Query 039490
Match_columns 423
No_of_seqs 433 out of 2363
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 10:10:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039490.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039490hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1002 Nucleotide excision re 100.0 2.8E-33 6E-38 283.6 5.3 191 136-330 534-743 (791)
2 KOG1001 Helicase-like transcri 99.8 3.1E-22 6.8E-27 216.3 0.3 170 139-325 455-641 (674)
3 KOG0823 Predicted E3 ubiquitin 99.7 1.1E-18 2.3E-23 163.7 2.8 91 135-230 44-134 (230)
4 KOG0298 DEAD box-containing he 99.5 2.5E-15 5.4E-20 166.7 4.0 148 136-327 1151-1317(1394)
5 PLN03208 E3 ubiquitin-protein 99.5 2.5E-14 5.5E-19 132.1 6.4 83 135-224 15-110 (193)
6 KOG0389 SNF2 family DNA-depend 99.4 4.7E-14 1E-18 150.8 4.6 110 215-326 755-880 (941)
7 KOG0385 Chromatin remodeling c 99.3 1E-12 2.2E-17 140.4 4.9 89 237-327 486-590 (971)
8 PLN03142 Probable chromatin-re 99.3 1.9E-12 4.2E-17 146.0 4.8 107 220-327 470-592 (1033)
9 PF15227 zf-C3HC4_4: zinc fing 99.3 2.7E-12 6E-17 91.0 2.8 41 141-181 1-42 (42)
10 KOG0384 Chromodomain-helicase 99.2 4.2E-12 9.2E-17 141.0 4.7 101 223-327 688-804 (1373)
11 smart00504 Ubox Modified RING 99.2 4.1E-12 8.8E-17 97.0 2.3 57 138-197 1-57 (63)
12 KOG0320 Predicted E3 ubiquitin 99.2 5.6E-12 1.2E-16 114.1 2.3 57 136-195 129-187 (187)
13 KOG0317 Predicted E3 ubiquitin 99.1 1.8E-11 3.8E-16 118.5 3.1 57 133-192 234-290 (293)
14 KOG4439 RNA polymerase II tran 99.1 5.7E-11 1.2E-15 126.2 4.2 106 218-327 726-851 (901)
15 KOG0392 SNF2 family DNA-depend 99.0 1.4E-10 3E-15 129.0 5.3 114 213-327 1302-1447(1549)
16 TIGR00599 rad18 DNA repair pro 99.0 7.6E-11 1.6E-15 120.7 2.0 68 134-204 22-89 (397)
17 PF04564 U-box: U-box domain; 99.0 7.4E-11 1.6E-15 93.5 1.2 65 137-203 3-67 (73)
18 KOG2164 Predicted E3 ubiquitin 99.0 2E-10 4.4E-15 118.6 3.0 61 138-198 186-248 (513)
19 PF13920 zf-C3HC4_3: Zinc fing 99.0 3.9E-10 8.5E-15 82.7 2.9 46 138-186 2-48 (50)
20 PF13923 zf-C3HC4_2: Zinc fing 99.0 2.3E-10 5E-15 79.6 1.6 38 141-181 1-39 (39)
21 PHA02929 N1R/p28-like protein; 98.9 5.7E-10 1.2E-14 107.2 4.0 48 136-186 172-227 (238)
22 COG0553 HepA Superfamily II DN 98.9 7.4E-10 1.6E-14 123.5 4.9 107 221-333 692-823 (866)
23 KOG0287 Postreplication repair 98.9 1.6E-10 3.4E-15 113.6 -0.6 65 136-203 21-85 (442)
24 PF00097 zf-C3HC4: Zinc finger 98.9 1.2E-09 2.5E-14 76.6 2.8 40 141-181 1-41 (41)
25 KOG0391 SNF2 family DNA-depend 98.8 2.1E-09 4.6E-14 119.0 4.6 100 221-325 1260-1378(1958)
26 PF13639 zf-RING_2: Ring finge 98.8 5.6E-10 1.2E-14 79.6 -0.1 40 140-182 2-44 (44)
27 KOG0390 DNA repair protein, SN 98.8 3.2E-09 7E-14 116.0 5.4 107 217-323 574-696 (776)
28 KOG0388 SNF2 family DNA-depend 98.8 4.2E-09 9E-14 112.2 4.8 104 218-327 1028-1147(1185)
29 PF13445 zf-RING_UBOX: RING-ty 98.7 4.3E-09 9.4E-14 74.9 2.0 38 141-179 1-43 (43)
30 COG5432 RAD18 RING-finger-cont 98.7 3E-09 6.5E-14 102.8 1.0 58 136-196 23-80 (391)
31 COG5574 PEX10 RING-finger-cont 98.7 4.7E-09 1E-13 100.6 1.9 53 136-190 213-266 (271)
32 cd00162 RING RING-finger (Real 98.7 1.1E-08 2.5E-13 71.4 3.3 44 140-185 1-45 (45)
33 KOG0978 E3 ubiquitin ligase in 98.7 3.2E-09 6.9E-14 114.5 0.4 59 134-194 639-697 (698)
34 PHA02926 zinc finger-like prot 98.7 1E-08 2.2E-13 96.2 3.2 52 136-187 168-231 (242)
35 PF14634 zf-RING_5: zinc-RING 98.6 1.9E-08 4.1E-13 71.9 3.0 41 140-183 1-44 (44)
36 KOG0387 Transcription-coupled 98.6 2.3E-08 5E-13 108.0 4.8 108 216-325 525-649 (923)
37 smart00184 RING Ring finger. E 98.6 2.5E-08 5.4E-13 67.3 2.8 39 141-181 1-39 (39)
38 PF14835 zf-RING_6: zf-RING of 98.5 1.4E-08 3E-13 77.6 0.1 55 137-196 6-61 (65)
39 KOG2177 Predicted E3 ubiquitin 98.5 3.8E-08 8.3E-13 94.5 1.4 46 135-183 10-55 (386)
40 KOG0386 Chromatin remodeling c 98.5 7.9E-08 1.7E-12 106.0 2.9 107 220-327 709-831 (1157)
41 PF12678 zf-rbx1: RING-H2 zinc 98.4 2.4E-07 5.2E-12 73.5 3.0 40 140-182 21-73 (73)
42 TIGR00570 cdk7 CDK-activating 98.4 3.1E-07 6.8E-12 91.0 4.0 57 138-196 3-64 (309)
43 KOG4628 Predicted E3 ubiquitin 98.3 3.6E-07 7.8E-12 92.0 4.2 47 139-187 230-279 (348)
44 KOG1000 Chromatin remodeling p 98.3 9.4E-07 2E-11 91.7 5.3 100 220-324 471-593 (689)
45 COG5540 RING-finger-containing 98.2 5.1E-07 1.1E-11 88.1 2.5 48 138-187 323-373 (374)
46 COG5243 HRD1 HRD ubiquitin lig 98.2 8.2E-07 1.8E-11 88.7 2.2 48 137-187 286-346 (491)
47 PF12861 zf-Apc11: Anaphase-pr 98.1 1.4E-06 3E-11 70.6 2.9 49 139-187 22-83 (85)
48 KOG0311 Predicted E3 ubiquitin 98.0 4.2E-07 9.2E-12 90.4 -2.3 50 135-186 40-90 (381)
49 KOG0802 E3 ubiquitin ligase [P 98.0 2.5E-06 5.4E-11 91.9 1.8 50 137-189 290-344 (543)
50 KOG0824 Predicted E3 ubiquitin 98.0 5.8E-06 1.3E-10 80.9 4.0 49 139-189 8-56 (324)
51 PRK04914 ATP-dependent helicas 97.9 1.1E-05 2.4E-10 91.5 6.1 97 219-324 477-595 (956)
52 COG5152 Uncharacterized conser 97.9 3.2E-06 6.9E-11 78.1 1.4 50 134-186 192-241 (259)
53 PF11789 zf-Nse: Zinc-finger o 97.9 4.8E-06 1E-10 62.9 1.9 43 137-180 10-53 (57)
54 KOG4159 Predicted E3 ubiquitin 97.9 6.3E-06 1.4E-10 84.9 2.0 49 136-187 82-130 (398)
55 KOG4172 Predicted E3 ubiquitin 97.9 2.6E-06 5.6E-11 62.9 -0.5 46 139-186 8-54 (62)
56 KOG2879 Predicted E3 ubiquitin 97.8 1.6E-05 3.4E-10 77.0 4.2 58 128-186 229-287 (298)
57 KOG1015 Transcription regulato 97.7 1.6E-05 3.6E-10 87.6 2.7 105 220-329 1125-1270(1567)
58 KOG1813 Predicted E3 ubiquitin 97.7 1.3E-05 2.9E-10 78.2 1.3 47 137-186 240-286 (313)
59 KOG1785 Tyrosine kinase negati 97.6 2.3E-05 4.9E-10 79.2 2.1 54 139-193 370-423 (563)
60 KOG2660 Locus-specific chromos 97.6 1.8E-05 3.9E-10 78.5 0.8 50 137-189 14-64 (331)
61 COG5222 Uncharacterized conser 97.6 2.6E-05 5.7E-10 76.1 1.3 55 138-194 274-330 (427)
62 KOG1734 Predicted RING-contain 97.5 2.4E-05 5.2E-10 75.5 0.3 59 137-196 223-291 (328)
63 KOG1645 RING-finger-containing 97.5 2.6E-05 5.6E-10 79.1 0.3 60 138-198 4-68 (463)
64 KOG0297 TNF receptor-associate 97.4 6.9E-05 1.5E-09 77.6 2.3 55 135-192 18-73 (391)
65 KOG4265 Predicted E3 ubiquitin 97.4 6.8E-05 1.5E-09 75.3 2.0 49 136-187 288-337 (349)
66 KOG0825 PHD Zn-finger protein 97.3 3.1E-05 6.7E-10 83.7 -1.3 56 137-195 122-180 (1134)
67 PF11793 FANCL_C: FANCL C-term 97.3 7.2E-05 1.6E-09 58.9 0.8 49 138-186 2-66 (70)
68 PF04641 Rtf2: Rtf2 RING-finge 97.3 0.0003 6.6E-09 69.0 5.4 60 135-198 110-173 (260)
69 KOG3039 Uncharacterized conser 97.3 0.0002 4.3E-09 68.5 3.5 58 136-196 219-280 (303)
70 KOG0828 Predicted E3 ubiquitin 97.3 9.8E-05 2.1E-09 76.5 1.5 51 135-187 568-635 (636)
71 KOG0804 Cytoplasmic Zn-finger 97.2 0.00015 3.4E-09 74.4 2.5 47 135-186 172-222 (493)
72 KOG1039 Predicted E3 ubiquitin 97.2 0.00015 3.2E-09 73.6 2.2 51 136-186 159-221 (344)
73 KOG4692 Predicted E3 ubiquitin 97.2 0.00016 3.5E-09 72.2 1.6 49 136-187 420-468 (489)
74 COG5219 Uncharacterized conser 97.0 0.0002 4.3E-09 79.0 0.9 49 137-186 1468-1523(1525)
75 KOG0827 Predicted E3 ubiquitin 97.0 0.00031 6.7E-09 71.0 1.8 53 139-191 5-61 (465)
76 PF14447 Prok-RING_4: Prokaryo 97.0 0.00048 1E-08 51.3 2.1 48 137-189 6-53 (55)
77 smart00744 RINGv The RING-vari 96.9 0.00074 1.6E-08 49.4 2.6 42 140-182 1-49 (49)
78 KOG4275 Predicted E3 ubiquitin 96.8 0.00029 6.3E-09 68.9 -0.2 42 138-186 300-342 (350)
79 KOG1571 Predicted E3 ubiquitin 96.7 0.00058 1.3E-08 68.7 0.8 43 138-186 305-347 (355)
80 KOG4739 Uncharacterized protei 96.6 0.00094 2E-08 64.0 1.8 51 138-193 3-55 (233)
81 KOG0826 Predicted E3 ubiquitin 96.6 0.0007 1.5E-08 67.3 0.6 56 136-194 298-354 (357)
82 KOG1493 Anaphase-promoting com 96.4 0.00089 1.9E-08 53.0 0.1 32 155-186 50-81 (84)
83 KOG0383 Predicted helicase [Ge 96.3 0.0029 6.3E-08 69.5 3.6 60 235-295 628-696 (696)
84 PF05290 Baculo_IE-1: Baculovi 96.3 0.0025 5.4E-08 55.8 2.4 52 137-188 79-134 (140)
85 KOG1016 Predicted DNA helicase 96.3 0.0034 7.4E-08 68.7 3.6 89 236-327 717-840 (1387)
86 KOG1814 Predicted E3 ubiquitin 96.1 0.0024 5.3E-08 65.3 1.7 48 136-183 182-237 (445)
87 KOG4367 Predicted Zn-finger pr 96.1 0.0024 5.3E-08 65.5 1.3 33 136-168 2-34 (699)
88 COG5236 Uncharacterized conser 95.7 0.0063 1.4E-07 61.0 2.7 52 134-186 57-108 (493)
89 COG5194 APC11 Component of SCF 95.7 0.0063 1.4E-07 48.7 1.9 30 155-187 53-82 (88)
90 KOG3800 Predicted E3 ubiquitin 95.6 0.0071 1.5E-07 59.4 2.4 50 140-191 2-56 (300)
91 KOG1941 Acetylcholine receptor 95.5 0.0041 8.9E-08 63.2 0.4 49 136-185 363-415 (518)
92 KOG4185 Predicted E3 ubiquitin 95.4 0.0084 1.8E-07 59.5 2.2 46 138-185 3-54 (296)
93 KOG2817 Predicted E3 ubiquitin 95.4 0.0089 1.9E-07 61.1 2.3 53 136-188 332-387 (394)
94 cd00079 HELICc Helicase superf 95.3 0.041 8.8E-07 46.3 5.9 97 221-321 12-124 (131)
95 PF07800 DUF1644: Protein of u 94.7 0.028 6E-07 50.8 3.1 33 137-169 1-46 (162)
96 KOG3002 Zn finger protein [Gen 94.6 0.021 4.5E-07 57.2 2.4 47 134-186 44-91 (299)
97 PF14570 zf-RING_4: RING/Ubox 94.6 0.024 5.3E-07 41.3 2.1 43 141-185 1-47 (48)
98 PHA03096 p28-like protein; Pro 94.6 0.015 3.2E-07 57.8 1.3 47 139-185 179-233 (284)
99 KOG2932 E3 ubiquitin ligase in 94.5 0.016 3.6E-07 57.3 1.3 44 138-186 90-134 (389)
100 KOG4362 Transcriptional regula 94.4 0.0098 2.1E-07 64.9 -0.4 54 137-190 20-73 (684)
101 COG5175 MOT2 Transcriptional r 94.4 0.02 4.3E-07 57.4 1.6 53 138-192 14-70 (480)
102 KOG1952 Transcription factor N 94.3 0.022 4.9E-07 62.9 1.9 49 136-184 189-245 (950)
103 KOG3161 Predicted E3 ubiquitin 94.2 0.013 2.8E-07 63.0 0.0 40 137-182 10-53 (861)
104 KOG3970 Predicted E3 ubiquitin 94.0 0.034 7.3E-07 52.9 2.4 46 140-185 52-104 (299)
105 PF10367 Vps39_2: Vacuolar sor 93.9 0.027 5.9E-07 46.9 1.3 29 138-166 78-108 (109)
106 KOG4445 Uncharacterized conser 93.9 0.014 3E-07 57.6 -0.5 50 138-187 115-187 (368)
107 KOG2114 Vacuolar assembly/sort 93.6 0.035 7.5E-07 61.5 1.8 39 139-183 841-880 (933)
108 KOG3039 Uncharacterized conser 93.1 0.055 1.2E-06 52.1 2.2 34 136-169 41-74 (303)
109 COG5220 TFB3 Cdk activating ki 92.5 0.031 6.6E-07 53.6 -0.4 51 137-189 9-67 (314)
110 KOG3113 Uncharacterized conser 92.4 0.1 2.2E-06 50.5 3.0 61 136-201 109-173 (293)
111 KOG3268 Predicted E3 ubiquitin 92.1 0.079 1.7E-06 48.7 1.8 51 137-187 164-229 (234)
112 PF02891 zf-MIZ: MIZ/SP-RING z 92.1 0.092 2E-06 38.5 1.8 45 139-184 3-50 (50)
113 KOG2034 Vacuolar sorting prote 91.7 0.076 1.6E-06 59.3 1.3 32 137-168 816-849 (911)
114 PRK13766 Hef nuclease; Provisi 90.9 0.36 7.8E-06 54.2 5.8 77 220-299 346-440 (773)
115 PF05883 Baculo_RING: Baculovi 90.7 0.095 2.1E-06 46.3 0.7 31 138-168 26-65 (134)
116 KOG2930 SCF ubiquitin ligase, 90.5 0.11 2.3E-06 43.7 0.8 28 155-185 80-107 (114)
117 KOG1812 Predicted E3 ubiquitin 90.4 0.081 1.7E-06 54.9 0.0 58 137-194 145-211 (384)
118 KOG1428 Inhibitor of type V ad 90.3 0.18 4E-06 58.7 2.7 51 137-187 3485-3545(3738)
119 TIGR00603 rad25 DNA repair hel 90.2 0.35 7.7E-06 54.0 4.7 76 221-299 480-559 (732)
120 KOG1100 Predicted E3 ubiquitin 89.8 0.18 3.9E-06 47.9 1.9 39 141-186 161-200 (207)
121 PF10272 Tmpp129: Putative tra 89.7 0.27 5.8E-06 50.4 3.1 35 156-190 311-355 (358)
122 KOG3579 Predicted E3 ubiquitin 89.4 0.16 3.5E-06 49.9 1.3 45 136-180 266-316 (352)
123 COG5109 Uncharacterized conser 89.4 0.19 4.1E-06 50.1 1.6 50 136-185 334-386 (396)
124 PF08746 zf-RING-like: RING-li 89.2 0.36 7.7E-06 34.3 2.6 40 141-181 1-43 (43)
125 PF00271 Helicase_C: Helicase 88.0 0.36 7.9E-06 37.4 2.2 61 257-320 2-78 (78)
126 PF03854 zf-P11: P-11 zinc fin 87.6 0.23 5E-06 36.0 0.7 43 140-187 4-47 (50)
127 PHA02862 5L protein; Provision 87.4 0.34 7.4E-06 43.3 1.8 47 139-187 3-54 (156)
128 PHA02825 LAP/PHD finger-like p 86.3 0.75 1.6E-05 41.8 3.4 49 137-187 7-60 (162)
129 KOG1940 Zn-finger protein [Gen 85.2 0.46 9.9E-06 47.0 1.6 42 139-183 159-204 (276)
130 PF12906 RINGv: RING-variant d 83.6 0.58 1.3E-05 33.8 1.2 40 141-181 1-47 (47)
131 PF07191 zinc-ribbons_6: zinc- 83.6 0.12 2.7E-06 40.5 -2.5 40 139-186 2-41 (70)
132 KOG0825 PHD Zn-finger protein 81.5 0.84 1.8E-05 50.6 1.9 49 137-185 95-153 (1134)
133 KOG0331 ATP-dependent RNA heli 81.4 2.3 5.1E-05 45.7 5.2 70 219-290 322-400 (519)
134 KOG1815 Predicted E3 ubiquitin 80.4 1.3 2.7E-05 46.9 2.8 59 136-194 68-134 (444)
135 COG1111 MPH1 ERCC4-like helica 79.8 4.4 9.5E-05 43.3 6.5 95 220-323 347-470 (542)
136 KOG3899 Uncharacterized conser 79.6 0.78 1.7E-05 45.4 0.9 38 156-193 325-372 (381)
137 PF04216 FdhE: Protein involve 79.1 0.59 1.3E-05 46.5 -0.1 45 137-184 171-220 (290)
138 COG5183 SSM4 Protein involved 78.6 1.5 3.3E-05 48.9 2.7 54 137-191 11-71 (1175)
139 smart00490 HELICc helicase sup 77.8 1.4 3.1E-05 33.4 1.7 50 268-320 26-82 (82)
140 TIGR01562 FdhE formate dehydro 77.3 0.92 2E-05 45.7 0.6 44 138-184 184-233 (305)
141 COG0513 SrmB Superfamily II DN 73.2 5.7 0.00012 42.8 5.4 65 221-290 259-332 (513)
142 KOG1812 Predicted E3 ubiquitin 72.3 1.9 4.2E-05 44.8 1.5 42 137-181 305-351 (384)
143 PF13871 Helicase_C_4: Helicas 70.9 1.8 3.9E-05 43.0 0.9 48 273-323 55-117 (278)
144 PF05605 zf-Di19: Drought indu 70.5 2.3 5E-05 31.3 1.2 40 137-184 1-40 (54)
145 PRK03564 formate dehydrogenase 70.4 2 4.3E-05 43.4 1.0 44 137-183 186-234 (309)
146 COG3813 Uncharacterized protei 70.4 2.7 5.8E-05 33.3 1.5 35 156-195 27-61 (84)
147 KOG0333 U5 snRNP-like RNA heli 70.1 6.9 0.00015 42.2 5.0 90 220-322 502-608 (673)
148 KOG2789 Putative Zn-finger pro 70.1 4.5 9.8E-05 41.8 3.5 57 138-194 74-153 (482)
149 KOG2068 MOT2 transcription fac 69.7 3.7 8.1E-05 41.5 2.8 45 139-186 250-298 (327)
150 KOG2979 Protein involved in DN 66.7 2.6 5.5E-05 41.2 0.9 47 137-184 175-222 (262)
151 PF14569 zf-UDP: Zinc-binding 66.2 4.9 0.00011 32.3 2.3 48 138-187 9-63 (80)
152 PF10235 Cript: Microtubule-as 65.3 3.8 8.2E-05 33.9 1.5 37 138-186 44-80 (90)
153 PLN02189 cellulose synthase 63.5 9.2 0.0002 44.3 4.7 47 139-187 35-88 (1040)
154 KOG4284 DEAD box protein [Tran 63.3 3.5 7.7E-05 45.4 1.3 84 234-321 268-362 (980)
155 KOG0289 mRNA splicing factor [ 63.3 8.3 0.00018 40.4 3.9 55 139-196 1-56 (506)
156 PF04710 Pellino: Pellino; In 63.2 2.4 5.2E-05 43.9 0.0 50 138-187 328-402 (416)
157 KOG3842 Adaptor protein Pellin 63.0 5.6 0.00012 40.0 2.5 52 137-188 340-416 (429)
158 KOG3799 Rab3 effector RIM1 and 62.9 2 4.3E-05 38.0 -0.6 27 135-166 62-89 (169)
159 KOG2169 Zn-finger transcriptio 61.9 5.6 0.00012 44.1 2.6 63 129-192 297-362 (636)
160 KOG1815 Predicted E3 ubiquitin 59.5 4.8 0.00011 42.5 1.5 40 150-189 178-240 (444)
161 PF04710 Pellino: Pellino; In 59.2 3.1 6.7E-05 43.0 0.0 45 139-186 278-339 (416)
162 PF07975 C1_4: TFIIH C1-like d 58.9 11 0.00024 27.9 2.8 25 155-182 26-50 (51)
163 PF10571 UPF0547: Uncharacteri 58.0 5.1 0.00011 25.4 0.9 9 140-148 2-10 (26)
164 PF06906 DUF1272: Protein of u 57.3 8.8 0.00019 28.9 2.1 44 140-188 7-54 (57)
165 PF14353 CpXC: CpXC protein 56.5 6.5 0.00014 34.0 1.6 49 139-187 2-50 (128)
166 PLN02436 cellulose synthase A 55.5 8.6 0.00019 44.7 2.7 47 139-187 37-90 (1094)
167 KOG2113 Predicted RNA binding 54.6 10 0.00022 38.3 2.7 46 134-184 339-385 (394)
168 PLN02638 cellulose synthase A 54.2 9.3 0.0002 44.4 2.7 46 139-186 18-70 (1079)
169 KOG1829 Uncharacterized conser 54.0 4.9 0.00011 43.8 0.4 41 136-182 509-557 (580)
170 KOG4185 Predicted E3 ubiquitin 52.9 2.6 5.5E-05 41.8 -1.8 45 138-184 207-265 (296)
171 PF13240 zinc_ribbon_2: zinc-r 51.9 5.7 0.00012 24.4 0.3 22 160-184 1-22 (23)
172 KOG0309 Conserved WD40 repeat- 51.8 8.6 0.00019 42.9 1.9 24 154-180 1046-1069(1081)
173 PRK04023 DNA polymerase II lar 51.3 11 0.00025 43.4 2.8 48 137-189 625-677 (1121)
174 KOG0269 WD40 repeat-containing 51.2 12 0.00025 41.9 2.7 46 140-188 781-830 (839)
175 COG0068 HypF Hydrogenase matur 51.0 9.7 0.00021 42.3 2.1 50 136-185 99-183 (750)
176 KOG1356 Putative transcription 50.3 4.9 0.00011 45.2 -0.3 53 136-188 227-284 (889)
177 PF15616 TerY-C: TerY-C metal 48.9 9.2 0.0002 33.8 1.3 41 138-187 77-117 (131)
178 PLN02400 cellulose synthase 48.7 12 0.00026 43.6 2.5 46 139-186 37-89 (1085)
179 PF14446 Prok-RING_1: Prokaryo 48.3 20 0.00042 26.9 2.7 30 138-167 5-38 (54)
180 KOG0824 Predicted E3 ubiquitin 48.3 5.8 0.00013 39.7 -0.1 52 133-187 100-152 (324)
181 PLN02195 cellulose synthase A 48.0 15 0.00032 42.5 3.0 46 139-186 7-59 (977)
182 KOG2231 Predicted E3 ubiquitin 47.3 12 0.00026 41.5 2.2 47 140-186 2-52 (669)
183 PRK11776 ATP-dependent RNA hel 47.2 36 0.00079 35.7 5.7 71 221-297 228-307 (460)
184 PLN02915 cellulose synthase A 46.4 15 0.00032 42.7 2.8 47 138-186 15-68 (1044)
185 PF10497 zf-4CXXC_R1: Zinc-fin 46.3 22 0.00047 30.2 3.1 30 157-186 37-72 (105)
186 PF06844 DUF1244: Protein of u 45.8 9.9 0.00021 29.6 0.9 12 159-170 11-22 (68)
187 smart00647 IBR In Between Ring 44.8 9 0.0002 28.4 0.5 14 155-168 45-58 (64)
188 PRK14714 DNA polymerase II lar 44.7 15 0.00032 43.5 2.4 52 138-189 667-723 (1337)
189 smart00064 FYVE Protein presen 44.6 7.3 0.00016 29.7 -0.0 32 138-169 10-45 (68)
190 KOG3842 Adaptor protein Pellin 43.6 12 0.00025 37.8 1.2 42 140-184 292-350 (429)
191 PRK11595 DNA utilization prote 43.1 21 0.00046 34.1 2.9 39 140-186 7-45 (227)
192 KOG4718 Non-SMC (structural ma 40.8 13 0.00028 35.5 1.0 46 137-185 180-226 (235)
193 KOG0006 E3 ubiquitin-protein l 39.6 16 0.00035 36.9 1.5 14 155-168 341-354 (446)
194 KOG1609 Protein involved in mR 38.8 19 0.00042 35.4 2.0 50 138-188 78-136 (323)
195 PF01363 FYVE: FYVE zinc finge 38.7 11 0.00023 28.9 0.1 32 137-168 8-43 (69)
196 COG5627 MMS21 DNA repair prote 38.6 15 0.00032 35.7 1.0 43 137-180 188-231 (275)
197 KOG0827 Predicted E3 ubiquitin 38.3 2.1 4.5E-05 44.1 -5.0 48 139-189 197-248 (465)
198 smart00249 PHD PHD zinc finger 37.9 20 0.00042 24.3 1.3 42 140-181 1-47 (47)
199 PF02318 FYVE_2: FYVE-type zin 37.4 5.4 0.00012 34.3 -1.9 44 138-183 54-102 (118)
200 cd00065 FYVE FYVE domain; Zinc 36.0 22 0.00048 25.9 1.5 30 139-168 3-36 (57)
201 KOG3053 Uncharacterized conser 36.0 17 0.00037 35.7 1.0 51 136-186 18-82 (293)
202 PF09538 FYDLN_acid: Protein o 35.9 19 0.00041 30.8 1.2 28 161-188 12-39 (108)
203 COG4647 AcxC Acetone carboxyla 35.9 18 0.00039 31.9 1.0 21 143-163 62-82 (165)
204 PTZ00110 helicase; Provisional 34.4 85 0.0018 34.1 6.2 73 221-297 361-442 (545)
205 PF04423 Rad50_zn_hook: Rad50 34.0 17 0.00037 26.7 0.5 12 176-187 21-32 (54)
206 PF13248 zf-ribbon_3: zinc-rib 33.0 17 0.00037 22.7 0.4 11 174-184 15-25 (26)
207 PF12773 DZR: Double zinc ribb 32.9 48 0.001 23.5 2.8 29 158-186 12-40 (50)
208 KOG0334 RNA helicase [RNA proc 32.0 62 0.0013 37.6 4.7 73 219-297 596-678 (997)
209 KOG4218 Nuclear hormone recept 31.5 23 0.0005 36.2 1.2 14 137-150 14-27 (475)
210 KOG0956 PHD finger protein AF1 30.8 28 0.00061 38.7 1.7 27 153-182 43-69 (900)
211 PF10146 zf-C4H2: Zinc finger- 30.4 27 0.00058 33.8 1.4 24 160-186 196-219 (230)
212 KOG0801 Predicted E3 ubiquitin 30.2 16 0.00034 33.5 -0.2 25 137-161 176-203 (205)
213 PF01485 IBR: IBR domain; Int 30.0 14 0.0003 27.3 -0.5 30 139-168 19-58 (64)
214 PF00424 REV: REV protein (ant 29.8 16 0.00034 30.3 -0.2 10 56-65 36-45 (91)
215 TIGR00622 ssl1 transcription f 29.6 37 0.00081 29.2 2.0 40 140-182 57-110 (112)
216 KOG4443 Putative transcription 29.1 27 0.00058 38.5 1.2 47 137-183 17-70 (694)
217 TIGR00143 hypF [NiFe] hydrogen 29.0 28 0.00061 39.2 1.4 50 137-186 67-151 (711)
218 PRK14559 putative protein seri 29.0 30 0.00064 38.6 1.6 24 160-186 29-52 (645)
219 KOG0339 ATP-dependent RNA heli 28.4 55 0.0012 35.5 3.3 37 240-276 470-515 (731)
220 KOG2807 RNA polymerase II tran 28.3 48 0.001 33.7 2.7 42 138-182 330-374 (378)
221 PF09986 DUF2225: Uncharacteri 28.0 29 0.00063 33.0 1.2 53 136-191 3-64 (214)
222 cd00350 rubredoxin_like Rubred 27.9 39 0.00085 22.3 1.4 11 174-184 16-26 (33)
223 PF10186 Atg14: UV radiation r 27.7 33 0.00071 33.4 1.5 21 140-168 1-21 (302)
224 TIGR02621 cas3_GSU0051 CRISPR- 27.3 57 0.0012 37.5 3.4 81 237-321 271-379 (844)
225 COG3492 Uncharacterized protei 27.3 25 0.00053 29.2 0.4 12 159-170 42-53 (104)
226 KOG0006 E3 ubiquitin-protein l 27.1 40 0.00087 34.1 2.0 33 136-168 219-253 (446)
227 PRK11088 rrmA 23S rRNA methylt 26.7 36 0.00079 33.1 1.6 22 139-160 3-27 (272)
228 PRK11192 ATP-dependent RNA hel 26.5 1.7E+02 0.0036 30.4 6.6 72 221-298 231-311 (434)
229 PRK06266 transcription initiat 26.5 26 0.00056 32.5 0.5 34 136-187 115-148 (178)
230 KOG2066 Vacuolar assembly/sort 26.3 27 0.00059 39.3 0.7 31 138-168 784-821 (846)
231 PLN02248 cellulose synthase-li 26.3 41 0.00089 39.5 2.1 32 155-189 149-180 (1135)
232 KOG0328 Predicted ATP-dependen 26.2 68 0.0015 32.4 3.3 48 240-289 268-324 (400)
233 PHA02558 uvsW UvsW helicase; P 26.1 1.3E+02 0.0028 32.3 5.8 83 237-324 343-444 (501)
234 PRK01297 ATP-dependent RNA hel 26.0 1.6E+02 0.0035 31.0 6.5 71 221-297 321-400 (475)
235 TIGR00373 conserved hypothetic 25.9 23 0.0005 32.1 0.1 34 136-187 107-140 (158)
236 TIGR02300 FYDLN_acid conserved 25.8 33 0.00072 30.2 1.0 17 172-188 23-39 (129)
237 PRK04837 ATP-dependent RNA hel 25.8 1.4E+02 0.0031 30.8 6.0 72 221-298 241-321 (423)
238 PF13901 DUF4206: Domain of un 25.3 50 0.0011 31.2 2.2 39 137-183 151-197 (202)
239 PF00628 PHD: PHD-finger; Int 25.0 19 0.00042 25.6 -0.5 43 140-182 1-49 (51)
240 PF09723 Zn-ribbon_8: Zinc rib 24.9 31 0.00066 24.1 0.5 25 155-183 10-34 (42)
241 KOG1729 FYVE finger containing 24.7 16 0.00036 36.5 -1.2 53 134-186 164-225 (288)
242 KOG1814 Predicted E3 ubiquitin 24.5 33 0.00072 35.9 0.9 32 137-168 367-404 (445)
243 COG5242 TFB4 RNA polymerase II 24.1 37 0.0008 32.9 1.0 13 174-186 273-285 (296)
244 KOG0314 Predicted E3 ubiquitin 23.8 24 0.00053 37.3 -0.2 45 135-183 216-263 (448)
245 PTZ00303 phosphatidylinositol 23.6 45 0.00098 37.7 1.7 30 139-168 461-499 (1374)
246 smart00290 ZnF_UBP Ubiquitin C 23.6 50 0.0011 23.4 1.5 25 140-164 1-25 (50)
247 PRK00564 hypA hydrogenase nick 23.5 33 0.00072 29.5 0.6 9 176-184 89-97 (117)
248 PF13719 zinc_ribbon_5: zinc-r 23.4 49 0.0011 22.5 1.3 13 139-151 3-15 (37)
249 COG4098 comFA Superfamily II D 23.3 31 0.00066 35.7 0.4 32 136-167 37-69 (441)
250 PF13717 zinc_ribbon_4: zinc-r 22.9 51 0.0011 22.3 1.3 11 139-149 3-13 (36)
251 KOG3726 Uncharacterized conser 21.8 46 0.00099 37.0 1.3 37 140-183 656-697 (717)
252 PF09889 DUF2116: Uncharacteri 21.4 59 0.0013 24.8 1.5 15 174-188 2-16 (59)
253 COG1198 PriA Primosomal protei 21.3 48 0.001 37.5 1.4 24 157-184 461-484 (730)
254 KOG4451 Uncharacterized conser 21.2 55 0.0012 31.7 1.6 24 160-186 251-274 (286)
255 PF03833 PolC_DP2: DNA polymer 20.9 32 0.0007 39.2 0.0 46 137-187 654-704 (900)
256 TIGR00614 recQ_fam ATP-depende 20.9 2.6E+02 0.0056 29.6 6.8 90 222-320 212-321 (470)
257 PRK04537 ATP-dependent RNA hel 20.5 2.1E+02 0.0046 31.3 6.2 72 221-298 243-323 (572)
258 COG5574 PEX10 RING-finger-cont 20.2 79 0.0017 31.2 2.5 38 133-170 90-132 (271)
No 1
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=99.97 E-value=2.8e-33 Score=283.58 Aligned_cols=191 Identities=17% Similarity=0.184 Sum_probs=149.6
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhhhhhh--cCCCCCCCCCCcccCCCCceecccCCCchhhhhhhhhcccCC
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYA--YRNVKECPACNGEVTDASIIPIYGNGNSNDLQKLKSKESCLK 213 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~--~~~~~~CP~Cr~~i~~~~l~~~~~~~~~~~~~k~~~~~~~~~ 213 (423)
..+..|.+|.++.++++.+.|.|.||+.|+.+|... .....+||+|...++.+.-.|....-.. ...+....-..++
T Consensus 534 k~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l-~~Fk~sSIlnRin 612 (791)
T KOG1002|consen 534 KGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDL-KGFKASSILNRIN 612 (791)
T ss_pred cCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcch-hhhhhHHHhhhcc
Confidence 456799999999999999999999999999998542 2345889999999887644443321111 1112122224567
Q ss_pred CCCCCCchhhHHHHHHHHhc-CCCCCCceEEcccchhHHHHHHHhhhhCCCCcccc---------cchhcccCCCCCcce
Q 039490 214 VPPRPLARRIESVRQQLVNR-RPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVR---------SGELEVNDPLLHISR 283 (423)
Q Consensus 214 ~~~~~~stKieaLr~~L~~~-~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~---------d~~l~~f~~~dp~~~ 283 (423)
+..+.+++|||+|++.|... ..+-+.|+|||||||+|||+|++.|.+.|+.++.. |.+|+.| +.++.|+
T Consensus 613 m~~~qsSTKIEAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F-~nd~~c~ 691 (791)
T KOG1002|consen 613 MDDWQSSTKIEALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYF-KNDIDCR 691 (791)
T ss_pred hhhhcchhHHHHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHh-ccCCCeE
Confidence 77899999999999988866 67888999999999999999999999999997764 4566889 9999999
Q ss_pred EEEecccccccccchhc-------hhhhhhhccccceeeccccCccccccCCCC
Q 039490 284 VLPASISSLSSALTSAM-------DSAERLVGDLEAYINSDNLRRNHQEFSHAD 330 (423)
Q Consensus 284 VLL~SLkaggvGLN~~l-------~~A~~~~~~~qa~~r~hriGq~~~~~~~~~ 330 (423)
|||+|||||||+||++- +|=|..+-+.||-+|+|||| |.+|+...
T Consensus 692 vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIG--Q~rPvkvv 743 (791)
T KOG1002|consen 692 VFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIG--QYRPVKVV 743 (791)
T ss_pred EEEEEeccCceEeeechhceeEeecccccHHHHhhhhhhHHhhc--CccceeEE
Confidence 99999999999999754 33333322379999999999 78888443
No 2
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=99.83 E-value=3.1e-22 Score=216.30 Aligned_cols=170 Identities=17% Similarity=0.178 Sum_probs=130.6
Q ss_pred cccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCCCchhhhhhhhhcccCCCCCCC
Q 039490 139 FDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNGNSNDLQKLKSKESCLKVPPRP 218 (423)
Q Consensus 139 ~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~~~~~~~k~~~~~~~~~~~~~~ 218 (423)
+.|.||.+ ...++++.|||.||..|+...+.. .....||.|+..+....+............ . .+
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~~-~~~~~~~~cr~~l~~~~l~s~~~~~~~~~~-----------~--~~ 519 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQQ-SENAPCPLCRNVLKEKKLLSANPLPSIIND-----------L--LP 519 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhcccc-ccCCCCcHHHHHHHHHHHhhcccccchhhh-----------c--cc
Confidence 79999999 888899999999999999998763 344489999998877666543333222111 0 11
Q ss_pred CchhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccch---------hcccCCCCCcceEEEecc
Q 039490 219 LARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSGE---------LEVNDPLLHISRVLPASI 289 (423)
Q Consensus 219 ~stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~~---------l~~f~~~dp~~~VLL~SL 289 (423)
.+.||.++.+.|.....++.+|.++||||+.||++++..|...++.+.+++|. +..| ..+|.++||++||
T Consensus 520 ~s~ki~~~~~~l~~~~~s~~~kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~-~~~~~~~vll~Sl 598 (674)
T KOG1001|consen 520 ESSKIYAFLKILQAKEMSEQPKIVIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDF-PCDPLVTALLMSL 598 (674)
T ss_pred hhhhhHHHHHHHhhccCCCCCceeeehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhccc-ccCccHHHHHHHH
Confidence 67889998888875543333699999999999999999999999998887754 4667 6889999999999
Q ss_pred cccccccchhc-------hhhhhh-hccccceeeccccCccccc
Q 039490 290 SSLSSALTSAM-------DSAERL-VGDLEAYINSDNLRRNHQE 325 (423)
Q Consensus 290 kaggvGLN~~l-------~~A~~~-~~~~qa~~r~hriGq~~~~ 325 (423)
|||++|||++. ++.|.. +| .|||+|+|||||.+..
T Consensus 599 kag~~glnlt~a~~v~~~d~~wnp~~e-eQaidR~hrigq~k~v 641 (674)
T KOG1001|consen 599 KAGKVGLNLTAASHVLLMDPWWNPAVE-EQAIDRAHRIGQTKPV 641 (674)
T ss_pred HHhhhhhchhhhhHHHhhchhcChHHH-HHHHHHHHHhccccee
Confidence 99999999654 333333 44 4999999999954443
No 3
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.73 E-value=1.1e-18 Score=163.65 Aligned_cols=91 Identities=51% Similarity=1.065 Sum_probs=76.9
Q ss_pred CCCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCCCchhhhhhhhhcccCCC
Q 039490 135 GGEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNGNSNDLQKLKSKESCLKV 214 (423)
Q Consensus 135 ~~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~~~~~~~k~~~~~~~~~~ 214 (423)
+...|.|.||++..++||++.|||.|||.||++|+....+...||+|+..++.+.++|+|+.+....... ...++
T Consensus 44 ~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYGrG~~~~~~~-----~~~~v 118 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYGRGSKKPSDP-----RKKDV 118 (230)
T ss_pred CCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeeccCCCCCCCc-----ccccC
Confidence 4578999999999999999999999999999999988888899999999999999999999887433221 11239
Q ss_pred CCCCCchhhHHHHHHH
Q 039490 215 PPRPLARRIESVRQQL 230 (423)
Q Consensus 215 ~~~~~stKieaLr~~L 230 (423)
|++|.+.+.|.++...
T Consensus 119 P~RP~~~R~e~~~p~~ 134 (230)
T KOG0823|consen 119 PPRPAGQRYESKRPTP 134 (230)
T ss_pred CCCCCCccccccCCCC
Confidence 9999999988765554
No 4
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=99.54 E-value=2.5e-15 Score=166.73 Aligned_cols=148 Identities=18% Similarity=0.253 Sum_probs=118.3
Q ss_pred CCcccccccccccc-CcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCCCchhhhhhhhhcccCCC
Q 039490 136 GEFFDCNICLDMAR-DPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNGNSNDLQKLKSKESCLKV 214 (423)
Q Consensus 136 ~e~~~C~ICle~~~-~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~~~~~~~k~~~~~~~~~~ 214 (423)
...+.|+||++.+. ...++.|||.||..|+..|+ ..+..||.|+. .
T Consensus 1151 ~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l---~~~s~~~~~ks-------------------i----------- 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWL---YASSRCPICKS-------------------I----------- 1197 (1394)
T ss_pred hcccchHHHHHHHHhcCCeeeechhHhhhHHHHHH---HHhccCcchhh-------------------h-----------
Confidence 35568999999998 56788999999999999994 46788999971 0
Q ss_pred CCCCCchhhHHH-HHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCccccc------chhcccCCCCCcceEEEe
Q 039490 215 PPRPLARRIESV-RQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRS------GELEVNDPLLHISRVLPA 287 (423)
Q Consensus 215 ~~~~~stKieaL-r~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d------~~l~~f~~~dp~~~VLL~ 287 (423)
....++||+.+ +..++.+..++-+|.||||||+..||.++.++..++|.+.... ..+..| + .+.+|++
T Consensus 1198 -~~dfg~kI~~v~~~il~iK~k~~qekvIvfsqws~~ldV~e~~~~~N~I~~~~~~~t~d~~dc~~~f-k---~I~clll 1272 (1394)
T KOG0298|consen 1198 -KGDFGTKIDSVVIAILYIKFKNEQEKVIVFSQWSVVLDVKELRYLMNLIKKQLDGETEDFDDCIICF-K---SIDCLLL 1272 (1394)
T ss_pred -hhhhccCchhHHHHHHHHhccCcCceEEEEEehHHHHHHHHHHHHhhhhHhhhccCCcchhhhhhhc-c---cceEEEE
Confidence 01236788887 7777777788889999999999999999999999999966433 344555 3 2789999
Q ss_pred cccccccccch----------h-chhhhhhhccccceeeccccCccccccC
Q 039490 288 SISSLSSALTS----------A-MDSAERLVGDLEAYINSDNLRRNHQEFS 327 (423)
Q Consensus 288 SLkaggvGLN~----------~-l~~A~~~~~~~qa~~r~hriGq~~~~~~ 327 (423)
-.+.|+.|||+ | ||++.+ +||+-|+||||| .+||
T Consensus 1273 ~~~~~~~GLNL~eA~Hvfl~ePiLN~~~E----~QAigRvhRiGQ--~~pT 1317 (1394)
T KOG0298|consen 1273 FVSKGSKGLNLIEATHVFLVEPILNPGDE----AQAIGRVHRIGQ--KRPT 1317 (1394)
T ss_pred EeccCcccccHHhhhhhheeccccCchHH----Hhhhhhhhhccc--ccch
Confidence 99999999994 1 277766 499999999994 5555
No 5
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.50 E-value=2.5e-14 Score=132.06 Aligned_cols=83 Identities=48% Similarity=1.076 Sum_probs=66.6
Q ss_pred CCCccccccccccccCcEEccCCCccchhhHhhhhhhc-------------CCCCCCCCCCcccCCCCceecccCCCchh
Q 039490 135 GGEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAY-------------RNVKECPACNGEVTDASIIPIYGNGNSND 201 (423)
Q Consensus 135 ~~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~-------------~~~~~CP~Cr~~i~~~~l~~~~~~~~~~~ 201 (423)
..+.+.|+||++.+.+|++++|||.||+.||..|+... .....||+|+..++...++++|..+..
T Consensus 15 ~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiygrg~~-- 92 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYGRGQK-- 92 (193)
T ss_pred CCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeeccCCC--
Confidence 34678999999999999999999999999999997521 234689999999999999999987652
Q ss_pred hhhhhhhcccCCCCCCCCchhhH
Q 039490 202 LQKLKSKESCLKVPPRPLARRIE 224 (423)
Q Consensus 202 ~~k~~~~~~~~~~~~~~~stKie 224 (423)
....+..+|++|.+...+
T Consensus 93 -----~~~~~~~iP~rp~~~~~~ 110 (193)
T PLN03208 93 -----APQSGSNVPSRPSGPVYD 110 (193)
T ss_pred -----CCCCCCCCCcCCCCCccC
Confidence 233456788888775433
No 6
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=99.45 E-value=4.7e-14 Score=150.82 Aligned_cols=110 Identities=9% Similarity=-0.021 Sum_probs=91.1
Q ss_pred CCCCCchhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccch---------hcccCCCCCcceEE
Q 039490 215 PPRPLARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSGE---------LEVNDPLLHISRVL 285 (423)
Q Consensus 215 ~~~~~stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~~---------l~~f~~~dp~~~VL 285 (423)
.++..+.|+..|-.+|..... .+.++++|||||.|||+||..|.-.+++|.|.||+ |+.| ..|-...||
T Consensus 755 ~~~mdSgK~r~L~~LLp~~k~-~G~RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~F-n~d~difVF 832 (941)
T KOG0389|consen 755 DLWMDSGKCRKLKELLPKIKK-KGDRVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEF-NTDKDIFVF 832 (941)
T ss_pred chhhhhhhHhHHHHHHHHHhh-cCCEEEEeeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhh-ccCCceEEE
Confidence 455568899998888876643 45799999999999999999999999999998874 5889 788899999
Q ss_pred Eecccccccccchhchhh-------hhhhccccceeeccccCcccccc
Q 039490 286 PASISSLSSALTSAMDSA-------ERLVGDLEAYINSDNLRRNHQEF 326 (423)
Q Consensus 286 L~SLkaggvGLN~~l~~A-------~~~~~~~qa~~r~hriGq~~~~~ 326 (423)
|+|-||||.|+|+|.... ..++-|.||=+|.||+||..+..
T Consensus 833 LLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAEDRcHRvGQtkpVt 880 (941)
T KOG0389|consen 833 LLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPVT 880 (941)
T ss_pred EEeeccCcceecccccceEEEeecCCCCcccchhHHHHHhhCCcceeE
Confidence 999999999999776322 33478899999999999544443
No 7
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=99.32 E-value=1e-12 Score=140.45 Aligned_cols=89 Identities=11% Similarity=0.015 Sum_probs=74.2
Q ss_pred CCCceEEcccchhHHHHHHHhhhhCCCCcccccc---------hhcccCCCCCcceEEEecccccccccchhc-------
Q 039490 237 STPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSG---------ELEVNDPLLHISRVLPASISSLSSALTSAM------- 300 (423)
Q Consensus 237 p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~---------~l~~f~~~dp~~~VLL~SLkaggvGLN~~l------- 300 (423)
.+.++++|||||.|||+|++-..-.++.+.+.|| +|+.|......+.|||+|-+|||+|+|++.
T Consensus 486 ~GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIly 565 (971)
T KOG0385|consen 486 QGHRVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILY 565 (971)
T ss_pred CCCeEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccccccccccEEEEe
Confidence 4559999999999999999999999999888776 568893333368899999999999999755
Q ss_pred hhhhhhhccccceeeccccCccccccC
Q 039490 301 DSAERLVGDLEAYINSDNLRRNHQEFS 327 (423)
Q Consensus 301 ~~A~~~~~~~qa~~r~hriGq~~~~~~ 327 (423)
++-|.+--||||.+|.||||| ..|+
T Consensus 566 DSDWNPQ~DLQAmDRaHRIGQ--~K~V 590 (971)
T KOG0385|consen 566 DSDWNPQVDLQAMDRAHRIGQ--KKPV 590 (971)
T ss_pred cCCCCchhhhHHHHHHHhhCC--cCce
Confidence 556666668999999999995 5555
No 8
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.28 E-value=1.9e-12 Score=146.05 Aligned_cols=107 Identities=11% Similarity=0.015 Sum_probs=82.7
Q ss_pred chhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccc---------hhcccCCCCCcceEEEeccc
Q 039490 220 ARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSG---------ELEVNDPLLHISRVLPASIS 290 (423)
Q Consensus 220 stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~---------~l~~f~~~dp~~~VLL~SLk 290 (423)
+.|+..|.++|.... ..+.|+||||||+.+|++|+..|...|+.+.+.+| .|+.|+..+....|||+|.+
T Consensus 470 SgKl~lLdkLL~~Lk-~~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTr 548 (1033)
T PLN03142 470 SGKMVLLDKLLPKLK-ERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTR 548 (1033)
T ss_pred hhHHHHHHHHHHHHH-hcCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEecc
Confidence 456666666655433 35679999999999999999999999999887665 45889444446679999999
Q ss_pred ccccccchhc-------hhhhhhhccccceeeccccCccccccC
Q 039490 291 SLSSALTSAM-------DSAERLVGDLEAYINSDNLRRNHQEFS 327 (423)
Q Consensus 291 aggvGLN~~l-------~~A~~~~~~~qa~~r~hriGq~~~~~~ 327 (423)
|||+|||++. ++-|.+..|+||++|+|||||.+...+
T Consensus 549 AGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~V 592 (1033)
T PLN03142 549 AGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQV 592 (1033)
T ss_pred ccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEE
Confidence 9999999654 555555556799999999997765433
No 9
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.26 E-value=2.7e-12 Score=90.97 Aligned_cols=41 Identities=46% Similarity=0.984 Sum_probs=32.0
Q ss_pred cccccccccCcEEccCCCccchhhHhhhhhhcCCC-CCCCCC
Q 039490 141 CNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNV-KECPAC 181 (423)
Q Consensus 141 C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~-~~CP~C 181 (423)
||||+++|.+||.++|||+||..||..||+..... ..||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999999999999999999998744333 689988
No 10
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=99.24 E-value=4.2e-12 Score=141.04 Aligned_cols=101 Identities=12% Similarity=0.032 Sum_probs=83.6
Q ss_pred hHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccc---------hhcccCCCCCcceEEEecccccc
Q 039490 223 IESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSG---------ELEVNDPLLHISRVLPASISSLS 293 (423)
Q Consensus 223 ieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~---------~l~~f~~~dp~~~VLL~SLkagg 293 (423)
++.|...|.. .|.++++|||...|||+|++-|...++.|-+.|| +|+.|...+....|||+|-+|||
T Consensus 688 LDKLL~rLk~----~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGG 763 (1373)
T KOG0384|consen 688 LDKLLPRLKE----GGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGG 763 (1373)
T ss_pred HHHHHHHHhc----CCceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCc
Confidence 4444444443 4459999999999999999999999999999886 56889655567789999999999
Q ss_pred cccchhc-------hhhhhhhccccceeeccccCccccccC
Q 039490 294 SALTSAM-------DSAERLVGDLEAYINSDNLRRNHQEFS 327 (423)
Q Consensus 294 vGLN~~l-------~~A~~~~~~~qa~~r~hriGq~~~~~~ 327 (423)
+|+|++- ++=|.+=-||||-+|.|||||..+.-+
T Consensus 764 LGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnV 804 (1373)
T KOG0384|consen 764 LGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNV 804 (1373)
T ss_pred ccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEE
Confidence 9999755 666777789999999999999887755
No 11
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.22 E-value=4.1e-12 Score=97.03 Aligned_cols=57 Identities=21% Similarity=0.331 Sum_probs=50.3
Q ss_pred ccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCC
Q 039490 138 FFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNG 197 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~ 197 (423)
++.||||++.+.+|++++|||+||+.||..|+.. ...||.|+.+++..+++++..+.
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~---~~~cP~~~~~~~~~~l~~~~~l~ 57 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWLLS---HGTDPVTGQPLTHEDLIPNLALK 57 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH---CCCCCCCcCCCChhhceeCHHHH
Confidence 3689999999999999999999999999999763 67899999999888888876543
No 12
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=5.6e-12 Score=114.08 Aligned_cols=57 Identities=35% Similarity=0.823 Sum_probs=48.9
Q ss_pred CCccccccccccccCc--EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceeccc
Q 039490 136 GEFFDCNICLDMARDP--VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYG 195 (423)
Q Consensus 136 ~e~~~C~ICle~~~~p--v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~ 195 (423)
+..+.||||++.+.+- +.+.|||+||..||+.. .+....||+|++.++.++++++|.
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~a---lk~~~~CP~C~kkIt~k~~~rI~L 187 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDA---LKNTNKCPTCRKKITHKQFHRIYL 187 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHH---HHhCCCCCCcccccchhhheeccC
Confidence 4558999999998764 56999999999999997 456789999999999999998873
No 13
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.14 E-value=1.8e-11 Score=118.46 Aligned_cols=57 Identities=32% Similarity=0.784 Sum_probs=48.9
Q ss_pred CCCCCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCcee
Q 039490 133 AGGGEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIP 192 (423)
Q Consensus 133 ~~~~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~ 192 (423)
...+....|.+|++...+|..|||||+||+.||..|+. ....||+||..+++.+++-
T Consensus 234 ~i~~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~---ek~eCPlCR~~~~pskvi~ 290 (293)
T KOG0317|consen 234 SIPEATRKCSLCLENRSNPSATPCGHIFCWSCILEWCS---EKAECPLCREKFQPSKVIC 290 (293)
T ss_pred cCCCCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHc---cccCCCcccccCCCcceee
Confidence 34456689999999999999999999999999999954 5667999999998877653
No 14
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=99.09 E-value=5.7e-11 Score=126.21 Aligned_cols=106 Identities=15% Similarity=0.059 Sum_probs=86.3
Q ss_pred CCchhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccc---------hhcccCCCCCcceEEEec
Q 039490 218 PLARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSG---------ELEVNDPLLHISRVLPAS 288 (423)
Q Consensus 218 ~~stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~---------~l~~f~~~dp~~~VLL~S 288 (423)
..+.|+..+.+.+...-.....|.+|.|||+++|++++.+++..|..+...+| -++.|..+....+|||+|
T Consensus 726 r~S~Ki~~~l~~le~i~~~skeK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlS 805 (901)
T KOG4439|consen 726 RPSCKIAMVLEILETILTSSKEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLS 805 (901)
T ss_pred cchhHHHHHHHHHHHHhhcccceeeehhHHHHHHHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEE
Confidence 35778888888877665566779999999999999999999999999887665 457885555569999999
Q ss_pred ccccccccchhc-----------hhhhhhhccccceeeccccCccccccC
Q 039490 289 ISSLSSALTSAM-----------DSAERLVGDLEAYINSDNLRRNHQEFS 327 (423)
Q Consensus 289 LkaggvGLN~~l-----------~~A~~~~~~~qa~~r~hriGq~~~~~~ 327 (423)
|.|||||||+.- |||.+ -||.+||-|+||+....+
T Consensus 806 LtAGGVGLNL~GaNHlilvDlHWNPaLE----qQAcDRIYR~GQkK~V~I 851 (901)
T KOG4439|consen 806 LTAGGVGLNLIGANHLILVDLHWNPALE----QQACDRIYRMGQKKDVFI 851 (901)
T ss_pred EccCcceeeecccceEEEEecccCHHHH----HHHHHHHHHhcccCceEE
Confidence 999999999532 66655 499999999997766544
No 15
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=99.05 E-value=1.4e-10 Score=128.97 Aligned_cols=114 Identities=12% Similarity=0.000 Sum_probs=90.9
Q ss_pred CCCCCCCchhhHHHHHHHHhcC--CC-----------CCCceEEcccchhHHHHHHHhhhhCCCC---cccccchh----
Q 039490 213 KVPPRPLARRIESVRQQLVNRR--PV-----------STPIEVRIQQFNSIVDAARHQTGSLDLD---AAVRSGEL---- 272 (423)
Q Consensus 213 ~~~~~~~stKieaLr~~L~~~~--~~-----------p~~K~iVFSQftsfLdlle~~L~~~gi~---~~~~d~~l---- 272 (423)
.+..-..+.|+++|.++|..=+ ++ .+.+.++|=||.+|||+++..|.+.-+. +.+.||++
T Consensus 1302 ~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL~k~~mpsVtymRLDGSVpp~~ 1381 (1549)
T KOG0392|consen 1302 SLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPGD 1381 (1549)
T ss_pred hHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHHhhhhcCceeEEEecCCCCcHH
Confidence 3444456889999999988542 11 3458999999999999999998887665 55677755
Q ss_pred -----cccCCCCCcceEEEecccccccccchhc-------hhhhhhhccccceeeccccCccccccC
Q 039490 273 -----EVNDPLLHISRVLPASISSLSSALTSAM-------DSAERLVGDLEAYINSDNLRRNHQEFS 327 (423)
Q Consensus 273 -----~~f~~~dp~~~VLL~SLkaggvGLN~~l-------~~A~~~~~~~qa~~r~hriGq~~~~~~ 327 (423)
+.| ++||..-|||+.-+.||+|||+|= +-=|.++-||||++|-|||||++-..+
T Consensus 1382 R~kiV~~F-N~DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrDLQAMDRAHRIGQKrvVNV 1447 (1549)
T KOG0392|consen 1382 RQKIVERF-NEDPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRDLQAMDRAHRIGQKRVVNV 1447 (1549)
T ss_pred HHHHHHHh-cCCCceeEEEEeeeccccccccCCCceEEEEecCCCchhhHHHHHHHHhhcCceeeee
Confidence 788 899999999999999999999653 333666889999999999998776544
No 16
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.03 E-value=7.6e-11 Score=120.71 Aligned_cols=68 Identities=28% Similarity=0.517 Sum_probs=57.9
Q ss_pred CCCCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCCCchhhhh
Q 039490 134 GGGEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNGNSNDLQK 204 (423)
Q Consensus 134 ~~~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~~~~~~~k 204 (423)
..+..+.|+||++.|.+|++++|||.||..||..|+. ....||+|+..+....+..++.+.+++..++
T Consensus 22 ~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~---~~~~CP~Cr~~~~~~~Lr~N~~L~~iVe~~~ 89 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLS---NQPKCPLCRAEDQESKLRSNWLVSEIVESFK 89 (397)
T ss_pred ccccccCCCcCchhhhCccCCCCCCchhHHHHHHHHh---CCCCCCCCCCccccccCccchHHHHHHHHHH
Confidence 3456789999999999999999999999999999965 3458999999998878888888777766554
No 17
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=99.02 E-value=7.4e-11 Score=93.50 Aligned_cols=65 Identities=22% Similarity=0.285 Sum_probs=51.3
Q ss_pred CccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCCCchhhh
Q 039490 137 EFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNGNSNDLQ 203 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~~~~~~~ 203 (423)
+.|.||||.+++.+||+++|||+|++.||..|+. .....||+|+.++...++.+|..+...+..+
T Consensus 3 ~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~--~~~~~~P~t~~~l~~~~l~pn~~Lk~~I~~~ 67 (73)
T PF04564_consen 3 DEFLCPITGELMRDPVILPSGHTYERSAIERWLE--QNGGTDPFTRQPLSESDLIPNRALKSAIEEW 67 (73)
T ss_dssp GGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHC--TTSSB-TTT-SB-SGGGSEE-HHHHHHHHHH
T ss_pred cccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHH--cCCCCCCCCCCcCCcccceECHHHHHHHHHH
Confidence 5789999999999999999999999999999965 3578999999999999999998776655544
No 18
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=2e-10 Score=118.61 Aligned_cols=61 Identities=31% Similarity=0.724 Sum_probs=53.7
Q ss_pred ccccccccccccCcEEccCCCccchhhHhhhhhhc--CCCCCCCCCCcccCCCCceecccCCC
Q 039490 138 FFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAY--RNVKECPACNGEVTDASIIPIYGNGN 198 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~--~~~~~CP~Cr~~i~~~~l~~~~~~~~ 198 (423)
...||||++...-|+.+.|||+||..||.++|... .....||+|+..+...++.+.+....
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~~ 248 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIEDD 248 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeeccc
Confidence 67899999999999999999999999999988632 45678999999999999999887654
No 19
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.95 E-value=3.9e-10 Score=82.68 Aligned_cols=46 Identities=41% Similarity=0.858 Sum_probs=40.1
Q ss_pred ccccccccccccCcEEccCCCc-cchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 138 FFDCNICLDMARDPVLTCCGHL-FCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~~CGH~-FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
+..|.||++.+.++++++|||. ||..|+..|+. ....||+||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~---~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK---RKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH---TTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc---cCCCCCcCChhhc
Confidence 5689999999999999999999 99999999965 6789999999875
No 20
>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=98.95 E-value=2.3e-10 Score=79.63 Aligned_cols=38 Identities=50% Similarity=1.099 Sum_probs=32.2
Q ss_pred cccccccccCc-EEccCCCccchhhHhhhhhhcCCCCCCCCC
Q 039490 141 CNICLDMARDP-VLTCCGHLFCWSCFYQLPYAYRNVKECPAC 181 (423)
Q Consensus 141 C~ICle~~~~p-v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~C 181 (423)
|+||++.+.+| ++++|||+||+.|+..|++. ...||+|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~---~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK---NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC---TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC---cCCCcCC
Confidence 89999999999 57999999999999999662 5789998
No 21
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.93 E-value=5.7e-10 Score=107.18 Aligned_cols=48 Identities=27% Similarity=0.738 Sum_probs=39.8
Q ss_pred CCccccccccccccCc--------EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 136 GEFFDCNICLDMARDP--------VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 136 ~e~~~C~ICle~~~~p--------v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
..+..|+||++.+.++ ++++|||.||..||..|+. ....||+||.++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~---~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK---EKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh---cCCCCCCCCCEee
Confidence 3467999999987653 5678999999999999954 5679999999876
No 22
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=98.92 E-value=7.4e-10 Score=123.45 Aligned_cols=107 Identities=11% Similarity=0.079 Sum_probs=81.9
Q ss_pred hhhHHHHHHH-HhcCCCCC--CceEEcccchhHHHHHHHhhhhCCCCcccccc---------hhcccCCCCCcceEEEec
Q 039490 221 RRIESVRQQL-VNRRPVST--PIEVRIQQFNSIVDAARHQTGSLDLDAAVRSG---------ELEVNDPLLHISRVLPAS 288 (423)
Q Consensus 221 tKieaLr~~L-~~~~~~p~--~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~---------~l~~f~~~dp~~~VLL~S 288 (423)
.|...+.+.+ ..... .+ .|.++|+||+.||++++..|...++.+.+.+| .++.| ..++...||++|
T Consensus 692 ~k~~~l~~ll~~~~~~-~~~~~kvlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f-~~~~~~~v~lls 769 (866)
T COG0553 692 GKLQALDELLLDKLLE-EGHYHKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRF-NADEEEKVFLLS 769 (866)
T ss_pred hHHHHHHHHHHHHHHh-hcccccEEEEeCcHHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHh-hcCCCCceEEEE
Confidence 5677776666 32322 23 39999999999999999999999988777766 45788 555788999999
Q ss_pred ccccccccchhc-----------hhhhhhhccccceeeccccCccccccC--CCCccc
Q 039490 289 ISSLSSALTSAM-----------DSAERLVGDLEAYINSDNLRRNHQEFS--HADTDS 333 (423)
Q Consensus 289 LkaggvGLN~~l-----------~~A~~~~~~~qa~~r~hriGq~~~~~~--~~~~~~ 333 (423)
+||||+|||++. |||.+ .||.+|.|||||.....+ .-.+++
T Consensus 770 ~kagg~glnLt~a~~vi~~d~~wnp~~~----~Qa~dRa~RigQ~~~v~v~r~i~~~t 823 (866)
T COG0553 770 LKAGGLGLNLTGADTVILFDPWWNPAVE----LQAIDRAHRIGQKRPVKVYRLITRGT 823 (866)
T ss_pred ecccccceeecccceEEEeccccChHHH----HHHHHHHHHhcCcceeEEEEeecCCc
Confidence 999999999764 55544 599999999997665555 333454
No 23
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.92 E-value=1.6e-10 Score=113.62 Aligned_cols=65 Identities=23% Similarity=0.529 Sum_probs=56.9
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCCCchhhh
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNGNSNDLQ 203 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~~~~~~~ 203 (423)
...+.|-||.++|..|++++|||+||.-||..+ ...+..||.|..++...++..++.+..++..+
T Consensus 21 D~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~---L~~~p~CP~C~~~~~Es~Lr~n~il~Eiv~S~ 85 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIPMITPCSHTFCSLCIRKF---LSYKPQCPTCCVTVTESDLRNNRILDEIVKSL 85 (442)
T ss_pred HHHHHHhHHHHHhcCceeccccchHHHHHHHHH---hccCCCCCceecccchhhhhhhhHHHHHHHHH
Confidence 356799999999999999999999999999998 55788999999999999998888776665544
No 24
>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=98.87 E-value=1.2e-09 Score=76.56 Aligned_cols=40 Identities=43% Similarity=0.987 Sum_probs=36.5
Q ss_pred cccccccccCcE-EccCCCccchhhHhhhhhhcCCCCCCCCC
Q 039490 141 CNICLDMARDPV-LTCCGHLFCWSCFYQLPYAYRNVKECPAC 181 (423)
Q Consensus 141 C~ICle~~~~pv-~~~CGH~FC~~Ci~~~~~~~~~~~~CP~C 181 (423)
|+||++.+.+++ +++|||.||..|+..|++. .....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~-~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLEN-SGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHH-TSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHh-cCCccCCcC
Confidence 899999999998 8999999999999999874 567789998
No 25
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=98.84 E-value=2.1e-09 Score=118.99 Aligned_cols=100 Identities=13% Similarity=0.011 Sum_probs=82.3
Q ss_pred hhhHHH---HHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccch---------hcccCCCCCcceEEEec
Q 039490 221 RRIESV---RQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSGE---------LEVNDPLLHISRVLPAS 288 (423)
Q Consensus 221 tKieaL---r~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~~---------l~~f~~~dp~~~VLL~S 288 (423)
.|+++| .+.|+..+ ..+++|+|.+.|||+|+.-|.-+|+.|++.||+ |+.| +.|+-+++|++|
T Consensus 1260 GKLQtLAiLLqQLk~eg----hRvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerF-NaD~RIfcfILS 1334 (1958)
T KOG0391|consen 1260 GKLQTLAILLQQLKSEG----HRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERF-NADRRIFCFILS 1334 (1958)
T ss_pred chHHHHHHHHHHHHhcC----ceEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHHHHHHHh-cCCCceEEEEEe
Confidence 455554 55555444 489999999999999999999999999998863 5889 889999999999
Q ss_pred ccccccccchhc-------hhhhhhhccccceeeccccCccccc
Q 039490 289 ISSLSSALTSAM-------DSAERLVGDLEAYINSDNLRRNHQE 325 (423)
Q Consensus 289 LkaggvGLN~~l-------~~A~~~~~~~qa~~r~hriGq~~~~ 325 (423)
-++||||+|++= ++-|..+-|.||-+|.|||||.+..
T Consensus 1335 TrSggvGiNLtgADTVvFYDsDwNPtMDaQAQDrChRIGqtRDV 1378 (1958)
T KOG0391|consen 1335 TRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTRDV 1378 (1958)
T ss_pred ccCCccccccccCceEEEecCCCCchhhhHHHHHHHhhcCccce
Confidence 999999999643 5556666778999999999976644
No 26
>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=98.83 E-value=5.6e-10 Score=79.60 Aligned_cols=40 Identities=35% Similarity=0.796 Sum_probs=33.0
Q ss_pred cccccccccc---CcEEccCCCccchhhHhhhhhhcCCCCCCCCCC
Q 039490 140 DCNICLDMAR---DPVLTCCGHLFCWSCFYQLPYAYRNVKECPACN 182 (423)
Q Consensus 140 ~C~ICle~~~---~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr 182 (423)
.|+||++.+. ..+.++|||.||..||..|++. ...||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~---~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR---NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH---SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh---CCcCCccC
Confidence 6999999985 3456899999999999999763 45999996
No 27
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=98.82 E-value=3.2e-09 Score=116.03 Aligned_cols=107 Identities=12% Similarity=-0.026 Sum_probs=83.8
Q ss_pred CCCchhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccchh---------cccCCCCCcceEEEe
Q 039490 217 RPLARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSGEL---------EVNDPLLHISRVLPA 287 (423)
Q Consensus 217 ~~~stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~~l---------~~f~~~dp~~~VLL~ 287 (423)
...+.|+-.|..+|...+.....|++..|.|+.+||+|+...+..|..+++.+|.+ +.|+......+|||+
T Consensus 574 ~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLl 653 (776)
T KOG0390|consen 574 GSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCRWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLL 653 (776)
T ss_pred chhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHHHHHhhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEE
Confidence 33467888888887666666778999999999999999999999999988877755 667221123489999
Q ss_pred cccccccccchh-------chhhhhhhccccceeeccccCccc
Q 039490 288 SISSLSSALTSA-------MDSAERLVGDLEAYINSDNLRRNH 323 (423)
Q Consensus 288 SLkaggvGLN~~-------l~~A~~~~~~~qa~~r~hriGq~~ 323 (423)
|-||||+|||+. +|+-|.++-|.||++|++|.||+.
T Consensus 654 SsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdGQKk 696 (776)
T KOG0390|consen 654 SSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDGQKK 696 (776)
T ss_pred ecccccCceeecccceEEEeCCCCCchhHHHHHHHhccCCCcc
Confidence 999999999942 255555555679999999999644
No 28
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=98.79 E-value=4.2e-09 Score=112.23 Aligned_cols=104 Identities=11% Similarity=-0.049 Sum_probs=83.3
Q ss_pred CCchhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccchh---------cccCCCCCcceEEEec
Q 039490 218 PLARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSGEL---------EVNDPLLHISRVLPAS 288 (423)
Q Consensus 218 ~~stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~~l---------~~f~~~dp~~~VLL~S 288 (423)
.+-.+++.|...|+.. +...++|-|.|.|+|+|++-|...|+++.+.||+. ..|| .+...|||+|
T Consensus 1028 gKL~~LDeLL~kLkae----gHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ--~sdiFvFLLS 1101 (1185)
T KOG0388|consen 1028 GKLVVLDELLPKLKAE----GHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQ--ASDIFVFLLS 1101 (1185)
T ss_pred cceeeHHHHHHHhhcC----CceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhcc--CCceEEEEEe
Confidence 3344555555555533 44899999999999999999999999999988754 5673 3888999999
Q ss_pred ccccccccchhc-------hhhhhhhccccceeeccccCccccccC
Q 039490 289 ISSLSSALTSAM-------DSAERLVGDLEAYINSDNLRRNHQEFS 327 (423)
Q Consensus 289 LkaggvGLN~~l-------~~A~~~~~~~qa~~r~hriGq~~~~~~ 327 (423)
-+|||.|+|+|. ++-|..-.|.||.+|.||+||.+..++
T Consensus 1102 TRAGGLGINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrdvtv 1147 (1185)
T KOG0388|consen 1102 TRAGGLGINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRDVTV 1147 (1185)
T ss_pred cccCcccccccccceEEEecCCCCcchhhHHHHHHHhccCccceee
Confidence 999999999876 555666677899999999998776554
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.74 E-value=4.3e-09 Score=74.90 Aligned_cols=38 Identities=39% Similarity=0.955 Sum_probs=23.0
Q ss_pred cccccccccC----cEEccCCCccchhhHhhhhhhc-CCCCCCC
Q 039490 141 CNICLDMARD----PVLTCCGHLFCWSCFYQLPYAY-RNVKECP 179 (423)
Q Consensus 141 C~ICle~~~~----pv~~~CGH~FC~~Ci~~~~~~~-~~~~~CP 179 (423)
||||.+ +.+ |++++|||+||..|+..+++.. ....+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 999999 877 8999999999999999997633 2566787
No 30
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.72 E-value=3e-09 Score=102.81 Aligned_cols=58 Identities=26% Similarity=0.578 Sum_probs=48.5
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccC
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGN 196 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~ 196 (423)
...+.|-||.+.+..|+.++|||+||.-||..+ ......||+||.+....-+......
T Consensus 23 Ds~lrC~IC~~~i~ip~~TtCgHtFCslCIR~h---L~~qp~CP~Cr~~~~esrlr~~s~~ 80 (391)
T COG5432 23 DSMLRCRICDCRISIPCETTCGHTFCSLCIRRH---LGTQPFCPVCREDPCESRLRGSSGS 80 (391)
T ss_pred hhHHHhhhhhheeecceecccccchhHHHHHHH---hcCCCCCccccccHHhhhcccchhH
Confidence 355789999999999999999999999999998 5578899999998876555544443
No 31
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=4.7e-09 Score=100.63 Aligned_cols=53 Identities=32% Similarity=0.743 Sum_probs=44.8
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhh-hhhhcCCCCCCCCCCcccCCCCc
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQ-LPYAYRNVKECPACNGEVTDASI 190 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~-~~~~~~~~~~CP~Cr~~i~~~~l 190 (423)
..++.|.||++....|..++|||+||+.||.. |.+ +....||+||+.+..+.+
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~--~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTK--KKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHh--hccccCchhhhhccchhh
Confidence 45789999999999999999999999999999 732 344559999998877655
No 32
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.70 E-value=1.1e-08 Score=71.41 Aligned_cols=44 Identities=39% Similarity=0.982 Sum_probs=36.4
Q ss_pred ccccccccccCcEEc-cCCCccchhhHhhhhhhcCCCCCCCCCCccc
Q 039490 140 DCNICLDMARDPVLT-CCGHLFCWSCFYQLPYAYRNVKECPACNGEV 185 (423)
Q Consensus 140 ~C~ICle~~~~pv~~-~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i 185 (423)
.|+||++.+.+++.+ +|||.||..|+..|+.. ....||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~--~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKS--GKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHh--CcCCCCCCCCcC
Confidence 499999999777665 59999999999999652 467899998753
No 33
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=3.2e-09 Score=114.49 Aligned_cols=59 Identities=29% Similarity=0.647 Sum_probs=52.4
Q ss_pred CCCCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecc
Q 039490 134 GGGEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIY 194 (423)
Q Consensus 134 ~~~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~ 194 (423)
....-+.||+|..-+++.|++.|||+||..|+...+. ....+||.|..+|...|++++|
T Consensus 639 ~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~e--tRqRKCP~Cn~aFganDv~~I~ 697 (698)
T KOG0978|consen 639 EYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYE--TRQRKCPKCNAAFGANDVHRIH 697 (698)
T ss_pred HHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHHH--HhcCCCCCCCCCCCcccccccC
Confidence 3456789999999999999999999999999999755 3567899999999999999887
No 34
>PHA02926 zinc finger-like protein; Provisional
Probab=98.68 E-value=1e-08 Score=96.24 Aligned_cols=52 Identities=23% Similarity=0.678 Sum_probs=39.4
Q ss_pred CCccccccccccccC---------cEEccCCCccchhhHhhhhhhc---CCCCCCCCCCcccCC
Q 039490 136 GEFFDCNICLDMARD---------PVLTCCGHLFCWSCFYQLPYAY---RNVKECPACNGEVTD 187 (423)
Q Consensus 136 ~e~~~C~ICle~~~~---------pv~~~CGH~FC~~Ci~~~~~~~---~~~~~CP~Cr~~i~~ 187 (423)
.++.+|+||++...+ +++.+|+|.||..||..|.... +....||+||..+..
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 455799999997532 3567999999999999996522 124569999998763
No 35
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.64 E-value=1.9e-08 Score=71.89 Aligned_cols=41 Identities=44% Similarity=1.086 Sum_probs=34.6
Q ss_pred ccccccccc---cCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 140 DCNICLDMA---RDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 140 ~C~ICle~~---~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
.|+||++.+ ..+++++|||+||..|+..+. .....||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~---~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK---GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc---CCCCCCcCCCC
Confidence 499999998 245789999999999999973 56788999985
No 36
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=98.64 E-value=2.3e-08 Score=108.01 Aligned_cols=108 Identities=8% Similarity=-0.061 Sum_probs=91.0
Q ss_pred CCCCchhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhh-hCCCCcccccc---------hhcccCCCCCcceEE
Q 039490 216 PRPLARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTG-SLDLDAAVRSG---------ELEVNDPLLHISRVL 285 (423)
Q Consensus 216 ~~~~stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~-~~gi~~~~~d~---------~l~~f~~~dp~~~VL 285 (423)
....+.|++.+..+|..-. ..+.+.+.|||-..|||+||.-|. ..|+.|++.|| -++.| .+++...||
T Consensus 525 ~~k~sGKm~vl~~ll~~W~-kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~F-ne~~s~~VF 602 (923)
T KOG0387|consen 525 DPKRSGKMKVLAKLLKDWK-KQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRF-NEDESIFVF 602 (923)
T ss_pred ChhhcchHHHHHHHHHHHh-hCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhh-cCCCceEEE
Confidence 3345778888877765332 234599999999999999999999 68999998776 35899 789999999
Q ss_pred Eecccccccccchhc-------hhhhhhhccccceeeccccCccccc
Q 039490 286 PASISSLSSALTSAM-------DSAERLVGDLEAYINSDNLRRNHQE 325 (423)
Q Consensus 286 L~SLkaggvGLN~~l-------~~A~~~~~~~qa~~r~hriGq~~~~ 325 (423)
|++-++||.|||+|= +|+|.+--|.||-.|.-||||..+.
T Consensus 603 LLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV 649 (923)
T KOG0387|consen 603 LLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDV 649 (923)
T ss_pred EEEecccccccccccCceEEEECCCCCCccchHHHHHHHhhcCccce
Confidence 999999999999764 8999998899999999999998776
No 37
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.61 E-value=2.5e-08 Score=67.28 Aligned_cols=39 Identities=44% Similarity=1.049 Sum_probs=34.6
Q ss_pred cccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCC
Q 039490 141 CNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPAC 181 (423)
Q Consensus 141 C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~C 181 (423)
|+||++....++.++|||.||..|+..|+. .....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~--~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLK--SGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHH--hCcCCCCCC
Confidence 899999988899999999999999999965 355679987
No 38
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.55 E-value=1.4e-08 Score=77.61 Aligned_cols=55 Identities=33% Similarity=0.692 Sum_probs=28.7
Q ss_pred CccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccC
Q 039490 137 EFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGN 196 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~ 196 (423)
+.+.|++|.+.+.+||. ..|.|.||..||...+ ...||+|..+....|+.-|..+
T Consensus 6 ~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~-----~~~CPvC~~Paw~qD~~~NrqL 61 (65)
T PF14835_consen 6 ELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCI-----GSECPVCHTPAWIQDIQINRQL 61 (65)
T ss_dssp HTTS-SSS-S--SS-B---SSS--B-TTTGGGGT-----TTB-SSS--B-S-SS----HHH
T ss_pred HhcCCcHHHHHhcCCceeccCccHHHHHHhHHhc-----CCCCCCcCChHHHHHHHhhhhh
Confidence 45689999999999985 6899999999998852 2359999999988888766543
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=3.8e-08 Score=94.46 Aligned_cols=46 Identities=39% Similarity=0.819 Sum_probs=41.1
Q ss_pred CCCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 135 GGEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 135 ~~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
..+.+.|+||++.|..|++++|||.||..|+..++. ....||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~---~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE---GPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcCccccccchHhHHHHHHhcC---CCcCCcccCC
Confidence 357789999999999998899999999999999865 5688999994
No 40
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=98.45 E-value=7.9e-08 Score=106.01 Aligned_cols=107 Identities=13% Similarity=0.043 Sum_probs=84.4
Q ss_pred chhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccc---------hhcccCCCCCcceEEEeccc
Q 039490 220 ARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSG---------ELEVNDPLLHISRVLPASIS 290 (423)
Q Consensus 220 stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~---------~l~~f~~~dp~~~VLL~SLk 290 (423)
+.|+|-|-.+|.... ..+...+.|+|-|+++|+++..|+-.++.+.+.|| -++.|..-|..+++||+|-+
T Consensus 709 sGKfELLDRiLPKLk-atgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~Fllstr 787 (1157)
T KOG0386|consen 709 SGKFELLDRILPKLK-ATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTR 787 (1157)
T ss_pred ccHHHHHHhhhHHHH-hcCcchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeec
Confidence 567777766655443 24558999999999999999999999999998776 35788544557789999999
Q ss_pred ccccccchh-c------hhhhhhhccccceeeccccCccccccC
Q 039490 291 SLSSALTSA-M------DSAERLVGDLEAYINSDNLRRNHQEFS 327 (423)
Q Consensus 291 aggvGLN~~-l------~~A~~~~~~~qa~~r~hriGq~~~~~~ 327 (423)
|||.|||+. + ++-|..-.|+||-+|.|||||..+.-+
T Consensus 788 agglglNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv 831 (1157)
T KOG0386|consen 788 AGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRV 831 (1157)
T ss_pred ccccccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheee
Confidence 999999952 2 455555566899999999998887754
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=98.37 E-value=2.4e-07 Score=73.47 Aligned_cols=40 Identities=38% Similarity=0.917 Sum_probs=31.6
Q ss_pred ccccccccccCc-------------EEccCCCccchhhHhhhhhhcCCCCCCCCCC
Q 039490 140 DCNICLDMARDP-------------VLTCCGHLFCWSCFYQLPYAYRNVKECPACN 182 (423)
Q Consensus 140 ~C~ICle~~~~p-------------v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr 182 (423)
.|.||++.+.++ +..+|||.|+..||.+|++ ....||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~---~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLK---QNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHT---TSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHh---cCCcCCCCC
Confidence 599999998332 3458999999999999965 455999997
No 42
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.35 E-value=3.1e-07 Score=91.01 Aligned_cols=57 Identities=26% Similarity=0.543 Sum_probs=42.6
Q ss_pred cccccccccc-ccCcE---E-ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccC
Q 039490 138 FFDCNICLDM-ARDPV---L-TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGN 196 (423)
Q Consensus 138 ~~~C~ICle~-~~~pv---~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~ 196 (423)
+..||+|... +..|- + .+|||.||..|+..+|. .+...||.|+..+....+.+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~--~~~~~CP~C~~~lrk~~fr~q~F~ 64 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFV--RGSGSCPECDTPLRKNNFRVQLFE 64 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhc--CCCCCCCCCCCccchhhccccccc
Confidence 3589999984 34442 2 37999999999999754 456789999999988776655443
No 43
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=3.6e-07 Score=91.95 Aligned_cols=47 Identities=23% Similarity=0.540 Sum_probs=39.2
Q ss_pred cccccccccccCc---EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 139 FDCNICLDMARDP---VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 139 ~~C~ICle~~~~p---v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
..|.||+|.|... .++||+|.|+..||..|+. .....||+|+..+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~--~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLT--QTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHh--hcCccCCCCCCcCCC
Confidence 5999999999865 4689999999999999965 335669999986654
No 44
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=98.26 E-value=9.4e-07 Score=91.69 Aligned_cols=100 Identities=11% Similarity=0.094 Sum_probs=80.7
Q ss_pred chhhHHHHHHHHhc---CCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccch---------hcccCCCCCcceEEEe
Q 039490 220 ARRIESVRQQLVNR---RPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSGE---------LEVNDPLLHISRVLPA 287 (423)
Q Consensus 220 stKieaLr~~L~~~---~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~~---------l~~f~~~dp~~~VLL~ 287 (423)
..|+.++++.|... ...++.|-+||-+-+-+||-|+..+.+.++++.+.||. .+.| ..+.++.|-++
T Consensus 471 iaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsF-Q~seev~VAvl 549 (689)
T KOG1000|consen 471 IAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSF-QTSEEVRVAVL 549 (689)
T ss_pred ccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHh-ccccceEEEEE
Confidence 45677777776652 55677899999999999999999999999999998874 3889 56677889999
Q ss_pred cccccccccchhc-----------hhhhhhhccccceeeccccCcccc
Q 039490 288 SISSLSSALTSAM-----------DSAERLVGDLEAYINSDNLRRNHQ 324 (423)
Q Consensus 288 SLkaggvGLN~~l-----------~~A~~~~~~~qa~~r~hriGq~~~ 324 (423)
|..||||||.++. ||-.- +||=+|+|||||.--
T Consensus 550 sItA~gvGLt~tAa~~VVFaEL~wnPgvL----lQAEDRaHRiGQkss 593 (689)
T KOG1000|consen 550 SITAAGVGLTLTAASVVVFAELHWNPGVL----LQAEDRAHRIGQKSS 593 (689)
T ss_pred EEeecccceeeeccceEEEEEecCCCceE----Eechhhhhhccccce
Confidence 9999999999554 33322 599999999996443
No 45
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.23 E-value=5.1e-07 Score=88.11 Aligned_cols=48 Identities=21% Similarity=0.507 Sum_probs=40.0
Q ss_pred ccccccccccccCc---EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 138 FFDCNICLDMARDP---VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 138 ~~~C~ICle~~~~p---v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
..+|.||++.|.+. +++||.|.|+..|+..|+. ..+..||+||.++..
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~--~y~~~CPvCrt~iPP 373 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLL--GYSNKCPVCRTAIPP 373 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHh--hhcccCCccCCCCCC
Confidence 36899999988543 5699999999999999953 567889999998763
No 46
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=8.2e-07 Score=88.74 Aligned_cols=48 Identities=27% Similarity=0.585 Sum_probs=39.0
Q ss_pred Cccccccccccc-cC------------cEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 137 EFFDCNICLDMA-RD------------PVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 137 e~~~C~ICle~~-~~------------pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
.+..|.||++.+ .. |..+||||.|+..|++.|++ ...+||+||.++-.
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~E---RqQTCPICr~p~if 346 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE---RQQTCPICRRPVIF 346 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHH---hccCCCcccCcccc
Confidence 445899999983 33 36789999999999999965 67799999998643
No 47
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.15 E-value=1.4e-06 Score=70.64 Aligned_cols=49 Identities=24% Similarity=0.463 Sum_probs=37.3
Q ss_pred ccccccccccc-----------C-cE-EccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 139 FDCNICLDMAR-----------D-PV-LTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 139 ~~C~ICle~~~-----------~-pv-~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
..|.||...|. + |+ .-.|+|.|+..||.+|+........||+||++...
T Consensus 22 d~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 22 DVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 36777766654 2 33 34799999999999998865567899999998753
No 48
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=4.2e-07 Score=90.42 Aligned_cols=50 Identities=28% Similarity=0.689 Sum_probs=41.8
Q ss_pred CCCccccccccccccCcEEc-cCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 135 GGEFFDCNICLDMARDPVLT-CCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 135 ~~e~~~C~ICle~~~~pv~~-~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
...++.|+||+++++...++ .|+|-||..||..-+. .....||.||+.+.
T Consensus 40 ~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r--~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 40 FDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALR--SGNNECPTCRKKLV 90 (381)
T ss_pred hhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHH--hcCCCCchHHhhcc
Confidence 34678999999999998776 5999999999977643 56789999998774
No 49
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=2.5e-06 Score=91.86 Aligned_cols=50 Identities=30% Similarity=0.536 Sum_probs=42.0
Q ss_pred CccccccccccccC-----cEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCC
Q 039490 137 EFFDCNICLDMARD-----PVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDAS 189 (423)
Q Consensus 137 e~~~C~ICle~~~~-----pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~ 189 (423)
....|+||.+.+.. +..++|||.||..|+..|++ ...+||+||..+....
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~e---r~qtCP~CR~~~~~~~ 344 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFE---RQQTCPTCRTVLYDYV 344 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHH---HhCcCCcchhhhhccc
Confidence 35689999999988 78899999999999999976 4788999999554433
No 50
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=5.8e-06 Score=80.94 Aligned_cols=49 Identities=27% Similarity=0.587 Sum_probs=41.7
Q ss_pred cccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCC
Q 039490 139 FDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDAS 189 (423)
Q Consensus 139 ~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~ 189 (423)
-+|+||+....-|+.+.|+|.||.-||+-.. ...+..|++||.+|...-
T Consensus 8 ~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy--~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 8 KECLICYNTGNCPVNLYCFHKFCYICIKGSY--KNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CcceeeeccCCcCccccccchhhhhhhcchh--hcCCCCCceecCCCCcch
Confidence 4799999999999999999999999998852 245667999999997643
No 51
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=97.93 E-value=1.1e-05 Score=91.50 Aligned_cols=97 Identities=15% Similarity=0.035 Sum_probs=75.5
Q ss_pred CchhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhh-hhCCCCccc---------ccchhcccCCCC-CcceEEEe
Q 039490 219 LARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQT-GSLDLDAAV---------RSGELEVNDPLL-HISRVLPA 287 (423)
Q Consensus 219 ~stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L-~~~gi~~~~---------~d~~l~~f~~~d-p~~~VLL~ 287 (423)
...|++.|.+.|.... ..|.|||.++....+.|...| ...||..+. |+.+++.| +.. ..+.||+.
T Consensus 477 ~d~Ki~~L~~~L~~~~---~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F-~~~~~~~~VLIs 552 (956)
T PRK04914 477 FDPRVEWLIDFLKSHR---SEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYF-ADEEDGAQVLLC 552 (956)
T ss_pred cCHHHHHHHHHHHhcC---CCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHH-hcCCCCccEEEe
Confidence 3568899888876443 569999999999999999999 567888554 55567889 444 36788876
Q ss_pred cccccccccch-----------hchhhhhhhccccceeeccccCcccc
Q 039490 288 SISSLSSALTS-----------AMDSAERLVGDLEAYINSDNLRRNHQ 324 (423)
Q Consensus 288 SLkaggvGLN~-----------~l~~A~~~~~~~qa~~r~hriGq~~~ 324 (423)
| .+||.|||. +.||... .|+|.|+|||||.+.
T Consensus 553 T-dvgseGlNlq~a~~VInfDlP~nP~~~----eQRIGR~~RiGQ~~~ 595 (956)
T PRK04914 553 S-EIGSEGRNFQFASHLVLFDLPFNPDLL----EQRIGRLDRIGQKHD 595 (956)
T ss_pred c-hhhccCCCcccccEEEEecCCCCHHHH----HHHhcccccCCCCce
Confidence 6 899999994 3366655 499999999998664
No 52
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.93 E-value=3.2e-06 Score=78.11 Aligned_cols=50 Identities=36% Similarity=0.719 Sum_probs=42.2
Q ss_pred CCCCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 134 GGGEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 134 ~~~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
...-.|.|.||...+..||++.|||.||..|...- ......|-+|.+...
T Consensus 192 ~e~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~---y~kg~~C~~Cgk~t~ 241 (259)
T COG5152 192 GEKIPFLCGICKKDYESPVVTECGHSFCSLCAIRK---YQKGDECGVCGKATY 241 (259)
T ss_pred CCCCceeehhchhhccchhhhhcchhHHHHHHHHH---hccCCcceecchhhc
Confidence 34457899999999999999999999999998774 456788999987654
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.92 E-value=4.8e-06 Score=62.95 Aligned_cols=43 Identities=33% Similarity=0.518 Sum_probs=30.8
Q ss_pred CccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCC
Q 039490 137 EFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPA 180 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~ 180 (423)
-.+.|||.+..|.+||. ..|||+|.+..|.+|+. ......||+
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~-~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQ-RNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCT-TTS-EE-SC
T ss_pred eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHH-hcCCCCCCC
Confidence 45799999999999997 58999999999999973 456778998
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=6.3e-06 Score=84.91 Aligned_cols=49 Identities=35% Similarity=0.849 Sum_probs=43.8
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
..+|.|.||...+..|+.++|||.||..||.+. ......||.||.++..
T Consensus 82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~---ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRS---LDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccccccccccHHHHHHH---hccCCCCccccccccc
Confidence 678999999999999999999999999999885 3467889999988864
No 55
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.85 E-value=2.6e-06 Score=62.90 Aligned_cols=46 Identities=33% Similarity=0.821 Sum_probs=39.6
Q ss_pred cccccccccccCcEEccCCCc-cchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 139 FDCNICLDMARDPVLTCCGHL-FCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 139 ~~C~ICle~~~~pv~~~CGH~-FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
.+|.||++...+.|+..|||. .|..|-.+.++ ..+..||+||+++.
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~--~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLKK--ALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHHH--ccCCcCcchhhHHH
Confidence 489999999999999999994 69999888755 36788999999875
No 56
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=1.6e-05 Score=77.04 Aligned_cols=58 Identities=24% Similarity=0.630 Sum_probs=44.6
Q ss_pred ccccCCCCCCccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 128 TKRAGAGGGEFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 128 ~~~~~~~~~e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
............+|++|.+....|.+ .+|||.||+.|+..-.. -....+||.|..++.
T Consensus 229 p~~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~-~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 229 PKFSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRL-WDASFTCPLCGENVE 287 (298)
T ss_pred CCcccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhc-chhhcccCccCCCCc
Confidence 33444445667899999999999976 56999999999988532 245689999987664
No 57
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=97.72 E-value=1.6e-05 Score=87.63 Aligned_cols=105 Identities=10% Similarity=-0.086 Sum_probs=75.7
Q ss_pred chhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhC----------------------CCCcccccchh-----
Q 039490 220 ARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSL----------------------DLDAAVRSGEL----- 272 (423)
Q Consensus 220 stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~----------------------gi~~~~~d~~l----- 272 (423)
+.|+--|..+|. +-.+-|.|.+||||--.-||+|+..|... |..+.+.||..
T Consensus 1125 SgKmiLLleIL~-mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R 1203 (1567)
T KOG1015|consen 1125 SGKMILLLEILR-MCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSR 1203 (1567)
T ss_pred CcceehHHHHHH-HHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHH
Confidence 445555666665 44457789999999999999999998763 22245566543
Q ss_pred ----cccCCCCCc---ceEEEecccccccccchhc-------hhhhhhhccccceeeccccCccccccCCC
Q 039490 273 ----EVNDPLLHI---SRVLPASISSLSSALTSAM-------DSAERLVGDLEAYINSDNLRRNHQEFSHA 329 (423)
Q Consensus 273 ----~~f~~~dp~---~~VLL~SLkaggvGLN~~l-------~~A~~~~~~~qa~~r~hriGq~~~~~~~~ 329 (423)
+.| .+|. .++||+|-+||+.|+|+-. +-.|.+--|.|+|||+-|-| |.+|+-.
T Consensus 1204 ~k~~~~F--Ndp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfG--QtKPvyi 1270 (1567)
T KOG1015|consen 1204 KKWAEEF--NDPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFG--QTKPVYI 1270 (1567)
T ss_pred HHHHHHh--cCcccceeEEEEEeeccCccccceeecceEEEEecccCCccchHHHHHHHhhc--CcCceee
Confidence 667 4553 3689999999999999532 33344455679999999999 6788844
No 58
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=1.3e-05 Score=78.23 Aligned_cols=47 Identities=34% Similarity=0.760 Sum_probs=40.4
Q ss_pred CccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 137 EFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
-.|.|-||..+|..||++.|||.||..|...- ......|++|.+.+.
T Consensus 240 ~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~---~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRPVVTKCGHYFCEVCALKP---YQKGEKCYVCSQQTH 286 (313)
T ss_pred CCccccccccccccchhhcCCceeehhhhccc---cccCCcceecccccc
Confidence 45679999999999999999999999998775 456688999987654
No 59
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.64 E-value=2.3e-05 Score=79.21 Aligned_cols=54 Identities=30% Similarity=0.637 Sum_probs=44.2
Q ss_pred cccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceec
Q 039490 139 FDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPI 193 (423)
Q Consensus 139 ~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~ 193 (423)
..|.||-+--++-.+-||||..|..|+..|.. ......||+||..++-..-+.+
T Consensus 370 eLCKICaendKdvkIEPCGHLlCt~CLa~WQ~-sd~gq~CPFCRcEIKGte~vii 423 (563)
T KOG1785|consen 370 ELCKICAENDKDVKIEPCGHLLCTSCLAAWQD-SDEGQTCPFCRCEIKGTEPVII 423 (563)
T ss_pred HHHHHhhccCCCcccccccchHHHHHHHhhcc-cCCCCCCCceeeEeccccceee
Confidence 36999999888888899999999999999954 2346789999999986554433
No 60
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.60 E-value=1.8e-05 Score=78.48 Aligned_cols=50 Identities=28% Similarity=0.598 Sum_probs=42.6
Q ss_pred CccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCC
Q 039490 137 EFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDAS 189 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~ 189 (423)
...+|.+|..+|.++.. +-|-|+||+.||..++. ....||.|...+....
T Consensus 14 ~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~---~~~~CP~C~i~ih~t~ 64 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDATTITECLHTFCKSCIVKYLE---ESKYCPTCDIVIHKTH 64 (331)
T ss_pred cceehhhccceeecchhHHHHHHHHHHHHHHHHHH---HhccCCccceeccCcc
Confidence 45689999999999965 67999999999999966 3788999998876654
No 61
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.56 E-value=2.6e-05 Score=76.13 Aligned_cols=55 Identities=31% Similarity=0.742 Sum_probs=42.3
Q ss_pred ccccccccccccCcEEc-cCCCccchhhHhhhhhhcCCCCCCCCCCc-ccCCCCceecc
Q 039490 138 FFDCNICLDMARDPVLT-CCGHLFCWSCFYQLPYAYRNVKECPACNG-EVTDASIIPIY 194 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~-~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~-~i~~~~l~~~~ 194 (423)
.+.|+.|..++.+|+.+ .|||.||.+||..-+ ....+.||.|.. .+..+.+.+.+
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al--~dsDf~CpnC~rkdvlld~l~pD~ 330 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTAL--LDSDFKCPNCSRKDVLLDGLTPDI 330 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhh--hhccccCCCcccccchhhccCccH
Confidence 47999999999999988 699999999998763 356789999965 33334444444
No 62
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=2.4e-05 Score=75.52 Aligned_cols=59 Identities=17% Similarity=0.276 Sum_probs=45.7
Q ss_pred CccccccccccccCc----------EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccC
Q 039490 137 EFFDCNICLDMARDP----------VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGN 196 (423)
Q Consensus 137 e~~~C~ICle~~~~p----------v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~ 196 (423)
++..|.||...+... ..+.|+|+|+..||.-|.- ...+.+||.|+..+..+.+..|.+.
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWci-vGKkqtCPYCKekVdl~rmfsnpWe 291 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCI-VGKKQTCPYCKEKVDLKRMFSNPWE 291 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhhee-ecCCCCCchHHHHhhHhhhccCccc
Confidence 456899999876432 4578999999999999965 4667899999998876666655543
No 63
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=2.6e-05 Score=79.12 Aligned_cols=60 Identities=33% Similarity=0.583 Sum_probs=50.1
Q ss_pred ccccccccccccCc-----EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCCC
Q 039490 138 FFDCNICLDMARDP-----VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNGN 198 (423)
Q Consensus 138 ~~~C~ICle~~~~p-----v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~~ 198 (423)
..+||||++.+.-+ +.+.|||.|-..||..|+. ......||.|.......++.+.|.+..
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~~~~~cp~c~~katkr~i~~e~alR~ 68 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KKTKMQCPLCSGKATKRQIRPEYALRV 68 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hhhhhhCcccCChhHHHHHHHHHHHHH
Confidence 45899999998766 4578999999999999985 566778999999888888888776543
No 64
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.41 E-value=6.9e-05 Score=77.60 Aligned_cols=55 Identities=42% Similarity=0.875 Sum_probs=46.8
Q ss_pred CCCccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCcee
Q 039490 135 GGEFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIP 192 (423)
Q Consensus 135 ~~e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~ 192 (423)
..+.+.|++|...+.+|+. +.|||.||..|+..|.. .+..||.|+..+.....++
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~---~~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLS---NHQKCPVCRQELTQAEELP 73 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhc---cCcCCcccccccchhhccC
Confidence 4567899999999999998 59999999999999954 3889999998887655554
No 65
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.40 E-value=6.8e-05 Score=75.26 Aligned_cols=49 Identities=33% Similarity=0.733 Sum_probs=41.8
Q ss_pred CCccccccccccccCcEEccCCCc-cchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHL-FCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~-FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
+...+|-||+....+-+++||.|. .|..|.+.+ .-....||+||.++..
T Consensus 288 ~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~L---r~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDTVVLPCRHLCLCSGCAKSL---RYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcceEEecchhhehhHhHHHHH---HHhhcCCCccccchHh
Confidence 456799999999999999999994 699999886 3456789999998864
No 66
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.34 E-value=3.1e-05 Score=83.74 Aligned_cols=56 Identities=25% Similarity=0.502 Sum_probs=43.8
Q ss_pred CccccccccccccCcEE---ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceeccc
Q 039490 137 EFFDCNICLDMARDPVL---TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYG 195 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~---~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~ 195 (423)
....||+|+..+.+..+ .+|+|.||..||..| .....+||+||..|..-.+...+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW---sR~aqTCPiDR~EF~~v~V~eS~~ 180 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW---SRCAQTCPVDRGEFGEVKVLESTG 180 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhh---hhhcccCchhhhhhheeeeecccc
Confidence 45589999998877643 479999999999999 456789999999987655444333
No 67
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.32 E-value=7.2e-05 Score=58.87 Aligned_cols=49 Identities=27% Similarity=0.708 Sum_probs=24.3
Q ss_pred cccccccccccc-C---cEE----ccCCCccchhhHhhhhhhcCC--------CCCCCCCCcccC
Q 039490 138 FFDCNICLDMAR-D---PVL----TCCGHLFCWSCFYQLPYAYRN--------VKECPACNGEVT 186 (423)
Q Consensus 138 ~~~C~ICle~~~-~---pv~----~~CGH~FC~~Ci~~~~~~~~~--------~~~CP~Cr~~i~ 186 (423)
+..|+||+.... . |.. ..|++.|+..||.+|+..... ...||.|+.+++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 458999998765 2 322 269999999999999863221 135999999875
No 68
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.31 E-value=0.0003 Score=68.95 Aligned_cols=60 Identities=25% Similarity=0.488 Sum_probs=48.5
Q ss_pred CCCccccccccccccCc----EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCCC
Q 039490 135 GGEFFDCNICLDMARDP----VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNGN 198 (423)
Q Consensus 135 ~~e~~~C~ICle~~~~p----v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~~ 198 (423)
....+.|||+...|..- ++-+|||+|+..|+.+. .....||+|..++...+++++.....
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~----k~~~~Cp~c~~~f~~~DiI~Lnp~~e 173 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL----KKSKKCPVCGKPFTEEDIIPLNPPEE 173 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh----cccccccccCCccccCCEEEecCCcc
Confidence 45778999999998542 24599999999999986 24567999999999999998766554
No 69
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.28 E-value=0.0002 Score=68.51 Aligned_cols=58 Identities=22% Similarity=0.355 Sum_probs=49.3
Q ss_pred CCccccccccccccCc----EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccC
Q 039490 136 GEFFDCNICLDMARDP----VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGN 196 (423)
Q Consensus 136 ~e~~~C~ICle~~~~p----v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~ 196 (423)
...+.||||.+.+.+. ++-+|||+||.+|+..+ ......||+|..+++..+++....-
T Consensus 219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEkl---ir~D~v~pv~d~plkdrdiI~LqrG 280 (303)
T KOG3039|consen 219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKL---IRKDMVDPVTDKPLKDRDIIGLQRG 280 (303)
T ss_pred ccceecccchhhhcCccceEEeccCCcEeeHHHHHHh---ccccccccCCCCcCcccceEeeecc
Confidence 3678999999999875 45689999999999997 5577889999999999999877543
No 70
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.28 E-value=9.8e-05 Score=76.50 Aligned_cols=51 Identities=27% Similarity=0.475 Sum_probs=39.1
Q ss_pred CCCccccccccccccC-----------------cEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 135 GGEFFDCNICLDMARD-----------------PVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 135 ~~e~~~C~ICle~~~~-----------------pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
.+....|+||+....- -.++||.|+|+..|+.+|.. ..+-.||+||.++..
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd--~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMD--TYKLICPVCRCPLPP 635 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHh--hhcccCCccCCCCCC
Confidence 3566789999986531 13579999999999999954 245689999998753
No 71
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.25 E-value=0.00015 Score=74.43 Aligned_cols=47 Identities=26% Similarity=0.541 Sum_probs=38.0
Q ss_pred CCCccccccccccccCcE----EccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 135 GGEFFDCNICLDMARDPV----LTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 135 ~~e~~~C~ICle~~~~pv----~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
.-+--+||||++.+...+ .+.|.|.|+..|+..|+ ...||+||...+
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~-----~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW-----DSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhcc-----cCcChhhhhhcC
Confidence 345669999999987653 46899999999999994 467999997655
No 72
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.00015 Score=73.55 Aligned_cols=51 Identities=25% Similarity=0.680 Sum_probs=39.0
Q ss_pred CCccccccccccccCcE-----E---ccCCCccchhhHhhhhhhcC----CCCCCCCCCcccC
Q 039490 136 GEFFDCNICLDMARDPV-----L---TCCGHLFCWSCFYQLPYAYR----NVKECPACNGEVT 186 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv-----~---~~CGH~FC~~Ci~~~~~~~~----~~~~CP~Cr~~i~ 186 (423)
..+..|.||++...+.. . .+|-|.||..||..|-.... ..+.||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 35679999999876654 3 57999999999999943222 2578999997665
No 73
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.16 E-value=0.00016 Score=72.23 Aligned_cols=49 Identities=33% Similarity=0.599 Sum_probs=42.9
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
.++..||||.--....|+.||+|.-|+.||.+. .-+.+.|-+|+..+..
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qH---lmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQH---LMNCKRCFFCKTTVID 468 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHH---HhcCCeeeEecceeee
Confidence 577799999999999999999999999999997 4578899999887653
No 74
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.03 E-value=0.0002 Score=79.04 Aligned_cols=49 Identities=29% Similarity=0.664 Sum_probs=38.8
Q ss_pred Ccccccccccccc--C---c--EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 137 EFFDCNICLDMAR--D---P--VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 137 e~~~C~ICle~~~--~---p--v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
...+|+||...+. + | ....|.|.|+..|++.|++ ..+..+||+||..++
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~-Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFA-SSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHH-hcCCCCCCccccccc
Confidence 3458999998765 2 2 2245999999999999988 567889999997765
No 75
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.00031 Score=71.05 Aligned_cols=53 Identities=25% Similarity=0.631 Sum_probs=37.6
Q ss_pred cccccccccccCc----EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCce
Q 039490 139 FDCNICLDMARDP----VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASII 191 (423)
Q Consensus 139 ~~C~ICle~~~~p----v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~ 191 (423)
..|.||.+.+..- .+-.|||+|+..|+.+|+........||.|+-.+....++
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r~~~ 61 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQERHVA 61 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccceeee
Confidence 3799996655432 1235999999999999988555457899999545444443
No 76
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.95 E-value=0.00048 Score=51.28 Aligned_cols=48 Identities=25% Similarity=0.510 Sum_probs=39.0
Q ss_pred CccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCC
Q 039490 137 EFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDAS 189 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~ 189 (423)
....|-.|...-...++++|||..|..|+.-+ .-..||+|.+++...+
T Consensus 6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~-----rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPGE-----RYNGCPFCGTPFEFDD 53 (55)
T ss_pred cceeEEEccccccccccccccceeeccccChh-----hccCCCCCCCcccCCC
Confidence 34578888888888899999999999997653 4567999999987654
No 77
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=96.89 E-value=0.00074 Score=49.43 Aligned_cols=42 Identities=26% Similarity=0.576 Sum_probs=32.9
Q ss_pred ccccccc--cccCcEEccCC-----CccchhhHhhhhhhcCCCCCCCCCC
Q 039490 140 DCNICLD--MARDPVLTCCG-----HLFCWSCFYQLPYAYRNVKECPACN 182 (423)
Q Consensus 140 ~C~ICle--~~~~pv~~~CG-----H~FC~~Ci~~~~~~~~~~~~CP~Cr 182 (423)
.|-||++ ...++.+.||. |.++..|+.+|+. ......||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~-~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWIN-ESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHH-HcCCCcCCCCC
Confidence 4889997 34556778885 8899999999976 34456899995
No 78
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.80 E-value=0.00029 Score=68.86 Aligned_cols=42 Identities=38% Similarity=0.833 Sum_probs=35.6
Q ss_pred ccccccccccccCcEEccCCC-ccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 138 FFDCNICLDMARDPVLTCCGH-LFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~~CGH-~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
...|.||++...+.++++||| +-|..|-... ..||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm-------~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRM-------NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhcccc-------ccCchHHHHHH
Confidence 668999999999999999999 4588886653 38999998764
No 79
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.67 E-value=0.00058 Score=68.74 Aligned_cols=43 Identities=30% Similarity=0.821 Sum_probs=34.8
Q ss_pred ccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 138 FFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
..-|.||++.+.+.+.++|||+-| |..-. .....||+||..+.
T Consensus 305 p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs----~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 305 PDLCVVCLDEPKSAVFVPCGHVCC--CTLCS----KHLPQCPVCRQRIR 347 (355)
T ss_pred CCceEEecCCccceeeecCCcEEE--chHHH----hhCCCCchhHHHHH
Confidence 347999999999999999999977 77653 34456999998775
No 80
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.62 E-value=0.00094 Score=64.00 Aligned_cols=51 Identities=31% Similarity=0.783 Sum_probs=36.6
Q ss_pred cccccccccccc-Cc-EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceec
Q 039490 138 FFDCNICLDMAR-DP-VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPI 193 (423)
Q Consensus 138 ~~~C~ICle~~~-~p-v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~ 193 (423)
...|..|..... ++ .+|.|+|+||..|...- ....||.|++.+....+..+
T Consensus 3 ~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~-----~~~~C~lCkk~ir~i~l~~s 55 (233)
T KOG4739|consen 3 FVHCNKCFRFPSQDPFFLTACRHVFCEPCLKAS-----SPDVCPLCKKSIRIIQLNRS 55 (233)
T ss_pred eEEeccccccCCCCceeeeechhhhhhhhcccC-----Cccccccccceeeeeecccc
Confidence 346888876544 34 46899999999998763 23389999998776555444
No 81
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.56 E-value=0.0007 Score=67.28 Aligned_cols=56 Identities=21% Similarity=0.623 Sum_probs=44.9
Q ss_pred CCccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecc
Q 039490 136 GEFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIY 194 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~ 194 (423)
.+...||||+..-.+|.+ ..-|-+||+.|+..+.. ....||+-..+....+++..+
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~---~~~~CPVT~~p~~v~~l~rl~ 354 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV---NYGHCPVTGYPASVDHLIRLF 354 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHH---hcCCCCccCCcchHHHHHHHh
Confidence 455689999999988855 56799999999999843 678999998888766665544
No 82
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=96.38 E-value=0.00089 Score=52.99 Aligned_cols=32 Identities=22% Similarity=0.487 Sum_probs=28.4
Q ss_pred cCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 155 CCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 155 ~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
.|.|.|...||..|+........||+||+.+.
T Consensus 50 ~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 50 YCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred HHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 59999999999999887777789999998765
No 83
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=96.32 E-value=0.0029 Score=69.48 Aligned_cols=60 Identities=8% Similarity=-0.101 Sum_probs=50.4
Q ss_pred CCCCCceEEcccchhHHHHHHHhhhhCCCCcccccc---------hhcccCCCCCcceEEEecccccccc
Q 039490 235 PVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSG---------ELEVNDPLLHISRVLPASISSLSSA 295 (423)
Q Consensus 235 ~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~---------~l~~f~~~dp~~~VLL~SLkaggvG 295 (423)
.+.+.++++||||+.+|||+++-+.-.+ .+.+.|| +++.|+.......+||+|-+|||+|
T Consensus 628 ~~~ghrvl~~~q~~~~ldlled~~~~~~-~~~r~dG~~~~~~rq~ai~~~n~~~~~~~cfllstra~g~g 696 (696)
T KOG0383|consen 628 KSSGHRVLIFSQMIHMLDLLEDYLTYEG-KYERIDGPITGPERQAAIDRFNAPGSNQFCFLLSTRAGGLG 696 (696)
T ss_pred HhcchhhHHHHHHHHHHHHhHHHHhccC-cceeccCCccchhhhhhccccCCCCccceEEEeecccccCC
Confidence 3567799999999999999999999988 7666554 6688854555778999999999997
No 84
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.31 E-value=0.0025 Score=55.78 Aligned_cols=52 Identities=25% Similarity=0.729 Sum_probs=44.6
Q ss_pred CccccccccccccCcEEc----cCCCccchhhHhhhhhhcCCCCCCCCCCcccCCC
Q 039490 137 EFFDCNICLDMARDPVLT----CCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDA 188 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~----~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~ 188 (423)
.-++|.||.+...+...+ .||-..|..|...+|+.....+.||+|+..+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 457899999998887665 4999999999999998778889999999988653
No 85
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=96.25 E-value=0.0034 Score=68.73 Aligned_cols=89 Identities=10% Similarity=-0.102 Sum_probs=67.1
Q ss_pred CCCCceEEcccchhHHHHHHHhhhhCCCC------------------cccccc---------hhcccCCCCCcce-EEEe
Q 039490 236 VSTPIEVRIQQFNSIVDAARHQTGSLDLD------------------AAVRSG---------ELEVNDPLLHISR-VLPA 287 (423)
Q Consensus 236 ~p~~K~iVFSQftsfLdlle~~L~~~gi~------------------~~~~d~---------~l~~f~~~dp~~~-VLL~ 287 (423)
..+.|.++|||=-.-||+|++.|....+. +.+.|| -|..| ++.+.+. +||+
T Consensus 717 ~~g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqf-N~e~~lsWlfll 795 (1387)
T KOG1016|consen 717 QIGEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQF-NSEPGLSWLFLL 795 (1387)
T ss_pred ccCceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhc-cCCCCceeeeee
Confidence 45679999999999999999999886554 223343 34667 7788888 8899
Q ss_pred cccccccccchhc-------hhhhhhhccccceeeccccCccccccC
Q 039490 288 SISSLSSALTSAM-------DSAERLVGDLEAYINSDNLRRNHQEFS 327 (423)
Q Consensus 288 SLkaggvGLN~~l-------~~A~~~~~~~qa~~r~hriGq~~~~~~ 327 (423)
|.+||..|+|+-- +.-|..--|+||+.|+-|-| |.+|.
T Consensus 796 strag~lGinLIsanr~~ifda~wnpchdaqavcRvyrYG--Q~Kpc 840 (1387)
T KOG1016|consen 796 STRAGSLGINLISANRCIIFDACWNPCHDAQAVCRVYRYG--QQKPC 840 (1387)
T ss_pred hhccccccceeeccceEEEEEeecCccccchhhhhhhhhc--CcCce
Confidence 9999999999311 22333355679999999999 45665
No 86
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.13 E-value=0.0024 Score=65.26 Aligned_cols=48 Identities=27% Similarity=0.623 Sum_probs=35.9
Q ss_pred CCccccccccccccCc---EEccCCCccchhhHhhhhhhc-----CCCCCCCCCCc
Q 039490 136 GEFFDCNICLDMARDP---VLTCCGHLFCWSCFYQLPYAY-----RNVKECPACNG 183 (423)
Q Consensus 136 ~e~~~C~ICle~~~~p---v~~~CGH~FC~~Ci~~~~~~~-----~~~~~CP~Cr~ 183 (423)
...+.|.||++...-. +.+||+|+||+.|+..|+... .....||-|..
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 4568999999987543 468999999999999997632 22346887654
No 87
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=96.06 E-value=0.0024 Score=65.49 Aligned_cols=33 Identities=27% Similarity=0.770 Sum_probs=30.5
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhhh
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQL 168 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~ 168 (423)
++++.|+||...|.+|++++|||..|..|....
T Consensus 2 eeelkc~vc~~f~~epiil~c~h~lc~~ca~~~ 34 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREPIILPCSHNLCQACARNI 34 (699)
T ss_pred cccccCceehhhccCceEeecccHHHHHHHHhh
Confidence 578899999999999999999999999998765
No 88
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.75 E-value=0.0063 Score=60.97 Aligned_cols=52 Identities=31% Similarity=0.629 Sum_probs=42.6
Q ss_pred CCCCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 134 GGGEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 134 ~~~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
.+++...|-||-+-+.-..++||+|..|.-|....- .....+.||+||....
T Consensus 57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlR-ALY~~K~C~~CrTE~e 108 (493)
T COG5236 57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLR-ALYMQKGCPLCRTETE 108 (493)
T ss_pred cccccceeEEecCCceEEEeccCCchHHHHHHHHHH-HHHhccCCCccccccc
Confidence 445677899999988888899999999999998742 3567789999997643
No 89
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=95.68 E-value=0.0063 Score=48.66 Aligned_cols=30 Identities=23% Similarity=0.402 Sum_probs=25.7
Q ss_pred cCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 155 CCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 155 ~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
.|.|.|+..||..|+. ....||+|++.+..
T Consensus 53 ~CnHaFH~HCI~rWL~---Tk~~CPld~q~w~~ 82 (88)
T COG5194 53 VCNHAFHDHCIYRWLD---TKGVCPLDRQTWVL 82 (88)
T ss_pred ecchHHHHHHHHHHHh---hCCCCCCCCceeEE
Confidence 6999999999999965 47789999987653
No 90
>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=95.61 E-value=0.0071 Score=59.42 Aligned_cols=50 Identities=24% Similarity=0.539 Sum_probs=38.3
Q ss_pred ccccccc-cccCcE----EccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCce
Q 039490 140 DCNICLD-MARDPV----LTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASII 191 (423)
Q Consensus 140 ~C~ICle-~~~~pv----~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~ 191 (423)
.||+|.. .+.+|- +-+|||..|..|+...+. .+...||.|...+....+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~--~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFS--LGPAQCPECMVILRKNNFR 56 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHh--cCCCCCCcccchhhhcccc
Confidence 5999985 455552 238999999999999854 6788999999887765544
No 91
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=95.51 E-value=0.0041 Score=63.17 Aligned_cols=49 Identities=18% Similarity=0.459 Sum_probs=38.7
Q ss_pred CCccccccccccccC-c---EEccCCCccchhhHhhhhhhcCCCCCCCCCCccc
Q 039490 136 GEFFDCNICLDMARD-P---VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEV 185 (423)
Q Consensus 136 ~e~~~C~ICle~~~~-p---v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i 185 (423)
+-++.|..|.+.+-- + -.+||.|+|+..|+.+++. ......||.||+-.
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~-~n~~rsCP~Crklr 415 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILE-NNGTRSCPNCRKLR 415 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHH-hCCCCCCccHHHHH
Confidence 346789999998632 1 3489999999999999875 56778999999543
No 92
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.41 E-value=0.0084 Score=59.52 Aligned_cols=46 Identities=30% Similarity=0.681 Sum_probs=36.9
Q ss_pred ccccccccccccC------cEEccCCCccchhhHhhhhhhcCCCCCCCCCCccc
Q 039490 138 FFDCNICLDMARD------PVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEV 185 (423)
Q Consensus 138 ~~~C~ICle~~~~------pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i 185 (423)
...|-||.+.|.. |..+.|||+||..|+...+. .....||.||.+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~--~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLG--NSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhc--CceeeccCCCCcc
Confidence 3579999998753 56778999999999998743 4556799999984
No 93
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.40 E-value=0.0089 Score=61.08 Aligned_cols=53 Identities=21% Similarity=0.448 Sum_probs=38.8
Q ss_pred CCcccccccccccc---CcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCC
Q 039490 136 GEFFDCNICLDMAR---DPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDA 188 (423)
Q Consensus 136 ~e~~~C~ICle~~~---~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~ 188 (423)
-..|.|||=.+.-. .|+.+.|||+.|++-+....+......+||+|-......
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~ 387 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLAS 387 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHH
Confidence 35689999766543 368899999999999999854333348999996654433
No 94
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=95.32 E-value=0.041 Score=46.32 Aligned_cols=97 Identities=8% Similarity=-0.017 Sum_probs=65.9
Q ss_pred hhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCccccc---------chhcccCCCCCcceEEEecccc
Q 039490 221 RRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRS---------GELEVNDPLLHISRVLPASISS 291 (423)
Q Consensus 221 tKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d---------~~l~~f~~~dp~~~VLL~SLka 291 (423)
.|.+.+.+.+.... ..+.+.+||......+..+...|...++...... ..++.| + ++. ..+|++..+
T Consensus 12 ~k~~~i~~~i~~~~-~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f-~-~~~-~~ili~t~~ 87 (131)
T cd00079 12 EKLEALLELLKEHL-KKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDF-R-EGE-IVVLVATDV 87 (131)
T ss_pred HHHHHHHHHHHhcc-cCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHH-H-cCC-CcEEEEcCh
Confidence 56777777766443 2567899999999999999999988766644332 345677 2 233 344556778
Q ss_pred cccccchh-c------hhhhhhhccccceeeccccCc
Q 039490 292 LSSALTSA-M------DSAERLVGDLEAYINSDNLRR 321 (423)
Q Consensus 292 ggvGLN~~-l------~~A~~~~~~~qa~~r~hriGq 321 (423)
.+.|+|.+ + ++-+.+..-.|++.|+||.|+
T Consensus 88 ~~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~ 124 (131)
T cd00079 88 IARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQ 124 (131)
T ss_pred hhcCcChhhCCEEEEeCCCCCHHHheecccccccCCC
Confidence 99999953 1 222222223699999999996
No 95
>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=94.68 E-value=0.028 Score=50.84 Aligned_cols=33 Identities=27% Similarity=0.635 Sum_probs=23.7
Q ss_pred CccccccccccccCcEEccC------------CCcc-chhhHhhhh
Q 039490 137 EFFDCNICLDMARDPVLTCC------------GHLF-CWSCFYQLP 169 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~C------------GH~F-C~~Ci~~~~ 169 (423)
++..||||++...+.|++-| +..| +..|+.++-
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHH
Confidence 35689999999999998754 3222 467887763
No 96
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=94.60 E-value=0.021 Score=57.16 Aligned_cols=47 Identities=28% Similarity=0.672 Sum_probs=38.9
Q ss_pred CCCCccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 134 GGGEFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 134 ~~~e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
...+.+.||||.+.+..|+. -.=||.-|..|-.. ....||.|+.++.
T Consensus 44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~------~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK------VSNKCPTCRLPIG 91 (299)
T ss_pred cchhhccCchhhccCcccceecCCCcEehhhhhhh------hcccCCccccccc
Confidence 34577899999999999965 45699999999764 3678999999887
No 97
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=94.59 E-value=0.024 Score=41.28 Aligned_cols=43 Identities=21% Similarity=0.627 Sum_probs=20.8
Q ss_pred cccccccccCc--EEc--cCCCccchhhHhhhhhhcCCCCCCCCCCccc
Q 039490 141 CNICLDMARDP--VLT--CCGHLFCWSCFYQLPYAYRNVKECPACNGEV 185 (423)
Q Consensus 141 C~ICle~~~~p--v~~--~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i 185 (423)
||+|.+.+... -+. +||+.+|..|+....+ .....||.||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~--~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILE--NEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTT--SS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHh--ccCCCCCCCCCCC
Confidence 78999887432 233 6999999999888632 3578899999864
No 98
>PHA03096 p28-like protein; Provisional
Probab=94.58 E-value=0.015 Score=57.82 Aligned_cols=47 Identities=19% Similarity=0.190 Sum_probs=33.9
Q ss_pred cccccccccccC--------cEEccCCCccchhhHhhhhhhcCCCCCCCCCCccc
Q 039490 139 FDCNICLDMARD--------PVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEV 185 (423)
Q Consensus 139 ~~C~ICle~~~~--------pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i 185 (423)
-.|.||++.... .++..|-|.||..|+..|-........||.|+..-
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~ 233 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLN 233 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchh
Confidence 579999987532 13457999999999999965444455677766543
No 99
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.47 E-value=0.016 Score=57.31 Aligned_cols=44 Identities=27% Similarity=0.531 Sum_probs=33.4
Q ss_pred ccccccccccccCc-EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 138 FFDCNICLDMARDP-VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 138 ~~~C~ICle~~~~p-v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
...|.-|.-.+... .+++|.|+||.+|...- ..+.||.|-..+.
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~-----~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARSD-----SDKICPLCDDRVQ 134 (389)
T ss_pred eEeecccCCcceeeecccccchhhhhhhhhcC-----ccccCcCcccHHH
Confidence 56788897665543 57899999999998652 4678999976554
No 100
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=94.43 E-value=0.0098 Score=64.89 Aligned_cols=54 Identities=28% Similarity=0.742 Sum_probs=43.8
Q ss_pred CccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCc
Q 039490 137 EFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASI 190 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l 190 (423)
..++|+||...+..|+.+.|-|.||..|+...+........||+|+..+....+
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~ 73 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL 73 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence 456899999999999999999999999998765544557889999966654433
No 101
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.36 E-value=0.02 Score=57.38 Aligned_cols=53 Identities=21% Similarity=0.477 Sum_probs=38.2
Q ss_pred ccccccccccccCc--EE--ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCcee
Q 039490 138 FFDCNICLDMARDP--VL--TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIP 192 (423)
Q Consensus 138 ~~~C~ICle~~~~p--v~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~ 192 (423)
+..||+|.+.+... -+ -+||-..|.-|+...- ..-...||.||.......+..
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~ir--q~lngrcpacrr~y~denv~~ 70 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIR--QNLNGRCPACRRKYDDENVRY 70 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHH--hhccCCChHhhhhccccceeE
Confidence 34599999987543 22 4799988999977652 234678999999888776653
No 102
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.25 E-value=0.022 Score=62.94 Aligned_cols=49 Identities=27% Similarity=0.676 Sum_probs=37.7
Q ss_pred CCcccccccccccc--CcEE--ccCCCccchhhHhhhhhh----cCCCCCCCCCCcc
Q 039490 136 GEFFDCNICLDMAR--DPVL--TCCGHLFCWSCFYQLPYA----YRNVKECPACNGE 184 (423)
Q Consensus 136 ~e~~~C~ICle~~~--~pv~--~~CGH~FC~~Ci~~~~~~----~~~~~~CP~Cr~~ 184 (423)
...++|.||.+.+. .|+- ..|-|+|+..||..|... ....+.||.|...
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 46789999999875 3443 369999999999999652 2356789999843
No 103
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.24 E-value=0.013 Score=62.97 Aligned_cols=40 Identities=35% Similarity=0.816 Sum_probs=31.7
Q ss_pred Ccccccccccccc----CcEEccCCCccchhhHhhhhhhcCCCCCCCCCC
Q 039490 137 EFFDCNICLDMAR----DPVLTCCGHLFCWSCFYQLPYAYRNVKECPACN 182 (423)
Q Consensus 137 e~~~C~ICle~~~----~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr 182 (423)
+.+.|+||+..|. .|+.+.|||+.|+.|+... ....|| |+
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l-----yn~scp-~~ 53 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL-----YNASCP-TK 53 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhH-----hhccCC-CC
Confidence 4568999987764 5788999999999999875 346788 54
No 104
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.04 E-value=0.034 Score=52.89 Aligned_cols=46 Identities=26% Similarity=0.709 Sum_probs=36.3
Q ss_pred ccccccccccC--cEEccCCCccchhhHhhhhhhc-----CCCCCCCCCCccc
Q 039490 140 DCNICLDMARD--PVLTCCGHLFCWSCFYQLPYAY-----RNVKECPACNGEV 185 (423)
Q Consensus 140 ~C~ICle~~~~--pv~~~CGH~FC~~Ci~~~~~~~-----~~~~~CP~Cr~~i 185 (423)
-|.+|...+.. .+.+.|-|.|++.|+.+|.... .....||.|..+|
T Consensus 52 NC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 52 NCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 69999988865 4678999999999999995422 3345799998765
No 105
>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=93.88 E-value=0.027 Score=46.88 Aligned_cols=29 Identities=28% Similarity=0.666 Sum_probs=24.4
Q ss_pred ccccccccccccCcE--EccCCCccchhhHh
Q 039490 138 FFDCNICLDMARDPV--LTCCGHLFCWSCFY 166 (423)
Q Consensus 138 ~~~C~ICle~~~~pv--~~~CGH~FC~~Ci~ 166 (423)
...|++|...+...+ +.||||+|+..|+.
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 447999999988764 57999999999975
No 106
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=93.85 E-value=0.014 Score=57.58 Aligned_cols=50 Identities=24% Similarity=0.525 Sum_probs=36.9
Q ss_pred ccccccccccccC-c--EEccCCCccchhhHhhhhhh--------------------cCCCCCCCCCCcccCC
Q 039490 138 FFDCNICLDMARD-P--VLTCCGHLFCWSCFYQLPYA--------------------YRNVKECPACNGEVTD 187 (423)
Q Consensus 138 ~~~C~ICle~~~~-p--v~~~CGH~FC~~Ci~~~~~~--------------------~~~~~~CP~Cr~~i~~ 187 (423)
.-.|.||+--|.+ + ..|+|-|.|+..|+..|+.. ......||+||..|..
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 3479999977654 3 45899999999999888641 1123459999998864
No 107
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.56 E-value=0.035 Score=61.54 Aligned_cols=39 Identities=26% Similarity=0.672 Sum_probs=34.1
Q ss_pred cccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 139 FDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 139 ~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
-.|..|.-.+.-|++ ..|||.|+..|+.. ....||.|+.
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e~------~~~~CP~C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLED------KEDKCPKCLP 880 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhcc------CcccCCccch
Confidence 589999999999965 89999999999873 5678999976
No 108
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.12 E-value=0.055 Score=52.14 Aligned_cols=34 Identities=32% Similarity=0.454 Sum_probs=30.7
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhhhh
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLP 169 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~ 169 (423)
.+...|++|+.++.+||+++=||+||++||.+++
T Consensus 41 K~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred CCcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence 4556789999999999999999999999999874
No 109
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=92.55 E-value=0.031 Score=53.63 Aligned_cols=51 Identities=25% Similarity=0.555 Sum_probs=36.6
Q ss_pred Cccccccccc-cccCc--E--Ecc-CCCccchhhHhhhhhhcCCCCCCC--CCCcccCCCC
Q 039490 137 EFFDCNICLD-MARDP--V--LTC-CGHLFCWSCFYQLPYAYRNVKECP--ACNGEVTDAS 189 (423)
Q Consensus 137 e~~~C~ICle-~~~~p--v--~~~-CGH~FC~~Ci~~~~~~~~~~~~CP--~Cr~~i~~~~ 189 (423)
.+..||||.. .+-+| + +-| |-|..|..|+...+. .+...|| -|.+-+....
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs--~GpAqCP~~gC~kILRK~k 67 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFS--RGPAQCPYKGCGKILRKIK 67 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhc--CCCCCCCCccHHHHHHHhc
Confidence 3458999985 35555 2 224 999999999999864 5677899 7877665433
No 110
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.41 E-value=0.1 Score=50.48 Aligned_cols=61 Identities=20% Similarity=0.455 Sum_probs=47.3
Q ss_pred CCccccccccccccCc----EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccCCCchh
Q 039490 136 GEFFDCNICLDMARDP----VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGNGNSND 201 (423)
Q Consensus 136 ~e~~~C~ICle~~~~p----v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~~~~~~ 201 (423)
...|.|||-.-.|..- ++-+|||+|-..-+.+. ....|++|.+.+...+++.+-.....++
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei-----kas~C~~C~a~y~~~dvIvlNg~~E~~d 173 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI-----KASVCHVCGAAYQEDDVIVLNGTEEDVD 173 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh-----hhccccccCCcccccCeEeeCCCHHHHH
Confidence 5678999987777654 34589999999998885 3678999999999999887655544333
No 111
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.15 E-value=0.079 Score=48.72 Aligned_cols=51 Identities=25% Similarity=0.501 Sum_probs=35.8
Q ss_pred CccccccccccccCcE-------EccCCCccchhhHhhhhhhcC---C-----CCCCCCCCcccCC
Q 039490 137 EFFDCNICLDMARDPV-------LTCCGHLFCWSCFYQLPYAYR---N-----VKECPACNGEVTD 187 (423)
Q Consensus 137 e~~~C~ICle~~~~pv-------~~~CGH~FC~~Ci~~~~~~~~---~-----~~~CP~Cr~~i~~ 187 (423)
+...|.||+.+--+.. -..||..|+.-|+..|+.... . -..||+|..++..
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 3446888887644332 246999999999999976321 1 1469999988764
No 112
>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=92.11 E-value=0.092 Score=38.54 Aligned_cols=45 Identities=27% Similarity=0.581 Sum_probs=23.0
Q ss_pred cccccccccccCcEE-ccCCCccchhhHhhhhh--hcCCCCCCCCCCcc
Q 039490 139 FDCNICLDMARDPVL-TCCGHLFCWSCFYQLPY--AYRNVKECPACNGE 184 (423)
Q Consensus 139 ~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~--~~~~~~~CP~Cr~~ 184 (423)
+.|||....+..|+. ..|.|.-|.+ +..|+. .......||+|.++
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 689999999999986 6899997754 233433 13455889999764
No 113
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.67 E-value=0.076 Score=59.29 Aligned_cols=32 Identities=25% Similarity=0.506 Sum_probs=25.7
Q ss_pred Ccccccccccccc-Cc-EEccCCCccchhhHhhh
Q 039490 137 EFFDCNICLDMAR-DP-VLTCCGHLFCWSCFYQL 168 (423)
Q Consensus 137 e~~~C~ICle~~~-~p-v~~~CGH~FC~~Ci~~~ 168 (423)
....|.+|...+. .| ++.+|||.|++.|+.+.
T Consensus 816 p~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~ 849 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRH 849 (911)
T ss_pred CccchHHhcchhhcCcceeeeccchHHHHHHHHH
Confidence 3458999998754 45 56899999999999875
No 114
>PRK13766 Hef nuclease; Provisional
Probab=90.90 E-value=0.36 Score=54.22 Aligned_cols=77 Identities=12% Similarity=0.058 Sum_probs=55.7
Q ss_pred chhhHHHHHHHHhc-CCCCCCceEEcccchhHHHHHHHhhhhCCCCccccc-----------------chhcccCCCCCc
Q 039490 220 ARRIESVRQQLVNR-RPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRS-----------------GELEVNDPLLHI 281 (423)
Q Consensus 220 stKieaLr~~L~~~-~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d-----------------~~l~~f~~~dp~ 281 (423)
..|.+.|.+.|... ...++.|.+||.++....+.|...|...|+.+.... ..++.| +. ..
T Consensus 346 ~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F-~~-g~ 423 (773)
T PRK13766 346 HPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKF-RA-GE 423 (773)
T ss_pred ChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCCceEEEEccccccccCCCCHHHHHHHHHHH-Hc-CC
Confidence 46777777777654 234667999999999999999999988888744332 345678 33 35
Q ss_pred ceEEEecccccccccchh
Q 039490 282 SRVLPASISSLSSALTSA 299 (423)
Q Consensus 282 ~~VLL~SLkaggvGLN~~ 299 (423)
..||+.+ .+++-|||.+
T Consensus 424 ~~vLvaT-~~~~eGldi~ 440 (773)
T PRK13766 424 FNVLVST-SVAEEGLDIP 440 (773)
T ss_pred CCEEEEC-ChhhcCCCcc
Confidence 6676555 6888899953
No 115
>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=90.70 E-value=0.095 Score=46.27 Aligned_cols=31 Identities=29% Similarity=0.703 Sum_probs=25.8
Q ss_pred ccccccccccccC--cEE-ccCC------CccchhhHhhh
Q 039490 138 FFDCNICLDMARD--PVL-TCCG------HLFCWSCFYQL 168 (423)
Q Consensus 138 ~~~C~ICle~~~~--pv~-~~CG------H~FC~~Ci~~~ 168 (423)
..+|.||++.+.+ .|+ ++|| |.||..|+..|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw 65 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRW 65 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHH
Confidence 5689999999877 554 5666 68999999999
No 116
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=90.48 E-value=0.11 Score=43.75 Aligned_cols=28 Identities=29% Similarity=0.579 Sum_probs=23.8
Q ss_pred cCCCccchhhHhhhhhhcCCCCCCCCCCccc
Q 039490 155 CCGHLFCWSCFYQLPYAYRNVKECPACNGEV 185 (423)
Q Consensus 155 ~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i 185 (423)
.|.|.|+..||..|++ ....||+|.+.-
T Consensus 80 ~CNHaFH~hCisrWlk---tr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLK---TRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHh---hcCcCCCcCcce
Confidence 6999999999999955 567899997754
No 117
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.43 E-value=0.081 Score=54.89 Aligned_cols=58 Identities=28% Similarity=0.547 Sum_probs=37.9
Q ss_pred Ccccccccc-ccccCc---EEccCCCccchhhHhhhhhhc---CCCCCCCC--CCcccCCCCceecc
Q 039490 137 EFFDCNICL-DMARDP---VLTCCGHLFCWSCFYQLPYAY---RNVKECPA--CNGEVTDASIIPIY 194 (423)
Q Consensus 137 e~~~C~ICl-e~~~~p---v~~~CGH~FC~~Ci~~~~~~~---~~~~~CP~--Cr~~i~~~~l~~~~ 194 (423)
...+|.||. +..... .+..|+|.||..|+.++++.. .....||. |...++........
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c~~ll 211 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESCRKLL 211 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHHhhhc
Confidence 356899999 443321 246799999999999987643 33455765 66666655544433
No 118
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=90.31 E-value=0.18 Score=58.70 Aligned_cols=51 Identities=24% Similarity=0.533 Sum_probs=35.7
Q ss_pred Ccccccccccccc--Cc-EEccCCCccchhhHhhhhhhcC-------CCCCCCCCCcccCC
Q 039490 137 EFFDCNICLDMAR--DP-VLTCCGHLFCWSCFYQLPYAYR-------NVKECPACNGEVTD 187 (423)
Q Consensus 137 e~~~C~ICle~~~--~p-v~~~CGH~FC~~Ci~~~~~~~~-------~~~~CP~Cr~~i~~ 187 (423)
.+..|-||+...- .| +.+.|+|.|+..|....++..- +-..||+|+.++..
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 3458999996532 23 5689999999999977544211 12359999988764
No 119
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=90.17 E-value=0.35 Score=54.03 Aligned_cols=76 Identities=5% Similarity=-0.118 Sum_probs=56.4
Q ss_pred hhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCC----cccccchhcccCCCCCcceEEEeccccccccc
Q 039490 221 RRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLD----AAVRSGELEVNDPLLHISRVLPASISSLSSAL 296 (423)
Q Consensus 221 tKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~----~~~~d~~l~~f~~~dp~~~VLL~SLkaggvGL 296 (423)
.|+.++..++..+. ..+.|.|||+++...++.+...|...-|. ..+|...++.| +..+...+|++| ++|+-|+
T Consensus 480 ~K~~~~~~Li~~he-~~g~kiLVF~~~~~~l~~~a~~L~~~~I~G~ts~~ER~~il~~F-r~~~~i~vLv~S-kVgdeGI 556 (732)
T TIGR00603 480 NKFRACQFLIRFHE-QRGDKIIVFSDNVFALKEYAIKLGKPFIYGPTSQQERMQILQNF-QHNPKVNTIFLS-KVGDTSI 556 (732)
T ss_pred HHHHHHHHHHHHHh-hcCCeEEEEeCCHHHHHHHHHHcCCceEECCCCHHHHHHHHHHH-HhCCCccEEEEe-ccccccc
Confidence 56777766665443 36779999999999999888888533222 23577788999 656677888888 8999999
Q ss_pred chh
Q 039490 297 TSA 299 (423)
Q Consensus 297 N~~ 299 (423)
+.+
T Consensus 557 DlP 559 (732)
T TIGR00603 557 DLP 559 (732)
T ss_pred CCC
Confidence 954
No 120
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.84 E-value=0.18 Score=47.92 Aligned_cols=39 Identities=28% Similarity=0.655 Sum_probs=30.3
Q ss_pred cccccccccCcEEccCCC-ccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 141 CNICLDMARDPVLTCCGH-LFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 141 C~ICle~~~~pv~~~CGH-~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
|-.|.+.-..-+++||-| .+|..|-.. ...||+|+.+..
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~-------~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES-------LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc-------CccCCCCcChhh
Confidence 999988777766789997 679998432 456999987654
No 121
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=89.73 E-value=0.27 Score=50.45 Aligned_cols=35 Identities=17% Similarity=0.540 Sum_probs=26.6
Q ss_pred CCCccchhhHhhhhhhc----------CCCCCCCCCCcccCCCCc
Q 039490 156 CGHLFCWSCFYQLPYAY----------RNVKECPACNGEVTDASI 190 (423)
Q Consensus 156 CGH~FC~~Ci~~~~~~~----------~~~~~CP~Cr~~i~~~~l 190 (423)
|.-..|..|+.+|+... .++..||+||+.+...|+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV 355 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDV 355 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeee
Confidence 55567899999998632 345789999999987665
No 122
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.45 E-value=0.16 Score=49.90 Aligned_cols=45 Identities=22% Similarity=0.543 Sum_probs=34.3
Q ss_pred CCccccccccccccCcEEccC----CCccchhhHhhhhhhcCC--CCCCCC
Q 039490 136 GEFFDCNICLDMARDPVLTCC----GHLFCWSCFYQLPYAYRN--VKECPA 180 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~C----GH~FC~~Ci~~~~~~~~~--~~~CP~ 180 (423)
...+.|.+|.+.+++..+..| .|.||..|-.+.++.+.. ...||.
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPS 316 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPS 316 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCC
Confidence 456899999999999877666 799999999998764322 334554
No 123
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=89.37 E-value=0.19 Score=50.15 Aligned_cols=50 Identities=22% Similarity=0.438 Sum_probs=37.0
Q ss_pred CCcccccccccccc---CcEEccCCCccchhhHhhhhhhcCCCCCCCCCCccc
Q 039490 136 GEFFDCNICLDMAR---DPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEV 185 (423)
Q Consensus 136 ~e~~~C~ICle~~~---~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i 185 (423)
-..|.||+-.+... .|+++.|||+.-++-+..+-+.....+.||+|-..-
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~ 386 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS 386 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence 45689998766543 468999999999999988744333457899995433
No 124
>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=89.20 E-value=0.36 Score=34.30 Aligned_cols=40 Identities=20% Similarity=0.509 Sum_probs=23.6
Q ss_pred cccccccccCcEEc---cCCCccchhhHhhhhhhcCCCCCCCCC
Q 039490 141 CNICLDMARDPVLT---CCGHLFCWSCFYQLPYAYRNVKECPAC 181 (423)
Q Consensus 141 C~ICle~~~~pv~~---~CGH~FC~~Ci~~~~~~~~~~~~CP~C 181 (423)
|.+|.+.....+.= .|+=.++..|+..|+... ....||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~-~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHR-SNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT--SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcC-CCCCCcCC
Confidence 77899988887763 499899999999997633 33379988
No 125
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=87.98 E-value=0.36 Score=37.42 Aligned_cols=61 Identities=15% Similarity=0.023 Sum_probs=37.2
Q ss_pred hhhhCCCCccc---------ccchhcccCCCCCcceEEEecccccccccchhc-------hhhhhhhccccceeeccccC
Q 039490 257 QTGSLDLDAAV---------RSGELEVNDPLLHISRVLPASISSLSSALTSAM-------DSAERLVGDLEAYINSDNLR 320 (423)
Q Consensus 257 ~L~~~gi~~~~---------~d~~l~~f~~~dp~~~VLL~SLkaggvGLN~~l-------~~A~~~~~~~qa~~r~hriG 320 (423)
.|+..|+.... +...++.| ......||+.+ .+++.|+|.+- ++-+...+..|++.|++|.|
T Consensus 2 ~L~~~~~~~~~i~~~~~~~~r~~~~~~f--~~~~~~vli~t-~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 2 FLEKKGIKVAIIHGDMSQKERQEILKKF--NSGEIRVLIAT-DILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp HHHHTTSSEEEESTTSHHHHHHHHHHHH--HTTSSSEEEES-CGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTTT
T ss_pred ChHHCCCcEEEEECCCCHHHHHHHHHHh--hccCceEEEee-ccccccccccccccccccccCCCHHHHHHHhhcCCCCC
Confidence 35556666443 44567888 33344666665 88999999421 22112222359999999988
No 126
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=87.59 E-value=0.23 Score=36.01 Aligned_cols=43 Identities=23% Similarity=0.732 Sum_probs=24.3
Q ss_pred ccccccccccCcEEccCC-CccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 140 DCNICLDMARDPVLTCCG-HLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 140 ~C~ICle~~~~pv~~~CG-H~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
.|.-|. |.+.-...|. |..|..|+... ...+..||+|..++..
T Consensus 4 nCKsCW--f~~k~Li~C~dHYLCl~CLt~m---l~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 4 NCKSCW--FANKGLIKCSDHYLCLNCLTLM---LSRSDRCPICGKPLPT 47 (50)
T ss_dssp ---SS---S--SSEEE-SS-EEEHHHHHHT----SSSSEETTTTEE---
T ss_pred cChhhh--hcCCCeeeecchhHHHHHHHHH---hccccCCCcccCcCcc
Confidence 355453 3344455675 99999999987 5578889999988764
No 127
>PHA02862 5L protein; Provisional
Probab=87.36 E-value=0.34 Score=43.27 Aligned_cols=47 Identities=26% Similarity=0.489 Sum_probs=36.0
Q ss_pred cccccccccccCcEEccCCC-----ccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 139 FDCNICLDMARDPVLTCCGH-----LFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 139 ~~C~ICle~~~~pv~~~CGH-----~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
..|=||++.-.+. ..||.- .-+..|+.+|+. ...+..||.|+.+...
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn-~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWIN-YSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHh-cCCCcCccCCCCeEEE
Confidence 3799999986554 356543 458999999986 5677899999988764
No 128
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=86.27 E-value=0.75 Score=41.81 Aligned_cols=49 Identities=24% Similarity=0.375 Sum_probs=35.8
Q ss_pred CccccccccccccCcEEccCC--C---ccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 137 EFFDCNICLDMARDPVLTCCG--H---LFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~CG--H---~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
.+..|=||.+... +...||. . .-+.+|+..|+. .++...|+.|+.++..
T Consensus 7 ~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~-~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 7 MDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWIN-TSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHh-cCCCCcccccCCeEEE
Confidence 4558999998754 3345654 3 338999999987 4567889999987753
No 129
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=85.21 E-value=0.46 Score=47.04 Aligned_cols=42 Identities=31% Similarity=0.770 Sum_probs=33.4
Q ss_pred ccccccccccc----CcEEccCCCccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 139 FDCNICLDMAR----DPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 139 ~~C~ICle~~~----~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
..||||.+.+. .+..++|||.....|+.... ..+ -+||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~--~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMI--CEG-YTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHh--ccC-CCCCcccc
Confidence 34999998754 35678999999999999873 234 89999988
No 130
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=83.60 E-value=0.58 Score=33.81 Aligned_cols=40 Identities=25% Similarity=0.697 Sum_probs=25.3
Q ss_pred cccccccccC--cEEccCCC-----ccchhhHhhhhhhcCCCCCCCCC
Q 039490 141 CNICLDMARD--PVLTCCGH-----LFCWSCFYQLPYAYRNVKECPAC 181 (423)
Q Consensus 141 C~ICle~~~~--pv~~~CGH-----~FC~~Ci~~~~~~~~~~~~CP~C 181 (423)
|-||++...+ +.+.||+- ..+..|+..|+.. .....|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~-~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRE-SGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHH-HT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHh-cCCCcCCCC
Confidence 6788876543 56778753 4588999999874 556679887
No 131
>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=83.55 E-value=0.12 Score=40.55 Aligned_cols=40 Identities=23% Similarity=0.523 Sum_probs=24.0
Q ss_pred cccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 139 FDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 139 ~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
+.||.|...+... =||.+|..|-..+ .....||-|..++.
T Consensus 2 ~~CP~C~~~L~~~----~~~~~C~~C~~~~----~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQ----GGHYHCEACQKDY----KKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEE----TTEEEETTT--EE----EEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEe----CCEEECccccccc----eecccCCCcccHHH
Confidence 5799999875432 2899999998875 34567999998875
No 132
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=81.49 E-value=0.84 Score=50.64 Aligned_cols=49 Identities=14% Similarity=0.101 Sum_probs=33.5
Q ss_pred CccccccccccccCcE-------EccCCCccchhhHhhhhhh---cCCCCCCCCCCccc
Q 039490 137 EFFDCNICLDMARDPV-------LTCCGHLFCWSCFYQLPYA---YRNVKECPACNGEV 185 (423)
Q Consensus 137 e~~~C~ICle~~~~pv-------~~~CGH~FC~~Ci~~~~~~---~~~~~~CP~Cr~~i 185 (423)
+...|.+|...+.+++ +-.|+|.||..||..|... ...+..|++|..-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 4456777776666532 2349999999999999652 24456788886543
No 133
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=81.41 E-value=2.3 Score=45.70 Aligned_cols=70 Identities=13% Similarity=-0.039 Sum_probs=52.5
Q ss_pred CchhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCC---------cccccchhcccCCCCCcceEEEecc
Q 039490 219 LARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLD---------AAVRSGELEVNDPLLHISRVLPASI 289 (423)
Q Consensus 219 ~stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~---------~~~~d~~l~~f~~~dp~~~VLL~SL 289 (423)
...|...|..+|......+..|+|||=.....-+.|...|++.++. ..+|+..|+.| ....+.||.+.=
T Consensus 322 ~~~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~F--reG~~~vLVATd 399 (519)
T KOG0331|consen 322 ETAKLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGF--REGKSPVLVATD 399 (519)
T ss_pred HHHHHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhc--ccCCcceEEEcc
Confidence 3455566666666555667789999999999999999999998766 44588899999 455567775554
Q ss_pred c
Q 039490 290 S 290 (423)
Q Consensus 290 k 290 (423)
-
T Consensus 400 V 400 (519)
T KOG0331|consen 400 V 400 (519)
T ss_pred c
Confidence 4
No 134
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.42 E-value=1.3 Score=46.90 Aligned_cols=59 Identities=24% Similarity=0.510 Sum_probs=39.7
Q ss_pred CCccccccccccccC-cEEccCCCccchhhHhhhhhhc---CCC--CCCCC--CCcccCCCCceecc
Q 039490 136 GEFFDCNICLDMARD-PVLTCCGHLFCWSCFYQLPYAY---RNV--KECPA--CNGEVTDASIIPIY 194 (423)
Q Consensus 136 ~e~~~C~ICle~~~~-pv~~~CGH~FC~~Ci~~~~~~~---~~~--~~CP~--Cr~~i~~~~l~~~~ 194 (423)
.....|.||.+.+.. .+.+.|||.||..|+..+++.. ... .+||. |...+....+..+.
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~ 134 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLV 134 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeec
Confidence 345689999998885 5567999999999999986521 111 34554 66655554444333
No 135
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=79.82 E-value=4.4 Score=43.33 Aligned_cols=95 Identities=12% Similarity=0.113 Sum_probs=66.8
Q ss_pred chhhHHHHHHHHhc-CCCCCCceEEcccchhHHHHHHHhhhhCCCCcc-c--------ccch---------hcccCCCCC
Q 039490 220 ARRIESVRQQLVNR-RPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAA-V--------RSGE---------LEVNDPLLH 280 (423)
Q Consensus 220 stKieaLr~~L~~~-~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~-~--------~d~~---------l~~f~~~dp 280 (423)
-.|++.++.++... +..++...|||.||.+-.+.|-..|...|+... + -+.+ |+.| ...
T Consensus 347 HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~F--r~G 424 (542)
T COG1111 347 HPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQF--RKG 424 (542)
T ss_pred CccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcceeEEeeccccccccccCHHHHHHHHHHH--hcC
Confidence 45677777777765 344568999999999999999999999998853 2 2233 4667 345
Q ss_pred cceEEEecccccccccc----------hhchhhhhhhccccceeeccccCccc
Q 039490 281 ISRVLPASISSLSSALT----------SAMDSAERLVGDLEAYINSDNLRRNH 323 (423)
Q Consensus 281 ~~~VLL~SLkaggvGLN----------~~l~~A~~~~~~~qa~~r~hriGq~~ 323 (423)
++.|| ++-+.|.=||. .|.-+++|.+ =|--|+||.+
T Consensus 425 e~nVL-VaTSVgEEGLDIp~vDlVifYEpvpSeIR~I------QR~GRTGR~r 470 (542)
T COG1111 425 EYNVL-VATSVGEEGLDIPEVDLVIFYEPVPSEIRSI------QRKGRTGRKR 470 (542)
T ss_pred CceEE-EEcccccccCCCCcccEEEEecCCcHHHHHH------HhhCccccCC
Confidence 66666 55667778888 3446677753 3667777654
No 136
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.62 E-value=0.78 Score=45.45 Aligned_cols=38 Identities=26% Similarity=0.641 Sum_probs=28.8
Q ss_pred CCCccchhhHhhhhhh----------cCCCCCCCCCCcccCCCCceec
Q 039490 156 CGHLFCWSCFYQLPYA----------YRNVKECPACNGEVTDASIIPI 193 (423)
Q Consensus 156 CGH~FC~~Ci~~~~~~----------~~~~~~CP~Cr~~i~~~~l~~~ 193 (423)
|....|.+|+.+|+.. ..++..||.||+.+...|+.-+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v 372 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCV 372 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEE
Confidence 6667789999999642 2456789999999987776543
No 137
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=79.15 E-value=0.59 Score=46.47 Aligned_cols=45 Identities=22% Similarity=0.287 Sum_probs=23.3
Q ss_pred CccccccccccccCcEEccC-----CCccchhhHhhhhhhcCCCCCCCCCCcc
Q 039490 137 EFFDCNICLDMARDPVLTCC-----GHLFCWSCFYQLPYAYRNVKECPACNGE 184 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~C-----GH~FC~~Ci~~~~~~~~~~~~CP~Cr~~ 184 (423)
..-.||||.....-.++..= .|.+|.-|-..| ......||.|...
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W---~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEW---RFVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EE---E--TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCee---eecCCCCcCCCCC
Confidence 34689999998766655432 478899999999 4456789999754
No 138
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=78.61 E-value=1.5 Score=48.85 Aligned_cols=54 Identities=22% Similarity=0.448 Sum_probs=40.9
Q ss_pred Ccccccccccc--ccCcEEccCCC-----ccchhhHhhhhhhcCCCCCCCCCCcccCCCCce
Q 039490 137 EFFDCNICLDM--ARDPVLTCCGH-----LFCWSCFYQLPYAYRNVKECPACNGEVTDASII 191 (423)
Q Consensus 137 e~~~C~ICle~--~~~pv~~~CGH-----~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~ 191 (423)
+...|-||... ..+|..-||.. ..+.+|+.+|+. ..+.++|-.|+.++.-+++.
T Consensus 11 d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~-~s~~~kCdiChy~~~Fk~IY 71 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWME-CSGTKKCDICHYEYKFKDIY 71 (1175)
T ss_pred cchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHh-cCCCcceeeecceeeeeeec
Confidence 44689999854 45677767764 358999999987 67788999999988765543
No 139
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=77.75 E-value=1.4 Score=33.41 Aligned_cols=50 Identities=10% Similarity=-0.076 Sum_probs=30.3
Q ss_pred ccchhcccCCCCCcceEEEecccccccccchh-c------hhhhhhhccccceeeccccC
Q 039490 268 RSGELEVNDPLLHISRVLPASISSLSSALTSA-M------DSAERLVGDLEAYINSDNLR 320 (423)
Q Consensus 268 ~d~~l~~f~~~dp~~~VLL~SLkaggvGLN~~-l------~~A~~~~~~~qa~~r~hriG 320 (423)
+...++.| .. ... .++++-.+++.|+|.+ + ++-+....-.|++.|+||.|
T Consensus 26 r~~~~~~f-~~-~~~-~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~~R~g 82 (82)
T smart00490 26 REEILEKF-NN-GKI-KVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82 (82)
T ss_pred HHHHHHHH-Hc-CCC-eEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhcccccCC
Confidence 34466778 33 333 5556678999999954 1 22111122259999999987
No 140
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=77.28 E-value=0.92 Score=45.68 Aligned_cols=44 Identities=18% Similarity=0.289 Sum_probs=32.3
Q ss_pred ccccccccccccCcEEc----cCC--CccchhhHhhhhhhcCCCCCCCCCCcc
Q 039490 138 FFDCNICLDMARDPVLT----CCG--HLFCWSCFYQLPYAYRNVKECPACNGE 184 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~----~CG--H~FC~~Ci~~~~~~~~~~~~CP~Cr~~ 184 (423)
.-.||||.....-.++. .=| |.+|.-|-.+| ......||.|...
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW---~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEW---HYVRVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcc---cccCccCCCCCCC
Confidence 44899999887554432 233 67799999999 4567789999863
No 141
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=73.20 E-value=5.7 Score=42.80 Aligned_cols=65 Identities=17% Similarity=0.093 Sum_probs=50.0
Q ss_pred hhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcc---------cccchhcccCCCCCcceEEEeccc
Q 039490 221 RRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAA---------VRSGELEVNDPLLHISRVLPASIS 290 (423)
Q Consensus 221 tKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~---------~~d~~l~~f~~~dp~~~VLL~SLk 290 (423)
.|.+.|..++..... .++|||..=....+.+...|...|+... .|...++.| + +....||+++=-
T Consensus 259 ~k~~~L~~ll~~~~~---~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F-~-~g~~~vLVaTDv 332 (513)
T COG0513 259 EKLELLLKLLKDEDE---GRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKF-K-DGELRVLVATDV 332 (513)
T ss_pred HHHHHHHHHHhcCCC---CeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHH-H-cCCCCEEEEech
Confidence 477778777764432 2699999999999999999999998844 366778999 3 677888866654
No 142
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.25 E-value=1.9 Score=44.78 Aligned_cols=42 Identities=29% Similarity=0.622 Sum_probs=28.4
Q ss_pred CccccccccccccC-----cEEccCCCccchhhHhhhhhhcCCCCCCCCC
Q 039490 137 EFFDCNICLDMARD-----PVLTCCGHLFCWSCFYQLPYAYRNVKECPAC 181 (423)
Q Consensus 137 e~~~C~ICle~~~~-----pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~C 181 (423)
....||+|.-.+.- .+.-.|||-||+.|...|. .....|..|
T Consensus 305 ~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~---~~~~~~~~~ 351 (384)
T KOG1812|consen 305 RWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWK---THNGECYEC 351 (384)
T ss_pred hcCcCcccceeeeecCCcceEEeeccccchhhcCcchh---hCCccccCc
Confidence 35689999876543 2333599999999999983 344445444
No 143
>PF13871 Helicase_C_4: Helicase_C-like
Probab=70.88 E-value=1.8 Score=43.00 Aligned_cols=48 Identities=6% Similarity=-0.020 Sum_probs=33.8
Q ss_pred cccCCCCCcceEEEecccccccccch---------------hchhhhhhhccccceeeccccCccc
Q 039490 273 EVNDPLLHISRVLPASISSLSSALTS---------------AMDSAERLVGDLEAYINSDNLRRNH 323 (423)
Q Consensus 273 ~~f~~~dp~~~VLL~SLkaggvGLN~---------------~l~~A~~~~~~~qa~~r~hriGq~~ 323 (423)
+.| .+....|+++| .||+.|+.+ +|+..|.+-...|.+-|+||.||.+
T Consensus 55 ~~F--~~g~k~v~iis-~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~ 117 (278)
T PF13871_consen 55 QAF--MDGEKDVAIIS-DAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVS 117 (278)
T ss_pred HHH--hCCCceEEEEe-cccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhcccccccccc
Confidence 567 34467888888 899999983 3334444322369999999999654
No 144
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=70.52 E-value=2.3 Score=31.34 Aligned_cols=40 Identities=18% Similarity=0.354 Sum_probs=23.9
Q ss_pred CccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcc
Q 039490 137 EFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGE 184 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~ 184 (423)
+.|.||.|.+.+... .++.-|...... ......||+|...
T Consensus 1 ~~f~CP~C~~~~~~~-------~L~~H~~~~H~~-~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 1 DSFTCPYCGKGFSES-------SLVEHCEDEHRS-ESKNVVCPICSSR 40 (54)
T ss_pred CCcCCCCCCCccCHH-------HHHHHHHhHCcC-CCCCccCCCchhh
Confidence 357899999854432 234445554322 2345779999753
No 145
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=70.40 E-value=2 Score=43.38 Aligned_cols=44 Identities=23% Similarity=0.401 Sum_probs=32.5
Q ss_pred CccccccccccccCcEE-c--cCC--CccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 137 EFFDCNICLDMARDPVL-T--CCG--HLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~-~--~CG--H~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
..-.||+|.....-.++ . .=| |.+|.-|-..| ......||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW---~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEW---HVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcc---cccCccCCCCCC
Confidence 45689999998765543 1 233 57799999999 455778999985
No 146
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=70.40 E-value=2.7 Score=33.27 Aligned_cols=35 Identities=29% Similarity=0.521 Sum_probs=26.3
Q ss_pred CCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceeccc
Q 039490 156 CGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYG 195 (423)
Q Consensus 156 CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~ 195 (423)
--|+||..|.... -...||.|...+....+.|...
T Consensus 27 fEcTFCadCae~~-----l~g~CPnCGGelv~RP~RPaa~ 61 (84)
T COG3813 27 FECTFCADCAENR-----LHGLCPNCGGELVARPIRPAAK 61 (84)
T ss_pred EeeehhHhHHHHh-----hcCcCCCCCchhhcCcCChHHH
Confidence 4578999999864 3578999999887766665443
No 147
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=70.14 E-value=6.9 Score=42.18 Aligned_cols=90 Identities=11% Similarity=0.027 Sum_probs=58.4
Q ss_pred chhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCccc---------ccchhcccCCCCCcceEEEeccc
Q 039490 220 ARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAV---------RSGELEVNDPLLHISRVLPASIS 290 (423)
Q Consensus 220 stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~---------~d~~l~~f~~~dp~~~VLL~SLk 290 (423)
..|...|..+|... .++..|||-....-.|.|...|.+.||+... |..+|+.| +. ...-||.+.--
T Consensus 502 d~k~kkL~eil~~~---~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~f-r~-~t~dIlVaTDv 576 (673)
T KOG0333|consen 502 DEKRKKLIEILESN---FDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADF-RE-GTGDILVATDV 576 (673)
T ss_pred hHHHHHHHHHHHhC---CCCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHHHHHHHHH-Hh-cCCCEEEEecc
Confidence 34555666666543 4567899999999999999999999999665 44578888 33 33456655444
Q ss_pred cc-cc-------ccchhchhhhhhhccccceeeccccCcc
Q 039490 291 SL-SS-------ALTSAMDSAERLVGDLEAYINSDNLRRN 322 (423)
Q Consensus 291 ag-gv-------GLN~~l~~A~~~~~~~qa~~r~hriGq~ 322 (423)
|| |+ -+|.-|....+ +-+|||||.
T Consensus 577 AgRGIDIpnVSlVinydmaksie--------DYtHRIGRT 608 (673)
T KOG0333|consen 577 AGRGIDIPNVSLVINYDMAKSIE--------DYTHRIGRT 608 (673)
T ss_pred cccCCCCCccceeeecchhhhHH--------HHHHHhccc
Confidence 32 21 23444433222 358999953
No 148
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=70.09 E-value=4.5 Score=41.79 Aligned_cols=57 Identities=25% Similarity=0.596 Sum_probs=38.6
Q ss_pred ccccccccccccCc--EEccCCCccchhhHhhhhh-------------------hcCC--CCCCCCCCcccCCCCceecc
Q 039490 138 FFDCNICLDMARDP--VLTCCGHLFCWSCFYQLPY-------------------AYRN--VKECPACNGEVTDASIIPIY 194 (423)
Q Consensus 138 ~~~C~ICle~~~~p--v~~~CGH~FC~~Ci~~~~~-------------------~~~~--~~~CP~Cr~~i~~~~l~~~~ 194 (423)
..+||||+-++-.. .+-.|....|..|+.++-. .... -..||.|..+-....++++.
T Consensus 74 ~~ecpicflyyps~~n~~rcC~~~Ic~ecf~~~~~~~~~~pt~~a~v~~~~~f~~~s~p~~~~cp~c~t~~~~vey~~i~ 153 (482)
T KOG2789|consen 74 KTECPICFLYYPSAKNLVRCCSETICGECFAPFGCYSFEKPTYDATVVKNLIFKRKSAPFYTPCPDCDTSWTRVEYIKIV 153 (482)
T ss_pred cccCceeeeecccccchhhhhccchhhhheecccCCCcccCccccccccccccccccccccccCCccCCcccceeeeccc
Confidence 36899999877654 3457999999999977511 0011 14699998876665555544
No 149
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=69.65 E-value=3.7 Score=41.47 Aligned_cols=45 Identities=22% Similarity=0.522 Sum_probs=34.5
Q ss_pred cccccccccccC--cE--EccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 139 FDCNICLDMARD--PV--LTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 139 ~~C~ICle~~~~--pv--~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
-.||||.+.... .- -.+|||..|..|+... ......||.|+++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~---~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTI---SDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcc---cccCCCCCccCCccc
Confidence 579999997632 22 2479999999999886 567889999996554
No 150
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=66.73 E-value=2.6 Score=41.23 Aligned_cols=47 Identities=21% Similarity=0.282 Sum_probs=36.5
Q ss_pred CccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCCCCcc
Q 039490 137 EFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPACNGE 184 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~ 184 (423)
-.+.|||-..++.+|++ ..|||+|=+.-|..++. ......||+-.++
T Consensus 175 fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~-~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 175 FSNRDPISKKPIVNPVISKKCGHVYDRDSIMQILC-DEITIRCPVLGCE 222 (262)
T ss_pred hcccCchhhhhhhchhhhcCcCcchhhhhHHHHhc-cCceeecccccCC
Confidence 45689999999999986 68999999999999744 2335668885443
No 151
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=66.24 E-value=4.9 Score=32.27 Aligned_cols=48 Identities=21% Similarity=0.460 Sum_probs=19.7
Q ss_pred cccccccccccc-----CcEE--ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 138 FFDCNICLDMAR-----DPVL--TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 138 ~~~C~ICle~~~-----~pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
.-.|.||.+..- ++.+ -.|+--.|+.|+.-= ...+...||.|+.....
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYE--rkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYE--RKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHH--HHTS-SB-TTT--B---
T ss_pred CcccccccCccccCCCCCEEEEEcccCCccchhHHHHH--hhcCcccccccCCCccc
Confidence 348999998753 2222 258888899998632 34677889999976653
No 152
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=65.31 E-value=3.8 Score=33.90 Aligned_cols=37 Identities=27% Similarity=0.769 Sum_probs=28.8
Q ss_pred ccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 138 FFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
.-.|-||-.....+ ||.||..|.+. ...|.+|.+.+.
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAYk-------kGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAYK-------KGICAMCGKKIL 80 (90)
T ss_pred CccccccccccccC-----CCccChhhhcc-------cCcccccCCeec
Confidence 34799998766554 89999999654 568999998774
No 153
>PLN02189 cellulose synthase
Probab=63.51 E-value=9.2 Score=44.32 Aligned_cols=47 Identities=23% Similarity=0.563 Sum_probs=33.9
Q ss_pred cccccccccccC-----cEE--ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 139 FDCNICLDMARD-----PVL--TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 139 ~~C~ICle~~~~-----pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
..|.||.+.... +.+ -.||--.|+.|.. + +...+...||.|++....
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cye-y-er~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYE-Y-ERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhh-h-hhhcCCccCcccCCchhh
Confidence 389999998542 222 2488889999983 3 235677889999988763
No 154
>KOG4284 consensus DEAD box protein [Transcription]
Probab=63.28 E-value=3.5 Score=45.38 Aligned_cols=84 Identities=15% Similarity=0.181 Sum_probs=51.7
Q ss_pred CCCCCCceEEcccchhHHHHHHHhhhhCCCCcccccchhcccCC-------CCCcceEEEec-cccccc---ccchhchh
Q 039490 234 RPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAVRSGELEVNDP-------LLHISRVLPAS-ISSLSS---ALTSAMDS 302 (423)
Q Consensus 234 ~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~~d~~l~~f~~-------~dp~~~VLL~S-Lkaggv---GLN~~l~~ 302 (423)
..-|...++||+...+--+-+...|...||...-..|+|...++ ...-++||..+ |-|-|+ -.|+-.|
T Consensus 268 ~~ipy~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGIDa~~vNLVVN- 346 (980)
T KOG4284|consen 268 KSIPYVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGIDADNVNLVVN- 346 (980)
T ss_pred hhCchHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhceEEEEEecchhhccCCccccceEEe-
Confidence 45577789999999999999999999999997666666643321 12256777322 334443 2232222
Q ss_pred hhhhhccccceeeccccCc
Q 039490 303 AERLVGDLEAYINSDNLRR 321 (423)
Q Consensus 303 A~~~~~~~qa~~r~hriGq 321 (423)
+.+..|...|+ |||||
T Consensus 347 -iD~p~d~eTY~--HRIGR 362 (980)
T KOG4284|consen 347 -IDAPADEETYF--HRIGR 362 (980)
T ss_pred -cCCCcchHHHH--HHhhh
Confidence 11223345554 89995
No 155
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=63.28 E-value=8.3 Score=40.44 Aligned_cols=55 Identities=20% Similarity=0.317 Sum_probs=47.0
Q ss_pred cccccccccccCcEEc-cCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCCceecccC
Q 039490 139 FDCNICLDMARDPVLT-CCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDASIIPIYGN 196 (423)
Q Consensus 139 ~~C~ICle~~~~pv~~-~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~l~~~~~~ 196 (423)
+.|.|-.+..+.||+. .-||+|-+.-|.++. ....+||+-..+++.++++++...
T Consensus 1 m~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI---~e~G~DPIt~~pLs~eelV~Ik~~ 56 (506)
T KOG0289|consen 1 MVCAISGEVPEEPVVSPVSGHVFEKRLIEQYI---AETGKDPITNEPLSIEELVEIKVP 56 (506)
T ss_pred CeecccCCCCCCccccccccchHHHHHHHHHH---HHcCCCCCCCCcCCHHHeeecccc
Confidence 3699999999999885 699999999999984 467789999999999888877543
No 156
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=63.21 E-value=2.4 Score=43.86 Aligned_cols=50 Identities=20% Similarity=0.408 Sum_probs=0.0
Q ss_pred ccccccccccc--------------cC---c--EEccCCCccchhhHhhhhhh------cCCCCCCCCCCcccCC
Q 039490 138 FFDCNICLDMA--------------RD---P--VLTCCGHLFCWSCFYQLPYA------YRNVKECPACNGEVTD 187 (423)
Q Consensus 138 ~~~C~ICle~~--------------~~---p--v~~~CGH~FC~~Ci~~~~~~------~~~~~~CP~Cr~~i~~ 187 (423)
..+||+|+..- .+ | ++-||||+--.....-|... ...+..||+|-.++..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 56899999641 11 1 34589998777777777432 1234579999888864
No 157
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=62.97 E-value=5.6 Score=40.02 Aligned_cols=52 Identities=19% Similarity=0.420 Sum_probs=32.0
Q ss_pred Ccccccccccccc--------------C---c--EEccCCCccchhhHhhhhhh------cCCCCCCCCCCcccCCC
Q 039490 137 EFFDCNICLDMAR--------------D---P--VLTCCGHLFCWSCFYQLPYA------YRNVKECPACNGEVTDA 188 (423)
Q Consensus 137 e~~~C~ICle~~~--------------~---p--v~~~CGH~FC~~Ci~~~~~~------~~~~~~CP~Cr~~i~~~ 188 (423)
.+.+||+|+..-. + | ...||||+.-..-..-|... ...+..||+|-..+...
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 3568999987411 1 1 24589997555555555321 23456799998877543
No 158
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=62.88 E-value=2 Score=38.02 Aligned_cols=27 Identities=37% Similarity=0.731 Sum_probs=17.2
Q ss_pred CCCcccccccccc-ccCcEEccCCCccchhhHh
Q 039490 135 GGEFFDCNICLDM-ARDPVLTCCGHLFCWSCFY 166 (423)
Q Consensus 135 ~~e~~~C~ICle~-~~~pv~~~CGH~FC~~Ci~ 166 (423)
..++.+|.||+.. |-+. |||. |..|-.
T Consensus 62 v~ddatC~IC~KTKFADG----~GH~-C~YCq~ 89 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADG----CGHN-CSYCQT 89 (169)
T ss_pred cCcCcchhhhhhcccccc----cCcc-cchhhh
Confidence 3466799999975 4444 7773 444543
No 159
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=61.93 E-value=5.6 Score=44.12 Aligned_cols=63 Identities=17% Similarity=0.315 Sum_probs=38.4
Q ss_pred cccCCCCCCccccccccccccCcEE-ccCCCccchhhHhhhhh--hcCCCCCCCCCCcccCCCCcee
Q 039490 129 KRAGAGGGEFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPY--AYRNVKECPACNGEVTDASIIP 192 (423)
Q Consensus 129 ~~~~~~~~e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~--~~~~~~~CP~Cr~~i~~~~l~~ 192 (423)
+.......-.+.|+|+...+.-|.. ..|+|.-|.+=.. ++. .....+.||+|.+.+..++++-
T Consensus 297 ~i~tt~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~-~lq~n~~~pTW~CPVC~~~~~~e~l~i 362 (636)
T KOG2169|consen 297 EIATTSLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALS-YLQMNEQKPTWRCPVCQKAAPFEGLII 362 (636)
T ss_pred cceeccceeEecCCcccceeecCCcccccccceecchhh-hHHhccCCCeeeCccCCccccccchhh
Confidence 3344455677899999877666543 4566654443321 111 1244577999999888776653
No 160
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.50 E-value=4.8 Score=42.53 Aligned_cols=40 Identities=33% Similarity=0.652 Sum_probs=27.9
Q ss_pred CcEEccCCCccchhhHhhhhh-----------------------hcCCCCCCCCCCcccCCCC
Q 039490 150 DPVLTCCGHLFCWSCFYQLPY-----------------------AYRNVKECPACNGEVTDAS 189 (423)
Q Consensus 150 ~pv~~~CGH~FC~~Ci~~~~~-----------------------~~~~~~~CP~Cr~~i~~~~ 189 (423)
.+|.-.|||.||+.|...|.. ...+.+.||.|..++..+.
T Consensus 178 ~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~CP~c~~~iek~~ 240 (444)
T KOG1815|consen 178 VEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKECPKCKVPIEKDG 240 (444)
T ss_pred cceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccCCCcccchhccC
Confidence 346668999999999987732 1233456999988776543
No 161
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=59.17 E-value=3.1 Score=43.05 Aligned_cols=45 Identities=22% Similarity=0.496 Sum_probs=0.0
Q ss_pred ccccccccccc-------------Cc-EEccCCCccchhhHhhhhhhc---CCCCCCCCCCcccC
Q 039490 139 FDCNICLDMAR-------------DP-VLTCCGHLFCWSCFYQLPYAY---RNVKECPACNGEVT 186 (423)
Q Consensus 139 ~~C~ICle~~~-------------~p-v~~~CGH~FC~~Ci~~~~~~~---~~~~~CP~Cr~~i~ 186 (423)
..||+=+..+. .| |.+.|||++-+. .|.... .....||+|+..-.
T Consensus 278 pQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~ 339 (416)
T PF04710_consen 278 PQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGP 339 (416)
T ss_dssp -----------------------------------------------------------------
T ss_pred CCCCcCCCccccccccccccccccCceeeccccceeeec---ccccccccccccccCCCccccCC
Confidence 47888765542 23 457899998764 452211 23678999987543
No 162
>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=58.89 E-value=11 Score=27.92 Aligned_cols=25 Identities=28% Similarity=0.856 Sum_probs=14.6
Q ss_pred cCCCccchhhHhhhhhhcCCCCCCCCCC
Q 039490 155 CCGHLFCWSCFYQLPYAYRNVKECPACN 182 (423)
Q Consensus 155 ~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr 182 (423)
.|++.||.+|=.=. ...-..||-|-
T Consensus 26 ~C~~~FC~dCD~fi---HE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDVFI---HETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHHTT---TTTS-SSSTT-
T ss_pred CCCCccccCcChhh---hccccCCcCCC
Confidence 69999999995432 34567899983
No 163
>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=57.97 E-value=5.1 Score=25.38 Aligned_cols=9 Identities=22% Similarity=0.475 Sum_probs=4.6
Q ss_pred ccccccccc
Q 039490 140 DCNICLDMA 148 (423)
Q Consensus 140 ~C~ICle~~ 148 (423)
.||-|....
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 355555444
No 164
>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=57.28 E-value=8.8 Score=28.91 Aligned_cols=44 Identities=23% Similarity=0.547 Sum_probs=27.9
Q ss_pred ccccccccccC----cEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCC
Q 039490 140 DCNICLDMARD----PVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDA 188 (423)
Q Consensus 140 ~C~ICle~~~~----pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~ 188 (423)
.|-.|...+.. ..+-.--.+||..|....+ ...||.|...+...
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l-----~~~CPNCgGelv~R 54 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML-----NGVCPNCGGELVRR 54 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh-----cCcCcCCCCccccC
Confidence 46666655432 2222223489999998852 46899999887643
No 165
>PF14353 CpXC: CpXC protein
Probab=56.48 E-value=6.5 Score=34.05 Aligned_cols=49 Identities=14% Similarity=0.032 Sum_probs=26.0
Q ss_pred cccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 139 FDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 139 ~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
.+||-|...+...+-+.---..=..=....+...-....||.|...+..
T Consensus 2 itCP~C~~~~~~~v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRL 50 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceec
Confidence 4788888777655432221111122222222223345789999987754
No 166
>PLN02436 cellulose synthase A
Probab=55.54 E-value=8.6 Score=44.70 Aligned_cols=47 Identities=23% Similarity=0.597 Sum_probs=33.8
Q ss_pred cccccccccccC-----cEE--ccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 139 FDCNICLDMARD-----PVL--TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 139 ~~C~ICle~~~~-----pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
..|.||.+.... +.+ -.||--.|..|.. + +...+...||.|++....
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cye-y-er~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYE-Y-ERREGNQACPQCKTRYKR 90 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhh-h-hhhcCCccCcccCCchhh
Confidence 389999997532 222 2488889999984 3 235677889999988763
No 167
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=54.63 E-value=10 Score=38.27 Aligned_cols=46 Identities=9% Similarity=-0.127 Sum_probs=36.2
Q ss_pred CCCCccccccccccccCcEEccCCC-ccchhhHhhhhhhcCCCCCCCCCCcc
Q 039490 134 GGGEFFDCNICLDMARDPVLTCCGH-LFCWSCFYQLPYAYRNVKECPACNGE 184 (423)
Q Consensus 134 ~~~e~~~C~ICle~~~~pv~~~CGH-~FC~~Ci~~~~~~~~~~~~CP~Cr~~ 184 (423)
..-..++|-.|..-+...+..+||| .||..|... .....||+|...
T Consensus 339 ~~~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~~-----s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 339 GLMSSLKGTSAGFGLLSTIWSGGNMNLSPGSLASA-----SASPTSSTCDHN 385 (394)
T ss_pred cchhhcccccccCceeeeEeecCCcccChhhhhhc-----ccCCcccccccc
Confidence 3345678999998877777889998 689999763 467899999653
No 168
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=54.23 E-value=9.3 Score=44.44 Aligned_cols=46 Identities=24% Similarity=0.668 Sum_probs=33.8
Q ss_pred cccccccccccC-----cEE--ccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 139 FDCNICLDMARD-----PVL--TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 139 ~~C~ICle~~~~-----pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
-.|.||.+...- +.+ -.||--.|+.|. ++ +...+...||.|++...
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EY-Er~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EY-ERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchh-hh-hhhcCCccCCccCCchh
Confidence 389999997532 322 358888999998 43 23567889999998776
No 169
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=53.97 E-value=4.9 Score=43.84 Aligned_cols=41 Identities=24% Similarity=0.586 Sum_probs=27.5
Q ss_pred CCcccccccccc-----c-cCcEE--ccCCCccchhhHhhhhhhcCCCCCCCCCC
Q 039490 136 GEFFDCNICLDM-----A-RDPVL--TCCGHLFCWSCFYQLPYAYRNVKECPACN 182 (423)
Q Consensus 136 ~e~~~C~ICle~-----~-~~pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr 182 (423)
...+.|.+|... | .+.+. ..||++|+..|+..- ...||.|-
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~------s~~CPrC~ 557 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRK------SPCCPRCE 557 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhcc------CCCCCchH
Confidence 466889999542 2 11122 369999999998763 34499994
No 170
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.87 E-value=2.6 Score=41.80 Aligned_cols=45 Identities=24% Similarity=0.557 Sum_probs=33.8
Q ss_pred ccccccccccccC------cEEcc--------CCCccchhhHhhhhhhcCCCCCCCCCCcc
Q 039490 138 FFDCNICLDMARD------PVLTC--------CGHLFCWSCFYQLPYAYRNVKECPACNGE 184 (423)
Q Consensus 138 ~~~C~ICle~~~~------pv~~~--------CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~ 184 (423)
...|.||...+.. |.+.. |||..|..|+...+.. . ...||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~-~-~~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQ-A-GIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHH-h-hhcCCcccce
Confidence 3579999887762 34445 9999999999987542 2 2889999875
No 171
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=51.92 E-value=5.7 Score=24.37 Aligned_cols=22 Identities=27% Similarity=0.739 Sum_probs=11.3
Q ss_pred cchhhHhhhhhhcCCCCCCCCCCcc
Q 039490 160 FCWSCFYQLPYAYRNVKECPACNGE 184 (423)
Q Consensus 160 FC~~Ci~~~~~~~~~~~~CP~Cr~~ 184 (423)
||..|-.+. .....-||.|..+
T Consensus 1 ~Cp~CG~~~---~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEI---EDDAKFCPNCGTP 22 (23)
T ss_pred CCcccCCCC---CCcCcchhhhCCc
Confidence 344454443 3344557777654
No 172
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=51.82 E-value=8.6 Score=42.91 Aligned_cols=24 Identities=29% Similarity=0.569 Sum_probs=19.5
Q ss_pred ccCCCccchhhHhhhhhhcCCCCCCCC
Q 039490 154 TCCGHLFCWSCFYQLPYAYRNVKECPA 180 (423)
Q Consensus 154 ~~CGH~FC~~Ci~~~~~~~~~~~~CP~ 180 (423)
..|||+.+..|..+||.. .-.||.
T Consensus 1046 g~C~Hv~H~sc~~eWf~~---gd~Cps 1069 (1081)
T KOG0309|consen 1046 GTCGHVGHTSCMMEWFRT---GDVCPS 1069 (1081)
T ss_pred ccccccccHHHHHHHHhc---CCcCCC
Confidence 469999999999999873 336886
No 173
>PRK04023 DNA polymerase II large subunit; Validated
Probab=51.27 E-value=11 Score=43.40 Aligned_cols=48 Identities=25% Similarity=0.360 Sum_probs=33.8
Q ss_pred CccccccccccccCcEEccCCC-----ccchhhHhhhhhhcCCCCCCCCCCcccCCCC
Q 039490 137 EFFDCNICLDMARDPVLTCCGH-----LFCWSCFYQLPYAYRNVKECPACNGEVTDAS 189 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~CGH-----~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~ 189 (423)
....|+-|...........||. .||..|-.. .....||.|...+....
T Consensus 625 g~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~~-----~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 625 GRRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGIE-----VEEDECEKCGREPTPYS 677 (1121)
T ss_pred cCccCCCCCCcCCcccCCCCCCCCCcceeCccccCc-----CCCCcCCCCCCCCCccc
Confidence 4468999998764433456984 599999443 34567999998877544
No 174
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=51.24 E-value=12 Score=41.92 Aligned_cols=46 Identities=20% Similarity=0.347 Sum_probs=31.4
Q ss_pred ccccccccccCcEE--ccCCCccchhhHhhhhhhcCCCCCCCC--CCcccCCC
Q 039490 140 DCNICLDMARDPVL--TCCGHLFCWSCFYQLPYAYRNVKECPA--CNGEVTDA 188 (423)
Q Consensus 140 ~C~ICle~~~~pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~--Cr~~i~~~ 188 (423)
.|.+|...+..-.+ -.|||.-+..|++.|+. ....||. |.......
T Consensus 781 ~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~---~~s~ca~~~C~~~c~~~ 830 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFF---KASPCAKSICPHLCHYS 830 (839)
T ss_pred CceeecceeeeeEeecccccccccHHHHHHHHh---cCCCCccccCCcccccc
Confidence 57777665544332 25999999999999954 5666777 76555443
No 175
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=50.96 E-value=9.7 Score=42.35 Aligned_cols=50 Identities=28% Similarity=0.539 Sum_probs=34.7
Q ss_pred CCccccccccccccCc----------EEccCCCcc--------------------chhhHhhhhhh-----cCCCCCCCC
Q 039490 136 GEFFDCNICLDMARDP----------VLTCCGHLF--------------------CWSCFYQLPYA-----YRNVKECPA 180 (423)
Q Consensus 136 ~e~~~C~ICle~~~~p----------v~~~CGH~F--------------------C~~Ci~~~~~~-----~~~~~~CP~ 180 (423)
.+.-.|+-|++.+.+| ..|.||--| |..|-.+|-.. ......||.
T Consensus 99 pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nRRfHAQp~aCp~ 178 (750)
T COG0068 99 PDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNRRFHAQPIACPK 178 (750)
T ss_pred CchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCccccccccccccCcc
Confidence 4556899999988776 235688776 99999987331 123456999
Q ss_pred CCccc
Q 039490 181 CNGEV 185 (423)
Q Consensus 181 Cr~~i 185 (423)
|.-.+
T Consensus 179 CGP~~ 183 (750)
T COG0068 179 CGPHL 183 (750)
T ss_pred cCCCe
Confidence 97544
No 176
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=50.27 E-value=4.9 Score=45.23 Aligned_cols=53 Identities=15% Similarity=0.250 Sum_probs=36.9
Q ss_pred CCccccccccccccCcE--EccCCCccchhhHhhhh---hhcCCCCCCCCCCcccCCC
Q 039490 136 GEFFDCNICLDMARDPV--LTCCGHLFCWSCFYQLP---YAYRNVKECPACNGEVTDA 188 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv--~~~CGH~FC~~Ci~~~~---~~~~~~~~CP~Cr~~i~~~ 188 (423)
+....|-.|.....+-. -..|||.||..|+..|. ........|++|+..+...
T Consensus 227 g~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C~~~ 284 (889)
T KOG1356|consen 227 GIREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKCNKG 284 (889)
T ss_pred CcchhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhcCCc
Confidence 44568999998877643 35799999999999994 1122334588877665543
No 177
>PF15616 TerY-C: TerY-C metal binding domain
Probab=48.95 E-value=9.2 Score=33.84 Aligned_cols=41 Identities=29% Similarity=0.502 Sum_probs=29.7
Q ss_pred ccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 138 FFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
.-.||-|...+--.+- .||++||.. .....+||-|......
T Consensus 77 ~PgCP~CGn~~~fa~C-~CGkl~Ci~--------g~~~~~CPwCg~~g~~ 117 (131)
T PF15616_consen 77 APGCPHCGNQYAFAVC-GCGKLFCID--------GEGEVTCPWCGNEGSF 117 (131)
T ss_pred CCCCCCCcChhcEEEe-cCCCEEEeC--------CCCCEECCCCCCeeee
Confidence 3579999876554333 799999953 3457889999886653
No 178
>PLN02400 cellulose synthase
Probab=48.71 E-value=12 Score=43.57 Aligned_cols=46 Identities=22% Similarity=0.530 Sum_probs=33.4
Q ss_pred cccccccccccC-----cEE--ccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 139 FDCNICLDMARD-----PVL--TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 139 ~~C~ICle~~~~-----pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
-.|.||.|...- +.+ -.||--.|+.|. ++ +...+...||.|+....
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY-EY-ERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCY-EY-ERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchh-he-ecccCCccCcccCCccc
Confidence 389999997532 322 358888999998 33 23467788999998776
No 179
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=48.28 E-value=20 Score=26.91 Aligned_cols=30 Identities=20% Similarity=0.542 Sum_probs=23.6
Q ss_pred ccccccccccc--cCcEE--ccCCCccchhhHhh
Q 039490 138 FFDCNICLDMA--RDPVL--TCCGHLFCWSCFYQ 167 (423)
Q Consensus 138 ~~~C~ICle~~--~~pv~--~~CGH~FC~~Ci~~ 167 (423)
...|++|.+.| .+.++ ..||-.+++.|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 34799999999 45544 46999999999754
No 180
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.27 E-value=5.8 Score=39.67 Aligned_cols=52 Identities=25% Similarity=0.520 Sum_probs=39.8
Q ss_pred CCCCCccccccccccccCcEEc-cCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 133 AGGGEFFDCNICLDMARDPVLT-CCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 133 ~~~~e~~~C~ICle~~~~pv~~-~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
........|-||...+.-|... .|+|-||..|...|.. ....||.|+..+..
T Consensus 100 ~~~~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~---~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 100 GFQQDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFA---MGNDCPDCRGKISP 152 (324)
T ss_pred cccCCccceeeeeeeEEecccccCceeeeeecCCchhhh---hhhccchhhcCcCc
Confidence 3445666899999988877654 5999999999999843 45678988876653
No 181
>PLN02195 cellulose synthase A
Probab=48.04 E-value=15 Score=42.49 Aligned_cols=46 Identities=20% Similarity=0.473 Sum_probs=34.3
Q ss_pred ccccccccccc-----CcEE--ccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 139 FDCNICLDMAR-----DPVL--TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 139 ~~C~ICle~~~-----~pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
..|.||.+... ++.+ -.||--.|+.|. ++ +...+...||.|+....
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-ey-er~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EY-EIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchh-hh-hhhcCCccCCccCCccc
Confidence 37999999653 2333 368988999998 43 23567788999999887
No 182
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.26 E-value=12 Score=41.47 Aligned_cols=47 Identities=32% Similarity=0.706 Sum_probs=36.2
Q ss_pred ccccccccccCcEEccCCC-ccchhhHhhhhhhc---CCCCCCCCCCcccC
Q 039490 140 DCNICLDMARDPVLTCCGH-LFCWSCFYQLPYAY---RNVKECPACNGEVT 186 (423)
Q Consensus 140 ~C~ICle~~~~pv~~~CGH-~FC~~Ci~~~~~~~---~~~~~CP~Cr~~i~ 186 (423)
.|.||-.-+.-...-.||| ..|..|........ .....||+|+..+.
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 5999998888877889999 99999998863321 22456899998654
No 183
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=47.20 E-value=36 Score=35.73 Aligned_cols=71 Identities=14% Similarity=0.094 Sum_probs=50.6
Q ss_pred hhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcc---------cccchhcccCCCCCcceEEEecccc
Q 039490 221 RRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAA---------VRSGELEVNDPLLHISRVLPASISS 291 (423)
Q Consensus 221 tKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~---------~~d~~l~~f~~~dp~~~VLL~SLka 291 (423)
.|.+.+.+++... ...+.+||-.-....+.+...|...|+... .+...++.| + .....||++. ..
T Consensus 228 ~k~~~l~~ll~~~---~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F-~-~g~~~vLVaT-dv 301 (460)
T PRK11776 228 ERLPALQRLLLHH---QPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRF-A-NRSCSVLVAT-DV 301 (460)
T ss_pred HHHHHHHHHHHhc---CCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHH-H-cCCCcEEEEe-cc
Confidence 3777777777533 234789999999999999999999888733 345577888 3 4556666543 56
Q ss_pred cccccc
Q 039490 292 LSSALT 297 (423)
Q Consensus 292 ggvGLN 297 (423)
.+-||+
T Consensus 302 ~~rGiD 307 (460)
T PRK11776 302 AARGLD 307 (460)
T ss_pred cccccc
Confidence 667777
No 184
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=46.41 E-value=15 Score=42.72 Aligned_cols=47 Identities=26% Similarity=0.648 Sum_probs=34.1
Q ss_pred ccccccccccccC-----cEE--ccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 138 FFDCNICLDMARD-----PVL--TCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 138 ~~~C~ICle~~~~-----pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
...|.||.+.... +.+ -.||--.|+.|. ++ +...+...||.|+....
T Consensus 15 ~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cy-ey-e~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 15 AKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCY-EY-ERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred cchhhccccccCcCCCCCEEEEeccCCCccccchh-hh-hhhcCCccCCccCCchh
Confidence 3479999997532 322 358888999998 43 23567788999998776
No 185
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=46.26 E-value=22 Score=30.16 Aligned_cols=30 Identities=23% Similarity=0.445 Sum_probs=21.8
Q ss_pred CCccchhhHhhhhhh------cCCCCCCCCCCcccC
Q 039490 157 GHLFCWSCFYQLPYA------YRNVKECPACNGEVT 186 (423)
Q Consensus 157 GH~FC~~Ci~~~~~~------~~~~~~CP~Cr~~i~ 186 (423)
.=.||..||..++.. ......||.|+....
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCn 72 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICN 72 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeC
Confidence 667999999887542 245678999987443
No 186
>PF06844 DUF1244: Protein of unknown function (DUF1244); InterPro: IPR009654 This family consists of several short bacterial proteins of around 100 residues in length. The function of this family is unknown.; PDB: 2O35_A 3FYB_B.
Probab=45.78 E-value=9.9 Score=29.58 Aligned_cols=12 Identities=25% Similarity=0.581 Sum_probs=8.5
Q ss_pred ccchhhHhhhhh
Q 039490 159 LFCWSCFYQLPY 170 (423)
Q Consensus 159 ~FC~~Ci~~~~~ 170 (423)
.||+.|+..|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999965
No 187
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=44.76 E-value=9 Score=28.37 Aligned_cols=14 Identities=36% Similarity=0.980 Sum_probs=13.0
Q ss_pred cCCCccchhhHhhh
Q 039490 155 CCGHLFCWSCFYQL 168 (423)
Q Consensus 155 ~CGH~FC~~Ci~~~ 168 (423)
.|||.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T smart00647 45 KCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCeECCCCCCcC
Confidence 69999999999988
No 188
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=44.68 E-value=15 Score=43.48 Aligned_cols=52 Identities=25% Similarity=0.434 Sum_probs=33.2
Q ss_pred ccccccccccccCcEEccCCCc-----cchhhHhhhhhhcCCCCCCCCCCcccCCCC
Q 039490 138 FFDCNICLDMARDPVLTCCGHL-----FCWSCFYQLPYAYRNVKECPACNGEVTDAS 189 (423)
Q Consensus 138 ~~~C~ICle~~~~pv~~~CGH~-----FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~ 189 (423)
.+.||-|...........||+. +|..|-...-........||.|..++....
T Consensus 667 ~rkCPkCG~~t~~~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~~~ 723 (1337)
T PRK14714 667 RRRCPSCGTETYENRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTPYQ 723 (1337)
T ss_pred EEECCCCCCccccccCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccccc
Confidence 4789999986544444458855 498887654111111457999998776543
No 189
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=43.64 E-value=12 Score=37.80 Aligned_cols=42 Identities=26% Similarity=0.577 Sum_probs=26.0
Q ss_pred ccccccccccC-------------c-EEccCCCccchhhHhhhhh---hcCCCCCCCCCCcc
Q 039490 140 DCNICLDMARD-------------P-VLTCCGHLFCWSCFYQLPY---AYRNVKECPACNGE 184 (423)
Q Consensus 140 ~C~ICle~~~~-------------p-v~~~CGH~FC~~Ci~~~~~---~~~~~~~CP~Cr~~ 184 (423)
.||+=+..+.. | |.+.|||+--+. .|-. .......||+|+..
T Consensus 292 QCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~H---~WG~~e~~g~~~r~CPmC~~~ 350 (429)
T KOG3842|consen 292 QCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGYH---NWGVRENTGQRERECPMCRVV 350 (429)
T ss_pred CCCcccceeecccccccccccccCCeEEEecccccccc---ccccccccCcccCcCCeeeee
Confidence 68887765432 3 457899986542 3411 12346789999864
No 191
>PRK11595 DNA utilization protein GntX; Provisional
Probab=43.15 E-value=21 Score=34.08 Aligned_cols=39 Identities=23% Similarity=0.306 Sum_probs=26.0
Q ss_pred ccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 140 DCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 140 ~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
.|.+|...+... .+.+|..|...+-. ....||.|..++.
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l~~---~~~~C~~Cg~~~~ 45 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRALRT---LKTCCPQCGLPAT 45 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhCCc---ccCcCccCCCcCC
Confidence 699998765322 23479999887621 2357999987653
No 192
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=40.76 E-value=13 Score=35.47 Aligned_cols=46 Identities=17% Similarity=0.468 Sum_probs=34.8
Q ss_pred CccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCCCCccc
Q 039490 137 EFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPACNGEV 185 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i 185 (423)
.-..|.+|.......+. -.||-.+...|+.+++. ....||.|.--.
T Consensus 180 nlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q---~~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQ---RRDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHhheeeccCcccchhhhHHHHHHhc---ccCcCCchhccc
Confidence 44589999998776654 46887888999999854 477899995433
No 193
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=39.62 E-value=16 Score=36.88 Aligned_cols=14 Identities=36% Similarity=0.885 Sum_probs=12.1
Q ss_pred cCCCccchhhHhhh
Q 039490 155 CCGHLFCWSCFYQL 168 (423)
Q Consensus 155 ~CGH~FC~~Ci~~~ 168 (423)
.||-.||+.|+..|
T Consensus 341 gCgf~FCR~C~e~y 354 (446)
T KOG0006|consen 341 GCGFAFCRECKEAY 354 (446)
T ss_pred CchhHhHHHHHhhh
Confidence 39999999999865
No 194
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=38.82 E-value=19 Score=35.44 Aligned_cols=50 Identities=16% Similarity=0.348 Sum_probs=36.8
Q ss_pred ccccccccccccC----cEEccCC-----CccchhhHhhhhhhcCCCCCCCCCCcccCCC
Q 039490 138 FFDCNICLDMARD----PVLTCCG-----HLFCWSCFYQLPYAYRNVKECPACNGEVTDA 188 (423)
Q Consensus 138 ~~~C~ICle~~~~----pv~~~CG-----H~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~ 188 (423)
...|-||...... +...+|. +..+..|+..|+. .++...|..|.......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~-~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFS-IKGNITCEICKSFFINV 136 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhc-cccCeeeecccccceec
Confidence 5689999986543 4556664 3458999999976 56788899998866543
No 195
>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=38.71 E-value=11 Score=28.90 Aligned_cols=32 Identities=31% Similarity=0.446 Sum_probs=16.8
Q ss_pred CccccccccccccCc---E-EccCCCccchhhHhhh
Q 039490 137 EFFDCNICLDMARDP---V-LTCCGHLFCWSCFYQL 168 (423)
Q Consensus 137 e~~~C~ICle~~~~p---v-~~~CGH~FC~~Ci~~~ 168 (423)
+...|.+|...|.-- . --.||++||..|....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 345899999988432 1 2469999999998765
No 196
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=38.58 E-value=15 Score=35.65 Aligned_cols=43 Identities=21% Similarity=0.271 Sum_probs=32.9
Q ss_pred CccccccccccccCcEE-ccCCCccchhhHhhhhhhcCCCCCCCC
Q 039490 137 EFFDCNICLDMARDPVL-TCCGHLFCWSCFYQLPYAYRNVKECPA 180 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~-~~CGH~FC~~Ci~~~~~~~~~~~~CP~ 180 (423)
-+..|||-+.+..-|++ ..|.|.|=.+-|..++. ..-...||.
T Consensus 188 ~~nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq-~~~trvcp~ 231 (275)
T COG5627 188 LSNRCPITLNPDFYPILSSKCNHKPEMDLINKKLQ-VECTRVCPR 231 (275)
T ss_pred hcccCCcccCcchhHHHHhhhcccccHHHHHHHhc-CCceeecch
Confidence 34689999998888876 78999999999988743 223455775
No 197
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.31 E-value=2.1 Score=44.15 Aligned_cols=48 Identities=17% Similarity=0.439 Sum_probs=38.3
Q ss_pred cccccccccccCc----EEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCC
Q 039490 139 FDCNICLDMARDP----VLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDAS 189 (423)
Q Consensus 139 ~~C~ICle~~~~p----v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~ 189 (423)
-.|.||...++.- -.+.|||.+...|+..|+.. ...||.|+..+....
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~---~~kl~~~~rel~~~~ 248 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT---KRKLPSCRRELPKNG 248 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH---HHHhHHHHhhhhhhh
Confidence 3799999887654 34789999999999999662 667999998886543
No 198
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the 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=37.39 E-value=5.4 Score=34.31 Aligned_cols=44 Identities=20% Similarity=0.327 Sum_probs=28.6
Q ss_pred cccccccccccc---C-c-EEccCCCccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 138 FFDCNICLDMAR---D-P-VLTCCGHLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 138 ~~~C~ICle~~~---~-p-v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
...|.+|...|. + . +-..|+|.+|..|-..- .......|-+|.+
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~--~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYS--KKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEET--SSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCcC--CCCCCEEChhhHH
Confidence 348999988653 2 2 34679999999997652 1344567988864
No 200
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=36.04 E-value=22 Score=25.88 Aligned_cols=30 Identities=23% Similarity=0.422 Sum_probs=22.3
Q ss_pred cccccccccccCc----EEccCCCccchhhHhhh
Q 039490 139 FDCNICLDMARDP----VLTCCGHLFCWSCFYQL 168 (423)
Q Consensus 139 ~~C~ICle~~~~p----v~~~CGH~FC~~Ci~~~ 168 (423)
..|.+|...|.-- .-..||++||..|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 3688998766532 23479999999998775
No 201
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=36.03 E-value=17 Score=35.69 Aligned_cols=51 Identities=22% Similarity=0.350 Sum_probs=35.1
Q ss_pred CCccccccccccccCcE----EccCC-----CccchhhHhhhhhhc-----CCCCCCCCCCcccC
Q 039490 136 GEFFDCNICLDMARDPV----LTCCG-----HLFCWSCFYQLPYAY-----RNVKECPACNGEVT 186 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv----~~~CG-----H~FC~~Ci~~~~~~~-----~~~~~CP~Cr~~i~ 186 (423)
+.+..|-||+..-++.- +-||. |.-+..|+..|+... .....||.|+....
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 45568999998776642 23552 567899999997532 22356999987654
No 202
>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=35.92 E-value=19 Score=30.78 Aligned_cols=28 Identities=25% Similarity=0.471 Sum_probs=16.6
Q ss_pred chhhHhhhhhhcCCCCCCCCCCcccCCC
Q 039490 161 CWSCFYQLPYAYRNVKECPACNGEVTDA 188 (423)
Q Consensus 161 C~~Ci~~~~~~~~~~~~CP~Cr~~i~~~ 188 (423)
|..|-.+++..++....||.|...+...
T Consensus 12 Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 12 CPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCCcchhccCCCCCccCCCCCCccCcc
Confidence 3344444433345566799998877654
No 203
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=35.88 E-value=18 Score=31.93 Aligned_cols=21 Identities=29% Similarity=0.499 Sum_probs=14.3
Q ss_pred cccccccCcEEccCCCccchh
Q 039490 143 ICLDMARDPVLTCCGHLFCWS 163 (423)
Q Consensus 143 ICle~~~~pv~~~CGH~FC~~ 163 (423)
||.+.-..-+.-.|||.||..
T Consensus 62 i~qs~~~rv~rcecghsf~d~ 82 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDY 82 (165)
T ss_pred EEecccccEEEEeccccccCh
Confidence 566655553346899999975
No 204
>PTZ00110 helicase; Provisional
Probab=34.43 E-value=85 Score=34.07 Aligned_cols=73 Identities=11% Similarity=-0.053 Sum_probs=50.9
Q ss_pred hhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcc---------cccchhcccCCCCCcceEEEecccc
Q 039490 221 RRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAA---------VRSGELEVNDPLLHISRVLPASISS 291 (423)
Q Consensus 221 tKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~---------~~d~~l~~f~~~dp~~~VLL~SLka 291 (423)
.|...|..++..... ...+.|||-.-....+.|...|+..|+... +|...++.| + +....|| ++-.+
T Consensus 361 ~k~~~L~~ll~~~~~-~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F-~-~G~~~IL-VaTdv 436 (545)
T PTZ00110 361 EKRGKLKMLLQRIMR-DGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEF-K-TGKSPIM-IATDV 436 (545)
T ss_pred hHHHHHHHHHHHhcc-cCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHH-h-cCCCcEE-EEcch
Confidence 355556666553322 456999999999999999999998888733 355577888 3 3455565 44466
Q ss_pred cccccc
Q 039490 292 LSSALT 297 (423)
Q Consensus 292 ggvGLN 297 (423)
.+-||+
T Consensus 437 ~~rGID 442 (545)
T PTZ00110 437 ASRGLD 442 (545)
T ss_pred hhcCCC
Confidence 778887
No 205
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=33.96 E-value=17 Score=26.70 Aligned_cols=12 Identities=25% Similarity=0.797 Sum_probs=6.4
Q ss_pred CCCCCCCcccCC
Q 039490 176 KECPACNGEVTD 187 (423)
Q Consensus 176 ~~CP~Cr~~i~~ 187 (423)
..||+|..+|..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999998874
No 206
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=32.96 E-value=17 Score=22.70 Aligned_cols=11 Identities=36% Similarity=1.029 Sum_probs=6.0
Q ss_pred CCCCCCCCCcc
Q 039490 174 NVKECPACNGE 184 (423)
Q Consensus 174 ~~~~CP~Cr~~ 184 (423)
...-||.|..+
T Consensus 15 ~~~fC~~CG~~ 25 (26)
T PF13248_consen 15 DAKFCPNCGAK 25 (26)
T ss_pred ccccChhhCCC
Confidence 44556666544
No 207
>PF12773 DZR: Double zinc ribbon
Probab=32.90 E-value=48 Score=23.54 Aligned_cols=29 Identities=34% Similarity=0.627 Sum_probs=14.9
Q ss_pred CccchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 158 HLFCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 158 H~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
-.||..|-............||.|...+.
T Consensus 12 ~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 12 AKFCPHCGTPLPPPDQSKKICPNCGAENP 40 (50)
T ss_pred ccCChhhcCChhhccCCCCCCcCCcCCCc
Confidence 34555555543211233456777776544
No 208
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=31.98 E-value=62 Score=37.62 Aligned_cols=73 Identities=14% Similarity=0.041 Sum_probs=53.8
Q ss_pred CchhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCC---------cccccchhcccCCCCCcceEE-Eec
Q 039490 219 LARRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLD---------AAVRSGELEVNDPLLHISRVL-PAS 288 (423)
Q Consensus 219 ~stKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~---------~~~~d~~l~~f~~~dp~~~VL-L~S 288 (423)
...|+..|.++|..... ..|+|||.+=..-.|.+-..|.+.|+. +..|+..++.| +..+ +.|| +-|
T Consensus 596 e~eKf~kL~eLl~e~~e--~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~df-K~~~-~~LLvaTs 671 (997)
T KOG0334|consen 596 ENEKFLKLLELLGERYE--DGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDF-KNGV-VNLLVATS 671 (997)
T ss_pred chHHHHHHHHHHHHHhh--cCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHH-hccC-ceEEEehh
Confidence 46788888888887754 568999999999999999999999877 33467788999 5554 4444 334
Q ss_pred ccccccccc
Q 039490 289 ISSLSSALT 297 (423)
Q Consensus 289 LkaggvGLN 297 (423)
.-| -||+
T Consensus 672 vva--rGLd 678 (997)
T KOG0334|consen 672 VVA--RGLD 678 (997)
T ss_pred hhh--cccc
Confidence 433 4554
No 209
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=31.48 E-value=23 Score=36.19 Aligned_cols=14 Identities=21% Similarity=0.197 Sum_probs=10.2
Q ss_pred CccccccccccccC
Q 039490 137 EFFDCNICLDMARD 150 (423)
Q Consensus 137 e~~~C~ICle~~~~ 150 (423)
.+..||+|.+...-
T Consensus 14 l~ElCPVCGDkVSG 27 (475)
T KOG4218|consen 14 LGELCPVCGDKVSG 27 (475)
T ss_pred cccccccccCcccc
Confidence 34479999987654
No 210
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=30.81 E-value=28 Score=38.66 Aligned_cols=27 Identities=26% Similarity=0.453 Sum_probs=18.8
Q ss_pred EccCCCccchhhHhhhhhhcCCCCCCCCCC
Q 039490 153 LTCCGHLFCWSCFYQLPYAYRNVKECPACN 182 (423)
Q Consensus 153 ~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr 182 (423)
..|-|-.||++|-.+- ......|-+|-
T Consensus 43 qVPtGpWfCrKCesqe---raarvrCeLCP 69 (900)
T KOG0956|consen 43 QVPTGPWFCRKCESQE---RAARVRCELCP 69 (900)
T ss_pred ecCCCchhhhhhhhhh---hhccceeeccc
Confidence 3577889999998763 33446677774
No 211
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=30.42 E-value=27 Score=33.83 Aligned_cols=24 Identities=38% Similarity=0.802 Sum_probs=19.0
Q ss_pred cchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 160 FCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 160 FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
-|..|-... ..+...||+|+..-.
T Consensus 196 ~C~sC~qqI---HRNAPiCPlCK~KsR 219 (230)
T PF10146_consen 196 TCQSCHQQI---HRNAPICPLCKAKSR 219 (230)
T ss_pred hhHhHHHHH---hcCCCCCcccccccc
Confidence 388998886 678899999987543
No 212
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.21 E-value=16 Score=33.52 Aligned_cols=25 Identities=20% Similarity=0.382 Sum_probs=15.2
Q ss_pred CccccccccccccCc---EEccCCCccc
Q 039490 137 EFFDCNICLDMARDP---VLTCCGHLFC 161 (423)
Q Consensus 137 e~~~C~ICle~~~~p---v~~~CGH~FC 161 (423)
+.-+|.||++.+... ..+||-.+|+
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYH 203 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYH 203 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEee
Confidence 344788888877643 2367765444
No 213
>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=30.00 E-value=14 Score=27.29 Aligned_cols=30 Identities=27% Similarity=0.562 Sum_probs=17.6
Q ss_pred ccccc--ccccccC-----c--EE-ccCCCccchhhHhhh
Q 039490 139 FDCNI--CLDMARD-----P--VL-TCCGHLFCWSCFYQL 168 (423)
Q Consensus 139 ~~C~I--Cle~~~~-----p--v~-~~CGH~FC~~Ci~~~ 168 (423)
..||- |...+.. . +. ..||+.||..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 37876 8766532 1 22 249999999999988
No 214
>PF00424 REV: REV protein (anti-repression trans-activator protein); InterPro: IPR000625 REV is a viral anti-repression trans-activator protein, which appears to act post-transcriptionally [] to relieve negative repression of GAG and ENV production. It is a phosphoprotein [, ] whose state of phosphorylation is mediated by a specific serine kinase activity present in the nucleus []. REV accumulates in the nucleoli [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 1ETF_B 1ETG_B 1ULL_B 3LPH_B 2X7L_R.
Probab=29.84 E-value=16 Score=30.29 Aligned_cols=10 Identities=50% Similarity=1.182 Sum_probs=4.5
Q ss_pred HHHHhhhhhc
Q 039490 56 RARQRQRWRQ 65 (423)
Q Consensus 56 R~R~r~R~RQ 65 (423)
|+++|+|||+
T Consensus 36 RRnRRRRWR~ 45 (91)
T PF00424_consen 36 RRNRRRRWRA 45 (91)
T ss_dssp HHHHHHHHHH
T ss_pred ccchhhhHHH
Confidence 3444444543
No 215
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=29.63 E-value=37 Score=29.24 Aligned_cols=40 Identities=25% Similarity=0.591 Sum_probs=28.6
Q ss_pred ccccccccccCcE--------------EccCCCccchhhHhhhhhhcCCCCCCCCCC
Q 039490 140 DCNICLDMARDPV--------------LTCCGHLFCWSCFYQLPYAYRNVKECPACN 182 (423)
Q Consensus 140 ~C~ICle~~~~pv--------------~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr 182 (423)
.|--|+..|..+. -..|++.||.+|=.-+ ...-..||-|.
T Consensus 57 ~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fi---He~Lh~CPGC~ 110 (112)
T TIGR00622 57 FCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFV---HESLHCCPGCI 110 (112)
T ss_pred cccCcCCCCCCcccccccccccccceeCCCCCCccccccchhh---hhhccCCcCCC
Confidence 5888888776431 2469999999996554 33456799995
No 216
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=29.09 E-value=27 Score=38.53 Aligned_cols=47 Identities=17% Similarity=0.403 Sum_probs=32.5
Q ss_pred CccccccccccccCc-----EEccCCCccchhhHhhhhhhc--CCCCCCCCCCc
Q 039490 137 EFFDCNICLDMARDP-----VLTCCGHLFCWSCFYQLPYAY--RNVKECPACNG 183 (423)
Q Consensus 137 e~~~C~ICle~~~~p-----v~~~CGH~FC~~Ci~~~~~~~--~~~~~CP~Cr~ 183 (423)
..+.|+||...=..+ ..-.||-.|+..|+..|+... .+.+.||-|+.
T Consensus 17 ~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 17 VCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 456888887654332 223699999999999886532 45577888874
No 217
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=29.02 E-value=28 Score=39.23 Aligned_cols=50 Identities=26% Similarity=0.599 Sum_probs=33.4
Q ss_pred CccccccccccccCc--------E--EccCCCcc--------------------chhhHhhhhhhc-----CCCCCCCCC
Q 039490 137 EFFDCNICLDMARDP--------V--LTCCGHLF--------------------CWSCFYQLPYAY-----RNVKECPAC 181 (423)
Q Consensus 137 e~~~C~ICle~~~~p--------v--~~~CGH~F--------------------C~~Ci~~~~~~~-----~~~~~CP~C 181 (423)
+.-.|+-|+..+.+| . .|.||--| |..|..++.... .....||.|
T Consensus 67 D~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~rr~h~~~~~C~~C 146 (711)
T TIGR00143 67 DVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLDRRFHAQPIACPRC 146 (711)
T ss_pred chhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCccccCCCCCccCCCC
Confidence 445788888877765 1 24577665 999999974311 123469999
Q ss_pred CcccC
Q 039490 182 NGEVT 186 (423)
Q Consensus 182 r~~i~ 186 (423)
.-.+.
T Consensus 147 gp~l~ 151 (711)
T TIGR00143 147 GPQLN 151 (711)
T ss_pred CcEEE
Confidence 76664
No 218
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=28.96 E-value=30 Score=38.57 Aligned_cols=24 Identities=25% Similarity=0.552 Sum_probs=13.8
Q ss_pred cchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 160 FCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 160 FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
+|..|-... ....+.||.|...+.
T Consensus 29 ~Cp~CG~~~---~~~~~fC~~CG~~~~ 52 (645)
T PRK14559 29 PCPQCGTEV---PVDEAHCPNCGAETG 52 (645)
T ss_pred cCCCCCCCC---CcccccccccCCccc
Confidence 455565543 344556777776654
No 219
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=28.39 E-value=55 Score=35.54 Aligned_cols=37 Identities=8% Similarity=-0.068 Sum_probs=28.9
Q ss_pred ceEEcccchhHHHHHHHhhhhCCCCc---------ccccchhcccC
Q 039490 240 IEVRIQQFNSIVDAARHQTGSLDLDA---------AVRSGELEVND 276 (423)
Q Consensus 240 K~iVFSQftsfLdlle~~L~~~gi~~---------~~~d~~l~~f~ 276 (423)
|.++|---..-.+-|...|...||.. +.|+..|..|.
T Consensus 470 kvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fK 515 (731)
T KOG0339|consen 470 KVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFK 515 (731)
T ss_pred cEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHh
Confidence 78888777777788888899988883 34667788893
No 220
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=28.34 E-value=48 Score=33.74 Aligned_cols=42 Identities=21% Similarity=0.562 Sum_probs=25.6
Q ss_pred ccccccccccccC-cEE--ccCCCccchhhHhhhhhhcCCCCCCCCCC
Q 039490 138 FFDCNICLDMARD-PVL--TCCGHLFCWSCFYQLPYAYRNVKECPACN 182 (423)
Q Consensus 138 ~~~C~ICle~~~~-pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr 182 (423)
...|-.|.+.... +.. -.|.|+||.+|=.-. ...-..||.|.
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~i---HesLh~CpgCe 374 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFI---HESLHNCPGCE 374 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHH---HhhhhcCCCcC
Confidence 3358888655443 222 368888888885433 23345688885
No 221
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=28.02 E-value=29 Score=33.04 Aligned_cols=53 Identities=17% Similarity=0.312 Sum_probs=30.3
Q ss_pred CCccccccccccccCcEE-ccCC------Cccchhh--HhhhhhhcCCCCCCCCCCcccCCCCce
Q 039490 136 GEFFDCNICLDMARDPVL-TCCG------HLFCWSC--FYQLPYAYRNVKECPACNGEVTDASII 191 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~-~~CG------H~FC~~C--i~~~~~~~~~~~~CP~Cr~~i~~~~l~ 191 (423)
.....||+|...|....+ +.=+ --||..- +.++ ......||.|.......++.
T Consensus 3 ~k~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~vnP~---~Y~V~vCP~CgyA~~~~~F~ 64 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKGVNPL---FYEVWVCPHCGYAAFEEDFE 64 (214)
T ss_pred CCceECCCCCCeeeeeEEEcCCceEeeecCCCccccCCCCCe---eeeEEECCCCCCcccccccc
Confidence 356789999999876532 2111 1122211 2221 12346799999888776655
No 222
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=27.87 E-value=39 Score=22.30 Aligned_cols=11 Identities=27% Similarity=0.715 Sum_probs=8.0
Q ss_pred CCCCCCCCCcc
Q 039490 174 NVKECPACNGE 184 (423)
Q Consensus 174 ~~~~CP~Cr~~ 184 (423)
....||.|..+
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 45689999763
No 223
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=27.72 E-value=33 Score=33.41 Aligned_cols=21 Identities=24% Similarity=0.757 Sum_probs=16.8
Q ss_pred ccccccccccCcEEccCCCccchhhHhhh
Q 039490 140 DCNICLDMARDPVLTCCGHLFCWSCFYQL 168 (423)
Q Consensus 140 ~C~ICle~~~~pv~~~CGH~FC~~Ci~~~ 168 (423)
.|+||. ....+.||..|+..-
T Consensus 1 ~C~iC~--------~~~~~~~C~~C~~~~ 21 (302)
T PF10186_consen 1 QCPICH--------NSRRRFYCANCVNNR 21 (302)
T ss_pred CCCCCC--------CCCCCeECHHHHHHH
Confidence 499998 456788999999764
No 224
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=27.33 E-value=57 Score=37.53 Aligned_cols=81 Identities=9% Similarity=-0.047 Sum_probs=50.6
Q ss_pred CCCceEEcccchhHHHHHHHhhhhCCCC-------ccccc-----chhcccCCC-----C---C-cceEEEecccccccc
Q 039490 237 STPIEVRIQQFNSIVDAARHQTGSLDLD-------AAVRS-----GELEVNDPL-----L---H-ISRVLPASISSLSSA 295 (423)
Q Consensus 237 p~~K~iVFSQftsfLdlle~~L~~~gi~-------~~~~d-----~~l~~f~~~-----d---p-~~~VLL~SLkaggvG 295 (423)
.+.+++||-.=......+...|...++. ...|+ ..++.| +. . + ....+|++-.+...|
T Consensus 271 ~g~~vLVF~NTv~~Aq~L~~~L~~~g~~lLHG~m~q~dR~~~~~~~il~~F-k~~~~~g~~~~~~~g~~ILVATdVaerG 349 (844)
T TIGR02621 271 SGGAILVFCRTVKHVRKVFAKLPKEKFELLTGTLRGAERDDLVKKEIFNRF-LPQMLSGSRARPQQGTVYLVCTSAGEVG 349 (844)
T ss_pred CCCcEEEEECCHHHHHHHHHHHHhcCCeEeeCCCCHHHHhhHHHHHHHHHH-hccccccccccccccceEEeccchhhhc
Confidence 3457899988888888888889888773 22344 557788 32 1 1 113456777888889
Q ss_pred cchhc-------hhhhhhhccccceeeccccCc
Q 039490 296 LTSAM-------DSAERLVGDLEAYINSDNLRR 321 (423)
Q Consensus 296 LN~~l-------~~A~~~~~~~qa~~r~hriGq 321 (423)
|+... .|...+ .|-+-|+.|-|+
T Consensus 350 LDId~d~VI~d~aP~esy---IQRiGRtgR~G~ 379 (844)
T TIGR02621 350 VNISADHLVCDLAPFESM---QQRFGRVNRFGE 379 (844)
T ss_pred ccCCcceEEECCCCHHHH---HHHhcccCCCCC
Confidence 98543 222222 255666666664
No 225
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.30 E-value=25 Score=29.17 Aligned_cols=12 Identities=25% Similarity=0.559 Sum_probs=10.6
Q ss_pred ccchhhHhhhhh
Q 039490 159 LFCWSCFYQLPY 170 (423)
Q Consensus 159 ~FC~~Ci~~~~~ 170 (423)
.||+.|+..|+.
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 499999999975
No 226
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=27.10 E-value=40 Score=34.15 Aligned_cols=33 Identities=24% Similarity=0.636 Sum_probs=25.1
Q ss_pred CCccccccccccccCcEEccCC--CccchhhHhhh
Q 039490 136 GEFFDCNICLDMARDPVLTCCG--HLFCWSCFYQL 168 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CG--H~FC~~Ci~~~ 168 (423)
.....|-.|-+.-..-.+++|. |+.|..|+.-|
T Consensus 219 ~~ni~C~~Ctdv~~~vlvf~Cns~HvtC~dCFr~y 253 (446)
T KOG0006|consen 219 SRNITCITCTDVRSPVLVFQCNSRHVTCLDCFRLY 253 (446)
T ss_pred cccceeEEecCCccceEEEecCCceeehHHhhhhH
Confidence 3556888897755444468998 99999999876
No 227
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=26.68 E-value=36 Score=33.13 Aligned_cols=22 Identities=18% Similarity=0.433 Sum_probs=15.0
Q ss_pred cccccccccccC---cEEccCCCcc
Q 039490 139 FDCNICLDMARD---PVLTCCGHLF 160 (423)
Q Consensus 139 ~~C~ICle~~~~---pv~~~CGH~F 160 (423)
+.||+|...+.. ...-.+||.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 689999998852 2333557776
No 228
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=26.52 E-value=1.7e+02 Score=30.40 Aligned_cols=72 Identities=8% Similarity=0.002 Sum_probs=49.7
Q ss_pred hhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCccc---------ccchhcccCCCCCcceEEEecccc
Q 039490 221 RRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAV---------RSGELEVNDPLLHISRVLPASISS 291 (423)
Q Consensus 221 tKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~---------~d~~l~~f~~~dp~~~VLL~SLka 291 (423)
.|.+.|...+. .....+.+||-.-......+...|...|+.... +...++.| .+....||+++ ..
T Consensus 231 ~k~~~l~~l~~---~~~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f--~~G~~~vLVaT-d~ 304 (434)
T PRK11192 231 HKTALLCHLLK---QPEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRL--TDGRVNVLVAT-DV 304 (434)
T ss_pred HHHHHHHHHHh---cCCCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHH--hCCCCcEEEEc-cc
Confidence 35555555543 223458999999999999999999999888443 44466788 45667777665 45
Q ss_pred cccccch
Q 039490 292 LSSALTS 298 (423)
Q Consensus 292 ggvGLN~ 298 (423)
.+-||+.
T Consensus 305 ~~~GiDi 311 (434)
T PRK11192 305 AARGIDI 311 (434)
T ss_pred cccCccC
Confidence 5677773
No 229
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=26.49 E-value=26 Score=32.50 Aligned_cols=34 Identities=24% Similarity=0.362 Sum_probs=21.9
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
...+.||.|...+.- .......+.||.|...+..
T Consensus 115 ~~~Y~Cp~C~~rytf------------------~eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 115 NMFFFCPNCHIRFTF------------------DEAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred CCEEECCCCCcEEeH------------------HHHhhcCCcCCCCCCCCee
Confidence 467789888644321 1112357999999988764
No 230
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.33 E-value=27 Score=39.29 Aligned_cols=31 Identities=26% Similarity=0.595 Sum_probs=24.5
Q ss_pred cccccccccccc------C-cEEccCCCccchhhHhhh
Q 039490 138 FFDCNICLDMAR------D-PVLTCCGHLFCWSCFYQL 168 (423)
Q Consensus 138 ~~~C~ICle~~~------~-pv~~~CGH~FC~~Ci~~~ 168 (423)
+..|..|.++.. + -+++.|||.|++.|+...
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~ 821 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMME 821 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccH
Confidence 348999998754 2 256899999999999775
No 231
>PLN02248 cellulose synthase-like protein
Probab=26.26 E-value=41 Score=39.52 Aligned_cols=32 Identities=22% Similarity=0.658 Sum_probs=25.1
Q ss_pred cCCCccchhhHhhhhhhcCCCCCCCCCCcccCCCC
Q 039490 155 CCGHLFCWSCFYQLPYAYRNVKECPACNGEVTDAS 189 (423)
Q Consensus 155 ~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~~~ 189 (423)
.|++..|++|.... .+....||-|+.+....+
T Consensus 149 ~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~ 180 (1135)
T PLN02248 149 ECGFKICRDCYIDA---VKSGGICPGCKEPYKVTD 180 (1135)
T ss_pred cccchhHHhHhhhh---hhcCCCCCCCcccccccc
Confidence 58889999999886 345779999998875433
No 232
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=26.19 E-value=68 Score=32.41 Aligned_cols=48 Identities=17% Similarity=0.003 Sum_probs=37.7
Q ss_pred ceEEcccchhHHHHHHHhhhhCCCC---------cccccchhcccCCCCCcceEEEecc
Q 039490 240 IEVRIQQFNSIVDAARHQTGSLDLD---------AAVRSGELEVNDPLLHISRVLPASI 289 (423)
Q Consensus 240 K~iVFSQftsfLdlle~~L~~~gi~---------~~~~d~~l~~f~~~dp~~~VLL~SL 289 (423)
..++|=.-..-.|+|.+.++...+. .-+||..|..| .....+||+.+-
T Consensus 268 QavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dF--Rsg~SrvLitTD 324 (400)
T KOG0328|consen 268 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDF--RSGKSRVLITTD 324 (400)
T ss_pred eEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHh--hcCCceEEEEec
Confidence 5789988888899999999998877 34588899999 345577875543
No 233
>PHA02558 uvsW UvsW helicase; Provisional
Probab=26.10 E-value=1.3e+02 Score=32.28 Aligned_cols=83 Identities=7% Similarity=-0.071 Sum_probs=54.5
Q ss_pred CCCceEEcccchhHHHHHHHhhhhCCCCccc---------ccchhcccCCCCCcceEEEecccccccccchh--------
Q 039490 237 STPIEVRIQQFNSIVDAARHQTGSLDLDAAV---------RSGELEVNDPLLHISRVLPASISSLSSALTSA-------- 299 (423)
Q Consensus 237 p~~K~iVFSQftsfLdlle~~L~~~gi~~~~---------~d~~l~~f~~~dp~~~VLL~SLkaggvGLN~~-------- 299 (423)
.+.+.+||...+.....|...|...|+...- |...++.| .+....||+++-..-+-|++.+
T Consensus 343 ~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~--~~~~~~vLvaT~~~l~eG~Dip~ld~vIl~ 420 (501)
T PHA02558 343 KGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIA--EGGKGIIIVASYGVFSTGISIKNLHHVIFA 420 (501)
T ss_pred cCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHH--hCCCCeEEEEEcceeccccccccccEEEEe
Confidence 3457888888888999999999999887443 33344556 3445678888866666777621
Q ss_pred c--hhhhhhhccccceeeccccCcccc
Q 039490 300 M--DSAERLVGDLEAYINSDNLRRNHQ 324 (423)
Q Consensus 300 l--~~A~~~~~~~qa~~r~hriGq~~~ 324 (423)
+ .+-... +|-+-|+||.|..-.
T Consensus 421 ~p~~s~~~~---~QriGR~~R~~~~K~ 444 (501)
T PHA02558 421 HPSKSKIIV---LQSIGRVLRKHGSKS 444 (501)
T ss_pred cCCcchhhh---hhhhhccccCCCCCc
Confidence 1 222222 488888888875433
No 234
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=26.00 E-value=1.6e+02 Score=31.05 Aligned_cols=71 Identities=13% Similarity=0.009 Sum_probs=48.8
Q ss_pred hhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCccc---------ccchhcccCCCCCcceEEEecccc
Q 039490 221 RRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAV---------RSGELEVNDPLLHISRVLPASISS 291 (423)
Q Consensus 221 tKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~---------~d~~l~~f~~~dp~~~VLL~SLka 291 (423)
.|.+.+..++... +..+.|||-.-......+...|...|+.... |...++.| + +....||+ +-.+
T Consensus 321 ~k~~~l~~ll~~~---~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~F-r-~G~~~vLv-aT~~ 394 (475)
T PRK01297 321 DKYKLLYNLVTQN---PWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGF-R-EGKIRVLV-ATDV 394 (475)
T ss_pred hHHHHHHHHHHhc---CCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHH-h-CCCCcEEE-Eccc
Confidence 4556666665532 3458999999999999999999998887443 34566778 3 34455654 3467
Q ss_pred cccccc
Q 039490 292 LSSALT 297 (423)
Q Consensus 292 ggvGLN 297 (423)
.+-||+
T Consensus 395 l~~GID 400 (475)
T PRK01297 395 AGRGIH 400 (475)
T ss_pred cccCCc
Confidence 777776
No 235
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=25.89 E-value=23 Score=32.12 Aligned_cols=34 Identities=21% Similarity=0.205 Sum_probs=21.4
Q ss_pred CCccccccccccccCcEEccCCCccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 136 GEFFDCNICLDMARDPVLTCCGHLFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 136 ~e~~~C~ICle~~~~pv~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
...+.||.|...+.- .......+.||.|...+..
T Consensus 107 ~~~Y~Cp~c~~r~tf------------------~eA~~~~F~Cp~Cg~~L~~ 140 (158)
T TIGR00373 107 NMFFICPNMCVRFTF------------------NEAMELNFTCPRCGAMLDY 140 (158)
T ss_pred CCeEECCCCCcEeeH------------------HHHHHcCCcCCCCCCEeee
Confidence 467788887643321 1122357899999987653
No 236
>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=25.84 E-value=33 Score=30.17 Aligned_cols=17 Identities=12% Similarity=0.106 Sum_probs=11.5
Q ss_pred cCCCCCCCCCCcccCCC
Q 039490 172 YRNVKECPACNGEVTDA 188 (423)
Q Consensus 172 ~~~~~~CP~Cr~~i~~~ 188 (423)
.+....||.|...+...
T Consensus 23 nk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 23 NRRPAVSPYTGEQFPPE 39 (129)
T ss_pred CCCCccCCCcCCccCcc
Confidence 45667788888766543
No 237
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=25.77 E-value=1.4e+02 Score=30.82 Aligned_cols=72 Identities=8% Similarity=-0.035 Sum_probs=49.7
Q ss_pred hhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCcc---------cccchhcccCCCCCcceEEEecccc
Q 039490 221 RRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAA---------VRSGELEVNDPLLHISRVLPASISS 291 (423)
Q Consensus 221 tKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~---------~~d~~l~~f~~~dp~~~VLL~SLka 291 (423)
.|+..+..++.. ....+.+||-.-....+.+...|...|+... .+...++.| ....+.||+.+ .+
T Consensus 241 ~k~~~l~~ll~~---~~~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F--~~g~~~vLVaT-dv 314 (423)
T PRK04837 241 EKMRLLQTLIEE---EWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEF--TRGDLDILVAT-DV 314 (423)
T ss_pred HHHHHHHHHHHh---cCCCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHH--HcCCCcEEEEe-ch
Confidence 455666655542 2345899999988899999999999888733 355677888 34556676554 45
Q ss_pred cccccch
Q 039490 292 LSSALTS 298 (423)
Q Consensus 292 ggvGLN~ 298 (423)
.+-|||.
T Consensus 315 ~~rGiDi 321 (423)
T PRK04837 315 AARGLHI 321 (423)
T ss_pred hhcCCCc
Confidence 5677773
No 238
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=25.34 E-value=50 Score=31.16 Aligned_cols=39 Identities=33% Similarity=0.710 Sum_probs=26.6
Q ss_pred Ccccccccccc-----ccC-cEE--ccCCCccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 137 EFFDCNICLDM-----ARD-PVL--TCCGHLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 137 e~~~C~ICle~-----~~~-pv~--~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
..+.|.+|.+. |.. .+. ..|+-+|+..|+.. ..||.|..
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~--------~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK--------KSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC--------CCCCCcHh
Confidence 45789999853 222 222 36999999999642 55999953
No 239
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=24.99 E-value=19 Score=25.59 Aligned_cols=43 Identities=19% Similarity=0.450 Sum_probs=27.3
Q ss_pred ccccccccccCc-EE--ccCCCccchhhHhhhhh---hcCCCCCCCCCC
Q 039490 140 DCNICLDMARDP-VL--TCCGHLFCWSCFYQLPY---AYRNVKECPACN 182 (423)
Q Consensus 140 ~C~ICle~~~~p-v~--~~CGH~FC~~Ci~~~~~---~~~~~~~CP~Cr 182 (423)
.|.||....... .+ -.|+..|+..|+..-.. .......||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 488888844333 23 26888999999866422 123367788885
No 240
>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=24.95 E-value=31 Score=24.14 Aligned_cols=25 Identities=28% Similarity=0.533 Sum_probs=15.4
Q ss_pred cCCCccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 155 CCGHLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 155 ~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
.|||.|-...- . . ......||.|+.
T Consensus 10 ~Cg~~fe~~~~--~-~-~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQS--I-S-EDDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEE--c-C-CCCCCcCCCCCC
Confidence 57877764321 1 1 135678999987
No 241
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=24.69 E-value=16 Score=36.49 Aligned_cols=53 Identities=19% Similarity=0.389 Sum_probs=33.1
Q ss_pred CCCCcccccccccc-ccCc----EEccCCCccchhhHhhhhhh----cCCCCCCCCCCcccC
Q 039490 134 GGGEFFDCNICLDM-ARDP----VLTCCGHLFCWSCFYQLPYA----YRNVKECPACNGEVT 186 (423)
Q Consensus 134 ~~~e~~~C~ICle~-~~~p----v~~~CGH~FC~~Ci~~~~~~----~~~~~~CP~Cr~~i~ 186 (423)
.+.+...|.+|... |.-- ..-.||++||..|-..-+.. .+....|+.|-..+.
T Consensus 164 PD~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~ 225 (288)
T KOG1729|consen 164 PDSEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELE 225 (288)
T ss_pred CcccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHh
Confidence 33467799999984 3321 12369999999998763211 122236888866554
No 242
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.54 E-value=33 Score=35.86 Aligned_cols=32 Identities=31% Similarity=0.673 Sum_probs=25.2
Q ss_pred CccccccccccccCc------EEccCCCccchhhHhhh
Q 039490 137 EFFDCNICLDMARDP------VLTCCGHLFCWSCFYQL 168 (423)
Q Consensus 137 e~~~C~ICle~~~~p------v~~~CGH~FC~~Ci~~~ 168 (423)
..-.||-|.-+++.. .-+.|||.||+-|-...
T Consensus 367 N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l 404 (445)
T KOG1814|consen 367 NSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELL 404 (445)
T ss_pred cCCCCCcccceeecCCCccceeeccccccceeehhhhc
Confidence 345899999887643 45789999999998775
No 243
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=24.13 E-value=37 Score=32.86 Aligned_cols=13 Identities=23% Similarity=0.667 Sum_probs=9.2
Q ss_pred CCCCCCCCCcccC
Q 039490 174 NVKECPACNGEVT 186 (423)
Q Consensus 174 ~~~~CP~Cr~~i~ 186 (423)
....||.|...+.
T Consensus 273 p~~~C~~C~skF~ 285 (296)
T COG5242 273 PVPVCKKCKSKFS 285 (296)
T ss_pred CcCcCcccccccc
Confidence 3567888887764
No 244
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.82 E-value=24 Score=37.35 Aligned_cols=45 Identities=27% Similarity=0.549 Sum_probs=32.5
Q ss_pred CCCccccccc-cccccCcEEc--cCCCccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 135 GGEFFDCNIC-LDMARDPVLT--CCGHLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 135 ~~e~~~C~IC-le~~~~pv~~--~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
..+.+.|++| .+.+.+..++ .|.-.||..||..-+ ....|+.|.+
T Consensus 216 ~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l----~~~~~~~c~~ 263 (448)
T KOG0314|consen 216 LPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDAL----ISKSMCVCGA 263 (448)
T ss_pred CCccccCceecchhhHHHHHhhhhhcccCCcccccccc----ccccCCcchh
Confidence 3567899999 6677777665 589999999998852 3445666644
No 245
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=23.60 E-value=45 Score=37.74 Aligned_cols=30 Identities=20% Similarity=0.404 Sum_probs=22.8
Q ss_pred cccccccccccCc---E------EccCCCccchhhHhhh
Q 039490 139 FDCNICLDMARDP---V------LTCCGHLFCWSCFYQL 168 (423)
Q Consensus 139 ~~C~ICle~~~~p---v------~~~CGH~FC~~Ci~~~ 168 (423)
..|..|...|..- + .-.||++||..|-...
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnR 499 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKR 499 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCc
Confidence 5799999998531 1 2369999999998654
No 246
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=23.59 E-value=50 Score=23.36 Aligned_cols=25 Identities=20% Similarity=0.498 Sum_probs=15.7
Q ss_pred ccccccccccCcEEccCCCccchhh
Q 039490 140 DCNICLDMARDPVLTCCGHLFCWSC 164 (423)
Q Consensus 140 ~C~ICle~~~~pv~~~CGH~FC~~C 164 (423)
.|..|...-.--+-+.|+|++|...
T Consensus 1 ~C~~C~~~~~l~~CL~C~~~~c~~~ 25 (50)
T smart00290 1 RCSVCGTIENLWLCLTCGQVGCGRY 25 (50)
T ss_pred CcccCCCcCCeEEecCCCCcccCCC
Confidence 3777775443234477999998543
No 247
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=23.48 E-value=33 Score=29.54 Aligned_cols=9 Identities=22% Similarity=0.811 Sum_probs=6.7
Q ss_pred CCCCCCCcc
Q 039490 176 KECPACNGE 184 (423)
Q Consensus 176 ~~CP~Cr~~ 184 (423)
..||.|...
T Consensus 89 ~~CP~Cgs~ 97 (117)
T PRK00564 89 GVCEKCHSK 97 (117)
T ss_pred CcCcCCCCC
Confidence 359999864
No 248
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=23.42 E-value=49 Score=22.48 Aligned_cols=13 Identities=31% Similarity=0.618 Sum_probs=8.1
Q ss_pred cccccccccccCc
Q 039490 139 FDCNICLDMARDP 151 (423)
Q Consensus 139 ~~C~ICle~~~~p 151 (423)
..||-|...|.-+
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 3577777666543
No 249
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=23.35 E-value=31 Score=35.66 Aligned_cols=32 Identities=25% Similarity=0.565 Sum_probs=24.7
Q ss_pred CCcccccccc-ccccCcEEccCCCccchhhHhh
Q 039490 136 GEFFDCNICL-DMARDPVLTCCGHLFCWSCFYQ 167 (423)
Q Consensus 136 ~e~~~C~ICl-e~~~~pv~~~CGH~FC~~Ci~~ 167 (423)
...+.|.-|. .....-..+|||-.||..|+.-
T Consensus 37 ~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~m 69 (441)
T COG4098 37 NGKYRCNRCGNTHIELFAKLPCGCLYCRNCLMM 69 (441)
T ss_pred cCcEEehhcCCcchhhhcccccceEeehhhhhc
Confidence 3456899998 4455556789999999999853
No 250
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=22.91 E-value=51 Score=22.33 Aligned_cols=11 Identities=18% Similarity=0.461 Sum_probs=6.6
Q ss_pred ccccccccccc
Q 039490 139 FDCNICLDMAR 149 (423)
Q Consensus 139 ~~C~ICle~~~ 149 (423)
..||-|...|.
T Consensus 3 i~Cp~C~~~y~ 13 (36)
T PF13717_consen 3 ITCPNCQAKYE 13 (36)
T ss_pred EECCCCCCEEe
Confidence 35666666554
No 251
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.79 E-value=46 Score=37.02 Aligned_cols=37 Identities=22% Similarity=0.540 Sum_probs=25.9
Q ss_pred ccccccccccCc-----EEccCCCccchhhHhhhhhhcCCCCCCCCCCc
Q 039490 140 DCNICLDMARDP-----VLTCCGHLFCWSCFYQLPYAYRNVKECPACNG 183 (423)
Q Consensus 140 ~C~ICle~~~~p-----v~~~CGH~FC~~Ci~~~~~~~~~~~~CP~Cr~ 183 (423)
.|-+|..+ +++ -.+.|+-.||..|...+ ...||+|.-
T Consensus 656 ~C~vcq~p-edse~~v~rt~~C~~~~C~~c~~~~------~~~~~vC~~ 697 (717)
T KOG3726|consen 656 TCKVCQLP-EDSETDVCRTTFCYTPYCVACSLDY------ASISEVCGP 697 (717)
T ss_pred HHHHhcCC-cCccccccCccccCCcchHhhhhhh------hccCcccCc
Confidence 68888653 332 24579999999996654 457999953
No 252
>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=21.43 E-value=59 Score=24.79 Aligned_cols=15 Identities=27% Similarity=0.720 Sum_probs=11.8
Q ss_pred CCCCCCCCCcccCCC
Q 039490 174 NVKECPACNGEVTDA 188 (423)
Q Consensus 174 ~~~~CP~Cr~~i~~~ 188 (423)
.++.||+|.+++..+
T Consensus 2 ~HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPD 16 (59)
T ss_pred CCCcCCcCCCcCCcc
Confidence 467899999888753
No 253
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=21.30 E-value=48 Score=37.49 Aligned_cols=24 Identities=42% Similarity=0.870 Sum_probs=15.0
Q ss_pred CCccchhhHhhhhhhcCCCCCCCCCCcc
Q 039490 157 GHLFCWSCFYQLPYAYRNVKECPACNGE 184 (423)
Q Consensus 157 GH~FC~~Ci~~~~~~~~~~~~CP~Cr~~ 184 (423)
+..+|..|-.+ ......||.|...
T Consensus 461 ~~L~CH~Cg~~----~~~p~~Cp~Cgs~ 484 (730)
T COG1198 461 GQLRCHYCGYQ----EPIPQSCPECGSE 484 (730)
T ss_pred CeeEeCCCCCC----CCCCCCCCCCCCC
Confidence 55566667554 2445678888654
No 254
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=21.16 E-value=55 Score=31.67 Aligned_cols=24 Identities=38% Similarity=0.862 Sum_probs=18.1
Q ss_pred cchhhHhhhhhhcCCCCCCCCCCcccC
Q 039490 160 FCWSCFYQLPYAYRNVKECPACNGEVT 186 (423)
Q Consensus 160 FC~~Ci~~~~~~~~~~~~CP~Cr~~i~ 186 (423)
-|..|-.+. ..+...||+|+....
T Consensus 251 ~ClsChqqI---HRNAPiCPlCKaKsR 274 (286)
T KOG4451|consen 251 VCLSCHQQI---HRNAPICPLCKAKSR 274 (286)
T ss_pred HHHHHHHHH---hcCCCCCcchhhccc
Confidence 477887775 567899999987543
No 255
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=20.93 E-value=32 Score=39.16 Aligned_cols=46 Identities=26% Similarity=0.488 Sum_probs=0.0
Q ss_pred CccccccccccccCcEEccCCC-----ccchhhHhhhhhhcCCCCCCCCCCcccCC
Q 039490 137 EFFDCNICLDMARDPVLTCCGH-----LFCWSCFYQLPYAYRNVKECPACNGEVTD 187 (423)
Q Consensus 137 e~~~C~ICle~~~~pv~~~CGH-----~FC~~Ci~~~~~~~~~~~~CP~Cr~~i~~ 187 (423)
....||-|...-.......||- .+|..|-... ....||.|......
T Consensus 654 ~~r~Cp~Cg~~t~~~~Cp~CG~~T~~~~~Cp~C~~~~-----~~~~C~~C~~~~~~ 704 (900)
T PF03833_consen 654 GRRRCPKCGKETFYNRCPECGSHTEPVYVCPDCGIEV-----EEDECPKCGRETTS 704 (900)
T ss_dssp --------------------------------------------------------
T ss_pred ecccCcccCCcchhhcCcccCCccccceecccccccc-----CccccccccccCcc
Confidence 3468999987654444455873 4799998774 34489999887654
No 256
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.87 E-value=2.6e+02 Score=29.56 Aligned_cols=90 Identities=7% Similarity=-0.017 Sum_probs=57.8
Q ss_pred hhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCccc---------ccchhcccCCCCCcceEEEeccccc
Q 039490 222 RIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAV---------RSGELEVNDPLLHISRVLPASISSL 292 (423)
Q Consensus 222 KieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~---------~d~~l~~f~~~dp~~~VLL~SLkag 292 (423)
.++.+...+.. ..++.+.|||-.-....+.+...|...|+.... +...++.| + ...+.||.+. .+.
T Consensus 212 ~~~~l~~~l~~--~~~~~~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F-~-~g~~~vLVaT-~~~ 286 (470)
T TIGR00614 212 ILEDLLRFIRK--EFKGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKF-Q-RDEIQVVVAT-VAF 286 (470)
T ss_pred HHHHHHHHHHH--hcCCCceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHH-H-cCCCcEEEEe-chh
Confidence 34555555442 223446699999999999999999999888443 33456778 3 4556777554 577
Q ss_pred ccccchh-----------chhhhhhhccccceeeccccC
Q 039490 293 SSALTSA-----------MDSAERLVGDLEAYINSDNLR 320 (423)
Q Consensus 293 gvGLN~~-----------l~~A~~~~~~~qa~~r~hriG 320 (423)
+.|+|.+ -+.... +|-+-|..|.|
T Consensus 287 ~~GID~p~V~~VI~~~~P~s~~~y----~Qr~GRaGR~G 321 (470)
T TIGR00614 287 GMGINKPDVRFVIHYSLPKSMESY----YQESGRAGRDG 321 (470)
T ss_pred hccCCcccceEEEEeCCCCCHHHH----HhhhcCcCCCC
Confidence 8898832 122222 36666777766
No 257
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=20.46 E-value=2.1e+02 Score=31.28 Aligned_cols=72 Identities=11% Similarity=0.034 Sum_probs=49.7
Q ss_pred hhhHHHHHHHHhcCCCCCCceEEcccchhHHHHHHHhhhhCCCCccc---------ccchhcccCCCCCcceEEEecccc
Q 039490 221 RRIESVRQQLVNRRPVSTPIEVRIQQFNSIVDAARHQTGSLDLDAAV---------RSGELEVNDPLLHISRVLPASISS 291 (423)
Q Consensus 221 tKieaLr~~L~~~~~~p~~K~iVFSQftsfLdlle~~L~~~gi~~~~---------~d~~l~~f~~~dp~~~VLL~SLka 291 (423)
.|+..+..++.. ..+.+.|||-.-....+.|...|...++.... +...++.| + .....||+.+ .+
T Consensus 243 ~k~~~L~~ll~~---~~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~F-r-~G~~~VLVaT-dv 316 (572)
T PRK04537 243 EKQTLLLGLLSR---SEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRF-Q-KGQLEILVAT-DV 316 (572)
T ss_pred HHHHHHHHHHhc---ccCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHH-H-cCCCeEEEEe-hh
Confidence 355555555542 34568999999999999999999999887433 45577889 3 4456666554 45
Q ss_pred cccccch
Q 039490 292 LSSALTS 298 (423)
Q Consensus 292 ggvGLN~ 298 (423)
.+.||+.
T Consensus 317 ~arGIDi 323 (572)
T PRK04537 317 AARGLHI 323 (572)
T ss_pred hhcCCCc
Confidence 5677773
No 258
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.16 E-value=79 Score=31.24 Aligned_cols=38 Identities=24% Similarity=0.306 Sum_probs=29.1
Q ss_pred CCCCCccccccccc-----cccCcEEccCCCccchhhHhhhhh
Q 039490 133 AGGGEFFDCNICLD-----MARDPVLTCCGHLFCWSCFYQLPY 170 (423)
Q Consensus 133 ~~~~e~~~C~ICle-----~~~~pv~~~CGH~FC~~Ci~~~~~ 170 (423)
......+.|++|.. ..+.+++..|||.||..|..-|..
T Consensus 90 S~~~~~~~ls~~~s~e~~~~~e~~~~y~~~~~f~i~~~~i~~~ 132 (271)
T COG5574 90 SRFNREETLSIEYSRETNIDKEGEVLYPCGIFFCIGCDYIWSI 132 (271)
T ss_pred cccccccccccccCcccccccccceeeecccccchhhhHHHHH
Confidence 44456678999888 334457889999999999988843
Done!