Query 007671
Match_columns 594
No_of_seqs 488 out of 1761
Neff 7.4
Searched_HMMs 46136
Date Thu Mar 28 13:46:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007671.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007671hhsearch_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 4.9E-71 1.1E-75 600.0 28.7 436 69-528 2-441 (444)
2 KOG1812 Predicted E3 ubiquitin 100.0 1.7E-33 3.7E-38 298.4 10.7 204 140-352 145-355 (384)
3 KOG1814 Predicted E3 ubiquitin 100.0 1E-32 2.2E-37 281.0 9.6 194 139-336 182-405 (445)
4 KOG0006 E3 ubiquitin-protein l 99.9 5.4E-23 1.2E-27 202.5 9.0 195 137-337 217-437 (446)
5 smart00647 IBR In Between Ring 99.1 8E-11 1.7E-15 93.3 5.6 62 213-274 1-64 (64)
6 PF01485 IBR: IBR domain; Int 99.0 8.5E-11 1.8E-15 93.2 1.1 62 213-274 1-64 (64)
7 PF15227 zf-C3HC4_4: zinc fing 98.7 5E-09 1.1E-13 75.9 2.4 40 144-190 1-40 (42)
8 PF13923 zf-C3HC4_2: Zinc fing 98.3 5.3E-07 1.1E-11 64.2 2.5 31 144-176 1-32 (39)
9 PF00097 zf-C3HC4: Zinc finger 98.2 8.3E-07 1.8E-11 63.8 3.0 38 144-190 1-39 (41)
10 PLN03208 E3 ubiquitin-protein 98.2 8.8E-07 1.9E-11 84.5 3.7 67 138-208 15-88 (193)
11 KOG0320 Predicted E3 ubiquitin 98.2 8.6E-07 1.9E-11 82.5 3.5 55 138-203 128-182 (187)
12 PF13639 zf-RING_2: Ring finge 98.2 8E-07 1.7E-11 65.0 1.9 34 143-176 2-36 (44)
13 PF13445 zf-RING_UBOX: RING-ty 98.1 1.2E-06 2.7E-11 63.5 2.3 41 144-190 1-43 (43)
14 PF01485 IBR: IBR domain; Int 97.9 4.7E-06 1E-10 65.7 2.4 38 298-336 18-59 (64)
15 smart00647 IBR In Between Ring 97.9 1.1E-05 2.3E-10 63.7 4.4 39 297-336 17-59 (64)
16 PF13920 zf-C3HC4_3: Zinc fing 97.9 7.8E-06 1.7E-10 61.5 2.9 46 141-199 2-48 (50)
17 KOG2177 Predicted E3 ubiquitin 97.9 6.9E-06 1.5E-10 84.4 2.7 108 139-273 11-121 (386)
18 KOG4367 Predicted Zn-finger pr 97.8 0.00014 3E-09 76.0 11.6 34 140-175 3-36 (699)
19 TIGR00599 rad18 DNA repair pro 97.8 1.3E-05 2.8E-10 85.4 3.7 66 139-217 24-90 (397)
20 PF14634 zf-RING_5: zinc-RING 97.8 1.3E-05 2.8E-10 58.7 2.6 42 143-195 1-43 (44)
21 smart00504 Ubox Modified RING 97.8 1.6E-05 3.5E-10 62.5 3.4 48 142-202 2-49 (63)
22 cd00162 RING RING-finger (Real 97.8 1.7E-05 3.7E-10 57.3 3.2 43 143-197 1-44 (45)
23 KOG0823 Predicted E3 ubiquitin 97.8 1E-05 2.2E-10 78.8 2.2 59 138-206 44-102 (230)
24 KOG0287 Postreplication repair 97.8 1.1E-05 2.5E-10 81.6 2.0 64 140-216 22-86 (442)
25 KOG0317 Predicted E3 ubiquitin 97.7 2.5E-05 5.3E-10 78.3 4.1 52 139-203 237-288 (293)
26 KOG2164 Predicted E3 ubiquitin 97.7 1.6E-05 3.5E-10 85.3 2.3 60 141-208 186-245 (513)
27 PHA02926 zinc finger-like prot 97.6 4.4E-05 9.5E-10 73.8 3.7 56 139-199 168-230 (242)
28 smart00184 RING Ring finger. E 97.6 4.9E-05 1.1E-09 52.8 2.6 30 144-175 1-30 (39)
29 PHA02929 N1R/p28-like protein; 97.5 6E-05 1.3E-09 75.1 3.7 50 139-199 172-227 (238)
30 PF04564 U-box: U-box domain; 97.1 0.00028 6.1E-09 57.5 2.5 50 140-201 3-52 (73)
31 KOG0804 Cytoplasmic Zn-finger 97.1 0.014 3.1E-07 62.0 15.1 115 70-198 86-221 (493)
32 KOG0978 E3 ubiquitin ligase in 97.0 0.00022 4.7E-09 80.3 1.3 55 140-206 642-696 (698)
33 TIGR00570 cdk7 CDK-activating 96.9 0.00068 1.5E-08 69.7 3.8 53 142-205 4-60 (309)
34 COG5574 PEX10 RING-finger-cont 96.7 0.0014 3.1E-08 65.1 3.5 53 140-203 214-266 (271)
35 PF14835 zf-RING_6: zf-RING of 96.6 0.00047 1E-08 53.8 -0.0 43 141-198 7-50 (65)
36 KOG1002 Nucleotide excision re 96.4 0.0016 3.5E-08 69.9 2.5 57 137-201 532-588 (791)
37 COG5432 RAD18 RING-finger-cont 96.4 0.0017 3.6E-08 65.0 2.3 64 140-216 24-88 (391)
38 PF11789 zf-Nse: Zinc-finger o 96.4 0.002 4.4E-08 49.8 2.3 47 140-195 10-57 (57)
39 KOG4628 Predicted E3 ubiquitin 96.4 0.0043 9.4E-08 64.9 5.1 47 142-198 230-277 (348)
40 COG5540 RING-finger-containing 96.1 0.0032 6.9E-08 63.5 2.3 52 139-200 321-373 (374)
41 PF12678 zf-rbx1: RING-H2 zinc 96.0 0.0053 1.2E-07 50.0 3.0 43 142-195 20-73 (73)
42 PF14555 UBA_4: UBA-like domai 95.9 0.017 3.6E-07 42.0 4.9 41 80-120 1-41 (43)
43 PF00641 zf-RanBP: Zn-finger i 95.9 0.0028 6E-08 42.3 0.6 26 569-594 3-28 (30)
44 smart00547 ZnF_RBZ Zinc finger 95.6 0.0065 1.4E-07 39.0 1.5 24 570-593 2-25 (26)
45 COG5243 HRD1 HRD ubiquitin lig 95.4 0.041 8.8E-07 57.2 7.2 51 139-200 285-346 (491)
46 KOG0824 Predicted E3 ubiquitin 95.1 0.011 2.3E-07 60.0 2.0 54 140-205 6-59 (324)
47 KOG2879 Predicted E3 ubiquitin 95.1 0.02 4.3E-07 57.3 3.7 52 139-200 237-288 (298)
48 PF11793 FANCL_C: FANCL C-term 94.8 0.02 4.2E-07 46.3 2.4 58 141-200 2-67 (70)
49 KOG4159 Predicted E3 ubiquitin 94.6 0.032 7E-07 59.9 4.2 49 139-200 82-130 (398)
50 COG5152 Uncharacterized conser 94.5 0.015 3.2E-07 55.3 0.9 31 141-173 196-226 (259)
51 KOG2660 Locus-specific chromos 94.2 0.022 4.8E-07 58.6 1.5 47 140-199 14-61 (331)
52 PF14570 zf-RING_4: RING/Ubox 94.1 0.041 9E-07 40.8 2.5 45 144-198 1-47 (48)
53 KOG0311 Predicted E3 ubiquitin 93.5 0.011 2.4E-07 61.0 -1.9 48 140-198 42-89 (381)
54 KOG1039 Predicted E3 ubiquitin 92.9 0.076 1.6E-06 56.0 3.0 58 137-198 157-220 (344)
55 PF04931 DNA_pol_phi: DNA poly 92.5 0.21 4.5E-06 59.1 6.3 20 96-115 764-783 (784)
56 PF12861 zf-Apc11: Anaphase-pr 92.1 0.14 3E-06 42.8 2.9 34 157-198 48-81 (85)
57 KOG0802 E3 ubiquitin ligase [P 91.9 0.076 1.6E-06 60.1 1.6 46 141-197 291-339 (543)
58 KOG1645 RING-finger-containing 91.8 0.18 3.9E-06 53.3 4.1 52 141-201 4-58 (463)
59 PF10571 UPF0547: Uncharacteri 91.3 0.11 2.5E-06 33.4 1.3 24 299-327 1-24 (26)
60 KOG1952 Transcription factor N 91.2 0.25 5.4E-06 56.7 4.8 54 139-196 189-244 (950)
61 KOG2817 Predicted E3 ubiquitin 90.9 0.87 1.9E-05 48.3 8.1 56 140-203 333-389 (394)
62 KOG0006 E3 ubiquitin-protein l 90.3 0.51 1.1E-05 48.3 5.5 93 160-271 341-438 (446)
63 KOG1734 Predicted RING-contain 90.1 0.2 4.3E-06 50.1 2.4 71 121-200 204-282 (328)
64 PF10446 DUF2457: Protein of u 89.4 0.36 7.8E-06 51.8 3.9 11 136-146 189-199 (458)
65 PRK00420 hypothetical protein; 89.4 2.4 5.1E-05 37.5 8.3 27 298-334 23-49 (112)
66 KOG4265 Predicted E3 ubiquitin 88.8 0.36 7.8E-06 50.5 3.3 65 123-200 269-337 (349)
67 KOG1814 Predicted E3 ubiquitin 88.6 0.58 1.3E-05 49.7 4.7 41 296-337 271-313 (445)
68 KOG4692 Predicted E3 ubiquitin 88.3 0.35 7.5E-06 50.1 2.8 52 136-200 417-468 (489)
69 KOG1812 Predicted E3 ubiquitin 88.2 0.22 4.7E-06 53.8 1.3 40 228-271 304-344 (384)
70 TIGR00570 cdk7 CDK-activating 87.8 5.6 0.00012 41.4 11.1 34 299-334 4-37 (309)
71 KOG0826 Predicted E3 ubiquitin 87.1 1.6 3.5E-05 45.1 6.7 47 140-197 299-346 (357)
72 KOG0317 Predicted E3 ubiquitin 87.0 0.12 2.7E-06 52.2 -1.3 37 296-339 237-273 (293)
73 PF13240 zinc_ribbon_2: zinc-r 86.9 0.33 7.1E-06 30.3 1.0 10 300-309 1-10 (23)
74 PF05883 Baculo_RING: Baculovi 86.9 0.22 4.9E-06 45.0 0.4 34 141-174 26-66 (134)
75 smart00744 RINGv The RING-vari 86.8 0.61 1.3E-05 34.8 2.6 43 143-194 1-48 (49)
76 KOG1813 Predicted E3 ubiquitin 86.3 0.27 5.9E-06 49.9 0.7 45 141-198 241-285 (313)
77 KOG0297 TNF receptor-associate 86.3 0.42 9.2E-06 51.7 2.2 48 138-198 18-66 (391)
78 PF13248 zf-ribbon_3: zinc-rib 85.8 0.41 9E-06 30.7 1.1 11 299-309 3-13 (26)
79 KOG4739 Uncharacterized protei 85.7 0.32 7E-06 48.2 0.9 54 142-208 4-57 (233)
80 KOG1428 Inhibitor of type V ad 85.3 1.2 2.5E-05 53.9 5.1 65 141-208 3486-3553(3738)
81 PF15227 zf-C3HC4_4: zinc fing 84.5 0.41 8.9E-06 34.5 0.7 32 301-339 1-32 (42)
82 KOG1001 Helicase-like transcri 84.5 0.36 7.8E-06 55.7 0.7 47 142-200 455-501 (674)
83 PF10446 DUF2457: Protein of u 84.3 0.93 2E-05 48.8 3.5 6 167-172 211-216 (458)
84 smart00661 RPOL9 RNA polymeras 83.6 0.84 1.8E-05 34.1 2.2 27 299-326 1-29 (52)
85 KOG0827 Predicted E3 ubiquitin 83.2 0.48 1E-05 49.8 0.8 53 142-202 5-59 (465)
86 KOG0828 Predicted E3 ubiquitin 82.8 0.63 1.4E-05 50.3 1.6 51 140-200 570-635 (636)
87 KOG4172 Predicted E3 ubiquitin 82.7 0.5 1.1E-05 35.7 0.6 45 142-198 8-53 (62)
88 KOG2038 CAATT-binding transcri 82.2 0.97 2.1E-05 51.6 2.8 12 5-16 884-895 (988)
89 KOG1785 Tyrosine kinase negati 82.2 0.53 1.1E-05 49.6 0.7 44 142-194 370-413 (563)
90 KOG0825 PHD Zn-finger protein 81.2 0.29 6.3E-06 55.5 -1.7 32 143-174 125-157 (1134)
91 COG5222 Uncharacterized conser 80.3 1.2 2.6E-05 45.2 2.5 43 142-196 275-318 (427)
92 PHA03096 p28-like protein; Pro 80.2 0.87 1.9E-05 47.0 1.5 52 142-198 179-236 (284)
93 PHA00626 hypothetical protein 80.1 1.3 2.8E-05 33.8 1.9 28 300-328 2-34 (59)
94 PF14952 zf-tcix: Putative tre 79.4 1.4 3E-05 31.8 1.8 32 292-327 5-37 (44)
95 PF09297 zf-NADH-PPase: NADH p 79.4 2.1 4.6E-05 28.8 2.7 29 297-326 2-30 (32)
96 COG5220 TFB3 Cdk activating ki 79.3 0.57 1.2E-05 46.1 -0.2 50 142-199 11-64 (314)
97 KOG4185 Predicted E3 ubiquitin 78.5 1.8 3.8E-05 45.0 3.2 48 141-198 3-54 (296)
98 PF14835 zf-RING_6: zf-RING of 77.3 1.3 2.8E-05 35.0 1.3 22 299-320 8-32 (65)
99 KOG1941 Acetylcholine receptor 76.0 4.6 9.9E-05 42.7 5.2 47 141-196 365-413 (518)
100 PF08274 PhnA_Zn_Ribbon: PhnA 75.7 1.9 4.1E-05 28.8 1.5 27 299-327 3-29 (30)
101 PF07191 zinc-ribbons_6: zinc- 75.4 1.1 2.4E-05 36.0 0.5 49 300-351 3-56 (70)
102 KOG1815 Predicted E3 ubiquitin 75.2 1.5 3.2E-05 48.5 1.6 38 299-338 159-199 (444)
103 KOG0823 Predicted E3 ubiquitin 74.9 1.2 2.6E-05 43.9 0.7 17 323-339 65-81 (230)
104 PF14447 Prok-RING_4: Prokaryo 74.5 1.2 2.6E-05 33.9 0.5 46 141-201 7-52 (55)
105 PRK14559 putative protein seri 72.8 2.4 5.2E-05 48.8 2.5 23 299-334 28-50 (645)
106 PF04147 Nop14: Nop14-like fam 72.7 12 0.00026 44.8 8.4 17 64-80 417-436 (840)
107 PLN03086 PRLI-interacting fact 72.5 6.5 0.00014 44.4 5.8 57 185-261 406-463 (567)
108 KOG2906 RNA polymerase III sub 71.8 4.9 0.00011 34.3 3.5 28 231-260 2-30 (105)
109 PF13920 zf-C3HC4_3: Zinc fing 71.7 1.1 2.3E-05 33.4 -0.4 32 253-310 15-49 (50)
110 KOG3002 Zn finger protein [Gen 71.0 3.1 6.7E-05 43.3 2.7 47 138-199 45-91 (299)
111 KOG0978 E3 ubiquitin ligase in 71.0 1.2 2.7E-05 50.9 -0.3 27 229-265 642-669 (698)
112 KOG4739 Uncharacterized protei 69.7 55 0.0012 32.8 10.9 23 312-335 21-47 (233)
113 PF13923 zf-C3HC4_2: Zinc fing 69.5 1.4 3E-05 30.9 -0.2 32 301-338 1-32 (39)
114 PF10367 Vps39_2: Vacuolar sor 68.9 2.1 4.5E-05 37.0 0.8 31 141-171 78-108 (109)
115 KOG3039 Uncharacterized conser 68.6 3.1 6.7E-05 41.4 1.9 53 140-203 220-274 (303)
116 PF13240 zinc_ribbon_2: zinc-r 68.5 3.2 6.8E-05 25.9 1.3 22 572-593 1-22 (23)
117 PF13719 zinc_ribbon_5: zinc-r 68.4 3.9 8.4E-05 28.6 1.9 29 231-261 3-35 (37)
118 PLN03208 E3 ubiquitin-protein 67.6 1.5 3.3E-05 42.4 -0.4 31 299-336 19-49 (193)
119 PF04641 Rtf2: Rtf2 RING-finge 67.4 5.8 0.00013 40.5 3.8 68 138-217 110-180 (260)
120 PRK00432 30S ribosomal protein 67.1 4.3 9.3E-05 30.5 2.0 27 298-327 20-47 (50)
121 PRK00398 rpoP DNA-directed RNA 67.0 4.7 0.0001 29.5 2.2 30 299-329 4-33 (46)
122 KOG2038 CAATT-binding transcri 66.9 5 0.00011 46.1 3.3 7 3-9 874-880 (988)
123 PF00643 zf-B_box: B-box zinc 66.8 4 8.6E-05 29.0 1.8 29 299-335 4-33 (42)
124 KOG3970 Predicted E3 ubiquitin 66.7 6.1 0.00013 38.7 3.5 54 142-198 51-104 (299)
125 KOG3800 Predicted E3 ubiquitin 65.8 7.2 0.00016 39.9 3.9 49 143-201 2-53 (300)
126 COG5574 PEX10 RING-finger-cont 65.5 1.6 3.4E-05 44.0 -0.8 33 299-338 216-249 (271)
127 KOG2114 Vacuolar assembly/sort 65.4 4.5 9.8E-05 46.9 2.7 102 78-197 758-881 (933)
128 PHA02664 hypothetical protein; 65.2 15 0.00032 38.0 6.1 9 82-90 524-532 (534)
129 PF02150 RNA_POL_M_15KD: RNA p 64.8 5.9 0.00013 27.4 2.2 27 231-260 2-29 (35)
130 COG5175 MOT2 Transcriptional r 64.2 3.9 8.5E-05 42.4 1.7 54 141-204 14-69 (480)
131 KOG1991 Nuclear transport rece 63.9 14 0.00029 43.9 6.1 38 70-110 955-992 (1010)
132 KOG2807 RNA polymerase II tran 63.1 3.5 7.6E-05 42.6 1.2 22 249-270 342-365 (378)
133 TIGR02098 MJ0042_CXXC MJ0042 f 62.3 5.1 0.00011 27.9 1.6 27 299-327 3-35 (38)
134 KOG3579 Predicted E3 ubiquitin 62.2 5.6 0.00012 40.4 2.4 54 139-196 266-322 (352)
135 COG5219 Uncharacterized conser 62.1 2.5 5.4E-05 49.3 -0.1 52 139-199 1467-1523(1525)
136 PF13248 zf-ribbon_3: zinc-rib 61.7 4.9 0.00011 25.7 1.3 23 571-593 3-25 (26)
137 PRK14559 putative protein seri 61.7 6.5 0.00014 45.4 3.1 12 299-310 42-53 (645)
138 PF00627 UBA: UBA/TS-N domain; 61.3 23 0.00051 24.4 4.8 33 80-113 3-35 (37)
139 KOG4445 Uncharacterized conser 61.3 4.3 9.3E-05 41.5 1.4 38 140-177 114-152 (368)
140 PF01428 zf-AN1: AN1-like Zinc 60.6 6.4 0.00014 28.4 1.9 30 233-269 1-33 (43)
141 KOG3039 Uncharacterized conser 60.0 6.3 0.00014 39.3 2.2 36 142-179 44-79 (303)
142 TIGR00622 ssl1 transcription f 59.9 9.3 0.0002 33.7 3.1 38 231-270 56-101 (112)
143 KOG3161 Predicted E3 ubiquitin 59.5 2.9 6.3E-05 46.9 -0.2 34 141-174 11-46 (861)
144 KOG0320 Predicted E3 ubiquitin 59.1 3.2 6.9E-05 39.4 0.1 31 253-309 147-178 (187)
145 PHA02926 zinc finger-like prot 58.2 4.7 0.0001 39.8 1.0 52 298-350 170-224 (242)
146 PF10168 Nup88: Nuclear pore c 57.7 1.5E+02 0.0033 34.9 13.4 24 454-477 601-624 (717)
147 TIGR03655 anti_R_Lar restricti 57.4 7.4 0.00016 29.4 1.8 11 299-309 2-12 (53)
148 PF09538 FYDLN_acid: Protein o 57.1 6.7 0.00014 34.5 1.7 27 299-327 10-36 (108)
149 PRK08665 ribonucleotide-diphos 56.6 6.6 0.00014 46.2 2.1 27 299-328 725-751 (752)
150 KOG2034 Vacuolar sorting prote 56.4 7.1 0.00015 45.7 2.2 37 141-177 817-853 (911)
151 PF06677 Auto_anti-p27: Sjogre 55.9 8.8 0.00019 27.6 1.9 23 299-324 18-41 (41)
152 KOG2906 RNA polymerase III sub 55.7 7.3 0.00016 33.2 1.7 29 299-328 2-32 (105)
153 cd00021 BBOX B-Box-type zinc f 55.6 7.2 0.00016 26.9 1.4 26 300-333 2-28 (39)
154 PF06705 SF-assemblin: SF-asse 55.5 2.3E+02 0.005 28.5 13.8 7 470-476 102-108 (247)
155 KOG0250 DNA repair protein RAD 55.3 4.2E+02 0.0092 32.4 16.3 27 420-446 254-280 (1074)
156 COG5236 Uncharacterized conser 55.1 8 0.00017 40.3 2.1 50 138-198 58-107 (493)
157 COG4647 AcxC Acetone carboxyla 55.0 9.5 0.00021 34.2 2.3 59 251-309 69-131 (165)
158 PHA02929 N1R/p28-like protein; 54.2 7.5 0.00016 39.1 1.8 52 230-309 174-227 (238)
159 COG5109 Uncharacterized conser 54.2 11 0.00023 39.0 2.9 50 140-197 335-385 (396)
160 PF07282 OrfB_Zn_ribbon: Putat 54.1 9.2 0.0002 30.3 2.0 27 298-325 28-54 (69)
161 PF13834 DUF4193: Domain of un 53.6 5.5 0.00012 34.2 0.6 32 138-169 67-98 (99)
162 KOG3759 Uncharacterized RUN do 53.5 3E+02 0.0064 30.4 13.4 17 469-485 204-220 (621)
163 PF13717 zinc_ribbon_4: zinc-r 53.3 11 0.00024 26.1 2.0 29 231-261 3-35 (36)
164 PF14803 Nudix_N_2: Nudix N-te 53.1 8.4 0.00018 26.5 1.3 26 299-325 1-30 (34)
165 KOG2141 Protein involved in hi 52.5 9 0.00019 43.8 2.2 14 324-337 566-579 (822)
166 smart00661 RPOL9 RNA polymeras 52.4 12 0.00026 27.8 2.2 28 231-260 1-29 (52)
167 PF05290 Baculo_IE-1: Baculovi 51.8 13 0.00028 33.7 2.7 52 139-198 78-131 (140)
168 cd00194 UBA Ubiquitin Associat 51.6 44 0.00095 22.9 4.9 34 82-116 4-37 (38)
169 KOG1571 Predicted E3 ubiquitin 51.2 6.6 0.00014 41.3 0.9 43 140-198 304-346 (355)
170 PF14569 zf-UDP: Zinc-binding 51.2 6.9 0.00015 32.0 0.8 59 231-316 10-69 (80)
171 KOG4275 Predicted E3 ubiquitin 51.1 8.5 0.00018 39.3 1.6 30 141-172 300-330 (350)
172 PRK12775 putative trifunctiona 50.0 5.1E+02 0.011 31.9 16.8 15 298-312 796-810 (1006)
173 KOG0943 Predicted ubiquitin-pr 49.4 10 0.00022 45.6 2.1 16 458-473 2419-2434(3015)
174 TIGR01384 TFS_arch transcripti 49.1 10 0.00022 32.8 1.6 25 299-326 1-25 (104)
175 COG1645 Uncharacterized Zn-fin 48.7 12 0.00025 34.0 1.9 23 299-332 29-51 (131)
176 COG5151 SSL1 RNA polymerase II 48.4 6.2 0.00013 40.5 0.2 19 251-269 387-407 (421)
177 PF07191 zinc-ribbons_6: zinc- 47.5 3.7 7.9E-05 33.0 -1.3 39 142-198 2-40 (70)
178 COG1997 RPL43A Ribosomal prote 47.0 14 0.00029 31.1 1.9 28 299-327 36-63 (89)
179 PF14446 Prok-RING_1: Prokaryo 45.9 15 0.00033 28.0 1.9 33 141-173 5-39 (54)
180 KOG2932 E3 ubiquitin ligase in 45.6 6 0.00013 40.7 -0.4 52 227-314 87-139 (389)
181 KOG0804 Cytoplasmic Zn-finger 45.5 4.6E+02 0.0099 28.9 15.7 9 299-307 212-220 (493)
182 KOG1991 Nuclear transport rece 45.4 13 0.00028 44.1 2.1 24 75-98 968-992 (1010)
183 KOG0933 Structural maintenance 45.1 5.4E+02 0.012 31.4 14.8 45 425-475 222-266 (1174)
184 smart00165 UBA Ubiquitin assoc 44.3 60 0.0013 22.1 4.6 31 83-114 5-35 (37)
185 KOG0956 PHD finger protein AF1 44.2 24 0.00053 40.2 3.9 95 229-351 21-143 (900)
186 PF07975 C1_4: TFIIH C1-like d 44.1 13 0.00028 28.1 1.3 22 251-272 20-43 (51)
187 KOG4362 Transcriptional regula 42.6 6.4 0.00014 45.1 -0.9 51 140-200 20-70 (684)
188 smart00804 TAP_C C-terminal do 42.5 83 0.0018 24.8 5.6 41 76-116 9-49 (63)
189 KOG1940 Zn-finger protein [Gen 42.5 18 0.00039 37.2 2.4 48 138-196 155-204 (276)
190 PF08746 zf-RING-like: RING-li 42.2 19 0.00042 26.0 1.9 34 144-177 1-35 (43)
191 PF14445 Prok-RING_2: Prokaryo 41.9 6.2 0.00013 29.4 -0.7 33 141-173 7-40 (57)
192 smart00336 BBOX B-Box-type zin 41.4 21 0.00046 24.8 2.0 28 299-334 4-32 (42)
193 PRK12495 hypothetical protein; 40.8 19 0.00042 35.4 2.2 16 298-313 42-57 (226)
194 PRK05654 acetyl-CoA carboxylas 40.5 8.1 0.00018 40.2 -0.4 28 299-327 28-56 (292)
195 PF13453 zf-TFIIB: Transcripti 40.0 13 0.00028 26.5 0.7 31 300-337 1-31 (41)
196 TIGR02159 PA_CoA_Oxy4 phenylac 39.9 20 0.00044 33.2 2.2 94 75-173 40-140 (146)
197 PLN02638 cellulose synthase A 39.5 21 0.00045 43.2 2.6 57 232-317 19-78 (1079)
198 PF03115 Astro_capsid: Astrovi 39.4 9.9 0.00021 44.6 0.0 15 91-105 721-736 (787)
199 PLN02189 cellulose synthase 39.0 23 0.0005 42.7 2.9 60 231-317 35-95 (1040)
200 COG0266 Nei Formamidopyrimidin 38.8 20 0.00043 36.8 2.1 25 299-324 246-272 (273)
201 PRK04023 DNA polymerase II lar 38.7 24 0.00053 42.2 3.0 29 227-265 623-657 (1121)
202 COG2888 Predicted Zn-ribbon RN 38.3 13 0.00027 28.9 0.4 7 299-305 28-34 (61)
203 PF03943 TAP_C: TAP C-terminal 37.8 37 0.0008 25.5 2.9 36 81-116 2-37 (51)
204 PF06705 SF-assemblin: SF-asse 37.5 4.4E+02 0.0095 26.4 13.8 23 458-480 119-141 (247)
205 PF05715 zf-piccolo: Piccolo Z 37.5 15 0.00032 28.5 0.7 41 299-340 3-45 (61)
206 TIGR00515 accD acetyl-CoA carb 36.9 9.4 0.0002 39.5 -0.6 28 299-327 27-55 (285)
207 KOG0943 Predicted ubiquitin-pr 36.9 24 0.00053 42.7 2.6 10 516-525 2474-2483(3015)
208 PF06906 DUF1272: Protein of u 36.6 24 0.00052 27.1 1.7 43 143-198 7-51 (57)
209 KOG2979 Protein involved in DN 36.6 34 0.00073 34.6 3.2 48 141-196 176-223 (262)
210 COG5432 RAD18 RING-finger-cont 36.5 10 0.00022 38.6 -0.4 30 299-335 26-55 (391)
211 KOG3268 Predicted E3 ubiquitin 36.4 34 0.00074 32.5 3.0 39 159-199 188-228 (234)
212 PRK14892 putative transcriptio 36.3 23 0.0005 30.6 1.8 27 299-326 22-51 (99)
213 PRK11827 hypothetical protein; 36.2 27 0.00059 27.3 2.0 25 299-324 9-33 (60)
214 PRK14873 primosome assembly pr 35.7 38 0.00082 39.5 4.0 15 251-265 382-398 (665)
215 PF03119 DNA_ligase_ZBD: NAD-d 35.3 26 0.00057 22.9 1.5 21 300-320 1-21 (28)
216 COG1198 PriA Primosomal protei 35.2 24 0.00052 41.3 2.3 35 299-334 445-484 (730)
217 TIGR02300 FYDLN_acid conserved 35.2 25 0.00054 31.7 1.8 26 299-326 10-35 (129)
218 PF09889 DUF2116: Uncharacteri 35.0 11 0.00024 29.4 -0.4 11 299-309 4-14 (59)
219 COG1998 RPS31 Ribosomal protei 34.4 24 0.00051 26.4 1.3 26 299-325 20-45 (51)
220 PRK14811 formamidopyrimidine-D 34.4 26 0.00056 36.0 2.1 25 299-324 236-262 (269)
221 PF04050 Upf2: Up-frameshift s 34.2 27 0.00059 33.2 2.1 12 73-84 63-74 (170)
222 COG3809 Uncharacterized protei 33.9 25 0.00054 28.8 1.5 35 299-340 2-36 (88)
223 PF12906 RINGv: RING-variant d 33.8 37 0.00081 25.0 2.3 33 144-176 1-38 (47)
224 CHL00174 accD acetyl-CoA carbo 33.8 11 0.00024 39.1 -0.7 28 299-327 39-67 (296)
225 KOG0579 Ste20-like serine/thre 33.6 8.4E+02 0.018 28.6 14.1 22 455-476 926-947 (1187)
226 PF02845 CUE: CUE domain; Int 32.8 1.4E+02 0.0031 21.0 5.2 36 81-116 3-39 (42)
227 KOG0825 PHD Zn-finger protein 32.7 32 0.00069 39.9 2.6 53 141-198 96-153 (1134)
228 PF07058 Myosin_HC-like: Myosi 32.7 6E+02 0.013 26.6 17.7 21 507-527 144-164 (351)
229 KOG4460 Nuclear pore complex, 32.7 5.9E+02 0.013 28.8 12.0 15 511-525 667-681 (741)
230 PF01363 FYVE: FYVE zinc finge 32.4 35 0.00077 26.9 2.2 35 298-335 9-43 (69)
231 PF02891 zf-MIZ: MIZ/SP-RING z 32.3 37 0.00081 25.3 2.2 46 142-196 3-49 (50)
232 PF08792 A2L_zn_ribbon: A2L zi 32.2 40 0.00086 23.0 2.0 11 299-309 4-14 (33)
233 COG1594 RPB9 DNA-directed RNA 31.8 31 0.00066 30.6 1.9 28 299-327 3-32 (113)
234 KOG1493 Anaphase-promoting com 31.8 17 0.00036 29.7 0.2 48 143-198 22-80 (84)
235 PRK01103 formamidopyrimidine/5 31.7 30 0.00066 35.5 2.1 25 299-324 246-272 (274)
236 smart00659 RPOLCX RNA polymera 31.6 37 0.0008 24.8 1.9 26 300-327 4-29 (44)
237 PF06827 zf-FPG_IleRS: Zinc fi 31.6 27 0.00059 22.9 1.2 24 299-323 2-27 (30)
238 PF03604 DNA_RNApol_7kD: DNA d 31.4 37 0.0008 23.0 1.8 26 300-327 2-27 (32)
239 COG4530 Uncharacterized protei 31.4 51 0.0011 28.8 3.1 13 42-54 100-112 (129)
240 PLN02400 cellulose synthase 31.4 41 0.00088 40.9 3.3 57 232-317 38-97 (1085)
241 PRK09710 lar restriction allev 31.3 57 0.0012 25.8 3.0 33 229-262 5-38 (64)
242 TIGR00577 fpg formamidopyrimid 31.1 32 0.0007 35.3 2.2 25 299-324 246-272 (272)
243 PF07889 DUF1664: Protein of u 31.1 4E+02 0.0087 24.1 9.9 18 509-526 106-123 (126)
244 TIGR00686 phnA alkylphosphonat 31.0 32 0.0007 30.1 1.8 25 299-325 3-27 (109)
245 PRK14892 putative transcriptio 30.8 89 0.0019 27.1 4.5 54 227-284 18-73 (99)
246 TIGR00599 rad18 DNA repair pro 30.5 16 0.00035 39.6 -0.1 32 299-337 27-58 (397)
247 PLN02915 cellulose synthase A 30.4 37 0.00081 41.0 2.8 55 238-317 21-76 (1044)
248 COG5665 NOT5 CCR4-NOT transcri 30.4 7E+02 0.015 26.9 11.6 15 374-388 11-25 (548)
249 PRK14810 formamidopyrimidine-D 30.3 33 0.00072 35.3 2.1 26 298-324 244-271 (272)
250 PF06160 EzrA: Septation ring 29.9 6.3E+02 0.014 28.8 12.5 25 421-445 136-161 (560)
251 PF14149 YhfH: YhfH-like prote 29.9 5 0.00011 28.1 -2.6 25 298-323 13-37 (37)
252 PLN02436 cellulose synthase A 29.7 41 0.00089 40.7 3.0 59 232-317 38-97 (1094)
253 PRK10445 endonuclease VIII; Pr 29.7 35 0.00077 34.9 2.2 25 299-324 236-262 (263)
254 PRK13945 formamidopyrimidine-D 29.6 34 0.00075 35.3 2.1 25 299-324 255-281 (282)
255 KOG2164 Predicted E3 ubiquitin 29.6 23 0.00049 39.1 0.8 28 299-333 187-214 (513)
256 KOG3183 Predicted Zn-finger pr 29.5 22 0.00047 35.5 0.6 56 231-310 9-67 (250)
257 PHA02664 hypothetical protein; 29.4 91 0.002 32.4 5.0 14 77-90 512-525 (534)
258 KOG2177 Predicted E3 ubiquitin 29.4 20 0.00044 36.1 0.4 25 300-332 88-112 (386)
259 PF04147 Nop14: Nop14-like fam 29.3 47 0.001 39.9 3.4 8 511-518 826-833 (840)
260 COG2816 NPY1 NTP pyrophosphohy 29.2 47 0.001 34.2 3.0 36 290-327 104-139 (279)
261 KOG3048 Molecular chaperone Pr 28.8 2.6E+02 0.0057 25.9 7.2 34 444-477 92-125 (153)
262 COG5194 APC11 Component of SCF 28.7 51 0.0011 27.2 2.5 17 160-176 53-69 (88)
263 PRK14714 DNA polymerase II lar 28.4 33 0.00072 42.1 1.9 31 299-336 668-703 (1337)
264 PF09723 Zn-ribbon_8: Zinc rib 28.3 63 0.0014 23.1 2.7 12 299-310 27-39 (42)
265 cd07667 BAR_SNX30 The Bin/Amph 27.9 6.5E+02 0.014 25.5 16.5 100 418-523 139-239 (240)
266 PRK14714 DNA polymerase II lar 27.7 50 0.0011 40.7 3.2 11 299-309 710-720 (1337)
267 COG1594 RPB9 DNA-directed RNA 27.6 57 0.0012 28.9 2.9 30 230-261 2-32 (113)
268 PF03615 GCM: GCM motif protei 27.4 56 0.0012 29.6 2.7 23 299-327 83-107 (143)
269 PF02318 FYVE_2: FYVE-type zin 27.3 69 0.0015 28.4 3.4 36 297-334 53-88 (118)
270 PF09943 DUF2175: Uncharacteri 27.2 1.2E+02 0.0026 26.3 4.6 25 453-477 75-99 (101)
271 PF07417 Crl: Transcriptional 26.8 44 0.00095 30.0 1.9 45 438-482 66-110 (125)
272 PF12773 DZR: Double zinc ribb 26.3 47 0.001 24.3 1.8 24 567-590 26-49 (50)
273 PF08580 KAR9: Yeast cortical 26.2 1.1E+03 0.024 27.7 14.7 27 419-445 250-276 (683)
274 COG4640 Predicted membrane pro 26.2 4.5E+02 0.0097 28.5 9.4 15 511-525 129-143 (465)
275 PRK12286 rpmF 50S ribosomal pr 26.1 39 0.00084 26.1 1.3 22 297-324 26-47 (57)
276 PF05285 SDA1: SDA1; InterPro 25.3 89 0.0019 33.0 4.3 9 69-77 189-197 (324)
277 PF08271 TF_Zn_Ribbon: TFIIB z 25.1 56 0.0012 23.4 2.0 8 300-307 2-9 (43)
278 KOG3091 Nuclear pore complex, 24.9 7.8E+02 0.017 27.5 11.3 134 362-512 373-508 (508)
279 COG5220 TFB3 Cdk activating ki 24.9 42 0.00092 33.4 1.6 54 187-244 11-65 (314)
280 PTZ00415 transmission-blocking 24.7 59 0.0013 41.2 3.0 8 430-437 617-624 (2849)
281 PRK04023 DNA polymerase II lar 24.7 40 0.00087 40.4 1.7 31 297-334 625-660 (1121)
282 PF05320 Pox_RNA_Pol_19: Poxvi 24.6 26 0.00056 32.5 0.1 8 141-148 126-133 (167)
283 PF14354 Lar_restr_allev: Rest 24.5 75 0.0016 24.3 2.7 29 229-259 2-37 (61)
284 PF07800 DUF1644: Protein of u 24.4 95 0.0021 29.2 3.7 84 141-243 2-120 (162)
285 PRK13428 F0F1 ATP synthase sub 24.3 9.9E+02 0.021 26.4 15.5 23 456-478 86-108 (445)
286 PF08882 Acetone_carb_G: Aceto 23.9 16 0.00034 32.1 -1.3 18 251-268 23-40 (112)
287 PF12861 zf-Apc11: Anaphase-pr 23.8 25 0.00053 29.5 -0.2 35 299-338 33-67 (85)
288 COG0777 AccD Acetyl-CoA carbox 23.7 26 0.00056 35.8 -0.1 28 299-327 29-57 (294)
289 KOG2417 Predicted G-protein co 23.6 9.3E+02 0.02 25.9 12.7 51 419-485 227-277 (462)
290 COG2051 RPS27A Ribosomal prote 23.5 82 0.0018 25.1 2.7 30 231-263 20-50 (67)
291 KOG2930 SCF ubiquitin ligase, 23.5 50 0.0011 28.6 1.6 17 160-176 80-96 (114)
292 TIGR01206 lysW lysine biosynth 23.5 79 0.0017 24.2 2.5 28 232-261 4-32 (54)
293 PRK14011 prefoldin subunit alp 23.4 4E+02 0.0087 24.7 7.7 37 442-478 77-113 (144)
294 PF14569 zf-UDP: Zinc-binding 23.4 1.1E+02 0.0024 25.2 3.5 50 139-198 7-61 (80)
295 COG3024 Uncharacterized protei 23.4 40 0.00086 26.6 0.9 13 298-310 7-19 (65)
296 PRK10220 hypothetical protein; 23.4 60 0.0013 28.5 2.1 30 299-338 4-33 (111)
297 KOG4302 Microtubule-associated 23.3 1.2E+03 0.027 27.2 13.6 27 490-516 159-185 (660)
298 PTZ00083 40S ribosomal protein 23.2 89 0.0019 26.2 3.0 31 231-264 36-67 (85)
299 KOG2932 E3 ubiquitin ligase in 23.2 32 0.00069 35.6 0.5 28 299-333 91-119 (389)
300 PF01783 Ribosomal_L32p: Ribos 23.1 49 0.0011 25.3 1.4 22 297-324 25-46 (56)
301 COG4477 EzrA Negative regulato 23.1 8.5E+02 0.019 27.5 11.2 18 420-437 138-155 (570)
302 cd07595 BAR_RhoGAP_Rich-like T 23.0 7.9E+02 0.017 24.8 11.7 66 457-528 162-227 (244)
303 PRK09521 exosome complex RNA-b 22.7 52 0.0011 31.7 1.9 27 299-327 150-176 (189)
304 PHA02325 hypothetical protein 22.6 39 0.00085 26.6 0.7 12 297-308 2-13 (72)
305 KOG0161 Myosin class II heavy 22.3 2E+03 0.042 29.1 16.0 67 367-437 1627-1693(1930)
306 TIGR01031 rpmF_bact ribosomal 22.2 51 0.0011 25.3 1.3 21 298-324 26-46 (55)
307 PHA02825 LAP/PHD finger-like p 22.1 94 0.002 29.2 3.2 48 140-199 7-59 (162)
308 KOG4198 RNA-binding Ran Zn-fin 22.0 1.5E+02 0.0032 30.7 4.9 29 566-594 136-164 (280)
309 PRK08115 ribonucleotide-diphos 21.8 45 0.00097 39.8 1.4 25 299-326 828-853 (858)
310 TIGR00595 priA primosomal prot 21.6 60 0.0013 36.5 2.3 35 299-334 223-262 (505)
311 KOG3053 Uncharacterized conser 21.4 71 0.0015 32.3 2.4 55 140-197 19-80 (293)
312 PF09788 Tmemb_55A: Transmembr 21.3 89 0.0019 31.6 3.1 19 229-247 122-140 (256)
313 PF06044 DRP: Dam-replacing fa 21.2 70 0.0015 32.1 2.4 36 290-327 24-63 (254)
314 COG1315 Uncharacterized conser 21.2 6.7E+02 0.015 28.2 9.9 38 373-410 408-445 (543)
315 PF01599 Ribosomal_S27: Riboso 20.9 54 0.0012 24.4 1.1 26 299-325 19-46 (47)
316 COG1096 Predicted RNA-binding 20.8 56 0.0012 31.5 1.5 25 299-326 150-174 (188)
317 PRK10984 DNA-binding transcrip 20.7 63 0.0014 29.1 1.7 48 436-483 66-114 (127)
318 KOG0396 Uncharacterized conser 20.6 1.1E+03 0.023 25.5 11.4 62 376-437 15-77 (389)
319 PLN00209 ribosomal protein S27 20.6 1.1E+02 0.0024 25.7 3.0 30 231-263 37-67 (86)
320 PF06936 Selenoprotein_S: Sele 20.4 5.5E+02 0.012 25.0 8.3 12 547-559 159-170 (190)
321 TIGR01069 mutS2 MutS2 family p 20.2 1.2E+03 0.026 27.8 12.7 33 453-485 558-590 (771)
322 cd07620 BAR_SH3BP1 The Bin/Amp 20.0 9.4E+02 0.02 24.5 11.8 107 417-531 117-243 (257)
No 1
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=4.9e-71 Score=600.02 Aligned_cols=436 Identities=48% Similarity=0.905 Sum_probs=398.9
Q ss_pred EeCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHhcCCChHHHHHHHhhcHHHHHHHhCCCCCCCCCCCCCCcccccccc
Q 007671 69 VLTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPDGEEMTCGICF 148 (594)
Q Consensus 69 vl~~~~i~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~e~~~~d~~~~~~~~gl~~~~~~~~~~~~~~~C~IC~ 148 (594)
||+.+++...|.++|..|+++|++++..|++||.+|.|+++++++.|+.+++.++..+|+...+ ......+|.||+
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 6889999999999999999999999999999999999999999999999999999999986653 345578899999
Q ss_pred ccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhhccCh-HHHHHHHHHHHHHHhhcC
Q 007671 149 ENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSD-EDKVKYNRYFIRSYVEDN 227 (594)
Q Consensus 149 e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~-e~~eky~~~~~~~~v~~~ 227 (594)
+.++. .++.+.|||.||..||..|+..+|..+.... |+||...|.+.+..+.|..++++ +..++|.++++++|++.+
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 99855 6888999999999999999999999886433 89999999999999999999998 599999999999999999
Q ss_pred CCcccCCCCCCCCeeeeecCCCCceeeccCCccccccc-ccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCc
Q 007671 228 RKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNV-KEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKR 306 (594)
Q Consensus 228 ~~~~~CP~p~C~~~i~~~~~~~~~~v~C~C~~~fC~~C-~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~ 306 (594)
..++|||+|+|++++.+. ......|.|.|++.|||.| .+||.|.+|.....|+.+..+++++.+||.+|+++||+|.+
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 4456789999999999999 99999999999999999999999999999999999999999
Q ss_pred ceeecCCCCcccccCC--CcceeeeccccccccCCCCCCCcccCCchhhhhhcCcchhHHHHHHHHHHHHHHHHHHHHHH
Q 007671 307 PIEKNQGCMHMTCTPP--CKFEFCWLCLGQWSDHGERTGGFYACNRYETAKQEGVYDESEKRREMAKNSLERYTHYYERW 384 (594)
Q Consensus 307 ~IEK~~GCnhm~C~~~--C~~~FCw~C~~~~~~h~~~~g~~y~C~~~~~~~~~~~~~~~e~~~~~~~~~l~ry~hy~~r~ 384 (594)
+|||++|||||+|. . |++.|||+|++.|.+|+..+ +|.||+|...+.. . .+++++..|.||+|||.||
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 5 99999999999999999754 8999999765421 1 4678899999999999999
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHHHHHHHhhhhhhhcccCccchhhHHHHHHHHHH
Q 007671 385 ATNQSSRQKALADLQQMQTVHLEKLSDVQCQPESQLKFITEAWLQIVECRRVLKWTYAYGYYLPDHEHAKRQFFEYLQGE 464 (594)
Q Consensus 385 ~~h~~s~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~a~~~l~~~r~~L~~sy~~~yy~~~~~~~~~~~fe~~Q~~ 464 (594)
++|+.+++++...+......+..++......++.+++|+.+++.+|.++|++|+|||+|+||+. ...++++||++|.+
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 9999999999888888877778888777777789999999999999999999999999999997 44567999999999
Q ss_pred HHHhHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccc
Q 007671 465 AESGLERLHQCAEKELQIYLNADGPSKDFNEFRTKLAGLTSVTRNYFENLVRALENGLSDVDTH 528 (594)
Q Consensus 465 ~e~~~e~L~~~le~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~l~~~le~gl~~~~~~ 528 (594)
|+..+|.|+..++.++. ..+...+..++.+|.++|.+++++|++++.++++||.++...
T Consensus 383 ~~~~~e~ls~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 441 (444)
T KOG1815|consen 383 LESAVEPLSSCLEESLK-----DISSETLAEFKQKLTDLTSYVRNRFENLLKHLEEGLEDVGSE 441 (444)
T ss_pred HhhhhhhhHHHhccccc-----cCCcccHHHHHhhccccchhhhhHHHHHHHHHHhcccccccc
Confidence 99999999999998776 556788999999999999999999999999999999998553
No 2
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.7e-33 Score=298.42 Aligned_cols=204 Identities=26% Similarity=0.671 Sum_probs=174.6
Q ss_pred Ccccccccccccc-CCCcc-cccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhhccChHHHHHHHH
Q 007671 140 EEMTCGICFENYP-SDRLL-AAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNR 217 (594)
Q Consensus 140 ~~~~C~IC~e~~~-~~~~v-~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~e~~eky~~ 217 (594)
...+|.||+...+ ...++ ...|+|.||.+||++|++.+...| ..++||+.+|...++.+....++++.+.++|.+
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 3678999995443 32443 467999999999999999985555 389999999999999999999999999999999
Q ss_pred HHHHHHhhcCCCcccCCCCCCCCeeeeecC---CCCceeec-cCCccccccc-ccccCCCCchhHHHHHHhhhhhHHhHH
Q 007671 218 YFIRSYVEDNRKTKWCPAPGCDYAVDFVVG---SGNYDVTC-RCSYSFCWNV-KEAHRPVDCDTVAKWVLKNSAESENMN 292 (594)
Q Consensus 218 ~~~~~~v~~~~~~~~CP~p~C~~~i~~~~~---~~~~~v~C-~C~~~fC~~C-~~~H~p~~C~~~~~~~~~~~~~~~~~~ 292 (594)
++.+.++.....+ +||+|+|...+..... .......| .|+..||..| .+||.+.+|..+++|......+....+
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 9999999888777 9999999887754321 22344578 9999999999 999999999999999877677778888
Q ss_pred HHHhcCCCCCCCCcceeecCCCCcccccCCCcceeeeccccccccCCCCCCCcccCCchh
Q 007671 293 WILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGERTGGFYACNRYE 352 (594)
Q Consensus 293 wi~~ntK~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~~~~g~~y~C~~~~ 352 (594)
|+.++++.||+|+..|++++|||||+|+ ||++|||.|+++|..|+. .+|.|.++.
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 8889999999999999999999999998 999999999999998875 466777664
No 3
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=1e-32 Score=280.97 Aligned_cols=194 Identities=30% Similarity=0.696 Sum_probs=168.3
Q ss_pred CCccccccccccccC-CCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhhccChHHHHHHHH
Q 007671 139 GEEMTCGICFENYPS-DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNR 217 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~-~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~e~~eky~~ 217 (594)
...+.|.|||+.... ..++.+||+|.||+.|++.|+...|.+|. ...++||+++|+...++..++.++..+++++|++
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 457899999999765 57888999999999999999999999886 5689999999999999999999999999999999
Q ss_pred HHHHHHhhcCCCcccCCCCCCCCeeeeecCCCCceeec-cCCccccccc-ccccCCCCchhHH--------HHHH-----
Q 007671 218 YFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNV-KEAHRPVDCDTVA--------KWVL----- 282 (594)
Q Consensus 218 ~~~~~~v~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C-~~~H~p~~C~~~~--------~~~~----- 282 (594)
.++++.++...++++||++.|..++.. ..+...+.| .|..+||+.| ..||...+|.... .|..
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 999999999999999999999988743 345566799 9999999999 9999998996431 1211
Q ss_pred --------------hhhhhHHhHHHHHhcCCCCCCCCcceeecCCCCcccccCCCcceeeeccccccc
Q 007671 283 --------------KNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWS 336 (594)
Q Consensus 283 --------------~~~~~~~~~~wi~~ntK~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~ 336 (594)
....+..+..|+..|.|+||+|+++|||++|||||+|. .|++.|||+|.....
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 11233445689999999999999999999999999999 899999999987654
No 4
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=99.88 E-value=5.4e-23 Score=202.52 Aligned_cols=195 Identities=28% Similarity=0.641 Sum_probs=147.2
Q ss_pred CCCCccccccccccccCCCcccccCC--CcccHhhHHHHHHhhccCCC------CccccccCCCcCCCccchh-HHhhcc
Q 007671 137 PDGEEMTCGICFENYPSDRLLAAACG--HPFCSSCWTGYISTAINDGP------GCLMLRCPDPSCGAAVGQD-MIYLLS 207 (594)
Q Consensus 137 ~~~~~~~C~IC~e~~~~~~~v~l~Cg--H~fC~~C~~~yi~~~i~~g~------~~~~i~CP~~~C~~~v~~~-~i~~ll 207 (594)
.+....+|-.|-+.- +.+..++|. |..|.+|++.|..+.+++.. -...+.||. +|...+-.+ .--+++
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 466788999998863 444567898 99999999999999886542 124678885 887765433 334578
Q ss_pred ChHHHHHHHHHHHHHHhhcCCCcccCCCCCCCCeeeeecCCCCceeec--cCCccccccc-ccccCCC-----------C
Q 007671 208 SDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC--RCSYSFCWNV-KEAHRPV-----------D 273 (594)
Q Consensus 208 ~~e~~eky~~~~~~~~v~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C--~C~~~fC~~C-~~~H~p~-----------~ 273 (594)
..+.+.+|+++..+.+|.... -+.||+|+|+..+...+ ....|+| .||+.||..| ..+|.+. +
T Consensus 294 g~e~Y~rYQr~atEe~vlq~g-GVlCP~pgCG~gll~EP--D~rkvtC~~gCgf~FCR~C~e~yh~geC~~~~~as~t~t 370 (446)
T KOG0006|consen 294 GEEQYNRYQRYATEECVLQMG-GVLCPRPGCGAGLLPEP--DQRKVTCEGGCGFAFCRECKEAYHEGECSAVFEASGTTT 370 (446)
T ss_pred chhHHHHHHHhhhhhheeecC-CEecCCCCCCcccccCC--CCCcccCCCCchhHhHHHHHhhhccccceeeeccccccc
Confidence 889999999999999987766 56999999998876654 4567999 5999999999 8899762 1
Q ss_pred chhH-HH-HHHhhhhhHHhHHHHHhcCCCCCCCCcceeecCCCCcccccC-CCcceeeecccccccc
Q 007671 274 CDTV-AK-WVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMHMTCTP-PCKFEFCWLCLGQWSD 337 (594)
Q Consensus 274 C~~~-~~-~~~~~~~~~~~~~wi~~ntK~CPkC~~~IEK~~GCnhm~C~~-~C~~~FCw~C~~~~~~ 337 (594)
|.-. .. -.....-+..+..-|+..||+||+|..|.||||||+||.|+. .||.++||.|+-.|..
T Consensus 371 c~y~vde~~a~~arwd~as~~TIk~tTkpCPkChvptErnGGCmHm~Ct~~~Cg~eWCw~C~tEW~r 437 (446)
T KOG0006|consen 371 CAYRVDERAAEQARWDAASKETIKKTTKPCPKCHVPTERNGGCMHMKCTQPQCGLEWCWNCGTEWNR 437 (446)
T ss_pred eeeecChhhhhhhhhhhhhhhhhhhccCCCCCccCccccCCceEEeecCCCCCCceeEeccCChhhh
Confidence 3200 00 000011123344557888999999999999999999999983 6999999999999963
No 5
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=99.12 E-value=8e-11 Score=93.35 Aligned_cols=62 Identities=45% Similarity=0.983 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHhhcCCCcccCCCCCCCCeeeeecCCCCceeec-cCCccccccc-ccccCCCCc
Q 007671 213 VKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNV-KEAHRPVDC 274 (594)
Q Consensus 213 eky~~~~~~~~v~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C-~~~H~p~~C 274 (594)
++|.+++++++|+.++.++|||+|+|+.++......+...|.| .|++.||+.| .+||.|.+|
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 4789999999999988999999999999988753345678999 9999999999 999999987
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=99.01 E-value=8.5e-11 Score=93.16 Aligned_cols=62 Identities=32% Similarity=0.911 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHhhcCCCcccCCCCCCCCeeeeecCCCCceeec-cCCccccccc-ccccCCCCc
Q 007671 213 VKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNV-KEAHRPVDC 274 (594)
Q Consensus 213 eky~~~~~~~~v~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C-~~~H~p~~C 274 (594)
++|.+++++.+++.++.++|||+|+|+.++....+.....|+| .|++.||+.| .+||.|++|
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 5788999999998888999999999999998775444345899 6999999999 999999887
No 7
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.74 E-value=5e-09 Score=75.85 Aligned_cols=40 Identities=30% Similarity=0.848 Sum_probs=30.0
Q ss_pred cccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccC
Q 007671 144 CGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCP 190 (594)
Q Consensus 144 C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP 190 (594)
|+||++.+ .+|++++|||+||..|+..+|...-.. .+.||
T Consensus 1 CpiC~~~~--~~Pv~l~CGH~FC~~Cl~~~~~~~~~~-----~~~CP 40 (42)
T PF15227_consen 1 CPICLDLF--KDPVSLPCGHSFCRSCLERLWKEPSGS-----GFSCP 40 (42)
T ss_dssp ETTTTSB---SSEEE-SSSSEEEHHHHHHHHCCSSSS-----T---S
T ss_pred CCccchhh--CCccccCCcCHHHHHHHHHHHHccCCc-----CCCCc
Confidence 89999998 899999999999999999999764221 37898
No 8
>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=98.26 E-value=5.3e-07 Score=64.21 Aligned_cols=31 Identities=32% Similarity=1.006 Sum_probs=26.6
Q ss_pred cccccccccCCCc-ccccCCCcccHhhHHHHHHh
Q 007671 144 CGICFENYPSDRL-LAAACGHPFCSSCWTGYIST 176 (594)
Q Consensus 144 C~IC~e~~~~~~~-v~l~CgH~fC~~C~~~yi~~ 176 (594)
|+||++.+ .++ +.++|||.||..||..|+..
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 556 68899999999999999865
No 9
>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=98.23 E-value=8.3e-07 Score=63.81 Aligned_cols=38 Identities=34% Similarity=1.093 Sum_probs=32.2
Q ss_pred cccccccccCCCcc-cccCCCcccHhhHHHHHHhhccCCCCccccccC
Q 007671 144 CGICFENYPSDRLL-AAACGHPFCSSCWTGYISTAINDGPGCLMLRCP 190 (594)
Q Consensus 144 C~IC~e~~~~~~~v-~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP 190 (594)
|+||++.+ ..++ .++|||.||..||..++.. .+ .++||
T Consensus 1 C~iC~~~~--~~~~~~~~C~H~fC~~C~~~~~~~---~~----~~~CP 39 (41)
T PF00097_consen 1 CPICLEPF--EDPVILLPCGHSFCRDCLRKWLEN---SG----SVKCP 39 (41)
T ss_dssp ETTTSSBC--SSEEEETTTSEEEEHHHHHHHHHH---TS----SSBTT
T ss_pred CCcCCccc--cCCCEEecCCCcchHHHHHHHHHh---cC----CccCC
Confidence 89999987 5565 8999999999999999987 22 57898
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.22 E-value=8.8e-07 Score=84.54 Aligned_cols=67 Identities=22% Similarity=0.581 Sum_probs=48.8
Q ss_pred CCCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccC-------CCCccccccCCCcCCCccchhHHhhccC
Q 007671 138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIND-------GPGCLMLRCPDPSCGAAVGQDMIYLLSS 208 (594)
Q Consensus 138 ~~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~-------g~~~~~i~CP~~~C~~~v~~~~i~~ll~ 208 (594)
..+.++|+||++.+ .+++.++|||.||..|+..|+...-.. .......+|| .|+..+....+..+..
T Consensus 15 ~~~~~~CpICld~~--~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CP--vCR~~Is~~~LvPiyg 88 (193)
T PLN03208 15 SGGDFDCNICLDQV--RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCP--VCKSDVSEATLVPIYG 88 (193)
T ss_pred CCCccCCccCCCcC--CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCC--CCCCcCChhcEEEeec
Confidence 34578999999987 788889999999999999987642110 0011257999 8999987766554443
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=8.6e-07 Score=82.46 Aligned_cols=55 Identities=24% Similarity=0.703 Sum_probs=44.3
Q ss_pred CCCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHH
Q 007671 138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI 203 (594)
Q Consensus 138 ~~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 203 (594)
+...+.||||++.+....+++..|||.||..|++.-+.. ..+|| .|+..|+...+
T Consensus 128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~---------~~~CP--~C~kkIt~k~~ 182 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN---------TNKCP--TCRKKITHKQF 182 (187)
T ss_pred cccccCCCceecchhhccccccccchhHHHHHHHHHHHh---------CCCCC--Ccccccchhhh
Confidence 445789999999998778899999999999999998754 46899 67766654433
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=98.18 E-value=8e-07 Score=65.04 Aligned_cols=34 Identities=29% Similarity=0.885 Sum_probs=30.2
Q ss_pred cccccccccc-CCCcccccCCCcccHhhHHHHHHh
Q 007671 143 TCGICFENYP-SDRLLAAACGHPFCSSCWTGYIST 176 (594)
Q Consensus 143 ~C~IC~e~~~-~~~~v~l~CgH~fC~~C~~~yi~~ 176 (594)
+|+||++.+. ...++.++|||.||.+||..|+..
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 5999999995 467788999999999999999966
No 13
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.14 E-value=1.2e-06 Score=63.51 Aligned_cols=41 Identities=29% Similarity=0.812 Sum_probs=23.3
Q ss_pred cccccccccC--CCcccccCCCcccHhhHHHHHHhhccCCCCccccccC
Q 007671 144 CGICFENYPS--DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCP 190 (594)
Q Consensus 144 C~IC~e~~~~--~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP 190 (594)
|+||.+ +.. +.|+.|+|||.||.+|+.+.+..... ..++||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~-----~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDR-----NRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S------S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCC-----CeeeCc
Confidence 899999 632 34788999999999999999986431 268887
No 14
>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=97.95 E-value=4.7e-06 Score=65.72 Aligned_cols=38 Identities=42% Similarity=1.062 Sum_probs=29.7
Q ss_pred CCCCCC--CCcceeecCCCCc--ccccCCCcceeeeccccccc
Q 007671 298 SKPCPR--CKRPIEKNQGCMH--MTCTPPCKFEFCWLCLGQWS 336 (594)
Q Consensus 298 tK~CPk--C~~~IEK~~GCnh--m~C~~~C~~~FCw~C~~~~~ 336 (594)
.+.||+ |...|++..|.++ |+|. .|++.|||.|+++|+
T Consensus 18 ~~~Cp~~~C~~~~~~~~~~~~~~~~C~-~C~~~fC~~C~~~~H 59 (64)
T PF01485_consen 18 IRWCPNPDCEYIIEKDDGCNSPIVTCP-SCGTEFCFKCGEPWH 59 (64)
T ss_dssp CC--TTSST---ECS-SSTTS--CCTT-SCCSEECSSSTSESC
T ss_pred ccCCCCCCCcccEEecCCCCCCeeECC-CCCCcCccccCcccC
Confidence 489987 9999999999999 9998 899999999999994
No 15
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=97.94 E-value=1.1e-05 Score=63.72 Aligned_cols=39 Identities=38% Similarity=1.018 Sum_probs=34.9
Q ss_pred cCCCCC--CCCcceeecC--CCCcccccCCCcceeeeccccccc
Q 007671 297 NSKPCP--RCKRPIEKNQ--GCMHMTCTPPCKFEFCWLCLGQWS 336 (594)
Q Consensus 297 ntK~CP--kC~~~IEK~~--GCnhm~C~~~C~~~FCw~C~~~~~ 336 (594)
+.+.|| +|+..|+... |..+|+|. .|++.|||.|+.+|+
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 358899 9999999975 99999996 699999999999984
No 16
>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=97.91 E-value=7.8e-06 Score=61.52 Aligned_cols=46 Identities=33% Similarity=0.853 Sum_probs=37.2
Q ss_pred ccccccccccccCCCcccccCCCc-ccHhhHHHHHHhhccCCCCccccccCCCcCCCccc
Q 007671 141 EMTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG 199 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~CgH~-fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~ 199 (594)
...|.||++.. ..++.++|||. ||..|+..++.. ..+|| .|+..|.
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 7988764
No 17
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=6.9e-06 Score=84.44 Aligned_cols=108 Identities=23% Similarity=0.475 Sum_probs=64.5
Q ss_pred CCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhhccChHHHHHHHHH
Q 007671 139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRY 218 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~~e~~eky~~~ 218 (594)
...+.|+||++.+ ..+..++|||+||..|+...|. + .+.|| .|+. .......+.....+.+.+...
T Consensus 11 ~~~~~C~iC~~~~--~~p~~l~C~H~~c~~C~~~~~~-----~----~~~Cp--~cr~-~~~~~~~n~~l~~~~~~~~~~ 76 (386)
T KOG2177|consen 11 QEELTCPICLEYF--REPVLLPCGHNFCRACLTRSWE-----G----PLSCP--VCRP-PSRNLRPNVLLANLVERLRQL 76 (386)
T ss_pred cccccChhhHHHh--hcCccccccchHhHHHHHHhcC-----C----CcCCc--ccCC-chhccCccHHHHHHHHHHHhc
Confidence 4578999999998 6678999999999999999997 2 58999 7884 222111122222233333222
Q ss_pred HHHHHhhcCCCcccCCCCCCCCeeeeecCCCCceeec-cCCccccccc--ccccCCCC
Q 007671 219 FIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNV--KEAHRPVD 273 (594)
Q Consensus 219 ~~~~~v~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C--~~~H~p~~ 273 (594)
...... ......|+. ......+.| .|....|..| ...|....
T Consensus 77 ~~~~~~--~~~~~~c~~-----------~~~~~~~~c~~~~~~~c~~c~~~~~h~~h~ 121 (386)
T KOG2177|consen 77 RLSRPL--GSKEELCEK-----------HGEELKLFCEEDEKLLCVLCRESGEHRGHP 121 (386)
T ss_pred CCcccc--cccchhhhh-----------cCCcceEEecccccccCCCCCCcccccCCc
Confidence 111000 000012332 111145689 9999999999 45666543
No 18
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=97.84 E-value=0.00014 Score=76.02 Aligned_cols=34 Identities=26% Similarity=0.727 Sum_probs=29.9
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHH
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYIS 175 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~ 175 (594)
+++.|+||..-| .+|+.++|+|+.|..|-+.-+.
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 8999999999999999987654
No 19
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.81 E-value=1.3e-05 Score=85.44 Aligned_cols=66 Identities=24% Similarity=0.530 Sum_probs=50.4
Q ss_pred CCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchh-HHhhccChHHHHHHHH
Q 007671 139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD-MIYLLSSDEDKVKYNR 217 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~-~i~~ll~~e~~eky~~ 217 (594)
...+.|+||++.+ ..++.++|||.||..|+..|+.. ...|| .|+..+... +..+.+..++++.|..
T Consensus 24 e~~l~C~IC~d~~--~~PvitpCgH~FCs~CI~~~l~~---------~~~CP--~Cr~~~~~~~Lr~N~~L~~iVe~~~~ 90 (397)
T TIGR00599 24 DTSLRCHICKDFF--DVPVLTSCSHTFCSLCIRRCLSN---------QPKCP--LCRAEDQESKLRSNWLVSEIVESFKN 90 (397)
T ss_pred ccccCCCcCchhh--hCccCCCCCCchhHHHHHHHHhC---------CCCCC--CCCCccccccCccchHHHHHHHHHHH
Confidence 3578999999988 78889999999999999999853 23799 899988643 3344445566776654
No 20
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.81 E-value=1.3e-05 Score=58.70 Aligned_cols=42 Identities=40% Similarity=1.048 Sum_probs=34.1
Q ss_pred cccccccccc-CCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCC
Q 007671 143 TCGICFENYP-SDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCG 195 (594)
Q Consensus 143 ~C~IC~e~~~-~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~ 195 (594)
.|+||++.+. ...++.++|||.||..|+.... +. .+.|| .|+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~------~~---~~~CP--~C~ 43 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK------GK---SVKCP--ICR 43 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc------CC---CCCCc--CCC
Confidence 4999999993 3467888999999999999886 21 58899 675
No 21
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=97.81 E-value=1.6e-05 Score=62.54 Aligned_cols=48 Identities=13% Similarity=0.239 Sum_probs=39.7
Q ss_pred cccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhH
Q 007671 142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM 202 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~ 202 (594)
+.|+||++.+ .+|+.++|||.||+.|+..|+.. + ..|| .|+..++...
T Consensus 2 ~~Cpi~~~~~--~~Pv~~~~G~v~~~~~i~~~~~~----~-----~~cP--~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVM--KDPVILPSGQTYERRAIEKWLLS----H-----GTDP--VTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcC--CCCEECCCCCEEeHHHHHHHHHH----C-----CCCC--CCcCCCChhh
Confidence 6799999987 77999999999999999999965 1 3688 6887775443
No 22
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=97.81 E-value=1.7e-05 Score=57.25 Aligned_cols=43 Identities=35% Similarity=0.976 Sum_probs=33.2
Q ss_pred ccccccccccCCCccc-ccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCc
Q 007671 143 TCGICFENYPSDRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA 197 (594)
Q Consensus 143 ~C~IC~e~~~~~~~v~-l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~ 197 (594)
+|+||++.+ ..++. .+|||.||..|+..|+.. + ..+|| .|+..
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 44444 459999999999999875 2 46798 68764
No 23
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.79 E-value=1e-05 Score=78.75 Aligned_cols=59 Identities=34% Similarity=0.719 Sum_probs=48.3
Q ss_pred CCCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhhc
Q 007671 138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLL 206 (594)
Q Consensus 138 ~~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~l 206 (594)
....|.|.||+|.- .++|...|||.||-.||-+|+....+ .-.|| .|+..|+.+.+-.|
T Consensus 44 ~~~~FdCNICLd~a--kdPVvTlCGHLFCWpClyqWl~~~~~------~~~cP--VCK~~Vs~~~vvPl 102 (230)
T KOG0823|consen 44 DGGFFDCNICLDLA--KDPVVTLCGHLFCWPCLYQWLQTRPN------SKECP--VCKAEVSIDTVVPL 102 (230)
T ss_pred CCCceeeeeecccc--CCCEEeecccceehHHHHHHHhhcCC------CeeCC--ccccccccceEEee
Confidence 46689999999976 89999999999999999999987653 34688 89998877655443
No 24
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.75 E-value=1.1e-05 Score=81.64 Aligned_cols=64 Identities=31% Similarity=0.682 Sum_probs=51.5
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHh-hccChHHHHHHH
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY-LLSSDEDKVKYN 216 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~-~ll~~e~~eky~ 216 (594)
..+.|.||++-| .-|+.+||+|.||.-||+.|+.. ...|| .|...+.+..++ +.+..++++-|.
T Consensus 22 ~lLRC~IC~eyf--~ip~itpCsHtfCSlCIR~~L~~---------~p~CP--~C~~~~~Es~Lr~n~il~Eiv~S~~ 86 (442)
T KOG0287|consen 22 DLLRCGICFEYF--NIPMITPCSHTFCSLCIRKFLSY---------KPQCP--TCCVTVTESDLRNNRILDEIVKSLN 86 (442)
T ss_pred HHHHHhHHHHHh--cCceeccccchHHHHHHHHHhcc---------CCCCC--ceecccchhhhhhhhHHHHHHHHHH
Confidence 357899999998 77888899999999999999864 46799 899999766554 455667777664
No 25
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=2.5e-05 Score=78.27 Aligned_cols=52 Identities=31% Similarity=0.703 Sum_probs=43.4
Q ss_pred CCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHH
Q 007671 139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI 203 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 203 (594)
.....|.+|++.. .+|..+||||.||..|+..|...+ -.|| .|+..+.|..+
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 3457799999976 789999999999999999998653 3499 89999877654
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=1.6e-05 Score=85.26 Aligned_cols=60 Identities=27% Similarity=0.614 Sum_probs=47.5
Q ss_pred ccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhhccC
Q 007671 141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSS 208 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~ 208 (594)
...|||||+.. .-++.+.|||.||-.||-.||......+ ..+|| -|...|.+..+..+..
T Consensus 186 ~~~CPICL~~~--~~p~~t~CGHiFC~~CiLqy~~~s~~~~----~~~CP--iC~s~I~~kdl~pv~~ 245 (513)
T KOG2164|consen 186 DMQCPICLEPP--SVPVRTNCGHIFCGPCILQYWNYSAIKG----PCSCP--ICRSTITLKDLLPVFI 245 (513)
T ss_pred CCcCCcccCCC--CcccccccCceeeHHHHHHHHhhhcccC----CccCC--chhhhccccceeeeee
Confidence 67899999875 4556667999999999999999873333 68999 7999988766665544
No 27
>PHA02926 zinc finger-like protein; Provisional
Probab=97.62 E-value=4.4e-05 Score=73.82 Aligned_cols=56 Identities=34% Similarity=0.670 Sum_probs=40.5
Q ss_pred CCccccccccccccC-----C--CcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccc
Q 007671 139 GEEMTCGICFENYPS-----D--RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG 199 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~-----~--~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~ 199 (594)
+...+|+||++..-. . -.+..+|+|.||..|+..|-......|. .-.|| .|+..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~---~rsCP--iCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGA---SDNCP--ICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCc---CCcCC--CCcceee
Confidence 457889999997521 1 1345589999999999999886543332 46799 7988653
No 28
>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=97.58 E-value=4.9e-05 Score=52.82 Aligned_cols=30 Identities=37% Similarity=1.009 Sum_probs=26.9
Q ss_pred cccccccccCCCcccccCCCcccHhhHHHHHH
Q 007671 144 CGICFENYPSDRLLAAACGHPFCSSCWTGYIS 175 (594)
Q Consensus 144 C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~ 175 (594)
|+||++.. ..++.++|||.||..|+..|+.
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 29
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.55 E-value=6e-05 Score=75.13 Aligned_cols=50 Identities=24% Similarity=0.615 Sum_probs=37.6
Q ss_pred CCccccccccccccCCC------cccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccc
Q 007671 139 GEEMTCGICFENYPSDR------LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG 199 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~~------~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~ 199 (594)
....+|+||++.+.... .+.++|||.||..|+..|+.. ...|| .|+..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~---------~~tCP--lCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE---------KNTCP--VCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc---------CCCCC--CCCCEee
Confidence 34678999999864322 245689999999999998743 24799 7998764
No 30
>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=97.13 E-value=0.00028 Score=57.53 Aligned_cols=50 Identities=16% Similarity=0.208 Sum_probs=38.1
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchh
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD 201 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~ 201 (594)
..|.|+|+.+.+ .+||.+++||.|++.||..|+.. + ...|| .|+..+...
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 478999999998 89999999999999999999866 1 46798 678777654
No 31
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.09 E-value=0.014 Score=62.01 Aligned_cols=115 Identities=23% Similarity=0.332 Sum_probs=67.0
Q ss_pred eCHHHHHHHHHHHHHHHHHHhCCCHH--HHHHHHHhcCCChHHH--HHHH----hh--cHHHHHHHhCCC-----CC-CC
Q 007671 70 LTEADIRQRQEEDITRISTVLSISKV--AASILLRFYNWSVSKV--HDEW----FA--DEERVRKAVGLL-----EK-PA 133 (594)
Q Consensus 70 l~~~~i~~~~~~~i~~v~~~l~i~~~--~a~~LL~~~~W~~~~l--~e~~----~~--d~~~~~~~~gl~-----~~-~~ 133 (594)
||.-|+..-+..-+.+|+.+.=|-.+ .-..+|..|+=..+.. .+.| |. +++ +...+-+. .. +.
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 78899999999888888877665321 2234455665443321 1222 11 111 21111111 00 00
Q ss_pred ---CCCCCCCccccccccccccC--CCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 134 ---VQFPDGEEMTCGICFENYPS--DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 134 ---~~~~~~~~~~C~IC~e~~~~--~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
.+....+..+||||++-... +-+++..|.|.|-..|+..|+ ..+|| .|+...
T Consensus 165 as~~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~-----------~~scp--vcR~~q 221 (493)
T KOG0804|consen 165 ASEPPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW-----------DSSCP--VCRYCQ 221 (493)
T ss_pred CCCCCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc-----------cCcCh--hhhhhc
Confidence 11112346789999998753 235678899999999999986 46898 676443
No 32
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.00022 Score=80.32 Aligned_cols=55 Identities=29% Similarity=0.744 Sum_probs=46.1
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhhc
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLL 206 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~l 206 (594)
..++||+|..-. .+.+...|||.||..|++..+.+. .-+|| .|+..|++..|..+
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 468899999544 788899999999999999998774 35899 89999988777654
No 33
>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=96.94 E-value=0.00068 Score=69.66 Aligned_cols=53 Identities=23% Similarity=0.580 Sum_probs=38.3
Q ss_pred cccccccccccC-CC---cccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhh
Q 007671 142 MTCGICFENYPS-DR---LLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL 205 (594)
Q Consensus 142 ~~C~IC~e~~~~-~~---~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ 205 (594)
..||||..+... .. ++. +|||.||..|+...|. .| +..|| .|+..+....++.
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 579999986322 22 333 7999999999999973 23 45899 8999887665443
No 34
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.67 E-value=0.0014 Score=65.11 Aligned_cols=53 Identities=28% Similarity=0.565 Sum_probs=42.3
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHH
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI 203 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 203 (594)
..+.|.||++.. ..+..++|||.||..|+-..|..+- .-.|| .|++.+.+..|
T Consensus 214 ~d~kC~lC~e~~--~~ps~t~CgHlFC~~Cl~~~~t~~k-------~~~Cp--lCRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEP--EVPSCTPCGHLFCLSCLLISWTKKK-------YEFCP--LCRAKVYPKKV 266 (271)
T ss_pred cccceeeeeccc--CCcccccccchhhHHHHHHHHHhhc-------cccCc--hhhhhccchhh
Confidence 477899999975 7889999999999999999665431 34599 89998866655
No 35
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.64 E-value=0.00047 Score=53.82 Aligned_cols=43 Identities=35% Similarity=0.840 Sum_probs=22.1
Q ss_pred ccccccccccccCCCcccc-cCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 141 EMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l-~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
.+.|++|.+.+ ..||.+ .|.|.||..|++..+ ...|| .|..+.
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 45699999987 788764 699999999997643 23599 788765
No 36
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.45 E-value=0.0016 Score=69.87 Aligned_cols=57 Identities=25% Similarity=0.781 Sum_probs=46.8
Q ss_pred CCCCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchh
Q 007671 137 PDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD 201 (594)
Q Consensus 137 ~~~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~ 201 (594)
.+.+...|.+|-+.- .+++...|.|.||+-|++.|+....... .+.|| .|-..++.+
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 456788999999865 7888889999999999999998876443 48999 798877554
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=96.43 E-value=0.0017 Score=65.00 Aligned_cols=64 Identities=25% Similarity=0.422 Sum_probs=46.7
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhh-ccChHHHHHHH
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL-LSSDEDKVKYN 216 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~-ll~~e~~eky~ 216 (594)
..+.|-||-+-+ .-++..+|||.||.-||+.|+.+ ...|| .|+..+....++. .+..++.+-|.
T Consensus 24 s~lrC~IC~~~i--~ip~~TtCgHtFCslCIR~hL~~---------qp~CP--~Cr~~~~esrlr~~s~~~ei~es~~ 88 (391)
T COG5432 24 SMLRCRICDCRI--SIPCETTCGHTFCSLCIRRHLGT---------QPFCP--VCREDPCESRLRGSSGSREINESHA 88 (391)
T ss_pred hHHHhhhhhhee--ecceecccccchhHHHHHHHhcC---------CCCCc--cccccHHhhhcccchhHHHHHHhhh
Confidence 356799999887 67888999999999999999854 35688 7887765444332 34445555554
No 38
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.43 E-value=0.002 Score=49.81 Aligned_cols=47 Identities=26% Similarity=0.603 Sum_probs=30.7
Q ss_pred CccccccccccccCCCccc-ccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCC
Q 007671 140 EEMTCGICFENYPSDRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCG 195 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~-l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~ 195 (594)
-.+.|||.+..+ .+|+. ..|||.|.+..+..|+. .+ ..++||..+|.
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 367899999987 67765 58999999999999992 22 26899998884
No 39
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.0043 Score=64.88 Aligned_cols=47 Identities=32% Similarity=0.810 Sum_probs=38.5
Q ss_pred cccccccccccC-CCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 142 MTCGICFENYPS-DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 142 ~~C~IC~e~~~~-~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
.+|.||+|+|.. +..+.|||+|.|...|+..|+... .-.|| -|+.-+
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~--------r~~CP--vCK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT--------RTFCP--VCKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc--------CccCC--CCCCcC
Confidence 699999999975 456789999999999999998653 23599 687654
No 40
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.10 E-value=0.0032 Score=63.50 Aligned_cols=52 Identities=29% Similarity=0.722 Sum_probs=42.6
Q ss_pred CCccccccccccccC-CCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccch
Q 007671 139 GEEMTCGICFENYPS-DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ 200 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~-~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~ 200 (594)
.....|.||++.+.. +..+.+||.|.|...|+.+|+.. ...+|| .|+..++|
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 346789999999864 45678999999999999999852 257899 89998876
No 41
>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=96.04 E-value=0.0053 Score=50.03 Aligned_cols=43 Identities=28% Similarity=0.679 Sum_probs=29.9
Q ss_pred cccccccccccC-----------CCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCC
Q 007671 142 MTCGICFENYPS-----------DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCG 195 (594)
Q Consensus 142 ~~C~IC~e~~~~-----------~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~ 195 (594)
-.|.||++.+.. -.++..+|||.|...||..++... -.|| .|+
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~---------~~CP--~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN---------NTCP--LCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS---------SB-T--TSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC---------CcCC--CCC
Confidence 349999999821 112334799999999999998542 3798 564
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=95.94 E-value=0.017 Score=41.98 Aligned_cols=41 Identities=22% Similarity=0.427 Sum_probs=35.0
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhcCCChHHHHHHHhhcHH
Q 007671 80 EEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEE 120 (594)
Q Consensus 80 ~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~e~~~~d~~ 120 (594)
++.|.+..++.++++..|..+|...+||++..++.||.+++
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 36789999999999999999999999999999999998653
No 43
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=95.90 E-value=0.0028 Score=42.29 Aligned_cols=26 Identities=35% Similarity=0.928 Sum_probs=20.8
Q ss_pred CccccCCCCccCCCccccccccCCCC
Q 007671 569 SHWYCDQCTYANVNSATACAMCQHSR 594 (594)
Q Consensus 569 ~~~~~~~~~~~~~~~~~~c~~c~~~~ 594 (594)
+.|.|..|||.|..+...|.||.-+|
T Consensus 3 g~W~C~~C~~~N~~~~~~C~~C~~~r 28 (30)
T PF00641_consen 3 GDWKCPSCTFMNPASRSKCVACGAPR 28 (30)
T ss_dssp SSEEETTTTEEEESSSSB-TTT--BT
T ss_pred cCccCCCCcCCchHHhhhhhCcCCCC
Confidence 35999999999999999999997654
No 44
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=95.63 E-value=0.0065 Score=38.97 Aligned_cols=24 Identities=33% Similarity=0.906 Sum_probs=22.3
Q ss_pred ccccCCCCccCCCccccccccCCC
Q 007671 570 HWYCDQCTYANVNSATACAMCQHS 593 (594)
Q Consensus 570 ~~~~~~~~~~~~~~~~~c~~c~~~ 593 (594)
.|.|..||+.|......|.+|..|
T Consensus 2 ~W~C~~C~~~N~~~~~~C~~C~~p 25 (26)
T smart00547 2 DWECPACTFLNFASRSKCFACGAP 25 (26)
T ss_pred cccCCCCCCcChhhhccccccCCc
Confidence 599999999999999999999865
No 45
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=95.43 E-value=0.041 Score=57.17 Aligned_cols=51 Identities=25% Similarity=0.607 Sum_probs=38.9
Q ss_pred CCccccccccccc-cCC----------CcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccch
Q 007671 139 GEEMTCGICFENY-PSD----------RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ 200 (594)
Q Consensus 139 ~~~~~C~IC~e~~-~~~----------~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~ 200 (594)
.+...|.||+|+. ... .|..+||||.+...|++.|++.+ -.|| -|+.++-.
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq---------QTCP--ICr~p~if 346 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ---------QTCP--ICRRPVIF 346 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc---------cCCC--cccCcccc
Confidence 3467899999983 221 35678999999999999999753 4799 79987533
No 46
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.14 E-value=0.011 Score=59.96 Aligned_cols=54 Identities=20% Similarity=0.512 Sum_probs=41.7
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhh
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYL 205 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ 205 (594)
..-.|.||+.+- .-|+.++|+|.||..|+++-... + ...|| -|+..|+...+.+
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 345799999986 67899999999999999975432 2 35698 7999987665543
No 47
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.11 E-value=0.02 Score=57.34 Aligned_cols=52 Identities=27% Similarity=0.621 Sum_probs=38.1
Q ss_pred CCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccch
Q 007671 139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ 200 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~ 200 (594)
....+|++|.+. |....+..+|||.||--|+..-..... .+.|| .|+..+.+
T Consensus 237 t~~~~C~~Cg~~-PtiP~~~~~C~HiyCY~Ci~ts~~~~a-------sf~Cp--~Cg~~~~~ 288 (298)
T KOG2879|consen 237 TSDTECPVCGEP-PTIPHVIGKCGHIYCYYCIATSRLWDA-------SFTCP--LCGENVEP 288 (298)
T ss_pred cCCceeeccCCC-CCCCeeeccccceeehhhhhhhhcchh-------hcccC--ccCCCCcc
Confidence 346789999975 323344556999999999998765432 58999 89987754
No 48
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=94.84 E-value=0.02 Score=46.32 Aligned_cols=58 Identities=21% Similarity=0.547 Sum_probs=26.6
Q ss_pred cccccccccccc-CCC-cc-c---ccCCCcccHhhHHHHHHhhccCCCCccc--cccCCCcCCCccch
Q 007671 141 EMTCGICFENYP-SDR-LL-A---AACGHPFCSSCWTGYISTAINDGPGCLM--LRCPDPSCGAAVGQ 200 (594)
Q Consensus 141 ~~~C~IC~e~~~-~~~-~v-~---l~CgH~fC~~C~~~yi~~~i~~g~~~~~--i~CP~~~C~~~v~~ 200 (594)
+..|+||+.... ... +. . ..|++.|...|+..|+...-.......+ =.|| .|+..|.-
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 221 21 1 2589999999999999876544322122 3699 89987753
No 49
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.65 E-value=0.032 Score=59.87 Aligned_cols=49 Identities=24% Similarity=0.682 Sum_probs=39.1
Q ss_pred CCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccch
Q 007671 139 GEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ 200 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~ 200 (594)
..+|.|.||+..+ -.|++++|||.||..|+..-+. . ...|| .|+..+..
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 5689999999987 7788889999999999776332 1 45788 69988753
No 50
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=94.45 E-value=0.015 Score=55.33 Aligned_cols=31 Identities=39% Similarity=0.981 Sum_probs=27.7
Q ss_pred ccccccccccccCCCcccccCCCcccHhhHHHH
Q 007671 141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGY 173 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~y 173 (594)
.|.|.||-.+| ..|+...|||.||..|...-
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 68999999998 88999999999999997543
No 51
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=94.17 E-value=0.022 Score=58.57 Aligned_cols=47 Identities=28% Similarity=0.686 Sum_probs=36.7
Q ss_pred CccccccccccccCCCc-ccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccc
Q 007671 140 EEMTCGICFENYPSDRL-LAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG 199 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~-v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~ 199 (594)
..++|.+|-..+ .+. ...-|-|.||+.||-.|+.. ...|| .|+..+.
T Consensus 14 ~~itC~LC~GYl--iDATTI~eCLHTFCkSCivk~l~~---------~~~CP--~C~i~ih 61 (331)
T KOG2660|consen 14 PHITCRLCGGYL--IDATTITECLHTFCKSCIVKYLEE---------SKYCP--TCDIVIH 61 (331)
T ss_pred cceehhhcccee--ecchhHHHHHHHHHHHHHHHHHHH---------hccCC--ccceecc
Confidence 467899999876 444 44569999999999999976 25799 6887763
No 52
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.13 E-value=0.041 Score=40.75 Aligned_cols=45 Identities=24% Similarity=0.718 Sum_probs=21.6
Q ss_pred cccccccccCC--CcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 144 CGICFENYPSD--RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 144 C~IC~e~~~~~--~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
|++|.+.+..+ ++..-+||+.+|..||..-... + .=+|| +|+...
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~----~----~g~CP--gCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN----E----GGRCP--GCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS----S-----SB-T--TT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc----c----CCCCC--CCCCCC
Confidence 78999987544 3455679999999999886541 1 24799 898653
No 53
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.51 E-value=0.011 Score=61.03 Aligned_cols=48 Identities=25% Similarity=0.662 Sum_probs=34.9
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
..+.|+||++.+. .-+.+..|+|.||.+||-.-+.. | .-.|| .|+..+
T Consensus 42 ~~v~c~icl~llk-~tmttkeClhrfc~~ci~~a~r~----g----n~ecp--tcRk~l 89 (381)
T KOG0311|consen 42 IQVICPICLSLLK-KTMTTKECLHRFCFDCIWKALRS----G----NNECP--TCRKKL 89 (381)
T ss_pred hhhccHHHHHHHH-hhcccHHHHHHHHHHHHHHHHHh----c----CCCCc--hHHhhc
Confidence 4788999999873 23445569999999999765532 2 34798 788754
No 54
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.85 E-value=0.076 Score=55.96 Aligned_cols=58 Identities=24% Similarity=0.562 Sum_probs=38.6
Q ss_pred CCCCccccccccccccCCC-----ccc-ccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 137 PDGEEMTCGICFENYPSDR-----LLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 137 ~~~~~~~C~IC~e~~~~~~-----~v~-l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
+......|+||++...... .-. .+|.|.||..|++.|-...-. +. ...-.|| .|+...
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 3466889999999874332 112 459999999999998533221 11 2346799 788753
No 55
>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=92.48 E-value=0.21 Score=59.11 Aligned_cols=20 Identities=10% Similarity=0.069 Sum_probs=14.5
Q ss_pred HHHHHHHhcCCChHHHHHHH
Q 007671 96 AASILLRFYNWSVSKVHDEW 115 (594)
Q Consensus 96 ~a~~LL~~~~W~~~~l~e~~ 115 (594)
.+...+.||+--+-.|++-|
T Consensus 764 ~~~~~~~~Fk~RvlDLleiy 783 (784)
T PF04931_consen 764 EAKENVIHFKNRVLDLLEIY 783 (784)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 56777788887777777655
No 56
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=92.06 E-value=0.14 Score=42.76 Aligned_cols=34 Identities=26% Similarity=0.575 Sum_probs=26.2
Q ss_pred ccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 157 LAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 157 v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
+...|+|.|...||..+++++-. .-.|| -|+..+
T Consensus 48 v~g~C~H~FH~hCI~kWl~~~~~------~~~CP--mCR~~w 81 (85)
T PF12861_consen 48 VWGKCSHNFHMHCILKWLSTQSS------KGQCP--MCRQPW 81 (85)
T ss_pred eeccCccHHHHHHHHHHHccccC------CCCCC--CcCCee
Confidence 33469999999999999987522 24799 698765
No 57
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.86 E-value=0.076 Score=60.06 Aligned_cols=46 Identities=30% Similarity=0.714 Sum_probs=36.5
Q ss_pred ccccccccccccCC---CcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCc
Q 007671 141 EMTCGICFENYPSD---RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA 197 (594)
Q Consensus 141 ~~~C~IC~e~~~~~---~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~ 197 (594)
...|.||.+.+... .+..++|||.||..|++.|++. .-.|| .|+..
T Consensus 291 ~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er---------~qtCP--~CR~~ 339 (543)
T KOG0802|consen 291 DELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER---------QQTCP--TCRTV 339 (543)
T ss_pred CCeeeeechhhccccccccceeecccchHHHHHHHHHHH---------hCcCC--cchhh
Confidence 56899999987421 2677899999999999999987 24788 67763
No 58
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.85 E-value=0.18 Score=53.31 Aligned_cols=52 Identities=29% Similarity=0.796 Sum_probs=39.7
Q ss_pred ccccccccccccC---CCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchh
Q 007671 141 EMTCGICFENYPS---DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD 201 (594)
Q Consensus 141 ~~~C~IC~e~~~~---~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~ 201 (594)
..+||||++.+.. ..++++.|||.|=.+|+++|+. ++ ...+|| .|...-...
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~------~~~~cp--~c~~katkr 58 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KK------TKMQCP--LCSGKATKR 58 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hh------hhhhCc--ccCChhHHH
Confidence 4689999998742 3578899999999999999994 32 367899 787654433
No 59
>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=91.31 E-value=0.11 Score=33.37 Aligned_cols=24 Identities=29% Similarity=0.913 Sum_probs=16.7
Q ss_pred CCCCCCCcceeecCCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (594)
|.||.|+..|-. +-..|. .||+.|
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 679999988862 225665 677766
No 60
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=91.23 E-value=0.25 Score=56.68 Aligned_cols=54 Identities=24% Similarity=0.543 Sum_probs=40.4
Q ss_pred CCccccccccccccCCCc-ccc-cCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCC
Q 007671 139 GEEMTCGICFENYPSDRL-LAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGA 196 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~~~-v~l-~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~ 196 (594)
...++|.||++.+....+ .+. .|-|.|...||+.|....-..+. ...+|| .|..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~--~~WrCP--~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQ--DGWRCP--ACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccC--ccccCC--cccc
Confidence 346889999999865544 333 49999999999999988444443 368999 7853
No 61
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.94 E-value=0.87 Score=48.28 Aligned_cols=56 Identities=16% Similarity=0.357 Sum_probs=39.5
Q ss_pred Ccccccccccccc-CCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHH
Q 007671 140 EEMTCGICFENYP-SDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI 203 (594)
Q Consensus 140 ~~~~C~IC~e~~~-~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 203 (594)
+.|.|||=-+.-. .+.|..+.|||..|++=+..... +| ...++|| -|.........
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~----ng--~~sfKCP--YCP~e~~~~~~ 389 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSK----NG--SQSFKCP--YCPVEQLASDT 389 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhh----CC--CeeeeCC--CCCcccCHHhc
Confidence 4789999555433 25788999999999998877643 23 2369999 79765544433
No 62
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=90.26 E-value=0.51 Score=48.27 Aligned_cols=93 Identities=23% Similarity=0.569 Sum_probs=53.8
Q ss_pred cCCCcccHhhHHHHHHhhccCCCC-ccccccCCCcCCCccchhHHhhccChHHHHHHHHHHHHHHhhcCCCcccCCCCCC
Q 007671 160 ACGHPFCSSCWTGYISTAINDGPG-CLMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGC 238 (594)
Q Consensus 160 ~CgH~fC~~C~~~yi~~~i~~g~~-~~~i~CP~~~C~~~v~~~~i~~ll~~e~~eky~~~~~~~~v~~~~~~~~CP~p~C 238 (594)
.||-.||+.|+..|-...-..+-+ ... ..|...+.+... ...+|...... .+ ....+.|| .|
T Consensus 341 gCgf~FCR~C~e~yh~geC~~~~~as~t-----~tc~y~vde~~a-------~~arwd~as~~-TI--k~tTkpCP--kC 403 (446)
T KOG0006|consen 341 GCGFAFCRECKEAYHEGECSAVFEASGT-----TTCAYRVDERAA-------EQARWDAASKE-TI--KKTTKPCP--KC 403 (446)
T ss_pred CchhHhHHHHHhhhccccceeeeccccc-----cceeeecChhhh-------hhhhhhhhhhh-hh--hhccCCCC--Cc
Confidence 499999999999996433222110 001 134444433221 12344433221 11 23457888 49
Q ss_pred CCeeeeecCCCCceeec-c--CCccccccc-ccccCC
Q 007671 239 DYAVDFVVGSGNYDVTC-R--CSYSFCWNV-KEAHRP 271 (594)
Q Consensus 239 ~~~i~~~~~~~~~~v~C-~--C~~~fC~~C-~~~H~p 271 (594)
..+.+.. .+...+.| . ||..+||+| .+|.+.
T Consensus 404 hvptErn--GGCmHm~Ct~~~Cg~eWCw~C~tEW~r~ 438 (446)
T KOG0006|consen 404 HVPTERN--GGCMHMKCTQPQCGLEWCWNCGTEWNRV 438 (446)
T ss_pred cCccccC--CceEEeecCCCCCCceeEeccCChhhhh
Confidence 8776543 34566789 4 999999999 888653
No 63
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.07 E-value=0.2 Score=50.14 Aligned_cols=71 Identities=18% Similarity=0.457 Sum_probs=47.2
Q ss_pred HHHHHhCCCCCCCCCCCCCCccccccccccccCC--------CcccccCCCcccHhhHHHHHHhhccCCCCccccccCCC
Q 007671 121 RVRKAVGLLEKPAVQFPDGEEMTCGICFENYPSD--------RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDP 192 (594)
Q Consensus 121 ~~~~~~gl~~~~~~~~~~~~~~~C~IC~e~~~~~--------~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~ 192 (594)
.+-..+|.-.....+....+...|.||-..+..+ ++..++|+|.|...|+++|.-. |+ .-.||
T Consensus 204 ~mAs~iGfYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWciv----GK---kqtCP-- 274 (328)
T KOG1734|consen 204 YMASTIGFYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIV----GK---KQTCP-- 274 (328)
T ss_pred HHHHHhcccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheee----cC---CCCCc--
Confidence 3344455533333333334566799998776432 4678999999999999999643 22 46899
Q ss_pred cCCCccch
Q 007671 193 SCGAAVGQ 200 (594)
Q Consensus 193 ~C~~~v~~ 200 (594)
-|+..+..
T Consensus 275 YCKekVdl 282 (328)
T KOG1734|consen 275 YCKEKVDL 282 (328)
T ss_pred hHHHHhhH
Confidence 89987743
No 64
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=89.39 E-value=0.36 Score=51.76 Aligned_cols=11 Identities=36% Similarity=1.102 Sum_probs=7.2
Q ss_pred CCCCCcccccc
Q 007671 136 FPDGEEMTCGI 146 (594)
Q Consensus 136 ~~~~~~~~C~I 146 (594)
.|.+..|.|+-
T Consensus 189 LPDSTDFVCGT 199 (458)
T PF10446_consen 189 LPDSTDFVCGT 199 (458)
T ss_pred CCCcccccCCC
Confidence 45666777764
No 65
>PRK00420 hypothetical protein; Validated
Probab=89.39 E-value=2.4 Score=37.48 Aligned_cols=27 Identities=26% Similarity=0.294 Sum_probs=18.9
Q ss_pred CCCCCCCCcceeecCCCCcccccCCCcceeeeccccc
Q 007671 298 SKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQ 334 (594)
Q Consensus 298 tK~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (594)
...||.|+.|+-+. .-|..||..|+..
T Consensus 23 ~~~CP~Cg~pLf~l----------k~g~~~Cp~Cg~~ 49 (112)
T PRK00420 23 SKHCPVCGLPLFEL----------KDGEVVCPVHGKV 49 (112)
T ss_pred cCCCCCCCCcceec----------CCCceECCCCCCe
Confidence 38999999998841 2456667777653
No 66
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.76 E-value=0.36 Score=50.46 Aligned_cols=65 Identities=18% Similarity=0.459 Sum_probs=45.0
Q ss_pred HHHhCCCCCCCCCCC---CCCccccccccccccCCCcccccCCCc-ccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 123 RKAVGLLEKPAVQFP---DGEEMTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 123 ~~~~gl~~~~~~~~~---~~~~~~C~IC~e~~~~~~~v~l~CgH~-fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
++..||..++..... +.....|-||+... .+.+.+||.|. .|.+|-+..- .. .=+|| -|+..|
T Consensus 269 qEiyGien~~v~~~~~~~~~~gkeCVIClse~--rdt~vLPCRHLCLCs~Ca~~Lr---~q------~n~CP--ICRqpi 335 (349)
T KOG4265|consen 269 QEIYGIENSTVEGTDADESESGKECVICLSES--RDTVVLPCRHLCLCSGCAKSLR---YQ------TNNCP--ICRQPI 335 (349)
T ss_pred ehhhccccCCCCCCccccccCCCeeEEEecCC--cceEEecchhhehhHhHHHHHH---Hh------hcCCC--ccccch
Confidence 455676644333222 23467899999976 78999999997 7999988764 11 23699 799877
Q ss_pred ch
Q 007671 199 GQ 200 (594)
Q Consensus 199 ~~ 200 (594)
..
T Consensus 336 ~~ 337 (349)
T KOG4265|consen 336 EE 337 (349)
T ss_pred Hh
Confidence 43
No 67
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.65 E-value=0.58 Score=49.67 Aligned_cols=41 Identities=34% Similarity=0.957 Sum_probs=36.9
Q ss_pred hcCCCCCC--CCcceeecCCCCcccccCCCcceeeecccccccc
Q 007671 296 ANSKPCPR--CKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD 337 (594)
Q Consensus 296 ~ntK~CPk--C~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~ 337 (594)
++..-||+ |..|+-...|++-..|. .|.+.||.+|...|+.
T Consensus 271 sdv~yCPr~~Cq~p~~~d~~~~l~~Cs-kCnFaFCtlCk~t~HG 313 (445)
T KOG1814|consen 271 SDVVYCPRACCQLPVKQDPGRALAICS-KCNFAFCTLCKLTWHG 313 (445)
T ss_pred cccccCChhhccCccccCchhhhhhhc-cCccHHHHHHHHhhcC
Confidence 46789998 99999778899999999 8999999999999954
No 68
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.34 E-value=0.35 Score=50.13 Aligned_cols=52 Identities=31% Similarity=0.615 Sum_probs=38.3
Q ss_pred CCCCCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccch
Q 007671 136 FPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ 200 (594)
Q Consensus 136 ~~~~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~ 200 (594)
.|.++.-.|+||+..- -.-+..||+|.-|.+||.+|+-. .-+|- .|+..+..
T Consensus 417 lp~sEd~lCpICyA~p--i~Avf~PC~H~SC~~CI~qHlmN---------~k~CF--fCktTv~~ 468 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAGP--INAVFAPCSHRSCYGCITQHLMN---------CKRCF--FCKTTVID 468 (489)
T ss_pred CCCcccccCcceeccc--chhhccCCCCchHHHHHHHHHhc---------CCeee--Eecceeee
Confidence 4566788899999642 34566799999999999999743 23565 68877644
No 69
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.18 E-value=0.22 Score=53.79 Aligned_cols=40 Identities=25% Similarity=0.797 Sum_probs=31.5
Q ss_pred CCcccCCCCCCCCeeeeecCCCCceeeccCCccccccc-ccccCC
Q 007671 228 RKTKWCPAPGCDYAVDFVVGSGNYDVTCRCSYSFCWNV-KEAHRP 271 (594)
Q Consensus 228 ~~~~~CP~p~C~~~i~~~~~~~~~~v~C~C~~~fC~~C-~~~H~p 271 (594)
...+.||. |...|... .+-..++|.||+.||+.| .+|+..
T Consensus 304 ~~wr~Cpk--C~~~ie~~--~GCnhm~CrC~~~fcy~C~~~~~~~ 344 (384)
T KOG1812|consen 304 KRWRQCPK--CKFMIELS--EGCNHMTCRCGHQFCYMCGGDWKTH 344 (384)
T ss_pred HhcCcCcc--cceeeeec--CCcceEEeeccccchhhcCcchhhC
Confidence 45678994 99888664 346788999999999999 787654
No 70
>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=87.78 E-value=5.6 Score=41.38 Aligned_cols=34 Identities=29% Similarity=0.662 Sum_probs=20.6
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeeccccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQ 334 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (594)
..||.|+...-.+..=.-|. . .|||.||-.|...
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 57999998544332211111 1 3888888888765
No 71
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=87.10 E-value=1.6 Score=45.11 Aligned_cols=47 Identities=21% Similarity=0.525 Sum_probs=33.4
Q ss_pred CccccccccccccCCCcccc-cCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCc
Q 007671 140 EEMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA 197 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l-~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~ 197 (594)
..-.|+||+... .++..+ --|-.||-.|+..|+.+ . =+||..+|...
T Consensus 299 ~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~---~------~~CPVT~~p~~ 346 (357)
T KOG0826|consen 299 DREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVN---Y------GHCPVTGYPAS 346 (357)
T ss_pred ccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHh---c------CCCCccCCcch
Confidence 355799999865 334333 45999999999999873 2 36887777544
No 72
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=87.00 E-value=0.12 Score=52.24 Aligned_cols=37 Identities=27% Similarity=0.851 Sum_probs=29.1
Q ss_pred hcCCCCCCCCcceeecCCCCcccccCCCcceeeeccccccccCC
Q 007671 296 ANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG 339 (594)
Q Consensus 296 ~ntK~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~ 339 (594)
.++.+|--|-...+ |-+|+ +|||-|||-|...|-.-.
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 35677777777665 48899 799999999999996544
No 73
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=86.88 E-value=0.33 Score=30.29 Aligned_cols=10 Identities=50% Similarity=1.105 Sum_probs=8.7
Q ss_pred CCCCCCccee
Q 007671 300 PCPRCKRPIE 309 (594)
Q Consensus 300 ~CPkC~~~IE 309 (594)
.||+|+..|+
T Consensus 1 ~Cp~CG~~~~ 10 (23)
T PF13240_consen 1 YCPNCGAEIE 10 (23)
T ss_pred CCcccCCCCC
Confidence 4899999998
No 74
>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=86.87 E-value=0.22 Score=45.03 Aligned_cols=34 Identities=26% Similarity=0.701 Sum_probs=28.3
Q ss_pred ccccccccccccC-CCcccccCC------CcccHhhHHHHH
Q 007671 141 EMTCGICFENYPS-DRLLAAACG------HPFCSSCWTGYI 174 (594)
Q Consensus 141 ~~~C~IC~e~~~~-~~~v~l~Cg------H~fC~~C~~~yi 174 (594)
.++|.||++.+.. +-.+.++|| |.||.+|++.|-
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 6789999999876 456777886 789999999984
No 75
>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=86.78 E-value=0.61 Score=34.84 Aligned_cols=43 Identities=21% Similarity=0.512 Sum_probs=31.9
Q ss_pred ccccccccccCCCcccccCC-----CcccHhhHHHHHHhhccCCCCccccccCCCcC
Q 007671 143 TCGICFENYPSDRLLAAACG-----HPFCSSCWTGYISTAINDGPGCLMLRCPDPSC 194 (594)
Q Consensus 143 ~C~IC~e~~~~~~~v~l~Cg-----H~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C 194 (594)
.|-||++.....++...||. |.+...|+..|+..+- ..+|| .|
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~-------~~~C~--iC 48 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG-------NKTCE--IC 48 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC-------CCcCC--CC
Confidence 48999984444566777885 8899999999997643 34787 45
No 76
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.31 E-value=0.27 Score=49.94 Aligned_cols=45 Identities=27% Similarity=0.611 Sum_probs=35.2
Q ss_pred ccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
.|-|.||-..| ..||...|+|.||..|....+.. .-+|+ .|....
T Consensus 241 Pf~c~icr~~f--~~pVvt~c~h~fc~~ca~~~~qk---------~~~c~--vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYF--YRPVVTKCGHYFCEVCALKPYQK---------GEKCY--VCSQQT 285 (313)
T ss_pred Ccccccccccc--ccchhhcCCceeehhhhcccccc---------CCcce--eccccc
Confidence 56799999988 88999999999999998766432 24676 677643
No 77
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=86.29 E-value=0.42 Score=51.74 Aligned_cols=48 Identities=29% Similarity=0.781 Sum_probs=36.6
Q ss_pred CCCccccccccccccCCCccc-ccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 138 DGEEMTCGICFENYPSDRLLA-AACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 138 ~~~~~~C~IC~e~~~~~~~v~-l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
......|++|...+ .+++. ..|||.||..|+..+... ...|| .|...+
T Consensus 18 ~~~~l~C~~C~~vl--~~p~~~~~cgh~fC~~C~~~~~~~---------~~~cp--~~~~~~ 66 (391)
T KOG0297|consen 18 LDENLLCPICMSVL--RDPVQTTTCGHRFCAGCLLESLSN---------HQKCP--VCRQEL 66 (391)
T ss_pred CcccccCccccccc--cCCCCCCCCCCcccccccchhhcc---------CcCCc--cccccc
Confidence 45578999999987 66766 599999999999988654 24677 565443
No 78
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=85.84 E-value=0.41 Score=30.70 Aligned_cols=11 Identities=36% Similarity=0.914 Sum_probs=9.4
Q ss_pred CCCCCCCccee
Q 007671 299 KPCPRCKRPIE 309 (594)
Q Consensus 299 K~CPkC~~~IE 309 (594)
+.||+|+..|.
T Consensus 3 ~~Cp~Cg~~~~ 13 (26)
T PF13248_consen 3 MFCPNCGAEID 13 (26)
T ss_pred CCCcccCCcCC
Confidence 78999999776
No 79
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=85.73 E-value=0.32 Score=48.25 Aligned_cols=54 Identities=24% Similarity=0.530 Sum_probs=38.5
Q ss_pred cccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhhccC
Q 007671 142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSS 208 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~ 208 (594)
+.|..|+---+...++.+.|+|.||..|.+.- .+-.|| .|+..+....+..-++
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~-----------~~~~C~--lCkk~ir~i~l~~slp 57 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKAS-----------SPDVCP--LCKKSIRIIQLNRSLP 57 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccC-----------Cccccc--cccceeeeeecccccc
Confidence 56898987655556677889999999998642 123799 8999875554444444
No 80
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=85.26 E-value=1.2 Score=53.90 Aligned_cols=65 Identities=22% Similarity=0.471 Sum_probs=49.0
Q ss_pred cccccccccccc-CCCcccccCCCcccHhhHHHHHHhhccCCCCc--cccccCCCcCCCccchhHHhhccC
Q 007671 141 EMTCGICFENYP-SDRLLAAACGHPFCSSCWTGYISTAINDGPGC--LMLRCPDPSCGAAVGQDMIYLLSS 208 (594)
Q Consensus 141 ~~~C~IC~e~~~-~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~--~~i~CP~~~C~~~v~~~~i~~ll~ 208 (594)
.-.|-|||.+-. ...-+.+.|+|.|...|.+..++..-. |+.+ ..+.|| -|+..+..-.++.|+.
T Consensus 3486 DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~-GPRItF~FisCP--iC~n~InH~~LkDLld 3553 (3738)
T KOG1428|consen 3486 DDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWL-GPRITFGFISCP--ICKNKINHIVLKDLLD 3553 (3738)
T ss_pred CceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhccc-CCeeEEeeeecc--cccchhhhHHHHHHHH
Confidence 456999997643 334577899999999999998887653 3322 368999 8999998777777765
No 81
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=84.51 E-value=0.41 Score=34.50 Aligned_cols=32 Identities=28% Similarity=0.704 Sum_probs=21.4
Q ss_pred CCCCCcceeecCCCCcccccCCCcceeeeccccccccCC
Q 007671 301 CPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHG 339 (594)
Q Consensus 301 CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~ 339 (594)
||-|...+. +.++= .|||.||..|+..|-...
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 566666555 33554 499999999998875544
No 82
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=84.51 E-value=0.36 Score=55.65 Aligned_cols=47 Identities=30% Similarity=0.747 Sum_probs=37.4
Q ss_pred cccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccch
Q 007671 142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ 200 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~ 200 (594)
+.|+||.+ .+.++...|||.||..||..+|...- ...|| .|+..+..
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 78999999 38889999999999999999986532 23677 78766543
No 83
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=84.25 E-value=0.93 Score=48.75 Aligned_cols=6 Identities=33% Similarity=0.645 Sum_probs=2.4
Q ss_pred HhhHHH
Q 007671 167 SSCWTG 172 (594)
Q Consensus 167 ~~C~~~ 172 (594)
..|+..
T Consensus 211 ~Scle~ 216 (458)
T PF10446_consen 211 ISCLEA 216 (458)
T ss_pred HHHHHH
Confidence 344443
No 84
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=83.63 E-value=0.84 Score=34.15 Aligned_cols=27 Identities=30% Similarity=0.810 Sum_probs=20.3
Q ss_pred CCCCCCCcceeecCC--CCcccccCCCcce
Q 007671 299 KPCPRCKRPIEKNQG--CMHMTCTPPCKFE 326 (594)
Q Consensus 299 K~CPkC~~~IEK~~G--Cnhm~C~~~C~~~ 326 (594)
+.||.|+.++....+ -++..|. .||+.
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~-~Cg~~ 29 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCR-KCGYE 29 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECC-cCCCe
Confidence 469999998876533 4688898 78865
No 85
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.18 E-value=0.48 Score=49.83 Aligned_cols=53 Identities=28% Similarity=0.701 Sum_probs=37.0
Q ss_pred cccccccccccCC-Cccccc-CCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhH
Q 007671 142 MTCGICFENYPSD-RLLAAA-CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDM 202 (594)
Q Consensus 142 ~~C~IC~e~~~~~-~~v~l~-CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~ 202 (594)
-.|.||-+-+|.. +.-++. |||.|...|+..|++..-.. -.|| .|+..++...
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~------R~cp--ic~ik~~~r~ 59 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN------RGCP--ICQIKLQERH 59 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc------CCCC--ceeeccccee
Confidence 4699997766643 445565 99999999999999765331 3588 6775544433
No 86
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.75 E-value=0.63 Score=50.34 Aligned_cols=51 Identities=24% Similarity=0.573 Sum_probs=37.2
Q ss_pred CccccccccccccCC-----Ccc----------cccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccch
Q 007671 140 EEMTCGICFENYPSD-----RLL----------AAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ 200 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~-----~~v----------~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~ 200 (594)
....|.||+.+++.. .++ ..||.|.|...|+.+|..+ ..+.|| .|+.++++
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~--------ykl~CP--vCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT--------YKLICP--VCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh--------hcccCC--ccCCCCCC
Confidence 456799999876431 111 2489999999999999864 257899 78877764
No 87
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.71 E-value=0.5 Score=35.70 Aligned_cols=45 Identities=29% Similarity=0.611 Sum_probs=33.7
Q ss_pred cccccccccccCCCcccccCCCc-ccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 142 MTCGICFENYPSDRLLAAACGHP-FCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~v~l~CgH~-fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
-+|.||++.- -+.|.-.|||. .|..|-...|.. + .-.|| -|+.++
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 5699999853 45566789996 799999888764 1 23688 788765
No 88
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=82.21 E-value=0.97 Score=51.58 Aligned_cols=12 Identities=17% Similarity=0.221 Sum_probs=5.1
Q ss_pred ccccccccccCC
Q 007671 5 DEFDMQDANASA 16 (594)
Q Consensus 5 ~~~d~~~~~~~~ 16 (594)
||.|+++.++++
T Consensus 884 dd~d~~s~~~~e 895 (988)
T KOG2038|consen 884 DDEDENSLGSEE 895 (988)
T ss_pred cccchhcccCcc
Confidence 334444444433
No 89
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=82.21 E-value=0.53 Score=49.57 Aligned_cols=44 Identities=34% Similarity=0.763 Sum_probs=32.1
Q ss_pred cccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcC
Q 007671 142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSC 194 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C 194 (594)
..|.||-+.- .++..-+|||..|..|+..|-.. ++ .-.||...|
T Consensus 370 eLCKICaend--KdvkIEPCGHLlCt~CLa~WQ~s---d~----gq~CPFCRc 413 (563)
T KOG1785|consen 370 ELCKICAEND--KDVKIEPCGHLLCTSCLAAWQDS---DE----GQTCPFCRC 413 (563)
T ss_pred HHHHHhhccC--CCcccccccchHHHHHHHhhccc---CC----CCCCCceee
Confidence 3599999863 67778899999999999988433 22 246884333
No 90
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=81.21 E-value=0.29 Score=55.49 Aligned_cols=32 Identities=19% Similarity=0.487 Sum_probs=15.2
Q ss_pred ccccccccccCCC-cccccCCCcccHhhHHHHH
Q 007671 143 TCGICFENYPSDR-LLAAACGHPFCSSCWTGYI 174 (594)
Q Consensus 143 ~C~IC~e~~~~~~-~v~l~CgH~fC~~C~~~yi 174 (594)
.|++|+..+.... .....|+|.||..|+..|-
T Consensus 125 ~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs 157 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS 157 (1134)
T ss_pred hhhHHHHHHHHHhhccccccccccHHHHhhhhh
Confidence 3555554442111 1123466666666666553
No 91
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=80.33 E-value=1.2 Score=45.17 Aligned_cols=43 Identities=26% Similarity=0.819 Sum_probs=32.2
Q ss_pred cccccccccccCCCcccc-cCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCC
Q 007671 142 MTCGICFENYPSDRLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGA 196 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~v~l-~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~ 196 (594)
+.|+.|-..+ ..++.. .|+|.||..||..-+... .+.|| .|..
T Consensus 275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~ds--------Df~Cp--nC~r 318 (427)
T COG5222 275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDS--------DFKCP--NCSR 318 (427)
T ss_pred ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhc--------cccCC--Cccc
Confidence 7899998876 455444 699999999998765431 57899 6764
No 92
>PHA03096 p28-like protein; Provisional
Probab=80.20 E-value=0.87 Score=46.98 Aligned_cols=52 Identities=17% Similarity=0.332 Sum_probs=34.4
Q ss_pred cccccccccccCC----Cc-ccc-cCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 142 MTCGICFENYPSD----RL-LAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 142 ~~C~IC~e~~~~~----~~-v~l-~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
..|+||++..... .. -.+ .|.|.||..|++.|........ ....|| .|+..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e---~~~~c~--~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKE---TEPENR--RLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcc---cCcccc--chhhHH
Confidence 6799999975422 11 223 5999999999999988765332 234455 455444
No 93
>PHA00626 hypothetical protein
Probab=80.08 E-value=1.3 Score=33.76 Aligned_cols=28 Identities=25% Similarity=0.692 Sum_probs=20.6
Q ss_pred CCCCCCc-ceeecCCCCc----ccccCCCcceee
Q 007671 300 PCPRCKR-PIEKNQGCMH----MTCTPPCKFEFC 328 (594)
Q Consensus 300 ~CPkC~~-~IEK~~GCnh----m~C~~~C~~~FC 328 (594)
.||+|+. -|.|++-|+. ..|. .||+.|=
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 4878777655 6676 6777663
No 94
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=79.43 E-value=1.4 Score=31.85 Aligned_cols=32 Identities=25% Similarity=0.596 Sum_probs=22.6
Q ss_pred HHHHhcCCCCCCCCcceeecCCCCcccccC-CCccee
Q 007671 292 NWILANSKPCPRCKRPIEKNQGCMHMTCTP-PCKFEF 327 (594)
Q Consensus 292 ~wi~~ntK~CPkC~~~IEK~~GCnhm~C~~-~C~~~F 327 (594)
.|++...|.||+|+..- |+--+.|.+ .|++.|
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 46666779999999854 677777764 555443
No 95
>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=79.35 E-value=2.1 Score=28.78 Aligned_cols=29 Identities=31% Similarity=0.699 Sum_probs=18.8
Q ss_pred cCCCCCCCCcceeecCCCCcccccCCCcce
Q 007671 297 NSKPCPRCKRPIEKNQGCMHMTCTPPCKFE 326 (594)
Q Consensus 297 ntK~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (594)
+.+-||.|+.+.....+=..|.|. .|++.
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 458899999999988886778997 78865
No 96
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=79.33 E-value=0.57 Score=46.13 Aligned_cols=50 Identities=26% Similarity=0.626 Sum_probs=36.1
Q ss_pred cccccccccccCC-Ccc---cccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccc
Q 007671 142 MTCGICFENYPSD-RLL---AAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG 199 (594)
Q Consensus 142 ~~C~IC~e~~~~~-~~v---~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~ 199 (594)
-.||||-.+.-.+ ++. ...|-|..|-+|+..-++. | +-.||-++|+.++.
T Consensus 11 ~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~----G----pAqCP~~gC~kILR 64 (314)
T COG5220 11 RRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR----G----PAQCPYKGCGKILR 64 (314)
T ss_pred ccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC----C----CCCCCCccHHHHHH
Confidence 4699998763222 222 2239999999999988753 3 67899999987764
No 97
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.54 E-value=1.8 Score=44.99 Aligned_cols=48 Identities=29% Similarity=0.703 Sum_probs=37.2
Q ss_pred ccccccccccccCC----CcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 141 EMTCGICFENYPSD----RLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 141 ~~~C~IC~e~~~~~----~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
...|.||-++|... -|..+.|||.+|..|+...+.. ..+.|| .|+.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~--------~~i~cp--fcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN--------SRILCP--FCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcC--------ceeecc--CCCCcc
Confidence 35799999998754 3556779999999999988643 257787 899873
No 98
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=77.31 E-value=1.3 Score=34.96 Aligned_cols=22 Identities=27% Similarity=0.765 Sum_probs=9.6
Q ss_pred CCCCCCCcceeec---CCCCccccc
Q 007671 299 KPCPRCKRPIEKN---QGCMHMTCT 320 (594)
Q Consensus 299 K~CPkC~~~IEK~---~GCnhm~C~ 320 (594)
-+|++|...+... +||-|++|+
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs 32 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCS 32 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-T
T ss_pred cCCcHHHHHhcCCceeccCccHHHH
Confidence 6899999877643 666666665
No 99
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=75.99 E-value=4.6 Score=42.74 Aligned_cols=47 Identities=34% Similarity=0.783 Sum_probs=37.3
Q ss_pred ccccccccccccC--CCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCC
Q 007671 141 EMTCGICFENYPS--DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGA 196 (594)
Q Consensus 141 ~~~C~IC~e~~~~--~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~ 196 (594)
++.|+.|-+.+.. +..-.+||.|.|...|+..|+.. .+ +-+|| .|+.
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~---n~----~rsCP--~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILEN---NG----TRSCP--NCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHh---CC----CCCCc--cHHH
Confidence 6789999998754 35678999999999999999943 33 56899 7873
No 100
>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=75.72 E-value=1.9 Score=28.80 Aligned_cols=27 Identities=26% Similarity=0.766 Sum_probs=14.5
Q ss_pred CCCCCCCcceeecCCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (594)
-+||+|+....-.+|.+ |.|. .|+++|
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 47999999888777776 7897 788875
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=75.41 E-value=1.1 Score=35.96 Aligned_cols=49 Identities=27% Similarity=0.571 Sum_probs=29.0
Q ss_pred CCCCCCcceeecCCCCcccccCCCcce-----eeeccccccccCCCCCCCcccCCch
Q 007671 300 PCPRCKRPIEKNQGCMHMTCTPPCKFE-----FCWLCLGQWSDHGERTGGFYACNRY 351 (594)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~~-----FCw~C~~~~~~h~~~~g~~y~C~~~ 351 (594)
.||.|+.+++..+ .+.+|. .|+.. +|.-|+.+...-..-..--|.|+.-
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 688898 79854 6999988765433211135778754
No 102
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.17 E-value=1.5 Score=48.45 Aligned_cols=38 Identities=26% Similarity=0.676 Sum_probs=31.4
Q ss_pred CCCC--CCCcceee-cCCCCcccccCCCcceeeeccccccccC
Q 007671 299 KPCP--RCKRPIEK-NQGCMHMTCTPPCKFEFCWLCLGQWSDH 338 (594)
Q Consensus 299 K~CP--kC~~~IEK-~~GCnhm~C~~~C~~~FCw~C~~~~~~h 338 (594)
|-|| .|+..+.- .+.+.-+.|. |++.|||.|+.+|+.-
T Consensus 159 kwCP~~~C~~av~~~~~~~~~v~C~--~g~~FC~~C~~~~H~p 199 (444)
T KOG1815|consen 159 KWCPAPGCGLAVKFGSLESVEVDCG--CGHEFCFACGEESHSP 199 (444)
T ss_pred ccCCCCCCCceeeccCCCccceeCC--CCchhHhhccccccCC
Confidence 4455 79999887 7888889997 9999999999888643
No 103
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.92 E-value=1.2 Score=43.94 Aligned_cols=17 Identities=47% Similarity=1.249 Sum_probs=14.1
Q ss_pred CcceeeeccccccccCC
Q 007671 323 CKFEFCWLCLGQWSDHG 339 (594)
Q Consensus 323 C~~~FCw~C~~~~~~h~ 339 (594)
|||-|||-|+-.|-.++
T Consensus 65 CGHLFCWpClyqWl~~~ 81 (230)
T KOG0823|consen 65 CGHLFCWPCLYQWLQTR 81 (230)
T ss_pred cccceehHHHHHHHhhc
Confidence 99999999998887554
No 104
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=74.52 E-value=1.2 Score=33.92 Aligned_cols=46 Identities=30% Similarity=0.680 Sum_probs=31.4
Q ss_pred ccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchh
Q 007671 141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD 201 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~ 201 (594)
...|-.|... ....+.++|||..|..||-.. ..-.|| .|...|...
T Consensus 7 ~~~~~~~~~~--~~~~~~~pCgH~I~~~~f~~~-----------rYngCP--fC~~~~~~~ 52 (55)
T PF14447_consen 7 EQPCVFCGFV--GTKGTVLPCGHLICDNCFPGE-----------RYNGCP--FCGTPFEFD 52 (55)
T ss_pred ceeEEEcccc--ccccccccccceeeccccChh-----------hccCCC--CCCCcccCC
Confidence 3445555543 256678899999999999542 123699 798887543
No 105
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=72.79 E-value=2.4 Score=48.81 Aligned_cols=23 Identities=30% Similarity=0.768 Sum_probs=14.1
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeeccccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQ 334 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (594)
+.||+|+..+. =+..||..||..
T Consensus 28 ~~Cp~CG~~~~-------------~~~~fC~~CG~~ 50 (645)
T PRK14559 28 KPCPQCGTEVP-------------VDEAHCPNCGAE 50 (645)
T ss_pred CcCCCCCCCCC-------------cccccccccCCc
Confidence 45666666654 234488888765
No 106
>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=72.74 E-value=12 Score=44.80 Aligned_cols=17 Identities=12% Similarity=0.319 Sum_probs=9.3
Q ss_pred CcceEE---eCHHHHHHHHH
Q 007671 64 QLNYTV---LTEADIRQRQE 80 (594)
Q Consensus 64 ~~~~~v---l~~~~i~~~~~ 80 (594)
+.+|++ -|.+++...+.
T Consensus 417 elPftf~~P~s~eel~~lL~ 436 (840)
T PF04147_consen 417 ELPFTFPCPSSHEELLELLD 436 (840)
T ss_pred CCCceecCCCCHHHHHHHHh
Confidence 456765 45566655443
No 107
>PLN03086 PRLI-interacting factor K; Provisional
Probab=72.50 E-value=6.5 Score=44.39 Aligned_cols=57 Identities=23% Similarity=0.504 Sum_probs=33.3
Q ss_pred cccccCCCcCCCccchhHHhhccChHHHHHHHHHHHHHHhhcCCCcccCCCCCCCCeeeeecCCCCceeec-cCCccc
Q 007671 185 LMLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSF 261 (594)
Q Consensus 185 ~~i~CP~~~C~~~v~~~~i~~ll~~e~~eky~~~~~~~~v~~~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~f 261 (594)
..+.|| .|+..++...+.... ..-....+.||..+|+..+..... ...+.| .|+..|
T Consensus 406 ~~V~C~--NC~~~i~l~~l~lHe----------------~~C~r~~V~Cp~~~Cg~v~~r~el--~~H~~C~~Cgk~f 463 (567)
T PLN03086 406 DTVECR--NCKHYIPSRSIALHE----------------AYCSRHNVVCPHDGCGIVLRVEEA--KNHVHCEKCGQAF 463 (567)
T ss_pred CeEECC--CCCCccchhHHHHHH----------------hhCCCcceeCCcccccceeecccc--ccCccCCCCCCcc
Confidence 367899 498877655432110 112234568998789988754322 233467 676655
No 108
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=71.85 E-value=4.9 Score=34.26 Aligned_cols=28 Identities=25% Similarity=0.729 Sum_probs=18.5
Q ss_pred ccCCCCCCCCeeeeecCCCCceeec-cCCcc
Q 007671 231 KWCPAPGCDYAVDFVVGSGNYDVTC-RCSYS 260 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~ 260 (594)
.+||. |++.+.+..+.....+.| .|.+.
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 47995 998887775544455566 66554
No 109
>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=71.67 E-value=1.1 Score=33.41 Aligned_cols=32 Identities=34% Similarity=0.787 Sum_probs=23.0
Q ss_pred eec-cCCcc-ccccc-ccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCcceee
Q 007671 253 VTC-RCSYS-FCWNV-KEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEK 310 (594)
Q Consensus 253 v~C-~C~~~-fC~~C-~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~IEK 310 (594)
+.- .||+. ||..| ..+.. ..+.||-|+.+|++
T Consensus 15 ~~~~pCgH~~~C~~C~~~~~~--------------------------~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 15 VVLLPCGHLCFCEECAERLLK--------------------------RKKKCPICRQPIES 49 (50)
T ss_dssp EEEETTCEEEEEHHHHHHHHH--------------------------TTSBBTTTTBB-SE
T ss_pred eEEeCCCChHHHHHHhHHhcc--------------------------cCCCCCcCChhhcC
Confidence 444 89999 99999 44321 22899999999975
No 110
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=70.99 E-value=3.1 Score=43.28 Aligned_cols=47 Identities=32% Similarity=0.770 Sum_probs=34.3
Q ss_pred CCCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccc
Q 007671 138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG 199 (594)
Q Consensus 138 ~~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~ 199 (594)
....+.||||++.+. ..++...=||..|..|-..- .-+|| .|+..++
T Consensus 45 ~~~lleCPvC~~~l~-~Pi~QC~nGHlaCssC~~~~------------~~~CP--~Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLS-PPIFQCDNGHLACSSCRTKV------------SNKCP--TCRLPIG 91 (299)
T ss_pred chhhccCchhhccCc-ccceecCCCcEehhhhhhhh------------cccCC--ccccccc
Confidence 345788999999872 12334445899999998632 56899 6998887
No 111
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=70.97 E-value=1.2 Score=50.86 Aligned_cols=27 Identities=22% Similarity=0.556 Sum_probs=17.8
Q ss_pred CcccCCCCCCCCeeeeecCCCCceeec-cCCccccccc
Q 007671 229 KTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNV 265 (594)
Q Consensus 229 ~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C 265 (594)
.+..||. |. ...+++.= .|+|.||+.|
T Consensus 642 ~~LkCs~--Cn--------~R~Kd~vI~kC~H~FC~~C 669 (698)
T KOG0978|consen 642 ELLKCSV--CN--------TRWKDAVITKCGHVFCEEC 669 (698)
T ss_pred hceeCCC--cc--------CchhhHHHHhcchHHHHHH
Confidence 4568885 65 12233333 8999999999
No 112
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=69.75 E-value=55 Score=32.78 Aligned_cols=23 Identities=35% Similarity=0.873 Sum_probs=17.1
Q ss_pred CCCCcccccCCCc----ceeeecccccc
Q 007671 312 QGCMHMTCTPPCK----FEFCWLCLGQW 335 (594)
Q Consensus 312 ~GCnhm~C~~~C~----~~FCw~C~~~~ 335 (594)
..|.||+|. +|- ..+|.+|....
T Consensus 21 TaC~HvfC~-~C~k~~~~~~C~lCkk~i 47 (233)
T KOG4739|consen 21 TACRHVFCE-PCLKASSPDVCPLCKKSI 47 (233)
T ss_pred eechhhhhh-hhcccCCcccccccccee
Confidence 469999998 554 44899998764
No 113
>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=69.54 E-value=1.4 Score=30.93 Aligned_cols=32 Identities=28% Similarity=0.860 Sum_probs=21.5
Q ss_pred CCCCCcceeecCCCCcccccCCCcceeeeccccccccC
Q 007671 301 CPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH 338 (594)
Q Consensus 301 CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~h 338 (594)
||-|...+.. .+.-. .|||.||+.|...|...
T Consensus 1 C~iC~~~~~~-----~~~~~-~CGH~fC~~C~~~~~~~ 32 (39)
T PF13923_consen 1 CPICLDELRD-----PVVVT-PCGHSFCKECIEKYLEK 32 (39)
T ss_dssp ETTTTSB-SS-----EEEEC-TTSEEEEHHHHHHHHHC
T ss_pred CCCCCCcccC-----cCEEC-CCCCchhHHHHHHHHHC
Confidence 5566555542 34555 69999999999887544
No 114
>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=68.90 E-value=2.1 Score=36.96 Aligned_cols=31 Identities=23% Similarity=0.562 Sum_probs=26.5
Q ss_pred ccccccccccccCCCcccccCCCcccHhhHH
Q 007671 141 EMTCGICFENYPSDRLLAAACGHPFCSSCWT 171 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~ 171 (594)
...|++|...+....++..||||.|...|.+
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 115
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.56 E-value=3.1 Score=41.35 Aligned_cols=53 Identities=13% Similarity=0.238 Sum_probs=37.9
Q ss_pred CccccccccccccCCCc--ccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHH
Q 007671 140 EEMTCGICFENYPSDRL--LAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMI 203 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~--v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i 203 (594)
..+.|+||-+++...-+ +.-+|||.||.+|...+|.. ..-|| .|..++....|
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 56889999999854332 33479999999999998753 34567 67776655443
No 116
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=68.48 E-value=3.2 Score=25.89 Aligned_cols=22 Identities=27% Similarity=0.696 Sum_probs=19.4
Q ss_pred ccCCCCccCCCccccccccCCC
Q 007671 572 YCDQCTYANVNSATACAMCQHS 593 (594)
Q Consensus 572 ~~~~~~~~~~~~~~~c~~c~~~ 593 (594)
+|.+|...++..+.+|..|..+
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTP 22 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCc
Confidence 5899999999999999999754
No 117
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=68.42 E-value=3.9 Score=28.58 Aligned_cols=29 Identities=28% Similarity=0.670 Sum_probs=21.2
Q ss_pred ccCCCCCCCCeeeeecC---CCCceeec-cCCccc
Q 007671 231 KWCPAPGCDYAVDFVVG---SGNYDVTC-RCSYSF 261 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~---~~~~~v~C-~C~~~f 261 (594)
+.||+ |+....+... .+...|.| .|++.|
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 57885 9988776543 34567899 999876
No 118
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=67.63 E-value=1.5 Score=42.36 Aligned_cols=31 Identities=29% Similarity=0.891 Sum_probs=23.8
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeeccccccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWS 336 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~ 336 (594)
-.||-|...+.. -.-+ .|||.|||.|+..|.
T Consensus 19 ~~CpICld~~~d------PVvT-~CGH~FC~~CI~~wl 49 (193)
T PLN03208 19 FDCNICLDQVRD------PVVT-LCGHLFCWPCIHKWT 49 (193)
T ss_pred cCCccCCCcCCC------cEEc-CCCchhHHHHHHHHH
Confidence 579999887652 2234 599999999999884
No 119
>PF04641 Rtf2: Rtf2 RING-finger
Probab=67.45 E-value=5.8 Score=40.50 Aligned_cols=68 Identities=18% Similarity=0.439 Sum_probs=45.7
Q ss_pred CCCccccccccccccCC-Ccccc-cCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHhhccC-hHHHHH
Q 007671 138 DGEEMTCGICFENYPSD-RLLAA-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIYLLSS-DEDKVK 214 (594)
Q Consensus 138 ~~~~~~C~IC~e~~~~~-~~v~l-~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~~ll~-~e~~ek 214 (594)
....+.|||....+... .++.+ +|||.|+..+++..- . .-.|| .|..+|....|-.|.+ .+.++.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k----~------~~~Cp--~c~~~f~~~DiI~Lnp~~ee~~~ 177 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK----K------SKKCP--VCGKPFTEEDIIPLNPPEEELEK 177 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc----c------ccccc--ccCCccccCCEEEecCCccHHHH
Confidence 35689999999988542 34444 899999999999871 1 23599 8999997665544443 233444
Q ss_pred HHH
Q 007671 215 YNR 217 (594)
Q Consensus 215 y~~ 217 (594)
+..
T Consensus 178 l~~ 180 (260)
T PF04641_consen 178 LRE 180 (260)
T ss_pred HHH
Confidence 433
No 120
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=67.06 E-value=4.3 Score=30.49 Aligned_cols=27 Identities=26% Similarity=0.635 Sum_probs=19.7
Q ss_pred CCCCCCCCc-ceeecCCCCcccccCCCccee
Q 007671 298 SKPCPRCKR-PIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 298 tK~CPkC~~-~IEK~~GCnhm~C~~~C~~~F 327 (594)
.+.||+|+. .+.... +.++|. .||+.+
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 378999988 444333 679998 898765
No 121
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=66.99 E-value=4.7 Score=29.47 Aligned_cols=30 Identities=23% Similarity=0.642 Sum_probs=21.3
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeee
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCW 329 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw 329 (594)
-.||+|+..++-..+=..++|. .||..+=+
T Consensus 4 y~C~~CG~~~~~~~~~~~~~Cp-~CG~~~~~ 33 (46)
T PRK00398 4 YKCARCGREVELDEYGTGVRCP-YCGYRILF 33 (46)
T ss_pred EECCCCCCEEEECCCCCceECC-CCCCeEEE
Confidence 4799999988765443368887 78766543
No 122
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=66.85 E-value=5 Score=46.13 Aligned_cols=7 Identities=43% Similarity=0.781 Sum_probs=3.0
Q ss_pred Ccccccc
Q 007671 3 SEDEFDM 9 (594)
Q Consensus 3 ~~~~~d~ 9 (594)
||+|.++
T Consensus 874 ~D~d~~~ 880 (988)
T KOG2038|consen 874 SDDDVDA 880 (988)
T ss_pred ccccccc
Confidence 4444333
No 123
>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=66.75 E-value=4 Score=28.96 Aligned_cols=29 Identities=21% Similarity=0.564 Sum_probs=24.8
Q ss_pred CCCCCCCcc-eeecCCCCcccccCCCcceeeecccccc
Q 007671 299 KPCPRCKRP-IEKNQGCMHMTCTPPCKFEFCWLCLGQW 335 (594)
Q Consensus 299 K~CPkC~~~-IEK~~GCnhm~C~~~C~~~FCw~C~~~~ 335 (594)
..|+.|... +. ++|. .|+..+|..|...-
T Consensus 4 ~~C~~H~~~~~~-------~~C~-~C~~~~C~~C~~~~ 33 (42)
T PF00643_consen 4 PKCPEHPEEPLS-------LFCE-DCNEPLCSECTVSG 33 (42)
T ss_dssp SB-SSTTTSBEE-------EEET-TTTEEEEHHHHHTS
T ss_pred ccCccCCccceE-------EEec-CCCCccCccCCCCC
Confidence 789999988 88 9999 89999999997654
No 124
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.69 E-value=6.1 Score=38.74 Aligned_cols=54 Identities=19% Similarity=0.404 Sum_probs=41.6
Q ss_pred cccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
-.|.+|-.++...+.+.+.|-|.|.-.|+......--... .-..++|| .|...|
T Consensus 51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanT-APaGyqCP--~Cs~ei 104 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANT-APAGYQCP--CCSQEI 104 (299)
T ss_pred CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcC-CCCcccCC--CCCCcc
Confidence 3599999998888999999999999999998765433221 12358999 788765
No 125
>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=65.78 E-value=7.2 Score=39.85 Aligned_cols=49 Identities=29% Similarity=0.649 Sum_probs=33.6
Q ss_pred ccccccccccC-CCcc--cccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchh
Q 007671 143 TCGICFENYPS-DRLL--AAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQD 201 (594)
Q Consensus 143 ~C~IC~e~~~~-~~~v--~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~ 201 (594)
.||+|-.+.-. .+++ .-+|||..|.+|+-..+.. | +-.|| .|..++...
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 48898865321 1222 2279999999999887753 2 56899 899887543
No 126
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.47 E-value=1.6 Score=43.97 Aligned_cols=33 Identities=36% Similarity=0.821 Sum_probs=27.8
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeeccccc-cccC
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQ-WSDH 338 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~-~~~h 338 (594)
.+|+-|-..+++ -.|+ .|||-|||.|+-. |..-
T Consensus 216 ~kC~lC~e~~~~------ps~t-~CgHlFC~~Cl~~~~t~~ 249 (271)
T COG5574 216 YKCFLCLEEPEV------PSCT-PCGHLFCLSCLLISWTKK 249 (271)
T ss_pred cceeeeecccCC------cccc-cccchhhHHHHHHHHHhh
Confidence 679999988885 6788 7999999999977 7644
No 127
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.40 E-value=4.5 Score=46.93 Aligned_cols=102 Identities=19% Similarity=0.288 Sum_probs=58.8
Q ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHhcCCCh----------------------HHHHHHHhhcHHHHHHHhCCCCCCCCC
Q 007671 78 RQEEDITRISTVLSISKVAASILLRFYNWSV----------------------SKVHDEWFADEERVRKAVGLLEKPAVQ 135 (594)
Q Consensus 78 ~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~----------------------~~l~e~~~~d~~~~~~~~gl~~~~~~~ 135 (594)
...+.++.|-.--.|||-...-+|-+..=-. ++.++.|-.+-++.+..++.+......
T Consensus 758 ~v~~vl~~I~~~~~ippl~VL~~Lakn~~ltls~IkD~ii~~l~~~~~~I~qd~~~Ie~yk~~i~e~r~~l~~lr~sa~i 837 (933)
T KOG2114|consen 758 IVYKVLEAIEMQERIPPLHVLQILAKNGTLTLSVIKDYIIKWLNKYSTIIEQDEDAIEVYKKDIEEKRQELETLRTSAQI 837 (933)
T ss_pred HHHHHHHHHHhcccCCHHHHHHHHhcCCceEEehhHHHHHHHHHhhhHHHHhhHHHHHHHHHHHHHHHHHHHHhhcccce
Confidence 4455555666667788887777774432111 112233333333444444433322221
Q ss_pred CCCCCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCc
Q 007671 136 FPDGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA 197 (594)
Q Consensus 136 ~~~~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~ 197 (594)
. ..-.|+.|--++. -.+|...|||.|...|+. ++ .-.|| .|...
T Consensus 838 ~---q~skCs~C~~~Ld-lP~VhF~CgHsyHqhC~e--------~~----~~~CP--~C~~e 881 (933)
T KOG2114|consen 838 F---QVSKCSACEGTLD-LPFVHFLCGHSYHQHCLE--------DK----EDKCP--KCLPE 881 (933)
T ss_pred e---eeeeecccCCccc-cceeeeecccHHHHHhhc--------cC----cccCC--ccchh
Confidence 1 2356999987762 245677899999999998 22 46899 79763
No 128
>PHA02664 hypothetical protein; Provisional
Probab=65.23 E-value=15 Score=37.97 Aligned_cols=9 Identities=11% Similarity=0.294 Sum_probs=3.9
Q ss_pred HHHHHHHHh
Q 007671 82 DITRISTVL 90 (594)
Q Consensus 82 ~i~~v~~~l 90 (594)
.+..|++.|
T Consensus 524 vl~ava~ml 532 (534)
T PHA02664 524 VLGAVAEML 532 (534)
T ss_pred HHHHHHHHh
Confidence 344444444
No 129
>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=64.80 E-value=5.9 Score=27.36 Aligned_cols=27 Identities=22% Similarity=0.648 Sum_probs=17.4
Q ss_pred ccCCCCCCCCeeeeecCCCCceeec-cCCcc
Q 007671 231 KWCPAPGCDYAVDFVVGSGNYDVTC-RCSYS 260 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~ 260 (594)
++|| .|++.+....+..... .| .|++.
T Consensus 2 ~FCp--~C~nlL~p~~~~~~~~-~C~~C~Y~ 29 (35)
T PF02150_consen 2 RFCP--ECGNLLYPKEDKEKRV-ACRTCGYE 29 (35)
T ss_dssp -BET--TTTSBEEEEEETTTTE-EESSSS-E
T ss_pred eeCC--CCCccceEcCCCccCc-CCCCCCCc
Confidence 5899 5999988764443333 78 78765
No 130
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=64.22 E-value=3.9 Score=42.39 Aligned_cols=54 Identities=22% Similarity=0.636 Sum_probs=39.1
Q ss_pred ccccccccccccC--CCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccchhHHh
Q 007671 141 EMTCGICFENYPS--DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQDMIY 204 (594)
Q Consensus 141 ~~~C~IC~e~~~~--~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~~~i~ 204 (594)
.-.|++|.+.... ..++..+||-..|.-||... ...+ .=+|| -|+.....+-++
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~i-rq~l-------ngrcp--acrr~y~denv~ 69 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNI-RQNL-------NGRCP--ACRRKYDDENVR 69 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHH-Hhhc-------cCCCh--Hhhhhcccccee
Confidence 4459999998754 46778899999999999754 3323 34899 799876655443
No 131
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=63.94 E-value=14 Score=43.91 Aligned_cols=38 Identities=21% Similarity=0.131 Sum_probs=19.3
Q ss_pred eCHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHhcCCChHH
Q 007671 70 LTEADIRQRQEEDITRISTVLSISKVAASILLRFYNWSVSK 110 (594)
Q Consensus 70 l~~~~i~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~ 110 (594)
|.+-|..+...+.+..++. -.+.....|+++..-....
T Consensus 955 LD~VD~f~~f~~~i~~lq~---~d~~~yq~l~~~L~~~q~~ 992 (1010)
T KOG1991|consen 955 LDQVDPFQLFKEAITNLQS---SDAVRYQKLISTLTPEQQD 992 (1010)
T ss_pred ccccchHHHHHHHHHhhhc---cChHHHHHHHhcCCHHHHH
Confidence 6666666666665554432 2344445555544433333
No 132
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=63.13 E-value=3.5 Score=42.63 Aligned_cols=22 Identities=23% Similarity=0.549 Sum_probs=17.7
Q ss_pred CCceeec-cCCccccccc-ccccC
Q 007671 249 GNYDVTC-RCSYSFCWNV-KEAHR 270 (594)
Q Consensus 249 ~~~~v~C-~C~~~fC~~C-~~~H~ 270 (594)
....+.| .|...||..| .-.|.
T Consensus 342 ~~~~y~C~~Ck~~FCldCDv~iHe 365 (378)
T KOG2807|consen 342 SSGRYRCESCKNVFCLDCDVFIHE 365 (378)
T ss_pred CCCcEEchhccceeeccchHHHHh
Confidence 3456799 9999999999 77773
No 133
>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=62.29 E-value=5.1 Score=27.88 Aligned_cols=27 Identities=26% Similarity=0.705 Sum_probs=16.9
Q ss_pred CCCCCCCcceeec------CCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKN------QGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~------~GCnhm~C~~~C~~~F 327 (594)
-.||+|+..+.-. .| ..+.|. .|++.|
T Consensus 3 ~~CP~C~~~~~v~~~~~~~~~-~~v~C~-~C~~~~ 35 (38)
T TIGR02098 3 IQCPNCKTSFRVVDSQLGANG-GKVRCG-KCGHVW 35 (38)
T ss_pred EECCCCCCEEEeCHHHcCCCC-CEEECC-CCCCEE
Confidence 3688888855422 12 267887 787765
No 134
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=62.20 E-value=5.6 Score=40.38 Aligned_cols=54 Identities=22% Similarity=0.567 Sum_probs=39.2
Q ss_pred CCccccccccccccCCCccccc--CCCcccHhhHHHHHHhhccCCCCccccccCC-CcCCC
Q 007671 139 GEEMTCGICFENYPSDRLLAAA--CGHPFCSSCWTGYISTAINDGPGCLMLRCPD-PSCGA 196 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~~~v~l~--CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~-~~C~~ 196 (594)
...+.|.+|-+-+..+.+|..+ =.|.||..|-+..|..+-..| .+.||. ..|..
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sg----evYCPSGdkCPL 322 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASG----EVYCPSGDKCPL 322 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCC----ceeCCCCCcCcc
Confidence 3468999999998544444443 379999999999998876555 578885 34653
No 135
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=62.06 E-value=2.5 Score=49.33 Aligned_cols=52 Identities=19% Similarity=0.543 Sum_probs=37.2
Q ss_pred CCccccccccccccC---CCc--ccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccc
Q 007671 139 GEEMTCGICFENYPS---DRL--LAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG 199 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~---~~~--v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~ 199 (594)
++..+|+||+..+.. +-| ....|.|.|...|+-.|+.+.- .-+|| -|+..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~-------~s~CP--lCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSA-------RSNCP--LCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcC-------CCCCC--ccccccc
Confidence 445679999987641 122 1224999999999999998742 35899 8987664
No 136
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=61.72 E-value=4.9 Score=25.69 Aligned_cols=23 Identities=22% Similarity=0.541 Sum_probs=20.6
Q ss_pred cccCCCCccCCCccccccccCCC
Q 007671 571 WYCDQCTYANVNSATACAMCQHS 593 (594)
Q Consensus 571 ~~~~~~~~~~~~~~~~c~~c~~~ 593 (594)
.+|..|...++.++++|..|..+
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGAK 25 (26)
T ss_pred CCCcccCCcCCcccccChhhCCC
Confidence 58999999999999999999754
No 137
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=61.65 E-value=6.5 Score=45.37 Aligned_cols=12 Identities=25% Similarity=0.720 Sum_probs=9.5
Q ss_pred CCCCCCCcceee
Q 007671 299 KPCPRCKRPIEK 310 (594)
Q Consensus 299 K~CPkC~~~IEK 310 (594)
+.||+|+..+-+
T Consensus 42 ~fC~~CG~~~~~ 53 (645)
T PRK14559 42 AHCPNCGAETGT 53 (645)
T ss_pred ccccccCCcccc
Confidence 889999887664
No 138
>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=61.35 E-value=23 Score=24.39 Aligned_cols=33 Identities=27% Similarity=0.339 Sum_probs=27.3
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHhcCCChHHHHH
Q 007671 80 EEDITRISTVLSISKVAASILLRFYNWSVSKVHD 113 (594)
Q Consensus 80 ~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~e 113 (594)
.+.|.++.+. |.+...+...|+..+||++...+
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 3567788888 99999999999999999988664
No 139
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=61.33 E-value=4.3 Score=41.54 Aligned_cols=38 Identities=24% Similarity=0.591 Sum_probs=30.1
Q ss_pred CccccccccccccCCC-cccccCCCcccHhhHHHHHHhh
Q 007671 140 EEMTCGICFENYPSDR-LLAAACGHPFCSSCWTGYISTA 177 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~-~v~l~CgH~fC~~C~~~yi~~~ 177 (594)
....|.||+--|...+ +..++|-|.|...|+..|+...
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~ 152 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTEC 152 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHH
Confidence 3556888887776555 6778899999999999998654
No 140
>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=60.64 E-value=6.4 Score=28.39 Aligned_cols=30 Identities=37% Similarity=0.846 Sum_probs=16.7
Q ss_pred CCCCCCCCeeeeecCCCCceeec-cCCccccccc--cccc
Q 007671 233 CPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNV--KEAH 269 (594)
Q Consensus 233 CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C--~~~H 269 (594)
|..++|.... ...+.| .|+..||..| .+.|
T Consensus 1 C~~~~C~~~~-------~~~~~C~~C~~~FC~~Hr~~e~H 33 (43)
T PF01428_consen 1 CSFPGCKKKD-------FLPFKCKHCGKSFCLKHRLPEDH 33 (43)
T ss_dssp -SSTTT--BC-------TSHEE-TTTS-EE-TTTHSTTTC
T ss_pred CccCcCcCcc-------CCCeECCCCCcccCccccCcccc
Confidence 4455676432 245799 7999999999 5566
No 141
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=59.97 E-value=6.3 Score=39.28 Aligned_cols=36 Identities=14% Similarity=0.188 Sum_probs=30.9
Q ss_pred cccccccccccCCCcccccCCCcccHhhHHHHHHhhcc
Q 007671 142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAIN 179 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~ 179 (594)
-.|++|+..+ .+|+..+=||.||+.||-.||-.+-+
T Consensus 44 dcCsLtLqPc--~dPvit~~GylfdrEaILe~ilaqKk 79 (303)
T KOG3039|consen 44 DCCSLTLQPC--RDPVITPDGYLFDREAILEYILAQKK 79 (303)
T ss_pred ceeeeecccc--cCCccCCCCeeeeHHHHHHHHHHHHH
Confidence 3588898876 88999999999999999999987643
No 142
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=59.90 E-value=9.3 Score=33.74 Aligned_cols=38 Identities=21% Similarity=0.472 Sum_probs=24.4
Q ss_pred ccCCCCCCCCeeeeecC------CCCceeec-cCCccccccc-ccccC
Q 007671 231 KWCPAPGCDYAVDFVVG------SGNYDVTC-RCSYSFCWNV-KEAHR 270 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~------~~~~~v~C-~C~~~fC~~C-~~~H~ 270 (594)
..|- +|...+...+. .......| .|+..||..| .-.|.
T Consensus 56 ~~C~--~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe 101 (112)
T TIGR00622 56 RFCF--GCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHE 101 (112)
T ss_pred Cccc--CcCCCCCCcccccccccccccceeCCCCCCccccccchhhhh
Confidence 4577 48765532211 11223579 9999999999 88884
No 143
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.49 E-value=2.9 Score=46.86 Aligned_cols=34 Identities=24% Similarity=0.631 Sum_probs=27.9
Q ss_pred ccccccccccccC--CCcccccCCCcccHhhHHHHH
Q 007671 141 EMTCGICFENYPS--DRLLAAACGHPFCSSCWTGYI 174 (594)
Q Consensus 141 ~~~C~IC~e~~~~--~~~v~l~CgH~fC~~C~~~yi 174 (594)
.+.|+||+..|.. -.|+++.|||..|..|.....
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 4579999887643 468999999999999998764
No 144
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.09 E-value=3.2 Score=39.40 Aligned_cols=31 Identities=39% Similarity=0.948 Sum_probs=22.2
Q ss_pred eeccCCccccccc-ccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCccee
Q 007671 253 VTCRCSYSFCWNV-KEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIE 309 (594)
Q Consensus 253 v~C~C~~~fC~~C-~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~IE 309 (594)
|.=.|||.||..| ..+ ..++.+||-|++-|-
T Consensus 147 vsTkCGHvFC~~Cik~a--------------------------lk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 147 VSTKCGHVFCSQCIKDA--------------------------LKNTNKCPTCRKKIT 178 (187)
T ss_pred cccccchhHHHHHHHHH--------------------------HHhCCCCCCcccccc
Confidence 3448999999999 432 123489999997664
No 145
>PHA02926 zinc finger-like protein; Provisional
Probab=58.15 E-value=4.7 Score=39.76 Aligned_cols=52 Identities=23% Similarity=0.508 Sum_probs=32.6
Q ss_pred CCCCCCCCcce-eec-CCCCccccc-CCCcceeeeccccccccCCCCCCCcccCCc
Q 007671 298 SKPCPRCKRPI-EKN-QGCMHMTCT-PPCKFEFCWLCLGQWSDHGERTGGFYACNR 350 (594)
Q Consensus 298 tK~CPkC~~~I-EK~-~GCnhm~C~-~~C~~~FCw~C~~~~~~h~~~~g~~y~C~~ 350 (594)
-+.|+-|-..+ +|. .++. .+-. ++|+|-||+.|...|......+|.-..||-
T Consensus 170 E~eCgICmE~I~eK~~~~eR-rFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPi 224 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDR-YFGLLDSCNHIFCITCINIWHRTRRETGASDNCPI 224 (242)
T ss_pred CCCCccCccccccccccccc-cccccCCCCchHHHHHHHHHHHhccccCcCCcCCC
Confidence 38899998665 332 1111 0111 159999999999999865433455667874
No 146
>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=57.72 E-value=1.5e+02 Score=34.93 Aligned_cols=24 Identities=13% Similarity=0.026 Sum_probs=17.7
Q ss_pred hHHHHHHHHHHHHHhHHHHHHHHH
Q 007671 454 KRQFFEYLQGEAESGLERLHQCAE 477 (594)
Q Consensus 454 ~~~~fe~~Q~~~e~~~e~L~~~le 477 (594)
+.+-+...|+.+.++++.+.+.+.
T Consensus 601 R~e~a~d~Qe~L~~R~~~vl~~l~ 624 (717)
T PF10168_consen 601 RYEEAKDKQEKLMKRVDRVLQLLN 624 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 466677788888888888876553
No 147
>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=57.40 E-value=7.4 Score=29.42 Aligned_cols=11 Identities=45% Similarity=0.930 Sum_probs=8.8
Q ss_pred CCCCCCCccee
Q 007671 299 KPCPRCKRPIE 309 (594)
Q Consensus 299 K~CPkC~~~IE 309 (594)
|+||.|+-.-+
T Consensus 2 kPCPfCGg~~~ 12 (53)
T TIGR03655 2 KPCPFCGGADV 12 (53)
T ss_pred CCCCCCCCcce
Confidence 89999986554
No 148
>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=57.11 E-value=6.7 Score=34.50 Aligned_cols=27 Identities=26% Similarity=0.673 Sum_probs=19.0
Q ss_pred CCCCCCCcceeecCCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (594)
+.||.|++..---.- +.++|. .||..|
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 689999987764333 778887 665544
No 149
>PRK08665 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=56.64 E-value=6.6 Score=46.24 Aligned_cols=27 Identities=33% Similarity=1.123 Sum_probs=23.7
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceee
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFC 328 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FC 328 (594)
..||.|+..+...+||. +|. .||+.=|
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 35999999999999997 999 8998766
No 150
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.38 E-value=7.1 Score=45.66 Aligned_cols=37 Identities=19% Similarity=0.418 Sum_probs=30.8
Q ss_pred ccccccccccccCCCcccccCCCcccHhhHHHHHHhh
Q 007671 141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTA 177 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~ 177 (594)
.-+|.+|.-.+....++..+|||.|..+|+...+...
T Consensus 817 ~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~~ 853 (911)
T KOG2034|consen 817 QDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLSL 853 (911)
T ss_pred ccchHHhcchhhcCcceeeeccchHHHHHHHHHHHcc
Confidence 5579999988776677788999999999999987543
No 151
>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=55.93 E-value=8.8 Score=27.58 Aligned_cols=23 Identities=30% Similarity=1.042 Sum_probs=17.0
Q ss_pred CCCCCCCcceee-cCCCCcccccCCCc
Q 007671 299 KPCPRCKRPIEK-NQGCMHMTCTPPCK 324 (594)
Q Consensus 299 K~CPkC~~~IEK-~~GCnhm~C~~~C~ 324 (594)
..||.|+.|+-+ .+| .++|. .|+
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 789999999987 444 46776 553
No 152
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=55.72 E-value=7.3 Score=33.24 Aligned_cols=29 Identities=28% Similarity=0.835 Sum_probs=21.3
Q ss_pred CCCCCCCcce--eecCCCCcccccCCCcceee
Q 007671 299 KPCPRCKRPI--EKNQGCMHMTCTPPCKFEFC 328 (594)
Q Consensus 299 K~CPkC~~~I--EK~~GCnhm~C~~~C~~~FC 328 (594)
-.||.|+.++ ++.+-||...|+ .|.+.|=
T Consensus 2 ~FCP~Cgn~Live~g~~~~rf~C~-tCpY~~~ 32 (105)
T KOG2906|consen 2 LFCPTCGNMLIVESGESCNRFSCR-TCPYVFP 32 (105)
T ss_pred cccCCCCCEEEEecCCeEeeEEcC-CCCceee
Confidence 3699998754 444558999998 8877653
No 153
>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=55.57 E-value=7.2 Score=26.86 Aligned_cols=26 Identities=19% Similarity=0.437 Sum_probs=23.3
Q ss_pred CCCCCCc-ceeecCCCCcccccCCCcceeeecccc
Q 007671 300 PCPRCKR-PIEKNQGCMHMTCTPPCKFEFCWLCLG 333 (594)
Q Consensus 300 ~CPkC~~-~IEK~~GCnhm~C~~~C~~~FCw~C~~ 333 (594)
.||.|+. ++. ++|. .|+...|..|..
T Consensus 2 ~C~~H~~~~~~-------~fC~-~~~~~iC~~C~~ 28 (39)
T cd00021 2 LCDEHGEEPLS-------LFCE-TDRALLCVDCDL 28 (39)
T ss_pred CCCccCCcceE-------EEeC-ccChhhhhhcCh
Confidence 5999987 888 9999 899999999964
No 154
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=55.47 E-value=2.3e+02 Score=28.46 Aligned_cols=7 Identities=29% Similarity=0.254 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 007671 470 ERLHQCA 476 (594)
Q Consensus 470 e~L~~~l 476 (594)
..|+..+
T Consensus 102 ~~L~~~i 108 (247)
T PF06705_consen 102 EALEEEI 108 (247)
T ss_pred HHHHHHH
Confidence 3333333
No 155
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=55.30 E-value=4.2e+02 Score=32.41 Aligned_cols=27 Identities=7% Similarity=0.225 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhcc
Q 007671 420 LKFITEAWLQIVECRRVLKWTYAYGYY 446 (594)
Q Consensus 420 ~~~l~~a~~~l~~~r~~L~~sy~~~yy 446 (594)
+.-+......+..+..-+.|..||-+-
T Consensus 254 ~~~~e~~~~~l~~Lk~k~~W~~V~~~~ 280 (1074)
T KOG0250|consen 254 LEQLEDLKENLEQLKAKMAWAWVNEVE 280 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445556677778889999998873
No 156
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=55.09 E-value=8 Score=40.32 Aligned_cols=50 Identities=30% Similarity=0.628 Sum_probs=34.7
Q ss_pred CCCccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 138 ~~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
..+...|.||-..+ .-...+||+|..|..|--..- ++-. .-.|| .|+...
T Consensus 58 DEen~~C~ICA~~~--TYs~~~PC~H~~CH~Ca~RlR--ALY~-----~K~C~--~CrTE~ 107 (493)
T COG5236 58 DEENMNCQICAGST--TYSARYPCGHQICHACAVRLR--ALYM-----QKGCP--LCRTET 107 (493)
T ss_pred ccccceeEEecCCc--eEEEeccCCchHHHHHHHHHH--HHHh-----ccCCC--cccccc
Confidence 44578899999875 445668999999999975532 2211 34688 788653
No 157
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=55.00 E-value=9.5 Score=34.15 Aligned_cols=59 Identities=19% Similarity=0.285 Sum_probs=32.5
Q ss_pred ceeeccCCcccccccccc--cCCCCchh-HHHHHHhh-hhhHHhHHHHHhcCCCCCCCCccee
Q 007671 251 YDVTCRCSYSFCWNVKEA--HRPVDCDT-VAKWVLKN-SAESENMNWILANSKPCPRCKRPIE 309 (594)
Q Consensus 251 ~~v~C~C~~~fC~~C~~~--H~p~~C~~-~~~~~~~~-~~~~~~~~wi~~ntK~CPkC~~~IE 309 (594)
..+.|.||++||-.=..| |...--.. ..+..... ..+....+|+...--.||.|+.+.+
T Consensus 69 rv~rcecghsf~d~r~nwkl~a~i~vrdtee~lreiyp~s~ipdp~wme~reficpecg~l~e 131 (165)
T COG4647 69 RVIRCECGHSFGDYRENWKLHANIYVRDTEEKLREIYPKSDIPDPQWMEIREFICPECGILHE 131 (165)
T ss_pred cEEEEeccccccChhhCceeeeEEEEcchHHHHHHhCcccCCCCchHHHHHHhhCccccceee
Confidence 345899999999765333 32221111 11111110 1222345677666678999999887
No 158
>PHA02929 N1R/p28-like protein; Provisional
Probab=54.24 E-value=7.5 Score=39.10 Aligned_cols=52 Identities=21% Similarity=0.415 Sum_probs=30.6
Q ss_pred cccCCCCCCCCeeeeecCC-CCceeeccCCccccccc-ccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCcc
Q 007671 230 TKWCPAPGCDYAVDFVVGS-GNYDVTCRCSYSFCWNV-KEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRP 307 (594)
Q Consensus 230 ~~~CP~p~C~~~i~~~~~~-~~~~v~C~C~~~fC~~C-~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~ 307 (594)
...||- |...+...... ....+.-.|+|.||..| ..|. .. ...||-|+.+
T Consensus 174 ~~eC~I--Cle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl------------~~--------------~~tCPlCR~~ 225 (238)
T PHA02929 174 DKECAI--CMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWK------------KE--------------KNTCPVCRTP 225 (238)
T ss_pred CCCCcc--CCcccccCccccccceecCCCCCcccHHHHHHHH------------hc--------------CCCCCCCCCE
Confidence 356875 66543211100 01223458999999999 6543 11 1579999987
Q ss_pred ee
Q 007671 308 IE 309 (594)
Q Consensus 308 IE 309 (594)
+.
T Consensus 226 ~~ 227 (238)
T PHA02929 226 FI 227 (238)
T ss_pred ee
Confidence 75
No 159
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=54.20 E-value=11 Score=38.98 Aligned_cols=50 Identities=20% Similarity=0.461 Sum_probs=34.3
Q ss_pred Ccccccccccccc-CCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCc
Q 007671 140 EEMTCGICFENYP-SDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA 197 (594)
Q Consensus 140 ~~~~C~IC~e~~~-~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~ 197 (594)
+.|+||+=-+... .+.|+++.|||..=+.=+...- .+| ...++|| -|...
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS----~nG--~~~FKCP--YCP~~ 385 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLS----QNG--VLSFKCP--YCPEM 385 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHh----hcC--cEEeeCC--CCCcc
Confidence 4789999544432 2678999999998877665542 233 4589999 78653
No 160
>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=54.10 E-value=9.2 Score=30.34 Aligned_cols=27 Identities=37% Similarity=0.839 Sum_probs=18.3
Q ss_pred CCCCCCCCcceeecCCCCcccccCCCcc
Q 007671 298 SKPCPRCKRPIEKNQGCMHMTCTPPCKF 325 (594)
Q Consensus 298 tK~CPkC~~~IEK~~GCnhm~C~~~C~~ 325 (594)
++.||.|+....+...=..++|. .||+
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~-~Cg~ 54 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCP-NCGF 54 (69)
T ss_pred ccCccCcccccccccccceEEcC-CCCC
Confidence 58999999999973333345665 4544
No 161
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=53.56 E-value=5.5 Score=34.17 Aligned_cols=32 Identities=31% Similarity=0.752 Sum_probs=25.5
Q ss_pred CCCccccccccccccCCCcccccCCCcccHhh
Q 007671 138 DGEEMTCGICFENYPSDRLLAAACGHPFCSSC 169 (594)
Q Consensus 138 ~~~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C 169 (594)
...+|+|+-||=....+.+..-.=|+.+|.+|
T Consensus 67 q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 67 QADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 45699999999877666666656689999998
No 162
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=53.54 E-value=3e+02 Score=30.36 Aligned_cols=17 Identities=24% Similarity=0.372 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHhh
Q 007671 469 LERLHQCAEKELQIYLN 485 (594)
Q Consensus 469 ~e~L~~~le~~~~~~~~ 485 (594)
+|.|.+.+..-+.+|.+
T Consensus 204 teelr~qVD~A~~q~Vn 220 (621)
T KOG3759|consen 204 TEELRRQVDDALKQLVN 220 (621)
T ss_pred HHHHHHHHHHHHHHHhC
Confidence 34455555555555543
No 163
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=53.31 E-value=11 Score=26.13 Aligned_cols=29 Identities=24% Similarity=0.581 Sum_probs=20.3
Q ss_pred ccCCCCCCCCeeeeecC---CCCceeec-cCCccc
Q 007671 231 KWCPAPGCDYAVDFVVG---SGNYDVTC-RCSYSF 261 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~---~~~~~v~C-~C~~~f 261 (594)
+.||+ |+....+... .....|.| .|++.|
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 46885 9887766532 23457899 999876
No 164
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=53.08 E-value=8.4 Score=26.50 Aligned_cols=26 Identities=35% Similarity=0.972 Sum_probs=13.5
Q ss_pred CCCCCCCcceeec----CCCCcccccCCCcc
Q 007671 299 KPCPRCKRPIEKN----QGCMHMTCTPPCKF 325 (594)
Q Consensus 299 K~CPkC~~~IEK~----~GCnhm~C~~~C~~ 325 (594)
|-||+|+.+++.. ++=..+.|. .||+
T Consensus 1 kfC~~CG~~l~~~ip~gd~r~R~vC~-~Cg~ 30 (34)
T PF14803_consen 1 KFCPQCGGPLERRIPEGDDRERLVCP-ACGF 30 (34)
T ss_dssp -B-TTT--B-EEE--TT-SS-EEEET-TTTE
T ss_pred CccccccChhhhhcCCCCCccceECC-CCCC
Confidence 4699999999863 445557787 6764
No 165
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=52.55 E-value=9 Score=43.84 Aligned_cols=14 Identities=21% Similarity=0.508 Sum_probs=9.5
Q ss_pred cceeeecccccccc
Q 007671 324 KFEFCWLCLGQWSD 337 (594)
Q Consensus 324 ~~~FCw~C~~~~~~ 337 (594)
+..--|+=|..|..
T Consensus 566 ~kGrWWlVGsaw~g 579 (822)
T KOG2141|consen 566 QKGRWWLVGSAWRG 579 (822)
T ss_pred hcCceEEecchhcC
Confidence 34446888888875
No 166
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=52.42 E-value=12 Score=27.79 Aligned_cols=28 Identities=29% Similarity=0.758 Sum_probs=17.3
Q ss_pred ccCCCCCCCCeeeeecCCCCceeec-cCCcc
Q 007671 231 KWCPAPGCDYAVDFVVGSGNYDVTC-RCSYS 260 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~ 260 (594)
++|| .|+..+............| .||+.
T Consensus 1 ~FCp--~Cg~~l~~~~~~~~~~~vC~~Cg~~ 29 (52)
T smart00661 1 KFCP--KCGNMLIPKEGKEKRRFVCRKCGYE 29 (52)
T ss_pred CCCC--CCCCccccccCCCCCEEECCcCCCe
Confidence 3788 4998776553333235678 78754
No 167
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=51.79 E-value=13 Score=33.70 Aligned_cols=52 Identities=27% Similarity=0.693 Sum_probs=38.7
Q ss_pred CCccccccccccccCCCcccc--cCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 139 GEEMTCGICFENYPSDRLLAA--ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~~~v~l--~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
....+|.||-|+.....+... -||-..|.-|....|...- ....|| -|+..|
T Consensus 78 ~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~------~ypvCP--vCkTSF 131 (140)
T PF05290_consen 78 PKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN------LYPVCP--VCKTSF 131 (140)
T ss_pred CCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc------cCCCCC--cccccc
Confidence 367889999998643222222 2999999999999998753 257899 798776
No 168
>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=51.56 E-value=44 Score=22.86 Aligned_cols=34 Identities=18% Similarity=0.209 Sum_probs=26.6
Q ss_pred HHHHHHHHhCCCHHHHHHHHHhcCCChHHHHHHHh
Q 007671 82 DITRISTVLSISKVAASILLRFYNWSVSKVHDEWF 116 (594)
Q Consensus 82 ~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~e~~~ 116 (594)
.|+++.+ +|.+...+...|...+||+++..+-++
T Consensus 4 ~v~~L~~-mGf~~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 4 KLEQLLE-MGFSREEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence 4445544 589999999999999999998876543
No 169
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.24 E-value=6.6 Score=41.34 Aligned_cols=43 Identities=23% Similarity=0.666 Sum_probs=30.7
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
....|.||++.. .+.+-+||||.-| |..-+- ..+.|| -|+..+
T Consensus 304 ~p~lcVVcl~e~--~~~~fvpcGh~cc--ct~cs~----------~l~~CP--vCR~rI 346 (355)
T KOG1571|consen 304 QPDLCVVCLDEP--KSAVFVPCGHVCC--CTLCSK----------HLPQCP--VCRQRI 346 (355)
T ss_pred CCCceEEecCCc--cceeeecCCcEEE--chHHHh----------hCCCCc--hhHHHH
Confidence 456799999986 6688999999976 554331 135699 787654
No 170
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=51.21 E-value=6.9 Score=32.01 Aligned_cols=59 Identities=24% Similarity=0.625 Sum_probs=19.7
Q ss_pred ccCCCCCCCCeeeeecCCCCceeec-cCCcccccccccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCccee
Q 007671 231 KWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNVKEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIE 309 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~IE 309 (594)
..|-. |+--|-.. ..+...|-| .|++..|..|.++- ++..++-||+|+.+..
T Consensus 10 qiCqi--CGD~VGl~-~~Ge~FVAC~eC~fPvCr~CyEYE------------------------rkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 10 QICQI--CGDDVGLT-ENGEVFVACHECAFPVCRPCYEYE------------------------RKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -B-SS--S--B--B--SSSSB--S-SSS-----HHHHHHH------------------------HHTS-SB-TTT--B--
T ss_pred ccccc--ccCccccC-CCCCEEEEEcccCCccchhHHHHH------------------------hhcCcccccccCCCcc
Confidence 34553 66555444 346677899 99999998882211 0112389999999888
Q ss_pred ecCCCCc
Q 007671 310 KNQGCMH 316 (594)
Q Consensus 310 K~~GCnh 316 (594)
+..|+-.
T Consensus 63 r~kgsp~ 69 (80)
T PF14569_consen 63 RHKGSPR 69 (80)
T ss_dssp --TT---
T ss_pred cccCCCC
Confidence 7776643
No 171
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.07 E-value=8.5 Score=39.33 Aligned_cols=30 Identities=27% Similarity=0.680 Sum_probs=23.5
Q ss_pred ccccccccccccCCCcccccCCCc-ccHhhHHH
Q 007671 141 EMTCGICFENYPSDRLLAAACGHP-FCSSCWTG 172 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~CgH~-fC~~C~~~ 172 (594)
...|.||++.. .+-+.|+|||. -|..|-+.
T Consensus 300 ~~LC~ICmDaP--~DCvfLeCGHmVtCt~CGkr 330 (350)
T KOG4275|consen 300 RRLCAICMDAP--RDCVFLECGHMVTCTKCGKR 330 (350)
T ss_pred HHHHHHHhcCC--cceEEeecCcEEeehhhccc
Confidence 56799999964 77899999994 57777543
No 172
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=49.96 E-value=5.1e+02 Score=31.92 Aligned_cols=15 Identities=40% Similarity=1.201 Sum_probs=11.9
Q ss_pred CCCCCCCCcceeecC
Q 007671 298 SKPCPRCKRPIEKNQ 312 (594)
Q Consensus 298 tK~CPkC~~~IEK~~ 312 (594)
.-.||+|.+|+|-..
T Consensus 796 ~~~~~~~~~~~~~~~ 810 (1006)
T PRK12775 796 VATCPKCHRPLEGDE 810 (1006)
T ss_pred CccCcccCCCCCCCc
Confidence 368999999999443
No 173
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=49.37 E-value=10 Score=45.57 Aligned_cols=16 Identities=25% Similarity=0.447 Sum_probs=10.6
Q ss_pred HHHHHHHHHHhHHHHH
Q 007671 458 FEYLQGEAESGLERLH 473 (594)
Q Consensus 458 fe~~Q~~~e~~~e~L~ 473 (594)
||..|....+.+|+|.
T Consensus 2419 FEtKer~Fnka~EK~R 2434 (3015)
T KOG0943|consen 2419 FETKERKFNKAMEKLR 2434 (3015)
T ss_pred cchHHHHHHHHHHHHH
Confidence 6666666666666664
No 174
>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=49.08 E-value=10 Score=32.78 Aligned_cols=25 Identities=28% Similarity=0.770 Sum_probs=18.4
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcce
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFE 326 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (594)
+.||+|+.++...+ +.+.|. .|++.
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 36999999987654 378887 67665
No 175
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=48.67 E-value=12 Score=34.04 Aligned_cols=23 Identities=35% Similarity=0.797 Sum_probs=19.0
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeeccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCL 332 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~ 332 (594)
+-||.|+.|+.+ .-|.-||.+|+
T Consensus 29 ~hCp~Cg~PLF~-----------KdG~v~CPvC~ 51 (131)
T COG1645 29 KHCPKCGTPLFR-----------KDGEVFCPVCG 51 (131)
T ss_pred hhCcccCCccee-----------eCCeEECCCCC
Confidence 789999999984 47777888886
No 176
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=48.45 E-value=6.2 Score=40.53 Aligned_cols=19 Identities=26% Similarity=0.563 Sum_probs=15.8
Q ss_pred ceeec-cCCccccccc-cccc
Q 007671 251 YDVTC-RCSYSFCWNV-KEAH 269 (594)
Q Consensus 251 ~~v~C-~C~~~fC~~C-~~~H 269 (594)
....| .|...||..| .-.|
T Consensus 387 ~rY~Ce~CK~~FC~dCdvfiH 407 (421)
T COG5151 387 GRYQCELCKSTFCSDCDVFIH 407 (421)
T ss_pred cceechhhhhhhhhhhHHHHH
Confidence 34589 9999999999 7767
No 177
>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=47.49 E-value=3.7 Score=33.05 Aligned_cols=39 Identities=31% Similarity=0.715 Sum_probs=22.0
Q ss_pred cccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 142 MTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
..||.|-.++.... +|.+|..|-..|. ....|| .|...+
T Consensus 2 ~~CP~C~~~L~~~~------~~~~C~~C~~~~~----------~~a~CP--dC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG------GHYHCEACQKDYK----------KEAFCP--DCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET------TEEEETTT--EEE----------EEEE-T--TT-SB-
T ss_pred CcCCCCCCccEEeC------CEEECccccccce----------ecccCC--CcccHH
Confidence 57999988753222 8999999988762 246799 797764
No 178
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=47.00 E-value=14 Score=31.05 Aligned_cols=28 Identities=29% Similarity=0.589 Sum_probs=22.2
Q ss_pred CCCCCCCcceeecCCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (594)
-.||.|+++.-|..+=---.|+ .||+.|
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 5899999999888777777787 676555
No 179
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=45.89 E-value=15 Score=27.99 Aligned_cols=33 Identities=24% Similarity=0.866 Sum_probs=26.0
Q ss_pred cccccccccccc-CCCccccc-CCCcccHhhHHHH
Q 007671 141 EMTCGICFENYP-SDRLLAAA-CGHPFCSSCWTGY 173 (594)
Q Consensus 141 ~~~C~IC~e~~~-~~~~v~l~-CgH~fC~~C~~~y 173 (594)
.-.|++|-+.+. .+++|..+ ||-.|.++||...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 346999999985 45666665 9999999999653
No 180
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=45.61 E-value=6 Score=40.67 Aligned_cols=52 Identities=21% Similarity=0.678 Sum_probs=36.9
Q ss_pred CCCcccCCCCCCCCeeeeecCCCCceeec-cCCcccccccccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCC
Q 007671 227 NRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNVKEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCK 305 (594)
Q Consensus 227 ~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~ 305 (594)
++.+-+|-. |+..|.+- + .= .|.+.||..|...|.. |.||.|.
T Consensus 87 ~p~VHfCd~--Cd~PI~IY-G------RmIPCkHvFCl~CAr~~~d---------------------------K~Cp~C~ 130 (389)
T KOG2932|consen 87 GPRVHFCDR--CDFPIAIY-G------RMIPCKHVFCLECARSDSD---------------------------KICPLCD 130 (389)
T ss_pred CcceEeecc--cCCcceee-e------cccccchhhhhhhhhcCcc---------------------------ccCcCcc
Confidence 455678874 88766432 1 22 6899999999444421 9999999
Q ss_pred cceeecCCC
Q 007671 306 RPIEKNQGC 314 (594)
Q Consensus 306 ~~IEK~~GC 314 (594)
-+|.|.+-|
T Consensus 131 d~VqrIeq~ 139 (389)
T KOG2932|consen 131 DRVQRIEQI 139 (389)
T ss_pred cHHHHHHHh
Confidence 999987766
No 181
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=45.46 E-value=4.6e+02 Score=28.92 Aligned_cols=9 Identities=33% Similarity=0.995 Sum_probs=5.0
Q ss_pred CCCCCCCcc
Q 007671 299 KPCPRCKRP 307 (594)
Q Consensus 299 K~CPkC~~~ 307 (594)
-.||-|+..
T Consensus 212 ~scpvcR~~ 220 (493)
T KOG0804|consen 212 SSCPVCRYC 220 (493)
T ss_pred CcChhhhhh
Confidence 456666543
No 182
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=45.35 E-value=13 Score=44.07 Aligned_cols=24 Identities=21% Similarity=0.311 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHhC-CCHHHHH
Q 007671 75 IRQRQEEDITRISTVLS-ISKVAAS 98 (594)
Q Consensus 75 i~~~~~~~i~~v~~~l~-i~~~~a~ 98 (594)
|...|..+-...+.+++ +++....
T Consensus 968 i~~lq~~d~~~yq~l~~~L~~~q~~ 992 (1010)
T KOG1991|consen 968 ITNLQSSDAVRYQKLISTLTPEQQD 992 (1010)
T ss_pred HHhhhccChHHHHHHHhcCCHHHHH
Confidence 34444444444444333 3444443
No 183
>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=45.06 E-value=5.4e+02 Score=31.39 Aligned_cols=45 Identities=18% Similarity=0.226 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHhhhhhhhcccCccchhhHHHHHHHHHHHHHhHHHHHHH
Q 007671 425 EAWLQIVECRRVLKWTYAYGYYLPDHEHAKRQFFEYLQGEAESGLERLHQC 475 (594)
Q Consensus 425 ~a~~~l~~~r~~L~~sy~~~yy~~~~~~~~~~~fe~~Q~~~e~~~e~L~~~ 475 (594)
....-|.+-+|+. -+|-||... .+.......-++.+..+..|.+.
T Consensus 222 ~~~~dle~l~R~~---ia~eY~~~~---~~~~~~~~~i~e~~~~i~~l~e~ 266 (1174)
T KOG0933|consen 222 KINRDLERLSRIC---IAYEYLQAE---EKRKNSAHEIEEMKDKIAKLDES 266 (1174)
T ss_pred HHHHHHHHHHHHH---HHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555666665 577777622 23333333444444444444433
No 184
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=44.34 E-value=60 Score=22.07 Aligned_cols=31 Identities=23% Similarity=0.225 Sum_probs=24.1
Q ss_pred HHHHHHHhCCCHHHHHHHHHhcCCChHHHHHH
Q 007671 83 ITRISTVLSISKVAASILLRFYNWSVSKVHDE 114 (594)
Q Consensus 83 i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~e~ 114 (594)
|+++.+ +|.+...|...|...+||+++..+-
T Consensus 5 v~~L~~-mGf~~~~a~~aL~~~~~d~~~A~~~ 35 (37)
T smart00165 5 IDQLLE-MGFSREEALKALRAANGNVERAAEY 35 (37)
T ss_pred HHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHH
Confidence 444433 3899999999999999998887653
No 185
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=44.21 E-value=24 Score=40.20 Aligned_cols=95 Identities=23% Similarity=0.522 Sum_probs=57.6
Q ss_pred CcccCCCCCCCCeeeeecCCCCceeec-cCCccccccc--ccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCC
Q 007671 229 KTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNV--KEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCK 305 (594)
Q Consensus 229 ~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C--~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~ 305 (594)
.++||.+.+|..+|... .+-+.= .=|--||.+| .+.-.++.|+ .||.=.
T Consensus 21 PLVYCDG~nCsVAVHQa----CYGIvqVPtGpWfCrKCesqeraarvrCe------------------------LCP~kd 72 (900)
T KOG0956|consen 21 PLVYCDGHNCSVAVHQA----CYGIVQVPTGPWFCRKCESQERAARVRCE------------------------LCPHKD 72 (900)
T ss_pred ceeeecCCCceeeeehh----cceeEecCCCchhhhhhhhhhhhccceee------------------------cccCcc
Confidence 46899999999887532 222222 4477788888 5555566663 455433
Q ss_pred cceee--cCCCCcccccC----------------------CCc-ceeeeccccccccCCCCCCCcccCCch
Q 007671 306 RPIEK--NQGCMHMTCTP----------------------PCK-FEFCWLCLGQWSDHGERTGGFYACNRY 351 (594)
Q Consensus 306 ~~IEK--~~GCnhm~C~~----------------------~C~-~~FCw~C~~~~~~h~~~~g~~y~C~~~ 351 (594)
-.+.| |+|--|+.|.- ..+ ..-||+|-..-.+.....|.-..||+-
T Consensus 73 GALKkTDn~GWAHVVCALYIPEVrFgNV~TMEPIiLq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs 143 (900)
T KOG0956|consen 73 GALKKTDNGGWAHVVCALYIPEVRFGNVHTMEPIILQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKS 143 (900)
T ss_pred cceecccCCCceEEEEEeeccceeecccccccceeeccCchhhhcceeeeecccCCccccccccceecccc
Confidence 34443 56777777641 122 245888876555555556767777764
No 186
>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=44.09 E-value=13 Score=28.07 Aligned_cols=22 Identities=23% Similarity=0.629 Sum_probs=13.3
Q ss_pred ceeec-cCCccccccc-ccccCCC
Q 007671 251 YDVTC-RCSYSFCWNV-KEAHRPV 272 (594)
Q Consensus 251 ~~v~C-~C~~~fC~~C-~~~H~p~ 272 (594)
....| .|+..||..| .=.|..+
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~L 43 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHETL 43 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTTS
T ss_pred CeEECCCCCCccccCcChhhhccc
Confidence 45689 9999999999 8888653
No 187
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=42.61 E-value=6.4 Score=45.07 Aligned_cols=51 Identities=20% Similarity=0.499 Sum_probs=39.2
Q ss_pred CccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCccch
Q 007671 140 EEMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVGQ 200 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~~ 200 (594)
...+|+||+..+ ..++.+.|.|.||..||..-+...-. ...|| -|+..+..
T Consensus 20 k~lEc~ic~~~~--~~p~~~kc~~~~l~~~~n~~f~~~~~------~~~~~--lc~~~~eK 70 (684)
T KOG4362|consen 20 KILECPICLEHV--KEPSLLKCDHIFLKFCLNKLFESKKG------PKQCA--LCKSDIEK 70 (684)
T ss_pred hhccCCceeEEe--eccchhhhhHHHHhhhhhceeeccCc------cccch--hhhhhhhh
Confidence 357899999987 67789999999999999887655321 46787 68766543
No 188
>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=42.51 E-value=83 Score=24.84 Aligned_cols=41 Identities=15% Similarity=0.245 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHhCCCHHHHHHHHHhcCCChHHHHHHHh
Q 007671 76 RQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWF 116 (594)
Q Consensus 76 ~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~e~~~ 116 (594)
...+.+.|..++...+++...+..+|...+||-+..+..|.
T Consensus 9 ~~~q~~~v~~~~~~Tgmn~~~s~~cLe~~~Wd~~~Al~~F~ 49 (63)
T smart00804 9 SPEQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFT 49 (63)
T ss_pred CHHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence 34678889999999999999999999999999999887663
No 189
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=42.45 E-value=18 Score=37.15 Aligned_cols=48 Identities=29% Similarity=0.598 Sum_probs=36.6
Q ss_pred CCCccccccccccccC--CCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCC
Q 007671 138 DGEEMTCGICFENYPS--DRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGA 196 (594)
Q Consensus 138 ~~~~~~C~IC~e~~~~--~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~ 196 (594)
....+.||||.+.+.. ..+..++|||.--..|++.++-. .++|| .|..
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 3446679999997643 35567889999999999998643 38899 7877
No 190
>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=42.20 E-value=19 Score=25.99 Aligned_cols=34 Identities=18% Similarity=0.465 Sum_probs=16.6
Q ss_pred cccccccccCCCcc-cccCCCcccHhhHHHHHHhh
Q 007671 144 CGICFENYPSDRLL-AAACGHPFCSSCWTGYISTA 177 (594)
Q Consensus 144 C~IC~e~~~~~~~v-~l~CgH~fC~~C~~~yi~~~ 177 (594)
|.+|-+.......- ...|+=.+...|+..||...
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 66777665322211 12477789999999999764
No 191
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=41.88 E-value=6.2 Score=29.43 Aligned_cols=33 Identities=30% Similarity=0.809 Sum_probs=26.9
Q ss_pred ccccccccccccCCCcccc-cCCCcccHhhHHHH
Q 007671 141 EMTCGICFENYPSDRLLAA-ACGHPFCSSCWTGY 173 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l-~CgH~fC~~C~~~y 173 (594)
.++|.+|-+.++..+.... -||..-|..||+.-
T Consensus 7 ry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~de 40 (57)
T PF14445_consen 7 RYSCDLCNSSHPISELRQCVLCGRWACNSCWQDE 40 (57)
T ss_pred hHhHHhhcccCcHHHHHHHhhhchhhhhhhhhhh
Confidence 6789999998877666554 49999999999863
No 192
>smart00336 BBOX B-Box-type zinc finger.
Probab=41.36 E-value=21 Score=24.84 Aligned_cols=28 Identities=25% Similarity=0.602 Sum_probs=24.8
Q ss_pred CCCCCCC-cceeecCCCCcccccCCCcceeeeccccc
Q 007671 299 KPCPRCK-RPIEKNQGCMHMTCTPPCKFEFCWLCLGQ 334 (594)
Q Consensus 299 K~CPkC~-~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (594)
..|+.|. .++. ++|. .|+...|..|...
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 6799998 8888 9999 8999999999754
No 193
>PRK12495 hypothetical protein; Provisional
Probab=40.84 E-value=19 Score=35.42 Aligned_cols=16 Identities=31% Similarity=0.829 Sum_probs=13.0
Q ss_pred CCCCCCCCcceeecCC
Q 007671 298 SKPCPRCKRPIEKNQG 313 (594)
Q Consensus 298 tK~CPkC~~~IEK~~G 313 (594)
.+.||.|+.||-+..|
T Consensus 42 a~hC~~CG~PIpa~pG 57 (226)
T PRK12495 42 NAHCDECGDPIFRHDG 57 (226)
T ss_pred hhhcccccCcccCCCC
Confidence 4789999999995444
No 194
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=40.52 E-value=8.1 Score=40.16 Aligned_cols=28 Identities=18% Similarity=0.563 Sum_probs=21.8
Q ss_pred CCCCCCCcceeec-CCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKN-QGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~-~GCnhm~C~~~C~~~F 327 (594)
.+||+|+..|-+. -.=|.+.|. .|+++|
T Consensus 28 ~~c~~c~~~~~~~~l~~~~~vc~-~c~~h~ 56 (292)
T PRK05654 28 TKCPSCGQVLYRKELEANLNVCP-KCGHHM 56 (292)
T ss_pred eECCCccchhhHHHHHhcCCCCC-CCCCCe
Confidence 8899999888643 345668997 799988
No 195
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=39.98 E-value=13 Score=26.46 Aligned_cols=31 Identities=32% Similarity=0.743 Sum_probs=19.4
Q ss_pred CCCCCCcceeecCCCCcccccCCCcceeeecccccccc
Q 007671 300 PCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD 337 (594)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~ 337 (594)
.||+|+..++...- . .=....|-.|++.|-+
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 59999998875433 1 2223346678877754
No 196
>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=39.92 E-value=20 Score=33.24 Aligned_cols=94 Identities=14% Similarity=0.215 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHHhcCCChHHHHHHHhhcHHHHHHHhCCCCCCCCCCCC----CCcccccccccc
Q 007671 75 IRQRQEEDITRISTVLSISKVAASILLRFYNWSVSKVHDEWFADEERVRKAVGLLEKPAVQFPD----GEEMTCGICFEN 150 (594)
Q Consensus 75 i~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~e~~~~d~~~~~~~~gl~~~~~~~~~~----~~~~~C~IC~e~ 150 (594)
+...++++|.+.-..+++...... +-..--|+.+.+.+. ..+.++.+||-.......+. .....||-|-..
T Consensus 40 a~e~L~~~I~~aL~~~Gv~~V~V~-i~~~p~Wt~d~it~~----gr~~l~~~giapp~~~~~~~~~~~~~~~~cp~c~s~ 114 (146)
T TIGR02159 40 ALEVIRQDIRDAVRALGVEVVEVS-TSLDPPWTTDWITED----AREKLREYGIAPPAGHYVVGVSPEPPSVQCPRCGSA 114 (146)
T ss_pred hHHHHHHHHHHHHHhcCCCeEEEe-EeeCCCCChHHCCHH----HHHHHHhcCccCCCccCCCcccCCCCCCcCCCCCCC
Confidence 344444444444333465433332 234778999888764 33445677885543221111 124789999976
Q ss_pred cc--CCCcccccCC-CcccHhhHHHH
Q 007671 151 YP--SDRLLAAACG-HPFCSSCWTGY 173 (594)
Q Consensus 151 ~~--~~~~v~l~Cg-H~fC~~C~~~y 173 (594)
.. .+.+-+..|. ..+|.+|..-+
T Consensus 115 ~t~~~s~fg~t~cka~~~c~~c~epf 140 (146)
T TIGR02159 115 DTTITSIFGPTACKALYRCRACKEPF 140 (146)
T ss_pred CcEeecCCCChhhHHHhhhhhhCCcH
Confidence 42 1344456786 46799887654
No 197
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=39.52 E-value=21 Score=43.22 Aligned_cols=57 Identities=25% Similarity=0.604 Sum_probs=37.5
Q ss_pred cCCCCCCCCeeeeecCCCCceeec-cCCcccccccc--cccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCcce
Q 007671 232 WCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNVK--EAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPI 308 (594)
Q Consensus 232 ~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~--~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~I 308 (594)
-|-- |+--|... ..+...|-| .|+.-.|..|. +...+ ++-||+|+...
T Consensus 19 iCqI--CGD~vg~~-~~Ge~FVAC~eC~FPVCrpCYEYEr~eG--------------------------~q~CPqCktrY 69 (1079)
T PLN02638 19 VCQI--CGDNVGKT-VDGEPFVACDVCAFPVCRPCYEYERKDG--------------------------NQSCPQCKTKY 69 (1079)
T ss_pred eeee--cccccCcC-CCCCEEEEeccCCCccccchhhhhhhcC--------------------------CccCCccCCch
Confidence 4553 76555444 346678999 99999999993 22222 26788888877
Q ss_pred eecCCCCcc
Q 007671 309 EKNQGCMHM 317 (594)
Q Consensus 309 EK~~GCnhm 317 (594)
.+-.||..+
T Consensus 70 kr~kgsprv 78 (1079)
T PLN02638 70 KRHKGSPAI 78 (1079)
T ss_pred hhhcCCCCc
Confidence 766566554
No 198
>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=39.37 E-value=9.9 Score=44.63 Aligned_cols=15 Identities=27% Similarity=0.290 Sum_probs=0.0
Q ss_pred CCCHHHH-HHHHHhcC
Q 007671 91 SISKVAA-SILLRFYN 105 (594)
Q Consensus 91 ~i~~~~a-~~LL~~~~ 105 (594)
+|+.++| ++-.|.|.
T Consensus 721 Gi~eerAaria~RAfP 736 (787)
T PF03115_consen 721 GIPEERAARIAKRAFP 736 (787)
T ss_dssp ----------------
T ss_pred CCCHHHHHhhhhccCC
Confidence 4444433 23334443
No 199
>PLN02189 cellulose synthase
Probab=39.03 E-value=23 Score=42.65 Aligned_cols=60 Identities=23% Similarity=0.661 Sum_probs=39.3
Q ss_pred ccCCCCCCCCeeeeecCCCCceeec-cCCcccccccccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCccee
Q 007671 231 KWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNVKEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIE 309 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~IE 309 (594)
.-|.. |+--|... ..+.+.|-| .|+...|..|.+.-+ + ...+.||+|+....
T Consensus 35 ~~C~i--Cgd~vg~~-~~g~~fvaC~~C~fpvCr~Cyeyer------------~------------eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEI--CGDEIGLT-VDGDLFVACNECGFPVCRPCYEYER------------R------------EGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccc--cccccCcC-CCCCEEEeeccCCCccccchhhhhh------------h------------cCCccCcccCCchh
Confidence 35664 77665544 345677899 899999999932210 0 11278888888888
Q ss_pred ecCCCCcc
Q 007671 310 KNQGCMHM 317 (594)
Q Consensus 310 K~~GCnhm 317 (594)
+-.|++.+
T Consensus 88 r~kgs~~v 95 (1040)
T PLN02189 88 RLKGSPRV 95 (1040)
T ss_pred hccCCCCc
Confidence 66666654
No 200
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=38.84 E-value=20 Score=36.80 Aligned_cols=25 Identities=44% Similarity=0.987 Sum_probs=20.4
Q ss_pred CCCCCCCcceeec--CCCCcccccCCCc
Q 007671 299 KPCPRCKRPIEKN--QGCMHMTCTPPCK 324 (594)
Q Consensus 299 K~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (594)
++|+.|+.+|+|. +|=+-.+|. .|+
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 7999999999974 777777776 675
No 201
>PRK04023 DNA polymerase II large subunit; Validated
Probab=38.67 E-value=24 Score=42.17 Aligned_cols=29 Identities=21% Similarity=0.532 Sum_probs=19.3
Q ss_pred CCCcccCCCCCCCCeeeeecCCCCceeec-cCCc-----cccccc
Q 007671 227 NRKTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSY-----SFCWNV 265 (594)
Q Consensus 227 ~~~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~-----~fC~~C 265 (594)
....++||. |+... ....| .||. .||..|
T Consensus 623 EVg~RfCps--CG~~t--------~~frCP~CG~~Te~i~fCP~C 657 (1121)
T PRK04023 623 EIGRRKCPS--CGKET--------FYRRCPFCGTHTEPVYRCPRC 657 (1121)
T ss_pred cccCccCCC--CCCcC--------CcccCCCCCCCCCcceeCccc
Confidence 345678994 88542 34578 7885 478888
No 202
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=38.29 E-value=13 Score=28.92 Aligned_cols=7 Identities=57% Similarity=1.621 Sum_probs=4.5
Q ss_pred CCCCCCC
Q 007671 299 KPCPRCK 305 (594)
Q Consensus 299 K~CPkC~ 305 (594)
-+||+|+
T Consensus 28 F~CPnCG 34 (61)
T COG2888 28 FPCPNCG 34 (61)
T ss_pred eeCCCCC
Confidence 4666666
No 203
>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=37.79 E-value=37 Score=25.54 Aligned_cols=36 Identities=14% Similarity=0.174 Sum_probs=30.7
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHhcCCChHHHHHHHh
Q 007671 81 EDITRISTVLSISKVAASILLRFYNWSVSKVHDEWF 116 (594)
Q Consensus 81 ~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~e~~~ 116 (594)
+.|..++...++++.-+...|...+||-++.+..|.
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 578899999999999999999999999999887764
No 204
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=37.46 E-value=4.4e+02 Score=26.44 Aligned_cols=23 Identities=30% Similarity=0.310 Sum_probs=10.8
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHH
Q 007671 458 FEYLQGEAESGLERLHQCAEKEL 480 (594)
Q Consensus 458 fe~~Q~~~e~~~e~L~~~le~~~ 480 (594)
++.+...+...+..|...++.+.
T Consensus 119 ie~~~~~l~~~l~~l~~~~~~Er 141 (247)
T PF06705_consen 119 IEELNQELVRELNELQEAFENER 141 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444445555554444443
No 205
>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=37.46 E-value=15 Score=28.49 Aligned_cols=41 Identities=32% Similarity=0.515 Sum_probs=31.4
Q ss_pred CCCCCCCcceee--cCCCCcccccCCCcceeeeccccccccCCC
Q 007671 299 KPCPRCKRPIEK--NQGCMHMTCTPPCKFEFCWLCLGQWSDHGE 340 (594)
Q Consensus 299 K~CPkC~~~IEK--~~GCnhm~C~~~C~~~FCw~C~~~~~~h~~ 340 (594)
..||-|+..+-- .+-=|+-+|+ .|+...|-+||-.-.+|-.
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 579999987621 1346899999 8999999999866566653
No 206
>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=36.93 E-value=9.4 Score=39.52 Aligned_cols=28 Identities=18% Similarity=0.555 Sum_probs=20.4
Q ss_pred CCCCCCCcceeec-CCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKN-QGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~-~GCnhm~C~~~C~~~F 327 (594)
.+||+|+..|-+. -.=|.+.|. .|+++|
T Consensus 27 ~~c~~c~~~~~~~~l~~~~~vc~-~c~~h~ 55 (285)
T TIGR00515 27 TKCPKCGQVLYTKELERNLEVCP-KCDHHM 55 (285)
T ss_pred eECCCCcchhhHHHHHhhCCCCC-CCCCcC
Confidence 7899999888753 334567887 788765
No 207
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=36.89 E-value=24 Score=42.66 Aligned_cols=10 Identities=40% Similarity=0.707 Sum_probs=4.9
Q ss_pred HHHHcccccc
Q 007671 516 RALENGLSDV 525 (594)
Q Consensus 516 ~~le~gl~~~ 525 (594)
+.||.|...+
T Consensus 2474 rslesghaPl 2483 (3015)
T KOG0943|consen 2474 RSLESGHAPL 2483 (3015)
T ss_pred hccccCCCcc
Confidence 3455555544
No 208
>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=36.65 E-value=24 Score=27.07 Aligned_cols=43 Identities=30% Similarity=0.778 Sum_probs=31.5
Q ss_pred ccccccccccCCCcccccCCC--cccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 143 TCGICFENYPSDRLLAAACGH--PFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 143 ~C~IC~e~~~~~~~v~l~CgH--~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
.|..|-.+++.+..-..-|.+ .||.+|....+ .-.|| .|+..|
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l-----------~~~CP--NCgGel 51 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML-----------NGVCP--NCGGEL 51 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh-----------cCcCc--CCCCcc
Confidence 488888888776655555654 79999998875 23688 687655
No 209
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=36.58 E-value=34 Score=34.59 Aligned_cols=48 Identities=17% Similarity=0.393 Sum_probs=35.7
Q ss_pred ccccccccccccCCCcccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCC
Q 007671 141 EMTCGICFENYPSDRLLAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGA 196 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~ 196 (594)
.+.|||=+-.+ ...+++..|||.|=++=+..++... ..++||..+|..
T Consensus 176 s~rdPis~~~I-~nPviSkkC~HvydrDsI~~~l~~~-------~~i~CPv~gC~~ 223 (262)
T KOG2979|consen 176 SNRDPISKKPI-VNPVISKKCGHVYDRDSIMQILCDE-------ITIRCPVLGCEN 223 (262)
T ss_pred cccCchhhhhh-hchhhhcCcCcchhhhhHHHHhccC-------ceeecccccCCc
Confidence 45688865444 1455677899999999888887542 269999999983
No 210
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=36.50 E-value=10 Score=38.62 Aligned_cols=30 Identities=30% Similarity=0.843 Sum_probs=23.7
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeecccccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQW 335 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~ 335 (594)
-+|--|.-.|. +-|.-+|||-||++|-...
T Consensus 26 lrC~IC~~~i~-------ip~~TtCgHtFCslCIR~h 55 (391)
T COG5432 26 LRCRICDCRIS-------IPCETTCGHTFCSLCIRRH 55 (391)
T ss_pred HHhhhhhheee-------cceecccccchhHHHHHHH
Confidence 57888888777 7774379999999997654
No 211
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.44 E-value=34 Score=32.47 Aligned_cols=39 Identities=23% Similarity=0.706 Sum_probs=27.8
Q ss_pred ccCCCcccHhhHHHHHHhhccCCCC--ccccccCCCcCCCccc
Q 007671 159 AACGHPFCSSCWTGYISTAINDGPG--CLMLRCPDPSCGAAVG 199 (594)
Q Consensus 159 l~CgH~fC~~C~~~yi~~~i~~g~~--~~~i~CP~~~C~~~v~ 199 (594)
..||..|..-|+..|+..-+....+ +..=.|| -|..++.
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCP--YCS~Pia 228 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECP--YCSDPIA 228 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCC--CCCCcce
Confidence 4699999999999999876655432 1223688 7877664
No 212
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=36.27 E-value=23 Score=30.64 Aligned_cols=27 Identities=26% Similarity=0.588 Sum_probs=16.9
Q ss_pred CCCCCCCccee---ecCCCCcccccCCCcce
Q 007671 299 KPCPRCKRPIE---KNQGCMHMTCTPPCKFE 326 (594)
Q Consensus 299 K~CPkC~~~IE---K~~GCnhm~C~~~C~~~ 326 (594)
-.||+|+.... ...|=-|+.|. .||+.
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 57999994222 23355578887 67655
No 213
>PRK11827 hypothetical protein; Provisional
Probab=36.24 E-value=27 Score=27.31 Aligned_cols=25 Identities=24% Similarity=0.452 Sum_probs=18.1
Q ss_pred CCCCCCCcceeecCCCCcccccCCCc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCK 324 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~ 324 (594)
-.||.|+.+++-..+=+...|. .|+
T Consensus 9 LaCP~ckg~L~~~~~~~~Lic~-~~~ 33 (60)
T PRK11827 9 IACPVCNGKLWYNQEKQELICK-LDN 33 (60)
T ss_pred eECCCCCCcCeEcCCCCeEECC-ccC
Confidence 5799999999865554557776 454
No 214
>PRK14873 primosome assembly protein PriA; Provisional
Probab=35.72 E-value=38 Score=39.46 Aligned_cols=15 Identities=27% Similarity=0.769 Sum_probs=9.6
Q ss_pred ceeec-cCCccc-cccc
Q 007671 251 YDVTC-RCSYSF-CWNV 265 (594)
Q Consensus 251 ~~v~C-~C~~~f-C~~C 265 (594)
+.+.| .||+.+ |.+|
T Consensus 382 p~l~C~~Cg~~~~C~~C 398 (665)
T PRK14873 382 PSLACARCRTPARCRHC 398 (665)
T ss_pred CeeEhhhCcCeeECCCC
Confidence 45688 787653 5555
No 215
>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=35.29 E-value=26 Score=22.88 Aligned_cols=21 Identities=24% Similarity=0.833 Sum_probs=13.6
Q ss_pred CCCCCCcceeecCCCCccccc
Q 007671 300 PCPRCKRPIEKNQGCMHMTCT 320 (594)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~ 320 (594)
.||.|+..+.+..|=-+++|.
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 216
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=35.24 E-value=24 Score=41.30 Aligned_cols=35 Identities=23% Similarity=0.732 Sum_probs=28.2
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcce-----eeeccccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFE-----FCWLCLGQ 334 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~-----FCw~C~~~ 334 (594)
-.||+|..++.-...=|.|.|. .||+. .|..|+..
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 4788888887766566889998 89987 89999876
No 217
>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=35.23 E-value=25 Score=31.72 Aligned_cols=26 Identities=8% Similarity=0.033 Sum_probs=18.1
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcce
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFE 326 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (594)
+.||+|++..---.- +.++|. .||..
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 689999987663322 678887 56554
No 218
>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=35.02 E-value=11 Score=29.37 Aligned_cols=11 Identities=55% Similarity=1.313 Sum_probs=10.2
Q ss_pred CCCCCCCccee
Q 007671 299 KPCPRCKRPIE 309 (594)
Q Consensus 299 K~CPkC~~~IE 309 (594)
|-||.||.+|.
T Consensus 4 kHC~~CG~~Ip 14 (59)
T PF09889_consen 4 KHCPVCGKPIP 14 (59)
T ss_pred CcCCcCCCcCC
Confidence 78999999998
No 219
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=34.39 E-value=24 Score=26.38 Aligned_cols=26 Identities=23% Similarity=0.607 Sum_probs=13.3
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKF 325 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~ 325 (594)
+.||+|+-.+.-..-=+...|. .||+
T Consensus 20 ~~CPrCG~gvfmA~H~dR~~CG-kCgy 45 (51)
T COG1998 20 RFCPRCGPGVFMADHKDRWACG-KCGY 45 (51)
T ss_pred ccCCCCCCcchhhhcCceeEec-cccc
Confidence 7899988533311111135565 4553
No 220
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=34.39 E-value=26 Score=36.01 Aligned_cols=25 Identities=48% Similarity=1.055 Sum_probs=17.7
Q ss_pred CCCCCCCcceeec--CCCCcccccCCCc
Q 007671 299 KPCPRCKRPIEKN--QGCMHMTCTPPCK 324 (594)
Q Consensus 299 K~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (594)
++||.|+.+|+|. +|=.-.+|. .|+
T Consensus 236 ~pC~~Cg~~I~~~~~~gR~ty~Cp-~CQ 262 (269)
T PRK14811 236 QPCPRCGTPIEKIVVGGRGTHFCP-QCQ 262 (269)
T ss_pred CCCCcCCCeeEEEEECCCCcEECC-CCc
Confidence 7999999999963 554445554 454
No 221
>PF04050 Upf2: Up-frameshift suppressor 2 ; InterPro: IPR007193 This entry represents Up-frameshift suppressor 2 (also known as Nonsense-mediated mRNA decay protein 2). Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay [].; PDB: 2WJV_D.
Probab=34.17 E-value=27 Score=33.18 Aligned_cols=12 Identities=8% Similarity=0.235 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHH
Q 007671 73 ADIRQRQEEDIT 84 (594)
Q Consensus 73 ~~i~~~~~~~i~ 84 (594)
+++.+.+.+.+.
T Consensus 63 ~dFeref~kmm~ 74 (170)
T PF04050_consen 63 EDFEREFQKMMA 74 (170)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 455555555444
No 222
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.94 E-value=25 Score=28.83 Aligned_cols=35 Identities=31% Similarity=0.779 Sum_probs=26.2
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeeccccccccCCC
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDHGE 340 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~h~~ 340 (594)
..||.|++.+. |.=+..=-...|-.|.+.|-+.|.
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 57999999888 655423445678899999987664
No 223
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=33.78 E-value=37 Score=24.97 Aligned_cols=33 Identities=30% Similarity=0.615 Sum_probs=22.4
Q ss_pred cccccccccCCCcccccCCC-----cccHhhHHHHHHh
Q 007671 144 CGICFENYPSDRLLAAACGH-----PFCSSCWTGYIST 176 (594)
Q Consensus 144 C~IC~e~~~~~~~v~l~CgH-----~fC~~C~~~yi~~ 176 (594)
|-||++.-..+.+...||+- .....|+..|+..
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 77999987655556667652 4678899999987
No 224
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=33.76 E-value=11 Score=39.14 Aligned_cols=28 Identities=18% Similarity=0.418 Sum_probs=16.6
Q ss_pred CCCCCCCcceeec-CCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKN-QGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~-~GCnhm~C~~~C~~~F 327 (594)
.+||+|+..|-+. -.=|...|. .|+++|
T Consensus 39 ~kc~~C~~~~~~~~l~~~~~vcp-~c~~h~ 67 (296)
T CHL00174 39 VQCENCYGLNYKKFLKSKMNICE-QCGYHL 67 (296)
T ss_pred eECCCccchhhHHHHHHcCCCCC-CCCCCc
Confidence 6777777776533 234456665 566543
No 225
>KOG0579 consensus Ste20-like serine/threonine protein kinase [Signal transduction mechanisms]
Probab=33.56 E-value=8.4e+02 Score=28.57 Aligned_cols=22 Identities=23% Similarity=0.268 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHhHHHHHHHH
Q 007671 455 RQFFEYLQGEAESGLERLHQCA 476 (594)
Q Consensus 455 ~~~fe~~Q~~~e~~~e~L~~~l 476 (594)
+.|+-.+|.+|+..+.++.+.-
T Consensus 926 kdFv~kqqq~le~~lkrm~~~~ 947 (1187)
T KOG0579|consen 926 KDFVMKQQQNLEAMLKRMAEKH 947 (1187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5677778888888877776543
No 226
>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=32.76 E-value=1.4e+02 Score=21.01 Aligned_cols=36 Identities=14% Similarity=0.242 Sum_probs=28.8
Q ss_pred HHHHHHHHHh-CCCHHHHHHHHHhcCCChHHHHHHHh
Q 007671 81 EDITRISTVL-SISKVAASILLRFYNWSVSKVHDEWF 116 (594)
Q Consensus 81 ~~i~~v~~~l-~i~~~~a~~LL~~~~W~~~~l~e~~~ 116 (594)
+.|..+.+++ +++++.....|..+++|++...+...
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 5677777777 57888999999999999999887654
No 227
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=32.73 E-value=32 Score=39.89 Aligned_cols=53 Identities=13% Similarity=0.162 Sum_probs=33.4
Q ss_pred ccccccccccccC--CCccccc---CCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 141 EMTCGICFENYPS--DRLLAAA---CGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 141 ~~~C~IC~e~~~~--~~~v~l~---CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
..+|.||.-.+.. +-.-.++ |+|.+|..||..+....+.. .+.|-++.|..-|
T Consensus 96 s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~-----~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 96 SDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEES-----EKHTAHYFCEECV 153 (1134)
T ss_pred ccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhcc-----ccccccccHHHHh
Confidence 4556666655532 1123344 99999999999998877654 3455555675543
No 228
>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=32.68 E-value=6e+02 Score=26.59 Aligned_cols=21 Identities=19% Similarity=0.368 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHcccccccc
Q 007671 507 TRNYFENLVRALENGLSDVDT 527 (594)
Q Consensus 507 ~~~~~~~l~~~le~gl~~~~~ 527 (594)
++..|.--++.||+||-...+
T Consensus 144 LkeK~klRLK~LEe~Lk~~~s 164 (351)
T PF07058_consen 144 LKEKLKLRLKVLEEGLKGSSS 164 (351)
T ss_pred HHHHHHHHHHHHHhhccCCCC
Confidence 456677788999999988755
No 229
>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=32.67 E-value=5.9e+02 Score=28.83 Aligned_cols=15 Identities=27% Similarity=0.461 Sum_probs=7.0
Q ss_pred HHHHHHHHHcccccc
Q 007671 511 FENLVRALENGLSDV 525 (594)
Q Consensus 511 ~~~l~~~le~gl~~~ 525 (594)
....+++|.+||.-+
T Consensus 667 ~~~~~~~L~~~iET~ 681 (741)
T KOG4460|consen 667 IPDQLRHLGNAIETV 681 (741)
T ss_pred hHHHHHHHHHHHHHH
Confidence 334444455555444
No 230
>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=32.44 E-value=35 Score=26.86 Aligned_cols=35 Identities=20% Similarity=0.399 Sum_probs=18.9
Q ss_pred CCCCCCCCcceeecCCCCcccccCCCcceeeecccccc
Q 007671 298 SKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQW 335 (594)
Q Consensus 298 tK~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~ 335 (594)
...|+.|++..- ---..-.|+ .||.-||-.|....
T Consensus 9 ~~~C~~C~~~F~--~~~rrhhCr-~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 9 ASNCMICGKKFS--LFRRRHHCR-NCGRVVCSSCSSQR 43 (69)
T ss_dssp -SB-TTT--B-B--SSS-EEE-T-TT--EEECCCS-EE
T ss_pred CCcCcCcCCcCC--CceeeEccC-CCCCEECCchhCCE
Confidence 488999999884 223446799 89999999997643
No 231
>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=32.32 E-value=37 Score=25.34 Aligned_cols=46 Identities=17% Similarity=0.523 Sum_probs=23.4
Q ss_pred cccccccccccCCCc-ccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCC
Q 007671 142 MTCGICFENYPSDRL-LAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGA 196 (594)
Q Consensus 142 ~~C~IC~e~~~~~~~-v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~ 196 (594)
+.|+|.+..+ .-| ....|.|.-|.+ +..|+......+ ..+|| .|+.
T Consensus 3 L~CPls~~~i--~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~----~W~CP--iC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRI--RIPVRGKNCKHLQCFD-LESFLESNQRTP----KWKCP--ICNK 49 (50)
T ss_dssp SB-TTTSSB---SSEEEETT--SS--EE-HHHHHHHHHHS-------B-T--TT--
T ss_pred eeCCCCCCEE--EeCccCCcCcccceEC-HHHHHHHhhccC----CeECc--CCcC
Confidence 5688888765 334 455799998754 677887776554 48999 6864
No 232
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=32.21 E-value=40 Score=23.01 Aligned_cols=11 Identities=27% Similarity=0.561 Sum_probs=9.1
Q ss_pred CCCCCCCccee
Q 007671 299 KPCPRCKRPIE 309 (594)
Q Consensus 299 K~CPkC~~~IE 309 (594)
+.|+.|+....
T Consensus 4 ~~C~~C~~~~i 14 (33)
T PF08792_consen 4 KKCSKCGGNGI 14 (33)
T ss_pred eEcCCCCCCeE
Confidence 78999988776
No 233
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=31.83 E-value=31 Score=30.60 Aligned_cols=28 Identities=21% Similarity=0.645 Sum_probs=18.8
Q ss_pred CCCCCCCcceee--cCCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEK--NQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK--~~GCnhm~C~~~C~~~F 327 (594)
+.||+|+.++.- .++=+-+.|+ .||+.+
T Consensus 3 ~FCp~Cgsll~p~~~~~~~~l~C~-kCgye~ 32 (113)
T COG1594 3 RFCPKCGSLLYPKKDDEGGKLVCR-KCGYEE 32 (113)
T ss_pred cccCCccCeeEEeEcCCCcEEECC-CCCcch
Confidence 789999988874 1122278888 676654
No 234
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=31.76 E-value=17 Score=29.71 Aligned_cols=48 Identities=29% Similarity=0.686 Sum_probs=33.5
Q ss_pred ccccccccccCC---------C-c-ccccCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 143 TCGICFENYPSD---------R-L-LAAACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 143 ~C~IC~e~~~~~---------~-~-v~l~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
+|+||.-.|... + | +---|.|.|-.-|+..++.+.-+++ .|| -|+..+
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~------~CP--mcRq~~ 80 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQG------QCP--MCRQTW 80 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccc------cCC--cchhee
Confidence 788887665432 1 2 2224999999999999998776544 588 687654
No 235
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=31.70 E-value=30 Score=35.52 Aligned_cols=25 Identities=44% Similarity=0.995 Sum_probs=18.2
Q ss_pred CCCCCCCcceeec--CCCCcccccCCCc
Q 007671 299 KPCPRCKRPIEKN--QGCMHMTCTPPCK 324 (594)
Q Consensus 299 K~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (594)
++||.|+.+|+|. +|=.-.+|. .|+
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 7999999999963 565555565 554
No 236
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=31.64 E-value=37 Score=24.77 Aligned_cols=26 Identities=23% Similarity=0.577 Sum_probs=16.0
Q ss_pred CCCCCCcceeecCCCCcccccCCCccee
Q 007671 300 PCPRCKRPIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (594)
.|..|+..++...+ .-+.|. .||+..
T Consensus 4 ~C~~Cg~~~~~~~~-~~irC~-~CG~rI 29 (44)
T smart00659 4 ICGECGRENEIKSK-DVVRCR-ECGYRI 29 (44)
T ss_pred ECCCCCCEeecCCC-CceECC-CCCceE
Confidence 57777777765533 447776 676543
No 237
>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=31.55 E-value=27 Score=22.88 Aligned_cols=24 Identities=38% Similarity=0.819 Sum_probs=12.3
Q ss_pred CCCCCCCcceeec--CCCCcccccCCC
Q 007671 299 KPCPRCKRPIEKN--QGCMHMTCTPPC 323 (594)
Q Consensus 299 K~CPkC~~~IEK~--~GCnhm~C~~~C 323 (594)
++||.|+..|++. +|=+...|. .|
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 6899999999753 344444554 44
No 238
>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=31.42 E-value=37 Score=23.02 Aligned_cols=26 Identities=23% Similarity=0.639 Sum_probs=14.2
Q ss_pred CCCCCCcceeecCCCCcccccCCCccee
Q 007671 300 PCPRCKRPIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (594)
.|..|+..++-..+ ..+.|. .||+.+
T Consensus 2 ~C~~Cg~~~~~~~~-~~irC~-~CG~RI 27 (32)
T PF03604_consen 2 ICGECGAEVELKPG-DPIRCP-ECGHRI 27 (32)
T ss_dssp BESSSSSSE-BSTS-STSSBS-SSS-SE
T ss_pred CCCcCCCeeEcCCC-CcEECC-cCCCeE
Confidence 36677777664333 446776 677643
No 239
>COG4530 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.40 E-value=51 Score=28.84 Aligned_cols=13 Identities=31% Similarity=0.657 Sum_probs=5.9
Q ss_pred ccccccCCCCCCC
Q 007671 42 VADYEFIDNDSDD 54 (594)
Q Consensus 42 ~~dy~f~~~~~d~ 54 (594)
++|.-|.+++.++
T Consensus 100 ddDdtFLedeedd 112 (129)
T COG4530 100 DDDDTFLEDEEDD 112 (129)
T ss_pred CCccccccccccc
Confidence 3344566543333
No 240
>PLN02400 cellulose synthase
Probab=31.38 E-value=41 Score=40.86 Aligned_cols=57 Identities=25% Similarity=0.662 Sum_probs=37.2
Q ss_pred cCCCCCCCCeeeeecCCCCceeec-cCCcccccccc--cccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCcce
Q 007671 232 WCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNVK--EAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPI 308 (594)
Q Consensus 232 ~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~--~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~I 308 (594)
-|-- |+--|-.. ..+...|-| .|+.-.|..|. +...+ ++-||+|+...
T Consensus 38 iCqI--CGD~VG~t-~dGe~FVAC~eCaFPVCRpCYEYERkeG--------------------------nq~CPQCkTrY 88 (1085)
T PLN02400 38 ICQI--CGDDVGVT-ETGDVFVACNECAFPVCRPCYEYERKDG--------------------------TQCCPQCKTRY 88 (1085)
T ss_pred eeee--cccccCcC-CCCCEEEEEccCCCccccchhheecccC--------------------------CccCcccCCcc
Confidence 4543 66555443 345678899 99999999993 32222 16788888877
Q ss_pred eecCCCCcc
Q 007671 309 EKNQGCMHM 317 (594)
Q Consensus 309 EK~~GCnhm 317 (594)
.+-.||..+
T Consensus 89 kR~KgsprV 97 (1085)
T PLN02400 89 RRHKGSPRV 97 (1085)
T ss_pred ccccCCCCC
Confidence 766666553
No 241
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=31.31 E-value=57 Score=25.83 Aligned_cols=33 Identities=30% Similarity=0.493 Sum_probs=19.4
Q ss_pred CcccCCCCCCCCeeeeecCCCCceeec-cCCcccc
Q 007671 229 KTKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFC 262 (594)
Q Consensus 229 ~~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC 262 (594)
.++.||.-+|..+.... ...-..+.| .|+...+
T Consensus 5 ~lKPCPFCG~~~~~v~~-~~g~~~v~C~~CgA~~~ 38 (64)
T PRK09710 5 NVKPCPFCGCPSVTVKA-ISGYYRAKCNGCESRTG 38 (64)
T ss_pred cccCCCCCCCceeEEEe-cCceEEEEcCCCCcCcc
Confidence 57889974554433332 233455788 8888644
No 242
>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=31.14 E-value=32 Score=35.33 Aligned_cols=25 Identities=44% Similarity=0.938 Sum_probs=18.1
Q ss_pred CCCCCCCcceeec--CCCCcccccCCCc
Q 007671 299 KPCPRCKRPIEKN--QGCMHMTCTPPCK 324 (594)
Q Consensus 299 K~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (594)
++||.|+.+|+|. +|=.-.+|. .|+
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 665555565 553
No 243
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=31.13 E-value=4e+02 Score=24.11 Aligned_cols=18 Identities=17% Similarity=0.530 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHccccccc
Q 007671 509 NYFENLVRALENGLSDVD 526 (594)
Q Consensus 509 ~~~~~l~~~le~gl~~~~ 526 (594)
..+..+|..||.-|..+.
T Consensus 106 ~~v~~~V~~Le~ki~~ie 123 (126)
T PF07889_consen 106 DSVQQMVEGLEGKIDEIE 123 (126)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 446777777877776664
No 244
>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=31.01 E-value=32 Score=30.07 Aligned_cols=25 Identities=28% Similarity=0.978 Sum_probs=14.4
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKF 325 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~ 325 (594)
-+||+|+...-=..|=+ +.|. .|+|
T Consensus 3 p~CP~C~seytY~dg~~-~iCp-eC~~ 27 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQ-LICP-SCLY 27 (109)
T ss_pred CcCCcCCCcceEecCCe-eECc-cccc
Confidence 57999987655444432 4454 3433
No 245
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=30.79 E-value=89 Score=27.05 Aligned_cols=54 Identities=17% Similarity=0.258 Sum_probs=31.6
Q ss_pred CCCcccCCCCCCCC-eeeeecCCCCceeec-cCCcccccccccccCCCCchhHHHHHHhh
Q 007671 227 NRKTKWCPAPGCDY-AVDFVVGSGNYDVTC-RCSYSFCWNVKEAHRPVDCDTVAKWVLKN 284 (594)
Q Consensus 227 ~~~~~~CP~p~C~~-~i~~~~~~~~~~v~C-~C~~~fC~~C~~~H~p~~C~~~~~~~~~~ 284 (594)
.+.+..||+ |+. .+......+...+.| .||+.+=. .-.+...+-+-+.+|+...
T Consensus 18 lpt~f~CP~--Cge~~v~v~~~k~~~h~~C~~CG~y~~~--~V~~l~epIDVY~~wiD~~ 73 (99)
T PRK14892 18 LPKIFECPR--CGKVSISVKIKKNIAIITCGNCGLYTEF--EVPSVYDEVDVYNKFIDLY 73 (99)
T ss_pred CCcEeECCC--CCCeEeeeecCCCcceEECCCCCCccCE--ECCccccchhhHHHHHHHH
Confidence 356778995 883 332222334456789 89887433 2223333347788998765
No 246
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.50 E-value=16 Score=39.56 Aligned_cols=32 Identities=28% Similarity=0.685 Sum_probs=23.5
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeecccccccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSD 337 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~ 337 (594)
-.||-|...+. +.+. . .|+|.||..|...|-.
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 68999987764 3332 4 5999999999887653
No 247
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=30.44 E-value=37 Score=40.98 Aligned_cols=55 Identities=25% Similarity=0.657 Sum_probs=34.5
Q ss_pred CCCeeeeecCCCCceeec-cCCcccccccccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCcceeecCCCCc
Q 007671 238 CDYAVDFVVGSGNYDVTC-RCSYSFCWNVKEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEKNQGCMH 316 (594)
Q Consensus 238 C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~IEK~~GCnh 316 (594)
|+--|... ..+.+.|-| .|+...|..|.+.-+. ...+-||+|+.+..+-.|++.
T Consensus 21 CGd~vg~~-~~Ge~FVAC~eC~fpvCr~cyeye~~------------------------~g~~~cp~c~t~y~~~~~~~~ 75 (1044)
T PLN02915 21 CGDEVGVK-EDGQPFVACHVCGFPVCKPCYEYERS------------------------EGNQCCPQCNTRYKRHKGCPR 75 (1044)
T ss_pred cccccCcC-CCCCEEEEeccCCCccccchhhhhhh------------------------cCCccCCccCCchhhhcCCCC
Confidence 55444433 345677899 9999999999322110 012678888887776555554
Q ss_pred c
Q 007671 317 M 317 (594)
Q Consensus 317 m 317 (594)
+
T Consensus 76 ~ 76 (1044)
T PLN02915 76 V 76 (1044)
T ss_pred c
Confidence 4
No 248
>COG5665 NOT5 CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=30.36 E-value=7e+02 Score=26.86 Aligned_cols=15 Identities=20% Similarity=0.696 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHhhH
Q 007671 374 LERYTHYYERWATNQ 388 (594)
Q Consensus 374 l~ry~hy~~r~~~h~ 388 (594)
++-|-.-|+.|.+..
T Consensus 11 i~~fd~iyek~~~s~ 25 (548)
T COG5665 11 IEDFDDIYEKFQSTD 25 (548)
T ss_pred hhhHHHHHHHHhccC
Confidence 444555566554443
No 249
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=30.27 E-value=33 Score=35.26 Aligned_cols=26 Identities=35% Similarity=0.879 Sum_probs=18.2
Q ss_pred CCCCCCCCcceeec--CCCCcccccCCCc
Q 007671 298 SKPCPRCKRPIEKN--QGCMHMTCTPPCK 324 (594)
Q Consensus 298 tK~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (594)
.++||+|+.+|++. +|=.-.+|. .|+
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 37999999999963 564445554 454
No 250
>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=29.95 E-value=6.3e+02 Score=28.80 Aligned_cols=25 Identities=28% Similarity=0.341 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHH-hhhhhhhc
Q 007671 421 KFITEAWLQIVECRRVL-KWTYAYGY 445 (594)
Q Consensus 421 ~~l~~a~~~l~~~r~~L-~~sy~~~y 445 (594)
..+.+....+.+.|+.| ..++.||.
T Consensus 136 ~~i~~l~~~y~~lrk~ll~~~~~~G~ 161 (560)
T PF06160_consen 136 EEIEELKEKYRELRKELLAHSFSYGP 161 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhch
Confidence 44445555566665544 34444443
No 251
>PF14149 YhfH: YhfH-like protein
Probab=29.87 E-value=5 Score=28.06 Aligned_cols=25 Identities=32% Similarity=0.877 Sum_probs=20.1
Q ss_pred CCCCCCCCcceeecCCCCcccccCCC
Q 007671 298 SKPCPRCKRPIEKNQGCMHMTCTPPC 323 (594)
Q Consensus 298 tK~CPkC~~~IEK~~GCnhm~C~~~C 323 (594)
.|.||.||..|+--.-|..+.|. .|
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 59999999999977777777776 44
No 252
>PLN02436 cellulose synthase A
Probab=29.71 E-value=41 Score=40.72 Aligned_cols=59 Identities=24% Similarity=0.631 Sum_probs=37.5
Q ss_pred cCCCCCCCCeeeeecCCCCceeec-cCCcccccccccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCcceee
Q 007671 232 WCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNVKEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRPIEK 310 (594)
Q Consensus 232 ~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~IEK 310 (594)
-|.- |+--|... ..+.+.|-| .|+...|..|.+.-+ +...+.||+|+....+
T Consensus 38 iCqI--CGD~Vg~t-~dGe~FVACn~C~fpvCr~Cyeyer------------------------~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 38 TCQI--CGDEIELT-VDGEPFVACNECAFPVCRPCYEYER------------------------REGNQACPQCKTRYKR 90 (1094)
T ss_pred cccc--cccccCcC-CCCCEEEeeccCCCccccchhhhhh------------------------hcCCccCcccCCchhh
Confidence 4553 66555433 345677899 899999999932211 0012778888888776
Q ss_pred cCCCCcc
Q 007671 311 NQGCMHM 317 (594)
Q Consensus 311 ~~GCnhm 317 (594)
-.|++.+
T Consensus 91 ~kgs~~~ 97 (1094)
T PLN02436 91 IKGSPRV 97 (1094)
T ss_pred ccCCCCc
Confidence 6666654
No 253
>PRK10445 endonuclease VIII; Provisional
Probab=29.67 E-value=35 Score=34.85 Aligned_cols=25 Identities=32% Similarity=0.673 Sum_probs=18.5
Q ss_pred CCCCCCCcceeec--CCCCcccccCCCc
Q 007671 299 KPCPRCKRPIEKN--QGCMHMTCTPPCK 324 (594)
Q Consensus 299 K~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (594)
++||.|+.+|++. +|=.-.+|. .|+
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 8999999999963 665556665 554
No 254
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=29.62 E-value=34 Score=35.30 Aligned_cols=25 Identities=40% Similarity=0.943 Sum_probs=18.8
Q ss_pred CCCCCCCcceeec--CCCCcccccCCCc
Q 007671 299 KPCPRCKRPIEKN--QGCMHMTCTPPCK 324 (594)
Q Consensus 299 K~CPkC~~~IEK~--~GCnhm~C~~~C~ 324 (594)
++||.|+.+|+|. +|=.-.+|. .|+
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 7999999999863 665556665 564
No 255
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.61 E-value=23 Score=39.15 Aligned_cols=28 Identities=29% Similarity=0.720 Sum_probs=18.4
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeecccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLG 333 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~ 333 (594)
-.||-|-.+-. .-+.-.|||-|||-|+-
T Consensus 187 ~~CPICL~~~~-------~p~~t~CGHiFC~~CiL 214 (513)
T KOG2164|consen 187 MQCPICLEPPS-------VPVRTNCGHIFCGPCIL 214 (513)
T ss_pred CcCCcccCCCC-------cccccccCceeeHHHHH
Confidence 78999987655 33322477777777754
No 256
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=29.52 E-value=22 Score=35.46 Aligned_cols=56 Identities=30% Similarity=0.684 Sum_probs=36.6
Q ss_pred ccCCCCCCCCeeeeecCCCCceeec-cCCccccccc--ccccCCCCchhHHHHHHhhhhhHHhHHHHHhcCCCCCCCCcc
Q 007671 231 KWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWNV--KEAHRPVDCDTVAKWVLKNSAESENMNWILANSKPCPRCKRP 307 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~C--~~~H~p~~C~~~~~~~~~~~~~~~~~~wi~~ntK~CPkC~~~ 307 (594)
+.|..+.|... .-..+.| .|+..||..| .+.| .|..... +....+.||.|.+|
T Consensus 9 kHCs~~~Ckql-------DFLPf~Cd~C~~~FC~eHrsye~H---~Cp~~~~--------------~~~~v~icp~cs~p 64 (250)
T KOG3183|consen 9 KHCSVPYCKQL-------DFLPFKCDGCSGIFCLEHRSYESH---HCPKGLR--------------IDVQVPICPLCSKP 64 (250)
T ss_pred cccCcchhhhc-------cccceeeCCccchhhhccchHhhc---CCCcccc--------------cceeecccCCCCCC
Confidence 56777777642 2245799 9999999999 6677 3442211 11123789999888
Q ss_pred eee
Q 007671 308 IEK 310 (594)
Q Consensus 308 IEK 310 (594)
|.-
T Consensus 65 v~~ 67 (250)
T KOG3183|consen 65 VPT 67 (250)
T ss_pred CCC
Confidence 873
No 257
>PHA02664 hypothetical protein; Provisional
Probab=29.40 E-value=91 Score=32.44 Aligned_cols=14 Identities=36% Similarity=0.306 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHh
Q 007671 77 QRQEEDITRISTVL 90 (594)
Q Consensus 77 ~~~~~~i~~v~~~l 90 (594)
+.+++..++-..+|
T Consensus 512 q~ieee~~ee~~vl 525 (534)
T PHA02664 512 QAIEEEEEEERAVL 525 (534)
T ss_pred hhhhHHHHHHHHHH
Confidence 34444444444444
No 258
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.40 E-value=20 Score=36.08 Aligned_cols=25 Identities=20% Similarity=0.533 Sum_probs=20.2
Q ss_pred CCCCCCcceeecCCCCcccccCCCcceeeeccc
Q 007671 300 PCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCL 332 (594)
Q Consensus 300 ~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~ 332 (594)
.|+.+... .+++|. .|+...|+.|.
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 56666665 459999 89999999997
No 259
>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=29.27 E-value=47 Score=39.87 Aligned_cols=8 Identities=13% Similarity=0.517 Sum_probs=3.2
Q ss_pred HHHHHHHH
Q 007671 511 FENLVRAL 518 (594)
Q Consensus 511 ~~~l~~~l 518 (594)
..+|+..|
T Consensus 826 ~k~i~~~L 833 (840)
T PF04147_consen 826 MKRIMSSL 833 (840)
T ss_pred HHHHHHHH
Confidence 33444443
No 260
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=29.25 E-value=47 Score=34.16 Aligned_cols=36 Identities=22% Similarity=0.569 Sum_probs=27.0
Q ss_pred hHHHHHhcCCCCCCCCcceeecCCCCcccccCCCccee
Q 007671 290 NMNWILANSKPCPRCKRPIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 290 ~~~wi~~ntK~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (594)
-..|...+ |.||+|+.+.+-..|=-.+.|. .|++.+
T Consensus 104 l~~w~~~~-RFCg~CG~~~~~~~~g~~~~C~-~cg~~~ 139 (279)
T COG2816 104 LLEWYRSH-RFCGRCGTKTYPREGGWARVCP-KCGHEH 139 (279)
T ss_pred HHHHHhhC-cCCCCCCCcCccccCceeeeCC-CCCCcc
Confidence 34565444 8999999999988777778887 787665
No 261
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=28.76 E-value=2.6e+02 Score=25.85 Aligned_cols=34 Identities=15% Similarity=0.383 Sum_probs=25.2
Q ss_pred hcccCccchhhHHHHHHHHHHHHHhHHHHHHHHH
Q 007671 444 GYYLPDHEHAKRQFFEYLQGEAESGLERLHQCAE 477 (594)
Q Consensus 444 ~yy~~~~~~~~~~~fe~~Q~~~e~~~e~L~~~le 477 (594)
|||........+.+|...-.-+.+.+|.+...+.
T Consensus 92 GYyVEK~~e~akdyfkRKve~l~kq~e~i~~i~~ 125 (153)
T KOG3048|consen 92 GYYVEKDAEDAKDYFKRKVEYLTKQIEQIEGILK 125 (153)
T ss_pred ceEEeechHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8999777777788888777777777777765543
No 262
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=28.66 E-value=51 Score=27.22 Aligned_cols=17 Identities=29% Similarity=0.804 Sum_probs=15.8
Q ss_pred cCCCcccHhhHHHHHHh
Q 007671 160 ACGHPFCSSCWTGYIST 176 (594)
Q Consensus 160 ~CgH~fC~~C~~~yi~~ 176 (594)
-|.|.|...|+..++.+
T Consensus 53 ~CnHaFH~HCI~rWL~T 69 (88)
T COG5194 53 VCNHAFHDHCIYRWLDT 69 (88)
T ss_pred ecchHHHHHHHHHHHhh
Confidence 49999999999999987
No 263
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=28.38 E-value=33 Score=42.12 Aligned_cols=31 Identities=23% Similarity=0.593 Sum_probs=23.7
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcce-----eeeccccccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFE-----FCWLCLGQWS 336 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~-----FCw~C~~~~~ 336 (594)
..||+|+..+-. -+|. .||.. +|-.|+....
T Consensus 668 rkCPkCG~~t~~------~fCP-~CGs~te~vy~CPsCGaev~ 703 (1337)
T PRK14714 668 RRCPSCGTETYE------NRCP-DCGTHTEPVYVCPDCGAEVP 703 (1337)
T ss_pred EECCCCCCcccc------ccCc-ccCCcCCCceeCccCCCccC
Confidence 799999997753 2887 79866 4888887543
No 264
>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=28.33 E-value=63 Score=23.10 Aligned_cols=12 Identities=33% Similarity=1.146 Sum_probs=8.7
Q ss_pred CCCCCCCc-ceee
Q 007671 299 KPCPRCKR-PIEK 310 (594)
Q Consensus 299 K~CPkC~~-~IEK 310 (594)
..||.|+. .++|
T Consensus 27 ~~CP~Cg~~~~~r 39 (42)
T PF09723_consen 27 VPCPECGSTEVRR 39 (42)
T ss_pred CcCCCCCCCceEE
Confidence 67888887 6554
No 265
>cd07667 BAR_SNX30 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 30. 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. The specific function of SNX30 is still unknown. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=27.90 E-value=6.5e+02 Score=25.46 Aligned_cols=100 Identities=14% Similarity=0.230 Sum_probs=51.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHhhhhhhhc-ccCccchhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhcCCCCCcHHHH
Q 007671 418 SQLKFITEAWLQIVECRRVLKWTYAYGY-YLPDHEHAKRQFFEYLQGEAESGLERLHQCAEKELQIYLNADGPSKDFNEF 496 (594)
Q Consensus 418 ~~~~~l~~a~~~l~~~r~~L~~sy~~~y-y~~~~~~~~~~~fe~~Q~~~e~~~e~L~~~le~~~~~~~~~~~~~~~~~~~ 496 (594)
.++....+|++.+.+-|......|.-.- |+. -...++.-++..-+.++..+|...+.+.+|+..+-. ..-.++
T Consensus 139 ke~~~Y~~slk~vlK~RdqkQ~d~E~l~E~l~-~rre~~~kLe~~ie~~~~~ve~f~~~~~~E~~~Fe~-----~K~~e~ 212 (240)
T cd07667 139 REYILYSESMKNVLKKRDQVQAEYEAKLEAVA-LRKEERPKVPTDVEKCQDRVECFNADLKADMERWQN-----NKRQDF 212 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHH
Confidence 4556667777777777777766554311 110 000111111222222222233333333333333321 112367
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHcccc
Q 007671 497 RTKLAGLTSVTRNYFENLVRALENGLS 523 (594)
Q Consensus 497 ~~~l~~l~~~~~~~~~~l~~~le~gl~ 523 (594)
+..+..+...--.|+++++.+.|.-|+
T Consensus 213 k~~l~~~Ad~~i~fy~~~~~~We~~l~ 239 (240)
T cd07667 213 RQLLMGMADKNIQYYEKCLTAWESIIP 239 (240)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 777877777777899999999887654
No 266
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=27.72 E-value=50 Score=40.70 Aligned_cols=11 Identities=36% Similarity=1.023 Sum_probs=6.7
Q ss_pred CCCCCCCccee
Q 007671 299 KPCPRCKRPIE 309 (594)
Q Consensus 299 K~CPkC~~~IE 309 (594)
..||.|+.++.
T Consensus 710 ~~CP~CGtplv 720 (1337)
T PRK14714 710 VECPRCDVELT 720 (1337)
T ss_pred ccCCCCCCccc
Confidence 45666666554
No 267
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=27.65 E-value=57 Score=28.90 Aligned_cols=30 Identities=20% Similarity=0.586 Sum_probs=20.6
Q ss_pred cccCCCCCCCCeeeeecCCCCceeec-cCCccc
Q 007671 230 TKWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSF 261 (594)
Q Consensus 230 ~~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~f 261 (594)
+++|| .|+.++............| .||+.+
T Consensus 2 m~FCp--~Cgsll~p~~~~~~~~l~C~kCgye~ 32 (113)
T COG1594 2 MRFCP--KCGSLLYPKKDDEGGKLVCRKCGYEE 32 (113)
T ss_pred ccccC--CccCeeEEeEcCCCcEEECCCCCcch
Confidence 56899 5999887754333345688 788763
No 268
>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=27.41 E-value=56 Score=29.62 Aligned_cols=23 Identities=39% Similarity=1.068 Sum_probs=12.0
Q ss_pred CCCCC--CCcceeecCCCCcccccCCCccee
Q 007671 299 KPCPR--CKRPIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPk--C~~~IEK~~GCnhm~C~~~C~~~F 327 (594)
|+||+ |.-+++ ++-|+..||+-.
T Consensus 83 k~Cpn~~C~g~L~------~~pCrGh~GYPV 107 (143)
T PF03615_consen 83 KPCPNRNCKGRLE------LIPCRGHCGYPV 107 (143)
T ss_dssp SB-SS--S--BEE------EE---TBTTB--
T ss_pred CCCCccccCCcee------EEeccCcCCCce
Confidence 99999 999998 488985666544
No 269
>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=27.26 E-value=69 Score=28.41 Aligned_cols=36 Identities=25% Similarity=0.534 Sum_probs=27.1
Q ss_pred cCCCCCCCCcceeecCCCCcccccCCCcceeeeccccc
Q 007671 297 NSKPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQ 334 (594)
Q Consensus 297 ntK~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~ 334 (594)
+.+.|..|+.+.-...+.. ..|. .|++.+|-.|+..
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 4578999998876555555 7898 8999999999865
No 270
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=27.22 E-value=1.2e+02 Score=26.32 Aligned_cols=25 Identities=12% Similarity=0.239 Sum_probs=14.9
Q ss_pred hhHHHHHHHHHHHHHhHHHHHHHHH
Q 007671 453 AKRQFFEYLQGEAESGLERLHQCAE 477 (594)
Q Consensus 453 ~~~~~fe~~Q~~~e~~~e~L~~~le 477 (594)
..++.++...+++|+....|...|+
T Consensus 75 e~k~~~~q~rK~~Ek~Aa~LT~~i~ 99 (101)
T PF09943_consen 75 EVKKVLRQVRKDLEKNAAKLTRKIE 99 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455566666666666666665544
No 271
>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=26.75 E-value=44 Score=30.00 Aligned_cols=45 Identities=22% Similarity=0.346 Sum_probs=29.3
Q ss_pred hhhhhhhcccCccchhhHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 007671 438 KWTYAYGYYLPDHEHAKRQFFEYLQGEAESGLERLHQCAEKELQI 482 (594)
Q Consensus 438 ~~sy~~~yy~~~~~~~~~~~fe~~Q~~~e~~~e~L~~~le~~~~~ 482 (594)
.|.|-+|.|-...+-....|=...|.+++..++..|+.|..-|++
T Consensus 66 ~y~Y~~Glydk~G~W~~~~i~~~~~~~v~~Tl~~Fh~kL~~~L~~ 110 (125)
T PF07417_consen 66 EYRYQFGLYDKEGNWQAEKIKKEVQEEVERTLRDFHQKLVELLEE 110 (125)
T ss_dssp EEEEEEEEE-TTS-EES----HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEEeeccccCCCCeeecCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777888755543344444778888999998888888777665
No 272
>PF12773 DZR: Double zinc ribbon
Probab=26.32 E-value=47 Score=24.34 Aligned_cols=24 Identities=33% Similarity=0.646 Sum_probs=20.3
Q ss_pred CCCccccCCCCccCCCcccccccc
Q 007671 567 DSSHWYCDQCTYANVNSATACAMC 590 (594)
Q Consensus 567 ~~~~~~~~~~~~~~~~~~~~c~~c 590 (594)
....++|..|...|...+++|.-|
T Consensus 26 ~~~~~~C~~Cg~~~~~~~~fC~~C 49 (50)
T PF12773_consen 26 DQSKKICPNCGAENPPNAKFCPNC 49 (50)
T ss_pred cCCCCCCcCCcCCCcCCcCccCcc
Confidence 344589999999999999999887
No 273
>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=26.19 E-value=1.1e+03 Score=27.66 Aligned_cols=27 Identities=7% Similarity=0.085 Sum_probs=12.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhhhhc
Q 007671 419 QLKFITEAWLQIVECRRVLKWTYAYGY 445 (594)
Q Consensus 419 ~~~~l~~a~~~l~~~r~~L~~sy~~~y 445 (594)
.+++|...++.|.+=----+|--+|.|
T Consensus 250 k~~~L~~e~~~LK~ELiedRW~~vFr~ 276 (683)
T PF08580_consen 250 KWKKLEKEAESLKKELIEDRWNIVFRN 276 (683)
T ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence 345555555554433333345444444
No 274
>COG4640 Predicted membrane protein [Function unknown]
Probab=26.17 E-value=4.5e+02 Score=28.49 Aligned_cols=15 Identities=27% Similarity=0.355 Sum_probs=8.8
Q ss_pred HHHHHHHHHcccccc
Q 007671 511 FENLVRALENGLSDV 525 (594)
Q Consensus 511 ~~~l~~~le~gl~~~ 525 (594)
-.+|+..|-..-..|
T Consensus 129 kk~lf~eLndead~~ 143 (465)
T COG4640 129 KKNLFHELNDEADSV 143 (465)
T ss_pred hhhHHHHHhhhhhhh
Confidence 356666666555555
No 275
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=26.07 E-value=39 Score=26.12 Aligned_cols=22 Identities=32% Similarity=0.807 Sum_probs=15.1
Q ss_pred cCCCCCCCCcceeecCCCCcccccCCCc
Q 007671 297 NSKPCPRCKRPIEKNQGCMHMTCTPPCK 324 (594)
Q Consensus 297 ntK~CPkC~~~IEK~~GCnhm~C~~~C~ 324 (594)
+.-.||+|+.+.. .|-.|. .||
T Consensus 26 ~l~~C~~CG~~~~-----~H~vC~-~CG 47 (57)
T PRK12286 26 GLVECPNCGEPKL-----PHRVCP-SCG 47 (57)
T ss_pred cceECCCCCCccC-----CeEECC-CCC
Confidence 3467999999888 355564 454
No 276
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=25.29 E-value=89 Score=32.99 Aligned_cols=9 Identities=33% Similarity=0.582 Sum_probs=3.8
Q ss_pred EeCHHHHHH
Q 007671 69 VLTEADIRQ 77 (594)
Q Consensus 69 vl~~~~i~~ 77 (594)
|||++||..
T Consensus 189 ILT~eDF~k 197 (324)
T PF05285_consen 189 ILTPEDFAK 197 (324)
T ss_pred CCCHHHHHH
Confidence 344444433
No 277
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 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 motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=25.06 E-value=56 Score=23.36 Aligned_cols=8 Identities=38% Similarity=1.182 Sum_probs=5.9
Q ss_pred CCCCCCcc
Q 007671 300 PCPRCKRP 307 (594)
Q Consensus 300 ~CPkC~~~ 307 (594)
.||.|+..
T Consensus 2 ~Cp~Cg~~ 9 (43)
T PF08271_consen 2 KCPNCGSK 9 (43)
T ss_dssp SBTTTSSS
T ss_pred CCcCCcCC
Confidence 58888764
No 278
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=24.92 E-value=7.8e+02 Score=27.52 Aligned_cols=134 Identities=19% Similarity=0.173 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhhcCCCc--hhHHHHHHHHHHHHHHHHHHhh
Q 007671 362 ESEKRREMAKNSLERYTHYYERWATNQSSRQKALADLQQMQTVHLEKLSDVQCQPE--SQLKFITEAWLQIVECRRVLKW 439 (594)
Q Consensus 362 ~~e~~~~~~~~~l~ry~hy~~r~~~h~~s~~~~~~~l~~~~~~~~~~l~~~~~~~~--~~~~~l~~a~~~l~~~r~~L~~ 439 (594)
....+-+++|+.+.+--|-.-|-+.-+.-+++--..|..-+++...++..+..... .++++....+..+.+... -.-
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 hhhhhcccCccchhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHHHHHHHHHHHH
Q 007671 440 TYAYGYYLPDHEHAKRQFFEYLQGEAESGLERLHQCAEKELQIYLNADGPSKDFNEFRTKLAGLTSVTRNYFE 512 (594)
Q Consensus 440 sy~~~yy~~~~~~~~~~~fe~~Q~~~e~~~e~L~~~le~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~ 512 (594)
.-.-.||+ +.....++.|.++.+. ..+.+|...|..+++ ++++.|+.-....+++|+
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 279
>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=24.87 E-value=42 Score=33.43 Aligned_cols=54 Identities=20% Similarity=0.321 Sum_probs=34.3
Q ss_pred cccCCCcCCCcc-chhHHhhccChHHHHHHHHHHHHHHhhcCCCcccCCCCCCCCeeee
Q 007671 187 LRCPDPSCGAAV-GQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVDF 244 (594)
Q Consensus 187 i~CP~~~C~~~v-~~~~i~~ll~~e~~eky~~~~~~~~v~~~~~~~~CP~p~C~~~i~~ 244 (594)
-+|| .|+.-. ....++-+++++-+.+....-....... ....||.|+|+.++..
T Consensus 11 ~~CP--vCksDrYLnPdik~linPECyHrmCESCvdRIFs~--GpAqCP~~gC~kILRK 65 (314)
T COG5220 11 RRCP--VCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR--GPAQCPYKGCGKILRK 65 (314)
T ss_pred ccCC--ccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC--CCCCCCCccHHHHHHH
Confidence 4799 788743 3334667778776666555444333333 3458999999987653
No 280
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=24.74 E-value=59 Score=41.20 Aligned_cols=8 Identities=38% Similarity=0.879 Sum_probs=3.9
Q ss_pred HHHHHHHH
Q 007671 430 IVECRRVL 437 (594)
Q Consensus 430 l~~~r~~L 437 (594)
++-||.-|
T Consensus 617 v~icrk~l 624 (2849)
T PTZ00415 617 LFICRKHL 624 (2849)
T ss_pred EEEEhhhc
Confidence 33455555
No 281
>PRK04023 DNA polymerase II large subunit; Validated
Probab=24.71 E-value=40 Score=40.43 Aligned_cols=31 Identities=23% Similarity=0.532 Sum_probs=23.9
Q ss_pred cCCCCCCCCcceeecCCCCcccccCCCcc-----eeeeccccc
Q 007671 297 NSKPCPRCKRPIEKNQGCMHMTCTPPCKF-----EFCWLCLGQ 334 (594)
Q Consensus 297 ntK~CPkC~~~IEK~~GCnhm~C~~~C~~-----~FCw~C~~~ 334 (594)
..+.||.|+... ..-.|. .||. .||..|+..
T Consensus 625 g~RfCpsCG~~t------~~frCP-~CG~~Te~i~fCP~CG~~ 660 (1121)
T PRK04023 625 GRRKCPSCGKET------FYRRCP-FCGTHTEPVYRCPRCGIE 660 (1121)
T ss_pred cCccCCCCCCcC------CcccCC-CCCCCCCcceeCccccCc
Confidence 458999999985 337897 8985 599999643
No 282
>PF05320 Pox_RNA_Pol_19: Poxvirus DNA-directed RNA polymerase 19 kDa subunit; InterPro: IPR007984 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. The poxvirus DNA-directed RNA polymerase (2.7.7.6 from EC) catalyses the transcription of DNA into RNA. It consists of at least eight subunits, this is the 19 kDa subunit.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=24.57 E-value=26 Score=32.51 Aligned_cols=8 Identities=50% Similarity=0.729 Sum_probs=4.1
Q ss_pred cccccccc
Q 007671 141 EMTCGICF 148 (594)
Q Consensus 141 ~~~C~IC~ 148 (594)
+.+|||=-
T Consensus 126 Eg~CPIVI 133 (167)
T PF05320_consen 126 EGTCPIVI 133 (167)
T ss_pred cCCCcEEE
Confidence 44566543
No 283
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=24.45 E-value=75 Score=24.34 Aligned_cols=29 Identities=34% Similarity=0.650 Sum_probs=15.6
Q ss_pred CcccCCCCCCCCeeeeecCC-CC-----ceeec-cCCc
Q 007671 229 KTKWCPAPGCDYAVDFVVGS-GN-----YDVTC-RCSY 259 (594)
Q Consensus 229 ~~~~CP~p~C~~~i~~~~~~-~~-----~~v~C-~C~~ 259 (594)
.++.||. |+......... .. ..|.| .||.
T Consensus 2 ~LkPCPF--CG~~~~~~~~~~~~~~~~~~~V~C~~Cga 37 (61)
T PF14354_consen 2 ELKPCPF--CGSADVLIRQDEGFDYGMYYYVECTDCGA 37 (61)
T ss_pred CCcCCCC--CCCcceEeecccCCCCCCEEEEEcCCCCC
Confidence 4678996 76443332111 11 45678 6776
No 284
>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=24.42 E-value=95 Score=29.17 Aligned_cols=84 Identities=24% Similarity=0.522 Sum_probs=46.0
Q ss_pred ccccccccccccCCCccccc-------CCCccc------HhhHHHHHHhhccCC----------------------CCcc
Q 007671 141 EMTCGICFENYPSDRLLAAA-------CGHPFC------SSCWTGYISTAINDG----------------------PGCL 185 (594)
Q Consensus 141 ~~~C~IC~e~~~~~~~v~l~-------CgH~fC------~~C~~~yi~~~i~~g----------------------~~~~ 185 (594)
..+||||++-- -+-|.|- |.-+.| ..|+.+|-....... ....
T Consensus 2 d~~CpICme~P--HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (162)
T PF07800_consen 2 DVTCPICMEHP--HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQP 79 (162)
T ss_pred CccCceeccCC--CceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCcccccccccccc
Confidence 46899999853 3444443 333334 478888876543211 1123
Q ss_pred ccccCCCcCCCccchhHHhhccChHHHHHHHHHHHHHHhhcCCCcccCCCCCCCCeee
Q 007671 186 MLRCPDPSCGAAVGQDMIYLLSSDEDKVKYNRYFIRSYVEDNRKTKWCPAPGCDYAVD 243 (594)
Q Consensus 186 ~i~CP~~~C~~~v~~~~i~~ll~~e~~eky~~~~~~~~v~~~~~~~~CP~p~C~~~i~ 243 (594)
.+.|| .|+..|.--.+- +- .+.|+ |.+.+-|+..+|.+...
T Consensus 80 ~L~CP--LCRG~V~GWtvv-----e~--------AR~~L--N~K~RsC~~e~C~F~Gt 120 (162)
T PF07800_consen 80 ELACP--LCRGEVKGWTVV-----EP--------ARRFL--NAKKRSCSQESCSFSGT 120 (162)
T ss_pred cccCc--cccCceeceEEc-----hH--------HHHHh--ccCCccCcccccccccC
Confidence 67899 798766322110 11 12222 23456799888986543
No 285
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=24.33 E-value=9.9e+02 Score=26.39 Aligned_cols=23 Identities=17% Similarity=-0.055 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHH
Q 007671 456 QFFEYLQGEAESGLERLHQCAEK 478 (594)
Q Consensus 456 ~~fe~~Q~~~e~~~e~L~~~le~ 478 (594)
++.+..+.++++..+.-...++.
T Consensus 86 ~~~~~A~~ea~~i~~~a~~~Ie~ 108 (445)
T PRK13428 86 QLRAQADAEAERIKVQGARQVQL 108 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444333333333
No 286
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=23.89 E-value=16 Score=32.10 Aligned_cols=18 Identities=28% Similarity=0.540 Sum_probs=13.9
Q ss_pred ceeeccCCcccccccccc
Q 007671 251 YDVTCRCSYSFCWNVKEA 268 (594)
Q Consensus 251 ~~v~C~C~~~fC~~C~~~ 268 (594)
+.|.|.||+.||..=..|
T Consensus 23 k~vkc~CGh~f~d~r~Nw 40 (112)
T PF08882_consen 23 KVVKCDCGHEFCDARENW 40 (112)
T ss_pred ceeeccCCCeecChhcCh
Confidence 467999999999866333
No 287
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=23.78 E-value=25 Score=29.54 Aligned_cols=35 Identities=29% Similarity=0.737 Sum_probs=27.2
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeeccccccccC
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH 338 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~h 338 (594)
.-||.|+.| ...|--+.+. |++.|=..|...|-.-
T Consensus 33 g~Cp~Ck~P---gd~Cplv~g~--C~H~FH~hCI~kWl~~ 67 (85)
T PF12861_consen 33 GCCPDCKFP---GDDCPLVWGK--CSHNFHMHCILKWLST 67 (85)
T ss_pred cCCCCccCC---CCCCceeecc--CccHHHHHHHHHHHcc
Confidence 457888887 3467767775 9999999999999754
No 288
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=23.73 E-value=26 Score=35.82 Aligned_cols=28 Identities=18% Similarity=0.547 Sum_probs=20.5
Q ss_pred CCCCCCCcceeec-CCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKN-QGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~-~GCnhm~C~~~C~~~F 327 (594)
-+||.|+..+-+. -+=|...|. .|+|+|
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 7899999988754 456667776 676654
No 289
>KOG2417 consensus Predicted G-protein coupled receptor [Signal transduction mechanisms]
Probab=23.64 E-value=9.3e+02 Score=25.85 Aligned_cols=51 Identities=20% Similarity=0.183 Sum_probs=31.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhhhhcccCccchhhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhh
Q 007671 419 QLKFITEAWLQIVECRRVLKWTYAYGYYLPDHEHAKRQFFEYLQGEAESGLERLHQCAEKELQIYLN 485 (594)
Q Consensus 419 ~~~~l~~a~~~l~~~r~~L~~sy~~~yy~~~~~~~~~~~fe~~Q~~~e~~~e~L~~~le~~~~~~~~ 485 (594)
+-.|++.-|..+.+.-+ +..+.+-+..+|++. ..+|+|++.|--|+.+|.+
T Consensus 227 ~pSff~r~w~~~~~~~~---------------~~~~~~~i~~lq~EV-~~LEeLsrqLFLE~~eLr~ 277 (462)
T KOG2417|consen 227 EPSFFRRFWGMFSSSVQ---------------DNTLSSDIKLLQQEV-EPLEELSRQLFLELVELRQ 277 (462)
T ss_pred CCcHHHHHHHHHHHHhc---------------cccchhhHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 45677777777765322 223344555555555 4688888888777776644
No 290
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=23.50 E-value=82 Score=25.10 Aligned_cols=30 Identities=23% Similarity=0.462 Sum_probs=20.7
Q ss_pred ccCCCCCCCCeeeeecCCCCceeec-cCCccccc
Q 007671 231 KWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCW 263 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~ 263 (594)
+.|| +|++.-..- +.....|+| .||...+.
T Consensus 20 VkCp--dC~N~q~vF-shast~V~C~~CG~~l~~ 50 (67)
T COG2051 20 VKCP--DCGNEQVVF-SHASTVVTCLICGTTLAE 50 (67)
T ss_pred EECC--CCCCEEEEe-ccCceEEEecccccEEEe
Confidence 6798 698754333 344567899 99988764
No 291
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=23.50 E-value=50 Score=28.63 Aligned_cols=17 Identities=29% Similarity=0.798 Sum_probs=15.7
Q ss_pred cCCCcccHhhHHHHHHh
Q 007671 160 ACGHPFCSSCWTGYIST 176 (594)
Q Consensus 160 ~CgH~fC~~C~~~yi~~ 176 (594)
.|.|.|..-|+..++.+
T Consensus 80 ~CNHaFH~hCisrWlkt 96 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKT 96 (114)
T ss_pred ecchHHHHHHHHHHHhh
Confidence 49999999999999976
No 292
>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=23.46 E-value=79 Score=24.19 Aligned_cols=28 Identities=21% Similarity=0.507 Sum_probs=19.5
Q ss_pred cCCCCCCCCeeeeecCCCCceeec-cCCccc
Q 007671 232 WCPAPGCDYAVDFVVGSGNYDVTC-RCSYSF 261 (594)
Q Consensus 232 ~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~f 261 (594)
-|| .|+..|.+........|.| .||+.+
T Consensus 4 ~CP--~CG~~iev~~~~~GeiV~Cp~CGael 32 (54)
T TIGR01206 4 ECP--DCGAEIELENPELGELVICDECGAEL 32 (54)
T ss_pred CCC--CCCCEEecCCCccCCEEeCCCCCCEE
Confidence 588 4998887754333456789 898764
No 293
>PRK14011 prefoldin subunit alpha; Provisional
Probab=23.42 E-value=4e+02 Score=24.65 Aligned_cols=37 Identities=14% Similarity=0.056 Sum_probs=26.6
Q ss_pred hhhcccCccchhhHHHHHHHHHHHHHhHHHHHHHHHH
Q 007671 442 AYGYYLPDHEHAKRQFFEYLQGEAESGLERLHQCAEK 478 (594)
Q Consensus 442 ~~~yy~~~~~~~~~~~fe~~Q~~~e~~~e~L~~~le~ 478 (594)
-.|||....-....++|+..-..+++..+.|.+.|++
T Consensus 77 GtGy~VEk~~~eA~~~~~~ri~~l~~~~~~l~~~i~~ 113 (144)
T PRK14011 77 GSDIYLEKDVSEVIEDFKKSVEELDKTKKEGNKKIEE 113 (144)
T ss_pred cCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478886666667788887778887777777766654
No 294
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=23.39 E-value=1.1e+02 Score=25.16 Aligned_cols=50 Identities=22% Similarity=0.603 Sum_probs=19.5
Q ss_pred CCccccccccccccCC---Cccc-c-cCCCcccHhhHHHHHHhhccCCCCccccccCCCcCCCcc
Q 007671 139 GEEMTCGICFENYPSD---RLLA-A-ACGHPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAV 198 (594)
Q Consensus 139 ~~~~~C~IC~e~~~~~---~~v~-l-~CgH~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v 198 (594)
.....|.||-+.+..+ +++. . .|+-..|+.|+.--. ++| .-.|| +|+...
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYEr----keg----~q~Cp--qCkt~y 61 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYER----KEG----NQVCP--QCKTRY 61 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHH----HTS-----SB-T--TT--B-
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHh----hcC----ccccc--ccCCCc
Confidence 3456799999987532 3333 2 488899999986543 345 35798 787544
No 295
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.38 E-value=40 Score=26.62 Aligned_cols=13 Identities=38% Similarity=1.145 Sum_probs=11.5
Q ss_pred CCCCCCCCcceee
Q 007671 298 SKPCPRCKRPIEK 310 (594)
Q Consensus 298 tK~CPkC~~~IEK 310 (594)
+.+||.|+++++.
T Consensus 7 ~v~CP~Cgkpv~w 19 (65)
T COG3024 7 TVPCPTCGKPVVW 19 (65)
T ss_pred cccCCCCCCcccc
Confidence 4899999999995
No 296
>PRK10220 hypothetical protein; Provisional
Probab=23.36 E-value=60 Score=28.46 Aligned_cols=30 Identities=27% Similarity=0.731 Sum_probs=17.2
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcceeeeccccccccC
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEFCWLCLGQWSDH 338 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~FCw~C~~~~~~h 338 (594)
-+||+|....-=..|=+ +.| -.|+..|...
T Consensus 4 P~CP~C~seytY~d~~~-~vC---------peC~hEW~~~ 33 (111)
T PRK10220 4 PHCPKCNSEYTYEDNGM-YIC---------PECAHEWNDA 33 (111)
T ss_pred CcCCCCCCcceEcCCCe-EEC---------CcccCcCCcc
Confidence 68999987554333322 444 4555566543
No 297
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=23.33 E-value=1.2e+03 Score=27.15 Aligned_cols=27 Identities=19% Similarity=0.361 Sum_probs=19.4
Q ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHH
Q 007671 490 SKDFNEFRTKLAGLTSVTRNYFENLVR 516 (594)
Q Consensus 490 ~~~~~~~~~~l~~l~~~~~~~~~~l~~ 516 (594)
++.+.+|+.+|..|...-...++.+..
T Consensus 159 l~kLeelr~~L~~L~~ek~~Rlekv~~ 185 (660)
T KOG4302|consen 159 LEKLEELREHLNELQKEKSDRLEKVLE 185 (660)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 377888999988887776666655544
No 298
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=23.21 E-value=89 Score=26.16 Aligned_cols=31 Identities=29% Similarity=0.659 Sum_probs=21.6
Q ss_pred ccCCCCCCCCeeeeecCCCCceeec-cCCcccccc
Q 007671 231 KWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCWN 264 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~~ 264 (594)
+.|| +|...-.+- +.....|.| .|+...|.-
T Consensus 36 VkCp--~C~n~q~VF-ShA~t~V~C~~Cg~~L~~P 67 (85)
T PTZ00083 36 VKCP--GCSQITTVF-SHAQTVVLCGGCSSQLCQP 67 (85)
T ss_pred EECC--CCCCeeEEE-ecCceEEEccccCCEeecc
Confidence 6898 598764433 344567899 999988753
No 299
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=23.18 E-value=32 Score=35.59 Aligned_cols=28 Identities=39% Similarity=0.872 Sum_probs=19.2
Q ss_pred CCCCCCCcceeecCCCCcccccC-CCcceeeecccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTP-PCKFEFCWLCLG 333 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~-~C~~~FCw~C~~ 333 (594)
.-|-+|..+|- ++=+. .|++-||+.|-.
T Consensus 91 HfCd~Cd~PI~-------IYGRmIPCkHvFCl~CAr 119 (389)
T KOG2932|consen 91 HFCDRCDFPIA-------IYGRMIPCKHVFCLECAR 119 (389)
T ss_pred EeecccCCcce-------eeecccccchhhhhhhhh
Confidence 56999999998 43332 477777777754
No 300
>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=23.10 E-value=49 Score=25.35 Aligned_cols=22 Identities=36% Similarity=0.857 Sum_probs=15.7
Q ss_pred cCCCCCCCCcceeecCCCCcccccCCCc
Q 007671 297 NSKPCPRCKRPIEKNQGCMHMTCTPPCK 324 (594)
Q Consensus 297 ntK~CPkC~~~IEK~~GCnhm~C~~~C~ 324 (594)
+.-.||.|+.+.. .|..|. .||
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 3468999998777 566676 565
No 301
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=23.09 E-value=8.5e+02 Score=27.55 Aligned_cols=18 Identities=22% Similarity=0.047 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 007671 420 LKFITEAWLQIVECRRVL 437 (594)
Q Consensus 420 ~~~l~~a~~~l~~~r~~L 437 (594)
-..+..+.....+.|+-+
T Consensus 138 ~~~i~~~~ely~elr~~v 155 (570)
T COG4477 138 SEEIDHVLELYEELRRDV 155 (570)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344555555666655544
No 302
>cd07595 BAR_RhoGAP_Rich-like The Bin/Amphiphysin/Rvs (BAR) domain of Rich-like Rho GTPase Activating Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of Rho and Rac GTPase activating proteins (GAPs) with similarity to GAP interacting with CIP4 homologs proteins (Rich). Members contain an N-terminal BAR domain, followed by a Rho GAP domain, and a C-terminal prolin-rich region. Vertebrates harbor at least three Rho GAPs in this subfamily including Rich1, Rich2, and SH3-domain binding protein 1 (SH3BP1). Rich1 and Rich2 play complementary roles in the establishment and maintenance of cell polarity. Rich1 is a Cdc42- and Rac-specific GAP that binds to polarity proteins through the scaffold protein angiomotin and plays a role in maintaining the integrity of tight junctions. Rich2 is a Rac GAP that interacts with CD317 and plays a role in actin cytoskeleton organization and
Probab=23.04 E-value=7.9e+02 Score=24.79 Aligned_cols=66 Identities=21% Similarity=0.307 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccc
Q 007671 457 FFEYLQGEAESGLERLHQCAEKELQIYLNADGPSKDFNEFRTKLAGLTSVTRNYFENLVRALENGLSDVDTH 528 (594)
Q Consensus 457 ~fe~~Q~~~e~~~e~L~~~le~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~l~~~le~gl~~~~~~ 528 (594)
-++....+++..+|.-.+.+...+..++..+. ++-..|..+...-..|.+.-...|++=++.|...
T Consensus 162 ~l~eE~e~ae~k~e~~~e~~~~~M~~~l~~E~------e~~~~l~~lv~aQl~YH~~a~e~L~~l~~~l~~~ 227 (244)
T cd07595 162 ALKDEYEEAELKLEQCRDALATDMYEFLAKEA------EIASYLIDLIEAQREYHRTALSVLEAVLPELQEQ 227 (244)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555555566666665432 2223334444444567777777777777776543
No 303
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=22.68 E-value=52 Score=31.74 Aligned_cols=27 Identities=30% Similarity=0.705 Sum_probs=21.2
Q ss_pred CCCCCCCcceeecCCCCcccccCCCccee
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFEF 327 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~F 327 (594)
-.||+|+.++.+ .+.|+|.|. .|++..
T Consensus 150 a~~~~~g~~~~~-~~~~~~~c~-~~~~~e 176 (189)
T PRK09521 150 AMCSRCRTPLVK-KGENELKCP-NCGNIE 176 (189)
T ss_pred EEccccCCceEE-CCCCEEECC-CCCCEE
Confidence 379999999987 445999998 787543
No 304
>PHA02325 hypothetical protein
Probab=22.61 E-value=39 Score=26.57 Aligned_cols=12 Identities=33% Similarity=0.922 Sum_probs=9.1
Q ss_pred cCCCCCCCCcce
Q 007671 297 NSKPCPRCKRPI 308 (594)
Q Consensus 297 ntK~CPkC~~~I 308 (594)
++|.||+|+..-
T Consensus 2 ~~k~CPkC~A~W 13 (72)
T PHA02325 2 DTKICPKCGARW 13 (72)
T ss_pred CccccCccCCEe
Confidence 468999998754
No 305
>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]
Probab=22.27 E-value=2e+03 Score=29.12 Aligned_cols=67 Identities=16% Similarity=0.211 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhhcCCCchhHHHHHHHHHHHHHHHHHH
Q 007671 367 REMAKNSLERYTHYYERWATNQSSRQKALADLQQMQTVHLEKLSDVQCQPESQLKFITEAWLQIVECRRVL 437 (594)
Q Consensus 367 ~~~~~~~l~ry~hy~~r~~~h~~s~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~l~~a~~~l~~~r~~L 437 (594)
...+.+.|.+|.-=..-+..+......+..++.......-+++... ..++.-|...+..+.++|+.+
T Consensus 1627 ~~d~~K~lkk~q~~~k~lq~~~e~~~~~~~e~~~q~~~aerr~~~l----~~E~eeL~~~l~~~~Rarr~a 1693 (1930)
T KOG0161|consen 1627 NEDAQKQLKKLQAQLKELQRELEDAQRAREELLEQLAEAERRLAAL----QAELEELREKLEALERARRQA 1693 (1930)
T ss_pred hHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhh
Confidence 3344555555554444344444333333333332222222222221 334555566666666666655
No 306
>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=22.18 E-value=51 Score=25.28 Aligned_cols=21 Identities=29% Similarity=0.638 Sum_probs=14.2
Q ss_pred CCCCCCCCcceeecCCCCcccccCCCc
Q 007671 298 SKPCPRCKRPIEKNQGCMHMTCTPPCK 324 (594)
Q Consensus 298 tK~CPkC~~~IEK~~GCnhm~C~~~C~ 324 (594)
.-.||.|+.+.. .|-.|. .||
T Consensus 26 l~~C~~cG~~~~-----~H~vc~-~cG 46 (55)
T TIGR01031 26 LVVCPNCGEFKL-----PHRVCP-SCG 46 (55)
T ss_pred ceECCCCCCccc-----CeeECC-ccC
Confidence 457999998877 455554 454
No 307
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=22.10 E-value=94 Score=29.24 Aligned_cols=48 Identities=21% Similarity=0.513 Sum_probs=33.4
Q ss_pred CccccccccccccCCCcccccCC--C---cccHhhHHHHHHhhccCCCCccccccCCCcCCCccc
Q 007671 140 EEMTCGICFENYPSDRLLAAACG--H---PFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAAVG 199 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~v~l~Cg--H---~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~v~ 199 (594)
....|-||+++.. . ..-||. . ....+|+..|+... + ..+|| .|+..+.
T Consensus 7 ~~~~CRIC~~~~~-~--~~~PC~CkGs~k~VH~sCL~rWi~~s---~----~~~Ce--iC~~~Y~ 59 (162)
T PHA02825 7 MDKCCWICKDEYD-V--VTNYCNCKNENKIVHKECLEEWINTS---K----NKSCK--ICNGPYN 59 (162)
T ss_pred CCCeeEecCCCCC-C--ccCCcccCCCchHHHHHHHHHHHhcC---C----CCccc--ccCCeEE
Confidence 3567999998853 2 223554 3 35889999999853 2 57899 7988764
No 308
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=22.02 E-value=1.5e+02 Score=30.69 Aligned_cols=29 Identities=28% Similarity=0.709 Sum_probs=24.7
Q ss_pred CCCCccccCCCCccCCCccccccccCCCC
Q 007671 566 DDSSHWYCDQCTYANVNSATACAMCQHSR 594 (594)
Q Consensus 566 ~~~~~~~~~~~~~~~~~~~~~c~~c~~~~ 594 (594)
-..+-|-|..|+|.|-..--.|--|..+|
T Consensus 136 ~~~GDW~Cp~C~fhNfarn~~C~rC~~~r 164 (280)
T KOG4198|consen 136 WRSGDWECPGCNFHNFARNSECFRCGAKR 164 (280)
T ss_pred ccccCcccCCCCceeccccchhhhcCCcC
Confidence 35566999999999999999999997654
No 309
>PRK08115 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=21.78 E-value=45 Score=39.76 Aligned_cols=25 Identities=40% Similarity=1.040 Sum_probs=20.4
Q ss_pred CCCCCCCc-ceeecCCCCcccccCCCcce
Q 007671 299 KPCPRCKR-PIEKNQGCMHMTCTPPCKFE 326 (594)
Q Consensus 299 K~CPkC~~-~IEK~~GCnhm~C~~~C~~~ 326 (594)
-.||-|+. .||..|||| +|+ +|+.+
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 48999975 688999998 788 78754
No 310
>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=21.63 E-value=60 Score=36.49 Aligned_cols=35 Identities=20% Similarity=0.579 Sum_probs=23.0
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcce-----eeeccccc
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFE-----FCWLCLGQ 334 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~-----FCw~C~~~ 334 (594)
-.||+|..++.--..=|.+.|. .||+. .|..|+..
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 4677887777633333467887 78866 57788653
No 311
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.36 E-value=71 Score=32.32 Aligned_cols=55 Identities=27% Similarity=0.568 Sum_probs=37.5
Q ss_pred CccccccccccccCCCc--ccccCC-----CcccHhhHHHHHHhhccCCCCccccccCCCcCCCc
Q 007671 140 EEMTCGICFENYPSDRL--LAAACG-----HPFCSSCWTGYISTAINDGPGCLMLRCPDPSCGAA 197 (594)
Q Consensus 140 ~~~~C~IC~e~~~~~~~--v~l~Cg-----H~fC~~C~~~yi~~~i~~g~~~~~i~CP~~~C~~~ 197 (594)
.+-.|=|||.+-..+.. ..-||. |-....|+..|+..+-. |.....+.|| +|...
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~-~n~~q~V~C~--QCqTE 80 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQR-GNPLQTVSCP--QCQTE 80 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhc-CCCCceeech--hhcch
Confidence 36689999987432211 123553 55889999999987765 3334589999 79874
No 312
>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=21.28 E-value=89 Score=31.63 Aligned_cols=19 Identities=21% Similarity=0.599 Sum_probs=15.2
Q ss_pred CcccCCCCCCCCeeeeecC
Q 007671 229 KTKWCPAPGCDYAVDFVVG 247 (594)
Q Consensus 229 ~~~~CP~p~C~~~i~~~~~ 247 (594)
..+-||.|+|.++|...+.
T Consensus 122 ~rIaCPRp~CkRiI~L~~~ 140 (256)
T PF09788_consen 122 QRIACPRPNCKRIINLGPS 140 (256)
T ss_pred ccccCCCCCCcceEEeCCc
Confidence 4568999999999977543
No 313
>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements. The replacement of Dam-methylase by DRP allows phase variation through slippage-like mechanisms in several pathogenic isolates of Neisseria meningitidis [].; PDB: 4ESJ_A.
Probab=21.25 E-value=70 Score=32.15 Aligned_cols=36 Identities=25% Similarity=0.678 Sum_probs=0.0
Q ss_pred hHHHHHhcCCCCCCCCcc-eeecCCCCc---ccccCCCccee
Q 007671 290 NMNWILANSKPCPRCKRP-IEKNQGCMH---MTCTPPCKFEF 327 (594)
Q Consensus 290 ~~~wi~~ntK~CPkC~~~-IEK~~GCnh---m~C~~~C~~~F 327 (594)
+..|+..| -.||.|+.. +.+-+.=.. ..|. .|+.+|
T Consensus 24 tE~Wv~~n-~yCP~Cg~~~L~~f~NN~PVaDF~C~-~C~eey 63 (254)
T PF06044_consen 24 TEDWVAEN-MYCPNCGSKPLSKFENNRPVADFYCP-NCNEEY 63 (254)
T ss_dssp HHHHHHHH----TTT--SS-EE--------EEE-T-TT--EE
T ss_pred HHHHHHHC-CcCCCCCChhHhhccCCCccceeECC-CCchHH
No 314
>COG1315 Uncharacterized conserved protein [Function unknown]
Probab=21.19 E-value=6.7e+02 Score=28.18 Aligned_cols=38 Identities=18% Similarity=0.174 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHh
Q 007671 373 SLERYTHYYERWATNQSSRQKALADLQQMQTVHLEKLS 410 (594)
Q Consensus 373 ~l~ry~hy~~r~~~h~~s~~~~~~~l~~~~~~~~~~l~ 410 (594)
..+||..|-+++..|+..++++...|+.+++.+++...
T Consensus 408 ~~~~l~~lt~~~~~~ee~l~~Lt~~l~~l~~~~i~~~~ 445 (543)
T COG1315 408 IVERLKELTEEISLHEERLKKLTKLLVALVKVKIESKK 445 (543)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 35677777788888998888888888777765444443
No 315
>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=20.86 E-value=54 Score=24.35 Aligned_cols=26 Identities=27% Similarity=0.634 Sum_probs=16.6
Q ss_pred CCCC--CCCcceeecCCCCcccccCCCcc
Q 007671 299 KPCP--RCKRPIEKNQGCMHMTCTPPCKF 325 (594)
Q Consensus 299 K~CP--kC~~~IEK~~GCnhm~C~~~C~~ 325 (594)
+.|| .|+.-+--..--+..+|. .|+.
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 999876544444567777 6764
No 316
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=20.78 E-value=56 Score=31.53 Aligned_cols=25 Identities=28% Similarity=0.731 Sum_probs=19.2
Q ss_pred CCCCCCCcceeecCCCCcccccCCCcce
Q 007671 299 KPCPRCKRPIEKNQGCMHMTCTPPCKFE 326 (594)
Q Consensus 299 K~CPkC~~~IEK~~GCnhm~C~~~C~~~ 326 (594)
-.|++|+.++++ .=+.|+|. .||..
T Consensus 150 A~CsrC~~~L~~--~~~~l~Cp-~Cg~t 174 (188)
T COG1096 150 ARCSRCRAPLVK--KGNMLKCP-NCGNT 174 (188)
T ss_pred EEccCCCcceEE--cCcEEECC-CCCCE
Confidence 479999999998 34668887 67653
No 317
>PRK10984 DNA-binding transcriptional regulator Crl; Provisional
Probab=20.70 E-value=63 Score=29.15 Aligned_cols=48 Identities=13% Similarity=0.266 Sum_probs=30.9
Q ss_pred HHhhhhhhhcccCccchhhHHHHH-HHHHHHHHhHHHHHHHHHHHHHHH
Q 007671 436 VLKWTYAYGYYLPDHEHAKRQFFE-YLQGEAESGLERLHQCAEKELQIY 483 (594)
Q Consensus 436 ~L~~sy~~~yy~~~~~~~~~~~fe-~~Q~~~e~~~e~L~~~le~~~~~~ 483 (594)
...|+|.+|.|-...+-....|=+ ..|.+++..++..|+.|..-+.++
T Consensus 66 ~F~y~Y~~Glydk~G~W~~~~i~~~~~~e~v~~Tl~~Fh~kL~~~L~~~ 114 (127)
T PRK10984 66 RFTYSYQFGLFDKEGNWVAEPIKDKEVVERLEHTLREFHEKLRELLATL 114 (127)
T ss_pred cEEEEEecccccCCCCeeeccCCcHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 456778888887554433333333 336778888888888877766544
No 318
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.63 E-value=1.1e+03 Score=25.46 Aligned_cols=62 Identities=16% Similarity=0.126 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhh-cCCCchhHHHHHHHHHHHHHHHHHH
Q 007671 376 RYTHYYERWATNQSSRQKALADLQQMQTVHLEKLSDV-QCQPESQLKFITEAWLQIVECRRVL 437 (594)
Q Consensus 376 ry~hy~~r~~~h~~s~~~~~~~l~~~~~~~~~~l~~~-~~~~~~~~~~l~~a~~~l~~~r~~L 437 (594)
-|.++++||++++....++..-+........+.+... ....+..+..+...+..+...++.+
T Consensus 15 pye~l~kr~r~~qk~i~re~~~v~~~~~~l~~~~~sn~~~~~d~~~~~id~Li~kv~~~krk~ 77 (389)
T KOG0396|consen 15 PYELLNKRIRHNQKVIDRETSHVLMVVAELQETLISNIVPHLDSTVSLIDRLIRKVQCLKRKL 77 (389)
T ss_pred CHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788999999988877666544433333222222110 0001233444555555555555544
No 319
>PLN00209 ribosomal protein S27; Provisional
Probab=20.62 E-value=1.1e+02 Score=25.68 Aligned_cols=30 Identities=23% Similarity=0.540 Sum_probs=21.1
Q ss_pred ccCCCCCCCCeeeeecCCCCceeec-cCCccccc
Q 007671 231 KWCPAPGCDYAVDFVVGSGNYDVTC-RCSYSFCW 263 (594)
Q Consensus 231 ~~CP~p~C~~~i~~~~~~~~~~v~C-~C~~~fC~ 263 (594)
+.|| +|...-.+- +.....|.| .|+...|.
T Consensus 37 VkCp--~C~n~q~VF-ShA~t~V~C~~Cg~~L~~ 67 (86)
T PLN00209 37 VKCQ--GCFNITTVF-SHSQTVVVCGSCQTVLCQ 67 (86)
T ss_pred EECC--CCCCeeEEE-ecCceEEEccccCCEeec
Confidence 6898 598654333 344567899 99998875
No 320
>PF06936 Selenoprotein_S: Selenoprotein S (SelS); InterPro: IPR009703 This family consists of several mammalian selenoprotein S (SelS) sequences. SelS is a plasma membrane protein and is present in a variety of tissues and cell types. These proteins are involved in the degradation process of misfolded endoplasmic reticulum (ER) luminal proteins which participate in the transfer of misfolded proteins from the ER to the cytosol, where they are destroyed by the proteasome in a ubiquitin-dependent manner []. They probably serve as a linker between DER1, which mediates the retro-translocation of misfolded proteins into the cytosol, and the ATPase complex VCP, which mediates the translocation and ubiquitination.; GO: 0008430 selenium binding, 0006886 intracellular protein transport, 0030176 integral to endoplasmic reticulum membrane; PDB: 2Q2F_A.
Probab=20.36 E-value=5.5e+02 Score=24.99 Aligned_cols=12 Identities=0% Similarity=-0.011 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCC
Q 007671 547 RSGKNKGSTSRSS 559 (594)
Q Consensus 547 ~~~~~~~~~~~~~ 559 (594)
+..|+.+| |+.+
T Consensus 159 k~lr~~~y-NPL~ 170 (190)
T PF06936_consen 159 KPLRGSDY-NPLT 170 (190)
T ss_dssp -------------
T ss_pred CCCCCCCC-CCCC
Confidence 33445556 4433
No 321
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=20.21 E-value=1.2e+03 Score=27.85 Aligned_cols=33 Identities=21% Similarity=0.165 Sum_probs=19.5
Q ss_pred hhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhh
Q 007671 453 AKRQFFEYLQGEAESGLERLHQCAEKELQIYLN 485 (594)
Q Consensus 453 ~~~~~fe~~Q~~~e~~~e~L~~~le~~~~~~~~ 485 (594)
.+.++++..+.+++..++.....++.-+.++..
T Consensus 558 ~~~~~~~~a~~ea~~~~~~a~~~~~~~i~~lk~ 590 (771)
T TIGR01069 558 RERNKKLELEKEAQEALKALKKEVESIIRELKE 590 (771)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445566666666666666666655555555544
No 322
>cd07620 BAR_SH3BP1 The Bin/Amphiphysin/Rvs (BAR) domain of SH3-domain Binding Protein 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. SH3-domain binding protein 1 (SH3BP1 or 3BP-1) is a Rac GTPase activating protein that inhibits Rac-mediated platelet-derived growth factor (PDGF)-induced membrane ruffling. SH3BP1 contains an N-terminal BAR domain followed by a GAP domain for Rho and Rac GTPases and a C-terminal proline-rich domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=20.00 E-value=9.4e+02 Score=24.55 Aligned_cols=107 Identities=14% Similarity=0.186 Sum_probs=63.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHhhhhhhhcccCc--------------------cchhhHHHHHHHHHHHHHhHHHHHHHH
Q 007671 417 ESQLKFITEAWLQIVECRRVLKWTYAYGYYLPD--------------------HEHAKRQFFEYLQGEAESGLERLHQCA 476 (594)
Q Consensus 417 ~~~~~~l~~a~~~l~~~r~~L~~sy~~~yy~~~--------------------~~~~~~~~fe~~Q~~~e~~~e~L~~~l 476 (594)
+.++..|....+.|. .++|=|.|+-.=|... ....|.+.....+++++..+|.=.+.+
T Consensus 117 e~dL~~I~k~rKkL~--k~~LD~D~~K~R~~~a~k~s~~~~~~~~~~~~~~~~~~~~K~~~lkeE~eea~~K~E~~kd~~ 194 (257)
T cd07620 117 EEDLPEILKNKKQFA--KLTTDWNSAKSRSPQAAGRSPRSGGRSEEVGEHQGIRRANKGEPLKEEEEECWRKLEQCKDQY 194 (257)
T ss_pred HhhHHHHHHHHHHHH--hHHhhHHHHHHHHHHhhccccCCccccccccccccccccccccccHHHHHHHHHHHHHHHHHH
Confidence 456666666666664 3567777776544210 012455567777777777777777777
Q ss_pred HHHHHHHhhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccc
Q 007671 477 EKELQIYLNADGPSKDFNEFRTKLAGLTSVTRNYFENLVRALENGLSDVDTHATC 531 (594)
Q Consensus 477 e~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~l~~~le~gl~~~~~~~~~ 531 (594)
+.++-.|+..+. ++-..+..+...-..|-+.=+..|+.=|++++-....
T Consensus 195 ~a~Mynfl~kE~------e~a~~l~~lveaQ~~YHrqsl~~Le~~l~~~~~~~~~ 243 (257)
T cd07620 195 SADLYHFATKED------SYANYFIRLLELQAEYHKNSLEFLDKNITELKENHSQ 243 (257)
T ss_pred HHHHHHHHHhhH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 777766665442 2223333344444566666667777778877544433
Done!