E-value=1.4e-05 Score=59.34 Aligned_cols=46 Identities=33% Similarity=0.831 Sum_probs=36.8
Q ss_pred cccccccccccccCCeeecCCCCc-ccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHP-FCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
...|.||++.. .+++.++|||. ||..|+..++.. ..+|| -|+..|.
T Consensus 2 ~~~C~iC~~~~--~~~~~~pCgH~~~C~~C~~~~~~~---------~~~CP--~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENP--RDVVLLPCGHLCFCEECAERLLKR---------KKKCP--ICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSB--SSEEEETTCEEEEEHHHHHHHHHT---------TSBBT--TTTBB-S
T ss_pred cCCCccCCccC--CceEEeCCCChHHHHHHhHHhccc---------CCCCC--cCChhhc
Confidence 46799999975 67888999999 999999999871 46899 5887764
No 18
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.80 E-value=1.5e-05 Score=57.38 Aligned_cols=42 Identities=36% Similarity=0.972 Sum_probs=33.6
Q ss_pred ccccccccc-ccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCC
Q 008382 142 TCGICFDTY-SCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCC 194 (567)
Q Consensus 142 ~C~IC~e~~-~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~ 194 (567)
.|+||++.+ +...++.++|||.||..|+.... + ..+.||. |+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~------~---~~~~CP~--C~ 43 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK------G---KSVKCPI--CR 43 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc------C---CCCCCcC--CC
Confidence 499999999 33467788999999999999986 2 2688994 64
No 19
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=9.9e-06 Score=82.76 Aligned_cols=45 Identities=44% Similarity=0.989 Sum_probs=38.0
Q ss_pred CCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCC
Q 008382 138 ARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCA 195 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~ 195 (567)
...+.|+||++.+ ..+..++|||.||..|+...+. + .+.|| .|+.
T Consensus 11 ~~~~~C~iC~~~~--~~p~~l~C~H~~c~~C~~~~~~-----~----~~~Cp--~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYF--REPVLLPCGHNFCRACLTRSWE-----G----PLSCP--VCRP 55 (386)
T ss_pred cccccChhhHHHh--hcCccccccchHhHHHHHHhcC-----C----CcCCc--ccCC
Confidence 4578999999998 5558899999999999999997 2 58999 5773
No 20
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=97.75 E-value=2.9e-05 Score=55.35 Aligned_cols=44 Identities=36% Similarity=0.991 Sum_probs=32.7
Q ss_pred cccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCc
Q 008382 142 TCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAA 196 (567)
Q Consensus 142 ~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~ 196 (567)
.|+||++.+ .......+|||.||..|+..|+.. + ..+|| .|+..
T Consensus 1 ~C~iC~~~~-~~~~~~~~C~H~~c~~C~~~~~~~----~----~~~Cp--~C~~~ 44 (45)
T cd00162 1 ECPICLEEF-REPVVLLPCGHVFCRSCIDKWLKS----G----KNTCP--LCRTP 44 (45)
T ss_pred CCCcCchhh-hCceEecCCCChhcHHHHHHHHHh----C----cCCCC--CCCCc
Confidence 499999987 233344559999999999999875 2 46798 47654
No 21
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.73 E-value=0.0013 Score=68.69 Aligned_cols=116 Identities=14% Similarity=0.279 Sum_probs=65.7
Q ss_pred ecHHHHHHHHHHHHHHHHHHhCCCHH--HHHHHHHHcCCChhhh--HHhh----hc--ChHHHHHhcCCC-----C-CC-
Q 008382 69 LREADIKCQQEDDITKVSTVLSISRV--DASILLRHYNWSVSKV--HDAW----FA--DEDAVRKSVGFL-----D-KP- 131 (567)
Q Consensus 69 l~~~~i~~~~~~~i~~v~~il~i~~~--~a~~LL~~~~W~~~~l--~e~~----~~--~~~~~~~~~gl~-----~-~~- 131 (567)
++.-|+..-+.-.+..|..|.-|-.+ .-..+|..|+-..+.. .+.| |. +|+ +...+-+. . .+
T Consensus 86 mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~le~e-~Chll~V~~ve~~~s~d~ 164 (493)
T KOG0804|consen 86 MTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNSLEPE-VCHLLYVDRVEVTESEDG 164 (493)
T ss_pred ccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCCCCcc-ceeEEEEEEEEEEecccC
Confidence 78889988888888888777655311 1133444455443321 1111 00 122 21111110 0 00
Q ss_pred --ccccCCCCccccccccccccc--CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 132 --VVEFSNARELTCGICFDTYSC--DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 132 --~~~~~~~~~~~C~IC~e~~~~--~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
..+....+..+||||++-... +-+++..|.|.|--.|+..|+ ..+|| -|+....
T Consensus 165 as~~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~-----------~~scp--vcR~~q~ 222 (493)
T KOG0804|consen 165 ASEPPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW-----------DSSCP--VCRYCQS 222 (493)
T ss_pred CCCCCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc-----------cCcCh--hhhhhcC
Confidence 011223456899999997643 345678899999999999985 46898 4765443
No 22
>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=97.64 E-value=5.3e-05 Score=58.83 Aligned_cols=47 Identities=13% Similarity=0.263 Sum_probs=38.3
Q ss_pred ccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchh
Q 008382 141 LTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQD 200 (567)
Q Consensus 141 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~ 200 (567)
+.|+||.+.+ .+++.++|||.||+.|+..|+.. + ..|| .|+..++..
T Consensus 2 ~~Cpi~~~~~--~~Pv~~~~G~v~~~~~i~~~~~~----~-----~~cP--~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVM--KDPVILPSGQTYERRAIEKWLLS----H-----GTDP--VTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcC--CCCEECCCCCEEeHHHHHHHHHH----C-----CCCC--CCcCCCChh
Confidence 6799999987 67888999999999999999965 1 3688 477776543
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.61 E-value=3.9e-05 Score=80.83 Aligned_cols=65 Identities=29% Similarity=0.604 Sum_probs=48.3
Q ss_pred CCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchh-HHHhhcChHHHHHHH
Q 008382 138 ARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQD-MIDMLASDEDKKKYS 215 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~-~i~~ll~~e~~~ky~ 215 (567)
...+.|+||++.+ ..++.++|||.||..|+..|+.. ...|| .|+..+... +..+.+..++++.|.
T Consensus 24 e~~l~C~IC~d~~--~~PvitpCgH~FCs~CI~~~l~~---------~~~CP--~Cr~~~~~~~Lr~N~~L~~iVe~~~ 89 (397)
T TIGR00599 24 DTSLRCHICKDFF--DVPVLTSCSHTFCSLCIRRCLSN---------QPKCP--LCRAEDQESKLRSNWLVSEIVESFK 89 (397)
T ss_pred ccccCCCcCchhh--hCccCCCCCCchhHHHHHHHHhC---------CCCCC--CCCCccccccCccchHHHHHHHHHH
Confidence 3468999999987 67788999999999999999853 13799 688887643 333444455666664
No 24
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.57 E-value=2.8e-05 Score=76.78 Aligned_cols=52 Identities=23% Similarity=0.673 Sum_probs=42.1
Q ss_pred CCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHH
Q 008382 138 ARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMI 202 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 202 (567)
.....|.+|++.. .++..+||||.||..|+..|...+ -.|| -|+..+.+..+
T Consensus 237 ~a~~kC~LCLe~~--~~pSaTpCGHiFCWsCI~~w~~ek---------~eCP--lCR~~~~pskv 288 (293)
T KOG0317|consen 237 EATRKCSLCLENR--SNPSATPCGHIFCWSCILEWCSEK---------AECP--LCREKFQPSKV 288 (293)
T ss_pred CCCCceEEEecCC--CCCCcCcCcchHHHHHHHHHHccc---------cCCC--cccccCCCcce
Confidence 3457899999975 788899999999999999998653 2499 69988876543
No 25
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=4.1e-05 Score=73.52 Aligned_cols=56 Identities=32% Similarity=0.733 Sum_probs=45.1
Q ss_pred CCCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHH
Q 008382 137 NARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMI 202 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 202 (567)
....|.|.||++.- .+++...|||.||..|+-+|+..... .-.|| -|+..|+.+.+
T Consensus 44 ~~~~FdCNICLd~a--kdPVvTlCGHLFCWpClyqWl~~~~~------~~~cP--VCK~~Vs~~~v 99 (230)
T KOG0823|consen 44 DGGFFDCNICLDLA--KDPVVTLCGHLFCWPCLYQWLQTRPN------SKECP--VCKAEVSIDTV 99 (230)
T ss_pred CCCceeeeeecccc--CCCEEeecccceehHHHHHHHhhcCC------CeeCC--ccccccccceE
Confidence 45689999999965 88998999999999999999987643 34688 58877765544
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=3.3e-05 Score=81.87 Aligned_cols=61 Identities=25% Similarity=0.593 Sum_probs=46.8
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhhcCh
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASD 208 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~ 208 (567)
...|||||+.. .-++.+.|||.||-.|+-+||......+ ...|| -|...|....+..+.-.
T Consensus 186 ~~~CPICL~~~--~~p~~t~CGHiFC~~CiLqy~~~s~~~~----~~~CP--iC~s~I~~kdl~pv~~e 246 (513)
T KOG2164|consen 186 DMQCPICLEPP--SVPVRTNCGHIFCGPCILQYWNYSAIKG----PCSCP--ICRSTITLKDLLPVFIE 246 (513)
T ss_pred CCcCCcccCCC--CcccccccCceeeHHHHHHHHhhhcccC----CccCC--chhhhccccceeeeeec
Confidence 67899999975 4445566999999999999998873333 67899 59999887666655443
No 27
>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=97.49 E-value=8.2e-05 Score=51.01 Aligned_cols=30 Identities=40% Similarity=1.104 Sum_probs=26.8
Q ss_pred ccccccccccCCeeecCCCCcccHhhHHHHHH
Q 008382 143 CGICFDTYSCDKVVSAACGHPFCRACWRGYIS 174 (567)
Q Consensus 143 C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~ 174 (567)
|+||++.. ..++.++|||.||..|+..|+.
T Consensus 1 C~iC~~~~--~~~~~~~C~H~~c~~C~~~~~~ 30 (39)
T smart00184 1 CPICLEEL--KDPVVLPCGHTFCRSCIRKWLK 30 (39)
T ss_pred CCcCccCC--CCcEEecCCChHHHHHHHHHHH
Confidence 78999874 6788899999999999999987
No 28
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.46 E-value=6.3e-05 Score=75.37 Aligned_cols=63 Identities=33% Similarity=0.780 Sum_probs=49.2
Q ss_pred CcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHh-hcChHHHHHH
Q 008382 139 RELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDM-LASDEDKKKY 214 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~-ll~~e~~~ky 214 (567)
..+-|.||++-| .-++..||+|.||.-|++.|+.. ...|| .|...+.+..+++ .+..++++-|
T Consensus 22 ~lLRC~IC~eyf--~ip~itpCsHtfCSlCIR~~L~~---------~p~CP--~C~~~~~Es~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 22 DLLRCGICFEYF--NIPMITPCSHTFCSLCIRKFLSY---------KPQCP--TCCVTVTESDLRNNRILDEIVKSL 85 (442)
T ss_pred HHHHHhHHHHHh--cCceeccccchHHHHHHHHHhcc---------CCCCC--ceecccchhhhhhhhHHHHHHHHH
Confidence 357899999988 56677889999999999999854 45799 5988888766654 5556766665
No 29
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.40 E-value=0.00012 Score=71.97 Aligned_cols=49 Identities=22% Similarity=0.596 Sum_probs=36.4
Q ss_pred CcccccccccccccCC------eeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 139 RELTCGICFDTYSCDK------VVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~------~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
....|+||++.+.... .+..+|+|.||..|+..|+.. ...|| -|+..+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~---------~~tCP--lCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE---------KNTCP--VCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc---------CCCCC--CCCCEee
Confidence 4678999999864322 244679999999999998743 24799 5887654
No 30
>PHA02926 zinc finger-like protein; Provisional
Probab=97.39 E-value=0.00012 Score=69.78 Aligned_cols=57 Identities=26% Similarity=0.612 Sum_probs=39.6
Q ss_pred CCCccccccccccccc-----C--CeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 137 NARELTCGICFDTYSC-----D--KVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~-----~--~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
.+...+|+||++..-. . -.+..+|+|.||..|+..|-......| ..-.|| -|+..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~---~~rsCP--iCR~~f~ 230 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETG---ASDNCP--ICRTRFR 230 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccC---cCCcCC--CCcceee
Confidence 3456889999987421 1 123458999999999999988653323 256799 5887653
No 31
>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=96.96 E-value=0.00062 Score=69.06 Aligned_cols=53 Identities=26% Similarity=0.651 Sum_probs=38.2
Q ss_pred ccccccccc-cccCC---eeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHh
Q 008382 141 LTCGICFDT-YSCDK---VVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDM 204 (567)
Q Consensus 141 ~~C~IC~e~-~~~~~---~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ 204 (567)
..||+|... +.... ++. +|||.||..|+...|. .+ ...|| .|+..+....++.
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~----~~----~~~CP--~C~~~lrk~~fr~ 60 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFV----RG----SGSCP--ECDTPLRKNNFRV 60 (309)
T ss_pred CCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhc----CC----CCCCC--CCCCccchhhccc
Confidence 579999985 33333 233 7999999999999973 23 45899 7998887665443
No 32
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.87 E-value=0.00033 Score=77.99 Aligned_cols=55 Identities=29% Similarity=0.751 Sum_probs=45.1
Q ss_pred CcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhh
Q 008382 139 RELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDML 205 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~l 205 (567)
..++||+|..-. .+.+...|||.||..|++..+.+. .-+|| .|+.+|.+.++..+
T Consensus 642 ~~LkCs~Cn~R~--Kd~vI~kC~H~FC~~Cvq~r~etR--------qRKCP--~Cn~aFganDv~~I 696 (698)
T KOG0978|consen 642 ELLKCSVCNTRW--KDAVITKCGHVFCEECVQTRYETR--------QRKCP--KCNAAFGANDVHRI 696 (698)
T ss_pred hceeCCCccCch--hhHHHHhcchHHHHHHHHHHHHHh--------cCCCC--CCCCCCCccccccc
Confidence 468999999644 788888999999999999998764 45899 79999988776643
No 33
>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=96.85 E-value=0.00083 Score=53.99 Aligned_cols=50 Identities=16% Similarity=0.228 Sum_probs=37.3
Q ss_pred CcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchh
Q 008382 139 RELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQD 200 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~ 200 (567)
..|.|+|+.+.+ .+++.+++||.|++.||..|+.. + ...|| .|+..+...
T Consensus 3 ~~f~CpIt~~lM--~dPVi~~~G~tyer~~I~~~l~~----~----~~~~P--~t~~~l~~~ 52 (73)
T PF04564_consen 3 DEFLCPITGELM--RDPVILPSGHTYERSAIERWLEQ----N----GGTDP--FTRQPLSES 52 (73)
T ss_dssp GGGB-TTTSSB---SSEEEETTSEEEEHHHHHHHHCT----T----SSB-T--TT-SB-SGG
T ss_pred cccCCcCcCcHh--hCceeCCcCCEEcHHHHHHHHHc----C----CCCCC--CCCCcCCcc
Confidence 478999999987 89999999999999999999966 1 45788 467776653
No 34
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.71 E-value=0.0013 Score=50.12 Aligned_cols=47 Identities=30% Similarity=0.634 Sum_probs=30.7
Q ss_pred CcccccccccccccCCeee-cCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCC
Q 008382 139 RELTCGICFDTYSCDKVVS-AACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCC 194 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~-l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~ 194 (567)
-.+.|||....+ .+|+. ..|||.|.++.+..|+. .+ ...+||..+|.
T Consensus 10 ~~~~CPiT~~~~--~~PV~s~~C~H~fek~aI~~~i~----~~---~~~~CPv~GC~ 57 (57)
T PF11789_consen 10 ISLKCPITLQPF--EDPVKSKKCGHTFEKEAILQYIQ----RN---GSKRCPVAGCN 57 (57)
T ss_dssp --SB-TTTSSB---SSEEEESSS--EEEHHHHHHHCT----TT---S-EE-SCCC-S
T ss_pred eccCCCCcCChh--hCCcCcCCCCCeecHHHHHHHHH----hc---CCCCCCCCCCC
Confidence 368899999987 66765 58999999999999992 22 27899999994
No 35
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.49 E-value=0.0017 Score=64.45 Aligned_cols=52 Identities=23% Similarity=0.660 Sum_probs=42.3
Q ss_pred CCccccccccccccc-CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccch
Q 008382 138 ARELTCGICFDTYSC-DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQ 199 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~ 199 (567)
.....|.||++.+.. +..+.+||.|.|...|+..|+.. ...+|| .|+.++|+
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~--------y~~~CP--vCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG--------YSNKCP--VCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhh--------hcccCC--ccCCCCCC
Confidence 446899999998854 34667999999999999999842 267899 69998875
No 36
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.37 E-value=0.0026 Score=62.34 Aligned_cols=54 Identities=24% Similarity=0.525 Sum_probs=41.5
Q ss_pred CCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHH
Q 008382 138 ARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMI 202 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 202 (567)
...+.|.||++.. ..+..++|||.||..|+-..|+.+- .-.|| .|+..+.+..+
T Consensus 213 ~~d~kC~lC~e~~--~~ps~t~CgHlFC~~Cl~~~~t~~k-------~~~Cp--lCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEP--EVPSCTPCGHLFCLSCLLISWTKKK-------YEFCP--LCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeeccc--CCcccccccchhhHHHHHHHHHhhc-------cccCc--hhhhhccchhh
Confidence 3467899999965 7888899999999999999654421 34599 69887766544
No 37
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=96.27 E-value=0.0039 Score=62.25 Aligned_cols=95 Identities=24% Similarity=0.608 Sum_probs=60.1
Q ss_pred CCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhhcChHHHHHHHHHHHHHHHhcCCCcccCCCCCCC
Q 008382 159 ACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCE 238 (567)
Q Consensus 159 ~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~e~~~ky~~~~~~~~v~~~~~~~~CP~~~C~ 238 (567)
+||-.||+.|+..|-...-..+.+.. -...|...+++... ...+|...... ......+.||. |.
T Consensus 341 gCgf~FCR~C~e~yh~geC~~~~~as----~t~tc~y~vde~~a-------~~arwd~as~~---TIk~tTkpCPk--Ch 404 (446)
T KOG0006|consen 341 GCGFAFCRECKEAYHEGECSAVFEAS----GTTTCAYRVDERAA-------EQARWDAASKE---TIKKTTKPCPK--CH 404 (446)
T ss_pred CchhHhHHHHHhhhccccceeeeccc----cccceeeecChhhh-------hhhhhhhhhhh---hhhhccCCCCC--cc
Confidence 49999999999999643322211000 01235555554322 23445443221 22345678988 98
Q ss_pred CceecccCCCCceeee-c--CCccccccccccCCCC
Q 008382 239 HAIDFAAGSGNFDVSC-L--CSYNFCWNCTEEAHRP 271 (567)
Q Consensus 239 ~~i~~~~~~~~~~v~C-~--C~~~fC~~C~~~~H~p 271 (567)
.+.+. +.+..++.| . |+..+||.|+-+|.+.
T Consensus 405 vptEr--nGGCmHm~Ct~~~Cg~eWCw~C~tEW~r~ 438 (446)
T KOG0006|consen 405 VPTER--NGGCMHMKCTQPQCGLEWCWNCGTEWNRV 438 (446)
T ss_pred Ccccc--CCceEEeecCCCCCCceeEeccCChhhhh
Confidence 88776 678999999 4 9999999999998753
No 38
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.23 E-value=0.0038 Score=64.42 Aligned_cols=47 Identities=30% Similarity=0.684 Sum_probs=37.4
Q ss_pred ccccccccccccC-CeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 141 LTCGICFDTYSCD-KVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 141 ~~C~IC~e~~~~~-~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
.+|.||+|+|... ....|||+|.|...|+..|+... .-.||- |+.-+
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~--------r~~CPv--CK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT--------RTFCPV--CKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc--------CccCCC--CCCcC
Confidence 6999999999664 56679999999999999999753 235995 65544
No 39
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.0038 Score=66.36 Aligned_cols=42 Identities=24% Similarity=0.737 Sum_probs=35.2
Q ss_pred CCcccCCCCCCCCceecccCCCCceeeecCCccccccccccCCCCC
Q 008382 227 RKTKWCPAPGCEHAIDFAAGSGNFDVSCLCSYNFCWNCTEEAHRPV 272 (567)
Q Consensus 227 ~~~~~CP~~~C~~~i~~~~~~~~~~v~C~C~~~fC~~C~~~~H~p~ 272 (567)
...+.||. |...|.. ..|..+++|.|++.||+.|..+|+...
T Consensus 304 ~~wr~Cpk--C~~~ie~--~~GCnhm~CrC~~~fcy~C~~~~~~~~ 345 (384)
T KOG1812|consen 304 KRWRQCPK--CKFMIEL--SEGCNHMTCRCGHQFCYMCGGDWKTHN 345 (384)
T ss_pred HhcCcCcc--cceeeee--cCCcceEEeeccccchhhcCcchhhCC
Confidence 45688998 9998876 456999999999999999999886543
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.00 E-value=0.0018 Score=49.83 Aligned_cols=43 Identities=40% Similarity=0.913 Sum_probs=21.5
Q ss_pred cccccccccccccCCeeec-CCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 140 ELTCGICFDTYSCDKVVSA-ACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
.+.|++|.+.+ ..++.+ .|.|.||..|++..+ ...|| -|..+.
T Consensus 7 lLrCs~C~~~l--~~pv~l~~CeH~fCs~Ci~~~~-----------~~~CP--vC~~Pa 50 (65)
T PF14835_consen 7 LLRCSICFDIL--KEPVCLGGCEHIFCSSCIRDCI-----------GSECP--VCHTPA 50 (65)
T ss_dssp TTS-SSS-S----SS-B---SSS--B-TTTGGGGT-----------TTB-S--SS--B-
T ss_pred hcCCcHHHHHh--cCCceeccCccHHHHHHhHHhc-----------CCCCC--CcCChH
Confidence 46799999987 777764 699999999997643 23599 477654
No 41
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.97 E-value=0.0033 Score=66.72 Aligned_cols=57 Identities=30% Similarity=0.859 Sum_probs=45.1
Q ss_pred CCCCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchh
Q 008382 136 SNARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQD 200 (567)
Q Consensus 136 ~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~ 200 (567)
.+.+...|.+|-+.- .+.+...|.|.||+-|++.|+....... .+.|| .|-..++.+
T Consensus 532 enk~~~~C~lc~d~a--ed~i~s~ChH~FCrlCi~eyv~~f~~~~----nvtCP--~C~i~LsiD 588 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPA--EDYIESSCHHKFCRLCIKEYVESFMENN----NVTCP--VCHIGLSID 588 (791)
T ss_pred cccCceeecccCChh--hhhHhhhhhHHHHHHHHHHHHHhhhccc----CCCCc--ccccccccc
Confidence 355678999999854 7788889999999999999998876543 58999 577666433
No 42
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=95.95 E-value=0.016 Score=41.42 Aligned_cols=41 Identities=20% Similarity=0.406 Sum_probs=34.9
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCChhhhHHhhhcChH
Q 008382 79 EDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADED 119 (567)
Q Consensus 79 ~~~i~~v~~il~i~~~~a~~LL~~~~W~~~~l~e~~~~~~~ 119 (567)
++.|.+.++|.++++..|..+|...+||.+.-++.||.+++
T Consensus 1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~ 41 (43)
T PF14555_consen 1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGE 41 (43)
T ss_dssp HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-
T ss_pred CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence 36789999999999999999999999999999999998654
No 43
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.71 E-value=0.017 Score=60.07 Aligned_cols=89 Identities=28% Similarity=0.717 Sum_probs=55.8
Q ss_pred CCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhhc---------ChHHHHHHHHHHHHHHHhc----
Q 008382 159 ACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDMLA---------SDEDKKKYSRYLLRSYVED---- 225 (567)
Q Consensus 159 ~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll---------~~e~~~ky~~~~~~~~v~~---- 225 (567)
.|.-.||..|...|- | .-+ |+.... +.++..+ ..++-.+|-+..++..++.
T Consensus 298 kCnFaFCtlCk~t~H------G----~s~-----Ck~~~~-~~~~l~~~~~~~d~a~k~ele~Ryg~rvve~~vn~~lse 361 (445)
T KOG1814|consen 298 KCNFAFCTLCKLTWH------G----VSP-----CKVKAE-KLIELYLEYLEADEARKRELEKRYGKRVVEELVNDFLSE 361 (445)
T ss_pred cCccHHHHHHHHhhc------C----CCc-----ccCchH-HHHHHHHHHhhcCHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 477789999988872 3 122 544432 2221111 1123445654444333322
Q ss_pred ---CCCcccCCCCCCCCceecccCCCCceeee-cCCcccccccccc
Q 008382 226 ---NRKTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEE 267 (567)
Q Consensus 226 ---~~~~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~ 267 (567)
..+.+.||. |..+|+. ..|...+.| .|++.|||.|...
T Consensus 362 kwl~~N~krCP~--C~v~IEr--~eGCnKM~C~~c~~~fc~~c~~~ 403 (445)
T KOG1814|consen 362 KWLESNSKRCPK--CKVVIER--SEGCNKMHCTKCGTYFCWICAEL 403 (445)
T ss_pred HHHHhcCCCCCc--ccceeec--CCCccceeeccccccceeehhhh
Confidence 135688998 9999987 567899999 9999999999864
No 44
>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=95.69 E-value=0.011 Score=47.42 Aligned_cols=36 Identities=25% Similarity=0.575 Sum_probs=26.6
Q ss_pred ccccccccccccc-----------CCeeecCCCCcccHhhHHHHHHh
Q 008382 140 ELTCGICFDTYSC-----------DKVVSAACGHPFCRACWRGYISA 175 (567)
Q Consensus 140 ~~~C~IC~e~~~~-----------~~~~~l~CgH~fC~~Cl~~y~~~ 175 (567)
.-.|.||++.+.. -.+...+|||.|...|+..|+..
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~ 65 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ 65 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc
Confidence 3459999998821 12234579999999999999854
No 45
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=95.57 E-value=0.0075 Score=59.61 Aligned_cols=62 Identities=26% Similarity=0.484 Sum_probs=42.0
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHh-hcChHHHHHH
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDM-LASDEDKKKY 214 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~-ll~~e~~~ky 214 (567)
...|-||-+-+ .-+...+|||.||.-|++.|+.+ ...|| -|....-+..++. .+..++.+-|
T Consensus 25 ~lrC~IC~~~i--~ip~~TtCgHtFCslCIR~hL~~---------qp~CP--~Cr~~~~esrlr~~s~~~ei~es~ 87 (391)
T COG5432 25 MLRCRICDCRI--SIPCETTCGHTFCSLCIRRHLGT---------QPFCP--VCREDPCESRLRGSSGSREINESH 87 (391)
T ss_pred HHHhhhhhhee--ecceecccccchhHHHHHHHhcC---------CCCCc--cccccHHhhhcccchhHHHHHHhh
Confidence 57799999877 56677899999999999999854 34588 4766554333322 3333444444
No 46
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.89 E-value=0.026 Score=55.74 Aligned_cols=52 Identities=23% Similarity=0.510 Sum_probs=37.9
Q ss_pred CCCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 137 NARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
.....+|++|-+. |....+..+|||.||--|+..-+... ..+.|| .|+..+.
T Consensus 236 ~t~~~~C~~Cg~~-PtiP~~~~~C~HiyCY~Ci~ts~~~~-------asf~Cp--~Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEP-PTIPHVIGKCGHIYCYYCIATSRLWD-------ASFTCP--LCGENVE 287 (298)
T ss_pred ccCCceeeccCCC-CCCCeeeccccceeehhhhhhhhcch-------hhcccC--ccCCCCc
Confidence 4457899999885 33344455699999999999876442 158999 5887765
No 47
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.88 E-value=0.024 Score=61.79 Aligned_cols=82 Identities=30% Similarity=0.637 Sum_probs=51.6
Q ss_pred CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhhcChHHHHHHHHHHHHHHHh---cCCCc
Q 008382 153 DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVE---DNRKT 229 (567)
Q Consensus 153 ~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~e~~~ky~~~~~~~~v~---~~~~~ 229 (567)
...+...|||.||..|...+- .+..|+. ..+|.......... ...++
T Consensus 177 ~~~v~C~~g~~FC~~C~~~~H----------~p~~C~~--------------------~~~wl~k~~~~se~~~wi~~nt 226 (444)
T KOG1815|consen 177 SVEVDCGCGHEFCFACGEESH----------SPVSCPG--------------------AKKWLKKCRDDSETINWILANT 226 (444)
T ss_pred ccceeCCCCchhHhhcccccc----------CCCcccc--------------------hHHHHHhhhhhhhhhhhhhccC
Confidence 445667899999999944431 2456662 12222222221111 12345
Q ss_pred ccCCCCCCCCceecccCCCCceeee-c--CCccccccccccC
Q 008382 230 KWCPAPGCEHAIDFAAGSGNFDVSC-L--CSYNFCWNCTEEA 268 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~~~~~~v~C-~--C~~~fC~~C~~~~ 268 (567)
+.||. |...|.. +.+.+.++| . |++.|||.|...|
T Consensus 227 k~CP~--c~~~iek--~~gc~~~~~~~~~c~~~FCw~Cl~~~ 264 (444)
T KOG1815|consen 227 KECPK--CKVPIEK--DGGCNHMTCKSASCKHEFCWVCLASL 264 (444)
T ss_pred ccCCC--cccchhc--cCCccccccccCCcCCeeceeeeccc
Confidence 67988 9988876 567788888 4 9999999997654
No 48
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=94.54 E-value=0.025 Score=44.98 Aligned_cols=58 Identities=22% Similarity=0.577 Sum_probs=26.2
Q ss_pred cccccccccccc-cCCeee-----cCCCCcccHhhHHHHHHhhhcCCCCccc--cccCCCCCCCccch
Q 008382 140 ELTCGICFDTYS-CDKVVS-----AACGHPFCRACWRGYISATVNDGPGCLM--LRCPDPSCCAAVGQ 199 (567)
Q Consensus 140 ~~~C~IC~e~~~-~~~~~~-----l~CgH~fC~~Cl~~y~~~~i~~g~~~~~--i~CP~~~C~~~v~~ 199 (567)
...|+||+.... ...... ..|++.|...||..|+...-.......+ -.|| .|...|.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP--~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECP--YCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-T--TT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCc--CCCCeeeE
Confidence 467999998754 222211 2589999999999999876544322112 3699 69887653
No 49
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.35 E-value=0.014 Score=54.58 Aligned_cols=31 Identities=39% Similarity=0.933 Sum_probs=27.4
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHHHH
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRGY 172 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y 172 (567)
.|.|.||-.+| ..++...|||.||..|.-.-
T Consensus 196 PF~C~iCKkdy--~spvvt~CGH~FC~~Cai~~ 226 (259)
T COG5152 196 PFLCGICKKDY--ESPVVTECGHSFCSLCAIRK 226 (259)
T ss_pred ceeehhchhhc--cchhhhhcchhHHHHHHHHH
Confidence 68999999999 78888999999999997554
No 50
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.19 E-value=0.024 Score=56.68 Aligned_cols=54 Identities=24% Similarity=0.510 Sum_probs=41.2
Q ss_pred CcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHh
Q 008382 139 RELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDM 204 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ 204 (567)
..-.|.||+..- .-++.++|+|.||..|+++-... + ...|| -|+..|+...+.+
T Consensus 6 ~~~eC~IC~nt~--n~Pv~l~C~HkFCyiCiKGsy~n----d----k~~Ca--vCR~pids~i~~~ 59 (324)
T KOG0824|consen 6 KKKECLICYNTG--NCPVNLYCFHKFCYICIKGSYKN----D----KKTCA--VCRFPIDSTIDFE 59 (324)
T ss_pred cCCcceeeeccC--CcCccccccchhhhhhhcchhhc----C----CCCCc--eecCCCCcchhcc
Confidence 356799999975 66789999999999999986432 2 34598 5999987665543
No 51
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.14 E-value=0.052 Score=57.61 Aligned_cols=49 Identities=27% Similarity=0.683 Sum_probs=38.6
Q ss_pred CCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccch
Q 008382 138 ARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQ 199 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~ 199 (567)
...+.|.||+..+ .++++++|||.||..|+..-+. . ...|| .|+..+..
T Consensus 82 ~sef~c~vc~~~l--~~pv~tpcghs~c~~Cl~r~ld----~-----~~~cp--~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRAL--YPPVVTPCGHSFCLECLDRSLD----Q-----ETECP--LCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhc--CCCccccccccccHHHHHHHhc----c-----CCCCc--cccccccc
Confidence 4589999999987 6788889999999999777332 1 45788 49888763
No 52
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=93.53 E-value=0.071 Score=54.67 Aligned_cols=50 Identities=28% Similarity=0.629 Sum_probs=37.9
Q ss_pred CCccccccccccc-ccC----------CeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 138 ARELTCGICFDTY-SCD----------KVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 138 ~~~~~C~IC~e~~-~~~----------~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
.+..+|.||+++. .+. .|..+||||.+...|++.|++.+ -.|| -|+.++-
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq---------QTCP--ICr~p~i 345 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ---------QTCP--ICRRPVI 345 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc---------cCCC--cccCccc
Confidence 4467899999983 221 34679999999999999999652 4698 5887753
No 53
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.12 E-value=0.067 Score=38.96 Aligned_cols=44 Identities=25% Similarity=0.729 Sum_probs=21.1
Q ss_pred ccccccccccC--CeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCc
Q 008382 143 CGICFDTYSCD--KVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAA 196 (567)
Q Consensus 143 C~IC~e~~~~~--~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~ 196 (567)
|++|.+.+... ++..-+||+.+|..||..-... + .-+|| +|+..
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~----~----~g~CP--gCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN----E----GGRCP--GCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS----S-----SB-T--TT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc----c----CCCCC--CCCCC
Confidence 78999887444 3444568999999999887542 2 34799 58754
No 54
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=92.96 E-value=0.041 Score=55.86 Aligned_cols=47 Identities=28% Similarity=0.729 Sum_probs=35.5
Q ss_pred CcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 139 RELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
.+.+|.+|-.-+. +.....-|-|.||+.||-.|+.. ...|| .|...|
T Consensus 14 ~~itC~LC~GYli-DATTI~eCLHTFCkSCivk~l~~---------~~~CP--~C~i~i 60 (331)
T KOG2660|consen 14 PHITCRLCGGYLI-DATTITECLHTFCKSCIVKYLEE---------SKYCP--TCDIVI 60 (331)
T ss_pred cceehhhccceee-cchhHHHHHHHHHHHHHHHHHHH---------hccCC--ccceec
Confidence 4789999987652 33344569999999999999976 24799 477665
No 55
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.14 E-value=0.022 Score=58.17 Aligned_cols=49 Identities=24% Similarity=0.671 Sum_probs=35.2
Q ss_pred CCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 138 ARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
...+.|+||++.+. .-+.+..|.|.||.+|+..-+.. | .-.|| .|+..+
T Consensus 41 ~~~v~c~icl~llk-~tmttkeClhrfc~~ci~~a~r~----g----n~ecp--tcRk~l 89 (381)
T KOG0311|consen 41 DIQVICPICLSLLK-KTMTTKECLHRFCFDCIWKALRS----G----NNECP--TCRKKL 89 (381)
T ss_pred hhhhccHHHHHHHH-hhcccHHHHHHHHHHHHHHHHHh----c----CCCCc--hHHhhc
Confidence 35789999999863 33445679999999999776543 2 34788 577644
No 56
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.06 E-value=0.071 Score=59.64 Aligned_cols=45 Identities=27% Similarity=0.711 Sum_probs=35.2
Q ss_pred cccccccccccccC---CeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCC
Q 008382 140 ELTCGICFDTYSCD---KVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCA 195 (567)
Q Consensus 140 ~~~C~IC~e~~~~~---~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~ 195 (567)
...|+||.+..... .+..++|+|.||..|++.|++. .-.||. |+.
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er---------~qtCP~--CR~ 338 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER---------QQTCPT--CRT 338 (543)
T ss_pred CCeeeeechhhccccccccceeecccchHHHHHHHHHHH---------hCcCCc--chh
Confidence 56899999987321 1677999999999999999976 236884 555
No 57
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.95 E-value=0.12 Score=53.82 Aligned_cols=49 Identities=33% Similarity=0.835 Sum_probs=38.0
Q ss_pred ccccccccccccc---CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 140 ELTCGICFDTYSC---DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 140 ~~~C~IC~e~~~~---~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
..+||||++.+.. ..++++.|||-|=.+|+++|+. ++ ...+||. |...-
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~------~~~~cp~--c~~ka 55 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KK------TKMQCPL--CSGKA 55 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hh------hhhhCcc--cCChh
Confidence 4689999998743 3578899999999999999993 32 3688995 76543
No 58
>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=91.78 E-value=0.1 Score=33.01 Aligned_cols=24 Identities=29% Similarity=0.928 Sum_probs=16.4
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (567)
|.||.|+..|-. +-..|. .||+.|
T Consensus 1 K~CP~C~~~V~~----~~~~Cp-~CG~~F 24 (26)
T PF10571_consen 1 KTCPECGAEVPE----SAKFCP-HCGYDF 24 (26)
T ss_pred CcCCCCcCCchh----hcCcCC-CCCCCC
Confidence 679999888752 224565 687776
No 59
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.25 E-value=0.15 Score=53.13 Aligned_cols=58 Identities=29% Similarity=0.590 Sum_probs=37.5
Q ss_pred CCCCcccccccccccccCC-----eee-cCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 136 SNARELTCGICFDTYSCDK-----VVS-AACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 136 ~~~~~~~C~IC~e~~~~~~-----~~~-l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
+.....+|+||++...... .-. .+|.|.||..|++.|=...-. +. ...-.|| .|+...
T Consensus 157 ~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~-~~-~~sksCP--~CRv~s 220 (344)
T KOG1039|consen 157 QKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQF-ES-KTSKSCP--FCRVPS 220 (344)
T ss_pred CccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhcc-cc-ccccCCC--cccCcc
Confidence 3466889999999763322 112 459999999999998533221 11 1245799 587653
No 60
>PRK00420 hypothetical protein; Validated
Probab=91.11 E-value=1.9 Score=37.56 Aligned_cols=27 Identities=26% Similarity=0.328 Sum_probs=18.7
Q ss_pred CcCCCCCCcceeecCCCCccccCCCCccchhhccccc
Q 008382 298 SKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGA 334 (567)
Q Consensus 298 tk~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (567)
...||.|+.|+.+ - .=|..||..|+..
T Consensus 23 ~~~CP~Cg~pLf~---------l-k~g~~~Cp~Cg~~ 49 (112)
T PRK00420 23 SKHCPVCGLPLFE---------L-KDGEVVCPVHGKV 49 (112)
T ss_pred cCCCCCCCCccee---------c-CCCceECCCCCCe
Confidence 4899999999763 1 2456667777653
No 61
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.09 E-value=0.13 Score=50.60 Aligned_cols=71 Identities=23% Similarity=0.539 Sum_probs=46.9
Q ss_pred HHHHHhcCCCCCCccccCCCCcccccccccccccC--------CeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCC
Q 008382 119 DAVRKSVGFLDKPVVEFSNARELTCGICFDTYSCD--------KVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPD 190 (567)
Q Consensus 119 ~~~~~~~gl~~~~~~~~~~~~~~~C~IC~e~~~~~--------~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~ 190 (567)
+.+...+|.-.+.-.+...-+.-.|.||-..+..+ ++..|+|+|.|...|+++|... |+ .-.||
T Consensus 203 d~mAs~iGfYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWciv----GK---kqtCP- 274 (328)
T KOG1734|consen 203 DYMASTIGFYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIV----GK---KQTCP- 274 (328)
T ss_pred HHHHHHhcccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheee----cC---CCCCc-
Confidence 34445556544322222233466799998766432 5678999999999999999753 32 45799
Q ss_pred CCCCCccc
Q 008382 191 PSCCAAVG 198 (567)
Q Consensus 191 ~~C~~~v~ 198 (567)
-|+..++
T Consensus 275 -YCKekVd 281 (328)
T KOG1734|consen 275 -YCKEKVD 281 (328)
T ss_pred -hHHHHhh
Confidence 5877664
No 62
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=91.07 E-value=0.82 Score=46.56 Aligned_cols=46 Identities=22% Similarity=0.486 Sum_probs=33.2
Q ss_pred cccccccccccccCCeeec-CCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCc
Q 008382 140 ELTCGICFDTYSCDKVVSA-ACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAA 196 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~ 196 (567)
.-.|+||+... .++..+ --|-.||-.|+-.|+.. . -+||-.+|+..
T Consensus 300 ~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~---~------~~CPVT~~p~~ 346 (357)
T KOG0826|consen 300 REVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVN---Y------GHCPVTGYPAS 346 (357)
T ss_pred cccChhHHhcc--CCCceEEecceEEeHHHHHHHHHh---c------CCCCccCCcch
Confidence 56799999865 333333 35899999999999863 2 36887777554
No 63
>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=90.51 E-value=3.3 Score=42.43 Aligned_cols=34 Identities=26% Similarity=0.650 Sum_probs=21.7
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGA 334 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (567)
..||.|+...-.+..=.-|. . .|||.||-.|+..
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i-~-~CGH~~C~sCv~~ 37 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMV-N-VCGHTLCESCVDL 37 (309)
T ss_pred CCCCcCCCCCccCccccccc-C-CCCCcccHHHHHH
Confidence 57999998544333322122 1 3888888888876
No 64
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.45 E-value=0.21 Score=51.39 Aligned_cols=66 Identities=20% Similarity=0.481 Sum_probs=44.7
Q ss_pred HHHhcCCCCCCccccC---CCCcccccccccccccCCeeecCCCCc-ccHhhHHHHHHhhhcCCCCccccccCCCCCCCc
Q 008382 121 VRKSVGFLDKPVVEFS---NARELTCGICFDTYSCDKVVSAACGHP-FCRACWRGYISATVNDGPGCLMLRCPDPSCCAA 196 (567)
Q Consensus 121 ~~~~~gl~~~~~~~~~---~~~~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~ 196 (567)
+++..||..++..... +...-.|.||+.+. .+++.|||.|. .|.+|-+..- .. .-+|| -|+..
T Consensus 268 LqEiyGien~~v~~~~~~~~~~gkeCVIClse~--rdt~vLPCRHLCLCs~Ca~~Lr---~q------~n~CP--ICRqp 334 (349)
T KOG4265|consen 268 LQEIYGIENSTVEGTDADESESGKECVICLSES--RDTVVLPCRHLCLCSGCAKSLR---YQ------TNNCP--ICRQP 334 (349)
T ss_pred eehhhccccCCCCCCccccccCCCeeEEEecCC--cceEEecchhhehhHhHHHHHH---Hh------hcCCC--ccccc
Confidence 3455666543322211 24467899999975 78899999996 8999998764 11 34699 59887
Q ss_pred cch
Q 008382 197 VGQ 199 (567)
Q Consensus 197 v~~ 199 (567)
|..
T Consensus 335 i~~ 337 (349)
T KOG4265|consen 335 IEE 337 (349)
T ss_pred hHh
Confidence 643
No 65
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=89.79 E-value=0.33 Score=39.88 Aligned_cols=34 Identities=26% Similarity=0.540 Sum_probs=25.5
Q ss_pred eecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 156 VSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 156 ~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
+.-.|+|.|...|+..++.++-. .-.||. |+..+
T Consensus 48 v~g~C~H~FH~hCI~kWl~~~~~------~~~CPm--CR~~w 81 (85)
T PF12861_consen 48 VWGKCSHNFHMHCILKWLSTQSS------KGQCPM--CRQPW 81 (85)
T ss_pred eeccCccHHHHHHHHHHHccccC------CCCCCC--cCCee
Confidence 33469999999999999987522 237994 87764
No 66
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=89.67 E-value=0.091 Score=52.48 Aligned_cols=37 Identities=24% Similarity=0.828 Sum_probs=28.1
Q ss_pred hcCcCCCCCCcceeecCCCCccccCCCCccchhhccccccccCC
Q 008382 296 ANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHG 339 (567)
Q Consensus 296 ~ntk~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~H~ 339 (567)
.++..|-=|-...+ |-+|+ +|||-|||-|...|-.-.
T Consensus 237 ~a~~kC~LCLe~~~------~pSaT-pCGHiFCWsCI~~w~~ek 273 (293)
T KOG0317|consen 237 EATRKCSLCLENRS------NPSAT-PCGHIFCWSCILEWCSEK 273 (293)
T ss_pred CCCCceEEEecCCC------CCCcC-cCcchHHHHHHHHHHccc
Confidence 34566777766654 46788 799999999999997544
No 67
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.68 E-value=1.7 Score=45.51 Aligned_cols=57 Identities=16% Similarity=0.315 Sum_probs=40.4
Q ss_pred Cccccccccccccc-CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHH
Q 008382 139 RELTCGICFDTYSC-DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMID 203 (567)
Q Consensus 139 ~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~ 203 (567)
+.|.|||=-+.-.. +.|..|.|||..|++-+...... | ...++|| -|+........+
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~n----g--~~sfKCP--YCP~e~~~~~~k 390 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKN----G--SQSFKCP--YCPVEQLASDTK 390 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhC----C--CeeeeCC--CCCcccCHHhcc
Confidence 36899996654333 45678999999999999887532 3 2379999 688766554433
No 68
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.63 E-value=0.27 Score=50.22 Aligned_cols=51 Identities=25% Similarity=0.504 Sum_probs=36.6
Q ss_pred CCCCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccch
Q 008382 136 SNARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQ 199 (567)
Q Consensus 136 ~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~ 199 (567)
+..+.-.|+||+-.- -.-+..||+|.-|..|+.+++-. .-+|- .|+..+..
T Consensus 418 p~sEd~lCpICyA~p--i~Avf~PC~H~SC~~CI~qHlmN---------~k~CF--fCktTv~~ 468 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGP--INAVFAPCSHRSCYGCITQHLMN---------CKRCF--FCKTTVID 468 (489)
T ss_pred CCcccccCcceeccc--chhhccCCCCchHHHHHHHHHhc---------CCeee--Eecceeee
Confidence 445677899999753 34456799999999999999743 23454 57776543
No 69
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=86.45 E-value=0.38 Score=51.49 Aligned_cols=37 Identities=32% Similarity=0.753 Sum_probs=30.3
Q ss_pred CCCcccccccccccccCCeee-cCCCCcccHhhHHHHHHh
Q 008382 137 NARELTCGICFDTYSCDKVVS-AACGHPFCRACWRGYISA 175 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~~~~~~-l~CgH~fC~~Cl~~y~~~ 175 (567)
......|++|...+ .+++. ..|||.||..|+..+...
T Consensus 18 ~~~~l~C~~C~~vl--~~p~~~~~cgh~fC~~C~~~~~~~ 55 (391)
T KOG0297|consen 18 LDENLLCPICMSVL--RDPVQTTTCGHRFCAGCLLESLSN 55 (391)
T ss_pred CcccccCccccccc--cCCCCCCCCCCcccccccchhhcc
Confidence 34578999999987 56665 599999999999998754
No 70
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.74 E-value=0.43 Score=50.88 Aligned_cols=50 Identities=26% Similarity=0.600 Sum_probs=35.5
Q ss_pred CcccccccccccccC-----Ce----------eecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 139 RELTCGICFDTYSCD-----KV----------VSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~-----~~----------~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
....|+||+...+.. .+ ...||.|.|...|+.+|+.+ ..+.||. |+.+++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~--------ykl~CPv--CR~pLP 634 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT--------YKLICPV--CRCPLP 634 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh--------hcccCCc--cCCCCC
Confidence 356799999875421 11 13489999999999999853 2578994 666655
No 71
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=85.22 E-value=0.35 Score=43.14 Aligned_cols=34 Identities=35% Similarity=0.737 Sum_probs=28.1
Q ss_pred ccccccccccccc-CCeeecCCC------CcccHhhHHHHH
Q 008382 140 ELTCGICFDTYSC-DKVVSAACG------HPFCRACWRGYI 173 (567)
Q Consensus 140 ~~~C~IC~e~~~~-~~~~~l~Cg------H~fC~~Cl~~y~ 173 (567)
..+|.||++.... .-++.++|| |.||.+|++.|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 6789999998866 456777886 679999999994
No 72
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=85.19 E-value=1.4 Score=52.80 Aligned_cols=66 Identities=24% Similarity=0.512 Sum_probs=49.3
Q ss_pred ccccccccccc-ccCCeeecCCCCcccHhhHHHHHHhhhcCCCCc--cccccCCCCCCCccchhHHHhhcCh
Q 008382 140 ELTCGICFDTY-SCDKVVSAACGHPFCRACWRGYISATVNDGPGC--LMLRCPDPSCCAAVGQDMIDMLASD 208 (567)
Q Consensus 140 ~~~C~IC~e~~-~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~--~~i~CP~~~C~~~v~~~~i~~ll~~ 208 (567)
.-.|.|||.+- .....+.|.|+|.|...|.+..++..-. |+.+ ..+.|| -|...|..-.++.++.+
T Consensus 3486 DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~-GPRItF~FisCP--iC~n~InH~~LkDLldP 3554 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWL-GPRITFGFISCP--ICKNKINHIVLKDLLDP 3554 (3738)
T ss_pred CceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhccc-CCeeEEeeeecc--cccchhhhHHHHHHHHH
Confidence 45799999764 3345578999999999999998877653 3322 257899 69999987777777653
No 73
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=84.85 E-value=0.53 Score=29.66 Aligned_cols=12 Identities=33% Similarity=0.858 Sum_probs=9.1
Q ss_pred CcCCCCCCccee
Q 008382 298 SKPCPKCKRPIE 309 (567)
Q Consensus 298 tk~CPkC~~~IE 309 (567)
++.||+|+..|.
T Consensus 2 ~~~Cp~Cg~~~~ 13 (26)
T PF13248_consen 2 EMFCPNCGAEID 13 (26)
T ss_pred cCCCcccCCcCC
Confidence 367888888765
No 74
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=84.70 E-value=0.98 Score=33.19 Aligned_cols=42 Identities=19% Similarity=0.420 Sum_probs=31.3
Q ss_pred cccccccccccCCeeecCCC-----CcccHhhHHHHHHhhhcCCCCccccccCC
Q 008382 142 TCGICFDTYSCDKVVSAACG-----HPFCRACWRGYISATVNDGPGCLMLRCPD 190 (567)
Q Consensus 142 ~C~IC~e~~~~~~~~~l~Cg-----H~fC~~Cl~~y~~~~i~~g~~~~~i~CP~ 190 (567)
.|-||++.....++...||. |.+-..|+..|+...- ..+||.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~-------~~~C~i 47 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG-------NKTCEI 47 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC-------CCcCCC
Confidence 48999984444667778885 7899999999997642 247873
No 75
>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=84.64 E-value=0.26 Score=47.72 Aligned_cols=50 Identities=24% Similarity=0.612 Sum_probs=37.1
Q ss_pred cccccccccc-cccCCeeec--C-CCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 140 ELTCGICFDT-YSCDKVVSA--A-CGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 140 ~~~C~IC~e~-~~~~~~~~l--~-CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
...||||-.+ |...++..+ | |-|..|.+|+..-++. | +-.||.++|+.++
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~----G----pAqCP~~gC~kIL 63 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR----G----PAQCPYKGCGKIL 63 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC----C----CCCCCCccHHHHH
Confidence 3569999965 444454433 4 9999999999998753 4 6789999997554
No 76
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=84.62 E-value=0.55 Score=28.73 Aligned_cols=10 Identities=50% Similarity=1.122 Sum_probs=8.1
Q ss_pred CCCCCCccee
Q 008382 300 PCPKCKRPIE 309 (567)
Q Consensus 300 ~CPkC~~~IE 309 (567)
.||+|+..|+
T Consensus 1 ~Cp~CG~~~~ 10 (23)
T PF13240_consen 1 YCPNCGAEIE 10 (23)
T ss_pred CCcccCCCCC
Confidence 4888888887
No 77
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=84.58 E-value=0.35 Score=34.28 Aligned_cols=32 Identities=28% Similarity=0.686 Sum_probs=20.8
Q ss_pred CCCCCcceeecCCCCccccCCCCccchhhccccccccCC
Q 008382 301 CPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHG 339 (567)
Q Consensus 301 CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~H~ 339 (567)
||-|...+. +.++= .|||.||..|+..|....
T Consensus 1 CpiC~~~~~-----~Pv~l--~CGH~FC~~Cl~~~~~~~ 32 (42)
T PF15227_consen 1 CPICLDLFK-----DPVSL--PCGHSFCRSCLERLWKEP 32 (42)
T ss_dssp ETTTTSB-S-----SEEE---SSSSEEEHHHHHHHHCCS
T ss_pred CCccchhhC-----Ccccc--CCcCHHHHHHHHHHHHcc
Confidence 566655554 34554 499999999999765444
No 78
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=84.51 E-value=0.33 Score=47.52 Aligned_cols=54 Identities=26% Similarity=0.539 Sum_probs=37.4
Q ss_pred ccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhhcC
Q 008382 141 LTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDMLAS 207 (567)
Q Consensus 141 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~ 207 (567)
+.|..|+.-.+...++.+.|+|.||..|.+.-. .-.|| .|+..+....+..-++
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~-----------~~~C~--lCkk~ir~i~l~~slp 57 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASS-----------PDVCP--LCKKSIRIIQLNRSLP 57 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCC-----------ccccc--cccceeeeeecccccc
Confidence 569999987665666778899999999986531 22798 5988765443333333
No 79
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.31 E-value=0.62 Score=48.36 Aligned_cols=51 Identities=25% Similarity=0.610 Sum_probs=34.8
Q ss_pred cccccccccccccC-CeeecC-CCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 140 ELTCGICFDTYSCD-KVVSAA-CGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 140 ~~~C~IC~e~~~~~-~~~~l~-CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
.-.|.||-+.++.. +.-.+. |||.|...|+.+|+...-.. -.||. |+..++
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~------R~cpi--c~ik~~ 56 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN------RGCPI--CQIKLQ 56 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc------CCCCc--eeeccc
Confidence 45799997666543 344455 99999999999999765432 35774 554333
No 80
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=83.95 E-value=0.56 Score=30.71 Aligned_cols=27 Identities=26% Similarity=0.771 Sum_probs=15.4
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (567)
-+||+|+....-.+|.+ |.|. .|+++|
T Consensus 3 p~Cp~C~se~~y~D~~~-~vCp-~C~~ew 29 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGEL-LVCP-ECGHEW 29 (30)
T ss_dssp ---TTT-----EE-SSS-EEET-TTTEEE
T ss_pred CCCCCCCCcceeccCCE-EeCC-cccccC
Confidence 47999999888888888 7897 899875
No 81
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.80 E-value=1.5 Score=44.93 Aligned_cols=56 Identities=25% Similarity=0.611 Sum_probs=40.3
Q ss_pred cccccccccccccCC----eeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCc--cchhHHHhh
Q 008382 140 ELTCGICFDTYSCDK----VVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAA--VGQDMIDML 205 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~----~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~--v~~~~i~~l 205 (567)
.+.|.||-++|...+ |..+.|||.+|..|....+.. ..+.|| .|+.+ ++...++.+
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~--------~~i~cp--fcR~~~~~~~~~~~~l 64 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN--------SRILCP--FCRETTEIPDGDVKSL 64 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcC--------ceeecc--CCCCcccCCchhHhhh
Confidence 357999999987642 345779999999999998743 257786 79887 444444443
No 82
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=83.74 E-value=0.41 Score=49.66 Aligned_cols=46 Identities=28% Similarity=0.626 Sum_probs=34.0
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCC
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCC 194 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~ 194 (567)
-..|.||-+.- .++..-||||..|..|+..|-.. ++ .-.||.+.|.
T Consensus 369 FeLCKICaend--KdvkIEPCGHLlCt~CLa~WQ~s---d~----gq~CPFCRcE 414 (563)
T KOG1785|consen 369 FELCKICAEND--KDVKIEPCGHLLCTSCLAAWQDS---DE----GQTCPFCRCE 414 (563)
T ss_pred HHHHHHhhccC--CCcccccccchHHHHHHHhhccc---CC----CCCCCceeeE
Confidence 34699999854 67777899999999999998433 32 2368865554
No 83
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=82.99 E-value=0.81 Score=33.72 Aligned_cols=27 Identities=30% Similarity=0.725 Sum_probs=19.8
Q ss_pred cCCCCCCcceeecC--CCCccccCCCCccc
Q 008382 299 KPCPKCKRPIEKNQ--GCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPkC~~~IEK~~--GCnhm~C~~~C~~~ 326 (567)
+.||.|+.++.... +-++..|. .|++.
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~-~Cg~~ 29 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCR-KCGYE 29 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECC-cCCCe
Confidence 36999998887553 34688898 78864
No 84
>PLN03086 PRLI-interacting factor K; Provisional
Probab=82.27 E-value=1.4 Score=48.97 Aligned_cols=56 Identities=21% Similarity=0.513 Sum_probs=35.5
Q ss_pred ccccCCCCCCCccchhHHHhhcChHHHHHHHHHHHHHHHhcCCCcccCCCCCCCCceecccCCCCceeee-cCCccc
Q 008382 185 MLRCPDPSCCAAVGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNF 260 (567)
Q Consensus 185 ~i~CP~~~C~~~v~~~~i~~ll~~e~~~ky~~~~~~~~v~~~~~~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~f 260 (567)
.+.||. |...++...+..... .-..+.+.||+.+|+..+... ....+..| .|+..|
T Consensus 407 ~V~C~N--C~~~i~l~~l~lHe~----------------~C~r~~V~Cp~~~Cg~v~~r~--el~~H~~C~~Cgk~f 463 (567)
T PLN03086 407 TVECRN--CKHYIPSRSIALHEA----------------YCSRHNVVCPHDGCGIVLRVE--EAKNHVHCEKCGQAF 463 (567)
T ss_pred eEECCC--CCCccchhHHHHHHh----------------hCCCcceeCCcccccceeecc--ccccCccCCCCCCcc
Confidence 678995 988877654432111 112345679987899888653 33455688 887765
No 85
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.26 E-value=0.56 Score=47.10 Aligned_cols=32 Identities=31% Similarity=0.681 Sum_probs=27.9
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHHHHH
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRGYI 173 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~ 173 (567)
.|-|.||-..| ..++...|+|+||..|....+
T Consensus 241 Pf~c~icr~~f--~~pVvt~c~h~fc~~ca~~~~ 272 (313)
T KOG1813|consen 241 PFKCFICRKYF--YRPVVTKCGHYFCEVCALKPY 272 (313)
T ss_pred Ccccccccccc--ccchhhcCCceeehhhhcccc
Confidence 46799999988 788889999999999987655
No 86
>PHA00626 hypothetical protein
Probab=81.44 E-value=1 Score=33.65 Aligned_cols=28 Identities=29% Similarity=0.705 Sum_probs=20.5
Q ss_pred CCCCCCc-ceeecCCCCc----cccCCCCccchh
Q 008382 300 PCPKCKR-PIEKNQGCMH----MTCSPPCKFEFC 328 (567)
Q Consensus 300 ~CPkC~~-~IEK~~GCnh----m~C~~~C~~~FC 328 (567)
.||+|+. -|-|++-|+. -.|. .||+.|=
T Consensus 2 ~CP~CGS~~Ivrcg~cr~~snrYkCk-dCGY~ft 34 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRGWSDDYVCC-DCGYNDS 34 (59)
T ss_pred CCCCCCCceeeeeceecccCcceEcC-CCCCeec
Confidence 5999998 4778777764 5676 6777764
No 87
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=81.20 E-value=1.1 Score=50.96 Aligned_cols=23 Identities=30% Similarity=0.743 Sum_probs=14.9
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGA 334 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (567)
+.||+|+..+. =+..||-.||.+
T Consensus 28 ~~Cp~CG~~~~-------------~~~~fC~~CG~~ 50 (645)
T PRK14559 28 KPCPQCGTEVP-------------VDEAHCPNCGAE 50 (645)
T ss_pred CcCCCCCCCCC-------------cccccccccCCc
Confidence 56777777654 344577788765
No 88
>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=81.02 E-value=2 Score=43.10 Aligned_cols=49 Identities=27% Similarity=0.703 Sum_probs=34.4
Q ss_pred cccccccc-cccCCeee--cCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchh
Q 008382 142 TCGICFDT-YSCDKVVS--AACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQD 200 (567)
Q Consensus 142 ~C~IC~e~-~~~~~~~~--l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~ 200 (567)
.||+|-.. |...+++. -+|+|..|.+|+...+.. | +-.|| .|..++...
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~----g----~~~Cp--eC~~iLRk~ 53 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL----G----PAQCP--ECMVILRKN 53 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhc----C----CCCCC--cccchhhhc
Confidence 48999864 33333332 279999999999998753 3 56799 798876533
No 89
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=80.89 E-value=1 Score=34.91 Aligned_cols=24 Identities=33% Similarity=0.880 Sum_probs=10.1
Q ss_pred cCCCCCCcceeec---CCCCccccCCCC
Q 008382 299 KPCPKCKRPIEKN---QGCMHMTCSPPC 323 (567)
Q Consensus 299 k~CPkC~~~IEK~---~GCnhm~C~~~C 323 (567)
-+|++|...+... +||-|++|+ .|
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs-~C 34 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCS-SC 34 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-T-TT
T ss_pred cCCcHHHHHhcCCceeccCccHHHH-HH
Confidence 6899998776543 566666655 44
No 90
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.77 E-value=0.53 Score=34.95 Aligned_cols=45 Identities=33% Similarity=0.613 Sum_probs=33.2
Q ss_pred ccccccccccccCCeeecCCCCc-ccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 141 LTCGICFDTYSCDKVVSAACGHP-FCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 141 ~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
-+|.||++.. -+.+.-.|||. .|-+|-.+.+.. + .-.|| -|+.+|
T Consensus 8 dECTICye~p--vdsVlYtCGHMCmCy~Cg~rl~~~----~----~g~CP--iCRapi 53 (62)
T KOG4172|consen 8 DECTICYEHP--VDSVLYTCGHMCMCYACGLRLKKA----L----HGCCP--ICRAPI 53 (62)
T ss_pred cceeeeccCc--chHHHHHcchHHhHHHHHHHHHHc----c----CCcCc--chhhHH
Confidence 5799999964 45566689996 899999888764 1 23688 587654
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=80.62 E-value=0.63 Score=53.07 Aligned_cols=47 Identities=32% Similarity=0.738 Sum_probs=36.3
Q ss_pred ccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccch
Q 008382 141 LTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQ 199 (567)
Q Consensus 141 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~ 199 (567)
+.|.||.+ ...++..+|+|.||..||..++...- ...|| .|+..+..
T Consensus 455 ~~c~ic~~---~~~~~it~c~h~~c~~c~~~~i~~~~-------~~~~~--~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD---LDSFFITRCGHDFCVECLKKSIQQSE-------NAPCP--LCRNVLKE 501 (674)
T ss_pred cccccccc---cccceeecccchHHHHHHHhcccccc-------CCCCc--HHHHHHHH
Confidence 89999999 37888899999999999999986532 22676 57655543
No 92
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=80.23 E-value=1.3 Score=44.40 Aligned_cols=43 Identities=28% Similarity=0.823 Sum_probs=31.2
Q ss_pred ccccccccccccCCeee-cCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCC
Q 008382 141 LTCGICFDTYSCDKVVS-AACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCA 195 (567)
Q Consensus 141 ~~C~IC~e~~~~~~~~~-l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~ 195 (567)
+.|+.|...+ ..++. -.|+|.||..|+..-+.. . .+.|| .|..
T Consensus 275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~d----s----Df~Cp--nC~r 318 (427)
T COG5222 275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLD----S----DFKCP--NCSR 318 (427)
T ss_pred ccCcchhhhh--hCcccCccccchHHHHHHhhhhhh----c----cccCC--Cccc
Confidence 7899998865 34444 469999999999876532 1 57899 4654
No 93
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.19 E-value=0.98 Score=43.95 Aligned_cols=32 Identities=44% Similarity=1.156 Sum_probs=22.9
Q ss_pred cCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHHHHHhcCcCCCCCCccee
Q 008382 255 LCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPIE 309 (567)
Q Consensus 255 ~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntk~CPkC~~~IE 309 (567)
.|||.|||-|. .+|+... .+.+.||-|+..|.
T Consensus 64 lCGHLFCWpCl------------yqWl~~~-----------~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 64 LCGHLFCWPCL------------YQWLQTR-----------PNSKECPVCKAEVS 95 (230)
T ss_pred ecccceehHHH------------HHHHhhc-----------CCCeeCCccccccc
Confidence 59999999996 4454322 23488999987765
No 94
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=76.48 E-value=2.3 Score=28.15 Aligned_cols=29 Identities=28% Similarity=0.680 Sum_probs=17.5
Q ss_pred cCcCCCCCCcceeecCCCCccccCCCCccc
Q 008382 297 NSKPCPKCKRPIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 297 ntk~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (567)
+.+-||+|+.+.....+=.-|.|. .|++.
T Consensus 2 ~~rfC~~CG~~t~~~~~g~~r~C~-~Cg~~ 30 (32)
T PF09297_consen 2 NHRFCGRCGAPTKPAPGGWARRCP-SCGHE 30 (32)
T ss_dssp TTSB-TTT--BEEE-SSSS-EEES-SSS-E
T ss_pred CCcccCcCCccccCCCCcCEeECC-CCcCE
Confidence 357899999988888776668886 78764
No 95
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=76.43 E-value=0.98 Score=51.05 Aligned_cols=47 Identities=23% Similarity=0.575 Sum_probs=29.5
Q ss_pred CcccCCCCCCCCceecccCCCCceee-ecCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHHHHHhcCcCCCCCCc
Q 008382 228 KTKWCPAPGCEHAIDFAAGSGNFDVS-CLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKR 306 (567)
Q Consensus 228 ~~~~CP~~~C~~~i~~~~~~~~~~v~-C~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntk~CPkC~~ 306 (567)
.+..||. |.. ...++. =.|+|.||..|.... +..-.+.||+|+.
T Consensus 642 ~~LkCs~--Cn~--------R~Kd~vI~kC~H~FC~~Cvq~r-------------------------~etRqRKCP~Cn~ 686 (698)
T KOG0978|consen 642 ELLKCSV--CNT--------RWKDAVITKCGHVFCEECVQTR-------------------------YETRQRKCPKCNA 686 (698)
T ss_pred hceeCCC--ccC--------chhhHHHHhcchHHHHHHHHHH-------------------------HHHhcCCCCCCCC
Confidence 4568887 861 112222 289999999996431 1111289999998
Q ss_pred cee
Q 008382 307 PIE 309 (567)
Q Consensus 307 ~IE 309 (567)
+.-
T Consensus 687 aFg 689 (698)
T KOG0978|consen 687 AFG 689 (698)
T ss_pred CCC
Confidence 764
No 96
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=76.27 E-value=3 Score=35.49 Aligned_cols=31 Identities=23% Similarity=0.555 Sum_probs=26.6
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHH
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWR 170 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~ 170 (567)
...|++|...+....++..||||.|...|.+
T Consensus 78 ~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 4569999999877777888999999999975
No 97
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=74.20 E-value=2.4 Score=29.16 Aligned_cols=29 Identities=28% Similarity=0.677 Sum_probs=21.1
Q ss_pred ccCCCCCCCCceecccC---CCCceeee-cCCccc
Q 008382 230 KWCPAPGCEHAIDFAAG---SGNFDVSC-LCSYNF 260 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~---~~~~~v~C-~C~~~f 260 (567)
..||+ |+........ .+...|.| .|++.|
T Consensus 3 i~CP~--C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCPN--CQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECCC--CCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 56988 9987776533 34567899 899876
No 98
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.74 E-value=2.1 Score=41.84 Aligned_cols=53 Identities=19% Similarity=0.269 Sum_probs=37.1
Q ss_pred CcccccccccccccCCe--eecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHH
Q 008382 139 RELTCGICFDTYSCDKV--VSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMI 202 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~--~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 202 (567)
..+.|+||-+.+...-+ +.-+|||.||.+|...++.. .+.|| -|...+....|
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~---------D~v~p--v~d~plkdrdi 274 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK---------DMVDP--VTDKPLKDRDI 274 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc---------ccccc--CCCCcCcccce
Confidence 46889999998854332 23479999999999999743 34566 46666654433
No 99
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=73.63 E-value=2.8 Score=29.73 Aligned_cols=32 Identities=28% Similarity=0.601 Sum_probs=21.5
Q ss_pred HHHHhcCcCCCCCCcceeecCCCCccccCC-CCccch
Q 008382 292 NWILANSKPCPKCKRPIEKNQGCMHMTCSP-PCKFEF 327 (567)
Q Consensus 292 ~wi~~ntk~CPkC~~~IEK~~GCnhm~C~~-~C~~~F 327 (567)
.|.+...+.||+|+..- |+--+.|++ .|.+.|
T Consensus 5 k~TlRGirkCp~CGt~N----G~R~~~CKN~~C~~~~ 37 (44)
T PF14952_consen 5 KPTLRGIRKCPKCGTYN----GTRGLSCKNKSCPQVF 37 (44)
T ss_pred hhhHhccccCCcCcCcc----CcccccccCCccchhh
Confidence 46666779999999864 666666763 454433
No 100
>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=73.37 E-value=0.86 Score=31.50 Aligned_cols=32 Identities=25% Similarity=0.797 Sum_probs=21.0
Q ss_pred CCCCCcceeecCCCCccccCCCCccchhhccccccccC
Q 008382 301 CPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDH 338 (567)
Q Consensus 301 CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~H 338 (567)
||-|...+. +.+... .|||.||+.|...|...
T Consensus 1 C~iC~~~~~-----~~~~~~-~CGH~fC~~C~~~~~~~ 32 (39)
T PF13923_consen 1 CPICLDELR-----DPVVVT-PCGHSFCKECIEKYLEK 32 (39)
T ss_dssp ETTTTSB-S-----SEEEEC-TTSEEEEHHHHHHHHHC
T ss_pred CCCCCCccc-----CcCEEC-CCCCchhHHHHHHHHHC
Confidence 455655444 233455 69999999999887544
No 101
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=73.32 E-value=1.4 Score=34.88 Aligned_cols=49 Identities=29% Similarity=0.562 Sum_probs=28.1
Q ss_pred CCCCCCcceeecCCCCccccCCCCcc-----chhhccccccccCCCCCCCcccCCcc
Q 008382 300 PCPKCKRPIEKNQGCMHMTCSPPCKF-----EFCWLCLGAWSDHGERTGGFYACNRY 351 (567)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~-----~FCw~C~~~~~~H~~~~g~~y~C~~~ 351 (567)
.||.|+.+++.++ .+.+|. .|+. -+|-.|+.+...-..-..--|.|+.-
T Consensus 3 ~CP~C~~~L~~~~--~~~~C~-~C~~~~~~~a~CPdC~~~Le~LkACGAvdYFC~~c 56 (70)
T PF07191_consen 3 TCPKCQQELEWQG--GHYHCE-ACQKDYKKEAFCPDCGQPLEVLKACGAVDYFCNHC 56 (70)
T ss_dssp B-SSS-SBEEEET--TEEEET-TT--EEEEEEE-TTT-SB-EEEEETTEEEEE-TTT
T ss_pred cCCCCCCccEEeC--CEEECc-cccccceecccCCCcccHHHHHHHhcccceeeccC
Confidence 6999999999888 677798 7875 46999988764333211135777754
No 102
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=72.80 E-value=1.4 Score=41.98 Aligned_cols=31 Identities=26% Similarity=0.857 Sum_probs=23.3
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhccccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWS 336 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~ 336 (567)
-.||-|...+. ..+ -. .|||.|||.|+..|.
T Consensus 19 ~~CpICld~~~-----dPV-vT-~CGH~FC~~CI~~wl 49 (193)
T PLN03208 19 FDCNICLDQVR-----DPV-VT-LCGHLFCWPCIHKWT 49 (193)
T ss_pred cCCccCCCcCC-----CcE-Ec-CCCchhHHHHHHHHH
Confidence 57999987654 112 24 599999999999884
No 103
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=72.59 E-value=1.2 Score=50.22 Aligned_cols=18 Identities=11% Similarity=0.193 Sum_probs=9.1
Q ss_pred CCCcccHhhHHHHHHhhh
Q 008382 160 CGHPFCRACWRGYISATV 177 (567)
Q Consensus 160 CgH~fC~~Cl~~y~~~~i 177 (567)
|+|.+|..||..+....+
T Consensus 121 ~~~~~CP~Ci~s~~DqL~ 138 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLE 138 (1134)
T ss_pred hhhhhhhHHHHHHHHHhh
Confidence 555555555555544433
No 104
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=71.87 E-value=3.3 Score=47.13 Aligned_cols=11 Identities=27% Similarity=0.797 Sum_probs=8.8
Q ss_pred cCCCCCCccee
Q 008382 299 KPCPKCKRPIE 309 (567)
Q Consensus 299 k~CPkC~~~IE 309 (567)
+.||+|+..+.
T Consensus 42 ~fC~~CG~~~~ 52 (645)
T PRK14559 42 AHCPNCGAETG 52 (645)
T ss_pred ccccccCCccc
Confidence 78888888765
No 105
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=71.81 E-value=2.2 Score=42.98 Aligned_cols=39 Identities=23% Similarity=0.533 Sum_probs=31.9
Q ss_pred CcccccccccccccCC-eeecCCCCcccHhhHHHHHHhhh
Q 008382 139 RELTCGICFDTYSCDK-VVSAACGHPFCRACWRGYISATV 177 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~-~~~l~CgH~fC~~Cl~~y~~~~i 177 (567)
.+..|.||+-.|...+ +...+|-|+|-..|+..|+....
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~ 153 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECL 153 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHH
Confidence 3677999998886665 66789999999999999997543
No 106
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=71.39 E-value=1.7 Score=32.58 Aligned_cols=45 Identities=29% Similarity=0.572 Sum_probs=30.6
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccch
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQ 199 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~ 199 (567)
...|-.|...- ...+.++|||..|..||..- . --.|| .|...+..
T Consensus 7 ~~~~~~~~~~~--~~~~~~pCgH~I~~~~f~~~-------r----YngCP--fC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFVG--TKGTVLPCGHLICDNCFPGE-------R----YNGCP--FCGTPFEF 51 (55)
T ss_pred ceeEEEccccc--cccccccccceeeccccChh-------h----ccCCC--CCCCcccC
Confidence 34566665432 55677999999999999653 1 34688 58877654
No 107
>PHA02926 zinc finger-like protein; Provisional
Probab=70.18 E-value=2.9 Score=40.61 Aligned_cols=53 Identities=23% Similarity=0.510 Sum_probs=32.6
Q ss_pred CcCCCCCCcce-eec-CCCCccccCCCCccchhhccccccccCCCCCCCcccCCc
Q 008382 298 SKPCPKCKRPI-EKN-QGCMHMTCSPPCKFEFCWLCLGAWSDHGERTGGFYACNR 350 (567)
Q Consensus 298 tk~CPkC~~~I-EK~-~GCnhm~C~~~C~~~FCw~C~~~~~~H~~~~g~~y~C~~ 350 (567)
-+.|+=|-..+ +|. .++...-=.+.|+|.||+.|...|......+|....|+-
T Consensus 170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPi 224 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPI 224 (242)
T ss_pred CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCC
Confidence 37899998655 432 222110001269999999999999875433455556764
No 108
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=70.18 E-value=2.9 Score=30.87 Aligned_cols=27 Identities=22% Similarity=0.629 Sum_probs=19.3
Q ss_pred CcCCCCCCc-ceeecCCCCccccCCCCccch
Q 008382 298 SKPCPKCKR-PIEKNQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 298 tk~CPkC~~-~IEK~~GCnhm~C~~~C~~~F 327 (567)
.+.||+|+. .+.... +.++|. .|++.+
T Consensus 20 ~~fCP~Cg~~~m~~~~--~r~~C~-~Cgyt~ 47 (50)
T PRK00432 20 NKFCPRCGSGFMAEHL--DRWHCG-KCGYTE 47 (50)
T ss_pred cCcCcCCCcchheccC--CcEECC-CcCCEE
Confidence 478999987 444333 678898 898764
No 109
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=68.85 E-value=2 Score=44.80 Aligned_cols=47 Identities=28% Similarity=0.764 Sum_probs=36.7
Q ss_pred Cccccccccccccc--CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCC
Q 008382 139 RELTCGICFDTYSC--DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCC 194 (567)
Q Consensus 139 ~~~~C~IC~e~~~~--~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~ 194 (567)
-.+.|..|-+.+.. +..-.+||.|+|...|+..|+.. ++ +-.|| .|+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~---n~----~rsCP--~Cr 412 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILEN---NG----TRSCP--NCR 412 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHh---CC----CCCCc--cHH
Confidence 36889999997643 45567999999999999999943 33 56899 576
No 110
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=68.78 E-value=1.9 Score=43.93 Aligned_cols=35 Identities=26% Similarity=0.618 Sum_probs=24.6
Q ss_pred CcccCCCCCCCCceecccCCCCceeee-cCCccccccccccCC
Q 008382 228 KTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAH 269 (567)
Q Consensus 228 ~~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H 269 (567)
+...|-. |+.. ..+...+.| .|+..||..|..-.|
T Consensus 329 ~~~~Cf~--C~~~-----~~~~~~y~C~~Ck~~FCldCDv~iH 364 (378)
T KOG2807|consen 329 GSRFCFA--CQGE-----LLSSGRYRCESCKNVFCLDCDVFIH 364 (378)
T ss_pred CCcceee--eccc-----cCCCCcEEchhccceeeccchHHHH
Confidence 4455766 7321 234556899 999999999987666
No 111
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=68.66 E-value=4.1 Score=41.82 Aligned_cols=47 Identities=28% Similarity=0.722 Sum_probs=33.6
Q ss_pred CCCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 137 NARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
....+.||||++.+. ..+++-.=||..|..|-... .-+||. |+..++
T Consensus 45 ~~~lleCPvC~~~l~-~Pi~QC~nGHlaCssC~~~~------------~~~CP~--Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLS-PPIFQCDNGHLACSSCRTKV------------SNKCPT--CRLPIG 91 (299)
T ss_pred chhhccCchhhccCc-ccceecCCCcEehhhhhhhh------------cccCCc--cccccc
Confidence 345789999999862 22333344899999998732 568994 988887
No 112
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=68.63 E-value=1.9 Score=48.58 Aligned_cols=51 Identities=20% Similarity=0.421 Sum_probs=34.4
Q ss_pred CCcccccccccccccCCe-eecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccch
Q 008382 138 ARELTCGICFDTYSCDKV-VSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQ 199 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~~~-~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~ 199 (567)
.....|++|+..+..... ....|+|+||..|+..|-.. .-.|| .|+..+..
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~---------aqTCP--iDR~EF~~ 172 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC---------AQTCP--VDRGEFGE 172 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh---------cccCc--hhhhhhhe
Confidence 345678899876543222 23579999999999998643 23688 47666543
No 113
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=68.43 E-value=3.9 Score=29.47 Aligned_cols=28 Identities=21% Similarity=0.643 Sum_probs=19.6
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (567)
-.||+|+..++-..+=..++|. .||..+
T Consensus 4 y~C~~CG~~~~~~~~~~~~~Cp-~CG~~~ 31 (46)
T PRK00398 4 YKCARCGREVELDEYGTGVRCP-YCGYRI 31 (46)
T ss_pred EECCCCCCEEEECCCCCceECC-CCCCeE
Confidence 4799999988765444367886 677654
No 114
>PHA03096 p28-like protein; Provisional
Probab=68.36 E-value=2.6 Score=43.00 Aligned_cols=38 Identities=18% Similarity=0.447 Sum_probs=28.1
Q ss_pred ccccccccccccCC----ee-ec-CCCCcccHhhHHHHHHhhhc
Q 008382 141 LTCGICFDTYSCDK----VV-SA-ACGHPFCRACWRGYISATVN 178 (567)
Q Consensus 141 ~~C~IC~e~~~~~~----~~-~l-~CgH~fC~~Cl~~y~~~~i~ 178 (567)
..|+||++...... .+ .| .|.|.||..|++.|..+...
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~ 222 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLY 222 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhh
Confidence 67999998753221 12 23 59999999999999887653
No 115
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.24 E-value=1.7 Score=40.62 Aligned_cols=31 Identities=35% Similarity=0.919 Sum_probs=21.9
Q ss_pred eecCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHHHHHhcCcCCCCCCccee
Q 008382 253 SCLCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPIE 309 (567)
Q Consensus 253 ~C~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntk~CPkC~~~IE 309 (567)
.=+|||.||..|... ...++.+||-|++-|-
T Consensus 148 sTkCGHvFC~~Cik~--------------------------alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 148 STKCGHVFCSQCIKD--------------------------ALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccchhHHHHHHHH--------------------------HHHhCCCCCCcccccc
Confidence 348999999998532 1234589999987654
No 116
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=67.99 E-value=14 Score=25.05 Aligned_cols=33 Identities=27% Similarity=0.366 Sum_probs=27.5
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCChhhhHH
Q 008382 79 EDDITKVSTVLSISRVDASILLRHYNWSVSKVHD 112 (567)
Q Consensus 79 ~~~i~~v~~il~i~~~~a~~LL~~~~W~~~~l~e 112 (567)
.+.|.++.++ |.+...+...|+..+||++..++
T Consensus 3 ~~~v~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~ 35 (37)
T PF00627_consen 3 EEKVQQLMEM-GFSREQAREALRACNGNVERAVD 35 (37)
T ss_dssp HHHHHHHHHH-TS-HHHHHHHHHHTTTSHHHHHH
T ss_pred HHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHH
Confidence 3568888888 99999999999999999987654
No 117
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=66.79 E-value=3.2 Score=29.02 Aligned_cols=28 Identities=21% Similarity=0.655 Sum_probs=23.9
Q ss_pred cCCCCCCcc-eeecCCCCccccCCCCccchhhccccc
Q 008382 299 KPCPKCKRP-IEKNQGCMHMTCSPPCKFEFCWLCLGA 334 (567)
Q Consensus 299 k~CPkC~~~-IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (567)
..|+.|... +. ++|. .|+..+|..|...
T Consensus 4 ~~C~~H~~~~~~-------~~C~-~C~~~~C~~C~~~ 32 (42)
T PF00643_consen 4 PKCPEHPEEPLS-------LFCE-DCNEPLCSECTVS 32 (42)
T ss_dssp SB-SSTTTSBEE-------EEET-TTTEEEEHHHHHT
T ss_pred ccCccCCccceE-------EEec-CCCCccCccCCCC
Confidence 689999877 88 9999 8999999999764
No 118
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=66.73 E-value=3 Score=42.61 Aligned_cols=54 Identities=20% Similarity=0.610 Sum_probs=37.8
Q ss_pred ccccccccccccc--CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHH
Q 008382 140 ELTCGICFDTYSC--DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMID 203 (567)
Q Consensus 140 ~~~C~IC~e~~~~--~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~ 203 (567)
.-.||.|.+.... ..++..+||-..|.=||...- ..+ .=+||+ |+.....+-++
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~ir-q~l-------ngrcpa--crr~y~denv~ 69 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIR-QNL-------NGRCPA--CRRKYDDENVR 69 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHH-hhc-------cCCChH--hhhhcccccee
Confidence 4559999997643 456778899999999997642 222 348995 88776555443
No 119
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=65.79 E-value=4.9 Score=27.29 Aligned_cols=27 Identities=22% Similarity=0.715 Sum_probs=17.2
Q ss_pred ccCCCCCCCCceecccCCCCceeee-cCCcc
Q 008382 230 KWCPAPGCEHAIDFAAGSGNFDVSC-LCSYN 259 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~ 259 (567)
++||. |++.+....+..... .| .|++.
T Consensus 2 ~FCp~--C~nlL~p~~~~~~~~-~C~~C~Y~ 29 (35)
T PF02150_consen 2 RFCPE--CGNLLYPKEDKEKRV-ACRTCGYE 29 (35)
T ss_dssp -BETT--TTSBEEEEEETTTTE-EESSSS-E
T ss_pred eeCCC--CCccceEcCCCccCc-CCCCCCCc
Confidence 58988 999887764433333 78 78765
No 120
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.15 E-value=3.7 Score=41.29 Aligned_cols=29 Identities=34% Similarity=0.786 Sum_probs=23.1
Q ss_pred cccccccccccccCCeeecCCCCc-ccHhhHH
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHP-FCRACWR 170 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~-fC~~Cl~ 170 (567)
...|.||++.. .+-+.|+|||. -|..|-+
T Consensus 300 ~~LC~ICmDaP--~DCvfLeCGHmVtCt~CGk 329 (350)
T KOG4275|consen 300 RRLCAICMDAP--RDCVFLECGHMVTCTKCGK 329 (350)
T ss_pred HHHHHHHhcCC--cceEEeecCcEEeehhhcc
Confidence 67899999964 78889999994 5777643
No 121
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 []. They have been shown to be DNA-binding and may be transcription factors [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=64.48 E-value=5.4 Score=39.76 Aligned_cols=8 Identities=38% Similarity=0.912 Sum_probs=4.5
Q ss_pred cccccCCC
Q 008382 5 EDDFYSGE 12 (567)
Q Consensus 5 ~~~~~~~~ 12 (567)
+|+||.+.
T Consensus 24 ~de~~~~~ 31 (240)
T PF05764_consen 24 EDEFFWNQ 31 (240)
T ss_pred hhhhhhhh
Confidence 36666543
No 122
>PF04641 Rtf2: Rtf2 RING-finger
Probab=63.88 E-value=7.2 Score=39.33 Aligned_cols=59 Identities=19% Similarity=0.392 Sum_probs=41.9
Q ss_pred CCCccccccccccccc-CCeeec-CCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccchhHHHhhcC
Q 008382 137 NARELTCGICFDTYSC-DKVVSA-ACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQDMIDMLAS 207 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~-~~~~~l-~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~ 207 (567)
....+.|||....+.. ..++.+ +|||.|+..+++..- . .-.|| .|...+....|-.|.+
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k----~------~~~Cp--~c~~~f~~~DiI~Lnp 170 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK----K------SKKCP--VCGKPFTEEDIIPLNP 170 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc----c------ccccc--ccCCccccCCEEEecC
Confidence 3568999999988843 244444 899999999999871 1 23598 5999887655544443
No 123
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.80 E-value=7.6 Score=37.54 Aligned_cols=55 Identities=16% Similarity=0.427 Sum_probs=41.9
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
...|..|-..+...+.+.|.|-|.|--.|+...-..--.... -...+|| .|...|
T Consensus 50 ~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTA-PaGyqCP--~Cs~ei 104 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTA-PAGYQCP--CCSQEI 104 (299)
T ss_pred CCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCC-CCcccCC--CCCCcc
Confidence 456999999888889999999999999999998654333221 1357899 587765
No 124
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=63.74 E-value=2.2e+02 Score=30.83 Aligned_cols=11 Identities=27% Similarity=0.564 Sum_probs=5.2
Q ss_pred HHHHHHHHHHH
Q 008382 493 FNDFRTKLAGL 503 (567)
Q Consensus 493 ~~~~~~~~~~l 503 (567)
+.++..+|.+|
T Consensus 437 I~dLqEQlrDl 447 (493)
T KOG0804|consen 437 ITDLQEQLRDL 447 (493)
T ss_pred HHHHHHHHHhH
Confidence 34444445444
No 125
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.69 E-value=2.4 Score=42.12 Aligned_cols=34 Identities=32% Similarity=0.788 Sum_probs=26.3
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhccccc-cccCC
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGA-WSDHG 339 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~-~~~H~ 339 (567)
.+|+-|-..++. -.|+ .|||-|||.|+-. |..-.
T Consensus 216 ~kC~lC~e~~~~------ps~t-~CgHlFC~~Cl~~~~t~~k 250 (271)
T COG5574 216 YKCFLCLEEPEV------PSCT-PCGHLFCLSCLLISWTKKK 250 (271)
T ss_pred cceeeeecccCC------cccc-cccchhhHHHHHHHHHhhc
Confidence 679988887761 4577 7999999999986 76443
No 126
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=63.27 E-value=3.9 Score=35.97 Aligned_cols=59 Identities=17% Similarity=0.237 Sum_probs=32.0
Q ss_pred ceeeecCCccccccccccCC--CCCCchhH-HHHHHHh-hhhHHHHHHHHhcCcCCCCCCccee
Q 008382 250 FDVSCLCSYNFCWNCTEEAH--RPVDCGTV-AKWILKN-CAESENMNWILANSKPCPKCKRPIE 309 (567)
Q Consensus 250 ~~v~C~C~~~fC~~C~~~~H--~p~~C~~~-~~~~~~~-~~~~~~~~wi~~ntk~CPkC~~~IE 309 (567)
..+.|.||++||-- ...|. ....-..- .+..... ..+....+|+....-.||.|+.+.+
T Consensus 69 rv~rcecghsf~d~-r~nwkl~a~i~vrdtee~lreiyp~s~ipdp~wme~reficpecg~l~e 131 (165)
T COG4647 69 RVIRCECGHSFGDY-RENWKLHANIYVRDTEEKLREIYPKSDIPDPQWMEIREFICPECGILHE 131 (165)
T ss_pred cEEEEeccccccCh-hhCceeeeEEEEcchHHHHHHhCcccCCCCchHHHHHHhhCccccceee
Confidence 35689999999965 44442 22111110 1111100 1122345677666678999998877
No 127
>cd00021 BBOX B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
Probab=62.45 E-value=5.3 Score=27.14 Aligned_cols=30 Identities=23% Similarity=0.454 Sum_probs=24.5
Q ss_pred CCCCCCc-ceeecCCCCccccCCCCccchhhccccccccCC
Q 008382 300 PCPKCKR-PIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHG 339 (567)
Q Consensus 300 ~CPkC~~-~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~H~ 339 (567)
.||.|.. ++. ++|. .|+...|..|.. ..|.
T Consensus 2 ~C~~H~~~~~~-------~fC~-~~~~~iC~~C~~--~~H~ 32 (39)
T cd00021 2 LCDEHGEEPLS-------LFCE-TDRALLCVDCDL--SVHS 32 (39)
T ss_pred CCCccCCcceE-------EEeC-ccChhhhhhcCh--hhcC
Confidence 5899977 888 9999 899999999953 3354
No 128
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.21 E-value=2.5 Score=46.72 Aligned_cols=34 Identities=32% Similarity=0.724 Sum_probs=27.7
Q ss_pred ccccccccccccc--CCeeecCCCCcccHhhHHHHH
Q 008382 140 ELTCGICFDTYSC--DKVVSAACGHPFCRACWRGYI 173 (567)
Q Consensus 140 ~~~C~IC~e~~~~--~~~~~l~CgH~fC~~Cl~~y~ 173 (567)
.+.|+||+..|-. -.++++.|||..|..|+....
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly 46 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY 46 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh
Confidence 4679999876633 467899999999999998865
No 129
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=62.07 E-value=4.4 Score=27.76 Aligned_cols=26 Identities=27% Similarity=0.784 Sum_probs=15.5
Q ss_pred CCCCCCcceeec------CCCCccccCCCCccch
Q 008382 300 PCPKCKRPIEKN------QGCMHMTCSPPCKFEF 327 (567)
Q Consensus 300 ~CPkC~~~IEK~------~GCnhm~C~~~C~~~F 327 (567)
.||+|+..+.-. .| ..+.|. .|++.|
T Consensus 4 ~CP~C~~~~~v~~~~~~~~~-~~v~C~-~C~~~~ 35 (38)
T TIGR02098 4 QCPNCKTSFRVVDSQLGANG-GKVRCG-KCGHVW 35 (38)
T ss_pred ECCCCCCEEEeCHHHcCCCC-CEEECC-CCCCEE
Confidence 588887755432 12 257776 677654
No 130
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=61.82 E-value=6.4 Score=26.86 Aligned_cols=29 Identities=24% Similarity=0.586 Sum_probs=20.1
Q ss_pred ccCCCCCCCCceecccC---CCCceeee-cCCccc
Q 008382 230 KWCPAPGCEHAIDFAAG---SGNFDVSC-LCSYNF 260 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~---~~~~~v~C-~C~~~f 260 (567)
..||+ |+........ .....|.| .|++.|
T Consensus 3 i~Cp~--C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPN--CQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCC--CCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 46888 9887765432 23457899 898876
No 131
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.66 E-value=6.6 Score=39.31 Aligned_cols=53 Identities=26% Similarity=0.577 Sum_probs=38.0
Q ss_pred CcccccccccccccCCeeecC--CCCcccHhhHHHHHHhhhcCCCCccccccCC-CCCCC
Q 008382 139 RELTCGICFDTYSCDKVVSAA--CGHPFCRACWRGYISATVNDGPGCLMLRCPD-PSCCA 195 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~--CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~-~~C~~ 195 (567)
..+.|.+|-+.+..+-++..+ =.|.||.-|-++.|..+-..| .+-||. .+|..
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sg----evYCPSGdkCPL 322 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASG----EVYCPSGDKCPL 322 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCC----ceeCCCCCcCcc
Confidence 458899999988444444333 269999999999998875554 577885 35654
No 132
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=60.56 E-value=7.7 Score=28.40 Aligned_cols=28 Identities=29% Similarity=0.759 Sum_probs=17.3
Q ss_pred ccCCCCCCCCceecccCCCCceeee-cCCcc
Q 008382 230 KWCPAPGCEHAIDFAAGSGNFDVSC-LCSYN 259 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~ 259 (567)
++||. |+..+............| .|++.
T Consensus 1 ~FCp~--Cg~~l~~~~~~~~~~~vC~~Cg~~ 29 (52)
T smart00661 1 KFCPK--CGNMLIPKEGKEKRRFVCRKCGYE 29 (52)
T ss_pred CCCCC--CCCccccccCCCCCEEECCcCCCe
Confidence 37887 998776553323235667 67754
No 133
>PHA02929 N1R/p28-like protein; Provisional
Probab=60.07 E-value=4.5 Score=40.12 Aligned_cols=38 Identities=21% Similarity=0.384 Sum_probs=21.8
Q ss_pred cccCCCCCCCCceecccCC-CCceeeecCCccccccccccC
Q 008382 229 TKWCPAPGCEHAIDFAAGS-GNFDVSCLCSYNFCWNCTEEA 268 (567)
Q Consensus 229 ~~~CP~~~C~~~i~~~~~~-~~~~v~C~C~~~fC~~C~~~~ 268 (567)
...||- |...+...... ....+.-.|+|.||..|...|
T Consensus 174 ~~eC~I--Cle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~W 212 (238)
T PHA02929 174 DKECAI--CMEKVYDKEIKNMYFGILSNCNHVFCIECIDIW 212 (238)
T ss_pred CCCCcc--CCcccccCccccccceecCCCCCcccHHHHHHH
Confidence 457887 76654321100 011234489999999996443
No 134
>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=59.50 E-value=6 Score=34.28 Aligned_cols=27 Identities=26% Similarity=0.680 Sum_probs=18.4
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (567)
+.||+|++..---.- +.++|. .||..|
T Consensus 10 R~Cp~CG~kFYDLnk-~PivCP-~CG~~~ 36 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNK-DPIVCP-KCGTEF 36 (108)
T ss_pred ccCCCCcchhccCCC-CCccCC-CCCCcc
Confidence 679999876653323 778886 676655
No 135
>PRK08665 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=58.77 E-value=6.1 Score=45.99 Aligned_cols=27 Identities=33% Similarity=1.134 Sum_probs=23.7
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchh
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFC 328 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FC 328 (567)
..||.|+..+...+||. +|. .||+.=|
T Consensus 725 ~~Cp~Cg~~l~~~~GC~--~C~-~CG~skC 751 (752)
T PRK08665 725 GACPECGSILEHEEGCV--VCH-SCGYSKC 751 (752)
T ss_pred CCCCCCCcccEECCCCC--cCC-CCCCCCC
Confidence 35999999999999998 798 8998766
No 136
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=58.69 E-value=5.7 Score=33.33 Aligned_cols=28 Identities=29% Similarity=0.905 Sum_probs=20.5
Q ss_pred cCCCCCCcce--eecCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPI--EKNQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~I--EK~~GCnhm~C~~~C~~~F 327 (567)
.-||.|+.++ ++.+-||...|+ .|.+.|
T Consensus 2 ~FCP~Cgn~Live~g~~~~rf~C~-tCpY~~ 31 (105)
T KOG2906|consen 2 LFCPTCGNMLIVESGESCNRFSCR-TCPYVF 31 (105)
T ss_pred cccCCCCCEEEEecCCeEeeEEcC-CCCcee
Confidence 3699998654 445559999998 787655
No 137
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=57.65 E-value=1.5e+02 Score=29.29 Aligned_cols=24 Identities=33% Similarity=0.851 Sum_probs=17.7
Q ss_pred CCCCccccCCCCc----cchhhccccccc
Q 008382 312 QGCMHMTCSPPCK----FEFCWLCLGAWS 336 (567)
Q Consensus 312 ~GCnhm~C~~~C~----~~FCw~C~~~~~ 336 (567)
..|.||+|. +|- ..+|.+|.....
T Consensus 21 TaC~HvfC~-~C~k~~~~~~C~lCkk~ir 48 (233)
T KOG4739|consen 21 TACRHVFCE-PCLKASSPDVCPLCKKSIR 48 (233)
T ss_pred eechhhhhh-hhcccCCccccccccceee
Confidence 569999998 563 448999987643
No 138
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=57.34 E-value=4.7 Score=34.03 Aligned_cols=33 Identities=33% Similarity=0.756 Sum_probs=25.7
Q ss_pred CCCCcccccccccccccCCeeecCCCCcccHhh
Q 008382 136 SNARELTCGICFDTYSCDKVVSAACGHPFCRAC 168 (567)
Q Consensus 136 ~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C 168 (567)
.....|+|.-||-......+..-.=|+.+|.+|
T Consensus 66 ~q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 66 KQADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 346689999999877666665555689999998
No 139
>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=56.27 E-value=6.9 Score=30.59 Aligned_cols=28 Identities=32% Similarity=0.795 Sum_probs=18.7
Q ss_pred cCcCCCCCCcceeecCCCCccccCCCCcc
Q 008382 297 NSKPCPKCKRPIEKNQGCMHMTCSPPCKF 325 (567)
Q Consensus 297 ntk~CPkC~~~IEK~~GCnhm~C~~~C~~ 325 (567)
.++.||.|+....+...=..++|. .||+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~-~Cg~ 54 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCP-NCGF 54 (69)
T ss_pred CccCccCcccccccccccceEEcC-CCCC
Confidence 368999999998873333346665 4544
No 140
>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family. Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.
Probab=55.59 E-value=8.9 Score=28.51 Aligned_cols=11 Identities=45% Similarity=0.927 Sum_probs=8.4
Q ss_pred cCCCCCCccee
Q 008382 299 KPCPKCKRPIE 309 (567)
Q Consensus 299 k~CPkC~~~IE 309 (567)
|+||.|+-.-+
T Consensus 2 kPCPfCGg~~~ 12 (53)
T TIGR03655 2 KPCPFCGGADV 12 (53)
T ss_pred CCCCCCCCcce
Confidence 89999975444
No 141
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=55.34 E-value=6.6 Score=45.52 Aligned_cols=52 Identities=19% Similarity=0.537 Sum_probs=36.8
Q ss_pred CCcccccccccccccC---Ce--eecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 138 ARELTCGICFDTYSCD---KV--VSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~---~~--~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
.+..+|+|||..+..- -| ....|.|.|...|+-.|+.+. + .-+|| -|+..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss---~----~s~CP--lCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS---A----RSNCP--LCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhc---C----CCCCC--ccccccc
Confidence 4577899999876421 11 123489999999999999874 2 45899 5876654
No 142
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=55.05 E-value=43 Score=26.02 Aligned_cols=40 Identities=13% Similarity=0.269 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHhCCCHHHHHHHHHHcCCChhhhHHhh
Q 008382 75 KCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAW 114 (567)
Q Consensus 75 ~~~~~~~i~~v~~il~i~~~~a~~LL~~~~W~~~~l~e~~ 114 (567)
...+.+.|..++...++...-+..+|...+||-++-+..|
T Consensus 9 ~~~q~~~v~~~~~~Tgmn~~~s~~cLe~~~Wd~~~Al~~F 48 (63)
T smart00804 9 SPEQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNF 48 (63)
T ss_pred CHHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 4567888999999999999999999999999999988776
No 143
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=55.04 E-value=7.6 Score=37.29 Aligned_cols=18 Identities=28% Similarity=0.783 Sum_probs=14.4
Q ss_pred CCcccCCCCCCCCceecc
Q 008382 227 RKTKWCPAPGCEHAIDFA 244 (567)
Q Consensus 227 ~~~~~CP~~~C~~~i~~~ 244 (567)
....-||.|+|.++|...
T Consensus 136 SqRIACPRpnCkRiInL~ 153 (275)
T KOG4684|consen 136 SQRIACPRPNCKRIINLD 153 (275)
T ss_pred cceeccCCCCcceeeecC
Confidence 345789999999998764
No 144
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=53.62 E-value=4.1e+02 Score=31.02 Aligned_cols=25 Identities=12% Similarity=0.027 Sum_probs=19.1
Q ss_pred hhhHHHHhHHHHHHhHHHHHHHHHH
Q 008382 454 KRQFFEYLQGEAESGLERLHQCAEK 478 (567)
Q Consensus 454 ~~~~fe~~Q~~le~~~e~L~~~le~ 478 (567)
+.+-..+.|+.|++.++.|...+..
T Consensus 601 R~e~a~d~Qe~L~~R~~~vl~~l~~ 625 (717)
T PF10168_consen 601 RYEEAKDKQEKLMKRVDRVLQLLNS 625 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5667777899999988888876643
No 145
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=53.36 E-value=12 Score=44.04 Aligned_cols=20 Identities=15% Similarity=0.247 Sum_probs=11.4
Q ss_pred HHHHHHHHcCCChhhhHHhh
Q 008382 95 DASILLRHYNWSVSKVHDAW 114 (567)
Q Consensus 95 ~a~~LL~~~~W~~~~l~e~~ 114 (567)
.+...+.||+-.+-.|+|-|
T Consensus 764 ~~~~~~~~Fk~RvlDLleiy 783 (784)
T PF04931_consen 764 EAKENVIHFKNRVLDLLEIY 783 (784)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 34555666666655555544
No 146
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=53.28 E-value=7.7 Score=39.86 Aligned_cols=50 Identities=24% Similarity=0.566 Sum_probs=34.1
Q ss_pred CCCcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 137 NARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
..+...|.||-... +-...+||+|..|..|--..-.-. . .-.|| .|+...
T Consensus 58 DEen~~C~ICA~~~--TYs~~~PC~H~~CH~Ca~RlRALY--~-----~K~C~--~CrTE~ 107 (493)
T COG5236 58 DEENMNCQICAGST--TYSARYPCGHQICHACAVRLRALY--M-----QKGCP--LCRTET 107 (493)
T ss_pred ccccceeEEecCCc--eEEEeccCCchHHHHHHHHHHHHH--h-----ccCCC--cccccc
Confidence 45578899999865 444568999999999976642221 1 34577 577643
No 147
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=53.28 E-value=12 Score=26.50 Aligned_cols=23 Identities=30% Similarity=1.040 Sum_probs=17.0
Q ss_pred cCCCCCCcceee-cCCCCccccCCCCc
Q 008382 299 KPCPKCKRPIEK-NQGCMHMTCSPPCK 324 (567)
Q Consensus 299 k~CPkC~~~IEK-~~GCnhm~C~~~C~ 324 (567)
..||.|+.|+-+ .+| .++|. .|+
T Consensus 18 ~~Cp~C~~PL~~~k~g--~~~Cv-~C~ 41 (41)
T PF06677_consen 18 EHCPDCGTPLMRDKDG--KIYCV-SCG 41 (41)
T ss_pred CccCCCCCeeEEecCC--CEECC-CCC
Confidence 689999999987 444 46776 563
No 148
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=52.23 E-value=11 Score=38.25 Aligned_cols=49 Identities=20% Similarity=0.466 Sum_probs=34.7
Q ss_pred ccccccccccccc-CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCc
Q 008382 140 ELTCGICFDTYSC-DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAA 196 (567)
Q Consensus 140 ~~~C~IC~e~~~~-~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~ 196 (567)
.|.||+=-+.-.. +.|+++.|||..-+.-+...-. +| .+.++|| -|+..
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~----nG--~~~FKCP--YCP~~ 385 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLECGHVISKEALSVLSQ----NG--VLSFKCP--YCPEM 385 (396)
T ss_pred eeeccccHhhhcccCCCeeeeccceeeHHHHHHHhh----cC--cEEeeCC--CCCcc
Confidence 5889995554332 4678899999998888776532 23 4689999 58654
No 149
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=51.93 E-value=9 Score=44.29 Aligned_cols=38 Identities=21% Similarity=0.384 Sum_probs=32.0
Q ss_pred CcccccccccccccCCeeecCCCCcccHhhHHHHHHhh
Q 008382 139 RELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISAT 176 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~ 176 (567)
+.-.|.+|...+....++..+|||.|..+|+...+..-
T Consensus 816 p~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~~ 853 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLSL 853 (911)
T ss_pred CccchHHhcchhhcCcceeeeccchHHHHHHHHHHHcc
Confidence 35679999998877777888999999999999987543
No 150
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=51.36 E-value=12 Score=25.29 Aligned_cols=28 Identities=25% Similarity=0.771 Sum_probs=14.0
Q ss_pred ccCCCCCCCCceeccc--CCCCceeee-cCCcc
Q 008382 230 KWCPAPGCEHAIDFAA--GSGNFDVSC-LCSYN 259 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~--~~~~~~v~C-~C~~~ 259 (567)
++||. |+..+.... ++......| .|++.
T Consensus 1 kfC~~--CG~~l~~~ip~gd~r~R~vC~~Cg~I 31 (34)
T PF14803_consen 1 KFCPQ--CGGPLERRIPEGDDRERLVCPACGFI 31 (34)
T ss_dssp -B-TT--T--B-EEE--TT-SS-EEEETTTTEE
T ss_pred Ccccc--ccChhhhhcCCCCCccceECCCCCCE
Confidence 47988 998876643 345567788 78754
No 151
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=50.72 E-value=15 Score=39.30 Aligned_cols=11 Identities=18% Similarity=0.839 Sum_probs=6.8
Q ss_pred cCCCCcccccc
Q 008382 135 FSNARELTCGI 145 (567)
Q Consensus 135 ~~~~~~~~C~I 145 (567)
.|.+.-|.|+.
T Consensus 189 LPDSTDFVCGT 199 (458)
T PF10446_consen 189 LPDSTDFVCGT 199 (458)
T ss_pred CCCcccccCCC
Confidence 34556677765
No 152
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=50.55 E-value=14 Score=36.77 Aligned_cols=48 Identities=23% Similarity=0.415 Sum_probs=35.9
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCC
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCA 195 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~ 195 (567)
.+.|||=+-.+. ..+++-.|||.|=++=+..++... ..++||..+|..
T Consensus 176 s~rdPis~~~I~-nPviSkkC~HvydrDsI~~~l~~~-------~~i~CPv~gC~~ 223 (262)
T KOG2979|consen 176 SNRDPISKKPIV-NPVISKKCGHVYDRDSIMQILCDE-------ITIRCPVLGCEN 223 (262)
T ss_pred cccCchhhhhhh-chhhhcCcCcchhhhhHHHHhccC-------ceeecccccCCc
Confidence 467888655441 445567899999999999987542 379999999983
No 153
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=50.15 E-value=4.5 Score=41.52 Aligned_cols=28 Identities=18% Similarity=0.571 Sum_probs=21.4
Q ss_pred cCCCCCCcceee-cCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEK-NQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK-~~GCnhm~C~~~C~~~F 327 (567)
..||+|+..|-+ .-.=|.+.|. .|+++|
T Consensus 28 ~~c~~c~~~~~~~~l~~~~~vc~-~c~~h~ 56 (292)
T PRK05654 28 TKCPSCGQVLYRKELEANLNVCP-KCGHHM 56 (292)
T ss_pred eECCCccchhhHHHHHhcCCCCC-CCCCCe
Confidence 889999888764 3445667897 899887
No 154
>PRK04023 DNA polymerase II large subunit; Validated
Probab=49.65 E-value=14 Score=43.51 Aligned_cols=32 Identities=28% Similarity=0.682 Sum_probs=21.1
Q ss_pred CCcccCCCCCCCCceecccCCCCceeee-cCCc-----cccccccccC
Q 008382 227 RKTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSY-----NFCWNCTEEA 268 (567)
Q Consensus 227 ~~~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~-----~fC~~C~~~~ 268 (567)
...+.||. |+... ....| .||. .||..|+...
T Consensus 624 Vg~RfCps--CG~~t--------~~frCP~CG~~Te~i~fCP~CG~~~ 661 (1121)
T PRK04023 624 IGRRKCPS--CGKET--------FYRRCPFCGTHTEPVYRCPRCGIEV 661 (1121)
T ss_pred ccCccCCC--CCCcC--------CcccCCCCCCCCCcceeCccccCcC
Confidence 45678988 87542 33578 7874 4788886543
No 155
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=49.31 E-value=8 Score=28.68 Aligned_cols=22 Identities=27% Similarity=0.708 Sum_probs=13.7
Q ss_pred ceeee-cCCccccccccccCCCC
Q 008382 250 FDVSC-LCSYNFCWNCTEEAHRP 271 (567)
Q Consensus 250 ~~v~C-~C~~~fC~~C~~~~H~p 271 (567)
....| .|+..||..|-.-.|..
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~ 42 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHET 42 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTT
T ss_pred CeEECCCCCCccccCcChhhhcc
Confidence 56789 99999999998777754
No 156
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=49.13 E-value=10 Score=32.35 Aligned_cols=25 Identities=32% Similarity=0.781 Sum_probs=18.4
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (567)
+.||+|+.++...+ +.+.|. .|++.
T Consensus 1 ~fC~~Cg~~l~~~~--~~~~C~-~C~~~ 25 (104)
T TIGR01384 1 KFCPKCGSLMTPKN--GVYVCP-SCGYE 25 (104)
T ss_pred CCCcccCcccccCC--CeEECc-CCCCc
Confidence 36999999887554 378887 77765
No 157
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=48.90 E-value=11 Score=30.95 Aligned_cols=28 Identities=29% Similarity=0.587 Sum_probs=21.6
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (567)
-.||.|++..-|..+=--=.|+ .||+.|
T Consensus 36 ~~Cp~C~~~~VkR~a~GIW~C~-kCg~~f 63 (89)
T COG1997 36 HVCPFCGRTTVKRIATGIWKCR-KCGAKF 63 (89)
T ss_pred CcCCCCCCcceeeeccCeEEcC-CCCCee
Confidence 4799999998888777666777 676654
No 158
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=48.67 E-value=6.4 Score=39.53 Aligned_cols=31 Identities=29% Similarity=0.777 Sum_probs=23.8
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhccccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWS 336 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~ 336 (567)
-+|--|.-.|. +-|...|||-||++|...+-
T Consensus 26 lrC~IC~~~i~-------ip~~TtCgHtFCslCIR~hL 56 (391)
T COG5432 26 LRCRICDCRIS-------IPCETTCGHTFCSLCIRRHL 56 (391)
T ss_pred HHhhhhhheee-------cceecccccchhHHHHHHHh
Confidence 47888877776 66754799999999976543
No 159
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.59 E-value=7.5 Score=40.38 Aligned_cols=42 Identities=29% Similarity=0.673 Sum_probs=29.2
Q ss_pred cccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 140 ELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
...|.||.+.. .+.+.+||||.-| |..-+- ....|| -|+..|
T Consensus 305 p~lcVVcl~e~--~~~~fvpcGh~cc--ct~cs~----------~l~~CP--vCR~rI 346 (355)
T KOG1571|consen 305 PDLCVVCLDEP--KSAVFVPCGHVCC--CTLCSK----------HLPQCP--VCRQRI 346 (355)
T ss_pred CCceEEecCCc--cceeeecCCcEEE--chHHHh----------hCCCCc--hhHHHH
Confidence 56799999976 6688899999866 544331 134599 576544
No 160
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=48.28 E-value=30 Score=40.96 Aligned_cols=19 Identities=5% Similarity=0.156 Sum_probs=11.0
Q ss_pred CcccceEE---ecHHHHHHHHH
Q 008382 61 RQQHSYTV---LREADIKCQQE 79 (567)
Q Consensus 61 ~~~~~y~v---l~~~~i~~~~~ 79 (567)
....+|++ -|.+++...+.
T Consensus 415 ~~elPftf~~P~s~eel~~lL~ 436 (840)
T PF04147_consen 415 KSELPFTFPCPSSHEELLELLD 436 (840)
T ss_pred ccCCCceecCCCCHHHHHHHHh
Confidence 44567774 56666655544
No 161
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.11 E-value=13 Score=36.68 Aligned_cols=36 Identities=22% Similarity=0.255 Sum_probs=30.1
Q ss_pred ccccccccccccCCeeecCCCCcccHhhHHHHHHhhhc
Q 008382 141 LTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVN 178 (567)
Q Consensus 141 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~ 178 (567)
--|+.|+..+ .+|+..+=||.||+.||-+||..+-+
T Consensus 44 dcCsLtLqPc--~dPvit~~GylfdrEaILe~ilaqKk 79 (303)
T KOG3039|consen 44 DCCSLTLQPC--RDPVITPDGYLFDREAILEYILAQKK 79 (303)
T ss_pred ceeeeecccc--cCCccCCCCeeeeHHHHHHHHHHHHH
Confidence 4588888866 78888899999999999999977643
No 162
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=48.00 E-value=53 Score=22.07 Aligned_cols=34 Identities=21% Similarity=0.273 Sum_probs=26.6
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHHcCCChhhhHHhh
Q 008382 80 DDITKVSTVLSISRVDASILLRHYNWSVSKVHDAW 114 (567)
Q Consensus 80 ~~i~~v~~il~i~~~~a~~LL~~~~W~~~~l~e~~ 114 (567)
+.|..+.+ ++.+...+...|...+||+++..+-+
T Consensus 3 ~~v~~L~~-mGf~~~~~~~AL~~~~~d~~~A~~~L 36 (38)
T cd00194 3 EKLEQLLE-MGFSREEARKALRATNNNVERAVEWL 36 (38)
T ss_pred HHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHH
Confidence 34555555 48999999999999999998877643
No 163
>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=47.89 E-value=2.2e+02 Score=31.59 Aligned_cols=29 Identities=24% Similarity=0.457 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccc
Q 008382 494 NDFRTKLAGLTSVTKNYFENLVRALENGLADVDSHAA 530 (567)
Q Consensus 494 ~~~~~~~~~l~~~~~~~~~~~~~~~e~~l~~~~~~~~ 530 (567)
.+|++.| .|....+++|.+||+-++....
T Consensus 658 rdFk~El--------q~~~~~~~~L~~~iET~~~~~~ 686 (741)
T KOG4460|consen 658 RDFKKEL--------QLIPDQLRHLGNAIETVTMKKD 686 (741)
T ss_pred HHHHHHH--------HHhHHHHHHHHHHHHHHHHHHH
Confidence 4566666 3445556666667766654443
No 164
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=47.82 E-value=13 Score=28.77 Aligned_cols=28 Identities=36% Similarity=0.781 Sum_probs=16.9
Q ss_pred cCcCCCCCCcceee---cCCCCccccCCCCcc
Q 008382 297 NSKPCPKCKRPIEK---NQGCMHMTCSPPCKF 325 (567)
Q Consensus 297 ntk~CPkC~~~IEK---~~GCnhm~C~~~C~~ 325 (567)
+.|+||-|+..+.. .+|=-...|. +|+.
T Consensus 5 ~lKPCPFCG~~~~~v~~~~g~~~v~C~-~CgA 35 (64)
T PRK09710 5 NVKPCPFCGCPSVTVKAISGYYRAKCN-GCES 35 (64)
T ss_pred cccCCCCCCCceeEEEecCceEEEEcC-CCCc
Confidence 45999999876553 3443334555 4544
No 165
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=47.69 E-value=16 Score=44.26 Aligned_cols=9 Identities=33% Similarity=1.173 Sum_probs=5.8
Q ss_pred ccCCCCCCCCc
Q 008382 230 KWCPAPGCEHA 240 (567)
Q Consensus 230 ~~CP~~~C~~~ 240 (567)
..||. |+..
T Consensus 668 rkCPk--CG~~ 676 (1337)
T PRK14714 668 RRCPS--CGTE 676 (1337)
T ss_pred EECCC--CCCc
Confidence 57776 7653
No 166
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.57 E-value=12 Score=43.12 Aligned_cols=40 Identities=30% Similarity=0.708 Sum_probs=30.1
Q ss_pred ccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCC
Q 008382 141 LTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCA 195 (567)
Q Consensus 141 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~ 195 (567)
-.|..|--.+. -.+|...|||.|...|+. ++ .-.|| .|..
T Consensus 841 skCs~C~~~Ld-lP~VhF~CgHsyHqhC~e--------~~----~~~CP--~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLD-LPFVHFLCGHSYHQHCLE--------DK----EDKCP--KCLP 880 (933)
T ss_pred eeecccCCccc-cceeeeecccHHHHHhhc--------cC----cccCC--ccch
Confidence 47999987652 345667899999999998 33 46899 5865
No 167
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.17 E-value=9.1 Score=38.43 Aligned_cols=25 Identities=24% Similarity=0.543 Sum_probs=19.3
Q ss_pred CCCCCCcceeecCCCCccccCCCCccchhhccc
Q 008382 300 PCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCL 332 (567)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~ 332 (567)
.|+.+... .+++|. .|....|+.|.
T Consensus 88 ~c~~~~~~-------~~~~c~-~~~~~~c~~c~ 112 (386)
T KOG2177|consen 88 LCEKHGEE-------LKLFCE-EDEKLLCVLCR 112 (386)
T ss_pred hhhhcCCc-------ceEEec-ccccccCCCCC
Confidence 45555554 558998 89999999996
No 168
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=46.89 E-value=4.3e+02 Score=29.07 Aligned_cols=40 Identities=15% Similarity=0.519 Sum_probs=25.6
Q ss_pred cccccccccccc--cCCeeec-CCCCcccHhhHHHHHHhhhcC
Q 008382 140 ELTCGICFDTYS--CDKVVSA-ACGHPFCRACWRGYISATVND 179 (567)
Q Consensus 140 ~~~C~IC~e~~~--~~~~~~l-~CgH~fC~~Cl~~y~~~~i~~ 179 (567)
-..|.||+..-. ..+++.. .||-.....|+.-.=...|..
T Consensus 119 ~~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s 161 (707)
T KOG0957|consen 119 AVICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPS 161 (707)
T ss_pred ceEEEEeecCccccccceeeccccCceecccccccccccccCC
Confidence 358999997642 2455544 588888888877653344433
No 169
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=46.06 E-value=14 Score=42.81 Aligned_cols=35 Identities=23% Similarity=0.722 Sum_probs=28.5
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccc-----hhhccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFE-----FCWLCLGA 334 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~-----FCw~C~~~ 334 (567)
-.||+|..++.-...=|.|.|. .||+. .|..|+..
T Consensus 445 ~~Cp~Cd~~lt~H~~~~~L~CH-~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 445 AECPNCDSPLTLHKATGQLRCH-YCGYQEPIPQSCPECGSE 484 (730)
T ss_pred ccCCCCCcceEEecCCCeeEeC-CCCCCCCCCCCCCCCCCC
Confidence 4688888877766666889998 89987 89999886
No 170
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=44.84 E-value=6 Score=40.42 Aligned_cols=28 Identities=21% Similarity=0.565 Sum_probs=20.3
Q ss_pred cCCCCCCcceeec-CCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEKN-QGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK~-~GCnhm~C~~~C~~~F 327 (567)
..||+|+..|-+. -.=|.+.|. .|+|+|
T Consensus 27 ~~c~~c~~~~~~~~l~~~~~vc~-~c~~h~ 55 (285)
T TIGR00515 27 TKCPKCGQVLYTKELERNLEVCP-KCDHHM 55 (285)
T ss_pred eECCCCcchhhHHHHHhhCCCCC-CCCCcC
Confidence 7899998887753 344557786 788875
No 171
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=44.59 E-value=59 Score=21.71 Aligned_cols=31 Identities=26% Similarity=0.303 Sum_probs=24.5
Q ss_pred HHHHHHHHhCCCHHHHHHHHHHcCCChhhhHH
Q 008382 81 DITKVSTVLSISRVDASILLRHYNWSVSKVHD 112 (567)
Q Consensus 81 ~i~~v~~il~i~~~~a~~LL~~~~W~~~~l~e 112 (567)
.|.++.++ +.+...|...|...+||+++..+
T Consensus 4 ~v~~L~~m-Gf~~~~a~~aL~~~~~d~~~A~~ 34 (37)
T smart00165 4 KIDQLLEM-GFSREEALKALRAANGNVERAAE 34 (37)
T ss_pred HHHHHHHc-CCCHHHHHHHHHHhCCCHHHHHH
Confidence 44555444 89999999999999999887755
No 172
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=43.57 E-value=17 Score=41.95 Aligned_cols=51 Identities=25% Similarity=0.511 Sum_probs=37.2
Q ss_pred CCcccccccccccccCCe-eec-CCCCcccHhhHHHHHHhhhcCCCCccccccCC
Q 008382 138 ARELTCGICFDTYSCDKV-VSA-ACGHPFCRACWRGYISATVNDGPGCLMLRCPD 190 (567)
Q Consensus 138 ~~~~~C~IC~e~~~~~~~-~~l-~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~ 190 (567)
...+.|.||++.+....+ .+. .|-|.|-..||+.|....-.++. ..-+||.
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~--~~WrCP~ 241 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQ--DGWRCPA 241 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccC--ccccCCc
Confidence 457899999998755443 332 48899999999999988444443 3678884
No 173
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=43.33 E-value=6.3 Score=40.33 Aligned_cols=28 Identities=18% Similarity=0.427 Sum_probs=15.8
Q ss_pred cCCCCCCcceeec-CCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEKN-QGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK~-~GCnhm~C~~~C~~~F 327 (567)
.+||+|+..|-+. -.=|...|. .|+|+|
T Consensus 39 ~kc~~C~~~~~~~~l~~~~~vcp-~c~~h~ 67 (296)
T CHL00174 39 VQCENCYGLNYKKFLKSKMNICE-QCGYHL 67 (296)
T ss_pred eECCCccchhhHHHHHHcCCCCC-CCCCCc
Confidence 5677776666532 334445665 566644
No 174
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=42.79 E-value=5.9 Score=30.31 Aligned_cols=11 Identities=55% Similarity=1.322 Sum_probs=9.9
Q ss_pred cCCCCCCccee
Q 008382 299 KPCPKCKRPIE 309 (567)
Q Consensus 299 k~CPkC~~~IE 309 (567)
|-||.|+.+|.
T Consensus 4 kHC~~CG~~Ip 14 (59)
T PF09889_consen 4 KHCPVCGKPIP 14 (59)
T ss_pred CcCCcCCCcCC
Confidence 78999999998
No 175
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=42.70 E-value=10 Score=26.54 Aligned_cols=31 Identities=29% Similarity=0.708 Sum_probs=19.2
Q ss_pred CCCCCCcceeecCCCCccccCCCCccchhhcccccccc
Q 008382 300 PCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSD 337 (567)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~ 337 (567)
.||+|+..++...- . .=....|-.|++.|-+
T Consensus 1 ~CP~C~~~l~~~~~-~------~~~id~C~~C~G~W~d 31 (41)
T PF13453_consen 1 KCPRCGTELEPVRL-G------DVEIDVCPSCGGIWFD 31 (41)
T ss_pred CcCCCCcccceEEE-C------CEEEEECCCCCeEEcc
Confidence 59999998775433 1 2223346677777754
No 176
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=42.21 E-value=19 Score=30.99 Aligned_cols=27 Identities=33% Similarity=1.004 Sum_probs=17.0
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (567)
-+||+|..-.-=..|=+ +.|. .|+|+|
T Consensus 3 p~CP~C~seytY~dg~~-~iCp-eC~~EW 29 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQ-LICP-SCLYEW 29 (109)
T ss_pred CcCCcCCCcceEecCCe-eECc-cccccc
Confidence 57999987655445544 5565 565543
No 177
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.03 E-value=11 Score=33.49 Aligned_cols=36 Identities=36% Similarity=0.773 Sum_probs=25.3
Q ss_pred CCCCCCcceeecCCCCccccCCCCccchhhccccccccC
Q 008382 300 PCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDH 338 (567)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~H 338 (567)
.|--|.+. .=.+||.|. |. .|...||-+||+...--
T Consensus 67 tC~IC~KT-KFADG~GH~-C~-YCq~r~CARCGGrv~lr 102 (169)
T KOG3799|consen 67 TCGICHKT-KFADGCGHN-CS-YCQTRFCARCGGRVSLR 102 (169)
T ss_pred chhhhhhc-ccccccCcc-cc-hhhhhHHHhcCCeeeec
Confidence 34444432 125899985 87 89999999999875543
No 178
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=41.87 E-value=15 Score=26.92 Aligned_cols=26 Identities=19% Similarity=0.600 Sum_probs=12.7
Q ss_pred cCCCCCCcceeecCCCCccccCCCCcc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKF 325 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~ 325 (567)
+.||+|+--+.-..-=+...|. +||+
T Consensus 20 ~~CPrCG~gvfmA~H~dR~~CG-kCgy 45 (51)
T COG1998 20 RFCPRCGPGVFMADHKDRWACG-KCGY 45 (51)
T ss_pred ccCCCCCCcchhhhcCceeEec-cccc
Confidence 6788888433211111234555 5553
No 179
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=41.77 E-value=28 Score=26.12 Aligned_cols=33 Identities=30% Similarity=0.891 Sum_probs=26.4
Q ss_pred cccccccccccc-cCCeeecC-CCCcccHhhHHHH
Q 008382 140 ELTCGICFDTYS-CDKVVSAA-CGHPFCRACWRGY 172 (567)
Q Consensus 140 ~~~C~IC~e~~~-~~~~~~l~-CgH~fC~~Cl~~y 172 (567)
...|++|-+.+. .++++.-+ ||-.|-++||...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 456999999885 56777765 9999999999763
No 180
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=41.45 E-value=45 Score=39.31 Aligned_cols=42 Identities=19% Similarity=0.073 Sum_probs=22.1
Q ss_pred EEecHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHcCCChhhhH
Q 008382 67 TVLREADIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVH 111 (567)
Q Consensus 67 ~vl~~~~i~~~~~~~i~~v~~il~i~~~~a~~LL~~~~W~~~~l~ 111 (567)
++|+.-|......+.+..++ .-++.....|+++-.-...+.+
T Consensus 953 t~LD~VD~f~~f~~~i~~lq---~~d~~~yq~l~~~L~~~q~~~l 994 (1010)
T KOG1991|consen 953 TPLDQVDPFQLFKEAITNLQ---SSDAVRYQKLISTLTPEQQDSL 994 (1010)
T ss_pred CcccccchHHHHHHHHHhhh---ccChHHHHHHHhcCCHHHHHHH
Confidence 34666666666666555443 3345555666665443333333
No 181
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=41.10 E-value=16 Score=32.62 Aligned_cols=23 Identities=39% Similarity=0.804 Sum_probs=18.6
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCL 332 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~ 332 (567)
+.||.|+.|+.+ +-|.-||-+|+
T Consensus 29 ~hCp~Cg~PLF~-----------KdG~v~CPvC~ 51 (131)
T COG1645 29 KHCPKCGTPLFR-----------KDGEVFCPVCG 51 (131)
T ss_pred hhCcccCCccee-----------eCCeEECCCCC
Confidence 789999999873 37777888886
No 182
>PF14149 YhfH: YhfH-like protein
Probab=41.09 E-value=2.6 Score=28.90 Aligned_cols=25 Identities=32% Similarity=0.894 Sum_probs=21.3
Q ss_pred CcCCCCCCcceeecCCCCccccCCCC
Q 008382 298 SKPCPKCKRPIEKNQGCMHMTCSPPC 323 (567)
Q Consensus 298 tk~CPkC~~~IEK~~GCnhm~C~~~C 323 (567)
.|.||.|+..|+-..-|..++|. .|
T Consensus 13 ~K~C~~CG~~i~EQ~E~Y~n~C~-~C 37 (37)
T PF14149_consen 13 PKKCTECGKEIEEQAECYGNECD-RC 37 (37)
T ss_pred CcccHHHHHHHHHHHHHHhCcCC-CC
Confidence 59999999999988888888886 55
No 183
>PF07417 Crl: Transcriptional regulator Crl; InterPro: IPR009986 This family contains the bacterial transcriptional regulator Crl (approximately 130 residues long). This is a transcriptional regulator of the csgA curlin subunit gene for curli fibres that are found on the surface of certain bacteria [].These proteins bind to the sigma-S subunit of RNA polymerase, activating expression of sigma-S-regulated genes. They also stimulate RNA polymerase holoenzyme formation and may bind to several other sigma factors, such as sigma-70 and sigma-32.; GO: 0016987 sigma factor activity, 0045893 positive regulation of transcription, DNA-dependent, 0005737 cytoplasm; PDB: 3RPJ_A.
Probab=40.83 E-value=51 Score=29.13 Aligned_cols=47 Identities=23% Similarity=0.328 Sum_probs=29.1
Q ss_pred HhcccceeecccCccchhhhhHHHHhHHHHHHhHHHHHHHHHHHHHH
Q 008382 436 VLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQ 482 (567)
Q Consensus 436 ~L~~sy~~~yy~~~~~~~~~~~fe~~Q~~le~~~e~L~~~le~~~~~ 482 (567)
...|+|-+|.|-...+=....|=...|.++++.++..++.|..-|.+
T Consensus 64 ~F~y~Y~~Glydk~G~W~~~~i~~~~~~~v~~Tl~~Fh~kL~~~L~~ 110 (125)
T PF07417_consen 64 GFEYRYQFGLYDKEGNWQAEKIKKEVQEEVERTLRDFHQKLVELLEE 110 (125)
T ss_dssp EEEEEEEEEEE-TTS-EES----HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cEEEEEeeccccCCCCeeecCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678888989754432233344777888888888888777766665
No 184
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=40.74 E-value=19 Score=30.72 Aligned_cols=27 Identities=22% Similarity=0.630 Sum_probs=16.6
Q ss_pred cCCCCCCcce---eecCCCCccccCCCCccc
Q 008382 299 KPCPKCKRPI---EKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPkC~~~I---EK~~GCnhm~C~~~C~~~ 326 (567)
-.||+|+... ....|=-|..|. .||+.
T Consensus 22 f~CP~Cge~~v~v~~~k~~~h~~C~-~CG~y 51 (99)
T PRK14892 22 FECPRCGKVSISVKIKKNIAIITCG-NCGLY 51 (99)
T ss_pred eECCCCCCeEeeeecCCCcceEECC-CCCCc
Confidence 5799998322 223355577787 67654
No 185
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=40.71 E-value=19 Score=36.48 Aligned_cols=25 Identities=40% Similarity=0.965 Sum_probs=21.1
Q ss_pred cCCCCCCcceeec--CCCCccccCCCCc
Q 008382 299 KPCPKCKRPIEKN--QGCMHMTCSPPCK 324 (567)
Q Consensus 299 k~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (567)
++|+.|+.+|+|. +|=+-.+|. .|+
T Consensus 246 epC~~CGt~I~k~~~~gR~t~~CP-~CQ 272 (273)
T COG0266 246 EPCRRCGTPIEKIKLGGRSTFYCP-VCQ 272 (273)
T ss_pred CCCCccCCEeEEEEEcCCcCEeCC-CCC
Confidence 7999999999975 787778886 776
No 186
>PF12773 DZR: Double zinc ribbon
Probab=40.27 E-value=14 Score=26.74 Aligned_cols=11 Identities=45% Similarity=1.186 Sum_probs=6.8
Q ss_pred cCCCCCCccee
Q 008382 299 KPCPKCKRPIE 309 (567)
Q Consensus 299 k~CPkC~~~IE 309 (567)
+.||.|+.++.
T Consensus 13 ~fC~~CG~~l~ 23 (50)
T PF12773_consen 13 KFCPHCGTPLP 23 (50)
T ss_pred cCChhhcCChh
Confidence 56666666655
No 187
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=40.21 E-value=22 Score=29.99 Aligned_cols=28 Identities=29% Similarity=0.769 Sum_probs=17.3
Q ss_pred ccCCCCCCCCceecccCCCCceeee-cCCcc
Q 008382 230 KWCPAPGCEHAIDFAAGSGNFDVSC-LCSYN 259 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~ 259 (567)
.+||. |++.+.+..+.....+.| .|.+.
T Consensus 2 ~FCP~--Cgn~Live~g~~~~rf~C~tCpY~ 30 (105)
T KOG2906|consen 2 LFCPT--CGNMLIVESGESCNRFSCRTCPYV 30 (105)
T ss_pred cccCC--CCCEEEEecCCeEeeEEcCCCCce
Confidence 47988 998877764443445555 55443
No 188
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.75 E-value=18 Score=29.16 Aligned_cols=35 Identities=31% Similarity=0.797 Sum_probs=26.1
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhccccccccCCC
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHGE 340 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~H~~ 340 (567)
..||.|++.+. |.=+..=-...|-.|.+.|-+.|.
T Consensus 2 llCP~C~v~l~-------~~~rs~vEiD~CPrCrGVWLDrGE 36 (88)
T COG3809 2 LLCPICGVELV-------MSVRSGVEIDYCPRCRGVWLDRGE 36 (88)
T ss_pred cccCcCCceee-------eeeecCceeeeCCccccEeecchh
Confidence 57999999887 655523455678999999987663
No 189
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=39.43 E-value=6.1 Score=28.89 Aligned_cols=34 Identities=21% Similarity=0.721 Sum_probs=27.0
Q ss_pred CcccccccccccccCCeeec-CCCCcccHhhHHHH
Q 008382 139 RELTCGICFDTYSCDKVVSA-ACGHPFCRACWRGY 172 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~Cl~~y 172 (567)
..++|..|-+.++..+.... -||..-|..||+.-
T Consensus 6 sry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~de 40 (57)
T PF14445_consen 6 SRYSCDLCNSSHPISELRQCVLCGRWACNSCWQDE 40 (57)
T ss_pred hhHhHHhhcccCcHHHHHHHhhhchhhhhhhhhhh
Confidence 36789999998876666554 49999999999863
No 190
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.41 E-value=11 Score=40.19 Aligned_cols=32 Identities=25% Similarity=0.656 Sum_probs=23.7
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhcccccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSD 337 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~ 337 (567)
-.||-|...+. +.+. . .|+|.||..|...|..
T Consensus 27 l~C~IC~d~~~-----~Pvi-t-pCgH~FCs~CI~~~l~ 58 (397)
T TIGR00599 27 LRCHICKDFFD-----VPVL-T-SCSHTFCSLCIRRCLS 58 (397)
T ss_pred cCCCcCchhhh-----CccC-C-CCCCchhHHHHHHHHh
Confidence 58999987764 3332 4 6999999999987654
No 191
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=39.38 E-value=9 Score=38.89 Aligned_cols=53 Identities=25% Similarity=0.725 Sum_probs=38.0
Q ss_pred CCCcccCCCCCCCCceecccCCCCceeee-cCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHHHHHhcCcCCCCC
Q 008382 226 NRKTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKC 304 (567)
Q Consensus 226 ~~~~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntk~CPkC 304 (567)
++.+-+|-. |+..|..- + .= .|++.||..|... |. . |.||.|
T Consensus 87 ~p~VHfCd~--Cd~PI~IY-G------RmIPCkHvFCl~CAr~-~~------------------d---------K~Cp~C 129 (389)
T KOG2932|consen 87 GPRVHFCDR--CDFPIAIY-G------RMIPCKHVFCLECARS-DS------------------D---------KICPLC 129 (389)
T ss_pred CcceEeecc--cCCcceee-e------cccccchhhhhhhhhc-Cc------------------c---------ccCcCc
Confidence 456778877 88776532 1 12 6999999999632 21 1 899999
Q ss_pred CcceeecCCCC
Q 008382 305 KRPIEKNQGCM 315 (567)
Q Consensus 305 ~~~IEK~~GCn 315 (567)
.-.|.|.+-|.
T Consensus 130 ~d~VqrIeq~~ 140 (389)
T KOG2932|consen 130 DDRVQRIEQIM 140 (389)
T ss_pred ccHHHHHHHhc
Confidence 99999887774
No 192
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=39.23 E-value=22 Score=36.04 Aligned_cols=48 Identities=25% Similarity=0.606 Sum_probs=35.4
Q ss_pred CCCccccccccccccc--CCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCC
Q 008382 137 NARELTCGICFDTYSC--DKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCA 195 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~--~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~ 195 (567)
......||||.+.+.. ..+..++|||..-..|++.++-. .++|| -|..
T Consensus 155 ~~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~---------~y~CP--~C~~ 204 (276)
T KOG1940|consen 155 RSSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE---------GYTCP--ICSK 204 (276)
T ss_pred hcccCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc---------CCCCC--cccc
Confidence 3446679999987533 35567899999889999998632 37899 4766
No 193
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=38.48 E-value=22 Score=31.03 Aligned_cols=26 Identities=31% Similarity=0.825 Sum_probs=19.5
Q ss_pred cCCCCCCcceee----cCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEK----NQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK----~~GCnhm~C~~~C~~~F 327 (567)
+-||+|+.++.- .++ -+.|+ +||+++
T Consensus 3 ~FCp~Cgsll~p~~~~~~~--~l~C~-kCgye~ 32 (113)
T COG1594 3 RFCPKCGSLLYPKKDDEGG--KLVCR-KCGYEE 32 (113)
T ss_pred cccCCccCeeEEeEcCCCc--EEECC-CCCcch
Confidence 679999988774 344 67798 787765
No 194
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.37 E-value=13 Score=40.47 Aligned_cols=29 Identities=28% Similarity=0.697 Sum_probs=19.9
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGA 334 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (567)
-.||-|-.+-. .-++..|||-|||-|+-.
T Consensus 187 ~~CPICL~~~~-------~p~~t~CGHiFC~~CiLq 215 (513)
T KOG2164|consen 187 MQCPICLEPPS-------VPVRTNCGHIFCGPCILQ 215 (513)
T ss_pred CcCCcccCCCC-------cccccccCceeeHHHHHH
Confidence 68999977655 223225888888888754
No 195
>cd07662 BAR_SNX6 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 6. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX6 forms a stable complex with SNX1 and may be a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. It interacts with the receptor serine/threonine kinases from the transforming growth factor-beta family. It also plays
Probab=38.33 E-value=4e+02 Score=26.17 Aligned_cols=60 Identities=22% Similarity=0.316 Sum_probs=43.0
Q ss_pred HHHhHHHHHHhHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Q 008382 458 FEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGL 522 (567)
Q Consensus 458 fe~~Q~~le~~~e~L~~~le~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~e~~l 522 (567)
-|..|.+++...|++|..+.+|+..|-. .++..||.-|+.+.-.--.+.++-+..|.+-|
T Consensus 155 aE~~~~~a~~~Fe~IS~~aK~El~rF~~-----~Rv~~Fkk~Lv~y~E~~lkhak~~~~~~~~~~ 214 (218)
T cd07662 155 AETTQQLCCQKFEKISESAKQELIDFKT-----RRVAAFRKNLVELAELELKHAKGNLQLLQSCL 214 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3778999999999999999999987743 45667777777666555555555555554433
No 196
>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=38.05 E-value=21 Score=31.61 Aligned_cols=26 Identities=8% Similarity=0.043 Sum_probs=17.6
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (567)
+.||+|++..---.- ..++|. .||..
T Consensus 10 r~Cp~cg~kFYDLnk-~p~vcP-~cg~~ 35 (129)
T TIGR02300 10 RICPNTGSKFYDLNR-RPAVSP-YTGEQ 35 (129)
T ss_pred ccCCCcCccccccCC-CCccCC-CcCCc
Confidence 679999876553222 668886 67665
No 197
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=37.92 E-value=93 Score=21.64 Aligned_cols=36 Identities=17% Similarity=0.252 Sum_probs=28.7
Q ss_pred HHHHHHHHHh-CCCHHHHHHHHHHcCCChhhhHHhhh
Q 008382 80 DDITKVSTVL-SISRVDASILLRHYNWSVSKVHDAWF 115 (567)
Q Consensus 80 ~~i~~v~~il-~i~~~~a~~LL~~~~W~~~~l~e~~~ 115 (567)
+.|..+.+++ +++++.....|..+++|++...+...
T Consensus 3 ~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL 39 (42)
T PF02845_consen 3 EMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALL 39 (42)
T ss_dssp HHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHH
T ss_pred HHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 5677777776 46889999999999999999887653
No 198
>PRK11827 hypothetical protein; Provisional
Probab=37.91 E-value=24 Score=27.10 Aligned_cols=25 Identities=24% Similarity=0.456 Sum_probs=18.0
Q ss_pred cCCCCCCcceeecCCCCccccCCCCc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCK 324 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~ 324 (567)
-.||.|+.+++-..+=+...|. .|+
T Consensus 9 LaCP~ckg~L~~~~~~~~Lic~-~~~ 33 (60)
T PRK11827 9 IACPVCNGKLWYNQEKQELICK-LDN 33 (60)
T ss_pred eECCCCCCcCeEcCCCCeEECC-ccC
Confidence 5799999988865554567776 554
No 199
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=37.87 E-value=19 Score=29.18 Aligned_cols=17 Identities=24% Similarity=0.741 Sum_probs=15.8
Q ss_pred CCCCcccHhhHHHHHHh
Q 008382 159 ACGHPFCRACWRGYISA 175 (567)
Q Consensus 159 ~CgH~fC~~Cl~~y~~~ 175 (567)
-|.|.|-..|+.+++.+
T Consensus 53 ~CnHaFH~HCI~rWL~T 69 (88)
T COG5194 53 VCNHAFHDHCIYRWLDT 69 (88)
T ss_pred ecchHHHHHHHHHHHhh
Confidence 49999999999999987
No 200
>KOG2662 consensus Magnesium transporters: CorA family [Inorganic ion transport and metabolism]
Probab=37.30 E-value=1.4e+02 Score=31.97 Aligned_cols=40 Identities=18% Similarity=0.279 Sum_probs=24.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHc--cccccccccc
Q 008382 491 KEFNDFRTKLAGLTSVTKNYFENLVRALEN--GLADVDSHAA 530 (567)
Q Consensus 491 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~e~--~l~~~~~~~~ 530 (567)
..+..++.+|..+++-+....+.|-+-||+ +|.++--+..
T Consensus 220 ~~lr~~k~~Lt~l~~rvqkvRDeLe~LLddd~Dma~mYLT~K 261 (414)
T KOG2662|consen 220 ERLRILKKRLTELTSRVQKVRDELEELLDDDDDMAEMYLTRK 261 (414)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHhHH
Confidence 445566677777766666666666666654 4566654444
No 201
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=37.03 E-value=61 Score=27.62 Aligned_cols=54 Identities=17% Similarity=0.219 Sum_probs=32.4
Q ss_pred CCcccCCCCCCCC-ceecccCCCCceeee-cCCccccccccccCCCCCCchhHHHHHHHhh
Q 008382 227 RKTKWCPAPGCEH-AIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHRPVDCGTVAKWILKNC 285 (567)
Q Consensus 227 ~~~~~CP~~~C~~-~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~ 285 (567)
+.+..||+ |+. .+......+..++.| .||+.+=.. ..+.-..-+.|..|+....
T Consensus 19 pt~f~CP~--Cge~~v~v~~~k~~~h~~C~~CG~y~~~~---V~~l~epIDVY~~wiD~~~ 74 (99)
T PRK14892 19 PKIFECPR--CGKVSISVKIKKNIAIITCGNCGLYTEFE---VPSVYDEVDVYNKFIDLYL 74 (99)
T ss_pred CcEeECCC--CCCeEeeeecCCCcceEECCCCCCccCEE---CCccccchhhHHHHHHHHH
Confidence 46778998 883 332222335567888 888875322 2233334477889987654
No 202
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=36.93 E-value=16 Score=37.17 Aligned_cols=41 Identities=27% Similarity=0.557 Sum_probs=26.5
Q ss_pred CCcccCCCCCCCCceecccCC------CCceeee-cCCccccccccccCC
Q 008382 227 RKTKWCPAPGCEHAIDFAAGS------GNFDVSC-LCSYNFCWNCTEEAH 269 (567)
Q Consensus 227 ~~~~~CP~~~C~~~i~~~~~~------~~~~v~C-~C~~~fC~~C~~~~H 269 (567)
+....|-. |+..+...+.. ......| .|+..||..|..-.|
T Consensus 360 ~ks~~Cf~--CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiH 407 (421)
T COG5151 360 PKSTHCFV--CQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIH 407 (421)
T ss_pred CCCcccee--ccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHH
Confidence 34455665 77655443221 2345689 999999999976666
No 203
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=36.80 E-value=27 Score=37.41 Aligned_cols=13 Identities=23% Similarity=0.404 Sum_probs=6.5
Q ss_pred cHHHHHHHHHHHH
Q 008382 361 DETERRREMAKNS 373 (567)
Q Consensus 361 ~~~~~~~~~~k~~ 373 (567)
.-.+.++++.|..
T Consensus 393 kGLEkKRQrRKEK 405 (458)
T PF10446_consen 393 KGLEKKRQRRKEK 405 (458)
T ss_pred echhhhhhhhhHH
Confidence 3445555555543
No 204
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=36.35 E-value=20 Score=43.31 Aligned_cols=30 Identities=23% Similarity=0.571 Sum_probs=21.9
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccch-----hhcccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEF-----CWLCLGAW 335 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~F-----Cw~C~~~~ 335 (567)
..||+|+..+-. -+|. .||... |-.|+...
T Consensus 668 rkCPkCG~~t~~------~fCP-~CGs~te~vy~CPsCGaev 702 (1337)
T PRK14714 668 RRCPSCGTETYE------NRCP-DCGTHTEPVYVCPDCGAEV 702 (1337)
T ss_pred EECCCCCCcccc------ccCc-ccCCcCCCceeCccCCCcc
Confidence 789999987643 2786 788664 88888754
No 205
>smart00336 BBOX B-Box-type zinc finger.
Probab=36.17 E-value=30 Score=23.64 Aligned_cols=28 Identities=29% Similarity=0.640 Sum_probs=24.3
Q ss_pred cCCCCCC-cceeecCCCCccccCCCCccchhhccccc
Q 008382 299 KPCPKCK-RPIEKNQGCMHMTCSPPCKFEFCWLCLGA 334 (567)
Q Consensus 299 k~CPkC~-~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (567)
..|+.|. .++. ++|. .|....|..|...
T Consensus 4 ~~C~~h~~~~~~-------~~C~-~c~~~iC~~C~~~ 32 (42)
T smart00336 4 PKCDSHGDEPAE-------FFCE-ECGALLCRTCDEA 32 (42)
T ss_pred CcCCCCCCCceE-------EECC-CCCcccccccChh
Confidence 5799998 8888 9998 8999999999754
No 206
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.01 E-value=30 Score=32.32 Aligned_cols=57 Identities=21% Similarity=0.601 Sum_probs=34.9
Q ss_pred cccccccccccccC---Ce--eecCCCCcccHhhHHHHHHhhhcCCCC--ccccccCCCCCCCccc
Q 008382 140 ELTCGICFDTYSCD---KV--VSAACGHPFCRACWRGYISATVNDGPG--CLMLRCPDPSCCAAVG 198 (567)
Q Consensus 140 ~~~C~IC~e~~~~~---~~--~~l~CgH~fC~~Cl~~y~~~~i~~g~~--~~~i~CP~~~C~~~v~ 198 (567)
...|+||+--.... +. -...||..|..-|+..|++.-+..... ++.=.|| -|..+|.
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCP--YCS~Pia 228 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECP--YCSDPIA 228 (234)
T ss_pred hhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCC--CCCCcce
Confidence 34577777532111 11 135799999999999999876655432 1223588 5776654
No 207
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=35.90 E-value=1.6e+02 Score=25.66 Aligned_cols=20 Identities=10% Similarity=0.278 Sum_probs=10.6
Q ss_pred HHHHHHhhhHHHHHHHHHHH
Q 008382 379 HYYERWASNQSSRQKALADL 398 (567)
Q Consensus 379 ~y~~r~~~h~~s~~~~~~~l 398 (567)
.|...|..+.-+++...+.+
T Consensus 40 ~Fi~~Fi~~rGnlKe~e~~l 59 (113)
T PF09862_consen 40 EFIKLFIKNRGNLKEMEKEL 59 (113)
T ss_pred HHHHHHHHhcCCHHHHHHHH
Confidence 35566666665655444433
No 208
>PHA02664 hypothetical protein; Provisional
Probab=35.69 E-value=91 Score=31.97 Aligned_cols=10 Identities=20% Similarity=0.272 Sum_probs=4.6
Q ss_pred HHHHHHHHHh
Q 008382 80 DDITKVSTVL 89 (567)
Q Consensus 80 ~~i~~v~~il 89 (567)
+-+..|+++|
T Consensus 523 ~vl~ava~ml 532 (534)
T PHA02664 523 AVLGAVAEML 532 (534)
T ss_pred HHHHHHHHHh
Confidence 3444455444
No 209
>PRK10220 hypothetical protein; Provisional
Probab=35.57 E-value=29 Score=29.91 Aligned_cols=26 Identities=31% Similarity=0.756 Sum_probs=15.6
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (567)
-+||+|..-.-=..|=+ +.|. .|+|+
T Consensus 4 P~CP~C~seytY~d~~~-~vCp-eC~hE 29 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGM-YICP-ECAHE 29 (111)
T ss_pred CcCCCCCCcceEcCCCe-EECC-cccCc
Confidence 68999987655444433 5565 45544
No 210
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=35.44 E-value=42 Score=24.81 Aligned_cols=36 Identities=11% Similarity=0.171 Sum_probs=30.5
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHHcCCChhhhHHhhh
Q 008382 80 DDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWF 115 (567)
Q Consensus 80 ~~i~~v~~il~i~~~~a~~LL~~~~W~~~~l~e~~~ 115 (567)
+.|..++...++...-+...|...+||-++-+..|.
T Consensus 2 ~mv~~~s~~Tgmn~~~s~~CL~~n~Wd~~~A~~~F~ 37 (51)
T PF03943_consen 2 EMVQQFSQQTGMNLEWSQKCLEENNWDYERALQNFE 37 (51)
T ss_dssp HHHHHHHHHCSS-CCHHHHHHHHTTT-CCHHHHHHH
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 568899999999999999999999999999887763
No 211
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=35.32 E-value=5e+02 Score=26.44 Aligned_cols=93 Identities=16% Similarity=0.142 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHHHHHhcccceeecccCccchhhhhHHHHhHHHHHHhHHHHHHHHHHHHHHhhccccch--hhHHHHHHH
Q 008382 422 FIIDAWLQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQFLNDESQS--KEFNDFRTK 499 (567)
Q Consensus 422 ~l~~a~~~l~~~r~~L~~sy~~~yy~~~~~~~~~~~fe~~Q~~le~~~e~L~~~le~~~~~~~~~~~~~--~~~~~~~~~ 499 (567)
-...|++.+.+++++|. +-.....|..+-..++...+.+.++|+..+..+...-.|. ..+.+--..
T Consensus 142 dy~~Al~li~~~~~~l~------------~l~~~~c~~~L~~~L~e~~~~i~~~ld~~l~~~~~~Fd~~~Y~~v~~AY~l 209 (291)
T PF10475_consen 142 DYPGALDLIEECQQLLE------------ELKGYSCVRHLSSQLQETLELIEEQLDSDLSKVCQDFDPDKYSKVQEAYQL 209 (291)
T ss_pred CHHHHHHHHHHHHHHHH------------hcccchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 35679999999999993 1223566777777888888888888887777664433332 222222233
Q ss_pred HHHHHHHHHHHHHHHHHHHHccccccc
Q 008382 500 LAGLTSVTKNYFENLVRALENGLADVD 526 (567)
Q Consensus 500 ~~~l~~~~~~~~~~~~~~~e~~l~~~~ 526 (567)
|.....+......+++.+|++-...|-
T Consensus 210 Lgk~~~~~dkl~~~f~~~i~~~~~~vv 236 (291)
T PF10475_consen 210 LGKTQSAMDKLQMHFTSAIHSTTFSVV 236 (291)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455555666666777766555443
No 212
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=35.25 E-value=23 Score=29.26 Aligned_cols=36 Identities=28% Similarity=0.697 Sum_probs=27.9
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhccccccccCC
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAWSDHG 339 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~H~ 339 (567)
.-||.|+.| ...|--+.+. |+|.|=..|...|..-.
T Consensus 33 g~Cp~Ck~P---gd~Cplv~g~--C~H~FH~hCI~kWl~~~ 68 (85)
T PF12861_consen 33 GCCPDCKFP---GDDCPLVWGK--CSHNFHMHCILKWLSTQ 68 (85)
T ss_pred cCCCCccCC---CCCCceeecc--CccHHHHHHHHHHHccc
Confidence 468888887 3567767665 99999999999997543
No 213
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=35.24 E-value=51 Score=30.44 Aligned_cols=35 Identities=26% Similarity=0.640 Sum_probs=22.5
Q ss_pred cccccccccccccCCeeec-------CCCCccc------HhhHHHHHHhh
Q 008382 140 ELTCGICFDTYSCDKVVSA-------ACGHPFC------RACWRGYISAT 176 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l-------~CgH~fC------~~Cl~~y~~~~ 176 (567)
..+||||++.. .+-|.| +|.-+.| .+|+.+|-...
T Consensus 2 d~~CpICme~P--HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~ 49 (162)
T PF07800_consen 2 DVTCPICMEHP--HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAY 49 (162)
T ss_pred CccCceeccCC--CceEEEEeccccCCccccccCCccchhHHHHHHHHHh
Confidence 46899999964 444444 3444444 47898887654
No 214
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=34.83 E-value=9.2 Score=30.64 Aligned_cols=48 Identities=27% Similarity=0.624 Sum_probs=32.1
Q ss_pred cccccccccccC---------C-eeec-CCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 142 TCGICFDTYSCD---------K-VVSA-ACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 142 ~C~IC~e~~~~~---------~-~~~l-~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
+|+||--.|... + |..+ -|.|.|-..|+..++.+.-+.+ .||. |++.+
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~------~CPm--cRq~~ 80 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQG------QCPM--CRQTW 80 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccc------cCCc--chhee
Confidence 677776655322 1 1222 4899999999999998765543 5884 76654
No 215
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=34.03 E-value=13 Score=42.08 Aligned_cols=50 Identities=20% Similarity=0.523 Sum_probs=37.8
Q ss_pred CcccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 139 RELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
...+|+||+..+ ..++.+.|.|.||..||...+...-. ...|| -|+..++
T Consensus 20 k~lEc~ic~~~~--~~p~~~kc~~~~l~~~~n~~f~~~~~------~~~~~--lc~~~~e 69 (684)
T KOG4362|consen 20 KILECPICLEHV--KEPSLLKCDHIFLKFCLNKLFESKKG------PKQCA--LCKSDIE 69 (684)
T ss_pred hhccCCceeEEe--eccchhhhhHHHHhhhhhceeeccCc------cccch--hhhhhhh
Confidence 357899999987 56688899999999999987755321 46677 4765554
No 216
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=34.02 E-value=29 Score=22.25 Aligned_cols=21 Identities=24% Similarity=0.842 Sum_probs=13.3
Q ss_pred CCCCCCcceeecCCCCccccC
Q 008382 300 PCPKCKRPIEKNQGCMHMTCS 320 (567)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~ 320 (567)
.||.|+..+.+..|=-+.+|.
T Consensus 1 ~CP~C~s~l~~~~~ev~~~C~ 21 (28)
T PF03119_consen 1 TCPVCGSKLVREEGEVDIRCP 21 (28)
T ss_dssp B-TTT--BEEE-CCTTCEEE-
T ss_pred CcCCCCCEeEcCCCCEeEECC
Confidence 499999999998887777776
No 217
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=33.97 E-value=25 Score=22.68 Aligned_cols=24 Identities=33% Similarity=0.796 Sum_probs=12.2
Q ss_pred cCCCCCCcceeec--CCCCccccCCCC
Q 008382 299 KPCPKCKRPIEKN--QGCMHMTCSPPC 323 (567)
Q Consensus 299 k~CPkC~~~IEK~--~GCnhm~C~~~C 323 (567)
++||+|..+|++. +|=+...|. .|
T Consensus 2 ~~C~rC~~~~~~~~~~~r~~~~C~-rC 27 (30)
T PF06827_consen 2 EKCPRCWNYIEDIGINGRSTYLCP-RC 27 (30)
T ss_dssp SB-TTT--BBEEEEETTEEEEE-T-TT
T ss_pred CcCccCCCcceEeEecCCCCeECc-CC
Confidence 6899999998754 344444554 44
No 218
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=33.78 E-value=29 Score=35.21 Aligned_cols=26 Identities=42% Similarity=0.944 Sum_probs=18.4
Q ss_pred cCCCCCCcceeec--CCCCccccCCCCcc
Q 008382 299 KPCPKCKRPIEKN--QGCMHMTCSPPCKF 325 (567)
Q Consensus 299 k~CPkC~~~IEK~--~GCnhm~C~~~C~~ 325 (567)
++||.|+.+|++. +|=.--+|. .|+.
T Consensus 236 ~pC~~Cg~~I~~~~~~gR~ty~Cp-~CQ~ 263 (269)
T PRK14811 236 QPCPRCGTPIEKIVVGGRGTHFCP-QCQP 263 (269)
T ss_pred CCCCcCCCeeEEEEECCCCcEECC-CCcC
Confidence 7999999999964 554445564 5553
No 219
>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=33.28 E-value=42 Score=25.25 Aligned_cols=28 Identities=25% Similarity=0.506 Sum_probs=20.1
Q ss_pred cCCCCCCCCceecccCCCCceeee-cCCccc
Q 008382 231 WCPAPGCEHAIDFAAGSGNFDVSC-LCSYNF 260 (567)
Q Consensus 231 ~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~f 260 (567)
.||. |+..|..........|.| .||..+
T Consensus 4 ~CP~--CG~~iev~~~~~GeiV~Cp~CGael 32 (54)
T TIGR01206 4 ECPD--CGAEIELENPELGELVICDECGAEL 32 (54)
T ss_pred CCCC--CCCEEecCCCccCCEEeCCCCCCEE
Confidence 5887 999888754433456788 788765
No 220
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=32.62 E-value=15 Score=37.00 Aligned_cols=28 Identities=18% Similarity=0.555 Sum_probs=20.8
Q ss_pred cCCCCCCcceee-cCCCCccccCCCCccch
Q 008382 299 KPCPKCKRPIEK-NQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 299 k~CPkC~~~IEK-~~GCnhm~C~~~C~~~F 327 (567)
..||.|+..+-+ .-+=|...|. +|+|+|
T Consensus 29 ~KCp~c~~~~y~~eL~~n~~vcp-~c~~h~ 57 (294)
T COG0777 29 TKCPSCGEMLYRKELESNLKVCP-KCGHHM 57 (294)
T ss_pred eECCCccceeeHHHHHhhhhccc-ccCccc
Confidence 789999988874 3556667786 787665
No 221
>cd07621 BAR_SNX5_6 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 5 and 6. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Members of this subfamily include SNX5, SNX6, the mammalian SNX32, and similar proteins. SNX5 and SNX6 may be components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi, acting as a mammalian equivalent of yeast Vsp17p. The function of SNX32 is still unknown. BAR domain
Probab=32.52 E-value=4.9e+02 Score=25.54 Aligned_cols=62 Identities=29% Similarity=0.375 Sum_probs=48.1
Q ss_pred HHHhHHHHHHhHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Q 008382 458 FEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFENLVRALENGLAD 524 (567)
Q Consensus 458 fe~~Q~~le~~~e~L~~~le~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~e~~l~~ 524 (567)
-|..|.+++...|.++..+.+|+..|-. .++.+||.-|+.+.-.--++.+..+..|.+-|..
T Consensus 156 AE~~~~~a~~~Fe~iS~~~k~El~rF~~-----~Rv~~fk~~lve~aE~~ik~Ak~~~~~l~~~~~~ 217 (219)
T cd07621 156 AEAAQQEACEKFESMSESAKQELLDFKT-----RRVAAFRKNLVELAELEIKHAKAQIQLLKNCLAA 217 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5667889999999999999999987744 5577888888887777777777777777665543
No 222
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=32.10 E-value=41 Score=33.46 Aligned_cols=20 Identities=25% Similarity=0.730 Sum_probs=15.6
Q ss_pred CCcccCCCCCCCCceecccC
Q 008382 227 RKTKWCPAPGCEHAIDFAAG 246 (567)
Q Consensus 227 ~~~~~CP~~~C~~~i~~~~~ 246 (567)
....-||.|+|.++|...+.
T Consensus 121 S~rIaCPRp~CkRiI~L~~~ 140 (256)
T PF09788_consen 121 SQRIACPRPNCKRIINLGPS 140 (256)
T ss_pred cccccCCCCCCcceEEeCCc
Confidence 34578999999999976543
No 223
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=32.00 E-value=17 Score=26.47 Aligned_cols=45 Identities=24% Similarity=0.606 Sum_probs=21.7
Q ss_pred cccccccccccccCCeeecCCC-CcccHhhHHHHHHhhhcCCCCccccccCCCCCCCccch
Q 008382 140 ELTCGICFDTYSCDKVVSAACG-HPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVGQ 199 (567)
Q Consensus 140 ~~~C~IC~e~~~~~~~~~l~Cg-H~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~~ 199 (567)
.+.|.-|+-.. ... +.|. |+.|..|+...+.. .-+|| -|..++|.
T Consensus 2 r~nCKsCWf~~--k~L--i~C~dHYLCl~CLt~ml~~---------s~~C~--iC~~~LPt 47 (50)
T PF03854_consen 2 RYNCKSCWFAN--KGL--IKCSDHYLCLNCLTLMLSR---------SDRCP--ICGKPLPT 47 (50)
T ss_dssp -----SS-S----SSE--EE-SS-EEEHHHHHHT-SS---------SSEET--TTTEE---
T ss_pred CccChhhhhcC--CCe--eeecchhHHHHHHHHHhcc---------ccCCC--cccCcCcc
Confidence 35688887532 222 4564 89999999988643 35788 58877664
No 224
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=31.80 E-value=23 Score=27.03 Aligned_cols=41 Identities=29% Similarity=0.499 Sum_probs=30.5
Q ss_pred cCCCCCCcceee--cCCCCccccCCCCccchhhccccccccCCC
Q 008382 299 KPCPKCKRPIEK--NQGCMHMTCSPPCKFEFCWLCLGAWSDHGE 340 (567)
Q Consensus 299 k~CPkC~~~IEK--~~GCnhm~C~~~C~~~FCw~C~~~~~~H~~ 340 (567)
..||-|+...-- .+-=|+-+|+ .|+...|-+||=.-.+|-.
T Consensus 3 ~~CPlCkt~~n~gsk~~pNyntCT-~Ck~~VCnlCGFNP~Phl~ 45 (61)
T PF05715_consen 3 SLCPLCKTTLNVGSKDPPNYNTCT-ECKSQVCNLCGFNPTPHLT 45 (61)
T ss_pred ccCCcccchhhcCCCCCCCccHHH-HHhhhhhcccCCCCCcccc
Confidence 579999886621 1346889999 8999999999864455553
No 225
>PRK12495 hypothetical protein; Provisional
Probab=31.74 E-value=32 Score=33.49 Aligned_cols=18 Identities=28% Similarity=0.671 Sum_probs=14.1
Q ss_pred CcCCCCCCcceeecCCCC
Q 008382 298 SKPCPKCKRPIEKNQGCM 315 (567)
Q Consensus 298 tk~CPkC~~~IEK~~GCn 315 (567)
.+.||.|+.||-+..||-
T Consensus 42 a~hC~~CG~PIpa~pG~~ 59 (226)
T PRK12495 42 NAHCDECGDPIFRHDGQE 59 (226)
T ss_pred hhhcccccCcccCCCCee
Confidence 478999999998655553
No 226
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=31.69 E-value=38 Score=29.58 Aligned_cols=30 Identities=20% Similarity=0.573 Sum_probs=20.5
Q ss_pred cccCCCCCCCCceecccCCCCceeee-cCCccc
Q 008382 229 TKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNF 260 (567)
Q Consensus 229 ~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~f 260 (567)
+++||. |+..+............| .||+.+
T Consensus 2 m~FCp~--Cgsll~p~~~~~~~~l~C~kCgye~ 32 (113)
T COG1594 2 MRFCPK--CGSLLYPKKDDEGGKLVCRKCGYEE 32 (113)
T ss_pred ccccCC--ccCeeEEeEcCCCcEEECCCCCcch
Confidence 568998 999887754334446677 777664
No 227
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=31.36 E-value=42 Score=24.30 Aligned_cols=33 Identities=24% Similarity=0.590 Sum_probs=22.7
Q ss_pred ccccccccccCCeeecCCCC-----cccHhhHHHHHHh
Q 008382 143 CGICFDTYSCDKVVSAACGH-----PFCRACWRGYISA 175 (567)
Q Consensus 143 C~IC~e~~~~~~~~~l~CgH-----~fC~~Cl~~y~~~ 175 (567)
|-||++......+...||+- .....|+..|+..
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~ 38 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRE 38 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHH
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHh
Confidence 77999886555555667642 5688999999987
No 228
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=31.24 E-value=48 Score=26.81 Aligned_cols=59 Identities=22% Similarity=0.673 Sum_probs=20.4
Q ss_pred ccCCCCCCCCceecccCCCCceeee-cCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHHHHHhcCcCCCCCCcce
Q 008382 230 KWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPI 308 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntk~CPkC~~~I 308 (567)
..|-. |+--|-.. ..+...|-| .|++-.|..|. .+. +...++-||+|+.+.
T Consensus 10 qiCqi--CGD~VGl~-~~Ge~FVAC~eC~fPvCr~Cy----------EYE---------------rkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 10 QICQI--CGDDVGLT-ENGEVFVACHECAFPVCRPCY----------EYE---------------RKEGNQVCPQCKTRY 61 (80)
T ss_dssp -B-SS--S--B--B--SSSSB--S-SSS-----HHHH----------HHH---------------HHTS-SB-TTT--B-
T ss_pred ccccc--ccCccccC-CCCCEEEEEcccCCccchhHH----------HHH---------------hhcCcccccccCCCc
Confidence 45655 77666655 346677889 89999998774 221 112338999999988
Q ss_pred eecCCCCc
Q 008382 309 EKNQGCMH 316 (567)
Q Consensus 309 EK~~GCnh 316 (567)
.+..|+-.
T Consensus 62 kr~kgsp~ 69 (80)
T PF14569_consen 62 KRHKGSPR 69 (80)
T ss_dssp ---TT---
T ss_pred ccccCCCC
Confidence 87777653
No 229
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=31.18 E-value=20 Score=38.15 Aligned_cols=11 Identities=18% Similarity=0.537 Sum_probs=6.7
Q ss_pred cCCCCCCccee
Q 008382 299 KPCPKCKRPIE 309 (567)
Q Consensus 299 k~CPkC~~~IE 309 (567)
-+|-.|+..+.
T Consensus 428 Y~CEDCg~~LS 438 (468)
T KOG1701|consen 428 YKCEDCGLLLS 438 (468)
T ss_pred eehhhcCcccc
Confidence 45666666655
No 230
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=30.59 E-value=34 Score=25.37 Aligned_cols=34 Identities=24% Similarity=0.620 Sum_probs=23.5
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccchhhcccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAW 335 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~ 335 (567)
..|+.|++..--.. ..-.|+ .||.-||..|....
T Consensus 3 ~~C~~C~~~F~~~~--rk~~Cr-~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTR--RRHHCR-NCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCc--cccccC-cCcCCcChHHcCCe
Confidence 57888877555322 234588 89999999997643
No 231
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=30.35 E-value=28 Score=31.89 Aligned_cols=95 Identities=15% Similarity=0.194 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCHHHHHHHHHHcCCChhhhHHhhhcChHHHHHhcCCCCCCccccCC----CCccccccccc
Q 008382 73 DIKCQQEDDITKVSTVLSISRVDASILLRHYNWSVSKVHDAWFADEDAVRKSVGFLDKPVVEFSN----ARELTCGICFD 148 (567)
Q Consensus 73 ~i~~~~~~~i~~v~~il~i~~~~a~~LL~~~~W~~~~l~e~~~~~~~~~~~~~gl~~~~~~~~~~----~~~~~C~IC~e 148 (567)
-....+.++|......+++..... .+-..--|+.+.+.+.- ...+...||.++....... .....||-|-.
T Consensus 39 pa~e~L~~~I~~aL~~~Gv~~V~V-~i~~~p~Wt~d~it~~g----r~~l~~~giapp~~~~~~~~~~~~~~~~cp~c~s 113 (146)
T TIGR02159 39 PALEVIRQDIRDAVRALGVEVVEV-STSLDPPWTTDWITEDA----REKLREYGIAPPAGHYVVGVSPEPPSVQCPRCGS 113 (146)
T ss_pred chHHHHHHHHHHHHHhcCCCeEEE-eEeeCCCCChHHCCHHH----HHHHHhcCccCCCccCCCcccCCCCCCcCCCCCC
Confidence 344444444444433345543222 23446679988776641 2345677886543221111 12478999987
Q ss_pred cccc--CCeeecCCC-CcccHhhHHHH
Q 008382 149 TYSC--DKVVSAACG-HPFCRACWRGY 172 (567)
Q Consensus 149 ~~~~--~~~~~l~Cg-H~fC~~Cl~~y 172 (567)
.... ..+-+..|. ..+|.+|..-+
T Consensus 114 ~~t~~~s~fg~t~cka~~~c~~c~epf 140 (146)
T TIGR02159 114 ADTTITSIFGPTACKALYRCRACKEPF 140 (146)
T ss_pred CCcEeecCCCChhhHHHhhhhhhCCcH
Confidence 5421 233355786 56899997654
No 232
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase (fpg). All proteins in the FPG family with known functions are FAPY-DNA glycosylases that function in base excision repair. Homologous to endonuclease VIII (nei). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.35 E-value=36 Score=34.58 Aligned_cols=25 Identities=40% Similarity=0.915 Sum_probs=18.0
Q ss_pred cCCCCCCcceeec--CCCCccccCCCCc
Q 008382 299 KPCPKCKRPIEKN--QGCMHMTCSPPCK 324 (567)
Q Consensus 299 k~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (567)
++||.|+.+|++. +|=.-.+|. .|+
T Consensus 246 ~pC~~Cg~~I~~~~~~gR~t~~CP-~CQ 272 (272)
T TIGR00577 246 EPCRRCGTPIEKIKVGGRGTHFCP-QCQ 272 (272)
T ss_pred CCCCCCCCeeEEEEECCCCCEECC-CCC
Confidence 6999999999964 665555564 553
No 233
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=30.26 E-value=35 Score=34.64 Aligned_cols=25 Identities=40% Similarity=0.973 Sum_probs=18.2
Q ss_pred cCCCCCCcceeec--CCCCccccCCCCc
Q 008382 299 KPCPKCKRPIEKN--QGCMHMTCSPPCK 324 (567)
Q Consensus 299 k~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (567)
++||.|+.+|++. +|=.-.+|. .|+
T Consensus 246 ~pC~~Cg~~I~~~~~~gR~t~~CP-~CQ 272 (274)
T PRK01103 246 EPCRRCGTPIEKIKQGGRSTFFCP-RCQ 272 (274)
T ss_pred CCCCCCCCeeEEEEECCCCcEECc-CCC
Confidence 7999999999964 554555564 565
No 234
>PF07058 Myosin_HC-like: Myosin II heavy chain-like; InterPro: IPR009768 This family represents a conserved region within a number of myosin II heavy chain-like proteins that seem to be specific to Arabidopsis thaliana.
Probab=30.05 E-value=6.3e+02 Score=26.05 Aligned_cols=21 Identities=29% Similarity=0.419 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHccccccccc
Q 008382 508 KNYFENLVRALENGLADVDSH 528 (567)
Q Consensus 508 ~~~~~~~~~~~e~~l~~~~~~ 528 (567)
+..+.-.++.||+||-...+.
T Consensus 145 keK~klRLK~LEe~Lk~~~s~ 165 (351)
T PF07058_consen 145 KEKLKLRLKVLEEGLKGSSSN 165 (351)
T ss_pred HHHHHHHHHHHHhhccCCCCC
Confidence 345666789999999877653
No 235
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=29.83 E-value=46 Score=29.78 Aligned_cols=53 Identities=25% Similarity=0.642 Sum_probs=37.8
Q ss_pred CCCcccccccccccccCCeee--cCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 137 NARELTCGICFDTYSCDKVVS--AACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~~~~~~--l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
+.....|.||-+......+.. .-||-..|..|....|...- .-..||. |+..+
T Consensus 77 d~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~------~ypvCPv--CkTSF 131 (140)
T PF05290_consen 77 DPKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN------LYPVCPV--CKTSF 131 (140)
T ss_pred CCCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc------cCCCCCc--ccccc
Confidence 346789999999753322221 23999999999999998753 2567995 87665
No 236
>PRK11546 zraP zinc resistance protein; Provisional
Probab=29.79 E-value=4.4e+02 Score=24.09 Aligned_cols=54 Identities=11% Similarity=0.174 Sum_probs=37.2
Q ss_pred hhhhhHHHHhHHHHHHhHHHHHHHHHH---HHHHhhccccch-hhHHHHHHHHHHHHH
Q 008382 452 HAKRQFFEYLQGEAESGLERLHQCAEK---ELLQFLNDESQS-KEFNDFRTKLAGLTS 505 (567)
Q Consensus 452 ~~~~~~fe~~Q~~le~~~e~L~~~le~---~~~~~~~~~~~~-~~~~~~~~~~~~l~~ 505 (567)
.++...++.+..+....++.|.+.|-. +|+.++....|. +.+..+..+|..|..
T Consensus 46 ~EQQa~~q~I~~~f~~~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~ 103 (143)
T PRK11546 46 TEQQAAWQKIHNDFYAQTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQ 103 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 456777777788888888888876544 677777766665 336777777776643
No 237
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=29.77 E-value=32 Score=26.16 Aligned_cols=23 Identities=30% Similarity=0.857 Sum_probs=15.6
Q ss_pred cCcCCCCCCcceeecCCCCccccCCCCcc
Q 008382 297 NSKPCPKCKRPIEKNQGCMHMTCSPPCKF 325 (567)
Q Consensus 297 ntk~CPkC~~~IEK~~GCnhm~C~~~C~~ 325 (567)
+.-.||+|+.++- .|-.|. .||+
T Consensus 26 ~l~~C~~CG~~~~-----~H~vC~-~CG~ 48 (57)
T PRK12286 26 GLVECPNCGEPKL-----PHRVCP-SCGY 48 (57)
T ss_pred cceECCCCCCccC-----CeEECC-CCCc
Confidence 3467999999877 466665 4653
No 238
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=29.59 E-value=44 Score=25.24 Aligned_cols=44 Identities=23% Similarity=0.563 Sum_probs=30.2
Q ss_pred ccccccccccccCCeeecCCCC--cccHhhHHHHHHhhhcCCCCccccccCCCCCCCcc
Q 008382 141 LTCGICFDTYSCDKVVSAACGH--PFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAV 197 (567)
Q Consensus 141 ~~C~IC~e~~~~~~~~~l~CgH--~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v 197 (567)
..|..|-.+++.+..-..-|.+ .||.+|....+ .-.|| .|+..+
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l-----------~~~CP--NCgGel 51 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETML-----------NGVCP--NCGGEL 51 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHh-----------cCcCc--CCCCcc
Confidence 3588888887766544445653 79999998875 23688 576554
No 239
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=29.49 E-value=50 Score=28.90 Aligned_cols=36 Identities=22% Similarity=0.502 Sum_probs=27.6
Q ss_pred cCcCCCCCCcceeecCCCCccccCCCCccchhhccccc
Q 008382 297 NSKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGA 334 (567)
Q Consensus 297 ntk~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (567)
+.+.|..|+.+.-...+.. ..|. .|++.+|-.|+..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~-~~C~-~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRG-RVCV-DCKHRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTC-EEET-TTTEEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCC-CcCC-cCCccccCccCCc
Confidence 4578999999876666666 6798 8999999999875
No 240
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=29.42 E-value=32 Score=26.73 Aligned_cols=35 Identities=17% Similarity=0.370 Sum_probs=18.3
Q ss_pred CcCCCCCCcceeecCCCCccccCCCCccchhhcccccc
Q 008382 298 SKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGAW 335 (567)
Q Consensus 298 tk~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~ 335 (567)
...|+.|++..-- --..-.|+ .||.-||-.|....
T Consensus 9 ~~~C~~C~~~F~~--~~rrhhCr-~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 9 ASNCMICGKKFSL--FRRRHHCR-NCGRVVCSSCSSQR 43 (69)
T ss_dssp -SB-TTT--B-BS--SS-EEE-T-TT--EEECCCS-EE
T ss_pred CCcCcCcCCcCCC--ceeeEccC-CCCCEECCchhCCE
Confidence 4789999988742 23334698 89999999998643
No 241
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=29.39 E-value=37 Score=34.48 Aligned_cols=26 Identities=35% Similarity=0.889 Sum_probs=18.3
Q ss_pred CcCCCCCCcceeec--CCCCccccCCCCc
Q 008382 298 SKPCPKCKRPIEKN--QGCMHMTCSPPCK 324 (567)
Q Consensus 298 tk~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (567)
.++||+|+.+|++. +|=.-.+|. .|+
T Consensus 244 g~pCprCG~~I~~~~~~gR~t~~CP-~CQ 271 (272)
T PRK14810 244 GEPCLNCKTPIRRVVVAGRSSHYCP-HCQ 271 (272)
T ss_pred CCcCCCCCCeeEEEEECCCccEECc-CCc
Confidence 37999999999964 654445564 554
No 242
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.28 E-value=27 Score=35.56 Aligned_cols=30 Identities=23% Similarity=0.589 Sum_probs=19.3
Q ss_pred CcCCCCCCcceeecCCCCccccCCCCccchhhccccc
Q 008382 298 SKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGA 334 (567)
Q Consensus 298 tk~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (567)
++.||-|... |||-+= ..|+|.|||+|.+-
T Consensus 7 ~~eC~IC~nt------~n~Pv~-l~C~HkFCyiCiKG 36 (324)
T KOG0824|consen 7 KKECLICYNT------GNCPVN-LYCFHKFCYICIKG 36 (324)
T ss_pred CCcceeeecc------CCcCcc-ccccchhhhhhhcc
Confidence 3567766543 232222 26999999999873
No 243
>PF01599 Ribosomal_S27: Ribosomal protein S27a; InterPro: IPR002906 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesized as a C-terminal extension of ubiquitin (CEP) (IPR000626 from INTERPRO). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis []. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2K4X_A 3U5C_f 3U5G_f 2XZN_9 2XZM_9.
Probab=29.22 E-value=30 Score=25.22 Aligned_cols=26 Identities=23% Similarity=0.627 Sum_probs=17.8
Q ss_pred cCCC--CCCcceeecCCCCccccCCCCcc
Q 008382 299 KPCP--KCKRPIEKNQGCMHMTCSPPCKF 325 (567)
Q Consensus 299 k~CP--kC~~~IEK~~GCnhm~C~~~C~~ 325 (567)
+.|| .|+.-+---.--+..+|. +|++
T Consensus 19 k~CP~~~CG~GvFMA~H~dR~~CG-KCg~ 46 (47)
T PF01599_consen 19 KECPSPRCGAGVFMAEHKDRHYCG-KCGY 46 (47)
T ss_dssp EE-TSTTTTSSSEEEE-SSEEEET-TTSS
T ss_pred hcCCCcccCCceEeeecCCCccCC-Cccc
Confidence 7899 999877655555677887 7864
No 244
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=28.93 E-value=38 Score=34.57 Aligned_cols=25 Identities=44% Similarity=0.954 Sum_probs=18.8
Q ss_pred cCCCCCCcceeec--CCCCccccCCCCc
Q 008382 299 KPCPKCKRPIEKN--QGCMHMTCSPPCK 324 (567)
Q Consensus 299 k~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (567)
++||.|+.+|.|. +|=.-.+|. .|+
T Consensus 255 ~pC~~Cg~~I~~~~~~gR~t~~CP-~CQ 281 (282)
T PRK13945 255 KPCRKCGTPIERIKLAGRSTHWCP-NCQ 281 (282)
T ss_pred CCCCcCCCeeEEEEECCCccEECC-CCc
Confidence 7999999999964 665556665 564
No 245
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=28.83 E-value=8.8e+02 Score=27.32 Aligned_cols=27 Identities=22% Similarity=0.326 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHH-Hhcccceeeccc
Q 008382 421 KFIIDAWLQIVECRR-VLKWTYAYGYYL 447 (567)
Q Consensus 421 ~~l~~a~~~l~~~r~-~L~~sy~~~yy~ 447 (567)
..+.+....+.++|+ +|..++-||.-.
T Consensus 136 ~~i~~l~~~y~~lrk~ll~~~~~~G~a~ 163 (560)
T PF06160_consen 136 EEIEELKEKYRELRKELLAHSFSYGPAI 163 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhchhH
Confidence 455555566666666 555555555544
No 246
>PRK10445 endonuclease VIII; Provisional
Probab=28.71 E-value=40 Score=34.05 Aligned_cols=25 Identities=28% Similarity=0.651 Sum_probs=18.5
Q ss_pred cCCCCCCcceeec--CCCCccccCCCCc
Q 008382 299 KPCPKCKRPIEKN--QGCMHMTCSPPCK 324 (567)
Q Consensus 299 k~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (567)
++||.|+.+|++. +|=.-.+|. .|+
T Consensus 236 ~~Cp~Cg~~I~~~~~~gR~t~~CP-~CQ 262 (263)
T PRK10445 236 EACERCGGIIEKTTLSSRPFYWCP-GCQ 262 (263)
T ss_pred CCCCCCCCEeEEEEECCCCcEECC-CCc
Confidence 7999999999964 665555665 564
No 247
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=28.66 E-value=44 Score=22.38 Aligned_cols=11 Identities=36% Similarity=0.576 Sum_probs=8.5
Q ss_pred cCCCCCCccee
Q 008382 299 KPCPKCKRPIE 309 (567)
Q Consensus 299 k~CPkC~~~IE 309 (567)
+.|+.|+....
T Consensus 4 ~~C~~C~~~~i 14 (33)
T PF08792_consen 4 KKCSKCGGNGI 14 (33)
T ss_pred eEcCCCCCCeE
Confidence 67888887665
No 248
>PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=28.54 E-value=38 Score=25.57 Aligned_cols=22 Identities=36% Similarity=0.869 Sum_probs=15.7
Q ss_pred cCcCCCCCCcceeecCCCCccccCCCCc
Q 008382 297 NSKPCPKCKRPIEKNQGCMHMTCSPPCK 324 (567)
Q Consensus 297 ntk~CPkC~~~IEK~~GCnhm~C~~~C~ 324 (567)
+...||.|+.+.. .|..|. .||
T Consensus 25 ~l~~c~~cg~~~~-----~H~vc~-~cG 46 (56)
T PF01783_consen 25 NLVKCPNCGEPKL-----PHRVCP-SCG 46 (56)
T ss_dssp SEEESSSSSSEES-----TTSBCT-TTB
T ss_pred ceeeeccCCCEec-----ccEeeC-CCC
Confidence 4468999998776 566675 565
No 249
>PLN02189 cellulose synthase
Probab=28.51 E-value=51 Score=39.44 Aligned_cols=61 Identities=25% Similarity=0.666 Sum_probs=42.3
Q ss_pred cccCCCCCCCCceecccCCCCceeee-cCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHHHHHhcCcCCCCCCcc
Q 008382 229 TKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRP 307 (567)
Q Consensus 229 ~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntk~CPkC~~~ 307 (567)
...|.- |+-.|... ..+..-|-| .|++-.|..|-+ +. .. ..++.||+|+..
T Consensus 34 ~~~C~i--Cgd~vg~~-~~g~~fvaC~~C~fpvCr~Cye----------ye------r~---------eg~q~CpqCkt~ 85 (1040)
T PLN02189 34 GQVCEI--CGDEIGLT-VDGDLFVACNECGFPVCRPCYE----------YE------RR---------EGTQNCPQCKTR 85 (1040)
T ss_pred Cccccc--cccccCcC-CCCCEEEeeccCCCccccchhh----------hh------hh---------cCCccCcccCCc
Confidence 346776 88777665 446677999 899999988852 11 01 122789999998
Q ss_pred eeecCCCCcc
Q 008382 308 IEKNQGCMHM 317 (567)
Q Consensus 308 IEK~~GCnhm 317 (567)
..+-.|++.+
T Consensus 86 Y~r~kgs~~v 95 (1040)
T PLN02189 86 YKRLKGSPRV 95 (1040)
T ss_pred hhhccCCCCc
Confidence 8877777754
No 250
>PF08580 KAR9: Yeast cortical protein KAR9; InterPro: IPR013889 The KAR9 protein in Saccharomyces cerevisiae (Baker's yeast) is a cytoskeletal protein required for karyogamy, correct positioning of the mitotic spindle and for orientation of cytoplasmic microtubules []. KAR9 localises at the shmoo tip in mating cells and at the tip of the growing bud in anaphase [].
Probab=28.44 E-value=7.5e+02 Score=28.74 Aligned_cols=23 Identities=17% Similarity=0.146 Sum_probs=11.1
Q ss_pred hhhHHHHhHHHHHHhHHHHHHHH
Q 008382 454 KRQFFEYLQGEAESGLERLHQCA 476 (567)
Q Consensus 454 ~~~~fe~~Q~~le~~~e~L~~~l 476 (567)
...+|.++-.++...+|.|...+
T Consensus 270 W~~vFr~l~~q~~~m~esver~~ 292 (683)
T PF08580_consen 270 WNIVFRNLGRQAQKMCESVERSL 292 (683)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555544444433
No 251
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=28.42 E-value=41 Score=24.12 Aligned_cols=24 Identities=25% Similarity=0.617 Sum_probs=11.4
Q ss_pred CCCCCCcceeecCCCCccccCCCCcc
Q 008382 300 PCPKCKRPIEKNQGCMHMTCSPPCKF 325 (567)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~ 325 (567)
.|..|+..++...+ .-+.|. .||+
T Consensus 4 ~C~~Cg~~~~~~~~-~~irC~-~CG~ 27 (44)
T smart00659 4 ICGECGRENEIKSK-DVVRCR-ECGY 27 (44)
T ss_pred ECCCCCCEeecCCC-CceECC-CCCc
Confidence 35555555554422 335554 4544
No 252
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=28.37 E-value=49 Score=23.47 Aligned_cols=34 Identities=15% Similarity=0.503 Sum_probs=16.1
Q ss_pred ccccccccccCCee-ecCCCCcccHhhHHHHHHhh
Q 008382 143 CGICFDTYSCDKVV-SAACGHPFCRACWRGYISAT 176 (567)
Q Consensus 143 C~IC~e~~~~~~~~-~l~CgH~fC~~Cl~~y~~~~ 176 (567)
|.+|-+.......- ...|+=.+-..|+..||...
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~ 35 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHR 35 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcC
Confidence 56676654222111 12488789999999999764
No 253
>PRK04023 DNA polymerase II large subunit; Validated
Probab=28.29 E-value=31 Score=40.83 Aligned_cols=32 Identities=22% Similarity=0.496 Sum_probs=23.7
Q ss_pred hcCcCCCCCCcceeecCCCCccccCCCCcc-----chhhccccc
Q 008382 296 ANSKPCPKCKRPIEKNQGCMHMTCSPPCKF-----EFCWLCLGA 334 (567)
Q Consensus 296 ~ntk~CPkC~~~IEK~~GCnhm~C~~~C~~-----~FCw~C~~~ 334 (567)
...+.||.|+... ....|. .||. .||-.|+..
T Consensus 624 Vg~RfCpsCG~~t------~~frCP-~CG~~Te~i~fCP~CG~~ 660 (1121)
T PRK04023 624 IGRRKCPSCGKET------FYRRCP-FCGTHTEPVYRCPRCGIE 660 (1121)
T ss_pred ccCccCCCCCCcC------CcccCC-CCCCCCCcceeCccccCc
Confidence 3458999999874 446887 7985 499999653
No 254
>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=27.99 E-value=68 Score=22.53 Aligned_cols=12 Identities=33% Similarity=1.168 Sum_probs=8.8
Q ss_pred cCCCCCCc-ceee
Q 008382 299 KPCPKCKR-PIEK 310 (567)
Q Consensus 299 k~CPkC~~-~IEK 310 (567)
..||.|+. .++|
T Consensus 27 ~~CP~Cg~~~~~r 39 (42)
T PF09723_consen 27 VPCPECGSTEVRR 39 (42)
T ss_pred CcCCCCCCCceEE
Confidence 67888887 6554
No 255
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.71 E-value=42 Score=37.33 Aligned_cols=35 Identities=20% Similarity=0.568 Sum_probs=21.4
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccc-----hhhccccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFE-----FCWLCLGA 334 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~-----FCw~C~~~ 334 (567)
-.||+|..++.--..=|.+.|. .||+. .|..|+..
T Consensus 223 ~~C~~C~~~l~~h~~~~~l~Ch-~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 223 LCCPNCDVSLTYHKKEGKLRCH-YCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred cCCCCCCCceEEecCCCeEEcC-CCcCcCCCCCCCCCCCCC
Confidence 4577776666532233457777 77765 57778763
No 256
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=27.40 E-value=39 Score=28.98 Aligned_cols=26 Identities=35% Similarity=0.913 Sum_probs=16.3
Q ss_pred CcCCCCCCc-ceeecCCCCccccCCCCccc
Q 008382 298 SKPCPKCKR-PIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 298 tk~CPkC~~-~IEK~~GCnhm~C~~~C~~~ 326 (567)
.-+||+|+. ..-..++ +|.|. .|.++
T Consensus 3 lp~cp~c~sEytYed~~--~~~cp-ec~~e 29 (112)
T COG2824 3 LPPCPKCNSEYTYEDGG--QLICP-ECAHE 29 (112)
T ss_pred CCCCCccCCceEEecCc--eEeCc-hhccc
Confidence 368999965 4444555 67786 55443
No 257
>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=26.91 E-value=46 Score=22.15 Aligned_cols=24 Identities=25% Similarity=0.729 Sum_probs=11.3
Q ss_pred CCCCCcceeecCCCCccccCCCCccc
Q 008382 301 CPKCKRPIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 301 CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (567)
|..|+..++-..+ ..+.|. .||+.
T Consensus 3 C~~Cg~~~~~~~~-~~irC~-~CG~R 26 (32)
T PF03604_consen 3 CGECGAEVELKPG-DPIRCP-ECGHR 26 (32)
T ss_dssp ESSSSSSE-BSTS-STSSBS-SSS-S
T ss_pred CCcCCCeeEcCCC-CcEECC-cCCCe
Confidence 5566665553332 335665 56553
No 258
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 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 (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=26.73 E-value=36 Score=19.38 Aligned_cols=16 Identities=44% Similarity=0.960 Sum_probs=12.7
Q ss_pred ccccccccCCCCCCch
Q 008382 260 FCWNCTEEAHRPVDCG 275 (567)
Q Consensus 260 fC~~C~~~~H~p~~C~ 275 (567)
.|+.|++.-|.-..|.
T Consensus 2 ~C~~C~~~GH~~~~Cp 17 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCP 17 (18)
T ss_dssp BCTTTSCSSSCGCTSS
T ss_pred cCcCCCCcCcccccCc
Confidence 5899999999776664
No 259
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=26.44 E-value=47 Score=40.00 Aligned_cols=16 Identities=25% Similarity=0.447 Sum_probs=7.5
Q ss_pred HHHhHHHHHHhHHHHH
Q 008382 458 FEYLQGEAESGLERLH 473 (567)
Q Consensus 458 fe~~Q~~le~~~e~L~ 473 (567)
||..|....+..|+|.
T Consensus 2419 FEtKer~Fnka~EK~R 2434 (3015)
T KOG0943|consen 2419 FETKERKFNKAMEKLR 2434 (3015)
T ss_pred cchHHHHHHHHHHHHH
Confidence 4444444444444443
No 260
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=26.32 E-value=48 Score=31.59 Aligned_cols=17 Identities=35% Similarity=1.015 Sum_probs=7.5
Q ss_pred ccccccccccCCCCCCc
Q 008382 258 YNFCWNCTEEAHRPVDC 274 (567)
Q Consensus 258 ~~fC~~C~~~~H~p~~C 274 (567)
+..|+.|...-|.-..|
T Consensus 78 ~~iC~~C~~~~H~s~~C 94 (190)
T COG5082 78 HSICYNCSWDGHRSNHC 94 (190)
T ss_pred hhHhhhcCCCCcccccC
Confidence 45555553344444433
No 261
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=25.96 E-value=44 Score=31.88 Aligned_cols=26 Identities=27% Similarity=0.760 Sum_probs=20.6
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (567)
-.||+|+.++.+ .+.|+|.|. .|++.
T Consensus 150 a~~~~~g~~~~~-~~~~~~~c~-~~~~~ 175 (189)
T PRK09521 150 AMCSRCRTPLVK-KGENELKCP-NCGNI 175 (189)
T ss_pred EEccccCCceEE-CCCCEEECC-CCCCE
Confidence 369999999987 455999998 78754
No 262
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=25.95 E-value=59 Score=33.02 Aligned_cols=36 Identities=19% Similarity=0.539 Sum_probs=24.3
Q ss_pred HHHHHHhcCcCCCCCCcceeecCCCCccccCCCCccch
Q 008382 290 NMNWILANSKPCPKCKRPIEKNQGCMHMTCSPPCKFEF 327 (567)
Q Consensus 290 ~~~wi~~ntk~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (567)
-..|.. +-+-||+|+.+.+-..|=-.+.|. .|++.+
T Consensus 104 l~~w~~-~~RFCg~CG~~~~~~~~g~~~~C~-~cg~~~ 139 (279)
T COG2816 104 LLEWYR-SHRFCGRCGTKTYPREGGWARVCP-KCGHEH 139 (279)
T ss_pred HHHHHh-hCcCCCCCCCcCccccCceeeeCC-CCCCcc
Confidence 344533 348899999888877666667776 676554
No 263
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=25.92 E-value=31 Score=35.22 Aligned_cols=28 Identities=36% Similarity=0.848 Sum_probs=17.7
Q ss_pred cCCCCCCcceeecCCCCccccCC-CCccchhhcccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSP-PCKFEFCWLCLG 333 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~-~C~~~FCw~C~~ 333 (567)
--|-+|..+|- ++=+- .|+|.||+.|-.
T Consensus 91 HfCd~Cd~PI~-------IYGRmIPCkHvFCl~CAr 119 (389)
T KOG2932|consen 91 HFCDRCDFPIA-------IYGRMIPCKHVFCLECAR 119 (389)
T ss_pred EeecccCCcce-------eeecccccchhhhhhhhh
Confidence 46999999987 22210 366666666643
No 264
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=25.85 E-value=51 Score=20.48 Aligned_cols=7 Identities=57% Similarity=1.644 Sum_probs=3.8
Q ss_pred cCCCCCC
Q 008382 299 KPCPKCK 305 (567)
Q Consensus 299 k~CPkC~ 305 (567)
-.||+|+
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 3566654
No 265
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=25.82 E-value=1.3e+03 Score=28.21 Aligned_cols=14 Identities=50% Similarity=1.258 Sum_probs=11.3
Q ss_pred CcCCCCCCcceeec
Q 008382 298 SKPCPKCKRPIEKN 311 (567)
Q Consensus 298 tk~CPkC~~~IEK~ 311 (567)
.-.||+|++|+|-.
T Consensus 796 ~~~~~~~~~~~~~~ 809 (1006)
T PRK12775 796 VATCPKCHRPLEGD 809 (1006)
T ss_pred CccCcccCCCCCCC
Confidence 35799999999844
No 266
>PRK08115 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=25.80 E-value=35 Score=40.10 Aligned_cols=25 Identities=36% Similarity=1.031 Sum_probs=20.5
Q ss_pred cCCCCCCc-ceeecCCCCccccCCCCccc
Q 008382 299 KPCPKCKR-PIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPkC~~-~IEK~~GCnhm~C~~~C~~~ 326 (567)
-.||-|+. .|+..|||| +|. .|+.+
T Consensus 828 ~~cp~c~~~~~~~~~~c~--~c~-~c~~~ 853 (858)
T PRK08115 828 NTCPVCREGTVEEIGGCN--TCT-NCGAQ 853 (858)
T ss_pred CCCCccCCCceeecCCCc--ccc-chhhh
Confidence 47999964 788999999 598 78765
No 267
>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=25.63 E-value=68 Score=23.54 Aligned_cols=47 Identities=21% Similarity=0.524 Sum_probs=22.7
Q ss_pred ccccccccccccCCeeecCCCCcccHhhHHHHHHhhhcCCCCccccccCCCCCCC
Q 008382 141 LTCGICFDTYSCDKVVSAACGHPFCRACWRGYISATVNDGPGCLMLRCPDPSCCA 195 (567)
Q Consensus 141 ~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~ 195 (567)
+.|+|.+.... .......|.|.-|.+ +..|+......+ ..+|| -|..
T Consensus 3 L~CPls~~~i~-~P~Rg~~C~H~~CFD-l~~fl~~~~~~~----~W~CP--iC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIR-IPVRGKNCKHLQCFD-LESFLESNQRTP----KWKCP--ICNK 49 (50)
T ss_dssp SB-TTTSSB-S-SEEEETT--SS--EE-HHHHHHHHHHS-------B-T--TT--
T ss_pred eeCCCCCCEEE-eCccCCcCcccceEC-HHHHHHHhhccC----CeECc--CCcC
Confidence 57888887652 233456799997754 667777666544 47899 4653
No 268
>KOG0219 consensus Mismatch repair ATPase MSH2 (MutS family) [Replication, recombination and repair]
Probab=25.52 E-value=9.9e+02 Score=28.19 Aligned_cols=27 Identities=19% Similarity=0.358 Sum_probs=17.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 008382 490 SKEFNDFRTKLAGLTSVTKNYFENLVR 516 (567)
Q Consensus 490 ~~~~~~~~~~~~~l~~~~~~~~~~~~~ 516 (567)
.+++.++|++|..|...+.......-.
T Consensus 458 deeL~eLrq~LdeL~~~m~~~hkrv~~ 484 (902)
T KOG0219|consen 458 DEELQELREKLDELERKMEKLHKKVSA 484 (902)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 377889999988886665544433333
No 269
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=25.48 E-value=72 Score=24.84 Aligned_cols=33 Identities=30% Similarity=0.473 Sum_probs=19.0
Q ss_pred CcccCCCCCCCCceecccCCCCceeee-cCCcccc
Q 008382 228 KTKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFC 261 (567)
Q Consensus 228 ~~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC 261 (567)
.++.||.-+|..+.... ..+-..+.| .|+...+
T Consensus 5 ~lKPCPFCG~~~~~v~~-~~g~~~v~C~~CgA~~~ 38 (64)
T PRK09710 5 NVKPCPFCGCPSVTVKA-ISGYYRAKCNGCESRTG 38 (64)
T ss_pred cccCCCCCCCceeEEEe-cCceEEEEcCCCCcCcc
Confidence 57899994444333322 234455778 7887644
No 270
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=25.46 E-value=42 Score=26.17 Aligned_cols=17 Identities=24% Similarity=0.751 Sum_probs=11.5
Q ss_pred cccHhhHHHHHHhhhcC
Q 008382 163 PFCRACWRGYISATVND 179 (567)
Q Consensus 163 ~fC~~Cl~~y~~~~i~~ 179 (567)
-||+.|+..|+...-.+
T Consensus 11 gFCRNCLskWy~~aA~~ 27 (68)
T PF06844_consen 11 GFCRNCLSKWYREAAEE 27 (68)
T ss_dssp S--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 38999999998776543
No 271
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=25.41 E-value=38 Score=25.49 Aligned_cols=22 Identities=27% Similarity=0.699 Sum_probs=14.8
Q ss_pred CcCCCCCCcceeecCCCCccccCCCCcc
Q 008382 298 SKPCPKCKRPIEKNQGCMHMTCSPPCKF 325 (567)
Q Consensus 298 tk~CPkC~~~IEK~~GCnhm~C~~~C~~ 325 (567)
.-.||.|+.+.. .|-.|. .||+
T Consensus 26 l~~C~~cG~~~~-----~H~vc~-~cG~ 47 (55)
T TIGR01031 26 LVVCPNCGEFKL-----PHRVCP-SCGY 47 (55)
T ss_pred ceECCCCCCccc-----CeeECC-ccCe
Confidence 457999998876 555665 4553
No 272
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=24.61 E-value=73 Score=27.79 Aligned_cols=39 Identities=21% Similarity=0.608 Sum_probs=25.9
Q ss_pred ccCCCCCCCCceecccC------CCCceeee-cCCccccccccccCCC
Q 008382 230 KWCPAPGCEHAIDFAAG------SGNFDVSC-LCSYNFCWNCTEEAHR 270 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~------~~~~~v~C-~C~~~fC~~C~~~~H~ 270 (567)
..|-+ |...+...+. .......| .|+..||..|..-+|.
T Consensus 56 ~~C~~--C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe 101 (112)
T TIGR00622 56 RFCFG--CQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHE 101 (112)
T ss_pred CcccC--cCCCCCCcccccccccccccceeCCCCCCccccccchhhhh
Confidence 45776 8775542211 11234679 9999999999887774
No 274
>PHA02325 hypothetical protein
Probab=24.53 E-value=34 Score=26.41 Aligned_cols=12 Identities=42% Similarity=0.935 Sum_probs=9.1
Q ss_pred cCcCCCCCCcce
Q 008382 297 NSKPCPKCKRPI 308 (567)
Q Consensus 297 ntk~CPkC~~~I 308 (567)
++|.||+|+..-
T Consensus 2 ~~k~CPkC~A~W 13 (72)
T PHA02325 2 DTKICPKCGARW 13 (72)
T ss_pred CccccCccCCEe
Confidence 468999998653
No 275
>COG0021 TktA Transketolase [Carbohydrate transport and metabolism]
Probab=24.07 E-value=3.5e+02 Score=30.83 Aligned_cols=101 Identities=20% Similarity=0.288 Sum_probs=56.5
Q ss_pred HHHHHHHHHhcccceeecccCccchhhhhHHHHh---HHHHHHhHHHHHHHHH-------HHHHHhhccccchhhHHHHH
Q 008382 428 LQIVECRRVLKWTYAYGYYLPEHEHAKRQFFEYL---QGEAESGLERLHQCAE-------KELLQFLNDESQSKEFNDFR 497 (567)
Q Consensus 428 ~~l~~~r~~L~~sy~~~yy~~~~~~~~~~~fe~~---Q~~le~~~e~L~~~le-------~~~~~~~~~~~~~~~~~~~~ 497 (567)
+.+...|..|-|.|.- ||.+++ ....|+.. ...+|..-+.+-..-+ .++...+....|. .+..+.
T Consensus 270 ~ev~~~k~~lgw~~~~-F~vp~e---v~~~~~~~~~~g~~~~~~W~~~~~~y~~~~Pe~~~~~~r~~~~~~p~-~~~~~~ 344 (663)
T COG0021 270 EEVAAAKKALGWEPEP-FEVPEE---VYAAFRAVEERGAKAEAAWNELFAAYKKKYPELAAEFERRLNGELPA-NWAAFL 344 (663)
T ss_pred HHHHHHHHHhCCCCCc-eecCHH---HHHHHHHHhhhhhhHHHHHHHHHHHHHhhChHHHHHHHHHhcccCch-hHHHhh
Confidence 4577888999999988 988654 34444422 2233333332222211 2333334444442 121121
Q ss_pred HHHH--HHHHHHHHHHHHHHHHHHcccccccccccccc
Q 008382 498 TKLA--GLTSVTKNYFENLVRALENGLADVDSHAACSK 533 (567)
Q Consensus 498 ~~~~--~l~~~~~~~~~~~~~~~e~~l~~~~~~~~~~~ 533 (567)
.++. .....||+...+.+++|-.-|+++-.-.|.=+
T Consensus 345 ~~~~~~~~~~ATR~as~~~L~~l~~~~p~l~GGSADLa 382 (663)
T COG0021 345 PKFEANGKSIATRKASGKALNALAKKLPELIGGSADLA 382 (663)
T ss_pred hhhcccccccchHHHHHHHHHHHHhhCccccccCcccc
Confidence 1111 22358899999999999999999966555433
No 276
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=24.03 E-value=69 Score=24.17 Aligned_cols=12 Identities=42% Similarity=0.667 Sum_probs=8.2
Q ss_pred CcccCCCCCCCCce
Q 008382 228 KTKWCPAPGCEHAI 241 (567)
Q Consensus 228 ~~~~CP~~~C~~~i 241 (567)
.++.||. |+...
T Consensus 2 ~LkPCPF--CG~~~ 13 (61)
T PF14354_consen 2 ELKPCPF--CGSAD 13 (61)
T ss_pred CCcCCCC--CCCcc
Confidence 4678998 76543
No 277
>PF04803 Cor1: Cor1/Xlr/Xmr conserved region; InterPro: IPR006888 Cor1 is a component of the chromosome core in the meiotic prophase chromosomes []. Xlr is a lymphoid cell specific protein []. Xmr is abundantly transcribed in testis in a tissue-specific and developmentally regulated manner. The protein is located in the nuclei of spermatocytes, early in the prophase of the first meiotic division, and later becomes concentrated in the XY nuclear subregion where it is in particular associated with the axes of sex chromosomes [].
Probab=23.76 E-value=5.3e+02 Score=23.08 Aligned_cols=11 Identities=9% Similarity=0.951 Sum_probs=4.9
Q ss_pred hhHHHHHHHhh
Q 008382 376 KYTHYYERWAS 386 (567)
Q Consensus 376 ry~~y~~r~~~ 386 (567)
.|..-|..|..
T Consensus 47 q~~~l~~qw~~ 57 (130)
T PF04803_consen 47 QFSTLFQQWEA 57 (130)
T ss_pred HHHHHHHHHHH
Confidence 34444444444
No 278
>PF14369 zf-RING_3: zinc-finger
Probab=23.67 E-value=64 Score=21.86 Aligned_cols=29 Identities=31% Similarity=0.812 Sum_probs=17.9
Q ss_pred cccCCCCCCCCceecccCCCCceeee-cCCccc
Q 008382 229 TKWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNF 260 (567)
Q Consensus 229 ~~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~f 260 (567)
.-||-. |...|..... ....+.| .|+..|
T Consensus 2 ~ywCh~--C~~~V~~~~~-~~~~~~CP~C~~gF 31 (35)
T PF14369_consen 2 RYWCHQ--CNRFVRIAPS-PDSDVACPRCHGGF 31 (35)
T ss_pred CEeCcc--CCCEeEeCcC-CCCCcCCcCCCCcE
Confidence 358988 9998887532 2233457 666544
No 279
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.52 E-value=37 Score=34.15 Aligned_cols=31 Identities=23% Similarity=0.814 Sum_probs=20.6
Q ss_pred CcCCCCCCcceeecCCCCccccCCCCccchhhccccc
Q 008382 298 SKPCPKCKRPIEKNQGCMHMTCSPPCKFEFCWLCLGA 334 (567)
Q Consensus 298 tk~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (567)
++.||-|+.+-- +.|+=. +|+|-+||.|...
T Consensus 239 ~~~C~~Cg~~Pt-----iP~~~~-~C~HiyCY~Ci~t 269 (298)
T KOG2879|consen 239 DTECPVCGEPPT-----IPHVIG-KCGHIYCYYCIAT 269 (298)
T ss_pred CceeeccCCCCC-----CCeeec-cccceeehhhhhh
Confidence 578999987533 222222 4888889999764
No 280
>PF03115 Astro_capsid: Astrovirus capsid protein precursor; InterPro: IPR004337 The astrovirus genome is apparently organised with nonstructural proteins encoded at the 5' end and structural proteins at the 3' end []. Proteins in this family are encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The proteins contain a viral RNA-dependent RNA polymerase motif []. The 87kDa precursor polyprotein undergoes an intracellular cleavage to form a 79kDa protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [].; PDB: 3QSQ_A 3TS3_D.
Probab=23.49 E-value=27 Score=40.68 Aligned_cols=7 Identities=29% Similarity=0.259 Sum_probs=0.0
Q ss_pred CCCHHHH
Q 008382 90 SISRVDA 96 (567)
Q Consensus 90 ~i~~~~a 96 (567)
+++.++|
T Consensus 721 Gi~eerA 727 (787)
T PF03115_consen 721 GIPEERA 727 (787)
T ss_dssp -------
T ss_pred CCCHHHH
Confidence 5555544
No 281
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=23.45 E-value=65 Score=38.73 Aligned_cols=60 Identities=23% Similarity=0.692 Sum_probs=41.0
Q ss_pred ccCCCCCCCCceecccCCCCceeee-cCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHHHHHhcCcCCCCCCcce
Q 008382 230 KWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPI 308 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntk~CPkC~~~I 308 (567)
.-|-- |+--|... ..|..-|-| .|++-.|..|-+ +.+ . ..++-||+|+...
T Consensus 18 qiCqI--CGD~vg~~-~~Ge~FVAC~eC~FPVCrpCYE----------YEr------~---------eG~q~CPqCktrY 69 (1079)
T PLN02638 18 QVCQI--CGDNVGKT-VDGEPFVACDVCAFPVCRPCYE----------YER------K---------DGNQSCPQCKTKY 69 (1079)
T ss_pred ceeee--cccccCcC-CCCCEEEEeccCCCccccchhh----------hhh------h---------cCCccCCccCCch
Confidence 35655 87777665 456677999 999999988852 111 1 1237899999888
Q ss_pred eecCCCCcc
Q 008382 309 EKNQGCMHM 317 (567)
Q Consensus 309 EK~~GCnhm 317 (567)
.+--||..+
T Consensus 70 kr~kgsprv 78 (1079)
T PLN02638 70 KRHKGSPAI 78 (1079)
T ss_pred hhhcCCCCc
Confidence 866676654
No 282
>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=23.27 E-value=44 Score=32.81 Aligned_cols=54 Identities=20% Similarity=0.408 Sum_probs=34.5
Q ss_pred cccCCCCCCCc--cchhHHHhhcChHHHHHHHHHHHHHHHhcCCCcccCCCCCCCCceecc
Q 008382 186 LRCPDPSCCAA--VGQDMIDMLASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDFA 244 (567)
Q Consensus 186 i~CP~~~C~~~--v~~~~i~~ll~~e~~~ky~~~~~~~~v~~~~~~~~CP~~~C~~~i~~~ 244 (567)
-+||. |..- +++ .+.-++.++-+.+............. ...||.++|+.+++..
T Consensus 11 ~~CPv--CksDrYLnP-dik~linPECyHrmCESCvdRIFs~G--pAqCP~~gC~kILRK~ 66 (314)
T COG5220 11 RRCPV--CKSDRYLNP-DIKILINPECYHRMCESCVDRIFSRG--PAQCPYKGCGKILRKI 66 (314)
T ss_pred ccCCc--cccccccCC-CeEEEECHHHHHHHHHHHHHHHhcCC--CCCCCCccHHHHHHHh
Confidence 47994 6553 333 45667787777665555555444433 4689999999877653
No 283
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=23.25 E-value=54 Score=23.15 Aligned_cols=29 Identities=28% Similarity=0.736 Sum_probs=15.1
Q ss_pred CCCCCCCCceecccCCCCceeee-cCCcccccccccc
Q 008382 232 CPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEE 267 (567)
Q Consensus 232 CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~ 267 (567)
|..++|..... ..+.| .|+..||...+.+
T Consensus 1 C~~~~C~~~~~-------~~~~C~~C~~~FC~~Hr~~ 30 (43)
T PF01428_consen 1 CSFPGCKKKDF-------LPFKCKHCGKSFCLKHRLP 30 (43)
T ss_dssp -SSTTT--BCT-------SHEE-TTTS-EE-TTTHST
T ss_pred CccCcCcCccC-------CCeECCCCCcccCccccCc
Confidence 44456764321 45789 7999999987643
No 284
>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]
Probab=23.00 E-value=1.7e+03 Score=29.32 Aligned_cols=65 Identities=15% Similarity=0.188 Sum_probs=30.5
Q ss_pred HHHHHHhhhHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHHHHHHh
Q 008382 369 MAKNSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLEKLSDIQCTPESQLKFIIDAWLQIVECRRVL 437 (567)
Q Consensus 369 ~~k~~l~ry~~y~~r~~~h~~s~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~a~~~l~~~r~~L 437 (567)
.+.+.|.+|.-=..-+..+....+.+..++.......-+++... ..++.-|...+..+.++|+.+
T Consensus 1629 d~~K~lkk~q~~~k~lq~~~e~~~~~~~e~~~q~~~aerr~~~l----~~E~eeL~~~l~~~~Rarr~a 1693 (1930)
T KOG0161|consen 1629 DAQKQLKKLQAQLKELQRELEDAQRAREELLEQLAEAERRLAAL----QAELEELREKLEALERARRQA 1693 (1930)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhh
Confidence 33444545544444444444444444444433222222222221 135566666666777777666
No 285
>PRK05580 primosome assembly protein PriA; Validated
Probab=22.87 E-value=57 Score=37.72 Aligned_cols=34 Identities=21% Similarity=0.639 Sum_probs=22.5
Q ss_pred CCCCCCcceeecCCCCccccCCCCccc-----hhhccccc
Q 008382 300 PCPKCKRPIEKNQGCMHMTCSPPCKFE-----FCWLCLGA 334 (567)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~~-----FCw~C~~~ 334 (567)
.||+|..++.--..=+.+.|. .||+. .|-.|++.
T Consensus 392 ~C~~C~~~l~~h~~~~~l~Ch-~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 392 ECPHCDASLTLHRFQRRLRCH-HCGYQEPIPKACPECGST 430 (679)
T ss_pred CCCCCCCceeEECCCCeEECC-CCcCCCCCCCCCCCCcCC
Confidence 588887776533333567887 78876 47777653
No 286
>PRK14011 prefoldin subunit alpha; Provisional
Probab=22.42 E-value=4.1e+02 Score=24.24 Aligned_cols=35 Identities=14% Similarity=0.079 Sum_probs=26.3
Q ss_pred ecccCccchhhhhHHHHhHHHHHHhHHHHHHHHHH
Q 008382 444 GYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEK 478 (567)
Q Consensus 444 ~yy~~~~~~~~~~~fe~~Q~~le~~~e~L~~~le~ 478 (567)
|||....-....++|+..-+.+++..+.|.+.|++
T Consensus 79 Gy~VEk~~~eA~~~~~~ri~~l~~~~~~l~~~i~~ 113 (144)
T PRK14011 79 DIYLEKDVSEVIEDFKKSVEELDKTKKEGNKKIEE 113 (144)
T ss_pred CeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78886666667788888888888888877766654
No 287
>PRK14873 primosome assembly protein PriA; Provisional
Probab=22.09 E-value=57 Score=37.60 Aligned_cols=34 Identities=21% Similarity=0.408 Sum_probs=20.4
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccc----hhhcccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFE----FCWLCLG 333 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~----FCw~C~~ 333 (567)
-.||+|..++.-..+=+.+.|. .||+. .|-.|+.
T Consensus 393 ~~C~~C~~~L~~h~~~~~l~Ch-~CG~~~~p~~Cp~Cgs 430 (665)
T PRK14873 393 ARCRHCTGPLGLPSAGGTPRCR-WCGRAAPDWRCPRCGS 430 (665)
T ss_pred eECCCCCCceeEecCCCeeECC-CCcCCCcCccCCCCcC
Confidence 3577777666644344567777 67753 3555554
No 288
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=21.95 E-value=35 Score=29.61 Aligned_cols=18 Identities=33% Similarity=1.016 Sum_probs=11.9
Q ss_pred cCCCCCCccee---ecCCCCc
Q 008382 299 KPCPKCKRPIE---KNQGCMH 316 (567)
Q Consensus 299 k~CPkC~~~IE---K~~GCnh 316 (567)
-.||+|+++.- |.+.|+|
T Consensus 70 V~CP~C~K~TKmLGr~D~CM~ 90 (114)
T PF11023_consen 70 VECPNCGKQTKMLGRVDACMH 90 (114)
T ss_pred eECCCCCChHhhhchhhccCc
Confidence 47999998753 4455544
No 289
>PRK01343 zinc-binding protein; Provisional
Probab=21.94 E-value=43 Score=25.46 Aligned_cols=12 Identities=42% Similarity=1.412 Sum_probs=10.3
Q ss_pred CcCCCCCCccee
Q 008382 298 SKPCPKCKRPIE 309 (567)
Q Consensus 298 tk~CPkC~~~IE 309 (567)
++.||.|+++..
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 488999999876
No 290
>TIGR02443 conserved hypothetical metal-binding protein. Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N-terminus and a probable metal-binding motif CPXCX(18)CXXC. Members are found in various Proteobacteria.
Probab=21.82 E-value=61 Score=24.78 Aligned_cols=27 Identities=22% Similarity=0.672 Sum_probs=18.5
Q ss_pred cCCCCCCcc----eeecCCCCccccCCCCccc
Q 008382 299 KPCPKCKRP----IEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPkC~~~----IEK~~GCnhm~C~~~C~~~ 326 (567)
-.||+|+.+ +-+..|=.++.|. .|||.
T Consensus 10 A~CP~C~~~Dtl~~~~e~~~e~vECv-~Cg~~ 40 (59)
T TIGR02443 10 AVCPACSAQDTLAMWKENNIELVECV-ECGYQ 40 (59)
T ss_pred ccCCCCcCccEEEEEEeCCceEEEec-cCCCc
Confidence 369999863 2245666778888 78764
No 291
>PRK10984 DNA-binding transcriptional regulator Crl; Provisional
Probab=21.76 E-value=88 Score=27.78 Aligned_cols=49 Identities=14% Similarity=0.270 Sum_probs=29.4
Q ss_pred HHhcccceeecccCccchhhhhHHH-HhHHHHHHhHHHHHHHHHHHHHHh
Q 008382 435 RVLKWTYAYGYYLPEHEHAKRQFFE-YLQGEAESGLERLHQCAEKELLQF 483 (567)
Q Consensus 435 ~~L~~sy~~~yy~~~~~~~~~~~fe-~~Q~~le~~~e~L~~~le~~~~~~ 483 (567)
....|+|-+|.|-...+=....|=+ ..|.++++.++..++.|..-|.++
T Consensus 65 ~~F~y~Y~~Glydk~G~W~~~~i~~~~~~e~v~~Tl~~Fh~kL~~~L~~~ 114 (127)
T PRK10984 65 GRFTYSYQFGLFDKEGNWVAEPIKDKEVVERLEHTLREFHEKLRELLATL 114 (127)
T ss_pred CcEEEEEecccccCCCCeeeccCCcHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4567888899897544322223333 236667777777777666655444
No 292
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.64 E-value=30 Score=31.87 Aligned_cols=27 Identities=15% Similarity=0.431 Sum_probs=18.5
Q ss_pred CcccccccccccccC-CeeecCCCCccc
Q 008382 139 RELTCGICFDTYSCD-KVVSAACGHPFC 165 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~-~~~~l~CgH~fC 165 (567)
..-+|.||++++... .+..|||-.+|-
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYH 203 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYH 203 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEee
Confidence 456799999887554 455688865553
No 293
>PF14353 CpXC: CpXC protein
Probab=21.54 E-value=41 Score=29.76 Aligned_cols=46 Identities=22% Similarity=0.515 Sum_probs=26.2
Q ss_pred cccCCCCCCCccchhHHHhh---cChHHHHHHHHHHHHHHHhcCCCcccCCCCCCCCceec
Q 008382 186 LRCPDPSCCAAVGQDMIDML---ASDEDKKKYSRYLLRSYVEDNRKTKWCPAPGCEHAIDF 243 (567)
Q Consensus 186 i~CP~~~C~~~v~~~~i~~l---l~~e~~~ky~~~~~~~~v~~~~~~~~CP~~~C~~~i~~ 243 (567)
++|| .|+..+..+....+ ..+++.++ .+...-....||. |+..+..
T Consensus 2 itCP--~C~~~~~~~v~~~I~~~~~p~l~e~--------il~g~l~~~~CP~--Cg~~~~~ 50 (128)
T PF14353_consen 2 ITCP--HCGHEFEFEVWTSINADEDPELKEK--------ILDGSLFSFTCPS--CGHKFRL 50 (128)
T ss_pred cCCC--CCCCeeEEEEEeEEcCcCCHHHHHH--------HHcCCcCEEECCC--CCCceec
Confidence 6899 58887754433332 33343332 2333445678988 8876654
No 294
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=21.39 E-value=47 Score=40.32 Aligned_cols=39 Identities=28% Similarity=0.555 Sum_probs=29.7
Q ss_pred CCCcccccccccccccCCeeecCCCCcccHhhHHHHHHhh
Q 008382 137 NARELTCGICFDTYSCDKVVSAACGHPFCRACWRGYISAT 176 (567)
Q Consensus 137 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~Cl~~y~~~~ 176 (567)
...++.|+||.+..... -....|||.+|..|...+...+
T Consensus 1150 ~~~~~~c~ic~dil~~~-~~I~~cgh~~c~~c~~~~l~~~ 1188 (1394)
T KOG0298|consen 1150 LSGHFVCEICLDILRNQ-GGIAGCGHEPCCRCDELWLYAS 1188 (1394)
T ss_pred hhcccchHHHHHHHHhc-CCeeeechhHhhhHHHHHHHHh
Confidence 34578999999987322 2335799999999999998653
No 295
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=21.32 E-value=2.2e+02 Score=28.58 Aligned_cols=18 Identities=39% Similarity=0.444 Sum_probs=14.0
Q ss_pred HHHHHHHHHccccccccc
Q 008382 511 FENLVRALENGLADVDSH 528 (567)
Q Consensus 511 ~~~~~~~~e~~l~~~~~~ 528 (567)
-+.|+..||++|..+...
T Consensus 18 ~~~L~~kLE~DL~~~~~~ 35 (248)
T PF08172_consen 18 QKELNAKLENDLAKVQAS 35 (248)
T ss_pred HHHHHHHHHHHHHHHhcc
Confidence 566888889988888655
No 296
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=21.30 E-value=62 Score=27.60 Aligned_cols=23 Identities=26% Similarity=0.645 Sum_probs=19.4
Q ss_pred CCCCcccHhhHHHHHHhhhcCCCCccccccCC
Q 008382 159 ACGHPFCRACWRGYISATVNDGPGCLMLRCPD 190 (567)
Q Consensus 159 ~CgH~fC~~Cl~~y~~~~i~~g~~~~~i~CP~ 190 (567)
.|.|.|-.-|+.+++.+ .-.||-
T Consensus 80 ~CNHaFH~hCisrWlkt---------r~vCPL 102 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKT---------RNVCPL 102 (114)
T ss_pred ecchHHHHHHHHHHHhh---------cCcCCC
Confidence 49999999999999976 347885
No 297
>COG1315 Uncharacterized conserved protein [Function unknown]
Probab=21.26 E-value=5.7e+02 Score=28.30 Aligned_cols=39 Identities=15% Similarity=0.149 Sum_probs=28.9
Q ss_pred HHHhhhHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 008382 372 NSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLEKLS 410 (567)
Q Consensus 372 ~~l~ry~~y~~r~~~h~~s~~~~~~~l~~~~~~~~~~l~ 410 (567)
...+|+..|-++...|+..++++...|..+++.+++...
T Consensus 407 e~~~~l~~lt~~~~~~ee~l~~Lt~~l~~l~~~~i~~~~ 445 (543)
T COG1315 407 EIVERLKELTEEISLHEERLKKLTKLLVALVKVKIESKK 445 (543)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 345677788888899999998888888877766444443
No 298
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.97 E-value=9.5e+02 Score=26.53 Aligned_cols=134 Identities=19% Similarity=0.170 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc--hhHHHHHHHHHHHHHHHHHhcc
Q 008382 362 ETERRREMAKNSLEKYTHYYERWASNQSSRQKALADLHQMQTVHLEKLSDIQCTPE--SQLKFIIDAWLQIVECRRVLKW 439 (567)
Q Consensus 362 ~~~~~~~~~k~~l~ry~~y~~r~~~h~~s~~~~~~~l~~~~~~~~~~l~~~~~~~~--~~~~~l~~a~~~l~~~r~~L~~ 439 (567)
....+.+++|+.+.+-.|-.-|-.....-+.+--..|....++...++..+..... .++++....+..+.+... -.-
T Consensus 373 d~~~KI~~~k~r~~~Ls~RiLRv~ikqeilr~~G~~L~~~EE~Lr~Kldtll~~ln~Pnq~k~Rl~~L~e~~r~q~-~~~ 451 (508)
T KOG3091|consen 373 DAVAKIEEAKNRHVELSHRILRVMIKQEILRKRGYALTPDEEELRAKLDTLLAQLNAPNQLKARLDELYEILRMQN-SQL 451 (508)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcCCccHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHhhc-chh
Q ss_pred cceeecccCccchhhhhHHHHhHHHHHHhHHHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHHHH
Q 008382 440 TYAYGYYLPEHEHAKRQFFEYLQGEAESGLERLHQCAEKELLQFLNDESQSKEFNDFRTKLAGLTSVTKNYFE 512 (567)
Q Consensus 440 sy~~~yy~~~~~~~~~~~fe~~Q~~le~~~e~L~~~le~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 512 (567)
.-.-.||+ +.....++.|+++.+. ..+..|+..|..+++ +++..|+.-.-+.+.+++
T Consensus 452 ~~~~~~~i--D~~~~~e~~e~lt~~~-e~l~~Lv~Ilk~d~e-------------di~~~l~E~~~~~~~~~~ 508 (508)
T KOG3091|consen 452 KLQESYWI--DFDKLIEMKEHLTQEQ-EALTKLVNILKGDQE-------------DIKHQLIEDLEICRKSLE 508 (508)
T ss_pred ccccceee--chhhhHHHHHHHHHHH-HHHHHHHHHHHhHHH-------------HHHHHHHhhHHHHhhhcC
No 299
>PF03615 GCM: GCM motif protein; InterPro: IPR003902 GCM transcription factors are a family of proteins which contain a GCM motif. The GCM motif is a domain that has been identified in proteins belonging to a family of transcriptional regulators involved in fundamental developmental processes which comprise Drosophila melanogaster GCM and its mammalian homologs [, , , ]. IN GCM transcription factors the N-terminal moiety contains a DNA-binding domain of 150 residues. Sequence conservation is highest in this GCM domain. In contrast, the C-terminal moiety contains one or two transactivating regions and is only poorly conserved. The GCM motif has been shown to be a DNA binding domain that recognises preferentially the nonpalindromic octamer 5'-ATGCGGGT-3' [, , ]. The GCM motif contains many conserved basic amino acid residues, seven cysteine residues, and four histidine residues []. The conserved cysteines are involved in shaping the overall conformation of the domain, in the process of DNA binding and in the redox regulation of DNA binding []. The GCM domain as a new class of Zn-containing DNA-binding domain with no similarity to any other DNA-binding domain []. The GCM domain consists of a large and a small domain tethered together by one of the two Zn ions present in the structure. The large and the small domains comprise five- and three-stranded beta-sheets, respectively, with three small helical segments packed against the same side of the two beta-sheets. The GCM domain exercises a novel mode of sequence-specific DNA recognition, where the five-stranded beta-pleated sheet inserts into the major groove of the DNA. Residues protruding from the edge strand of the beta-pleated sheet and the following loop and strand contact the bases and backbone of both DNA strands, providing specificity for its DNA target site. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1ODH_A.
Probab=20.75 E-value=87 Score=28.00 Aligned_cols=22 Identities=41% Similarity=1.123 Sum_probs=11.1
Q ss_pred cCCCC--CCcceeecCCCCccccCCCCccc
Q 008382 299 KPCPK--CKRPIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPk--C~~~IEK~~GCnhm~C~~~C~~~ 326 (567)
|+||+ |.-.++ ++-|+..||+-
T Consensus 83 k~Cpn~~C~g~L~------~~pCrGh~GYP 106 (143)
T PF03615_consen 83 KPCPNRNCKGRLE------LIPCRGHCGYP 106 (143)
T ss_dssp SB-SS--S--BEE------EE---TBTTB-
T ss_pred CCCCccccCCcee------EEeccCcCCCc
Confidence 99999 998887 57787445543
No 300
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.63 E-value=48 Score=25.70 Aligned_cols=13 Identities=38% Similarity=1.152 Sum_probs=11.3
Q ss_pred CcCCCCCCcceee
Q 008382 298 SKPCPKCKRPIEK 310 (567)
Q Consensus 298 tk~CPkC~~~IEK 310 (567)
+.+||.|+++++.
T Consensus 7 ~v~CP~Cgkpv~w 19 (65)
T COG3024 7 TVPCPTCGKPVVW 19 (65)
T ss_pred cccCCCCCCcccc
Confidence 5799999999985
No 301
>COG4640 Predicted membrane protein [Function unknown]
Probab=20.32 E-value=52 Score=34.78 Aligned_cols=8 Identities=63% Similarity=1.327 Sum_probs=6.0
Q ss_pred cCCCCCCc
Q 008382 299 KPCPKCKR 306 (567)
Q Consensus 299 k~CPkC~~ 306 (567)
+.||+|+.
T Consensus 2 ~fC~kcG~ 9 (465)
T COG4640 2 KFCPKCGS 9 (465)
T ss_pred Cccccccc
Confidence 57888884
No 302
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=20.19 E-value=61 Score=30.83 Aligned_cols=25 Identities=28% Similarity=0.857 Sum_probs=18.3
Q ss_pred cCCCCCCcceeecCCCCccccCCCCccc
Q 008382 299 KPCPKCKRPIEKNQGCMHMTCSPPCKFE 326 (567)
Q Consensus 299 k~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (567)
-.|++|+.++++ .| +.|+|. .||+.
T Consensus 150 A~CsrC~~~L~~-~~-~~l~Cp-~Cg~t 174 (188)
T COG1096 150 ARCSRCRAPLVK-KG-NMLKCP-NCGNT 174 (188)
T ss_pred EEccCCCcceEE-cC-cEEECC-CCCCE
Confidence 479999999888 44 447887 77653
No 303
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=20.06 E-value=1e+02 Score=28.60 Aligned_cols=48 Identities=21% Similarity=0.502 Sum_probs=32.8
Q ss_pred CcccccccccccccCCeeecCCC--C---cccHhhHHHHHHhhhcCCCCccccccCCCCCCCccc
Q 008382 139 RELTCGICFDTYSCDKVVSAACG--H---PFCRACWRGYISATVNDGPGCLMLRCPDPSCCAAVG 198 (567)
Q Consensus 139 ~~~~C~IC~e~~~~~~~~~l~Cg--H---~fC~~Cl~~y~~~~i~~g~~~~~i~CP~~~C~~~v~ 198 (567)
....|-||+++.. .. .-||. . ....+|+..|+... + ..+|| .|...+.
T Consensus 7 ~~~~CRIC~~~~~-~~--~~PC~CkGs~k~VH~sCL~rWi~~s---~----~~~Ce--iC~~~Y~ 59 (162)
T PHA02825 7 MDKCCWICKDEYD-VV--TNYCNCKNENKIVHKECLEEWINTS---K----NKSCK--ICNGPYN 59 (162)
T ss_pred CCCeeEecCCCCC-Cc--cCCcccCCCchHHHHHHHHHHHhcC---C----CCccc--ccCCeEE
Confidence 3568999998753 22 23554 3 45899999999753 2 57898 5877653
No 304
>PLN02436 cellulose synthase A
Probab=20.02 E-value=84 Score=37.78 Aligned_cols=60 Identities=25% Similarity=0.664 Sum_probs=40.8
Q ss_pred ccCCCCCCCCceecccCCCCceeee-cCCccccccccccCCCCCCchhHHHHHHHhhhhHHHHHHHHhcCcCCCCCCcce
Q 008382 230 KWCPAPGCEHAIDFAAGSGNFDVSC-LCSYNFCWNCTEEAHRPVDCGTVAKWILKNCAESENMNWILANSKPCPKCKRPI 308 (567)
Q Consensus 230 ~~CP~~~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntk~CPkC~~~I 308 (567)
.-|.- |+--|... ..+..-|-| .|++-.|..|-+ +. .. ..++.||+|+...
T Consensus 37 ~iCqI--CGD~Vg~t-~dGe~FVACn~C~fpvCr~Cye----------ye------r~---------eg~~~Cpqckt~Y 88 (1094)
T PLN02436 37 QTCQI--CGDEIELT-VDGEPFVACNECAFPVCRPCYE----------YE------RR---------EGNQACPQCKTRY 88 (1094)
T ss_pred ccccc--cccccCcC-CCCCEEEeeccCCCccccchhh----------hh------hh---------cCCccCcccCCch
Confidence 45655 77666554 346677999 899999988852 11 01 1227899999988
Q ss_pred eecCCCCcc
Q 008382 309 EKNQGCMHM 317 (567)
Q Consensus 309 EK~~GCnhm 317 (567)
.+-.|++.+
T Consensus 89 ~r~kgs~~~ 97 (1094)
T PLN02436 89 KRIKGSPRV 97 (1094)
T ss_pred hhccCCCCc
Confidence 876677654
Done!