Query 008419
Match_columns 566
No_of_seqs 422 out of 1582
Neff 7.3
Searched_HMMs 46136
Date Thu Mar 28 11:54:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008419.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008419hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1815 Predicted E3 ubiquitin 100.0 2.4E-66 5.3E-71 559.9 26.3 428 41-496 2-436 (444)
2 KOG1814 Predicted E3 ubiquitin 100.0 1.2E-33 2.5E-38 286.7 11.6 204 114-322 182-415 (445)
3 KOG1812 Predicted E3 ubiquitin 100.0 8.8E-34 1.9E-38 299.0 10.2 269 68-363 85-374 (384)
4 KOG0006 E3 ubiquitin-protein l 99.9 4.8E-24 1E-28 209.2 8.2 196 113-317 218-441 (446)
5 smart00647 IBR In Between Ring 99.2 3.7E-11 8E-16 94.8 5.8 62 190-252 1-64 (64)
6 PF01485 IBR: IBR domain; Int 99.1 4.3E-11 9.2E-16 94.4 1.3 62 190-252 1-64 (64)
7 PF15227 zf-C3HC4_4: zinc fing 98.7 1.2E-08 2.6E-13 73.6 2.3 41 119-165 1-41 (42)
8 PF13923 zf-C3HC4_2: Zinc fing 98.3 5.2E-07 1.1E-11 64.0 2.3 37 119-165 1-38 (39)
9 PF00097 zf-C3HC4: Zinc finger 98.3 6.3E-07 1.4E-11 64.2 2.8 39 119-165 1-40 (41)
10 PF13639 zf-RING_2: Ring finge 98.2 8E-07 1.7E-11 64.8 2.1 40 118-165 2-42 (44)
11 PF13445 zf-RING_UBOX: RING-ty 98.1 1.8E-06 3.8E-11 62.5 2.2 41 119-164 1-43 (43)
12 PLN03208 E3 ubiquitin-protein 98.1 2.5E-06 5.4E-11 81.2 3.4 66 113-182 15-88 (193)
13 smart00647 IBR In Between Ring 98.0 6.6E-06 1.4E-10 64.6 4.7 38 275-312 17-59 (64)
14 KOG0320 Predicted E3 ubiquitin 98.0 3.3E-06 7.3E-11 78.3 2.6 53 113-175 128-180 (187)
15 PF01485 IBR: IBR domain; Int 97.9 3.7E-06 8E-11 66.0 1.7 39 275-313 17-60 (64)
16 KOG4367 Predicted Zn-finger pr 97.9 7.6E-05 1.6E-09 77.6 10.8 75 228-310 175-252 (699)
17 PF13920 zf-C3HC4_3: Zinc fing 97.8 1.1E-05 2.4E-10 60.4 2.9 46 116-173 2-48 (50)
18 cd00162 RING RING-finger (Real 97.8 1.5E-05 3.3E-10 57.2 3.0 43 118-171 1-44 (45)
19 PF14634 zf-RING_5: zinc-RING 97.8 1.4E-05 3.1E-10 58.2 2.4 42 118-169 1-43 (44)
20 smart00504 Ubox Modified RING 97.7 3.7E-05 7.9E-10 60.2 3.1 47 117-175 2-48 (63)
21 KOG2164 Predicted E3 ubiquitin 97.6 1.9E-05 4.1E-10 84.4 1.8 60 116-182 186-245 (513)
22 smart00184 RING Ring finger. E 97.6 3.4E-05 7.4E-10 53.3 2.4 38 119-165 1-38 (39)
23 KOG0823 Predicted E3 ubiquitin 97.6 3.1E-05 6.7E-10 75.1 2.0 56 113-177 44-99 (230)
24 KOG2177 Predicted E3 ubiquitin 97.6 3.7E-05 8E-10 78.3 2.8 44 115-170 12-55 (386)
25 KOG0317 Predicted E3 ubiquitin 97.5 3.9E-05 8.5E-10 76.6 1.8 51 115-177 238-288 (293)
26 TIGR00599 rad18 DNA repair pro 97.5 7.2E-05 1.6E-09 79.4 3.5 66 114-194 24-90 (397)
27 PHA02926 zinc finger-like prot 97.4 7.8E-05 1.7E-09 71.9 2.7 56 113-172 167-229 (242)
28 PHA02929 N1R/p28-like protein; 97.4 0.00012 2.5E-09 72.8 3.0 50 114-173 172-227 (238)
29 KOG0287 Postreplication repair 97.3 0.00015 3.2E-09 73.5 2.9 64 115-193 22-86 (442)
30 PF04564 U-box: U-box domain; 96.8 0.00073 1.6E-08 54.8 2.2 50 115-175 3-52 (73)
31 PF11789 zf-Nse: Zinc-finger o 96.6 0.0014 3.1E-08 50.5 2.7 47 115-169 10-57 (57)
32 KOG0978 E3 ubiquitin ligase in 96.6 0.00044 9.6E-09 77.5 -0.2 55 115-180 642-696 (698)
33 KOG1002 Nucleotide excision re 96.6 0.001 2.3E-08 71.0 2.3 56 113-175 533-588 (791)
34 TIGR00570 cdk7 CDK-activating 96.5 0.0014 3E-08 67.2 2.6 53 117-178 4-59 (309)
35 PF14835 zf-RING_6: zf-RING of 96.5 0.00072 1.6E-08 52.7 -0.0 44 116-173 7-51 (65)
36 KOG0804 Cytoplasmic Zn-finger 96.3 0.084 1.8E-06 56.1 14.0 118 40-171 84-220 (493)
37 PF14555 UBA_4: UBA-like domai 96.1 0.016 3.4E-07 41.9 5.5 40 52-91 1-40 (43)
38 COG5574 PEX10 RING-finger-cont 96.1 0.0041 8.9E-08 61.7 3.0 53 115-177 214-266 (271)
39 COG5540 RING-finger-containing 96.1 0.0035 7.6E-08 63.0 2.4 53 113-174 320-373 (374)
40 PF12678 zf-rbx1: RING-H2 zinc 95.8 0.0056 1.2E-07 49.7 2.2 41 117-165 20-71 (73)
41 KOG4628 Predicted E3 ubiquitin 95.6 0.0067 1.5E-07 63.2 2.2 45 117-170 230-275 (348)
42 COG5432 RAD18 RING-finger-cont 95.4 0.0093 2E-07 59.6 2.5 49 115-175 24-72 (391)
43 KOG2879 Predicted E3 ubiquitin 95.2 0.039 8.5E-07 55.1 6.0 51 113-173 236-287 (298)
44 KOG1814 Predicted E3 ubiquitin 94.7 0.11 2.3E-06 54.8 7.8 39 274-312 271-312 (445)
45 KOG0006 E3 ubiquitin-protein l 94.6 0.086 1.9E-06 53.5 6.6 146 72-250 286-439 (446)
46 PF11793 FANCL_C: FANCL C-term 94.5 0.022 4.8E-07 45.8 1.9 57 116-174 2-67 (70)
47 KOG0824 Predicted E3 ubiquitin 94.5 0.018 4E-07 58.1 1.8 54 113-177 4-57 (324)
48 COG5243 HRD1 HRD ubiquitin lig 94.1 0.034 7.3E-07 57.5 2.8 48 115-172 286-344 (491)
49 KOG4159 Predicted E3 ubiquitin 93.6 0.072 1.6E-06 57.0 4.3 49 114-174 82-130 (398)
50 PF14570 zf-RING_4: RING/Ubox 93.6 0.047 1E-06 40.3 2.0 44 119-171 1-46 (48)
51 TIGR00570 cdk7 CDK-activating 93.6 3.1 6.7E-05 43.0 15.7 53 209-290 5-57 (309)
52 KOG1039 Predicted E3 ubiquitin 92.9 0.095 2.1E-06 55.0 3.8 56 113-171 158-219 (344)
53 KOG0311 Predicted E3 ubiquitin 92.8 0.02 4.3E-07 59.0 -1.5 48 115-172 42-89 (381)
54 KOG1812 Predicted E3 ubiquitin 92.7 0.056 1.2E-06 58.0 1.8 42 205-250 304-345 (384)
55 KOG4185 Predicted E3 ubiquitin 92.6 0.14 3E-06 52.9 4.5 57 116-181 3-65 (296)
56 COG5152 Uncharacterized conser 92.6 0.038 8.2E-07 52.4 0.3 44 115-170 195-238 (259)
57 KOG2660 Locus-specific chromos 92.5 0.066 1.4E-06 54.9 1.9 46 115-172 14-60 (331)
58 PF10571 UPF0547: Uncharacteri 92.2 0.067 1.5E-06 34.3 1.0 23 277-303 1-24 (26)
59 KOG2817 Predicted E3 ubiquitin 92.1 0.64 1.4E-05 49.0 8.5 125 40-176 255-388 (394)
60 PRK00420 hypothetical protein; 91.8 1.2 2.6E-05 39.2 8.6 26 276-310 23-49 (112)
61 KOG0802 E3 ubiquitin ligase [P 91.6 0.084 1.8E-06 59.3 1.6 46 115-170 290-338 (543)
62 KOG0826 Predicted E3 ubiquitin 91.5 0.44 9.5E-06 48.9 6.4 48 115-172 299-347 (357)
63 KOG1428 Inhibitor of type V ad 91.4 0.3 6.6E-06 58.3 5.7 67 114-182 3484-3553(3738)
64 PF12861 zf-Apc11: Anaphase-pr 91.1 0.18 4E-06 41.9 2.7 31 135-172 51-81 (85)
65 KOG4692 Predicted E3 ubiquitin 91.1 0.14 3.1E-06 52.7 2.5 52 111-174 417-468 (489)
66 KOG1645 RING-finger-containing 89.5 0.23 5E-06 52.2 2.5 50 116-173 4-56 (463)
67 smart00744 RINGv The RING-vari 88.6 0.34 7.4E-06 36.1 2.2 42 118-165 1-47 (49)
68 KOG1785 Tyrosine kinase negati 88.0 0.22 4.9E-06 52.1 1.2 46 116-169 369-414 (563)
69 KOG4265 Predicted E3 ubiquitin 87.5 0.51 1.1E-05 49.2 3.4 48 114-173 288-336 (349)
70 COG5220 TFB3 Cdk activating ki 87.5 0.16 3.5E-06 49.7 -0.2 49 117-172 11-63 (314)
71 PF05883 Baculo_RING: Baculovi 86.5 0.27 6E-06 44.3 0.7 34 116-149 26-66 (134)
72 PF13240 zinc_ribbon_2: zinc-r 86.1 0.36 7.9E-06 30.0 0.9 11 278-288 1-11 (23)
73 KOG1734 Predicted RING-contain 86.1 0.4 8.6E-06 47.9 1.7 53 115-175 223-283 (328)
74 KOG1813 Predicted E3 ubiquitin 85.2 0.31 6.7E-06 49.3 0.5 44 116-171 241-284 (313)
75 KOG0828 Predicted E3 ubiquitin 84.8 0.4 8.6E-06 51.6 1.1 51 114-173 569-634 (636)
76 KOG4445 Uncharacterized conser 84.4 2.6 5.7E-05 42.8 6.5 38 116-153 115-153 (368)
77 KOG1001 Helicase-like transcri 83.4 0.5 1.1E-05 54.2 1.2 47 117-174 455-501 (674)
78 smart00661 RPOL9 RNA polymeras 83.4 0.9 2E-05 33.8 2.2 27 277-303 1-30 (52)
79 KOG0297 TNF receptor-associate 82.4 0.78 1.7E-05 49.4 2.1 48 113-172 18-66 (391)
80 KOG1815 Predicted E3 ubiquitin 82.2 0.82 1.8E-05 50.1 2.2 37 276-312 158-197 (444)
81 PHA00626 hypothetical protein 81.8 1 2.3E-05 34.1 2.0 29 278-306 2-36 (59)
82 PF00627 UBA: UBA/TS-N domain; 81.7 5 0.00011 27.7 5.3 34 52-86 3-36 (37)
83 KOG4739 Uncharacterized protei 81.6 0.46 9.9E-06 47.0 0.0 45 117-173 4-48 (233)
84 KOG0825 PHD Zn-finger protein 81.5 0.91 2E-05 51.5 2.3 18 136-153 121-138 (1134)
85 KOG4172 Predicted E3 ubiquitin 80.6 0.57 1.2E-05 35.3 0.3 45 117-172 8-53 (62)
86 PRK14559 putative protein seri 79.8 1.1 2.3E-05 51.3 2.2 25 277-312 28-52 (645)
87 KOG1701 Focal adhesion adaptor 79.8 1.1 2.5E-05 47.5 2.2 25 276-300 427-459 (468)
88 PF13248 zf-ribbon_3: zinc-rib 79.7 0.96 2.1E-05 28.9 1.0 12 277-288 3-14 (26)
89 KOG0823 Predicted E3 ubiquitin 79.2 1.1 2.3E-05 44.1 1.7 47 215-287 49-95 (230)
90 KOG0317 Predicted E3 ubiquitin 79.2 0.35 7.6E-06 48.9 -1.7 35 272-312 235-270 (293)
91 PF15227 zf-C3HC4_4: zinc fing 77.5 1.1 2.4E-05 32.2 0.9 29 279-312 1-29 (42)
92 KOG0827 Predicted E3 ubiquitin 77.3 0.89 1.9E-05 47.7 0.5 48 116-170 4-53 (465)
93 PRK00432 30S ribosomal protein 76.9 1.4 2.9E-05 33.1 1.3 28 274-303 18-47 (50)
94 PF00643 zf-B_box: B-box zinc 76.8 1.8 3.9E-05 30.6 1.9 33 277-316 4-38 (42)
95 PF14952 zf-tcix: Putative tre 76.5 1.7 3.7E-05 31.3 1.6 30 270-303 5-37 (44)
96 PF04641 Rtf2: Rtf2 RING-finge 75.9 2 4.4E-05 43.6 2.7 59 113-182 110-170 (260)
97 PF10367 Vps39_2: Vacuolar sor 74.8 1.2 2.7E-05 38.2 0.7 32 115-146 77-108 (109)
98 PF02845 CUE: CUE domain; Int 74.6 12 0.00025 26.7 5.6 38 52-89 2-40 (42)
99 KOG1941 Acetylcholine receptor 74.1 5.8 0.00013 41.8 5.4 48 115-170 364-413 (518)
100 PF14835 zf-RING_6: zf-RING of 73.6 2.1 4.5E-05 33.7 1.6 34 277-310 8-49 (65)
101 PF13920 zf-C3HC4_3: Zinc fing 73.5 2.5 5.3E-05 31.3 1.9 32 231-288 17-49 (50)
102 cd00021 BBOX B-Box-type zinc f 73.3 2.9 6.4E-05 28.8 2.2 31 278-315 2-34 (39)
103 PF09297 zf-NADH-PPase: NADH p 72.6 4.1 9E-05 27.3 2.7 28 275-302 2-30 (32)
104 KOG3579 Predicted E3 ubiquitin 71.6 3.4 7.3E-05 41.8 2.9 54 114-170 266-322 (352)
105 PLN03086 PRLI-interacting fact 71.6 7.5 0.00016 43.7 6.0 57 159-238 406-463 (567)
106 KOG3039 Uncharacterized conser 71.5 2.2 4.8E-05 42.2 1.6 53 115-177 220-274 (303)
107 KOG1493 Anaphase-promoting com 71.5 0.96 2.1E-05 36.6 -0.7 48 118-172 22-80 (84)
108 COG4647 AcxC Acetone carboxyla 70.9 9.5 0.00021 34.1 5.2 59 228-287 69-131 (165)
109 COG5222 Uncharacterized conser 70.9 2.4 5.2E-05 43.0 1.7 43 117-170 275-318 (427)
110 KOG3800 Predicted E3 ubiquitin 70.9 4.9 0.00011 40.9 3.9 48 118-174 2-52 (300)
111 KOG2807 RNA polymerase II tran 70.5 2 4.4E-05 44.2 1.1 84 138-248 276-365 (378)
112 KOG4275 Predicted E3 ubiquitin 69.7 1.7 3.7E-05 44.0 0.4 28 116-145 300-328 (350)
113 TIGR00622 ssl1 transcription f 68.8 4.2 9E-05 35.7 2.6 75 159-248 14-101 (112)
114 PRK00398 rpoP DNA-directed RNA 68.3 4 8.8E-05 29.7 2.1 29 277-305 4-33 (46)
115 PLN03208 E3 ubiquitin-protein 68.2 1.9 4.1E-05 41.5 0.4 32 276-312 18-49 (193)
116 cd00194 UBA Ubiquitin Associat 67.9 18 0.00038 24.8 5.2 34 54-88 4-37 (38)
117 PHA03096 p28-like protein; Pro 66.5 2.9 6.3E-05 43.0 1.3 37 117-153 179-221 (284)
118 COG5175 MOT2 Transcriptional r 66.4 2.3 5E-05 43.8 0.6 53 116-177 14-68 (480)
119 KOG3970 Predicted E3 ubiquitin 65.9 5.1 0.00011 39.1 2.8 54 117-172 51-104 (299)
120 PF13719 zinc_ribbon_5: zinc-r 64.9 6.5 0.00014 27.4 2.4 28 208-238 3-35 (37)
121 PF10168 Nup88: Nuclear pore c 64.7 1.6E+02 0.0035 34.5 15.1 46 431-477 600-645 (717)
122 KOG1952 Transcription factor N 64.6 4.4 9.5E-05 46.8 2.4 50 115-165 190-241 (950)
123 smart00165 UBA Ubiquitin assoc 64.2 19 0.0004 24.6 4.7 33 54-87 4-36 (37)
124 PF14447 Prok-RING_4: Prokaryo 64.0 3 6.4E-05 31.8 0.6 45 116-174 7-51 (55)
125 PF13717 zinc_ribbon_4: zinc-r 63.3 7.1 0.00015 27.0 2.4 28 208-238 3-35 (36)
126 KOG3002 Zn finger protein [Gen 63.2 9.2 0.0002 39.6 4.3 52 114-181 46-97 (299)
127 KOG2906 RNA polymerase III sub 62.9 4.9 0.00011 34.2 1.8 29 277-305 2-33 (105)
128 PF07191 zinc-ribbons_6: zinc- 62.4 5.9 0.00013 31.8 2.1 32 278-311 3-40 (70)
129 PRK14559 putative protein seri 62.3 5.2 0.00011 45.9 2.5 12 276-287 41-52 (645)
130 PF05320 Pox_RNA_Pol_19: Poxvi 61.5 3.5 7.6E-05 37.9 0.8 10 115-124 125-134 (167)
131 smart00336 BBOX B-Box-type zin 60.6 8.4 0.00018 26.8 2.5 33 277-316 4-38 (42)
132 PRK14714 DNA polymerase II lar 60.3 5.9 0.00013 48.0 2.5 40 471-513 845-891 (1337)
133 PRK08665 ribonucleotide-diphos 60.0 4.8 0.0001 47.1 1.7 26 277-304 725-751 (752)
134 smart00546 CUE Domain that may 59.7 32 0.00069 24.4 5.4 38 52-89 3-41 (43)
135 PF02150 RNA_POL_M_15KD: RNA p 59.7 6.7 0.00015 27.0 1.7 27 208-237 2-29 (35)
136 PF08274 PhnA_Zn_Ribbon: PhnA 59.3 6.5 0.00014 26.2 1.6 26 277-303 3-29 (30)
137 KOG2034 Vacuolar sorting prote 59.0 4.5 9.7E-05 47.0 1.2 39 115-153 816-854 (911)
138 KOG2177 Predicted E3 ubiquitin 58.7 5.1 0.00011 40.2 1.5 24 278-308 88-112 (386)
139 KOG1571 Predicted E3 ubiquitin 58.6 5.5 0.00012 41.7 1.7 44 114-172 303-346 (355)
140 COG1998 RPS31 Ribosomal protei 58.6 7 0.00015 29.0 1.7 26 276-301 19-45 (51)
141 COG5219 Uncharacterized conser 57.2 4.9 0.00011 46.9 1.1 51 115-173 1468-1523(1525)
142 PF08938 HBS1_N: HBS1 N-termin 57.1 1 2.2E-05 37.0 -3.2 47 42-89 20-69 (79)
143 PRK04023 DNA polymerase II lar 56.5 7.9 0.00017 45.8 2.7 35 201-245 620-660 (1121)
144 COG1198 PriA Primosomal protei 56.3 8.4 0.00018 44.7 2.9 35 276-310 444-484 (730)
145 KOG0320 Predicted E3 ubiquitin 56.1 2.8 6E-05 39.7 -0.9 29 233-287 150-178 (187)
146 PF10446 DUF2457: Protein of u 55.1 8.3 0.00018 41.5 2.4 18 108-125 186-203 (458)
147 PF07282 OrfB_Zn_ribbon: Putat 54.9 9.2 0.0002 30.2 2.1 28 275-302 27-55 (69)
148 PF12906 RINGv: RING-variant d 54.7 11 0.00024 27.7 2.3 33 119-151 1-38 (47)
149 PRK05654 acetyl-CoA carboxylas 54.2 3 6.6E-05 43.0 -1.0 28 276-303 27-56 (292)
150 PF14803 Nudix_N_2: Nudix N-te 53.9 11 0.00024 25.8 2.1 25 277-301 1-30 (34)
151 KOG0978 E3 ubiquitin ligase in 53.6 5 0.00011 45.9 0.5 29 233-286 660-688 (698)
152 TIGR00595 priA primosomal prot 52.5 12 0.00026 41.8 3.3 34 277-310 223-262 (505)
153 TIGR02098 MJ0042_CXXC MJ0042 f 52.5 15 0.00033 25.3 2.6 27 209-238 4-35 (38)
154 PRK14714 DNA polymerase II lar 51.6 11 0.00023 45.9 2.7 29 207-245 667-701 (1337)
155 KOG3039 Uncharacterized conser 51.3 8.9 0.00019 38.1 1.7 37 117-155 44-80 (303)
156 COG5574 PEX10 RING-finger-cont 50.6 4.7 0.0001 40.5 -0.3 30 277-312 216-247 (271)
157 PF13834 DUF4193: Domain of un 50.6 6.8 0.00015 33.5 0.7 33 112-144 66-98 (99)
158 PF06677 Auto_anti-p27: Sjogre 50.4 13 0.00027 26.7 1.9 22 277-300 18-41 (41)
159 KOG3161 Predicted E3 ubiquitin 49.5 5.4 0.00012 44.7 -0.1 36 116-151 11-48 (861)
160 COG2888 Predicted Zn-ribbon RN 48.6 12 0.00027 28.9 1.7 6 278-283 29-34 (61)
161 KOG1940 Zn-finger protein [Gen 48.5 15 0.00032 37.6 2.8 47 114-170 156-204 (276)
162 KOG3130 Uncharacterized conser 48.5 15 0.00033 38.9 3.0 6 121-126 396-401 (514)
163 PF09538 FYDLN_acid: Protein o 48.2 10 0.00022 33.2 1.4 25 277-303 10-36 (108)
164 KOG4362 Transcriptional regula 48.2 5.5 0.00012 45.4 -0.3 53 115-176 20-72 (684)
165 PF07191 zinc-ribbons_6: zinc- 48.0 3.7 8.1E-05 32.9 -1.2 39 117-172 2-40 (70)
166 PRK04023 DNA polymerase II lar 47.9 15 0.00033 43.6 3.1 39 472-513 799-844 (1121)
167 PF06906 DUF1272: Protein of u 47.8 6.1 0.00013 30.1 -0.0 45 117-173 6-52 (57)
168 PF04931 DNA_pol_phi: DNA poly 47.7 30 0.00065 40.9 5.7 21 67-87 763-783 (784)
169 CHL00174 accD acetyl-CoA carbo 47.6 4.3 9.3E-05 41.9 -1.1 27 277-303 39-67 (296)
170 KOG3268 Predicted E3 ubiquitin 47.2 16 0.00035 34.5 2.7 57 115-173 164-228 (234)
171 PF10446 DUF2457: Protein of u 47.2 10 0.00022 40.8 1.6 7 346-352 407-413 (458)
172 COG5151 SSL1 RNA polymerase II 46.9 5.7 0.00012 40.6 -0.4 89 137-248 307-408 (421)
173 TIGR01384 TFS_arch transcripti 46.3 13 0.00029 31.9 1.9 24 277-302 1-25 (104)
174 COG0777 AccD Acetyl-CoA carbox 45.9 6.8 0.00015 39.7 0.0 29 275-303 27-57 (294)
175 PF15358 TSKS: Testis-specific 45.7 1.9E+02 0.0042 31.1 10.4 91 338-457 122-214 (558)
176 PRK14873 primosome assembly pr 45.6 16 0.00034 42.2 2.9 34 277-310 393-431 (665)
177 TIGR00515 accD acetyl-CoA carb 45.6 5 0.00011 41.3 -1.0 28 276-303 26-55 (285)
178 PF12773 DZR: Double zinc ribb 45.3 9.2 0.0002 28.1 0.6 11 277-287 30-40 (50)
179 KOG2932 E3 ubiquitin ligase in 45.0 7.6 0.00017 39.8 0.2 53 204-292 87-139 (389)
180 PF14369 zf-RING_3: zinc-finge 45.0 18 0.00038 25.0 1.9 28 208-238 3-31 (35)
181 COG1645 Uncharacterized Zn-fin 45.0 13 0.00029 33.5 1.7 23 277-308 29-51 (131)
182 PF07975 C1_4: TFIIH C1-like d 44.9 10 0.00022 28.6 0.8 22 228-249 20-42 (51)
183 TIGR00686 phnA alkylphosphonat 44.6 16 0.00035 31.7 2.1 26 277-303 3-29 (109)
184 smart00661 RPOL9 RNA polymeras 44.6 19 0.00042 26.5 2.3 26 209-237 2-29 (52)
185 KOG2114 Vacuolar assembly/sort 43.9 14 0.00031 42.9 2.1 40 117-170 841-880 (933)
186 PF14569 zf-UDP: Zinc-binding 43.6 17 0.00036 29.7 1.9 54 215-293 14-68 (80)
187 TIGR03655 anti_R_Lar restricti 43.4 20 0.00044 26.9 2.3 11 277-287 2-12 (53)
188 PRK00398 rpoP DNA-directed RNA 43.3 26 0.00057 25.4 2.8 29 209-241 5-34 (46)
189 PRK05580 primosome assembly pr 43.2 19 0.00042 41.7 3.2 34 277-310 391-430 (679)
190 PF02891 zf-MIZ: MIZ/SP-RING z 43.0 23 0.00049 26.4 2.4 46 117-170 3-49 (50)
191 PF12959 DUF3848: Protein of u 42.4 98 0.0021 26.7 6.4 48 42-90 24-76 (101)
192 PF03854 zf-P11: P-11 zinc fin 42.4 12 0.00025 27.7 0.7 44 117-174 3-47 (50)
193 KOG3053 Uncharacterized conser 42.3 20 0.00043 36.0 2.5 54 115-170 19-79 (293)
194 PF06827 zf-FPG_IleRS: Zinc fi 41.2 19 0.00042 23.5 1.6 24 277-300 2-28 (30)
195 PF02318 FYVE_2: FYVE-type zin 41.0 47 0.001 29.3 4.6 42 275-317 53-95 (118)
196 PF08746 zf-RING-like: RING-li 40.6 24 0.00051 25.5 2.1 41 119-165 1-42 (43)
197 PF03943 TAP_C: TAP C-terminal 40.4 35 0.00075 25.6 3.1 37 53-89 2-38 (51)
198 COG1997 RPL43A Ribosomal prote 39.9 23 0.00049 29.6 2.2 28 276-303 35-63 (89)
199 COG5432 RAD18 RING-finger-cont 39.6 14 0.0003 37.6 1.1 32 277-315 26-59 (391)
200 KOG0309 Conserved WD40 repeat- 39.4 21 0.00045 40.9 2.5 47 115-170 1027-1073(1081)
201 smart00804 TAP_C C-terminal do 39.4 1.2E+02 0.0026 23.8 6.1 41 49-89 10-50 (63)
202 PF01599 Ribosomal_S27: Riboso 39.3 22 0.00047 26.3 1.8 26 276-301 18-46 (47)
203 COG1096 Predicted RNA-binding 39.0 19 0.00042 34.4 1.9 24 277-302 150-174 (188)
204 PRK10220 hypothetical protein; 38.7 25 0.00053 30.7 2.3 26 277-303 4-30 (111)
205 PF01363 FYVE: FYVE zinc finge 38.6 18 0.0004 28.4 1.5 38 114-151 7-46 (69)
206 PF14446 Prok-RING_1: Prokaryo 38.1 26 0.00056 26.7 2.0 32 116-147 5-38 (54)
207 PF03119 DNA_ligase_ZBD: NAD-d 38.0 30 0.00065 22.6 2.1 20 278-297 1-20 (28)
208 PF14445 Prok-RING_2: Prokaryo 38.0 6.2 0.00013 29.4 -1.2 34 115-148 6-40 (57)
209 PF09026 CENP-B_dimeris: Centr 37.0 11 0.00025 31.9 0.0 9 54-62 52-60 (101)
210 KOG0943 Predicted ubiquitin-pr 36.6 20 0.00043 43.2 1.8 16 436-451 2419-2434(3015)
211 PF04899 MbeD_MobD: MbeD/MobD 36.0 2.3E+02 0.005 22.8 7.4 47 433-484 16-62 (70)
212 TIGR00993 3a0901s04IAP86 chlor 35.8 47 0.001 38.4 4.5 42 38-83 412-453 (763)
213 PRK14811 formamidopyrimidine-D 35.6 26 0.00056 35.8 2.3 26 276-301 235-263 (269)
214 COG0266 Nei Formamidopyrimidin 35.4 25 0.00055 35.9 2.2 26 276-301 245-273 (273)
215 COG3416 Uncharacterized protei 35.3 99 0.0022 30.2 6.0 19 424-442 1-19 (233)
216 COG5194 APC11 Component of SCF 34.9 31 0.00068 28.4 2.2 46 117-172 32-80 (88)
217 KOG2164 Predicted E3 ubiquitin 34.8 14 0.0003 40.6 0.2 28 276-310 186-215 (513)
218 PRK14892 putative transcriptio 34.8 28 0.00061 30.0 2.1 27 276-302 21-51 (99)
219 PRK12495 hypothetical protein; 34.6 45 0.00097 32.8 3.6 24 275-300 41-65 (226)
220 PF14569 zf-UDP: Zinc-binding 33.3 51 0.0011 27.0 3.2 48 115-171 8-60 (80)
221 COG5236 Uncharacterized conser 33.0 26 0.00056 36.5 1.8 48 114-171 59-106 (493)
222 PRK11827 hypothetical protein; 32.9 37 0.0008 26.5 2.2 25 277-301 9-34 (60)
223 PRK01103 formamidopyrimidine/5 32.9 30 0.00065 35.4 2.3 26 276-301 245-273 (274)
224 PF12861 zf-Apc11: Anaphase-pr 32.8 19 0.00041 30.1 0.7 36 277-315 33-68 (85)
225 TIGR00577 fpg formamidopyrimid 32.7 30 0.00065 35.3 2.3 25 276-300 245-272 (272)
226 COG1594 RPB9 DNA-directed RNA 32.5 35 0.00075 30.1 2.3 27 277-303 3-32 (113)
227 PF12677 DUF3797: Domain of un 32.3 40 0.00087 25.0 2.2 28 276-303 13-48 (49)
228 PRK12286 rpmF 50S ribosomal pr 32.1 30 0.00064 26.7 1.6 23 274-301 25-48 (57)
229 PRK14810 formamidopyrimidine-D 32.0 32 0.00068 35.2 2.3 25 276-300 244-271 (272)
230 COG2051 RPS27A Ribosomal prote 32.0 57 0.0012 25.9 3.1 31 208-241 20-51 (67)
231 KOG0995 Centromere-associated 31.8 8E+02 0.017 27.8 15.4 43 337-379 269-312 (581)
232 PRK13945 formamidopyrimidine-D 31.8 31 0.00068 35.4 2.2 25 276-300 254-281 (282)
233 PF05290 Baculo_IE-1: Baculovi 31.8 26 0.00056 31.7 1.4 51 115-172 79-131 (140)
234 PHA02929 N1R/p28-like protein; 31.7 19 0.00041 36.1 0.6 38 276-313 174-214 (238)
235 COG5109 Uncharacterized conser 31.5 44 0.00096 34.5 3.1 50 115-171 335-385 (396)
236 PRK10445 endonuclease VIII; Pr 31.4 33 0.00072 34.9 2.3 25 276-300 235-262 (263)
237 COG3813 Uncharacterized protei 31.1 18 0.00039 29.0 0.3 44 118-173 7-52 (84)
238 PF15616 TerY-C: TerY-C metal 30.9 31 0.00066 31.3 1.7 34 276-309 77-113 (131)
239 PF08317 Spc7: Spc7 kinetochor 30.7 6.4E+02 0.014 26.3 14.9 13 548-560 305-317 (325)
240 PF06844 DUF1244: Protein of u 30.1 29 0.00064 27.4 1.3 18 139-156 11-28 (68)
241 PF08792 A2L_zn_ribbon: A2L zi 29.8 50 0.0011 22.5 2.2 12 276-287 3-14 (33)
242 PF14149 YhfH: YhfH-like prote 29.6 4.1 8.9E-05 28.4 -3.1 26 274-299 11-37 (37)
243 TIGR01031 rpmF_bact ribosomal 29.2 34 0.00074 26.1 1.5 22 275-301 25-47 (55)
244 PRK09710 lar restriction allev 28.9 51 0.0011 26.0 2.4 14 275-288 5-18 (64)
245 KOG0943 Predicted ubiquitin-pr 28.7 29 0.00063 41.9 1.5 17 279-295 2281-2297(3015)
246 PF07800 DUF1644: Protein of u 28.5 55 0.0012 30.6 3.0 36 116-153 2-50 (162)
247 PF10122 Mu-like_Com: Mu-like 28.1 25 0.00054 26.4 0.6 11 278-288 6-16 (51)
248 KOG0825 PHD Zn-finger protein 27.9 42 0.0009 38.9 2.5 49 116-174 123-172 (1134)
249 smart00659 RPOLCX RNA polymera 27.3 45 0.00098 24.2 1.8 10 277-286 20-29 (44)
250 PF01428 zf-AN1: AN1-like Zinc 27.0 51 0.0011 23.6 2.0 17 229-245 13-30 (43)
251 PRK09521 exosome complex RNA-b 26.9 43 0.00094 32.1 2.2 25 277-302 150-175 (189)
252 PLN02638 cellulose synthase A 26.4 43 0.00093 40.4 2.4 57 215-296 22-79 (1079)
253 KOG0994 Extracellular matrix g 26.4 1.3E+03 0.029 28.7 14.3 77 425-502 1223-1305(1758)
254 TIGR02300 FYDLN_acid conserved 25.9 38 0.00083 30.4 1.4 24 277-302 10-35 (129)
255 PF13453 zf-TFIIB: Transcripti 25.7 44 0.00094 23.6 1.4 29 278-311 1-29 (41)
256 PLN02189 cellulose synthase 25.7 43 0.00094 40.2 2.2 60 209-296 36-96 (1040)
257 PF14471 DUF4428: Domain of un 25.6 49 0.0011 24.8 1.7 30 118-148 1-30 (51)
258 TIGR01206 lysW lysine biosynth 25.5 75 0.0016 24.2 2.8 28 209-239 4-33 (54)
259 KOG0824 Predicted E3 ubiquitin 25.3 25 0.00054 36.1 0.2 26 276-310 7-36 (324)
260 KOG2932 E3 ubiquitin ligase in 24.9 33 0.00072 35.3 0.9 28 276-310 90-120 (389)
261 TIGR02159 PA_CoA_Oxy4 phenylac 24.5 35 0.00077 31.5 1.0 96 47-148 40-140 (146)
262 PF09723 Zn-ribbon_8: Zinc rib 24.3 1.1E+02 0.0023 21.8 3.3 12 277-288 27-39 (42)
263 COG2816 NPY1 NTP pyrophosphohy 24.2 70 0.0015 32.8 3.1 35 268-303 104-139 (279)
264 PF14319 Zn_Tnp_IS91: Transpos 24.2 1.5E+02 0.0031 26.0 4.8 22 233-262 57-78 (111)
265 KOG1464 COP9 signalosome, subu 23.5 44 0.00095 34.2 1.5 12 1-12 1-12 (440)
266 smart00064 FYVE Protein presen 23.3 32 0.0007 26.9 0.4 36 116-151 10-47 (68)
267 PF01783 Ribosomal_L32p: Ribos 23.3 33 0.00072 26.2 0.5 21 275-300 25-46 (56)
268 KOG1991 Nuclear transport rece 22.9 83 0.0018 37.5 3.7 6 48-53 961-966 (1010)
269 KOG2906 RNA polymerase III sub 22.8 92 0.002 26.7 3.0 27 208-237 2-30 (105)
270 PF05605 zf-Di19: Drought indu 22.6 1.1E+02 0.0025 22.8 3.3 45 116-177 2-46 (54)
271 PLN02638 cellulose synthase A 22.6 75 0.0016 38.5 3.4 49 115-172 16-69 (1079)
272 PRK08115 ribonucleotide-diphos 22.6 41 0.00089 39.9 1.2 24 277-302 828-853 (858)
273 smart00531 TFIIE Transcription 22.2 1.2E+02 0.0026 27.9 4.0 19 56-74 19-37 (147)
274 PHA02926 zinc finger-like prot 22.2 42 0.0009 33.2 1.0 38 276-314 170-212 (242)
275 PHA02825 LAP/PHD finger-like p 21.9 69 0.0015 30.0 2.4 48 115-173 7-59 (162)
276 TIGR00373 conserved hypothetic 21.8 1.1E+02 0.0023 28.6 3.7 32 203-237 105-137 (158)
277 KOG3800 Predicted E3 ubiquitin 21.8 58 0.0013 33.4 1.9 52 209-289 2-53 (300)
278 PF06044 DRP: Dam-replacing fa 21.7 56 0.0012 32.7 1.8 35 268-303 24-63 (254)
279 PF07503 zf-HYPF: HypF finger; 21.5 50 0.0011 22.8 1.0 30 140-171 1-30 (35)
280 PRK02935 hypothetical protein; 21.3 35 0.00076 29.6 0.3 18 277-294 71-91 (110)
281 KOG3876 Arfaptin and related p 21.3 3E+02 0.0064 28.0 6.7 25 432-456 306-330 (341)
282 PF05633 DUF793: Protein of un 21.2 4.8E+02 0.01 28.2 8.7 39 439-489 342-380 (389)
283 TIGR02443 conserved hypothetic 21.0 88 0.0019 24.3 2.3 26 277-302 10-40 (59)
284 COG4640 Predicted membrane pro 21.0 48 0.001 35.4 1.2 8 277-284 2-9 (465)
285 PF15290 Syntaphilin: Golgi-lo 21.0 5.3E+02 0.011 26.5 8.4 21 466-486 119-139 (305)
286 PRK06369 nac nascent polypepti 20.9 2.3E+02 0.0049 25.2 5.2 36 52-87 77-112 (115)
287 PF04216 FdhE: Protein involve 20.5 49 0.0011 34.1 1.2 35 277-311 173-221 (290)
288 KOG4677 Golgi integral membran 20.5 1.2E+03 0.025 25.8 13.3 58 342-406 166-224 (554)
289 PF07754 DUF1610: Domain of un 20.4 80 0.0017 20.0 1.7 7 277-283 17-23 (24)
290 PLN02436 cellulose synthase A 20.4 63 0.0014 39.0 2.2 57 215-296 41-98 (1094)
291 PF05278 PEARLI-4: Arabidopsis 20.3 9.4E+02 0.02 24.6 11.2 51 386-451 167-217 (269)
292 TIGR00264 alpha-NAC-related pr 20.3 2.4E+02 0.0051 25.1 5.2 33 52-84 79-111 (116)
293 PRK12775 putative trifunctiona 20.3 1E+03 0.022 29.2 12.4 15 276-290 796-810 (1006)
294 cd00065 FYVE FYVE domain; Zinc 20.1 55 0.0012 24.4 1.2 35 117-151 3-39 (57)
295 PLN02436 cellulose synthase A 20.1 76 0.0017 38.4 2.7 49 115-172 35-88 (1094)
No 1
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.4e-66 Score=559.88 Aligned_cols=428 Identities=40% Similarity=0.771 Sum_probs=378.5
Q ss_pred eeCHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHHHhcChhhhhhhcCCcccCCCCCCCCCccccccc
Q 008419 41 VITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDDADPMLPLSSTVMCD 120 (566)
Q Consensus 41 vlt~~~l~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~~~~~~~~~~~~~gl~~~~~~~~~~~~~~~~~C~ 120 (566)
|+|.+++...|.++|.+|+++|+++..+|++||.||.|+.+++++.|++ +.+.++...|+.... .......|.
T Consensus 2 vl~~~~~~~~~~~~i~~~~~~ls~~~~~~~~ll~~~~W~~~kl~~~~~~-~~~~~~~~~g~~~~~------~~~~~~~c~ 74 (444)
T KOG1815|consen 2 VLTPDDIAALMREDIIEVSDILSLSHAVARILLAHFCWNVEKLLEEWVE-DEETGCFFVGLLLWP------KKKGDVQCG 74 (444)
T ss_pred CCchHhhhHHhHhhHHHHHHhhcCCHHHHHHHHHhcCcchHHHHHHHHh-cCcchhhhccccccC------CCCccccCC
Confidence 6889999999999999999999999999999999999999999999996 556777777865443 233568999
Q ss_pred cccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHHhhcCCCh-hHHHHHHHHHHHh
Q 008419 121 ICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHP-NLAEKFERFLLES 199 (566)
Q Consensus 121 IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~ll~~~~~-e~~~ky~~~l~~~ 199 (566)
||++.++. .+..+.|||.||..||..|+..+|.+|....|+||..+|.+.+....|..+++ + +...+|.++++++
T Consensus 75 ic~~~~~~-~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s---~~~~~~ky~~~i~~s 150 (444)
T KOG1815|consen 75 ICVESYDG-EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVS---DKEDKEKYQRYILRS 150 (444)
T ss_pred cccCCCcc-hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecC---CHHHHHHHHHHHHHH
Confidence 99999875 57788999999999999999999998875459999999999999999999998 4 6899999999999
Q ss_pred hhhcCcccccCCCCCCCCceEEecCCcceeeEecCCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCC
Q 008419 200 FIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPC 279 (566)
Q Consensus 200 ~v~~~~~~~~CP~~p~C~~~i~~~~~~~~~v~C~Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~C 279 (566)
|++.+..++|||+ |+|++++.........|.|.||+.|||.|+.+||.|.+|..+..|.++..+++++.+||..|+++|
T Consensus 151 yve~~~~lkwCP~-~~C~~av~~~~~~~~~v~C~~g~~FC~~C~~~~H~p~~C~~~~~wl~k~~~~se~~~wi~~ntk~C 229 (444)
T KOG1815|consen 151 YVEDNVPLKWCPA-PGCGLAVKFGSLESVEVDCGCGHEFCFACGEESHSPVSCPGAKKWLKKCRDDSETINWILANTKEC 229 (444)
T ss_pred HHhcCCccccCCC-CCCCceeeccCCCccceeCCCCchhHhhccccccCCCcccchHHHHHhhhhhhhhhhhhhccCccC
Confidence 9999999999996 999999997555556799999999999999999999999999999999999999999999999999
Q ss_pred CCCCcceeecCCCCeeEe-c--cCccccccccccccCCCCccccCCccCCCCcchhHHH-HHHHHHHHhhHHHHHHHHHh
Q 008419 280 PKCHKPVEKNGGCNLVSC-I--CGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKK-TERAKRELYRYMHYHNRYKA 355 (566)
Q Consensus 280 PkC~~~IEKn~GCNhm~C-~--C~~~FCw~C~~~~~~~H~~~~~~g~~C~~y~~~~~~~-~~~~k~~l~ry~~y~~r~~~ 355 (566)
|+|..+|||++|||||+| . |++.|||+|++.|. +|+.+. ++.||+|....... +..++..+.||.|||+||..
T Consensus 230 P~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~-~h~~~~--~~~c~~~~~~~~~~~~~~a~~~l~r~~~~~~~~~~ 306 (444)
T KOG1815|consen 230 PKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLS-DHGSST--GYSCNRYVDGKSKSARSKARRSLKRYTHYYNRWME 306 (444)
T ss_pred CCcccchhccCCccccccccCCcCCeeceeeecccc-cccccc--eeeeeeeechhhhhHHHHHHHHHHHHHHHHhhHHh
Confidence 999999999999999999 3 99999999988875 454433 79999998876555 77888999999999999999
Q ss_pred hhhhHHHHHHHHHHHHHH-HHHHhhh-hccccchhHHHHHHHHHHHHhHhhhccccceeecccccccccccchHHHHHHH
Q 008419 356 HTDSFKLESKLKETVLEK-VSISEER-ESRLRDFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQ 433 (566)
Q Consensus 356 h~~s~k~e~~l~~~i~~k-~~~~~~~-~~~~~~~~~l~~a~~~l~~~R~~L~~sy~~~yy~~~~~~~~~~~~~~~~~~~~ 433 (566)
|..+++++..+...+... ...+... ...+.+++|+.+++..|+++|++|+|||+|+||+..+ .++
T Consensus 307 ~q~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~e~r~~l~~s~~~~~~~~~~-------------~~~ 373 (444)
T KOG1815|consen 307 HQVSLKLEGKLLSKVEEVKKPKLSDSLSLSWIDVQFLRDAGDVLVECRRTLKWTYAYAYYLSEN-------------NKR 373 (444)
T ss_pred hhhhhhhhhhhHHHHHHHhhhhhhcccCeeeeeeeeechhHHHHHhhhhhhhhhhhhhhhhccc-------------chh
Confidence 999999998766666443 3333222 2347799999999999999999999999999999721 345
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 008419 434 HLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYECIENDLL 496 (566)
Q Consensus 434 ~lfe~~Q~~le~~~E~L~~~le~~~~~~~~~~i~~~k~~~~~l~~~~~~~~~~~~~~~~~~l~ 496 (566)
++||++|.+|+..+|.|+..++.++...+..++..+|+++.+++.++++++.++...++++|.
T Consensus 374 ~~fe~~q~~~~~~~e~ls~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 436 (444)
T KOG1815|consen 374 NLFEDNQTDLESAVEPLSSCLEESLKDISSETLAEFKQKLTDLTSYVRNRFENLLKHLEEGLE 436 (444)
T ss_pred hhhHHHHHHHhhhhhhhHHHhccccccCCcccHHHHHhhccccchhhhhHHHHHHHHHHhccc
Confidence 899999999999999999999998887777889999999999999999999999988887775
No 2
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.2e-33 Score=286.72 Aligned_cols=204 Identities=27% Similarity=0.671 Sum_probs=174.2
Q ss_pred ccccccccccccccC-CCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHHhhcCCChhHHHHH
Q 008419 114 SSTVMCDICMEEVAG-DKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKF 192 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~ll~~~~~e~~~ky 192 (566)
...+.|.|||+.... ..+..++|+|.||+.|++.|++..|++|.+..++||.++|+...++..++.+|. .++++||
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g~vKelvg---~EL~arY 258 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPGQVKELVG---DELFARY 258 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCchHHHHHHH---HHHHHHH
Confidence 356899999999766 567778999999999999999999999999999999999999999999999999 9999999
Q ss_pred HHHHHHhhhhcCcccccCCCCCCCCceEEecCCcceeeEec-CCCeeeccccCCCCCCCCchhh--------HHHHH---
Q 008419 193 ERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECA-CGAQFCFSCLSEAHSPCSCSMW--------DLWAK--- 260 (566)
Q Consensus 193 ~~~l~~~~v~~~~~~~~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~~fC~~C~~~~H~p~~C~~~--------~~w~~--- 260 (566)
++.++++.++...++++|| .+.|+.... .+.....+.|. |..+||+.|+..||...+|... ..|..
T Consensus 259 e~l~lqk~l~~msdv~yCP-r~~Cq~p~~-~d~~~~l~~CskCnFaFCtlCk~t~HG~s~Ck~~~~~~~~l~~~~~~~d~ 336 (445)
T KOG1814|consen 259 EKLMLQKTLELMSDVVYCP-RACCQLPVK-QDPGRALAICSKCNFAFCTLCKLTWHGVSPCKVKAEKLIELYLEYLEADE 336 (445)
T ss_pred HHHHHHHHHHhhcccccCC-hhhccCccc-cCchhhhhhhccCccHHHHHHHHhhcCCCcccCchHHHHHHHHHHhhcCH
Confidence 9999999999999999999 589999884 44444568997 9999999999999999999643 12221
Q ss_pred ----------------hhhhhHHHHHHHHcCCcCCCCCCcceeecCCCCeeEe-ccCccccccccccccCCCCccccCC
Q 008419 261 ----------------KCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVSC-ICGQAFCWLCGGATGRDHTWSRIAG 322 (566)
Q Consensus 261 ----------------~~~~e~e~~~~i~~~tK~CPkC~~~IEKn~GCNhm~C-~C~~~FCw~C~~~~~~~H~~~~~~g 322 (566)
...++-.+.+|+..|.|+||+|+++|||++|||||+| .|++.|||+|+....+...|.+..+
T Consensus 337 a~k~ele~Ryg~rvve~~vn~~lsekwl~~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~~~nPYkHF~e 415 (445)
T KOG1814|consen 337 ARKRELEKRYGKRVVEELVNDFLSEKWLESNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLYPENPYKHFSE 415 (445)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcCCCCCcccceeecCCCccceeeccccccceeehhhhcCCCChhhhhcC
Confidence 1112334668999999999999999999999999999 6999999999998776655655544
No 3
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.8e-34 Score=299.00 Aligned_cols=269 Identities=28% Similarity=0.565 Sum_probs=202.3
Q ss_pred HHHHHHHHcCCChHHHHHHHHhcChhhhhhhcCCcccCC-C----------CC---CCCCcccccccccccccc-CCCce
Q 008419 68 HARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDD-A----------DP---MLPLSSTVMCDICMEEVA-GDKAT 132 (566)
Q Consensus 68 ~a~~LL~~~~W~~~~l~~~~~~~~~~~~~~~~gl~~~~~-~----------~~---~~~~~~~~~C~IC~e~~~-~~~~~ 132 (566)
.+......+.|+...|.+.+.. .+..+.....+.++.. + .. ........+|.||+.+.+ ...++
T Consensus 85 v~~~~~~~~~~~~~~l~~~v~~-~r~~l~~~~~i~~~~~~d~~~~~~lA~e~i~s~~~~~~~~~~C~iC~~e~~~~~~~f 163 (384)
T KOG1812|consen 85 VAGREKPEQHRKIVLLVELVQR-IREQLTSSEPILVPKNADIKFAYKLAREAIVSQLPSKLPKEECGICFVEDPEAEDMF 163 (384)
T ss_pred HhhhhhHHHHHHHHHHHHHHHH-HHHHhhcccceecccchhhHHHHHHHHHhhccccccccccccCccCccccccHhhhH
Confidence 4555555666777777776642 2333333333322211 0 00 011123678999994443 33444
Q ss_pred e-cCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHHhhcCCChhHHHHHHHHHHHhhhhcCcccccCC
Q 008419 133 K-MDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCP 211 (566)
Q Consensus 133 ~-l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~ll~~~~~e~~~ky~~~l~~~~v~~~~~~~~CP 211 (566)
. ..|+|.||.+||++|+..+...| ..++||..+|+..++.+....+|+ +.+.++|.+++.+.++.....+ +||
T Consensus 164 ~~~~C~H~fC~~C~k~~iev~~~~~--~~~~C~~~~C~~~l~~~~c~~llt---~kl~e~~e~~~~e~~i~~~~~~-ycp 237 (384)
T KOG1812|consen 164 SVLKCGHRFCKDCVKQHIEVKLLSG--TVIRCPHDGCESRLTLESCRKLLT---PKLREMWEQRLKEEVIPSLDRV-YCP 237 (384)
T ss_pred HHhcccchhhhHHhHHHhhhhhccC--CCccCCCCCCCccCCHHHHhhhcC---HHHHHHHHHHHHHHhhhhhhcc-cCC
Confidence 4 58999999999999999985444 579999999999999999999999 8899999999999999988888 999
Q ss_pred CCCCCCceEEecC----CcceeeEec-CCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCcce
Q 008419 212 STPHCGNAIRVEE----VEVCEVECA-CGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPV 286 (566)
Q Consensus 212 ~~p~C~~~i~~~~----~~~~~v~C~-Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~I 286 (566)
.|+|...+.... .......|. |+..||..|+.+||++.+|..+++|......+..+.+++..+|+.||+|+..|
T Consensus 238 -~~~C~~l~~~~el~~~~~~~~~~C~~C~~~fCv~C~~~wh~~~sC~eykk~~~~~~~d~~~~~~la~~wr~CpkC~~~i 316 (384)
T KOG1812|consen 238 -YPRCSSLMSKTELSSEVKSKRRPCVKCHELFCVKCKVPWHANLSCEEYKKLNPEEYVDDITLKYLAKRWRQCPKCKFMI 316 (384)
T ss_pred -CCCchHhhhhhhhccchhhcccccccCCCceeecCCCcCCCCCCHHHHHHhCCcccccHHHHHHHHHhcCcCcccceee
Confidence 699988776433 222335676 99999999999999999999999999877778888999999999999999999
Q ss_pred eecCCCCeeEeccCccccccccccccCCCCccccCCccCCCCcchhHHHHHHHHHHHhhHHHHHHHHHhhhhhHHHH
Q 008419 287 EKNGGCNLVSCICGQAFCWLCGGATGRDHTWSRIAGHSCGRYKEDKAKKTERAKRELYRYMHYHNRYKAHTDSFKLE 363 (566)
Q Consensus 287 EKn~GCNhm~C~C~~~FCw~C~~~~~~~H~~~~~~g~~C~~y~~~~~~~~~~~k~~l~ry~~y~~r~~~h~~s~k~e 363 (566)
++++|||||+|+||++|||.|+++|.... +.-+.|.++++. .+++.++.+|.....++
T Consensus 317 e~~~GCnhm~CrC~~~fcy~C~~~~~~~~----~~~~~~~r~~~~---------------~~~~~~~~~~~~~~~~~ 374 (384)
T KOG1812|consen 317 ELSEGCNHMTCRCGHQFCYMCGGDWKTHN----GECYECCRYKES---------------THYFEDDENHDKSIQLE 374 (384)
T ss_pred eecCCcceEEeeccccchhhcCcchhhCC----ccccCccccccc---------------ccccccccccccccccc
Confidence 99999999999999999999999964211 112456666543 67777777766665443
No 4
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=99.90 E-value=4.8e-24 Score=209.23 Aligned_cols=196 Identities=29% Similarity=0.631 Sum_probs=147.4
Q ss_pred CccccccccccccccCCCceecCCC--CccchhhHHHHHHhhhccCCc-------ceeecCcccccccchhH-HHHHhhc
Q 008419 113 LSSTVMCDICMEEVAGDKATKMDCG--HCFCNDCWTEHFIVKINEGQS-------KRIRCMAHKCNAICDEA-VVRNLVS 182 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~~~~~l~Cg--H~fC~~C~~~yl~~~i~~g~~-------~~i~CP~~~C~~~~~~~-~i~~ll~ 182 (566)
++...+|..|.+.-. .+..++|. |..|.+|++.|..+.+++.+. ..+.||. +|...+-.+ .--++|.
T Consensus 218 N~~ni~C~~Ctdv~~--~vlvf~Cns~HvtC~dCFr~yc~~Rl~~rqf~~~p~~gyslpc~a-gc~~s~i~e~HHF~ilg 294 (446)
T KOG0006|consen 218 NSRNITCITCTDVRS--PVLVFQCNSRHVTCLDCFRLYCVTRLNDRQFVHDPQLGYSLPCVA-GCPNSLIKELHHFRILG 294 (446)
T ss_pred ccccceeEEecCCcc--ceEEEecCCceeehHHhhhhHhhhcccccccccCccccccccccC-CCchHHHHhhhhheecc
Confidence 457789999988743 55567898 999999999999999987763 2356664 466543222 2234677
Q ss_pred CCChhHHHHHHHHHHHhhhhcCcccccCCCCCCCCceEEecCCcceeeEec--CCCeeeccccCCCCCCC----------
Q 008419 183 KKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECA--CGAQFCFSCLSEAHSPC---------- 250 (566)
Q Consensus 183 ~~~~e~~~ky~~~l~~~~v~~~~~~~~CP~~p~C~~~i~~~~~~~~~v~C~--Cg~~fC~~C~~~~H~p~---------- 250 (566)
.+.+.+|+++..+.+|.....+ -|| .|+||..+.++++. ..++|+ ||..||..|+..+|.+-
T Consensus 295 ---~e~Y~rYQr~atEe~vlq~gGV-lCP-~pgCG~gll~EPD~-rkvtC~~gCgf~FCR~C~e~yh~geC~~~~~as~t 368 (446)
T KOG0006|consen 295 ---EEQYNRYQRYATEECVLQMGGV-LCP-RPGCGAGLLPEPDQ-RKVTCEGGCGFAFCRECKEAYHEGECSAVFEASGT 368 (446)
T ss_pred ---hhHHHHHHHhhhhhheeecCCE-ecC-CCCCCcccccCCCC-CcccCCCCchhHhHHHHHhhhccccceeeeccccc
Confidence 8999999999999999888765 799 69999998877743 358995 99999999999999852
Q ss_pred -Cchhh--HHHHHhhhhhHHHHHHHHcCCcCCCCCCcceeecCCCCeeEe-c--cCccccccccccccCCCCc
Q 008419 251 -SCSMW--DLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNLVSC-I--CGQAFCWLCGGATGRDHTW 317 (566)
Q Consensus 251 -~C~~~--~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IEKn~GCNhm~C-~--C~~~FCw~C~~~~~~~H~~ 317 (566)
+|... ..-.....-+..+..-|+..||+||+|+.|.||||||+||.| + ||.+|||.|+-.|.++-.|
T Consensus 369 ~tc~y~vde~~a~~arwd~as~~TIk~tTkpCPkChvptErnGGCmHm~Ct~~~Cg~eWCw~C~tEW~r~Cmg 441 (446)
T KOG0006|consen 369 TTCAYRVDERAAEQARWDAASKETIKKTTKPCPKCHVPTERNGGCMHMKCTQPQCGLEWCWNCGTEWNRVCMG 441 (446)
T ss_pred cceeeecChhhhhhhhhhhhhhhhhhhccCCCCCccCccccCCceEEeecCCCCCCceeEeccCChhhhhhcc
Confidence 23210 000001112333445578899999999999999999999999 4 9999999999999875443
No 5
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=99.17 E-value=3.7e-11 Score=94.80 Aligned_cols=62 Identities=53% Similarity=1.095 Sum_probs=55.0
Q ss_pred HHHHHHHHHhhhhcCcccccCCCCCCCCceEEec-CCcceeeEec-CCCeeeccccCCCCCCCCc
Q 008419 190 EKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVE-EVEVCEVECA-CGAQFCFSCLSEAHSPCSC 252 (566)
Q Consensus 190 ~ky~~~l~~~~v~~~~~~~~CP~~p~C~~~i~~~-~~~~~~v~C~-Cg~~fC~~C~~~~H~p~~C 252 (566)
++|++++++++|+.++.++||| +|+|+.++... +.....+.|+ |+..||+.|+.+||.|.+|
T Consensus 1 ~~y~~~~~~~~i~~~~~~~~CP-~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H~~~~C 64 (64)
T smart00647 1 EKYERLLLESYVESNPDLKWCP-APDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWHSPVSC 64 (64)
T ss_pred ChHHHHHHHHHHhcCCCccCCC-CCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCCCCCCC
Confidence 4789999999999988999999 69999999976 3455679995 9999999999999999987
No 6
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=99.06 E-value=4.3e-11 Score=94.39 Aligned_cols=62 Identities=35% Similarity=0.960 Sum_probs=42.5
Q ss_pred HHHHHHHHHhhhhcCcccccCCCCCCCCceEEecCCcce-eeEec-CCCeeeccccCCCCCCCCc
Q 008419 190 EKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVC-EVECA-CGAQFCFSCLSEAHSPCSC 252 (566)
Q Consensus 190 ~ky~~~l~~~~v~~~~~~~~CP~~p~C~~~i~~~~~~~~-~v~C~-Cg~~fC~~C~~~~H~p~~C 252 (566)
++|++++++.+++.++.++||| .|+|+.++...+.... .+.|+ |+..||+.|+.+||.|.+|
T Consensus 1 eky~~~~~~~~~~~~~~~~~Cp-~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~~~~C 64 (64)
T PF01485_consen 1 EKYQKFLLKRYLESDPNIRWCP-NPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHEGVTC 64 (64)
T ss_dssp HCHHHCCCHS---S---CC--T-TSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCTTS-H
T ss_pred ChHHHHHHHHHHHCCCCccCCC-CCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCCCCCC
Confidence 5789999999999888999999 6999999997765444 38998 9999999999999999987
No 7
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.66 E-value=1.2e-08 Score=73.64 Aligned_cols=41 Identities=24% Similarity=0.741 Sum_probs=30.8
Q ss_pred cccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCc
Q 008419 119 CDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMA 165 (566)
Q Consensus 119 C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~ 165 (566)
|+||++.+. +|++++|||+||..|+..++...-.. .+.||.
T Consensus 1 CpiC~~~~~--~Pv~l~CGH~FC~~Cl~~~~~~~~~~----~~~CP~ 41 (42)
T PF15227_consen 1 CPICLDLFK--DPVSLPCGHSFCRSCLERLWKEPSGS----GFSCPE 41 (42)
T ss_dssp ETTTTSB-S--SEEE-SSSSEEEHHHHHHHHCCSSSS----T---SS
T ss_pred CCccchhhC--CccccCCcCHHHHHHHHHHHHccCCc----CCCCcC
Confidence 899999988 99999999999999999999864322 278987
No 8
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=98.25 E-value=5.2e-07 Score=64.00 Aligned_cols=37 Identities=30% Similarity=0.872 Sum_probs=29.7
Q ss_pred cccccccccCCCc-eecCCCCccchhhHHHHHHhhhccCCcceeecCc
Q 008419 119 CDICMEEVAGDKA-TKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMA 165 (566)
Q Consensus 119 C~IC~e~~~~~~~-~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~ 165 (566)
|+||++.+. ++ +.++|||.||.+||.+|+... .+||.
T Consensus 1 C~iC~~~~~--~~~~~~~CGH~fC~~C~~~~~~~~--------~~CP~ 38 (39)
T PF13923_consen 1 CPICLDELR--DPVVVTPCGHSFCKECIEKYLEKN--------PKCPV 38 (39)
T ss_dssp ETTTTSB-S--SEEEECTTSEEEEHHHHHHHHHCT--------SB-TT
T ss_pred CCCCCCccc--CcCEECCCCCchhHHHHHHHHHCc--------CCCcC
Confidence 899999876 56 578999999999999998862 57886
No 9
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.25 E-value=6.3e-07 Score=64.16 Aligned_cols=39 Identities=33% Similarity=0.933 Sum_probs=32.7
Q ss_pred cccccccccCCCce-ecCCCCccchhhHHHHHHhhhccCCcceeecCc
Q 008419 119 CDICMEEVAGDKAT-KMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMA 165 (566)
Q Consensus 119 C~IC~e~~~~~~~~-~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~ 165 (566)
|+||++.+. .+. .++|||.||..||.+++.. .+ .+.||.
T Consensus 1 C~iC~~~~~--~~~~~~~C~H~fC~~C~~~~~~~---~~---~~~CP~ 40 (41)
T PF00097_consen 1 CPICLEPFE--DPVILLPCGHSFCRDCLRKWLEN---SG---SVKCPL 40 (41)
T ss_dssp ETTTSSBCS--SEEEETTTSEEEEHHHHHHHHHH---TS---SSBTTT
T ss_pred CCcCCcccc--CCCEEecCCCcchHHHHHHHHHh---cC---CccCCc
Confidence 899999876 555 7899999999999999997 22 378986
No 10
>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=98.19 E-value=8e-07 Score=64.75 Aligned_cols=40 Identities=38% Similarity=0.836 Sum_probs=33.1
Q ss_pred cccccccccc-CCCceecCCCCccchhhHHHHHHhhhccCCcceeecCc
Q 008419 118 MCDICMEEVA-GDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMA 165 (566)
Q Consensus 118 ~C~IC~e~~~-~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~ 165 (566)
+|+||++.+. ...++.++|||.||.+|+..|+... .+||.
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~--------~~CP~ 42 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN--------NSCPV 42 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS--------SB-TT
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC--------CcCCc
Confidence 6999999985 4567788999999999999999762 28987
No 11
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.09 E-value=1.8e-06 Score=62.51 Aligned_cols=41 Identities=32% Similarity=0.783 Sum_probs=23.1
Q ss_pred cccccccccC--CCceecCCCCccchhhHHHHHHhhhccCCcceeecC
Q 008419 119 CDICMEEVAG--DKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCM 164 (566)
Q Consensus 119 C~IC~e~~~~--~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP 164 (566)
|+||.+ +.. ..++.|+|||.||++|+.+.+.... ...++||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~----~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSD----RNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-----S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCC----CCeeeCc
Confidence 899999 642 2367889999999999999998633 1348887
No 12
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.07 E-value=2.5e-06 Score=81.18 Aligned_cols=66 Identities=23% Similarity=0.512 Sum_probs=48.1
Q ss_pred CccccccccccccccCCCceecCCCCccchhhHHHHHHhhhcc--------CCcceeecCcccccccchhHHHHHhhc
Q 008419 113 LSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINE--------GQSKRIRCMAHKCNAICDEAVVRNLVS 182 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~--------g~~~~i~CP~~~C~~~~~~~~i~~ll~ 182 (566)
..+.++|+||++.+. +++.++|||.||..|+..|+...-.. ......+||. |+..+....+..+..
T Consensus 15 ~~~~~~CpICld~~~--dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPv--CR~~Is~~~LvPiyg 88 (193)
T PLN03208 15 SGGDFDCNICLDQVR--DPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPV--CKSDVSEATLVPIYG 88 (193)
T ss_pred CCCccCCccCCCcCC--CcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCC--CCCcCChhcEEEeec
Confidence 345789999999865 88889999999999999997642110 0113579999 999887655544443
No 13
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=98.03 E-value=6.6e-06 Score=64.58 Aligned_cols=38 Identities=37% Similarity=0.872 Sum_probs=34.4
Q ss_pred CCcCCC--CCCcceeecC--CCCeeEe-ccCcccccccccccc
Q 008419 275 HTKPCP--KCHKPVEKNG--GCNLVSC-ICGQAFCWLCGGATG 312 (566)
Q Consensus 275 ~tK~CP--kC~~~IEKn~--GCNhm~C-~C~~~FCw~C~~~~~ 312 (566)
+.+.|| +|+..|+... |.++|+| .|++.|||.|+.+||
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcCC
Confidence 568899 9999999964 9999999 799999999999975
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=3.3e-06 Score=78.32 Aligned_cols=53 Identities=25% Similarity=0.653 Sum_probs=42.4
Q ss_pred CccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhH
Q 008419 113 LSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEA 175 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~ 175 (566)
....+.|+||++.+....+++..|||.||..|++.-+.. + .+||. |...++..
T Consensus 128 ~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~----~----~~CP~--C~kkIt~k 180 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN----T----NKCPT--CRKKITHK 180 (187)
T ss_pred cccccCCCceecchhhccccccccchhHHHHHHHHHHHh----C----CCCCC--cccccchh
Confidence 345689999999998777788999999999999987765 2 48999 66555443
No 15
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=97.94 E-value=3.7e-06 Score=66.00 Aligned_cols=39 Identities=41% Similarity=1.045 Sum_probs=29.0
Q ss_pred CCcCCCC--CCcceeecCCCCe--eEec-cCccccccccccccC
Q 008419 275 HTKPCPK--CHKPVEKNGGCNL--VSCI-CGQAFCWLCGGATGR 313 (566)
Q Consensus 275 ~tK~CPk--C~~~IEKn~GCNh--m~C~-C~~~FCw~C~~~~~~ 313 (566)
+.+.||+ |...|++..|.++ |+|. |++.|||.|+++||.
T Consensus 17 ~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~H~ 60 (64)
T PF01485_consen 17 NIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPWHE 60 (64)
T ss_dssp -CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSESCT
T ss_pred CccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCcccCC
Confidence 4579988 9999999999999 9996 999999999999753
No 16
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=97.90 E-value=7.6e-05 Score=77.63 Aligned_cols=75 Identities=19% Similarity=0.428 Sum_probs=46.4
Q ss_pred eeeEec-CCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCcceeecCCCCe-eEe-ccCcccc
Q 008419 228 CEVECA-CGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCNL-VSC-ICGQAFC 304 (566)
Q Consensus 228 ~~v~C~-Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IEKn~GCNh-m~C-~C~~~FC 304 (566)
..|.|. |...||.-|...-|.|-.-...+.++...... -+...-....-.|..+ +.| || |+| .|+.-.|
T Consensus 175 a~v~ceqcdv~yc~pc~~~~hp~rgplakh~l~~~~~gr-vs~~~s~r~~~~ct~h--~~e-----~~smyc~~ck~pvc 246 (699)
T KOG4367|consen 175 ATVMCEQCDVFYCDPCRLRCHPPRGPLAKHRLVPPAQGR-VSRRLSPRKVSTCTDH--ELE-----NHSMYCVQCKMPVC 246 (699)
T ss_pred hhhhHhhCceEEechHHhccCCCCCchhhcccCCcccCc-eeeccchhhhhhccCC--CCC-----CceEEEEecCChHH
Confidence 458996 99999999998889876544444444332221 0000001112344433 222 44 999 6999999
Q ss_pred cccccc
Q 008419 305 WLCGGA 310 (566)
Q Consensus 305 w~C~~~ 310 (566)
+.|+..
T Consensus 247 ~~clee 252 (699)
T KOG4367|consen 247 YQCLEE 252 (699)
T ss_pred HHHHHh
Confidence 999987
No 17
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=97.85 E-value=1.1e-05 Score=60.39 Aligned_cols=46 Identities=26% Similarity=0.709 Sum_probs=36.6
Q ss_pred ccccccccccccCCCceecCCCCc-cchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 116 TVMCDICMEEVAGDKATKMDCGHC-FCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~~~l~CgH~-fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
...|.||++... ++..++|||. ||..|+..++.. ..+||. |+..+.
T Consensus 2 ~~~C~iC~~~~~--~~~~~pCgH~~~C~~C~~~~~~~--------~~~CP~--Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPR--DVVLLPCGHLCFCEECAERLLKR--------KKKCPI--CRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBS--SEEEETTCEEEEEHHHHHHHHHT--------TSBBTT--TTBB-S
T ss_pred cCCCccCCccCC--ceEEeCCCChHHHHHHhHHhccc--------CCCCCc--CChhhc
Confidence 468999999855 7788899999 999999999982 258999 887653
No 18
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=97.81 E-value=1.5e-05 Score=57.21 Aligned_cols=43 Identities=33% Similarity=0.859 Sum_probs=33.3
Q ss_pred ccccccccccCCCceec-CCCCccchhhHHHHHHhhhccCCcceeecCccccccc
Q 008419 118 MCDICMEEVAGDKATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI 171 (566)
Q Consensus 118 ~C~IC~e~~~~~~~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~ 171 (566)
+|+||++.+. .++.+ +|||.||..|+..|+.. +. .+||. |+..
T Consensus 1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~----~~---~~Cp~--C~~~ 44 (45)
T cd00162 1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKS----GK---NTCPL--CRTP 44 (45)
T ss_pred CCCcCchhhh--CceEecCCCChhcHHHHHHHHHh----Cc---CCCCC--CCCc
Confidence 5999999873 44444 69999999999999875 22 67988 7653
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.79 E-value=1.4e-05 Score=58.22 Aligned_cols=42 Identities=31% Similarity=0.886 Sum_probs=33.6
Q ss_pred cccccccccc-CCCceecCCCCccchhhHHHHHHhhhccCCcceeecCccccc
Q 008419 118 MCDICMEEVA-GDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCN 169 (566)
Q Consensus 118 ~C~IC~e~~~-~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~ 169 (566)
.|+||++.+. ...+..++|||.||..|+.... . ..+.||. |+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-----~---~~~~CP~--C~ 43 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-----G---KSVKCPI--CR 43 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-----C---CCCCCcC--CC
Confidence 4999999983 3356777999999999999987 2 2489998 75
No 20
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=97.65 E-value=3.7e-05 Score=60.22 Aligned_cols=47 Identities=9% Similarity=0.151 Sum_probs=39.0
Q ss_pred cccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhH
Q 008419 117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEA 175 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~ 175 (566)
+.|+||.+.+. +++.++|||.||+.|+..|+.. + ..||. |+..++..
T Consensus 2 ~~Cpi~~~~~~--~Pv~~~~G~v~~~~~i~~~~~~----~----~~cP~--~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMK--DPVILPSGQTYERRAIEKWLLS----H----GTDPV--TGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCC--CCEECCCCCEEeHHHHHHHHHH----C----CCCCC--CcCCCChh
Confidence 67999999876 7899999999999999999975 1 47998 77766543
No 21
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=1.9e-05 Score=84.37 Aligned_cols=60 Identities=22% Similarity=0.546 Sum_probs=47.8
Q ss_pred ccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHHhhc
Q 008419 116 TVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVS 182 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~ll~ 182 (566)
...||||++..+ -+..+.|||.||-.|+-+||......+ +..||. |...+....+..+..
T Consensus 186 ~~~CPICL~~~~--~p~~t~CGHiFC~~CiLqy~~~s~~~~---~~~CPi--C~s~I~~kdl~pv~~ 245 (513)
T KOG2164|consen 186 DMQCPICLEPPS--VPVRTNCGHIFCGPCILQYWNYSAIKG---PCSCPI--CRSTITLKDLLPVFI 245 (513)
T ss_pred CCcCCcccCCCC--cccccccCceeeHHHHHHHHhhhcccC---CccCCc--hhhhccccceeeeee
Confidence 678999999855 556678999999999999999873333 489999 999888766655544
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=97.63 E-value=3.4e-05 Score=53.33 Aligned_cols=38 Identities=34% Similarity=0.923 Sum_probs=30.8
Q ss_pred cccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCc
Q 008419 119 CDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMA 165 (566)
Q Consensus 119 C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~ 165 (566)
|+||++.. ..+..++|||.||..|+..|+. .+. ..||.
T Consensus 1 C~iC~~~~--~~~~~~~C~H~~c~~C~~~~~~----~~~---~~CP~ 38 (39)
T smart00184 1 CPICLEEL--KDPVVLPCGHTFCRSCIRKWLK----SGN---NTCPI 38 (39)
T ss_pred CCcCccCC--CCcEEecCCChHHHHHHHHHHH----hCc---CCCCC
Confidence 78999883 3778889999999999999988 222 57876
No 23
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=3.1e-05 Score=75.14 Aligned_cols=56 Identities=25% Similarity=0.530 Sum_probs=45.4
Q ss_pred CccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHH
Q 008419 113 LSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVV 177 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i 177 (566)
....|+|.||+|... +++...|||.||-.|+-+|+....+. -.||. |+..+..+.|
T Consensus 44 ~~~~FdCNICLd~ak--dPVvTlCGHLFCWpClyqWl~~~~~~-----~~cPV--CK~~Vs~~~v 99 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAK--DPVVTLCGHLFCWPCLYQWLQTRPNS-----KECPV--CKAEVSIDTV 99 (230)
T ss_pred CCCceeeeeeccccC--CCEEeecccceehHHHHHHHhhcCCC-----eeCCc--cccccccceE
Confidence 356799999999855 89999999999999999999985532 46898 8887766544
No 24
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=3.7e-05 Score=78.27 Aligned_cols=44 Identities=32% Similarity=0.887 Sum_probs=38.1
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
..+.|+||++.+. .+..++|||.||..|+...+. + .+.||. |..
T Consensus 12 ~~~~C~iC~~~~~--~p~~l~C~H~~c~~C~~~~~~-----~---~~~Cp~--cr~ 55 (386)
T KOG2177|consen 12 EELTCPICLEYFR--EPVLLPCGHNFCRACLTRSWE-----G---PLSCPV--CRP 55 (386)
T ss_pred ccccChhhHHHhh--cCccccccchHhHHHHHHhcC-----C---CcCCcc--cCC
Confidence 5689999999987 667789999999999999998 2 389999 873
No 25
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.51 E-value=3.9e-05 Score=76.56 Aligned_cols=51 Identities=29% Similarity=0.665 Sum_probs=42.4
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHH
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVV 177 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i 177 (566)
....|.+|++... ++..++|||.||..|+.+|...+- .||. |+..+.+..+
T Consensus 238 a~~kC~LCLe~~~--~pSaTpCGHiFCWsCI~~w~~ek~--------eCPl--CR~~~~pskv 288 (293)
T KOG0317|consen 238 ATRKCSLCLENRS--NPSATPCGHIFCWSCILEWCSEKA--------ECPL--CREKFQPSKV 288 (293)
T ss_pred CCCceEEEecCCC--CCCcCcCcchHHHHHHHHHHcccc--------CCCc--ccccCCCcce
Confidence 4588999999854 888999999999999999998732 4999 9988776543
No 26
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.48 E-value=7.2e-05 Score=79.42 Aligned_cols=66 Identities=24% Similarity=0.550 Sum_probs=48.3
Q ss_pred ccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHH-HHhhcCCChhHHHHH
Q 008419 114 SSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVV-RNLVSKKHPNLAEKF 192 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i-~~ll~~~~~e~~~ky 192 (566)
...+.|+||.+.+. .++.++|||.||..|+..|+.. . ..||. |+..+....+ .+.+. .++++.|
T Consensus 24 e~~l~C~IC~d~~~--~PvitpCgH~FCs~CI~~~l~~-----~---~~CP~--Cr~~~~~~~Lr~N~~L---~~iVe~~ 88 (397)
T TIGR00599 24 DTSLRCHICKDFFD--VPVLTSCSHTFCSLCIRRCLSN-----Q---PKCPL--CRAEDQESKLRSNWLV---SEIVESF 88 (397)
T ss_pred ccccCCCcCchhhh--CccCCCCCCchhHHHHHHHHhC-----C---CCCCC--CCCccccccCccchHH---HHHHHHH
Confidence 45689999999876 7788899999999999999864 1 37998 8887654322 22332 4566666
Q ss_pred HH
Q 008419 193 ER 194 (566)
Q Consensus 193 ~~ 194 (566)
..
T Consensus 89 ~~ 90 (397)
T TIGR00599 89 KN 90 (397)
T ss_pred HH
Confidence 53
No 27
>PHA02926 zinc finger-like protein; Provisional
Probab=97.43 E-value=7.8e-05 Score=71.89 Aligned_cols=56 Identities=27% Similarity=0.538 Sum_probs=39.7
Q ss_pred Ccccccccccccccc-----CCC--ceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 113 LSSTVMCDICMEEVA-----GDK--ATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~-----~~~--~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
.+...+|+||++.+- ... ....+|+|.||..|+..|-..+...| ..-.||. |+..+
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~--~~rsCPi--CR~~f 229 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETG--ASDNCPI--CRTRF 229 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccC--cCCcCCC--Cccee
Confidence 356789999999852 111 12349999999999999998753322 2357999 88754
No 28
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.36 E-value=0.00012 Score=72.76 Aligned_cols=50 Identities=28% Similarity=0.561 Sum_probs=37.2
Q ss_pred ccccccccccccccCCC------ceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 114 SSTVMCDICMEEVAGDK------ATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~~------~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
+...+|+||++.+.... .+..+|+|.||.+|+..|+.. . ..||. |+..+.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-----~---~tCPl--CR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-----K---NTCPV--CRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-----C---CCCCC--CCCEee
Confidence 34679999999865322 234589999999999998753 1 48999 887553
No 29
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.29 E-value=0.00015 Score=73.50 Aligned_cols=64 Identities=23% Similarity=0.545 Sum_probs=50.8
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHH-hhcCCChhHHHHHH
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRN-LVSKKHPNLAEKFE 193 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~-ll~~~~~e~~~ky~ 193 (566)
...-|.||++-|. -+...+|+|.||.-|++.|+..+ ..||. |...+.+..+++ .+. .++++.|.
T Consensus 22 ~lLRC~IC~eyf~--ip~itpCsHtfCSlCIR~~L~~~--------p~CP~--C~~~~~Es~Lr~n~il---~Eiv~S~~ 86 (442)
T KOG0287|consen 22 DLLRCGICFEYFN--IPMITPCSHTFCSLCIRKFLSYK--------PQCPT--CCVTVTESDLRNNRIL---DEIVKSLN 86 (442)
T ss_pred HHHHHhHHHHHhc--CceeccccchHHHHHHHHHhccC--------CCCCc--eecccchhhhhhhhHH---HHHHHHHH
Confidence 4578999999987 67778999999999999999852 57998 999888877743 333 46777665
No 30
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=96.79 E-value=0.00073 Score=54.84 Aligned_cols=50 Identities=12% Similarity=0.104 Sum_probs=37.7
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhH
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEA 175 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~ 175 (566)
+.+.|+|+.+.+. +++.+++||+|++.||..|+.. + ...||. |+..+...
T Consensus 3 ~~f~CpIt~~lM~--dPVi~~~G~tyer~~I~~~l~~----~---~~~~P~--t~~~l~~~ 52 (73)
T PF04564_consen 3 DEFLCPITGELMR--DPVILPSGHTYERSAIERWLEQ----N---GGTDPF--TRQPLSES 52 (73)
T ss_dssp GGGB-TTTSSB-S--SEEEETTSEEEEHHHHHHHHCT----T---SSB-TT--T-SB-SGG
T ss_pred cccCCcCcCcHhh--CceeCCcCCEEcHHHHHHHHHc----C---CCCCCC--CCCcCCcc
Confidence 5699999999977 9999999999999999999987 2 258888 66666543
No 31
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.65 E-value=0.0014 Score=50.48 Aligned_cols=47 Identities=23% Similarity=0.508 Sum_probs=31.2
Q ss_pred cccccccccccccCCCcee-cCCCCccchhhHHHHHHhhhccCCcceeecCccccc
Q 008419 115 STVMCDICMEEVAGDKATK-MDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCN 169 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~-l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~ 169 (566)
..+.|||....+. +|+. ..|||.|.++.+.+|+.. . ..++||..||.
T Consensus 10 ~~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~---~---~~~~CPv~GC~ 57 (57)
T PF11789_consen 10 ISLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQR---N---GSKRCPVAGCN 57 (57)
T ss_dssp --SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTT---T---S-EE-SCCC-S
T ss_pred eccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHh---c---CCCCCCCCCCC
Confidence 4588999999876 7765 599999999999999921 2 35899999995
No 32
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.00044 Score=77.52 Aligned_cols=55 Identities=25% Similarity=0.670 Sum_probs=44.7
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHHh
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNL 180 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~l 180 (566)
...+|++|.+-. .+.+...|||.||..|++..+.+.- =+||. |+..|...+|..+
T Consensus 642 ~~LkCs~Cn~R~--Kd~vI~kC~H~FC~~Cvq~r~etRq-------RKCP~--Cn~aFganDv~~I 696 (698)
T KOG0978|consen 642 ELLKCSVCNTRW--KDAVITKCGHVFCEECVQTRYETRQ-------RKCPK--CNAAFGANDVHRI 696 (698)
T ss_pred hceeCCCccCch--hhHHHHhcchHHHHHHHHHHHHHhc-------CCCCC--CCCCCCccccccc
Confidence 568999999553 3778889999999999999998743 48998 9998888776543
No 33
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.61 E-value=0.001 Score=70.98 Aligned_cols=56 Identities=20% Similarity=0.459 Sum_probs=44.8
Q ss_pred CccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhH
Q 008419 113 LSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEA 175 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~ 175 (566)
+.....|.+|-++-. +++...|.|.||+-|+++|+.....+.. +.||. |...+..+
T Consensus 533 nk~~~~C~lc~d~ae--d~i~s~ChH~FCrlCi~eyv~~f~~~~n---vtCP~--C~i~LsiD 588 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAE--DYIESSCHHKFCRLCIKEYVESFMENNN---VTCPV--CHIGLSID 588 (791)
T ss_pred ccCceeecccCChhh--hhHhhhhhHHHHHHHHHHHHHhhhcccC---CCCcc--cccccccc
Confidence 346789999998744 7888899999999999999998765443 89999 88765443
No 34
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.54 E-value=0.0014 Score=67.18 Aligned_cols=53 Identities=23% Similarity=0.483 Sum_probs=37.2
Q ss_pred ccccccccccc-CCCce--ecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHH
Q 008419 117 VMCDICMEEVA-GDKAT--KMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVR 178 (566)
Q Consensus 117 ~~C~IC~e~~~-~~~~~--~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~ 178 (566)
..||||..+.. ...+. ..+|||.||.+|+...|.. |. ..||. |+.++....++
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~----~~---~~CP~--C~~~lrk~~fr 59 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR----GS---GSCPE--CDTPLRKNNFR 59 (309)
T ss_pred CCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC----CC---CCCCC--CCCccchhhcc
Confidence 57999998632 22221 1279999999999999843 33 58997 98877665443
No 35
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.45 E-value=0.00072 Score=52.67 Aligned_cols=44 Identities=23% Similarity=0.664 Sum_probs=22.8
Q ss_pred ccccccccccccCCCceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 116 TVMCDICMEEVAGDKATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
...|++|.+.+. +++.+ .|.|.||..|+...+. ..||. |..+..
T Consensus 7 lLrCs~C~~~l~--~pv~l~~CeH~fCs~Ci~~~~~----------~~CPv--C~~Paw 51 (65)
T PF14835_consen 7 LLRCSICFDILK--EPVCLGGCEHIFCSSCIRDCIG----------SECPV--CHTPAW 51 (65)
T ss_dssp TTS-SSS-S--S--S-B---SSS--B-TTTGGGGTT----------TB-SS--S--B-S
T ss_pred hcCCcHHHHHhc--CCceeccCccHHHHHHhHHhcC----------CCCCC--cCChHH
Confidence 467999999976 78876 9999999999977433 25998 876543
No 36
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=96.29 E-value=0.084 Score=56.10 Aligned_cols=118 Identities=20% Similarity=0.427 Sum_probs=71.3
Q ss_pred eeeCHHHHHHHHHHHHHHHHHHcCCCH--HHHHHHHHHcCCChHH--HHHHHHhcChh--h----hhh-----hcCCccc
Q 008419 40 KVITRESLLAAQKEDLRRVMELLSLRE--HHARTLLIHYRWDVEK--LLAVLVENGKE--S----LFN-----EAGVTVI 104 (566)
Q Consensus 40 ~vlt~~~l~~~~~~~i~~v~~~l~i~~--~~a~~LL~~~~W~~~~--l~~~~~~~~~~--~----~~~-----~~gl~~~ 104 (566)
..+|.-+|+.-+-..+..|.++.-|.. .+-..+|+.|+=..+. .++.| +|.. . +.. .+.+.-.
T Consensus 84 ~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~ef--NGk~Fn~le~e~Chll~V~~ve~~~s 161 (493)
T KOG0804|consen 84 AYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEF--NGKQFNSLEPEVCHLLYVDRVEVTES 161 (493)
T ss_pred ccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHc--CCCcCCCCCccceeEEEEEEEEEEec
Confidence 347899999988888888888876653 2235667777655433 33333 2221 0 100 0111100
Q ss_pred C--CCCCCCCCccccccccccccccCCC--ceecCCCCccchhhHHHHHHhhhccCCcceeecCccccccc
Q 008419 105 D--DADPMLPLSSTVMCDICMEEVAGDK--ATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI 171 (566)
Q Consensus 105 ~--~~~~~~~~~~~~~C~IC~e~~~~~~--~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~ 171 (566)
. .+.++....+-.+|+||++-+..+- ..+..|.|+|--.|+..|+. .+||. |+..
T Consensus 162 ~d~as~~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~----------~scpv--cR~~ 220 (493)
T KOG0804|consen 162 EDGASEPPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD----------SSCPV--CRYC 220 (493)
T ss_pred ccCCCCCCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhccc----------CcChh--hhhh
Confidence 0 1112222446679999999876432 34568999999999998865 58988 7643
No 37
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=96.12 E-value=0.016 Score=41.94 Aligned_cols=40 Identities=23% Similarity=0.423 Sum_probs=34.6
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHHHhcC
Q 008419 52 KEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENG 91 (566)
Q Consensus 52 ~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~~~~~ 91 (566)
++.|...+++.|+++..|+.+|..++||++.-++.|++.+
T Consensus 1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~ 40 (43)
T PF14555_consen 1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDG 40 (43)
T ss_dssp HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS
T ss_pred CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCC
Confidence 3678899999999999999999999999999999999754
No 38
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.09 E-value=0.0041 Score=61.66 Aligned_cols=53 Identities=28% Similarity=0.516 Sum_probs=40.9
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHH
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVV 177 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i 177 (566)
..+.|.||++... .+...+|||.||..|+-..|..+- .-.||. |++.+.+..|
T Consensus 214 ~d~kC~lC~e~~~--~ps~t~CgHlFC~~Cl~~~~t~~k------~~~Cpl--CRak~~pk~v 266 (271)
T COG5574 214 ADYKCFLCLEEPE--VPSCTPCGHLFCLSCLLISWTKKK------YEFCPL--CRAKVYPKKV 266 (271)
T ss_pred cccceeeeecccC--CcccccccchhhHHHHHHHHHhhc------cccCch--hhhhccchhh
Confidence 4688999999844 788889999999999999655421 235999 9887665554
No 39
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.06 E-value=0.0035 Score=63.00 Aligned_cols=53 Identities=23% Similarity=0.518 Sum_probs=42.4
Q ss_pred CccccccccccccccC-CCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchh
Q 008419 113 LSSTVMCDICMEEVAG-DKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDE 174 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~ 174 (566)
.....+|.||++.+.. +....+||.|.|...|+.+|+.. ...+||. |+..+|+
T Consensus 320 a~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~-------y~~~CPv--Crt~iPP 373 (374)
T COG5540 320 ADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG-------YSNKCPV--CRTAIPP 373 (374)
T ss_pred cCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhh-------hcccCCc--cCCCCCC
Confidence 3456899999999754 45567799999999999999874 2368999 9987764
No 40
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=95.82 E-value=0.0056 Score=49.70 Aligned_cols=41 Identities=24% Similarity=0.481 Sum_probs=29.4
Q ss_pred cccccccccccC----------CCce-ecCCCCccchhhHHHHHHhhhccCCcceeecCc
Q 008419 117 VMCDICMEEVAG----------DKAT-KMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMA 165 (566)
Q Consensus 117 ~~C~IC~e~~~~----------~~~~-~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~ 165 (566)
..|.||++.+.. ..++ ..+|||.|...|+..++... -.||.
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~--------~~CP~ 71 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN--------NTCPL 71 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS--------SB-TT
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC--------CcCCC
Confidence 359999999821 1223 34899999999999999752 28988
No 41
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.56 E-value=0.0067 Score=63.19 Aligned_cols=45 Identities=24% Similarity=0.573 Sum_probs=37.4
Q ss_pred cccccccccccCC-CceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 117 VMCDICMEEVAGD-KATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 117 ~~C~IC~e~~~~~-~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
.+|.||+|++... ....|||.|.|...|+..||... + -.||. |+.
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~---r----~~CPv--CK~ 275 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT---R----TFCPV--CKR 275 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc---C----ccCCC--CCC
Confidence 7999999998764 45668999999999999999873 2 47999 665
No 42
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=95.43 E-value=0.0093 Score=59.58 Aligned_cols=49 Identities=29% Similarity=0.606 Sum_probs=39.0
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhH
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEA 175 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~ 175 (566)
...-|-||-+-+. -+...+|||.||.-|++.|+..+ .-||. |....-..
T Consensus 24 s~lrC~IC~~~i~--ip~~TtCgHtFCslCIR~hL~~q--------p~CP~--Cr~~~~es 72 (391)
T COG5432 24 SMLRCRICDCRIS--IPCETTCGHTFCSLCIRRHLGTQ--------PFCPV--CREDPCES 72 (391)
T ss_pred hHHHhhhhhheee--cceecccccchhHHHHHHHhcCC--------CCCcc--ccccHHhh
Confidence 4578999998876 66778999999999999998752 57888 87654433
No 43
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.19 E-value=0.039 Score=55.05 Aligned_cols=51 Identities=22% Similarity=0.540 Sum_probs=38.2
Q ss_pred CccccccccccccccCCCceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 113 LSSTVMCDICMEEVAGDKATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
.+...+|++|-+.- ..|..+ +|||.||--|+..-+... ..+.||. |+..+.
T Consensus 236 ~t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~------asf~Cp~--Cg~~~~ 287 (298)
T KOG2879|consen 236 GTSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWD------ASFTCPL--CGENVE 287 (298)
T ss_pred ccCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcch------hhcccCc--cCCCCc
Confidence 34578999998863 355555 699999999998876542 2389998 887655
No 44
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.65 E-value=0.11 Score=54.81 Aligned_cols=39 Identities=36% Similarity=0.765 Sum_probs=35.0
Q ss_pred cCCcCCCC--CCcceeecCCCCeeEe-ccCcccccccccccc
Q 008419 274 VHTKPCPK--CHKPVEKNGGCNLVSC-ICGQAFCWLCGGATG 312 (566)
Q Consensus 274 ~~tK~CPk--C~~~IEKn~GCNhm~C-~C~~~FCw~C~~~~~ 312 (566)
.+..-||+ |+.|+-...|++-..| +|++.||.+|...||
T Consensus 271 sdv~yCPr~~Cq~p~~~d~~~~l~~CskCnFaFCtlCk~t~H 312 (445)
T KOG1814|consen 271 SDVVYCPRACCQLPVKQDPGRALAICSKCNFAFCTLCKLTWH 312 (445)
T ss_pred cccccCChhhccCccccCchhhhhhhccCccHHHHHHHHhhc
Confidence 46789999 9999977889999999 799999999999863
No 45
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=94.55 E-value=0.086 Score=53.49 Aligned_cols=146 Identities=21% Similarity=0.370 Sum_probs=76.7
Q ss_pred HHHHcCCChHHHHHHHHhcChhhhhhhc-CCcccCCCCCCCCCccccccccccccccCCCceec--CCCCccchhhHHHH
Q 008419 72 LLIHYRWDVEKLLAVLVENGKESLFNEA-GVTVIDDADPMLPLSSTVMCDICMEEVAGDKATKM--DCGHCFCNDCWTEH 148 (566)
Q Consensus 72 LL~~~~W~~~~l~~~~~~~~~~~~~~~~-gl~~~~~~~~~~~~~~~~~C~IC~e~~~~~~~~~l--~CgH~fC~~C~~~y 148 (566)
-|.||+-=.+.-++.|-..+.++....+ |+.-+.+. |..=+-.-|...-++. .||-.||+.|+..|
T Consensus 286 e~HHF~ilg~e~Y~rYQr~atEe~vlq~gGVlCP~pg-----------CG~gll~EPD~rkvtC~~gCgf~FCR~C~e~y 354 (446)
T KOG0006|consen 286 ELHHFRILGEEQYNRYQRYATEECVLQMGGVLCPRPG-----------CGAGLLPEPDQRKVTCEGGCGFAFCRECKEAY 354 (446)
T ss_pred hhhhheecchhHHHHHHHhhhhhheeecCCEecCCCC-----------CCcccccCCCCCcccCCCCchhHhHHHHHhhh
Confidence 3556766666667777655555544333 43322211 1111100011111222 49999999999999
Q ss_pred HHhhhccCC--cceeecCcccccccchhHHHHHhhcCCChhHHHHHHHHHHHhhhhcCcccccCCCCCCCCceEEecCCc
Q 008419 149 FIVKINEGQ--SKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVE 226 (566)
Q Consensus 149 l~~~i~~g~--~~~i~CP~~~C~~~~~~~~i~~ll~~~~~e~~~ky~~~l~~~~v~~~~~~~~CP~~p~C~~~i~~~~~~ 226 (566)
-...-..+. +..- .|...+++.. ....+|+..... . .....+.|| .|....... +.
T Consensus 355 h~geC~~~~~as~t~-----tc~y~vde~~----------a~~arwd~as~~-T--Ik~tTkpCP---kChvptErn-GG 412 (446)
T KOG0006|consen 355 HEGECSAVFEASGTT-----TCAYRVDERA----------AEQARWDAASKE-T--IKKTTKPCP---KCHVPTERN-GG 412 (446)
T ss_pred ccccceeeecccccc-----ceeeecChhh----------hhhhhhhhhhhh-h--hhhccCCCC---CccCccccC-Cc
Confidence 553322211 0111 2443343322 122345443221 1 223567888 598776643 34
Q ss_pred ceeeEe--c-CCCeeeccccCCCCCCC
Q 008419 227 VCEVEC--A-CGAQFCFSCLSEAHSPC 250 (566)
Q Consensus 227 ~~~v~C--~-Cg~~fC~~C~~~~H~p~ 250 (566)
...+.| + ||..+|+.|+.+|.+.+
T Consensus 413 CmHm~Ct~~~Cg~eWCw~C~tEW~r~C 439 (446)
T KOG0006|consen 413 CMHMKCTQPQCGLEWCWNCGTEWNRVC 439 (446)
T ss_pred eEEeecCCCCCCceeEeccCChhhhhh
Confidence 456889 3 99999999999987654
No 46
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=94.51 E-value=0.022 Score=45.81 Aligned_cols=57 Identities=25% Similarity=0.415 Sum_probs=26.7
Q ss_pred cccccccccccc-CCC-cee----cCCCCccchhhHHHHHHhhhccCCcc-ee--ecCcccccccchh
Q 008419 116 TVMCDICMEEVA-GDK-ATK----MDCGHCFCNDCWTEHFIVKINEGQSK-RI--RCMAHKCNAICDE 174 (566)
Q Consensus 116 ~~~C~IC~e~~~-~~~-~~~----l~CgH~fC~~C~~~yl~~~i~~g~~~-~i--~CP~~~C~~~~~~ 174 (566)
...|+||+.... ... +.. ..|++.|...||.+||...-...+.+ ++ .||. |...+.-
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~--C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPY--CSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TT--T-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcC--CCCeeeE
Confidence 368999998754 222 221 26899999999999998766544322 32 7998 9887653
No 47
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.50 E-value=0.018 Score=58.07 Aligned_cols=54 Identities=20% Similarity=0.422 Sum_probs=42.1
Q ss_pred CccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHH
Q 008419 113 LSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVV 177 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i 177 (566)
.....+|.||+.+-. .++.|+|+|.||.-|+++-+.. +. ..|+. |...++...+
T Consensus 4 ~~~~~eC~IC~nt~n--~Pv~l~C~HkFCyiCiKGsy~n----dk---~~Cav--CR~pids~i~ 57 (324)
T KOG0824|consen 4 RTKKKECLICYNTGN--CPVNLYCFHKFCYICIKGSYKN----DK---KTCAV--CRFPIDSTID 57 (324)
T ss_pred cccCCcceeeeccCC--cCccccccchhhhhhhcchhhc----CC---CCCce--ecCCCCcchh
Confidence 334578999999844 7799999999999999886543 22 46998 9998877655
No 48
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=94.14 E-value=0.034 Score=57.54 Aligned_cols=48 Identities=27% Similarity=0.630 Sum_probs=37.9
Q ss_pred ccccccccccc-ccCC----------CceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 115 STVMCDICMEE-VAGD----------KATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 115 ~~~~C~IC~e~-~~~~----------~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
....|.||.|+ +.+. .|..++|||.+...|++.|++.+ -.||. |+.++
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq--------QTCPI--Cr~p~ 344 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ--------QTCPI--CRRPV 344 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc--------cCCCc--ccCcc
Confidence 45789999999 4322 25789999999999999999852 38999 88753
No 49
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.63 E-value=0.072 Score=57.00 Aligned_cols=49 Identities=24% Similarity=0.595 Sum_probs=38.2
Q ss_pred ccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchh
Q 008419 114 SSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDE 174 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~ 174 (566)
...+.|.||+..+. ++++++|||.||..|+.+-+. ....||. |+..+..
T Consensus 82 ~sef~c~vc~~~l~--~pv~tpcghs~c~~Cl~r~ld--------~~~~cp~--Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALY--PPVVTPCGHSFCLECLDRSLD--------QETECPL--CRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcC--CCccccccccccHHHHHHHhc--------cCCCCcc--ccccccc
Confidence 45799999999876 788889999999999777332 1257888 8876653
No 50
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.63 E-value=0.047 Score=40.33 Aligned_cols=44 Identities=30% Similarity=0.708 Sum_probs=21.7
Q ss_pred cccccccccCC--CceecCCCCccchhhHHHHHHhhhccCCcceeecCccccccc
Q 008419 119 CDICMEEVAGD--KATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI 171 (566)
Q Consensus 119 C~IC~e~~~~~--~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~ 171 (566)
|++|.+++... ++.-.+||+.+|+.||..-... .+ =+||. |+..
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~---~~----g~CPg--Cr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILEN---EG----GRCPG--CREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTS---S-----SB-TT--T--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhc---cC----CCCCC--CCCC
Confidence 78999987543 3344589999999999987662 12 37998 8764
No 51
>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=93.57 E-value=3.1 Score=43.04 Aligned_cols=53 Identities=30% Similarity=0.703 Sum_probs=33.8
Q ss_pred cCCCCCCCCceEEecCCcceeeEecCCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCcceee
Q 008419 209 WCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEK 288 (566)
Q Consensus 209 ~CP~~p~C~~~i~~~~~~~~~v~C~Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IEK 288 (566)
-|| .|..-..........+. +|||.||..|... .| .....+||.|+.++.|
T Consensus 5 ~CP---~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~-----------l~--------------~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 5 GCP---RCKTTKYRNPSLKLMVN-VCGHTLCESCVDL-----------LF--------------VRGSGSCPECDTPLRK 55 (309)
T ss_pred CCC---cCCCCCccCcccccccC-CCCCcccHHHHHH-----------Hh--------------cCCCCCCCCCCCccch
Confidence 487 48765444443333455 7999999999542 11 1123589999999876
Q ss_pred cC
Q 008419 289 NG 290 (566)
Q Consensus 289 n~ 290 (566)
+.
T Consensus 56 ~~ 57 (309)
T TIGR00570 56 NN 57 (309)
T ss_pred hh
Confidence 53
No 52
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.94 E-value=0.095 Score=54.97 Aligned_cols=56 Identities=25% Similarity=0.469 Sum_probs=38.0
Q ss_pred CccccccccccccccCCC-----cee-cCCCCccchhhHHHHHHhhhccCCcceeecCccccccc
Q 008419 113 LSSTVMCDICMEEVAGDK-----ATK-MDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI 171 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~~-----~~~-l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~ 171 (566)
.+...+|.||++.+.... .-. .+|.|.||..|+..|=...-. +....-.||. |+..
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~-~~~~sksCP~--CRv~ 219 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQF-ESKTSKSCPF--CRVP 219 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhcc-ccccccCCCc--ccCc
Confidence 356789999999865322 223 379999999999998643222 2223457999 8763
No 53
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.75 E-value=0.02 Score=59.02 Aligned_cols=48 Identities=29% Similarity=0.645 Sum_probs=36.1
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
..+.|+||++-+.. -+....|+|+||.+|+..-+.. |. -.||. |+..+
T Consensus 42 ~~v~c~icl~llk~-tmttkeClhrfc~~ci~~a~r~----gn---~ecpt--cRk~l 89 (381)
T KOG0311|consen 42 IQVICPICLSLLKK-TMTTKECLHRFCFDCIWKALRS----GN---NECPT--CRKKL 89 (381)
T ss_pred hhhccHHHHHHHHh-hcccHHHHHHHHHHHHHHHHHh----cC---CCCch--HHhhc
Confidence 56899999998762 3455699999999998776553 33 48998 77643
No 54
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.74 E-value=0.056 Score=57.96 Aligned_cols=42 Identities=31% Similarity=0.722 Sum_probs=33.6
Q ss_pred cccccCCCCCCCCceEEecCCcceeeEecCCCeeeccccCCCCCCC
Q 008419 205 KMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPC 250 (566)
Q Consensus 205 ~~~~~CP~~p~C~~~i~~~~~~~~~v~C~Cg~~fC~~C~~~~H~p~ 250 (566)
...+.|| .|...|....+ ...++|.||+.||..|+.+|+...
T Consensus 304 ~~wr~Cp---kC~~~ie~~~G-Cnhm~CrC~~~fcy~C~~~~~~~~ 345 (384)
T KOG1812|consen 304 KRWRQCP---KCKFMIELSEG-CNHMTCRCGHQFCYMCGGDWKTHN 345 (384)
T ss_pred HhcCcCc---ccceeeeecCC-cceEEeeccccchhhcCcchhhCC
Confidence 4567898 59998875554 677999999999999998886543
No 55
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.62 E-value=0.14 Score=52.91 Aligned_cols=57 Identities=26% Similarity=0.623 Sum_probs=42.5
Q ss_pred ccccccccccccCC----CceecCCCCccchhhHHHHHHhhhccCCcceeecCccccccc--chhHHHHHhh
Q 008419 116 TVMCDICMEEVAGD----KATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI--CDEAVVRNLV 181 (566)
Q Consensus 116 ~~~C~IC~e~~~~~----~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~--~~~~~i~~ll 181 (566)
...|.||-++++.. -|..|.|||.+|..|....+.. + .+.||. |+.. ++...++.+-
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~----~---~i~cpf--cR~~~~~~~~~~~~l~ 65 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGN----S---RILCPF--CRETTEIPDGDVKSLQ 65 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcC----c---eeeccC--CCCcccCCchhHhhhh
Confidence 35799999998754 2566789999999999998775 2 378887 8886 5555555543
No 56
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=92.60 E-value=0.038 Score=52.43 Aligned_cols=44 Identities=27% Similarity=0.835 Sum_probs=33.7
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
-.|.|.||-.++. .++...|||.||..|...-+. .|. .|-. |..
T Consensus 195 IPF~C~iCKkdy~--spvvt~CGH~FC~~Cai~~y~----kg~----~C~~--Cgk 238 (259)
T COG5152 195 IPFLCGICKKDYE--SPVVTECGHSFCSLCAIRKYQ----KGD----ECGV--CGK 238 (259)
T ss_pred Cceeehhchhhcc--chhhhhcchhHHHHHHHHHhc----cCC----ccee--cch
Confidence 3589999999987 788889999999999765433 343 6665 664
No 57
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=92.51 E-value=0.066 Score=54.93 Aligned_cols=46 Identities=24% Similarity=0.668 Sum_probs=36.0
Q ss_pred cccccccccccccCCCceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 115 STVMCDICMEEVAGDKATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
...+|.+|-.-+- +..++ .|-|+||++||-.|+... -.||. |...+
T Consensus 14 ~~itC~LC~GYli--DATTI~eCLHTFCkSCivk~l~~~--------~~CP~--C~i~i 60 (331)
T KOG2660|consen 14 PHITCRLCGGYLI--DATTITECLHTFCKSCIVKYLEES--------KYCPT--CDIVI 60 (331)
T ss_pred cceehhhccceee--cchhHHHHHHHHHHHHHHHHHHHh--------ccCCc--cceec
Confidence 4579999987765 44444 899999999999999971 48998 76544
No 58
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=92.19 E-value=0.067 Score=34.34 Aligned_cols=23 Identities=39% Similarity=0.953 Sum_probs=15.8
Q ss_pred cCCCCCCcceeecCCCCeeEec-cCccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSCI-CGQAF 303 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C~-C~~~F 303 (566)
|.||.|+..|-.+. ..|. ||+.|
T Consensus 1 K~CP~C~~~V~~~~----~~Cp~CG~~F 24 (26)
T PF10571_consen 1 KTCPECGAEVPESA----KFCPHCGYDF 24 (26)
T ss_pred CcCCCCcCCchhhc----CcCCCCCCCC
Confidence 57899988875322 5674 77776
No 59
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.06 E-value=0.64 Score=49.04 Aligned_cols=125 Identities=15% Similarity=0.197 Sum_probs=71.2
Q ss_pred eeeCHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHHHhcChhhhhhh-cCCc-------ccCCCCCCC
Q 008419 40 KVITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNE-AGVT-------VIDDADPML 111 (566)
Q Consensus 40 ~vlt~~~l~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~~~~~~~~~~~~-~gl~-------~~~~~~~~~ 111 (566)
..|++..+....++-+++-..+||++.+-...++...+--.=..+-.|. .++.. .|.- ++-.-....
T Consensus 255 ~~ls~~~w~~~~~~f~r~ycallg~s~eSPL~v~v~aG~~Alp~Llk~~-----~v~~~~~~~W~~~deLPveIeL~~~~ 329 (394)
T KOG2817|consen 255 EILSPKLWKELTEEFTREYCALLGISVESPLSVLVNAGCIALPQLLKYK-----SVMELKHGEWNTKDELPVEIELGKEY 329 (394)
T ss_pred HHhCHHHHHHHHHHHHHHHHHHcCCCccCcHHHHHHhhHHHHHHHHHHH-----HHHHHhccCccccccCccceeccccc
Confidence 4456677777777888888888888876555544433332222122221 11111 1111 000000001
Q ss_pred CCccccccccccccccC-CCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHH
Q 008419 112 PLSSTVMCDICMEEVAG-DKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAV 176 (566)
Q Consensus 112 ~~~~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~ 176 (566)
..-+.|.|||=-+.-+. +.|..|.|||..|++=+...... |. ..++||- |+.......
T Consensus 330 ~fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~n----g~-~sfKCPY--CP~e~~~~~ 388 (394)
T KOG2817|consen 330 HFHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKN----GS-QSFKCPY--CPVEQLASD 388 (394)
T ss_pred cccceeecccchhhccCCCCCeeeeccceecHHHHHHHhhC----CC-eeeeCCC--CCcccCHHh
Confidence 12246899997766443 45678899999999988876553 43 4699998 887544433
No 60
>PRK00420 hypothetical protein; Validated
Probab=91.79 E-value=1.2 Score=39.20 Aligned_cols=26 Identities=31% Similarity=0.621 Sum_probs=20.6
Q ss_pred CcCCCCCCcceeecCCCCeeEe-ccCcccccccccc
Q 008419 276 TKPCPKCHKPVEKNGGCNLVSC-ICGQAFCWLCGGA 310 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCNhm~C-~C~~~FCw~C~~~ 310 (566)
...||.|+.|+ +. +-|..||-.|+..
T Consensus 23 ~~~CP~Cg~pL---------f~lk~g~~~Cp~Cg~~ 49 (112)
T PRK00420 23 SKHCPVCGLPL---------FELKDGEVVCPVHGKV 49 (112)
T ss_pred cCCCCCCCCcc---------eecCCCceECCCCCCe
Confidence 48999999995 44 5667888888876
No 61
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.57 E-value=0.084 Score=59.33 Aligned_cols=46 Identities=30% Similarity=0.785 Sum_probs=37.1
Q ss_pred cccccccccccccCC---CceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 115 STVMCDICMEEVAGD---KATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~---~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
....|.||.|.+... .+..++|+|.||..|++.|++.+ -.||. |+.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~--------qtCP~--CR~ 338 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQ--------QTCPT--CRT 338 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHh--------CcCCc--chh
Confidence 367899999997531 16788999999999999999971 48999 665
No 62
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=91.51 E-value=0.44 Score=48.94 Aligned_cols=48 Identities=21% Similarity=0.481 Sum_probs=36.0
Q ss_pred cccccccccccccCCCceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 115 STVMCDICMEEVAGDKATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
....|+||+.... ++..+ --|-.||-.|+-.|+.. .| +||..+|+..+
T Consensus 299 ~~~~CpvClk~r~--Nptvl~vSGyVfCY~Ci~~Yv~~---~~-----~CPVT~~p~~v 347 (357)
T KOG0826|consen 299 DREVCPVCLKKRQ--NPTVLEVSGYVFCYPCIFSYVVN---YG-----HCPVTGYPASV 347 (357)
T ss_pred ccccChhHHhccC--CCceEEecceEEeHHHHHHHHHh---cC-----CCCccCCcchH
Confidence 4678999998744 45444 45999999999999983 23 69988887544
No 63
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=91.43 E-value=0.3 Score=58.26 Aligned_cols=67 Identities=24% Similarity=0.501 Sum_probs=53.8
Q ss_pred cccccccccccc-ccCCCceecCCCCccchhhHHHHHHhhhccCC--cceeecCcccccccchhHHHHHhhc
Q 008419 114 SSTVMCDICMEE-VAGDKATKMDCGHCFCNDCWTEHFIVKINEGQ--SKRIRCMAHKCNAICDEAVVRNLVS 182 (566)
Q Consensus 114 ~~~~~C~IC~e~-~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~--~~~i~CP~~~C~~~~~~~~i~~ll~ 182 (566)
...-.|.|||.+ +.....+.|.|+|.|...|-+..++..-.... ..-|.||. |...+....++.++.
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPi--C~n~InH~~LkDLld 3553 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPI--CKNKINHIVLKDLLD 3553 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeeccc--ccchhhhHHHHHHHH
Confidence 345689999977 55556688999999999999999988765433 24589999 999998888888886
No 64
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=91.15 E-value=0.18 Score=41.88 Aligned_cols=31 Identities=19% Similarity=0.485 Sum_probs=25.3
Q ss_pred CCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 135 DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 135 ~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
.|+|.|...|+.+++.++-. + -.||. |++.+
T Consensus 51 ~C~H~FH~hCI~kWl~~~~~--~---~~CPm--CR~~w 81 (85)
T PF12861_consen 51 KCSHNFHMHCILKWLSTQSS--K---GQCPM--CRQPW 81 (85)
T ss_pred cCccHHHHHHHHHHHccccC--C---CCCCC--cCCee
Confidence 79999999999999998522 2 47999 88754
No 65
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.08 E-value=0.14 Score=52.66 Aligned_cols=52 Identities=31% Similarity=0.622 Sum_probs=38.4
Q ss_pred CCCccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchh
Q 008419 111 LPLSSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDE 174 (566)
Q Consensus 111 ~~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~ 174 (566)
.|.++...|+||+-. +...+..||+|.-|.+|+.+|+.. . -+|-. |+.++..
T Consensus 417 lp~sEd~lCpICyA~--pi~Avf~PC~H~SC~~CI~qHlmN----~----k~CFf--CktTv~~ 468 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAG--PINAVFAPCSHRSCYGCITQHLMN----C----KRCFF--CKTTVID 468 (489)
T ss_pred CCCcccccCcceecc--cchhhccCCCCchHHHHHHHHHhc----C----CeeeE--ecceeee
Confidence 345677899999975 224455699999999999999874 1 36777 8876543
No 66
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.47 E-value=0.23 Score=52.25 Aligned_cols=50 Identities=22% Similarity=0.659 Sum_probs=38.1
Q ss_pred ccccccccccccC---CCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 116 TVMCDICMEEVAG---DKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 116 ~~~C~IC~e~~~~---~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
..+|+||++.+.. ..++++.|||-|=.+|+.+|+. ++ ...+||. |...-.
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~-----~~~~cp~--c~~kat 56 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KK-----TKMQCPL--CSGKAT 56 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hh-----hhhhCcc--cCChhH
Confidence 4689999998642 2467889999999999999994 22 3468999 776433
No 67
>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=88.57 E-value=0.34 Score=36.07 Aligned_cols=42 Identities=19% Similarity=0.404 Sum_probs=31.6
Q ss_pred ccccccccccCCCceecCCC-----CccchhhHHHHHHhhhccCCcceeecCc
Q 008419 118 MCDICMEEVAGDKATKMDCG-----HCFCNDCWTEHFIVKINEGQSKRIRCMA 165 (566)
Q Consensus 118 ~C~IC~e~~~~~~~~~l~Cg-----H~fC~~C~~~yl~~~i~~g~~~~i~CP~ 165 (566)
.|-||++.....++...||. |.+...|+..|+..+-+ .+||.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~------~~C~i 47 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGN------KTCEI 47 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCC------CcCCC
Confidence 48899984444566677885 88999999999987432 47887
No 68
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=87.96 E-value=0.22 Score=52.06 Aligned_cols=46 Identities=30% Similarity=0.713 Sum_probs=34.6
Q ss_pred ccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCccccc
Q 008419 116 TVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCN 169 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~ 169 (566)
-..|-||-+.-. ++..-+|||..|..|+..|=.. .+|+ .||.+.|.
T Consensus 369 FeLCKICaendK--dvkIEPCGHLlCt~CLa~WQ~s--d~gq----~CPFCRcE 414 (563)
T KOG1785|consen 369 FELCKICAENDK--DVKIEPCGHLLCTSCLAAWQDS--DEGQ----TCPFCRCE 414 (563)
T ss_pred HHHHHHhhccCC--CcccccccchHHHHHHHhhccc--CCCC----CCCceeeE
Confidence 346999998733 6666799999999999998544 3355 89995554
No 69
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.48 E-value=0.51 Score=49.16 Aligned_cols=48 Identities=23% Similarity=0.536 Sum_probs=36.9
Q ss_pred ccccccccccccccCCCceecCCCCc-cchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 114 SSTVMCDICMEEVAGDKATKMDCGHC-FCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~~~~~l~CgH~-fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
....+|.||+.+.. +.+.|||.|. .|.+|-+..- ... =.||. |++.+.
T Consensus 288 ~~gkeCVIClse~r--dt~vLPCRHLCLCs~Ca~~Lr---~q~-----n~CPI--CRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESR--DTVVLPCRHLCLCSGCAKSLR---YQT-----NNCPI--CRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCc--ceEEecchhhehhHhHHHHHH---Hhh-----cCCCc--cccchH
Confidence 44679999999855 8899999996 8999987664 111 26999 998654
No 70
>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=87.48 E-value=0.16 Score=49.65 Aligned_cols=49 Identities=22% Similarity=0.566 Sum_probs=36.3
Q ss_pred cccccccccc-cCCCceec--C-CCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 117 VMCDICMEEV-AGDKATKM--D-CGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 117 ~~C~IC~e~~-~~~~~~~l--~-CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
-.||||-.+. -.-++..+ | |-|+.|.+|.-+-|+. |. -.||.++|+.++
T Consensus 11 ~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~----Gp---AqCP~~gC~kIL 63 (314)
T COG5220 11 RRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR----GP---AQCPYKGCGKIL 63 (314)
T ss_pred ccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC----CC---CCCCCccHHHHH
Confidence 4799998872 21233333 4 9999999999988875 44 799999998654
No 71
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=86.50 E-value=0.27 Score=44.31 Aligned_cols=34 Identities=32% Similarity=0.703 Sum_probs=27.8
Q ss_pred ccccccccccccC-CCceecCCC------CccchhhHHHHH
Q 008419 116 TVMCDICMEEVAG-DKATKMDCG------HCFCNDCWTEHF 149 (566)
Q Consensus 116 ~~~C~IC~e~~~~-~~~~~l~Cg------H~fC~~C~~~yl 149 (566)
..+|.||++.+.. .-.+.++|| |.||.+|++.|=
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 5789999999876 345667887 789999999993
No 72
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=86.09 E-value=0.36 Score=30.01 Aligned_cols=11 Identities=36% Similarity=1.005 Sum_probs=8.1
Q ss_pred CCCCCCcceee
Q 008419 278 PCPKCHKPVEK 288 (566)
Q Consensus 278 ~CPkC~~~IEK 288 (566)
.||+|+..|+.
T Consensus 1 ~Cp~CG~~~~~ 11 (23)
T PF13240_consen 1 YCPNCGAEIED 11 (23)
T ss_pred CCcccCCCCCC
Confidence 48888888764
No 73
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.08 E-value=0.4 Score=47.88 Aligned_cols=53 Identities=26% Similarity=0.606 Sum_probs=40.6
Q ss_pred cccccccccccccCC--------CceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhH
Q 008419 115 STVMCDICMEEVAGD--------KATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEA 175 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~--------~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~ 175 (566)
+...|.||-..+..+ +...|.|+|.|...|++++... |+ .-.||- |+..++..
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWciv----GK--kqtCPY--CKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIV----GK--KQTCPY--CKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheee----cC--CCCCch--HHHHhhHh
Confidence 456899998775432 5678999999999999999765 32 358998 99876543
No 74
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.24 E-value=0.31 Score=49.34 Aligned_cols=44 Identities=27% Similarity=0.711 Sum_probs=35.0
Q ss_pred ccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCccccccc
Q 008419 116 TVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI 171 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~ 171 (566)
.|-|.||-..+- .++...|+|+||..|....+.. | -+|+. |...
T Consensus 241 Pf~c~icr~~f~--~pVvt~c~h~fc~~ca~~~~qk----~----~~c~v--C~~~ 284 (313)
T KOG1813|consen 241 PFKCFICRKYFY--RPVVTKCGHYFCEVCALKPYQK----G----EKCYV--CSQQ 284 (313)
T ss_pred Cccccccccccc--cchhhcCCceeehhhhcccccc----C----Cccee--cccc
Confidence 577999999977 8899999999999998776553 3 36777 7764
No 75
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.80 E-value=0.4 Score=51.62 Aligned_cols=51 Identities=22% Similarity=0.404 Sum_probs=36.7
Q ss_pred ccccccccccccccCC-----C----------ceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 114 SSTVMCDICMEEVAGD-----K----------ATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~-----~----------~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
.....|.||+.+++.- . ....||.|.|.+.|+.+++.. ..+.||. |+.+++
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~-------ykl~CPv--CR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT-------YKLICPV--CRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh-------hcccCCc--cCCCCC
Confidence 3567899999987521 1 112399999999999999884 2268998 665554
No 76
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=84.37 E-value=2.6 Score=42.85 Aligned_cols=38 Identities=21% Similarity=0.379 Sum_probs=31.3
Q ss_pred ccccccccccccCCC-ceecCCCCccchhhHHHHHHhhh
Q 008419 116 TVMCDICMEEVAGDK-ATKMDCGHCFCNDCWTEHFIVKI 153 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~-~~~l~CgH~fC~~C~~~yl~~~i 153 (566)
...|.||+--|...+ +...+|-|+|...|+.+||....
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~ 153 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECL 153 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHH
Confidence 467999988887665 56679999999999999998743
No 77
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=83.45 E-value=0.5 Score=54.21 Aligned_cols=47 Identities=30% Similarity=0.660 Sum_probs=36.2
Q ss_pred cccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchh
Q 008419 117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDE 174 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~ 174 (566)
..|.||.+ .+.++...|||.||.+||..+|...-. -.||. |...+..
T Consensus 455 ~~c~ic~~---~~~~~it~c~h~~c~~c~~~~i~~~~~------~~~~~--cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD---LDSFFITRCGHDFCVECLKKSIQQSEN------APCPL--CRNVLKE 501 (674)
T ss_pred cccccccc---cccceeecccchHHHHHHHhccccccC------CCCcH--HHHHHHH
Confidence 89999999 346788899999999999999886322 26776 7765443
No 78
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=83.40 E-value=0.9 Score=33.82 Aligned_cols=27 Identities=30% Similarity=0.543 Sum_probs=19.6
Q ss_pred cCCCCCCcceeecC--CCCeeEec-cCccc
Q 008419 277 KPCPKCHKPVEKNG--GCNLVSCI-CGQAF 303 (566)
Q Consensus 277 K~CPkC~~~IEKn~--GCNhm~C~-C~~~F 303 (566)
+.||.|+.++.... +-+++.|+ ||+.+
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~ 30 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCRKCGYEE 30 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECCcCCCeE
Confidence 46999998887543 34688994 99753
No 79
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=82.35 E-value=0.78 Score=49.44 Aligned_cols=48 Identities=29% Similarity=0.769 Sum_probs=37.6
Q ss_pred CccccccccccccccCCCcee-cCCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 113 LSSTVMCDICMEEVAGDKATK-MDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~~~~~-l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
......|++|...+. +++. ..|||.||..|+..++.. ...||. |...+
T Consensus 18 ~~~~l~C~~C~~vl~--~p~~~~~cgh~fC~~C~~~~~~~--------~~~cp~--~~~~~ 66 (391)
T KOG0297|consen 18 LDENLLCPICMSVLR--DPVQTTTCGHRFCAGCLLESLSN--------HQKCPV--CRQEL 66 (391)
T ss_pred CcccccCcccccccc--CCCCCCCCCCcccccccchhhcc--------CcCCcc--ccccc
Confidence 456789999999877 6776 599999999999998775 257877 65433
No 80
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.16 E-value=0.82 Score=50.15 Aligned_cols=37 Identities=35% Similarity=0.755 Sum_probs=31.5
Q ss_pred CcCCC--CCCcceee-cCCCCeeEeccCcccccccccccc
Q 008419 276 TKPCP--KCHKPVEK-NGGCNLVSCICGQAFCWLCGGATG 312 (566)
Q Consensus 276 tK~CP--kC~~~IEK-n~GCNhm~C~C~~~FCw~C~~~~~ 312 (566)
.|-|| .|+..+.- .+.+.-+.|.||+.|||.|+.+||
T Consensus 158 lkwCP~~~C~~av~~~~~~~~~v~C~~g~~FC~~C~~~~H 197 (444)
T KOG1815|consen 158 LKWCPAPGCGLAVKFGSLESVEVDCGCGHEFCFACGEESH 197 (444)
T ss_pred cccCCCCCCCceeeccCCCccceeCCCCchhHhhcccccc
Confidence 46666 59988887 788999999999999999999864
No 81
>PHA00626 hypothetical protein
Probab=81.83 E-value=1 Score=34.12 Aligned_cols=29 Identities=28% Similarity=0.481 Sum_probs=21.0
Q ss_pred CCCCCCc-ceeecCCCCe----eEe-ccCcccccc
Q 008419 278 PCPKCHK-PVEKNGGCNL----VSC-ICGQAFCWL 306 (566)
Q Consensus 278 ~CPkC~~-~IEKn~GCNh----m~C-~C~~~FCw~ 306 (566)
.||+|+. -|-|++-|+. ..| .||+.|=-.
T Consensus 2 ~CP~CGS~~Ivrcg~cr~~snrYkCkdCGY~ft~~ 36 (59)
T PHA00626 2 SCPKCGSGNIAKEKTMRGWSDDYVCCDCGYNDSKD 36 (59)
T ss_pred CCCCCCCceeeeeceecccCcceEcCCCCCeechh
Confidence 6999998 4778777654 678 488877443
No 82
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=81.74 E-value=5 Score=27.71 Aligned_cols=34 Identities=24% Similarity=0.382 Sum_probs=28.2
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHH
Q 008419 52 KEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAV 86 (566)
Q Consensus 52 ~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~ 86 (566)
.+.|.++++. |.+...|+.-|+..+||++.-++.
T Consensus 3 ~~~v~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~~ 36 (37)
T PF00627_consen 3 EEKVQQLMEM-GFSREQAREALRACNGNVERAVDW 36 (37)
T ss_dssp HHHHHHHHHH-TS-HHHHHHHHHHTTTSHHHHHHH
T ss_pred HHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHHh
Confidence 3567788888 999999999999999999987653
No 83
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=81.61 E-value=0.46 Score=46.98 Aligned_cols=45 Identities=24% Similarity=0.549 Sum_probs=32.1
Q ss_pred cccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
+.|..|+---+...++.+.|+|.||..|.+.- .+-.||. |+..+.
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~----------~~~~C~l--Ckk~ir 48 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKAS----------SPDVCPL--CKKSIR 48 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccC----------Ccccccc--ccceee
Confidence 57998887655445566699999999996542 1228998 987653
No 84
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=81.49 E-value=0.91 Score=51.49 Aligned_cols=18 Identities=11% Similarity=0.018 Sum_probs=9.7
Q ss_pred CCCccchhhHHHHHHhhh
Q 008419 136 CGHCFCNDCWTEHFIVKI 153 (566)
Q Consensus 136 CgH~fC~~C~~~yl~~~i 153 (566)
|+|.+|-.||..+...-+
T Consensus 121 ~~~~~CP~Ci~s~~DqL~ 138 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLE 138 (1134)
T ss_pred hhhhhhhHHHHHHHHHhh
Confidence 555555555555554443
No 85
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.65 E-value=0.57 Score=35.32 Aligned_cols=45 Identities=27% Similarity=0.475 Sum_probs=33.1
Q ss_pred cccccccccccCCCceecCCCCc-cchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 117 VMCDICMEEVAGDKATKMDCGHC-FCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~CgH~-fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
-+|.||++.- -+.+.-.|||. .|-+|-.+.+.. .. =.||. |+.++
T Consensus 8 dECTICye~p--vdsVlYtCGHMCmCy~Cg~rl~~~--~~-----g~CPi--CRapi 53 (62)
T KOG4172|consen 8 DECTICYEHP--VDSVLYTCGHMCMCYACGLRLKKA--LH-----GCCPI--CRAPI 53 (62)
T ss_pred cceeeeccCc--chHHHHHcchHHhHHHHHHHHHHc--cC-----CcCcc--hhhHH
Confidence 6899999862 24455589997 899999888875 22 36888 87654
No 86
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=79.85 E-value=1.1 Score=51.29 Aligned_cols=25 Identities=48% Similarity=1.034 Sum_probs=15.8
Q ss_pred cCCCCCCcceeecCCCCeeEeccCcccccccccccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATG 312 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C~C~~~FCw~C~~~~~ 312 (566)
+.||+|+..+.. +..||-.||...+
T Consensus 28 ~~Cp~CG~~~~~-----------~~~fC~~CG~~~~ 52 (645)
T PRK14559 28 KPCPQCGTEVPV-----------DEAHCPNCGAETG 52 (645)
T ss_pred CcCCCCCCCCCc-----------ccccccccCCccc
Confidence 467777776542 3458888877643
No 87
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=79.76 E-value=1.1 Score=47.54 Aligned_cols=25 Identities=24% Similarity=0.699 Sum_probs=14.5
Q ss_pred CcCCCCCCccee-e--cCCC----CeeEec-cC
Q 008419 276 TKPCPKCHKPVE-K--NGGC----NLVSCI-CG 300 (566)
Q Consensus 276 tK~CPkC~~~IE-K--n~GC----Nhm~C~-C~ 300 (566)
.-+|-.|+..+- + ..|| ||+.|+ |+
T Consensus 427 CY~CEDCg~~LS~e~e~qgCyPld~HllCk~Ch 459 (468)
T KOG1701|consen 427 CYKCEDCGLLLSSEEEGQGCYPLDGHLLCKTCH 459 (468)
T ss_pred ceehhhcCccccccCCCCcceeccCceeechhh
Confidence 346667777665 3 3455 566663 54
No 88
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=79.73 E-value=0.96 Score=28.92 Aligned_cols=12 Identities=25% Similarity=0.808 Sum_probs=8.7
Q ss_pred cCCCCCCcceee
Q 008419 277 KPCPKCHKPVEK 288 (566)
Q Consensus 277 K~CPkC~~~IEK 288 (566)
+.||+|+..|..
T Consensus 3 ~~Cp~Cg~~~~~ 14 (26)
T PF13248_consen 3 MFCPNCGAEIDP 14 (26)
T ss_pred CCCcccCCcCCc
Confidence 678888887653
No 89
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.19 E-value=1.1 Score=44.09 Aligned_cols=47 Identities=30% Similarity=0.792 Sum_probs=29.3
Q ss_pred CCCceEEecCCcceeeEecCCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCccee
Q 008419 215 HCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVE 287 (566)
Q Consensus 215 ~C~~~i~~~~~~~~~v~C~Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IE 287 (566)
+|+-++....+. .|+| ||+.|||-|.. +|.. +..+.+.||-|+..|.
T Consensus 49 dCNICLd~akdP--VvTl-CGHLFCWpCly------------qWl~-----------~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 49 DCNICLDLAKDP--VVTL-CGHLFCWPCLY------------QWLQ-----------TRPNSKECPVCKAEVS 95 (230)
T ss_pred eeeeeccccCCC--EEee-cccceehHHHH------------HHHh-----------hcCCCeeCCccccccc
Confidence 565555433332 2443 99999999965 3432 1234588999988775
No 90
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=79.17 E-value=0.35 Score=48.88 Aligned_cols=35 Identities=31% Similarity=0.623 Sum_probs=27.0
Q ss_pred HHcCCcCCCCCCcceeecCCCCeeEe-ccCcccccccccccc
Q 008419 272 ITVHTKPCPKCHKPVEKNGGCNLVSC-ICGQAFCWLCGGATG 312 (566)
Q Consensus 272 i~~~tK~CPkC~~~IEKn~GCNhm~C-~C~~~FCw~C~~~~~ 312 (566)
+..++.+|--|-...+ |-+| .|||-|||-|...|-
T Consensus 235 i~~a~~kC~LCLe~~~------~pSaTpCGHiFCWsCI~~w~ 270 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRS------NPSATPCGHIFCWSCILEWC 270 (293)
T ss_pred CCCCCCceEEEecCCC------CCCcCcCcchHHHHHHHHHH
Confidence 4456778888877654 4678 599999999999874
No 91
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=77.46 E-value=1.1 Score=32.17 Aligned_cols=29 Identities=34% Similarity=0.725 Sum_probs=21.6
Q ss_pred CCCCCcceeecCCCCeeEeccCcccccccccccc
Q 008419 279 CPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATG 312 (566)
Q Consensus 279 CPkC~~~IEKn~GCNhm~C~C~~~FCw~C~~~~~ 312 (566)
||-|...+. +-++=.|||.||..|+..+-
T Consensus 1 CpiC~~~~~-----~Pv~l~CGH~FC~~Cl~~~~ 29 (42)
T PF15227_consen 1 CPICLDLFK-----DPVSLPCGHSFCRSCLERLW 29 (42)
T ss_dssp ETTTTSB-S-----SEEE-SSSSEEEHHHHHHHH
T ss_pred CCccchhhC-----CccccCCcCHHHHHHHHHHH
Confidence 677777766 55777899999999998753
No 92
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.27 E-value=0.89 Score=47.70 Aligned_cols=48 Identities=27% Similarity=0.652 Sum_probs=34.3
Q ss_pred ccccccccccccCC-Cceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 116 TVMCDICMEEVAGD-KATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 116 ~~~C~IC~e~~~~~-~~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
...|.||-+-++.. +...+ .|||.|...|+..|+...-.+ -.||. |+.
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~-----R~cpi--c~i 53 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSN-----RGCPI--CQI 53 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCcc-----CCCCc--eee
Confidence 35799996655532 34455 499999999999999875432 25887 663
No 93
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=76.93 E-value=1.4 Score=33.07 Aligned_cols=28 Identities=25% Similarity=0.548 Sum_probs=20.0
Q ss_pred cCCcCCCCCCc-ceeecCCCCeeEe-ccCccc
Q 008419 274 VHTKPCPKCHK-PVEKNGGCNLVSC-ICGQAF 303 (566)
Q Consensus 274 ~~tK~CPkC~~-~IEKn~GCNhm~C-~C~~~F 303 (566)
...+.||+|+. .+.... +.++| +||+.+
T Consensus 18 ~~~~fCP~Cg~~~m~~~~--~r~~C~~Cgyt~ 47 (50)
T PRK00432 18 RKNKFCPRCGSGFMAEHL--DRWHCGKCGYTE 47 (50)
T ss_pred EccCcCcCCCcchheccC--CcEECCCcCCEE
Confidence 44579999988 444333 68999 699865
No 94
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=76.78 E-value=1.8 Score=30.65 Aligned_cols=33 Identities=21% Similarity=0.627 Sum_probs=26.4
Q ss_pred cCCCCCCcc-eeecCCCCeeEe-ccCccccccccccccCCCC
Q 008419 277 KPCPKCHKP-VEKNGGCNLVSC-ICGQAFCWLCGGATGRDHT 316 (566)
Q Consensus 277 K~CPkC~~~-IEKn~GCNhm~C-~C~~~FCw~C~~~~~~~H~ 316 (566)
..|+.|... +. ++| .|+..+|..|....+++|.
T Consensus 4 ~~C~~H~~~~~~-------~~C~~C~~~~C~~C~~~~H~~H~ 38 (42)
T PF00643_consen 4 PKCPEHPEEPLS-------LFCEDCNEPLCSECTVSGHKGHK 38 (42)
T ss_dssp SB-SSTTTSBEE-------EEETTTTEEEEHHHHHTSTTTSE
T ss_pred ccCccCCccceE-------EEecCCCCccCccCCCCCCCCCE
Confidence 689999877 77 999 5999999999987555553
No 95
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=76.46 E-value=1.7 Score=31.32 Aligned_cols=30 Identities=33% Similarity=0.604 Sum_probs=22.6
Q ss_pred HHHHcCCcCCCCCCcceeecCCCCeeEec---cCccc
Q 008419 270 NWITVHTKPCPKCHKPVEKNGGCNLVSCI---CGQAF 303 (566)
Q Consensus 270 ~~i~~~tK~CPkC~~~IEKn~GCNhm~C~---C~~~F 303 (566)
.|.....+.||+|+..- |+--+.|+ |++.|
T Consensus 5 k~TlRGirkCp~CGt~N----G~R~~~CKN~~C~~~~ 37 (44)
T PF14952_consen 5 KPTLRGIRKCPKCGTYN----GTRGLSCKNKSCPQVF 37 (44)
T ss_pred hhhHhccccCCcCcCcc----CcccccccCCccchhh
Confidence 46667789999999874 67678883 77655
No 96
>PF04641 Rtf2: Rtf2 RING-finger
Probab=75.92 E-value=2 Score=43.55 Aligned_cols=59 Identities=20% Similarity=0.390 Sum_probs=43.0
Q ss_pred CccccccccccccccCC-Cceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHHhhc
Q 008419 113 LSSTVMCDICMEEVAGD-KATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVS 182 (566)
Q Consensus 113 ~~~~~~C~IC~e~~~~~-~~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~ll~ 182 (566)
....+.|||...++... .++.+ +|||.|+..++...= . + -.||. |...+...+|-.|-+
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k----~-~----~~Cp~--c~~~f~~~DiI~Lnp 170 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK----K-S----KKCPV--CGKPFTEEDIIPLNP 170 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc----c-c----ccccc--cCCccccCCEEEecC
Confidence 34679999999998643 44555 999999999999871 1 1 35999 999887665544443
No 97
>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=74.76 E-value=1.2 Score=38.19 Aligned_cols=32 Identities=19% Similarity=0.566 Sum_probs=26.2
Q ss_pred cccccccccccccCCCceecCCCCccchhhHH
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWT 146 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~ 146 (566)
....|++|...+..+.+...||||.|+..|.+
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 34569999999876666677999999999975
No 98
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=74.57 E-value=12 Score=26.67 Aligned_cols=38 Identities=24% Similarity=0.344 Sum_probs=32.8
Q ss_pred HHHHHHHHHHc-CCCHHHHHHHHHHcCCChHHHHHHHHh
Q 008419 52 KEDLRRVMELL-SLREHHARTLLIHYRWDVEKLLAVLVE 89 (566)
Q Consensus 52 ~~~i~~v~~~l-~i~~~~a~~LL~~~~W~~~~l~~~~~~ 89 (566)
.+.|..+++++ +++.+..+..|..+++|++..++.+.+
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 35788999999 799999999999999999999998874
No 99
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=74.06 E-value=5.8 Score=41.85 Aligned_cols=48 Identities=23% Similarity=0.644 Sum_probs=37.7
Q ss_pred ccccccccccccc--CCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 115 STVMCDICMEEVA--GDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 115 ~~~~C~IC~e~~~--~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
....|..|-+.+. .+....+||.|.|...|+.+|+.. ++. -.||. |+.
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~---n~~---rsCP~--Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILEN---NGT---RSCPN--CRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHh---CCC---CCCcc--HHH
Confidence 3578999999864 345677899999999999999953 333 68998 874
No 100
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=73.62 E-value=2.1 Score=33.69 Aligned_cols=34 Identities=26% Similarity=0.735 Sum_probs=13.8
Q ss_pred cCCCCCCcceeec---CCCCeeEec-cCcc----cccccccc
Q 008419 277 KPCPKCHKPVEKN---GGCNLVSCI-CGQA----FCWLCGGA 310 (566)
Q Consensus 277 K~CPkC~~~IEKn---~GCNhm~C~-C~~~----FCw~C~~~ 310 (566)
-+|++|...+... +||-|++|. |=.. -|-+|-.+
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~CPvC~~P 49 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSECPVCHTP 49 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB-SSS--B
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCCCCCcCCh
Confidence 5899998877653 788887773 4322 26666554
No 101
>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=73.47 E-value=2.5 Score=31.28 Aligned_cols=32 Identities=38% Similarity=0.906 Sum_probs=22.7
Q ss_pred EecCCCe-eeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCcceee
Q 008419 231 ECACGAQ-FCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEK 288 (566)
Q Consensus 231 ~C~Cg~~-fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IEK 288 (566)
.=+||+. ||..|... |.. ..+.||-|+.+|++
T Consensus 17 ~~pCgH~~~C~~C~~~------------~~~--------------~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 17 LLPCGHLCFCEECAER------------LLK--------------RKKKCPICRQPIES 49 (50)
T ss_dssp EETTCEEEEEHHHHHH------------HHH--------------TTSBBTTTTBB-SE
T ss_pred EeCCCChHHHHHHhHH------------hcc--------------cCCCCCcCChhhcC
Confidence 3379999 99999553 111 33899999999975
No 102
>cd00021 BBOX B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
Probab=73.35 E-value=2.9 Score=28.76 Aligned_cols=31 Identities=19% Similarity=0.450 Sum_probs=24.8
Q ss_pred CCCCCCc-ceeecCCCCeeEe-ccCccccccccccccCCC
Q 008419 278 PCPKCHK-PVEKNGGCNLVSC-ICGQAFCWLCGGATGRDH 315 (566)
Q Consensus 278 ~CPkC~~-~IEKn~GCNhm~C-~C~~~FCw~C~~~~~~~H 315 (566)
.||.|.. ++. ++| .|+..+|..|....+++|
T Consensus 2 ~C~~H~~~~~~-------~fC~~~~~~iC~~C~~~~H~~H 34 (39)
T cd00021 2 LCDEHGEEPLS-------LFCETDRALLCVDCDLSVHSGH 34 (39)
T ss_pred CCCccCCcceE-------EEeCccChhhhhhcChhhcCCC
Confidence 5889977 877 999 599999999986644444
No 103
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=72.63 E-value=4.1 Score=27.26 Aligned_cols=28 Identities=25% Similarity=0.655 Sum_probs=16.2
Q ss_pred CCcCCCCCCcceeecCCCCeeEe-ccCcc
Q 008419 275 HTKPCPKCHKPVEKNGGCNLVSC-ICGQA 302 (566)
Q Consensus 275 ~tK~CPkC~~~IEKn~GCNhm~C-~C~~~ 302 (566)
+.+.||+|+.+.+...|=--|.| .|++.
T Consensus 2 ~~rfC~~CG~~t~~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 2 NHRFCGRCGAPTKPAPGGWARRCPSCGHE 30 (32)
T ss_dssp TTSB-TTT--BEEE-SSSS-EEESSSS-E
T ss_pred CCcccCcCCccccCCCCcCEeECCCCcCE
Confidence 34788888888888776567888 48764
No 104
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.58 E-value=3.4 Score=41.75 Aligned_cols=54 Identities=24% Similarity=0.535 Sum_probs=40.0
Q ss_pred ccccccccccccccCCCceecC--CCCccchhhHHHHHHhhhccCCcceeecCc-ccccc
Q 008419 114 SSTVMCDICMEEVAGDKATKMD--CGHCFCNDCWTEHFIVKINEGQSKRIRCMA-HKCNA 170 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~~~~~l~--CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~-~~C~~ 170 (566)
+..+.|.+|-|-+....++..+ =.|.||..|-++.|+.+-..|. +.||. .+|..
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sge---vYCPSGdkCPL 322 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGE---VYCPSGDKCPL 322 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCc---eeCCCCCcCcc
Confidence 4568999999988744444332 1699999999999998766665 88986 36764
No 105
>PLN03086 PRLI-interacting factor K; Provisional
Probab=71.55 E-value=7.5 Score=43.67 Aligned_cols=57 Identities=26% Similarity=0.572 Sum_probs=34.1
Q ss_pred ceeecCcccccccchhHHHHHhhcCCChhHHHHHHHHHHHhhhhcCcccccCCCCCCCCceEEecCCcceeeEec-CCCe
Q 008419 159 KRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFLLESFIEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECA-CGAQ 237 (566)
Q Consensus 159 ~~i~CP~~~C~~~~~~~~i~~ll~~~~~e~~~ky~~~l~~~~v~~~~~~~~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~~ 237 (566)
..+.||. |+..++...+...+. .-....+-|| ..+|+..+...... ....|+ |+..
T Consensus 406 ~~V~C~N--C~~~i~l~~l~lHe~-------------------~C~r~~V~Cp-~~~Cg~v~~r~el~-~H~~C~~Cgk~ 462 (567)
T PLN03086 406 DTVECRN--CKHYIPSRSIALHEA-------------------YCSRHNVVCP-HDGCGIVLRVEEAK-NHVHCEKCGQA 462 (567)
T ss_pred CeEECCC--CCCccchhHHHHHHh-------------------hCCCcceeCC-cccccceeeccccc-cCccCCCCCCc
Confidence 3478998 988777665543332 1223445798 35799988755422 224676 7665
Q ss_pred e
Q 008419 238 F 238 (566)
Q Consensus 238 f 238 (566)
|
T Consensus 463 f 463 (567)
T PLN03086 463 F 463 (567)
T ss_pred c
Confidence 5
No 106
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.54 E-value=2.2 Score=42.22 Aligned_cols=53 Identities=8% Similarity=0.230 Sum_probs=38.6
Q ss_pred cccccccccccccCCC-ceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHH
Q 008419 115 STVMCDICMEEVAGDK-ATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVV 177 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~-~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i 177 (566)
..+.|+||-+.++..- ...| +|||.+|.+|...+|..- ..||. |...+.+..|
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D--------~v~pv--~d~plkdrdi 274 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD--------MVDPV--TDKPLKDRDI 274 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc--------ccccC--CCCcCcccce
Confidence 5688999999987432 2334 999999999999987641 45777 7766665544
No 107
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=71.48 E-value=0.96 Score=36.56 Aligned_cols=48 Identities=23% Similarity=0.520 Sum_probs=34.3
Q ss_pred ccccccccccCC---------C-ceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 118 MCDICMEEVAGD---------K-ATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 118 ~C~IC~e~~~~~---------~-~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
+|.||--.|... + |..+ -|.|.|-.-|+.+++.+.-++| .||. |++.+
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~-----~CPm--cRq~~ 80 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQG-----QCPM--CRQTW 80 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccc-----cCCc--chhee
Confidence 777877666532 2 2222 5899999999999999876654 5998 88754
No 108
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=70.93 E-value=9.5 Score=34.05 Aligned_cols=59 Identities=17% Similarity=0.347 Sum_probs=31.4
Q ss_pred eeeEecCCCeeeccccCCC--CCCCCchhh-HHHHHhh-hhhHHHHHHHHcCCcCCCCCCccee
Q 008419 228 CEVECACGAQFCFSCLSEA--HSPCSCSMW-DLWAKKC-RDESETVNWITVHTKPCPKCHKPVE 287 (566)
Q Consensus 228 ~~v~C~Cg~~fC~~C~~~~--H~p~~C~~~-~~w~~~~-~~e~e~~~~i~~~tK~CPkC~~~IE 287 (566)
..+.|.||++||-- ...| |...--... .+..+.. ..+...-+|+...--.||.|++..+
T Consensus 69 rv~rcecghsf~d~-r~nwkl~a~i~vrdtee~lreiyp~s~ipdp~wme~reficpecg~l~e 131 (165)
T COG4647 69 RVIRCECGHSFGDY-RENWKLHANIYVRDTEEKLREIYPKSDIPDPQWMEIREFICPECGILHE 131 (165)
T ss_pred cEEEEeccccccCh-hhCceeeeEEEEcchHHHHHHhCcccCCCCchHHHHHHhhCccccceee
Confidence 35799999999965 3333 222111110 0111100 0112234677666678999999877
No 109
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=70.89 E-value=2.4 Score=42.99 Aligned_cols=43 Identities=26% Similarity=0.776 Sum_probs=33.5
Q ss_pred cccccccccccCCCceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 117 VMCDICMEEVAGDKATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
+.|+.|-..+. ++... .|+|.||..|+..-+.. ..+.||. |..
T Consensus 275 LkCplc~~Llr--np~kT~cC~~~fc~eci~~al~d-------sDf~Cpn--C~r 318 (427)
T COG5222 275 LKCPLCHCLLR--NPMKTPCCGHTFCDECIGTALLD-------SDFKCPN--CSR 318 (427)
T ss_pred ccCcchhhhhh--CcccCccccchHHHHHHhhhhhh-------ccccCCC--ccc
Confidence 78999988765 55555 79999999999877654 2379998 764
No 110
>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=70.88 E-value=4.9 Score=40.89 Aligned_cols=48 Identities=27% Similarity=0.704 Sum_probs=33.4
Q ss_pred ccccccccc-cCCCceec--CCCCccchhhHHHHHHhhhccCCcceeecCcccccccchh
Q 008419 118 MCDICMEEV-AGDKATKM--DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDE 174 (566)
Q Consensus 118 ~C~IC~e~~-~~~~~~~l--~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~ 174 (566)
.||+|-.+. -.-+++.+ +|+|..|.+|+-..+.. |. -.||. |..++.-
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~----g~---~~Cpe--C~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL----GP---AQCPE--CMVILRK 52 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhc----CC---CCCCc--ccchhhh
Confidence 488997662 22233333 99999999999988775 33 67995 9876543
No 111
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=70.51 E-value=2 Score=44.18 Aligned_cols=84 Identities=26% Similarity=0.606 Sum_probs=45.8
Q ss_pred CccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHHhhcCCChhHHHHHHHHH-HHhhhhc----CcccccCCC
Q 008419 138 HCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFL-LESFIED----NKMVKWCPS 212 (566)
Q Consensus 138 H~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~ll~~~~~e~~~ky~~~l-~~~~v~~----~~~~~~CP~ 212 (566)
-+||..|-..+.. .|+.||. |...+ +.+ +.+...|..+. ++.+.+. ..+...|-
T Consensus 276 Gy~CP~CkakvCs--------LP~eCpi--C~ltL-------Vss---~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf- 334 (378)
T KOG2807|consen 276 GYFCPQCKAKVCS--------LPIECPI--CSLTL-------VSS---PHLARSYHHLFPLKPFVEIPETEYNGSRFCF- 334 (378)
T ss_pred ceeCCcccCeeec--------CCccCCc--cceeE-------ecc---hHHHHHHHhhcCCcchhhccccccCCCccee-
Confidence 4567777444432 5677877 76532 122 55555555443 2333322 22334465
Q ss_pred CCCCCceEEecCCcceeeEec-CCCeeeccccCCCCC
Q 008419 213 TPHCGNAIRVEEVEVCEVECA-CGAQFCFSCLSEAHS 248 (566)
Q Consensus 213 ~p~C~~~i~~~~~~~~~v~C~-Cg~~fC~~C~~~~H~ 248 (566)
.|+. +......+.|. |...||..|..-.|.
T Consensus 335 --~C~~----~~~~~~~y~C~~Ck~~FCldCDv~iHe 365 (378)
T KOG2807|consen 335 --ACQG----ELLSSGRYRCESCKNVFCLDCDVFIHE 365 (378)
T ss_pred --eecc----ccCCCCcEEchhccceeeccchHHHHh
Confidence 3622 22233458996 999999999775554
No 112
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.68 E-value=1.7 Score=44.03 Aligned_cols=28 Identities=32% Similarity=0.905 Sum_probs=23.1
Q ss_pred ccccccccccccCCCceecCCCCc-cchhhH
Q 008419 116 TVMCDICMEEVAGDKATKMDCGHC-FCNDCW 145 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~~~l~CgH~-fC~~C~ 145 (566)
...|.||++.-. +.+.|+|||. -|..|=
T Consensus 300 ~~LC~ICmDaP~--DCvfLeCGHmVtCt~CG 328 (350)
T KOG4275|consen 300 RRLCAICMDAPR--DCVFLECGHMVTCTKCG 328 (350)
T ss_pred HHHHHHHhcCCc--ceEEeecCcEEeehhhc
Confidence 578999999744 8899999996 788883
No 113
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=68.75 E-value=4.2 Score=35.75 Aligned_cols=75 Identities=23% Similarity=0.489 Sum_probs=41.6
Q ss_pred ceeecCcccccccchhHHHHHhhcCCChhHHHHHHHHH-HHhhhhc----CcccccCCCCCCCCceEEecC-------Cc
Q 008419 159 KRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFL-LESFIED----NKMVKWCPSTPHCGNAIRVEE-------VE 226 (566)
Q Consensus 159 ~~i~CP~~~C~~~~~~~~i~~ll~~~~~e~~~ky~~~l-~~~~v~~----~~~~~~CP~~p~C~~~i~~~~-------~~ 226 (566)
.|+.||. |+..+- ++ +.+...|..+. +..|.+. ......|- +|+..+.... ..
T Consensus 14 LP~~Cpi--CgLtLV-------ss---~HLARSyHHLfPl~~f~ev~~~~~~~~~~C~---~C~~~f~~~~~~~~~~~~~ 78 (112)
T TIGR00622 14 LPVECPI--CGLTLI-------LS---THLARSYHHLFPLKAFQEIPLEEYNGSRFCF---GCQGPFPKPPVSPFDELKD 78 (112)
T ss_pred CCCcCCc--CCCEEe-------cc---chHHHhhhccCCCcccccccccccCCCCccc---CcCCCCCCccccccccccc
Confidence 5788988 876431 22 44444554432 2222221 11223575 4877654221 11
Q ss_pred ceeeEec-CCCeeeccccCCCCC
Q 008419 227 VCEVECA-CGAQFCFSCLSEAHS 248 (566)
Q Consensus 227 ~~~v~C~-Cg~~fC~~C~~~~H~ 248 (566)
.....|+ |+..||..|..-+|.
T Consensus 79 ~~~y~C~~C~~~FC~dCD~fiHe 101 (112)
T TIGR00622 79 SHRYVCAVCKNVFCVDCDVFVHE 101 (112)
T ss_pred ccceeCCCCCCccccccchhhhh
Confidence 2346797 999999999877675
No 114
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=68.33 E-value=4 Score=29.71 Aligned_cols=29 Identities=28% Similarity=0.614 Sum_probs=18.9
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCccccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQAFCW 305 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~~FCw 305 (566)
-.||+|+..++-..+=..++| .||..+=+
T Consensus 4 y~C~~CG~~~~~~~~~~~~~Cp~CG~~~~~ 33 (46)
T PRK00398 4 YKCARCGREVELDEYGTGVRCPYCGYRILF 33 (46)
T ss_pred EECCCCCCEEEECCCCCceECCCCCCeEEE
Confidence 468888888876544336778 47765543
No 115
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=68.22 E-value=1.9 Score=41.54 Aligned_cols=32 Identities=31% Similarity=0.749 Sum_probs=24.1
Q ss_pred CcCCCCCCcceeecCCCCeeEeccCcccccccccccc
Q 008419 276 TKPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATG 312 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCNhm~C~C~~~FCw~C~~~~~ 312 (566)
.-.||-|...+. +-+.=.|||.|||.|...|-
T Consensus 18 ~~~CpICld~~~-----dPVvT~CGH~FC~~CI~~wl 49 (193)
T PLN03208 18 DFDCNICLDQVR-----DPVVTLCGHLFCWPCIHKWT 49 (193)
T ss_pred ccCCccCCCcCC-----CcEEcCCCchhHHHHHHHHH
Confidence 358999988764 22333699999999998873
No 116
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=67.85 E-value=18 Score=24.81 Aligned_cols=34 Identities=24% Similarity=0.375 Sum_probs=27.5
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHHH
Q 008419 54 DLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLV 88 (566)
Q Consensus 54 ~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~~ 88 (566)
.|.++.+ +|.+...++..|...+||+++..+.++
T Consensus 4 ~v~~L~~-mGf~~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 4 KLEQLLE-MGFSREEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence 4445555 589999999999999999999877654
No 117
>PHA03096 p28-like protein; Provisional
Probab=66.50 E-value=2.9 Score=42.98 Aligned_cols=37 Identities=22% Similarity=0.437 Sum_probs=28.9
Q ss_pred cccccccccccC----CCce-ec-CCCCccchhhHHHHHHhhh
Q 008419 117 VMCDICMEEVAG----DKAT-KM-DCGHCFCNDCWTEHFIVKI 153 (566)
Q Consensus 117 ~~C~IC~e~~~~----~~~~-~l-~CgH~fC~~C~~~yl~~~i 153 (566)
..|+||++.... +..+ .| .|.|.||..|++.+..+..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~ 221 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESL 221 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhh
Confidence 689999998542 2233 33 8999999999999998865
No 118
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=66.38 E-value=2.3 Score=43.84 Aligned_cols=53 Identities=26% Similarity=0.556 Sum_probs=37.6
Q ss_pred ccccccccccccC--CCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHH
Q 008419 116 TVMCDICMEEVAG--DKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVV 177 (566)
Q Consensus 116 ~~~C~IC~e~~~~--~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i 177 (566)
.-.|++|.+++.. .+++..+||-..|+-||... ...++ =+||. |+...+++-|
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~i-rq~ln------grcpa--crr~y~denv 68 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNI-RQNLN------GRCPA--CRRKYDDENV 68 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHH-Hhhcc------CCChH--hhhhccccce
Confidence 3459999998654 46677899999999999764 33232 37999 8876554433
No 119
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.94 E-value=5.1 Score=39.15 Aligned_cols=54 Identities=20% Similarity=0.413 Sum_probs=42.2
Q ss_pred cccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
-.|..|-..+...+.+.|-|-|.|.-.|+.+.-..--.+..-.-.+||. |...+
T Consensus 51 pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~--Cs~ei 104 (299)
T KOG3970|consen 51 PNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPC--CSQEI 104 (299)
T ss_pred CCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCC--CCCcc
Confidence 4699999998888999999999999999998765433332224579998 88744
No 120
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=64.86 E-value=6.5 Score=27.36 Aligned_cols=28 Identities=36% Similarity=0.795 Sum_probs=20.8
Q ss_pred ccCCCCCCCCceEEecCC----cceeeEec-CCCee
Q 008419 208 KWCPSTPHCGNAIRVEEV----EVCEVECA-CGAQF 238 (566)
Q Consensus 208 ~~CP~~p~C~~~i~~~~~----~~~~v~C~-Cg~~f 238 (566)
..|| +|+..+.+.++ ....+.|+ |++.|
T Consensus 3 i~CP---~C~~~f~v~~~~l~~~~~~vrC~~C~~~f 35 (37)
T PF13719_consen 3 ITCP---NCQTRFRVPDDKLPAGGRKVRCPKCGHVF 35 (37)
T ss_pred EECC---CCCceEEcCHHHcccCCcEEECCCCCcEe
Confidence 4688 59999887652 34578997 98876
No 121
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=64.68 E-value=1.6e+02 Score=34.49 Aligned_cols=46 Identities=13% Similarity=0.275 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHHH
Q 008419 431 IKQHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLS 477 (566)
Q Consensus 431 ~~~~lfe~~Q~~le~~~E~L~~~le~~~~~~~~~~i~~~k~~~~~l~ 477 (566)
.+..-..+.|+.|..+++++...+.......+..| ++++.+|..+.
T Consensus 600 eR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AE-r~~~~EL~~~~ 645 (717)
T PF10168_consen 600 ERYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAE-REFKKELERMK 645 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHH-HHHHHHHHHHH
Confidence 34566778899999999999988876655555444 34444444433
No 122
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=64.60 E-value=4.4 Score=46.79 Aligned_cols=50 Identities=26% Similarity=0.441 Sum_probs=38.6
Q ss_pred cccccccccccccCCC-ceec-CCCCccchhhHHHHHHhhhccCCcceeecCc
Q 008419 115 STVMCDICMEEVAGDK-ATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMA 165 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~-~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~ 165 (566)
..++|.||++.+.... +.+. .|-|.|...|++.|....-.+|. ...+||.
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~-~~WrCP~ 241 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQ-DGWRCPA 241 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccC-ccccCCc
Confidence 5689999999987543 4444 78899999999999988544444 4578887
No 123
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=64.19 E-value=19 Score=24.56 Aligned_cols=33 Identities=18% Similarity=0.257 Sum_probs=25.6
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHH
Q 008419 54 DLRRVMELLSLREHHARTLLIHYRWDVEKLLAVL 87 (566)
Q Consensus 54 ~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~ 87 (566)
.|.++.++ |.+.+.|+..|...+||+++..+-+
T Consensus 4 ~v~~L~~m-Gf~~~~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 4 KIDQLLEM-GFSREEALKALRAANGNVERAAEYL 36 (37)
T ss_pred HHHHHHHc-CCCHHHHHHHHHHhCCCHHHHHHHH
Confidence 34444443 8999999999999999998876543
No 124
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=63.98 E-value=3 Score=31.76 Aligned_cols=45 Identities=24% Similarity=0.572 Sum_probs=30.6
Q ss_pred ccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchh
Q 008419 116 TVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDE 174 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~ 174 (566)
...|-.|...- .....++|||..|..||-.- .---||. |...+..
T Consensus 7 ~~~~~~~~~~~--~~~~~~pCgH~I~~~~f~~~----------rYngCPf--C~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFVG--TKGTVLPCGHLICDNCFPGE----------RYNGCPF--CGTPFEF 51 (55)
T ss_pred ceeEEEccccc--cccccccccceeeccccChh----------hccCCCC--CCCcccC
Confidence 35566666543 25677899999999998542 1136898 8876643
No 125
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=63.31 E-value=7.1 Score=27.02 Aligned_cols=28 Identities=29% Similarity=0.797 Sum_probs=20.5
Q ss_pred ccCCCCCCCCceEEecC----CcceeeEec-CCCee
Q 008419 208 KWCPSTPHCGNAIRVEE----VEVCEVECA-CGAQF 238 (566)
Q Consensus 208 ~~CP~~p~C~~~i~~~~----~~~~~v~C~-Cg~~f 238 (566)
..|| .|+..+.+++ .....+.|+ |++.|
T Consensus 3 i~Cp---~C~~~y~i~d~~ip~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCP---NCQAKYEIDDEKIPPKGRKVRCSKCGHVF 35 (36)
T ss_pred EECC---CCCCEEeCCHHHCCCCCcEEECCCCCCEe
Confidence 3588 5999888765 344578997 98875
No 126
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=63.17 E-value=9.2 Score=39.65 Aligned_cols=52 Identities=21% Similarity=0.489 Sum_probs=35.8
Q ss_pred ccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHHhh
Q 008419 114 SSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLV 181 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~ll 181 (566)
..-++||||++.+.. ..+..+=||..|.+|-.. ..-+||. |...++ .++.+.
T Consensus 46 ~~lleCPvC~~~l~~-Pi~QC~nGHlaCssC~~~-----------~~~~CP~--Cr~~~g--~~R~~a 97 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSP-PIFQCDNGHLACSSCRTK-----------VSNKCPT--CRLPIG--NIRCRA 97 (299)
T ss_pred hhhccCchhhccCcc-cceecCCCcEehhhhhhh-----------hcccCCc--cccccc--cHHHHH
Confidence 456899999998752 223334489999999662 2358999 998777 344443
No 127
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=62.94 E-value=4.9 Score=34.17 Aligned_cols=29 Identities=34% Similarity=0.715 Sum_probs=21.1
Q ss_pred cCCCCCCcce--eecCCCCeeEec-cCccccc
Q 008419 277 KPCPKCHKPV--EKNGGCNLVSCI-CGQAFCW 305 (566)
Q Consensus 277 K~CPkC~~~I--EKn~GCNhm~C~-C~~~FCw 305 (566)
..||.|+..+ ++.+-||.+.|+ |.+.|=-
T Consensus 2 ~FCP~Cgn~Live~g~~~~rf~C~tCpY~~~I 33 (105)
T KOG2906|consen 2 LFCPTCGNMLIVESGESCNRFSCRTCPYVFPI 33 (105)
T ss_pred cccCCCCCEEEEecCCeEeeEEcCCCCceeeE
Confidence 3699998654 445559999995 9987643
No 128
>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=62.39 E-value=5.9 Score=31.75 Aligned_cols=32 Identities=38% Similarity=0.942 Sum_probs=21.1
Q ss_pred CCCCCCcceeecCCCCeeEe-ccCcc-----ccccccccc
Q 008419 278 PCPKCHKPVEKNGGCNLVSC-ICGQA-----FCWLCGGAT 311 (566)
Q Consensus 278 ~CPkC~~~IEKn~GCNhm~C-~C~~~-----FCw~C~~~~ 311 (566)
.||.|+.+++.++ .+.+| .|+.. +|-.|+.+.
T Consensus 3 ~CP~C~~~L~~~~--~~~~C~~C~~~~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 3 TCPKCQQELEWQG--GHYHCEACQKDYKKEAFCPDCGQPL 40 (70)
T ss_dssp B-SSS-SBEEEET--TEEEETTT--EEEEEEE-TTT-SB-
T ss_pred cCCCCCCccEEeC--CEEECccccccceecccCCCcccHH
Confidence 6999999999888 68999 58854 699998773
No 129
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=62.34 E-value=5.2 Score=45.89 Aligned_cols=12 Identities=25% Similarity=0.742 Sum_probs=9.2
Q ss_pred CcCCCCCCccee
Q 008419 276 TKPCPKCHKPVE 287 (566)
Q Consensus 276 tK~CPkC~~~IE 287 (566)
.+.||+|+..+-
T Consensus 41 ~~fC~~CG~~~~ 52 (645)
T PRK14559 41 EAHCPNCGAETG 52 (645)
T ss_pred cccccccCCccc
Confidence 378888888765
No 130
>PF05320 Pox_RNA_Pol_19: Poxvirus DNA-directed RNA polymerase 19 kDa subunit; InterPro: IPR007984 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. The poxvirus DNA-directed RNA polymerase (2.7.7.6 from EC) catalyses the transcription of DNA into RNA. It consists of at least eight subunits, this is the 19 kDa subunit.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=61.51 E-value=3.5 Score=37.90 Aligned_cols=10 Identities=30% Similarity=0.571 Sum_probs=4.9
Q ss_pred cccccccccc
Q 008419 115 STVMCDICME 124 (566)
Q Consensus 115 ~~~~C~IC~e 124 (566)
+..+|||=.+
T Consensus 125 eEg~CPIVIe 134 (167)
T PF05320_consen 125 EEGTCPIVIE 134 (167)
T ss_pred hcCCCcEEEe
Confidence 3445655444
No 131
>smart00336 BBOX B-Box-type zinc finger.
Probab=60.63 E-value=8.4 Score=26.84 Aligned_cols=33 Identities=36% Similarity=0.787 Sum_probs=26.3
Q ss_pred cCCCCCC-cceeecCCCCeeEe-ccCccccccccccccCCCC
Q 008419 277 KPCPKCH-KPVEKNGGCNLVSC-ICGQAFCWLCGGATGRDHT 316 (566)
Q Consensus 277 K~CPkC~-~~IEKn~GCNhm~C-~C~~~FCw~C~~~~~~~H~ 316 (566)
..|+.|. .++. ++| .|+...|..|....+++|.
T Consensus 4 ~~C~~h~~~~~~-------~~C~~c~~~iC~~C~~~~H~~H~ 38 (42)
T smart00336 4 PKCDSHGDEPAE-------FFCEECGALLCRTCDEAEHRGHT 38 (42)
T ss_pred CcCCCCCCCceE-------EECCCCCcccccccChhhcCCCc
Confidence 5799998 8877 999 5999999999876444443
No 132
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=60.26 E-value=5.9 Score=47.97 Aligned_cols=40 Identities=25% Similarity=0.350 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH-------HHhhhhhhhhhccCCccccCCCC
Q 008419 471 MQVINLSVITDTLCKKMYEC-------IENDLLGCLQLGTHNIARYQSKG 513 (566)
Q Consensus 471 ~~~~~l~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~i~~~~~~~ 513 (566)
.-+...++.+|.+..++|.- -.++|-|- ....+||..|-|
T Consensus 845 ~yl~~va~fiDdLL~k~Ygl~~fYn~~~~eDLiGh---LviGlAPHTSag 891 (1337)
T PRK14714 845 EYLLKVAKFVDDLLEKFYGLPRFYNVEKREDLVGH---LVIGLAPHTSAG 891 (1337)
T ss_pred HHHHHHHHHHHHHHHHhhCCCcccCCCChhhccce---eeeccCCccccc
Confidence 34556678888888777642 22345443 346677776643
No 133
>PRK08665 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=60.03 E-value=4.8 Score=47.10 Aligned_cols=26 Identities=42% Similarity=1.136 Sum_probs=22.6
Q ss_pred cCCCCCCcceeecCCCCeeEec-cCcccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSCI-CGQAFC 304 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C~-C~~~FC 304 (566)
..||.|+..+...+|| ++|+ ||+.=|
T Consensus 725 ~~Cp~Cg~~l~~~~GC--~~C~~CG~skC 751 (752)
T PRK08665 725 GACPECGSILEHEEGC--VVCHSCGYSKC 751 (752)
T ss_pred CCCCCCCcccEECCCC--CcCCCCCCCCC
Confidence 3699999999999999 5995 998766
No 134
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=59.72 E-value=32 Score=24.43 Aligned_cols=38 Identities=24% Similarity=0.348 Sum_probs=33.3
Q ss_pred HHHHHHHHHHc-CCCHHHHHHHHHHcCCChHHHHHHHHh
Q 008419 52 KEDLRRVMELL-SLREHHARTLLIHYRWDVEKLLAVLVE 89 (566)
Q Consensus 52 ~~~i~~v~~~l-~i~~~~a~~LL~~~~W~~~~l~~~~~~ 89 (566)
.+.+..+++++ +++...++..|..+++|++..++.+.+
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 45778888999 799999999999999999999988763
No 135
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=59.65 E-value=6.7 Score=26.99 Aligned_cols=27 Identities=37% Similarity=0.943 Sum_probs=17.0
Q ss_pred ccCCCCCCCCceEEecCCcceeeEec-CCCe
Q 008419 208 KWCPSTPHCGNAIRVEEVEVCEVECA-CGAQ 237 (566)
Q Consensus 208 ~~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~~ 237 (566)
++|| .|++.+.+..+....+.|. |++.
T Consensus 2 ~FCp---~C~nlL~p~~~~~~~~~C~~C~Y~ 29 (35)
T PF02150_consen 2 RFCP---ECGNLLYPKEDKEKRVACRTCGYE 29 (35)
T ss_dssp -BET---TTTSBEEEEEETTTTEEESSSS-E
T ss_pred eeCC---CCCccceEcCCCccCcCCCCCCCc
Confidence 5798 6999998766443333675 7665
No 136
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=59.34 E-value=6.5 Score=26.16 Aligned_cols=26 Identities=31% Similarity=0.811 Sum_probs=12.5
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQAF 303 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~~F 303 (566)
-.||+|+....-.+|. .|.| .|+++|
T Consensus 3 p~Cp~C~se~~y~D~~-~~vCp~C~~ew 29 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGE-LLVCPECGHEW 29 (30)
T ss_dssp ---TTT-----EE-SS-SEEETTTTEEE
T ss_pred CCCCCCCCcceeccCC-EEeCCcccccC
Confidence 3799999887777774 4778 488775
No 137
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.03 E-value=4.5 Score=47.02 Aligned_cols=39 Identities=28% Similarity=0.637 Sum_probs=31.4
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhh
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKI 153 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i 153 (566)
..-+|.+|--.+-...++..+|||.|..+|+..+...-.
T Consensus 816 p~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~~~~ 854 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVLSLL 854 (911)
T ss_pred CccchHHhcchhhcCcceeeeccchHHHHHHHHHHHccc
Confidence 456899999887665666679999999999999876544
No 138
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.73 E-value=5.1 Score=40.20 Aligned_cols=24 Identities=25% Similarity=0.477 Sum_probs=19.0
Q ss_pred CCCCCCcceeecCCCCeeEe-ccCcccccccc
Q 008419 278 PCPKCHKPVEKNGGCNLVSC-ICGQAFCWLCG 308 (566)
Q Consensus 278 ~CPkC~~~IEKn~GCNhm~C-~C~~~FCw~C~ 308 (566)
.|+.+... .+++| .|+...|+.|.
T Consensus 88 ~c~~~~~~-------~~~~c~~~~~~~c~~c~ 112 (386)
T KOG2177|consen 88 LCEKHGEE-------LKLFCEEDEKLLCVLCR 112 (386)
T ss_pred hhhhcCCc-------ceEEecccccccCCCCC
Confidence 56666555 56999 69999999998
No 139
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.63 E-value=5.5 Score=41.73 Aligned_cols=44 Identities=25% Similarity=0.588 Sum_probs=30.6
Q ss_pred ccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 114 SSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
+....|.||.+... +..-++|||..| |..-+-. .+.||. |...+
T Consensus 303 ~~p~lcVVcl~e~~--~~~fvpcGh~cc--ct~cs~~---------l~~CPv--CR~rI 346 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPK--SAVFVPCGHVCC--CTLCSKH---------LPQCPV--CRQRI 346 (355)
T ss_pred CCCCceEEecCCcc--ceeeecCCcEEE--chHHHhh---------CCCCch--hHHHH
Confidence 34568999999855 677889999866 5443311 256998 87644
No 140
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=58.57 E-value=7 Score=29.03 Aligned_cols=26 Identities=27% Similarity=0.604 Sum_probs=14.6
Q ss_pred CcCCCCCCcceeecCCCCeeEe-ccCc
Q 008419 276 TKPCPKCHKPVEKNGGCNLVSC-ICGQ 301 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCNhm~C-~C~~ 301 (566)
-+.||+|+--+--..-=+...| +||+
T Consensus 19 ~~~CPrCG~gvfmA~H~dR~~CGkCgy 45 (51)
T COG1998 19 NRFCPRCGPGVFMADHKDRWACGKCGY 45 (51)
T ss_pred cccCCCCCCcchhhhcCceeEeccccc
Confidence 3789999853321111135677 6775
No 141
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=57.23 E-value=4.9 Score=46.89 Aligned_cols=51 Identities=18% Similarity=0.437 Sum_probs=36.8
Q ss_pred cccccccccccccC---CCce-e-cCCCCccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 115 STVMCDICMEEVAG---DKAT-K-MDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 115 ~~~~C~IC~e~~~~---~~~~-~-l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
...+|+||+..+.. .-|. + -.|.|.|...|+-.|+.+.- . -+||. |+..++
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~---~---s~CPl--CRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSA---R---SNCPL--CRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcC---C---CCCCc--cccccc
Confidence 45689999988652 1222 2 26899999999999998732 2 58999 886544
No 142
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=57.09 E-value=1 Score=37.02 Aligned_cols=47 Identities=32% Similarity=0.432 Sum_probs=34.3
Q ss_pred eCHHHHHHHHHHHHHHHHHHcC--C-CHHHHHHHHHHcCCChHHHHHHHHh
Q 008419 42 ITRESLLAAQKEDLRRVMELLS--L-REHHARTLLIHYRWDVEKLLAVLVE 89 (566)
Q Consensus 42 lt~~~l~~~~~~~i~~v~~~l~--i-~~~~a~~LL~~~~W~~~~l~~~~~~ 89 (566)
||+++-. .+.+-+.+|.++|| + +...-.-.|.+|.+++++-+..+..
T Consensus 20 Ls~ed~~-~L~~~l~~vr~~Lg~~~~~e~~i~eal~~~~fDvekAl~~Ll~ 69 (79)
T PF08938_consen 20 LSPEDQA-QLYSCLPQVREVLGDYVPPEEQIKEALWHYYFDVEKALDYLLS 69 (79)
T ss_dssp -TCHHHH-HHCHHCCCHHHHCCCCC--CCHHHHHHHHTTT-CCHHHHHHHH
T ss_pred CCHHHHH-HHHHHHHHHHHHHcccCCCHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 4555543 47778889999997 4 5567788899999999999888875
No 143
>PRK04023 DNA polymerase II large subunit; Validated
Probab=56.54 E-value=7.9 Score=45.81 Aligned_cols=35 Identities=34% Similarity=0.679 Sum_probs=22.8
Q ss_pred hhcCcccccCCCCCCCCceEEecCCcceeeEec-CCC-----eeeccccCC
Q 008419 201 IEDNKMVKWCPSTPHCGNAIRVEEVEVCEVECA-CGA-----QFCFSCLSE 245 (566)
Q Consensus 201 v~~~~~~~~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~-----~fC~~C~~~ 245 (566)
++.....+.|| .|+... ....|+ ||. .||..|+..
T Consensus 620 ~eVEVg~RfCp---sCG~~t-------~~frCP~CG~~Te~i~fCP~CG~~ 660 (1121)
T PRK04023 620 IEVEIGRRKCP---SCGKET-------FYRRCPFCGTHTEPVYRCPRCGIE 660 (1121)
T ss_pred eeecccCccCC---CCCCcC-------CcccCCCCCCCCCcceeCccccCc
Confidence 33444567898 498653 236887 885 478888654
No 144
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=56.31 E-value=8.4 Score=44.72 Aligned_cols=35 Identities=29% Similarity=0.790 Sum_probs=28.9
Q ss_pred CcCCCCCCcceeecCCCCeeEec-cCcc-----cccccccc
Q 008419 276 TKPCPKCHKPVEKNGGCNLVSCI-CGQA-----FCWLCGGA 310 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCNhm~C~-C~~~-----FCw~C~~~ 310 (566)
+-.||+|..++.-..+=|.|.|. ||++ .|..||..
T Consensus 444 v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 444 IAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred cccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 45899999888766666899994 9987 89999987
No 145
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.07 E-value=2.8 Score=39.68 Aligned_cols=29 Identities=34% Similarity=0.981 Sum_probs=21.4
Q ss_pred cCCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCccee
Q 008419 233 ACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVE 287 (566)
Q Consensus 233 ~Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IE 287 (566)
.||+.||..|... ...++..||-|++-|.
T Consensus 150 kCGHvFC~~Cik~--------------------------alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 150 KCGHVFCSQCIKD--------------------------ALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccchhHHHHHHHH--------------------------HHHhCCCCCCcccccc
Confidence 5999999999542 1234589999997664
No 146
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=55.05 E-value=8.3 Score=41.53 Aligned_cols=18 Identities=33% Similarity=0.582 Sum_probs=11.2
Q ss_pred CCCCCCcccccccccccc
Q 008419 108 DPMLPLSSTVMCDICMEE 125 (566)
Q Consensus 108 ~~~~~~~~~~~C~IC~e~ 125 (566)
.+..|.+..|.|+-==++
T Consensus 186 tP~LPDSTDFVCGTLDED 203 (458)
T PF10446_consen 186 TPELPDSTDFVCGTLDED 203 (458)
T ss_pred CCCCCCcccccCCCcCCc
Confidence 345567778888764444
No 147
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=54.93 E-value=9.2 Score=30.16 Aligned_cols=28 Identities=25% Similarity=0.743 Sum_probs=18.9
Q ss_pred CCcCCCCCCcceeecCCCCeeEec-cCcc
Q 008419 275 HTKPCPKCHKPVEKNGGCNLVSCI-CGQA 302 (566)
Q Consensus 275 ~tK~CPkC~~~IEKn~GCNhm~C~-C~~~ 302 (566)
.++.||.|+....++..=..++|. ||+.
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCE
Confidence 468999999999873333456663 6554
No 148
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=54.70 E-value=11 Score=27.69 Aligned_cols=33 Identities=21% Similarity=0.462 Sum_probs=23.0
Q ss_pred cccccccccCCCceecCCCC-----ccchhhHHHHHHh
Q 008419 119 CDICMEEVAGDKATKMDCGH-----CFCNDCWTEHFIV 151 (566)
Q Consensus 119 C~IC~e~~~~~~~~~l~CgH-----~fC~~C~~~yl~~ 151 (566)
|-||++....+.+...||+- .....|+..|+..
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~ 38 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRE 38 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHH
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHh
Confidence 77999986655555567652 5788999999987
No 149
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=54.21 E-value=3 Score=43.05 Aligned_cols=28 Identities=29% Similarity=0.680 Sum_probs=21.2
Q ss_pred CcCCCCCCcceee-cCCCCeeEe-ccCccc
Q 008419 276 TKPCPKCHKPVEK-NGGCNLVSC-ICGQAF 303 (566)
Q Consensus 276 tK~CPkC~~~IEK-n~GCNhm~C-~C~~~F 303 (566)
|.+||+|+..|-+ .-.=|.+.| +|+++|
T Consensus 27 ~~~c~~c~~~~~~~~l~~~~~vc~~c~~h~ 56 (292)
T PRK05654 27 WTKCPSCGQVLYRKELEANLNVCPKCGHHM 56 (292)
T ss_pred eeECCCccchhhHHHHHhcCCCCCCCCCCe
Confidence 5899999988764 334567889 599887
No 150
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=53.95 E-value=11 Score=25.79 Aligned_cols=25 Identities=36% Similarity=0.915 Sum_probs=11.9
Q ss_pred cCCCCCCcceeec----CCCCeeEe-ccCc
Q 008419 277 KPCPKCHKPVEKN----GGCNLVSC-ICGQ 301 (566)
Q Consensus 277 K~CPkC~~~IEKn----~GCNhm~C-~C~~ 301 (566)
|.||+|+.+++.. ++=..+.| .||+
T Consensus 1 kfC~~CG~~l~~~ip~gd~r~R~vC~~Cg~ 30 (34)
T PF14803_consen 1 KFCPQCGGPLERRIPEGDDRERLVCPACGF 30 (34)
T ss_dssp -B-TTT--B-EEE--TT-SS-EEEETTTTE
T ss_pred CccccccChhhhhcCCCCCccceECCCCCC
Confidence 4688888888752 34456777 4764
No 151
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=53.64 E-value=5 Score=45.87 Aligned_cols=29 Identities=31% Similarity=0.906 Sum_probs=21.0
Q ss_pred cCCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCcce
Q 008419 233 ACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPV 286 (566)
Q Consensus 233 ~Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~I 286 (566)
.|||.||+.|-.. .+....++||+|+.+.
T Consensus 660 kC~H~FC~~Cvq~-------------------------r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 660 KCGHVFCEECVQT-------------------------RYETRQRKCPKCNAAF 688 (698)
T ss_pred hcchHHHHHHHHH-------------------------HHHHhcCCCCCCCCCC
Confidence 3999999999653 0112348999999875
No 152
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=52.54 E-value=12 Score=41.81 Aligned_cols=34 Identities=26% Similarity=0.677 Sum_probs=22.4
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCcc-----cccccccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQA-----FCWLCGGA 310 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~~-----FCw~C~~~ 310 (566)
-.||+|..++.--..=|.+.| .||+. .|-.|+..
T Consensus 223 ~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~ 262 (505)
T TIGR00595 223 LCCPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSE 262 (505)
T ss_pred cCCCCCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCC
Confidence 467777776653222346888 48866 68888765
No 153
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=52.50 E-value=15 Score=25.32 Aligned_cols=27 Identities=33% Similarity=0.870 Sum_probs=18.7
Q ss_pred cCCCCCCCCceEEecCC----cceeeEec-CCCee
Q 008419 209 WCPSTPHCGNAIRVEEV----EVCEVECA-CGAQF 238 (566)
Q Consensus 209 ~CP~~p~C~~~i~~~~~----~~~~v~C~-Cg~~f 238 (566)
-|| +|+..+.+..+ ....+.|+ |+..|
T Consensus 4 ~CP---~C~~~~~v~~~~~~~~~~~v~C~~C~~~~ 35 (38)
T TIGR02098 4 QCP---NCKTSFRVVDSQLGANGGKVRCGKCGHVW 35 (38)
T ss_pred ECC---CCCCEEEeCHHHcCCCCCEEECCCCCCEE
Confidence 587 59998887642 23368887 88765
No 154
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=51.58 E-value=11 Score=45.89 Aligned_cols=29 Identities=38% Similarity=0.982 Sum_probs=15.8
Q ss_pred cccCCCCCCCCceEEecCCcceeeEec-CCCee-----eccccCC
Q 008419 207 VKWCPSTPHCGNAIRVEEVEVCEVECA-CGAQF-----CFSCLSE 245 (566)
Q Consensus 207 ~~~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~~f-----C~~C~~~ 245 (566)
...|| .|+..+. ...|+ ||... |..|+.+
T Consensus 667 ~rkCP---kCG~~t~-------~~fCP~CGs~te~vy~CPsCGae 701 (1337)
T PRK14714 667 RRRCP---SCGTETY-------ENRCPDCGTHTEPVYVCPDCGAE 701 (1337)
T ss_pred EEECC---CCCCccc-------cccCcccCCcCCCceeCccCCCc
Confidence 35677 4765432 12565 66553 6666554
No 155
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.28 E-value=8.9 Score=38.10 Aligned_cols=37 Identities=14% Similarity=0.221 Sum_probs=31.8
Q ss_pred cccccccccccCCCceecCCCCccchhhHHHHHHhhhcc
Q 008419 117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINE 155 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~ 155 (566)
-.|++|+..+. +|+..+=||.||+.|+-+||..+-++
T Consensus 44 dcCsLtLqPc~--dPvit~~GylfdrEaILe~ilaqKke 80 (303)
T KOG3039|consen 44 DCCSLTLQPCR--DPVITPDGYLFDREAILEYILAQKKE 80 (303)
T ss_pred ceeeeeccccc--CCccCCCCeeeeHHHHHHHHHHHHHH
Confidence 46899998876 88888999999999999999887653
No 156
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.56 E-value=4.7 Score=40.48 Aligned_cols=30 Identities=33% Similarity=0.597 Sum_probs=23.1
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCcccccccccc-cc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQAFCWLCGGA-TG 312 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~~FCw~C~~~-~~ 312 (566)
.+|+-|-..+++ -.| .|||-|||.|+-. |.
T Consensus 216 ~kC~lC~e~~~~------ps~t~CgHlFC~~Cl~~~~t 247 (271)
T COG5574 216 YKCFLCLEEPEV------PSCTPCGHLFCLSCLLISWT 247 (271)
T ss_pred cceeeeecccCC------cccccccchhhHHHHHHHHH
Confidence 679999887652 456 4999999999866 54
No 157
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=50.55 E-value=6.8 Score=33.52 Aligned_cols=33 Identities=18% Similarity=0.473 Sum_probs=25.2
Q ss_pred CCccccccccccccccCCCceecCCCCccchhh
Q 008419 112 PLSSTVMCDICMEEVAGDKATKMDCGHCFCNDC 144 (566)
Q Consensus 112 ~~~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C 144 (566)
.....|+|..||=....+....-.=|+.+|++|
T Consensus 66 ~q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 66 KQADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 456789999999886655555545589999998
No 158
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=50.45 E-value=13 Score=26.69 Aligned_cols=22 Identities=36% Similarity=1.126 Sum_probs=16.1
Q ss_pred cCCCCCCcceee-cCCCCeeEe-ccC
Q 008419 277 KPCPKCHKPVEK-NGGCNLVSC-ICG 300 (566)
Q Consensus 277 K~CPkC~~~IEK-n~GCNhm~C-~C~ 300 (566)
..||.|+.|+-+ ..| .++| .|+
T Consensus 18 ~~Cp~C~~PL~~~k~g--~~~Cv~C~ 41 (41)
T PF06677_consen 18 EHCPDCGTPLMRDKDG--KIYCVSCG 41 (41)
T ss_pred CccCCCCCeeEEecCC--CEECCCCC
Confidence 689999999887 444 4677 363
No 159
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.54 E-value=5.4 Score=44.65 Aligned_cols=36 Identities=25% Similarity=0.719 Sum_probs=28.3
Q ss_pred ccccccccccccC--CCceecCCCCccchhhHHHHHHh
Q 008419 116 TVMCDICMEEVAG--DKATKMDCGHCFCNDCWTEHFIV 151 (566)
Q Consensus 116 ~~~C~IC~e~~~~--~~~~~l~CgH~fC~~C~~~yl~~ 151 (566)
-..|+||+..+-. -.++++.|||..|+-|.......
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~ 48 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA 48 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc
Confidence 4679999877542 36789999999999999876553
No 160
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=48.65 E-value=12 Score=28.90 Aligned_cols=6 Identities=67% Similarity=2.084 Sum_probs=3.1
Q ss_pred CCCCCC
Q 008419 278 PCPKCH 283 (566)
Q Consensus 278 ~CPkC~ 283 (566)
.||+|+
T Consensus 29 ~CPnCG 34 (61)
T COG2888 29 PCPNCG 34 (61)
T ss_pred eCCCCC
Confidence 455555
No 161
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=48.51 E-value=15 Score=37.60 Aligned_cols=47 Identities=30% Similarity=0.619 Sum_probs=36.3
Q ss_pred ccccccccccccccC--CCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 114 SSTVMCDICMEEVAG--DKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~--~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
+....||||.+.+.. ..+..++|||+.-..|+..++.. . +.||. |..
T Consensus 156 ~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~-------~-y~CP~--C~~ 204 (276)
T KOG1940|consen 156 SSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICE-------G-YTCPI--CSK 204 (276)
T ss_pred cccCCCchhHHHhccccccCCccCcccchHHHHHHHHhcc-------C-CCCCc--ccc
Confidence 345679999998542 34566799999999999998764 2 79999 887
No 162
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.50 E-value=15 Score=38.90 Aligned_cols=6 Identities=33% Similarity=0.872 Sum_probs=3.4
Q ss_pred cccccc
Q 008419 121 ICMEEV 126 (566)
Q Consensus 121 IC~e~~ 126 (566)
||++.-
T Consensus 396 Ic~~ts 401 (514)
T KOG3130|consen 396 ICSDTS 401 (514)
T ss_pred ccccCC
Confidence 666553
No 163
>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=48.20 E-value=10 Score=33.23 Aligned_cols=25 Identities=32% Similarity=0.874 Sum_probs=15.4
Q ss_pred cCCCCCCccee-ecCCCCeeEe-ccCccc
Q 008419 277 KPCPKCHKPVE-KNGGCNLVSC-ICGQAF 303 (566)
Q Consensus 277 K~CPkC~~~IE-Kn~GCNhm~C-~C~~~F 303 (566)
+.||+|++..- .|- +-++| +||..|
T Consensus 10 R~Cp~CG~kFYDLnk--~PivCP~CG~~~ 36 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNK--DPIVCPKCGTEF 36 (108)
T ss_pred ccCCCCcchhccCCC--CCccCCCCCCcc
Confidence 57998886543 222 55777 466654
No 164
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=48.17 E-value=5.5 Score=45.37 Aligned_cols=53 Identities=25% Similarity=0.580 Sum_probs=40.4
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHH
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAV 176 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~ 176 (566)
...+|+||+..+. .++.+.|.|.||..||..-+...-. ...||. |+..++-..
T Consensus 20 k~lEc~ic~~~~~--~p~~~kc~~~~l~~~~n~~f~~~~~-----~~~~~l--c~~~~eK~s 72 (684)
T KOG4362|consen 20 KILECPICLEHVK--EPSLLKCDHIFLKFCLNKLFESKKG-----PKQCAL--CKSDIEKRS 72 (684)
T ss_pred hhccCCceeEEee--ccchhhhhHHHHhhhhhceeeccCc-----cccchh--hhhhhhhhh
Confidence 3578999999876 6678899999999999988776332 468888 776554433
No 165
>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=48.05 E-value=3.7 Score=32.89 Aligned_cols=39 Identities=23% Similarity=0.515 Sum_probs=22.1
Q ss_pred cccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
..||.|-.++.... +|.+|..|-..|-. ...||. |...+
T Consensus 2 ~~CP~C~~~L~~~~------~~~~C~~C~~~~~~---------~a~CPd--C~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG------GHYHCEACQKDYKK---------EAFCPD--CGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET------TEEEETTT--EEEE---------EEE-TT--T-SB-
T ss_pred CcCCCCCCccEEeC------CEEECcccccccee---------cccCCC--cccHH
Confidence 57999988765322 89999999886633 368998 87653
No 166
>PRK04023 DNA polymerase II large subunit; Validated
Probab=47.88 E-value=15 Score=43.61 Aligned_cols=39 Identities=26% Similarity=0.360 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHH-------HHhhhhhhhhhccCCccccCCCC
Q 008419 472 QVINLSVITDTLCKKMYEC-------IENDLLGCLQLGTHNIARYQSKG 513 (566)
Q Consensus 472 ~~~~l~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~i~~~~~~~ 513 (566)
-+...++.+|.+..++|.- -.++|-|- ....+||..|-|
T Consensus 799 yll~va~fiDdLL~k~Ygl~~fYn~~~~eDLiGh---LViGlAPHTSag 844 (1121)
T PRK04023 799 YLLRVAKFIDDLLEKYYGLEPFYNVEKREDLIGH---LVIGLAPHTSAG 844 (1121)
T ss_pred HHHHHHHHHHHHHHHhcCCCccCCCCChhhcccc---eeeccCCccccc
Confidence 3455677778777776642 22344433 346677776643
No 167
>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=47.78 E-value=6.1 Score=30.13 Aligned_cols=45 Identities=22% Similarity=0.510 Sum_probs=32.0
Q ss_pred cccccccccccCCCceecCCC--CccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 117 VMCDICMEEVAGDKATKMDCG--HCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~Cg--H~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
..|..|-.+++.+.....-|. ..||.+|-...+. -.||. |+..+.
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~----------~~CPN--CgGelv 52 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLN----------GVCPN--CGGELV 52 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc----------CcCcC--CCCccc
Confidence 358889888876654455555 4799999887764 26888 876543
No 168
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=47.73 E-value=30 Score=40.86 Aligned_cols=21 Identities=29% Similarity=0.491 Sum_probs=15.4
Q ss_pred HHHHHHHHHcCCChHHHHHHH
Q 008419 67 HHARTLLIHYRWDVEKLLAVL 87 (566)
Q Consensus 67 ~~a~~LL~~~~W~~~~l~~~~ 87 (566)
..++..++|||-.+=.|++.|
T Consensus 763 ~~~~~~~~~Fk~RvlDLleiy 783 (784)
T PF04931_consen 763 KEAKENVIHFKNRVLDLLEIY 783 (784)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 367778888877777777766
No 169
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=47.58 E-value=4.3 Score=41.89 Aligned_cols=27 Identities=22% Similarity=0.401 Sum_probs=13.8
Q ss_pred cCCCCCCcceee-cCCCCeeEe-ccCccc
Q 008419 277 KPCPKCHKPVEK-NGGCNLVSC-ICGQAF 303 (566)
Q Consensus 277 K~CPkC~~~IEK-n~GCNhm~C-~C~~~F 303 (566)
.+||+|+..|-+ .-.=|...| .|+++|
T Consensus 39 ~kc~~C~~~~~~~~l~~~~~vcp~c~~h~ 67 (296)
T CHL00174 39 VQCENCYGLNYKKFLKSKMNICEQCGYHL 67 (296)
T ss_pred eECCCccchhhHHHHHHcCCCCCCCCCCc
Confidence 566666665543 223344555 366543
No 170
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.21 E-value=16 Score=34.46 Aligned_cols=57 Identities=25% Similarity=0.472 Sum_probs=38.8
Q ss_pred ccccccccccc-ccCCC----ceecCCCCccchhhHHHHHHhhhccCCccee---ecCcccccccch
Q 008419 115 STVMCDICMEE-VAGDK----ATKMDCGHCFCNDCWTEHFIVKINEGQSKRI---RCMAHKCNAICD 173 (566)
Q Consensus 115 ~~~~C~IC~e~-~~~~~----~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i---~CP~~~C~~~~~ 173 (566)
....|.||+-- +...- .-...||..|..-|+..|+..-+...+++.| .||- |..++.
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPY--CS~Pia 228 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPY--CSDPIA 228 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCC--CCCcce
Confidence 34568888753 22111 1234799999999999999988777776554 6887 776554
No 171
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=47.17 E-value=10 Score=40.84 Aligned_cols=7 Identities=14% Similarity=0.216 Sum_probs=3.3
Q ss_pred HHHHHHH
Q 008419 346 YMHYHNR 352 (566)
Q Consensus 346 y~~y~~r 352 (566)
|..|++|
T Consensus 407 ~rk~C~r 413 (458)
T PF10446_consen 407 WRKHCRR 413 (458)
T ss_pred HHHHHHH
Confidence 4445543
No 172
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=46.92 E-value=5.7 Score=40.64 Aligned_cols=89 Identities=25% Similarity=0.499 Sum_probs=47.9
Q ss_pred CCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHHHHhhcCCChhHHHHHHHHH-HHhhhhcC----cccccCC
Q 008419 137 GHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVVRNLVSKKHPNLAEKFERFL-LESFIEDN----KMVKWCP 211 (566)
Q Consensus 137 gH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i~~ll~~~~~e~~~ky~~~l-~~~~v~~~----~~~~~CP 211 (566)
|-++|..|-..-. +.||.||. |... -+++ ..+...|..+. ++.+++.. +....|-
T Consensus 307 gGy~CP~CktkVC--------sLPi~CP~--Csl~-------Lils---thLarSyhhL~PLk~f~E~p~~~~~ks~~Cf 366 (421)
T COG5151 307 GGYECPVCKTKVC--------SLPISCPI--CSLQ-------LILS---THLARSYHHLYPLKPFVEKPEGTNPKSTHCF 366 (421)
T ss_pred CceeCCcccceee--------cCCccCcc--hhHH-------HHHH---HHHHHHHHhhccCcccccccCCCCCCCccce
Confidence 4567777743321 25788887 6532 2333 44555565443 44454432 2333454
Q ss_pred CCCCCCceEEecC-------CcceeeEec-CCCeeeccccCCCCC
Q 008419 212 STPHCGNAIRVEE-------VEVCEVECA-CGAQFCFSCLSEAHS 248 (566)
Q Consensus 212 ~~p~C~~~i~~~~-------~~~~~v~C~-Cg~~fC~~C~~~~H~ 248 (566)
.|+..+.... .......|. |...||..|..-.|.
T Consensus 367 ---~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe 408 (421)
T COG5151 367 ---VCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHE 408 (421)
T ss_pred ---eccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHH
Confidence 3655444221 122347897 999999999765453
No 173
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=46.29 E-value=13 Score=31.91 Aligned_cols=24 Identities=33% Similarity=0.804 Sum_probs=17.6
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCcc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQA 302 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~~ 302 (566)
+.||+|+.++...+ +.+.| .|++.
T Consensus 1 ~fC~~Cg~~l~~~~--~~~~C~~C~~~ 25 (104)
T TIGR01384 1 KFCPKCGSLMTPKN--GVYVCPSCGYE 25 (104)
T ss_pred CCCcccCcccccCC--CeEECcCCCCc
Confidence 36999999887654 37888 47775
No 174
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=45.90 E-value=6.8 Score=39.69 Aligned_cols=29 Identities=28% Similarity=0.626 Sum_probs=21.6
Q ss_pred CCcCCCCCCcceee-cCCCCeeEe-ccCccc
Q 008419 275 HTKPCPKCHKPVEK-NGGCNLVSC-ICGQAF 303 (566)
Q Consensus 275 ~tK~CPkC~~~IEK-n~GCNhm~C-~C~~~F 303 (566)
.|.+||.|+..+-+ .-+=|...| +|+++|
T Consensus 27 lw~KCp~c~~~~y~~eL~~n~~vcp~c~~h~ 57 (294)
T COG0777 27 LWTKCPSCGEMLYRKELESNLKVCPKCGHHM 57 (294)
T ss_pred ceeECCCccceeeHHHHHhhhhcccccCccc
Confidence 35899999988764 446677888 588775
No 175
>PF15358 TSKS: Testis-specific serine kinase substrate
Probab=45.72 E-value=1.9e+02 Score=31.09 Aligned_cols=91 Identities=23% Similarity=0.304 Sum_probs=58.7
Q ss_pred HHHHHHhhHHHHHHHHHhhhhhHHHHH-HHHHHHHHHHHHHhhhhccccchhHHHHHHHHHHH-HhHhhhccccceeecc
Q 008419 338 RAKRELYRYMHYHNRYKAHTDSFKLES-KLKETVLEKVSISEERESRLRDFSWVTNGLYRLFR-SRRVLSYSYPFAFYMF 415 (566)
Q Consensus 338 ~~k~~l~ry~~y~~r~~~h~~s~k~e~-~l~~~i~~k~~~~~~~~~~~~~~~~l~~a~~~l~~-~R~~L~~sy~~~yy~~ 415 (566)
++|.++--...--.|++.|.+.++-+- .+.+.++.+-++.++ |+.-..+|.. ||.|..-
T Consensus 122 rAKDSItSlKekt~~vnQHVq~LQseCsvlsEnLErrrQEaeE----------LEgyCsqLk~nCrkVt~S--------- 182 (558)
T PF15358_consen 122 RAKDSITSLKEKTSRVNQHVQTLQSECSVLSENLERRRQEAEE----------LEGYCSQLKENCRKVTRS--------- 182 (558)
T ss_pred ecccchhhHHHhhHHHHHHHHHHHHHhHHHHHHHHhhhhHHHH----------HHHHHHHHHHHHHHHhhh---------
Confidence 345555445555678889999988774 466666666665555 6666666664 4443322
Q ss_pred cccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 008419 416 GEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLSKFLEEP 457 (566)
Q Consensus 416 ~~~~~~~~~~~~~~~~~~~lfe~~Q~~le~~~E~L~~~le~~ 457 (566)
-++.+.+.+....+-..||..+.-|...|..+
T Consensus 183 ----------VedaEiKtnvLkqnS~~LEekLr~lq~qLqdE 214 (558)
T PF15358_consen 183 ----------VEDAEIKTNVLKQNSALLEEKLRYLQQQLQDE 214 (558)
T ss_pred ----------HHHHHHHhcccccchHHHHHHHHHHHHHhccc
Confidence 12334677788888888888888777777643
No 176
>PRK14873 primosome assembly protein PriA; Provisional
Probab=45.64 E-value=16 Score=42.25 Aligned_cols=34 Identities=29% Similarity=0.712 Sum_probs=21.5
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCcc----cccccccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQA----FCWLCGGA 310 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~~----FCw~C~~~ 310 (566)
-.||+|..++.-..+=+.+.| .||+. .|-.|+..
T Consensus 393 ~~C~~C~~~L~~h~~~~~l~Ch~CG~~~~p~~Cp~Cgs~ 431 (665)
T PRK14873 393 ARCRHCTGPLGLPSAGGTPRCRWCGRAAPDWRCPRCGSD 431 (665)
T ss_pred eECCCCCCceeEecCCCeeECCCCcCCCcCccCCCCcCC
Confidence 467777776664334456788 48763 57777664
No 177
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=45.63 E-value=5 Score=41.32 Aligned_cols=28 Identities=29% Similarity=0.579 Sum_probs=19.9
Q ss_pred CcCCCCCCcceeec-CCCCeeEe-ccCccc
Q 008419 276 TKPCPKCHKPVEKN-GGCNLVSC-ICGQAF 303 (566)
Q Consensus 276 tK~CPkC~~~IEKn-~GCNhm~C-~C~~~F 303 (566)
|.+||+|+..|-+. -.=|.+.| .|+++|
T Consensus 26 ~~~c~~c~~~~~~~~l~~~~~vc~~c~~h~ 55 (285)
T TIGR00515 26 WTKCPKCGQVLYTKELERNLEVCPKCDHHM 55 (285)
T ss_pred eeECCCCcchhhHHHHHhhCCCCCCCCCcC
Confidence 58899998887643 33466788 588875
No 178
>PF12773 DZR: Double zinc ribbon
Probab=45.33 E-value=9.2 Score=28.12 Aligned_cols=11 Identities=36% Similarity=0.818 Sum_probs=7.1
Q ss_pred cCCCCCCccee
Q 008419 277 KPCPKCHKPVE 287 (566)
Q Consensus 277 K~CPkC~~~IE 287 (566)
+.||+|+..+.
T Consensus 30 ~~C~~Cg~~~~ 40 (50)
T PF12773_consen 30 KICPNCGAENP 40 (50)
T ss_pred CCCcCCcCCCc
Confidence 56777766655
No 179
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=44.97 E-value=7.6 Score=39.78 Aligned_cols=53 Identities=26% Similarity=0.611 Sum_probs=37.6
Q ss_pred CcccccCCCCCCCCceEEecCCcceeeEecCCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCC
Q 008419 204 NKMVKWCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCH 283 (566)
Q Consensus 204 ~~~~~~CP~~p~C~~~i~~~~~~~~~v~C~Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~ 283 (566)
++.+.+|- .|+..|.+=+.- =+|.+.||..|... |. .|.||.|.
T Consensus 87 ~p~VHfCd---~Cd~PI~IYGRm-----IPCkHvFCl~CAr~-~~---------------------------dK~Cp~C~ 130 (389)
T KOG2932|consen 87 GPRVHFCD---RCDFPIAIYGRM-----IPCKHVFCLECARS-DS---------------------------DKICPLCD 130 (389)
T ss_pred CcceEeec---ccCCcceeeecc-----cccchhhhhhhhhc-Cc---------------------------cccCcCcc
Confidence 45677786 598877633221 15999999999653 22 18999999
Q ss_pred cceeecCCC
Q 008419 284 KPVEKNGGC 292 (566)
Q Consensus 284 ~~IEKn~GC 292 (566)
-.|+|.+-|
T Consensus 131 d~VqrIeq~ 139 (389)
T KOG2932|consen 131 DRVQRIEQI 139 (389)
T ss_pred cHHHHHHHh
Confidence 999987765
No 180
>PF14369 zf-RING_3: zinc-finger
Probab=44.96 E-value=18 Score=24.96 Aligned_cols=28 Identities=29% Similarity=0.883 Sum_probs=18.8
Q ss_pred ccCCCCCCCCceEEecCCcceeeEec-CCCee
Q 008419 208 KWCPSTPHCGNAIRVEEVEVCEVECA-CGAQF 238 (566)
Q Consensus 208 ~~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~~f 238 (566)
-||- .|...+.........+.|| |+..|
T Consensus 3 ywCh---~C~~~V~~~~~~~~~~~CP~C~~gF 31 (35)
T PF14369_consen 3 YWCH---QCNRFVRIAPSPDSDVACPRCHGGF 31 (35)
T ss_pred EeCc---cCCCEeEeCcCCCCCcCCcCCCCcE
Confidence 3897 5999998754333345687 87655
No 181
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=44.95 E-value=13 Score=33.54 Aligned_cols=23 Identities=48% Similarity=1.148 Sum_probs=18.1
Q ss_pred cCCCCCCcceeecCCCCeeEeccCcccccccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSCICGQAFCWLCG 308 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C~C~~~FCw~C~ 308 (566)
+.||.|+.|+.+ +-|.-||-+|+
T Consensus 29 ~hCp~Cg~PLF~---------KdG~v~CPvC~ 51 (131)
T COG1645 29 KHCPKCGTPLFR---------KDGEVFCPVCG 51 (131)
T ss_pred hhCcccCCccee---------eCCeEECCCCC
Confidence 789999999764 45667777777
No 182
>PF07975 C1_4: TFIIH C1-like domain; InterPro: IPR004595 All proteins in this domain for which functions are known are components of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. It includes the yeast transcription factor Ssl1 (Suppressor of stem-loop protein 1) that is essential for translation initiation and affects UV resistance. The C-terminal region is essential for transcription activity. This regions binds three zinc atoms through two independent domain. The first contains a C4 zinc finger motif, whereas the second is characterised by a CX(2)CX(2-4)FCADCD motif. The solution structure of the second C-terminal domain revealed homology with the regulatory domain of protein kinase C [].; GO: 0006281 DNA repair, 0005634 nucleus; PDB: 1Z60_A.
Probab=44.90 E-value=10 Score=28.58 Aligned_cols=22 Identities=27% Similarity=0.772 Sum_probs=13.1
Q ss_pred eeeEec-CCCeeeccccCCCCCC
Q 008419 228 CEVECA-CGAQFCFSCLSEAHSP 249 (566)
Q Consensus 228 ~~v~C~-Cg~~fC~~C~~~~H~p 249 (566)
....|+ |+..||..|-.-.|.-
T Consensus 20 ~~y~C~~C~~~FC~dCD~fiHE~ 42 (51)
T PF07975_consen 20 SRYRCPKCKNHFCIDCDVFIHET 42 (51)
T ss_dssp EEE--TTTT--B-HHHHHTTTTT
T ss_pred CeEECCCCCCccccCcChhhhcc
Confidence 457998 9999999997766753
No 183
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=44.56 E-value=16 Score=31.75 Aligned_cols=26 Identities=31% Similarity=0.807 Sum_probs=16.1
Q ss_pred cCCCCCCcceeecCCCCeeEec-cCccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSCI-CGQAF 303 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C~-C~~~F 303 (566)
-.||+|+.-.-=..| +.+.|. |+|+|
T Consensus 3 p~CP~C~seytY~dg-~~~iCpeC~~EW 29 (109)
T TIGR00686 3 PPCPKCNSEYTYHDG-TQLICPSCLYEW 29 (109)
T ss_pred CcCCcCCCcceEecC-CeeECccccccc
Confidence 479999876655555 235553 55553
No 184
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=44.56 E-value=19 Score=26.50 Aligned_cols=26 Identities=35% Similarity=0.882 Sum_probs=16.7
Q ss_pred cCCCCCCCCceEEecCCcc-eeeEec-CCCe
Q 008419 209 WCPSTPHCGNAIRVEEVEV-CEVECA-CGAQ 237 (566)
Q Consensus 209 ~CP~~p~C~~~i~~~~~~~-~~v~C~-Cg~~ 237 (566)
+|| .|+..+....... ....|+ ||+.
T Consensus 2 FCp---~Cg~~l~~~~~~~~~~~vC~~Cg~~ 29 (52)
T smart00661 2 FCP---KCGNMLIPKEGKEKRRFVCRKCGYE 29 (52)
T ss_pred CCC---CCCCccccccCCCCCEEECCcCCCe
Confidence 688 5999887654322 356676 7754
No 185
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.87 E-value=14 Score=42.85 Aligned_cols=40 Identities=20% Similarity=0.578 Sum_probs=30.6
Q ss_pred cccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 117 VMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
-.|..|--++.. .++...|||.|.+.|+. ++. -.||. |..
T Consensus 841 skCs~C~~~Ldl-P~VhF~CgHsyHqhC~e--------~~~---~~CP~--C~~ 880 (933)
T KOG2114|consen 841 SKCSACEGTLDL-PFVHFLCGHSYHQHCLE--------DKE---DKCPK--CLP 880 (933)
T ss_pred eeecccCCcccc-ceeeeecccHHHHHhhc--------cCc---ccCCc--cch
Confidence 579999877652 45667999999999998 333 68988 875
No 186
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=43.56 E-value=17 Score=29.74 Aligned_cols=54 Identities=22% Similarity=0.633 Sum_probs=19.9
Q ss_pred CCCceEEecCCcceeeEec-CCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCcceeecCCCC
Q 008419 215 HCGNAIRVEEVEVCEVECA-CGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCN 293 (566)
Q Consensus 215 ~C~~~i~~~~~~~~~v~C~-Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IEKn~GCN 293 (566)
-|+--+.........|-|. |+...|..|.. +. ++..++.||+|+.+..+..|+-
T Consensus 14 iCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyE----------YE---------------rkeg~q~CpqCkt~ykr~kgsp 68 (80)
T PF14569_consen 14 ICGDDVGLTENGEVFVACHECAFPVCRPCYE----------YE---------------RKEGNQVCPQCKTRYKRHKGSP 68 (80)
T ss_dssp SS--B--B-SSSSB--S-SSS-----HHHHH----------HH---------------HHTS-SB-TTT--B----TT--
T ss_pred cccCccccCCCCCEEEEEcccCCccchhHHH----------HH---------------hhcCcccccccCCCcccccCCC
Confidence 4877777666555678896 99998887732 11 1234589999999988766653
No 187
>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family. Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.
Probab=43.38 E-value=20 Score=26.90 Aligned_cols=11 Identities=45% Similarity=0.942 Sum_probs=8.3
Q ss_pred cCCCCCCccee
Q 008419 277 KPCPKCHKPVE 287 (566)
Q Consensus 277 K~CPkC~~~IE 287 (566)
|+||.|+-.-+
T Consensus 2 kPCPfCGg~~~ 12 (53)
T TIGR03655 2 KPCPFCGGADV 12 (53)
T ss_pred CCCCCCCCcce
Confidence 79999975444
No 188
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=43.32 E-value=26 Score=25.36 Aligned_cols=29 Identities=31% Similarity=0.871 Sum_probs=20.7
Q ss_pred cCCCCCCCCceEEecCCcceeeEec-CCCeeecc
Q 008419 209 WCPSTPHCGNAIRVEEVEVCEVECA-CGAQFCFS 241 (566)
Q Consensus 209 ~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~~fC~~ 241 (566)
.|| +|+..+..+.... .+.|+ ||..+=..
T Consensus 5 ~C~---~CG~~~~~~~~~~-~~~Cp~CG~~~~~~ 34 (46)
T PRK00398 5 KCA---RCGREVELDEYGT-GVRCPYCGYRILFK 34 (46)
T ss_pred ECC---CCCCEEEECCCCC-ceECCCCCCeEEEc
Confidence 587 5999888766443 58898 98876543
No 189
>PRK05580 primosome assembly protein PriA; Validated
Probab=43.17 E-value=19 Score=41.70 Aligned_cols=34 Identities=26% Similarity=0.673 Sum_probs=23.2
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCcc-----cccccccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQA-----FCWLCGGA 310 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~~-----FCw~C~~~ 310 (566)
-.||+|..++.-...=|.+.| .||+. .|-.|++.
T Consensus 391 ~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~ 430 (679)
T PRK05580 391 AECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGST 430 (679)
T ss_pred cCCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCC
Confidence 478888877653222356889 49875 58888765
No 190
>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=42.97 E-value=23 Score=26.41 Aligned_cols=46 Identities=17% Similarity=0.465 Sum_probs=24.4
Q ss_pred cccccccccccCCCce-ecCCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 117 VMCDICMEEVAGDKAT-KMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~-~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
..|+|-+..+. -|+ ...|.|.-|.| +..|+....+.+. .+||. |..
T Consensus 3 L~CPls~~~i~--~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~---W~CPi--C~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIR--IPVRGKNCKHLQCFD-LESFLESNQRTPK---WKCPI--CNK 49 (50)
T ss_dssp SB-TTTSSB-S--SEEEETT--SS--EE-HHHHHHHHHHS------B-TT--T--
T ss_pred eeCCCCCCEEE--eCccCCcCcccceEC-HHHHHHHhhccCC---eECcC--CcC
Confidence 56888887754 444 45999998854 7788887766554 89998 764
No 191
>PF12959 DUF3848: Protein of unknown function (DUF3848); InterPro: IPR024380 This domain is found in a family of uncharacterised proteins found by clustering human gut metagenomic sequences[].
Probab=42.42 E-value=98 Score=26.68 Aligned_cols=48 Identities=25% Similarity=0.290 Sum_probs=38.6
Q ss_pred eCHHHHHH-----HHHHHHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHHHhc
Q 008419 42 ITRESLLA-----AQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVEN 90 (566)
Q Consensus 42 lt~~~l~~-----~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~~~~ 90 (566)
.++++|+. .++++|-.+++-+.++..+|.+||. ..=-.+.|++.|...
T Consensus 24 qpPeeIl~~AYEy~VkeDi~m~~ee~~l~~~qa~ALl~-sp~PL~~iY~~w~~~ 76 (101)
T PF12959_consen 24 QPPEEILNHAYEYTVKEDILMAMEELELPDQQAKALLK-SPSPLADIYREWEKK 76 (101)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHc-CCChHHHHHHHHHhc
Confidence 45677765 5789999999999999999999996 455677888888754
No 192
>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=42.38 E-value=12 Score=27.70 Aligned_cols=44 Identities=23% Similarity=0.489 Sum_probs=22.5
Q ss_pred cccccccccccCCCceecCCC-CccchhhHHHHHHhhhccCCcceeecCcccccccchh
Q 008419 117 VMCDICMEEVAGDKATKMDCG-HCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDE 174 (566)
Q Consensus 117 ~~C~IC~e~~~~~~~~~l~Cg-H~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~ 174 (566)
+.|-.|.-... -.+.|. |+.|..|++..+.. + -.||. |+.++|.
T Consensus 3 ~nCKsCWf~~k----~Li~C~dHYLCl~CLt~ml~~----s----~~C~i--C~~~LPt 47 (50)
T PF03854_consen 3 YNCKSCWFANK----GLIKCSDHYLCLNCLTLMLSR----S----DRCPI--CGKPLPT 47 (50)
T ss_dssp ----SS-S--S----SEEE-SS-EEEHHHHHHT-SS----S----SEETT--TTEE---
T ss_pred ccChhhhhcCC----CeeeecchhHHHHHHHHHhcc----c----cCCCc--ccCcCcc
Confidence 46777764422 234665 99999999988764 2 37988 8887764
No 193
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.28 E-value=20 Score=36.00 Aligned_cols=54 Identities=15% Similarity=0.335 Sum_probs=38.3
Q ss_pred cccccccccccccCCCc--eecCCC-----CccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 115 STVMCDICMEEVAGDKA--TKMDCG-----HCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~--~~l~Cg-----H~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
..-.|=|||.+-..+.. ..-||. |-....|+..|+..+-......++.||+ |..
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~Q--CqT 79 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQ--CQT 79 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechh--hcc
Confidence 45789999987432211 222664 5588999999999887644457899999 886
No 194
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=41.22 E-value=19 Score=23.53 Aligned_cols=24 Identities=29% Similarity=0.778 Sum_probs=13.4
Q ss_pred cCCCCCCcceee--cCCCCeeEe-ccC
Q 008419 277 KPCPKCHKPVEK--NGGCNLVSC-ICG 300 (566)
Q Consensus 277 K~CPkC~~~IEK--n~GCNhm~C-~C~ 300 (566)
++||+|..+|++ .+|=+...| +|.
T Consensus 2 ~~C~rC~~~~~~~~~~~r~~~~C~rCq 28 (30)
T PF06827_consen 2 EKCPRCWNYIEDIGINGRSTYLCPRCQ 28 (30)
T ss_dssp SB-TTT--BBEEEEETTEEEEE-TTTC
T ss_pred CcCccCCCcceEeEecCCCCeECcCCc
Confidence 589999999875 345555667 464
No 195
>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=41.02 E-value=47 Score=29.32 Aligned_cols=42 Identities=24% Similarity=0.592 Sum_probs=28.8
Q ss_pred CCcCCCCCCcceeecCCCCeeEe-ccCccccccccccccCCCCc
Q 008419 275 HTKPCPKCHKPVEKNGGCNLVSC-ICGQAFCWLCGGATGRDHTW 317 (566)
Q Consensus 275 ~tK~CPkC~~~IEKn~GCNhm~C-~C~~~FCw~C~~~~~~~H~~ 317 (566)
+.+.|..|+.+.-.-++.. ..| .|++.+|-.|+........|
T Consensus 53 ~~~~C~~C~~~fg~l~~~~-~~C~~C~~~VC~~C~~~~~~~~~W 95 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRG-RVCVDCKHRVCKKCGVYSKKEPIW 95 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTC-EEETTTTEEEETTSEEETSSSCCE
T ss_pred CCcchhhhCCcccccCCCC-CcCCcCCccccCccCCcCCCCCCE
Confidence 5689999998765544444 889 59999999999873334444
No 196
>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=40.60 E-value=24 Score=25.46 Aligned_cols=41 Identities=27% Similarity=0.630 Sum_probs=19.9
Q ss_pred cccccccccCCCce-ecCCCCccchhhHHHHHHhhhccCCcceeecCc
Q 008419 119 CDICMEEVAGDKAT-KMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMA 165 (566)
Q Consensus 119 C~IC~e~~~~~~~~-~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~ 165 (566)
|.+|-+.+.....- ...|+=++...|+..||...-. .+||.
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~------~~CP~ 42 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSN------PKCPN 42 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-------B-TT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCC------CCCcC
Confidence 66777765522111 1248889999999999986321 27886
No 197
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=40.36 E-value=35 Score=25.57 Aligned_cols=37 Identities=19% Similarity=0.301 Sum_probs=31.9
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHHHh
Q 008419 53 EDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVE 89 (566)
Q Consensus 53 ~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~~~ 89 (566)
+.|..++...|++..-+...|...+||-++-+..|.+
T Consensus 2 ~mv~~~s~~Tgmn~~~s~~CL~~n~Wd~~~A~~~F~~ 38 (51)
T PF03943_consen 2 EMVQQFSQQTGMNLEWSQKCLEENNWDYERALQNFEE 38 (51)
T ss_dssp HHHHHHHHHCSS-CCHHHHHHHHTTT-CCHHHHHHHH
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 5678899999999999999999999999999988875
No 198
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=39.90 E-value=23 Score=29.64 Aligned_cols=28 Identities=29% Similarity=0.706 Sum_probs=21.0
Q ss_pred CcCCCCCCcceeecCCCCeeEe-ccCccc
Q 008419 276 TKPCPKCHKPVEKNGGCNLVSC-ICGQAF 303 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCNhm~C-~C~~~F 303 (566)
-..||.|+...-|..+=---.| +||+.|
T Consensus 35 ~~~Cp~C~~~~VkR~a~GIW~C~kCg~~f 63 (89)
T COG1997 35 KHVCPFCGRTTVKRIATGIWKCRKCGAKF 63 (89)
T ss_pred CCcCCCCCCcceeeeccCeEEcCCCCCee
Confidence 3689999999888776555667 477766
No 199
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=39.58 E-value=14 Score=37.56 Aligned_cols=32 Identities=28% Similarity=0.744 Sum_probs=25.7
Q ss_pred cCCCCCCcceeecCCCCeeEe--ccCccccccccccccCCC
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC--ICGQAFCWLCGGATGRDH 315 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C--~C~~~FCw~C~~~~~~~H 315 (566)
-+|--|.-.|- +-| .|||-||++|-...-..|
T Consensus 26 lrC~IC~~~i~-------ip~~TtCgHtFCslCIR~hL~~q 59 (391)
T COG5432 26 LRCRICDCRIS-------IPCETTCGHTFCSLCIRRHLGTQ 59 (391)
T ss_pred HHhhhhhheee-------cceecccccchhHHHHHHHhcCC
Confidence 57888888887 889 499999999988754444
No 200
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=39.40 E-value=21 Score=40.94 Aligned_cols=47 Identities=32% Similarity=0.607 Sum_probs=36.2
Q ss_pred cccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccc
Q 008419 115 STVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNA 170 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~ 170 (566)
..+.|.||.-.+.....+...|+|....+|...||.. |. .||. ||+.
T Consensus 1027 ~~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~----gd----~Cps-GCGC 1073 (1081)
T KOG0309|consen 1027 FTFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRT----GD----VCPS-GCGC 1073 (1081)
T ss_pred ceeeeeeEeeEeeccchhhccccccccHHHHHHHHhc----CC----cCCC-CCCc
Confidence 4577999877776666677799999999999999987 33 6875 3443
No 201
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=39.36 E-value=1.2e+02 Score=23.84 Aligned_cols=41 Identities=20% Similarity=0.297 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHHHh
Q 008419 49 AAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVE 89 (566)
Q Consensus 49 ~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~~~ 89 (566)
..|.+.|..++...|++..-++.+|-...||-++-+..|.+
T Consensus 10 ~~q~~~v~~~~~~Tgmn~~~s~~cLe~~~Wd~~~Al~~F~~ 50 (63)
T smart00804 10 PEQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTE 50 (63)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 45778889999999999999999999999999998888764
No 202
>PF01599 Ribosomal_S27: Ribosomal protein S27a; InterPro: IPR002906 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesized as a C-terminal extension of ubiquitin (CEP) (IPR000626 from INTERPRO). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis []. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2K4X_A 3U5C_f 3U5G_f 2XZN_9 2XZM_9.
Probab=39.31 E-value=22 Score=26.31 Aligned_cols=26 Identities=31% Similarity=0.604 Sum_probs=16.8
Q ss_pred CcCCC--CCCcceeecCCCCeeEe-ccCc
Q 008419 276 TKPCP--KCHKPVEKNGGCNLVSC-ICGQ 301 (566)
Q Consensus 276 tK~CP--kC~~~IEKn~GCNhm~C-~C~~ 301 (566)
-+.|| .|+.-+--..--+..+| +||+
T Consensus 18 rk~CP~~~CG~GvFMA~H~dR~~CGKCg~ 46 (47)
T PF01599_consen 18 RKECPSPRCGAGVFMAEHKDRHYCGKCGY 46 (47)
T ss_dssp SEE-TSTTTTSSSEEEE-SSEEEETTTSS
T ss_pred hhcCCCcccCCceEeeecCCCccCCCccc
Confidence 47899 99986643334467888 7874
No 203
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=38.99 E-value=19 Score=34.44 Aligned_cols=24 Identities=38% Similarity=1.079 Sum_probs=17.6
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCcc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQA 302 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~~ 302 (566)
-.|++|+.++++ .| +.|+| +||..
T Consensus 150 A~CsrC~~~L~~-~~-~~l~Cp~Cg~t 174 (188)
T COG1096 150 ARCSRCRAPLVK-KG-NMLKCPNCGNT 174 (188)
T ss_pred EEccCCCcceEE-cC-cEEECCCCCCE
Confidence 478888888888 33 77888 57754
No 204
>PRK10220 hypothetical protein; Provisional
Probab=38.69 E-value=25 Score=30.70 Aligned_cols=26 Identities=23% Similarity=0.731 Sum_probs=15.6
Q ss_pred cCCCCCCcceeecCCCCeeEec-cCccc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSCI-CGQAF 303 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C~-C~~~F 303 (566)
-.||+|..-.-=..| +.+.|. |+++|
T Consensus 4 P~CP~C~seytY~d~-~~~vCpeC~hEW 30 (111)
T PRK10220 4 PHCPKCNSEYTYEDN-GMYICPECAHEW 30 (111)
T ss_pred CcCCCCCCcceEcCC-CeEECCcccCcC
Confidence 579999876654444 235553 55443
No 205
>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=38.61 E-value=18 Score=28.38 Aligned_cols=38 Identities=21% Similarity=0.543 Sum_probs=19.9
Q ss_pred ccccccccccccccCCCc-ee-cCCCCccchhhHHHHHHh
Q 008419 114 SSTVMCDICMEEVAGDKA-TK-MDCGHCFCNDCWTEHFIV 151 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~~~-~~-l~CgH~fC~~C~~~yl~~ 151 (566)
.+...|.+|...|....- .. -.||+.||.+|....+..
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~~ 46 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIPL 46 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEcc
Confidence 456789999998864221 12 279999999999776543
No 206
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=38.09 E-value=26 Score=26.72 Aligned_cols=32 Identities=28% Similarity=0.858 Sum_probs=25.3
Q ss_pred cccccccccccc-CCCceec-CCCCccchhhHHH
Q 008419 116 TVMCDICMEEVA-GDKATKM-DCGHCFCNDCWTE 147 (566)
Q Consensus 116 ~~~C~IC~e~~~-~~~~~~l-~CgH~fC~~C~~~ 147 (566)
...|++|-+.+. .++.+.. .||-.|.++||..
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 457999999985 4455555 8999999999965
No 207
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=38.04 E-value=30 Score=22.56 Aligned_cols=20 Identities=25% Similarity=0.693 Sum_probs=13.0
Q ss_pred CCCCCCcceeecCCCCeeEe
Q 008419 278 PCPKCHKPVEKNGGCNLVSC 297 (566)
Q Consensus 278 ~CPkC~~~IEKn~GCNhm~C 297 (566)
.||.|+..+.+..|=-.++|
T Consensus 1 ~CP~C~s~l~~~~~ev~~~C 20 (28)
T PF03119_consen 1 TCPVCGSKLVREEGEVDIRC 20 (28)
T ss_dssp B-TTT--BEEE-CCTTCEEE
T ss_pred CcCCCCCEeEcCCCCEeEEC
Confidence 49999999998888667777
No 208
>PF14445 Prok-RING_2: Prokaryotic RING finger family 2
Probab=37.97 E-value=6.2 Score=29.36 Aligned_cols=34 Identities=29% Similarity=0.773 Sum_probs=27.5
Q ss_pred cccccccccccccCCCceec-CCCCccchhhHHHH
Q 008419 115 STVMCDICMEEVAGDKATKM-DCGHCFCNDCWTEH 148 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l-~CgH~fC~~C~~~y 148 (566)
..++|..|-+.++..+.... -||---|..||+.-
T Consensus 6 sry~CDLCn~~~p~~~LRQCvlCGRWaC~sCW~de 40 (57)
T PF14445_consen 6 SRYSCDLCNSSHPISELRQCVLCGRWACNSCWQDE 40 (57)
T ss_pred hhHhHHhhcccCcHHHHHHHhhhchhhhhhhhhhh
Confidence 46899999998876655543 79999999999863
No 209
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=37.01 E-value=11 Score=31.94 Aligned_cols=9 Identities=22% Similarity=0.139 Sum_probs=3.7
Q ss_pred HHHHHHHHc
Q 008419 54 DLRRVMELL 62 (566)
Q Consensus 54 ~i~~v~~~l 62 (566)
-+..|...|
T Consensus 52 ~~~~v~rYl 60 (101)
T PF09026_consen 52 YFTMVKRYL 60 (101)
T ss_dssp HHHHHHHHH
T ss_pred hcchHhhhh
Confidence 334444433
No 210
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=36.56 E-value=20 Score=43.18 Aligned_cols=16 Identities=31% Similarity=0.650 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHH
Q 008419 436 FEDQQQQLEANVEKLS 451 (566)
Q Consensus 436 fe~~Q~~le~~~E~L~ 451 (566)
||..|....+.+|+|.
T Consensus 2419 FEtKer~Fnka~EK~R 2434 (3015)
T KOG0943|consen 2419 FETKERKFNKAMEKLR 2434 (3015)
T ss_pred cchHHHHHHHHHHHHH
Confidence 5555555555555554
No 211
>PF04899 MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 The MbeD and MobD proteins are plasmid encoded, and are involved in the plasmid mobilisation and transfer in the presence of conjugative plasmids [].
Probab=35.99 E-value=2.3e+02 Score=22.80 Aligned_cols=47 Identities=28% Similarity=0.347 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHHHHHHHHHH
Q 008419 433 QHLFEDQQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLC 484 (566)
Q Consensus 433 ~~lfe~~Q~~le~~~E~L~~~le~~~~~~~~~~i~~~k~~~~~l~~~~~~~~ 484 (566)
+.-|+.+++..+.....|...++..- .+...++.++.+|+.-+..+-
T Consensus 16 q~~y~~q~~~Wq~sy~~Lq~~~~~t~-----~~~a~L~~qv~~Ls~qv~~Ls 62 (70)
T PF04899_consen 16 QQSYEKQQQEWQSSYADLQHMFEQTS-----QENAALSEQVNNLSQQVQRLS 62 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhH-----HHHHHHHHHHHHHHHHHHHHH
Confidence 34577777788888888887777432 234566677777776665443
No 212
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains. The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.
Probab=35.83 E-value=47 Score=38.36 Aligned_cols=42 Identities=21% Similarity=0.229 Sum_probs=26.3
Q ss_pred CeeeeCHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHcCCChHHH
Q 008419 38 STKVITRESLLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKL 83 (566)
Q Consensus 38 ~~~vlt~~~l~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l 83 (566)
.++.|++.++.+..++.-..-.+- .+.-..||++-+|..+.-
T Consensus 412 pf~~l~ksq~~kl~k~q~k~y~de----~dyr~kl~~kkq~ke~~~ 453 (763)
T TIGR00993 412 PFKPLTKAQMAKLSKEQRKAYLEE----YDYRVKLLQKKQWREELK 453 (763)
T ss_pred CCccccHHHHHHHhHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
Confidence 467789888776655533322222 245567888899986653
No 213
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=35.56 E-value=26 Score=35.80 Aligned_cols=26 Identities=42% Similarity=1.031 Sum_probs=19.3
Q ss_pred CcCCCCCCcceee--cCCCCeeEe-ccCc
Q 008419 276 TKPCPKCHKPVEK--NGGCNLVSC-ICGQ 301 (566)
Q Consensus 276 tK~CPkC~~~IEK--n~GCNhm~C-~C~~ 301 (566)
-++||.|+.+|+| .+|=.-.+| .|+.
T Consensus 235 g~pC~~Cg~~I~~~~~~gR~ty~Cp~CQ~ 263 (269)
T PRK14811 235 GQPCPRCGTPIEKIVVGGRGTHFCPQCQP 263 (269)
T ss_pred cCCCCcCCCeeEEEEECCCCcEECCCCcC
Confidence 3799999999986 567666666 4664
No 214
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=35.38 E-value=25 Score=35.88 Aligned_cols=26 Identities=38% Similarity=1.039 Sum_probs=21.5
Q ss_pred CcCCCCCCcceee--cCCCCeeEe-ccCc
Q 008419 276 TKPCPKCHKPVEK--NGGCNLVSC-ICGQ 301 (566)
Q Consensus 276 tK~CPkC~~~IEK--n~GCNhm~C-~C~~ 301 (566)
-++|+.|+.+|+| -+|=+-.+| .|+.
T Consensus 245 GepC~~CGt~I~k~~~~gR~t~~CP~CQ~ 273 (273)
T COG0266 245 GEPCRRCGTPIEKIKLGGRSTFYCPVCQK 273 (273)
T ss_pred CCCCCccCCEeEEEEEcCCcCEeCCCCCC
Confidence 4799999999997 578888888 4863
No 215
>COG3416 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.34 E-value=99 Score=30.19 Aligned_cols=19 Identities=32% Similarity=0.590 Sum_probs=14.0
Q ss_pred cchHHHHHHHHHHHHHHHH
Q 008419 424 MTDEEREIKQHLFEDQQQQ 442 (566)
Q Consensus 424 ~~~~~~~~~~~lfe~~Q~~ 442 (566)
||++|.....++|..+.+.
T Consensus 1 MtpeE~qlle~lf~rlk~a 19 (233)
T COG3416 1 MTPEEKQLLENLFHRLKKA 19 (233)
T ss_pred CCHHHHHHHHHHHHHHhhc
Confidence 6788888788888776554
No 216
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=34.90 E-value=31 Score=28.35 Aligned_cols=46 Identities=20% Similarity=0.382 Sum_probs=29.4
Q ss_pred cccccccccccC-CC-ceec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 117 VMCDICMEEVAG-DK-ATKM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 117 ~~C~IC~e~~~~-~~-~~~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
.+|+-|.-.... ++ ++.- -|.|.|..-|+.+++.+ .| .||. +++.+
T Consensus 32 ~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T---k~-----~CPl--d~q~w 80 (88)
T COG5194 32 GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT---KG-----VCPL--DRQTW 80 (88)
T ss_pred CcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh---CC-----CCCC--CCcee
Confidence 456666543222 22 2333 69999999999999998 22 5887 65543
No 217
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.76 E-value=14 Score=40.56 Aligned_cols=28 Identities=36% Similarity=0.789 Sum_probs=18.4
Q ss_pred CcCCCCCCcceeecCCCCeeEe--ccCcccccccccc
Q 008419 276 TKPCPKCHKPVEKNGGCNLVSC--ICGQAFCWLCGGA 310 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCNhm~C--~C~~~FCw~C~~~ 310 (566)
-..||-|-.+-. .-+ .|||-|||-|+-.
T Consensus 186 ~~~CPICL~~~~-------~p~~t~CGHiFC~~CiLq 215 (513)
T KOG2164|consen 186 DMQCPICLEPPS-------VPVRTNCGHIFCGPCILQ 215 (513)
T ss_pred CCcCCcccCCCC-------cccccccCceeeHHHHHH
Confidence 378999987644 333 2777777777543
No 218
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=34.75 E-value=28 Score=29.96 Aligned_cols=27 Identities=26% Similarity=0.645 Sum_probs=15.3
Q ss_pred CcCCCCCCccee---ecCCCCeeEe-ccCcc
Q 008419 276 TKPCPKCHKPVE---KNGGCNLVSC-ICGQA 302 (566)
Q Consensus 276 tK~CPkC~~~IE---Kn~GCNhm~C-~C~~~ 302 (566)
.-.||+|+.... ...|=-|..| .||+.
T Consensus 21 ~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~y 51 (99)
T PRK14892 21 IFECPRCGKVSISVKIKKNIAIITCGNCGLY 51 (99)
T ss_pred EeECCCCCCeEeeeecCCCcceEECCCCCCc
Confidence 357999984322 2224446777 46654
No 219
>PRK12495 hypothetical protein; Provisional
Probab=34.58 E-value=45 Score=32.82 Aligned_cols=24 Identities=25% Similarity=0.736 Sum_probs=17.9
Q ss_pred CCcCCCCCCcceeecCCCCeeEe-ccC
Q 008419 275 HTKPCPKCHKPVEKNGGCNLVSC-ICG 300 (566)
Q Consensus 275 ~tK~CPkC~~~IEKn~GCNhm~C-~C~ 300 (566)
..+.||.|+.||-+..|| .+| .|+
T Consensus 41 sa~hC~~CG~PIpa~pG~--~~Cp~CQ 65 (226)
T PRK12495 41 TNAHCDECGDPIFRHDGQ--EFCPTCQ 65 (226)
T ss_pred chhhcccccCcccCCCCe--eECCCCC
Confidence 357999999999977776 444 244
No 220
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=33.34 E-value=51 Score=27.01 Aligned_cols=48 Identities=23% Similarity=0.614 Sum_probs=21.0
Q ss_pred cccccccccccccC---CCceec--CCCCccchhhHHHHHHhhhccCCcceeecCccccccc
Q 008419 115 STVMCDICMEEVAG---DKATKM--DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI 171 (566)
Q Consensus 115 ~~~~C~IC~e~~~~---~~~~~l--~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~ 171 (566)
....|.||-+++.. .+++.. .|+-..|+.|+.- ..++|. -.||. |+..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEY----Erkeg~---q~Cpq--Ckt~ 60 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEY----ERKEGN---QVCPQ--CKTR 60 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHH----HHHTS----SB-TT--T--B
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHH----HhhcCc---ccccc--cCCC
Confidence 45789999999643 344443 7999999999764 345565 57988 7753
No 221
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=32.98 E-value=26 Score=36.54 Aligned_cols=48 Identities=21% Similarity=0.561 Sum_probs=32.6
Q ss_pred ccccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCccccccc
Q 008419 114 SSTVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI 171 (566)
Q Consensus 114 ~~~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~ 171 (566)
.+...|.||...++ -...+||+|..|.-|--..=.-- ..-.||. |+..
T Consensus 59 Een~~C~ICA~~~T--Ys~~~PC~H~~CH~Ca~RlRALY------~~K~C~~--CrTE 106 (493)
T COG5236 59 EENMNCQICAGSTT--YSARYPCGHQICHACAVRLRALY------MQKGCPL--CRTE 106 (493)
T ss_pred cccceeEEecCCce--EEEeccCCchHHHHHHHHHHHHH------hccCCCc--cccc
Confidence 35678999998865 34566999999999965532111 1236888 7753
No 222
>PRK11827 hypothetical protein; Provisional
Probab=32.94 E-value=37 Score=26.49 Aligned_cols=25 Identities=20% Similarity=0.388 Sum_probs=17.0
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQ 301 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~ 301 (566)
-.||.|+.+++-..+=+.+.| .|+-
T Consensus 9 LaCP~ckg~L~~~~~~~~Lic~~~~l 34 (60)
T PRK11827 9 IACPVCNGKLWYNQEKQELICKLDNL 34 (60)
T ss_pred eECCCCCCcCeEcCCCCeEECCccCe
Confidence 579999998876554455666 3553
No 223
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=32.87 E-value=30 Score=35.38 Aligned_cols=26 Identities=38% Similarity=1.004 Sum_probs=19.7
Q ss_pred CcCCCCCCcceee--cCCCCeeEe-ccCc
Q 008419 276 TKPCPKCHKPVEK--NGGCNLVSC-ICGQ 301 (566)
Q Consensus 276 tK~CPkC~~~IEK--n~GCNhm~C-~C~~ 301 (566)
-++||.|+.+|+| .+|=.-.+| .|+.
T Consensus 245 g~pC~~Cg~~I~~~~~~gR~t~~CP~CQ~ 273 (274)
T PRK01103 245 GEPCRRCGTPIEKIKQGGRSTFFCPRCQK 273 (274)
T ss_pred CCCCCCCCCeeEEEEECCCCcEECcCCCC
Confidence 3689999999986 567666777 4763
No 224
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=32.77 E-value=19 Score=30.06 Aligned_cols=36 Identities=28% Similarity=0.500 Sum_probs=29.2
Q ss_pred cCCCCCCcceeecCCCCeeEeccCccccccccccccCCC
Q 008419 277 KPCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGATGRDH 315 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C~C~~~FCw~C~~~~~~~H 315 (566)
.-||.|+.| ...|--+.+.|++.|=..|...|-...
T Consensus 33 g~Cp~Ck~P---gd~Cplv~g~C~H~FH~hCI~kWl~~~ 68 (85)
T PF12861_consen 33 GCCPDCKFP---GDDCPLVWGKCSHNFHMHCILKWLSTQ 68 (85)
T ss_pred cCCCCccCC---CCCCceeeccCccHHHHHHHHHHHccc
Confidence 468888887 457888888999999999999976543
No 225
>TIGR00577 fpg formamidopyrimidine-DNA glycosylase (fpg). All proteins in the FPG family with known functions are FAPY-DNA glycosylases that function in base excision repair. Homologous to endonuclease VIII (nei). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=32.72 E-value=30 Score=35.34 Aligned_cols=25 Identities=40% Similarity=0.958 Sum_probs=19.1
Q ss_pred CcCCCCCCcceee--cCCCCeeEe-ccC
Q 008419 276 TKPCPKCHKPVEK--NGGCNLVSC-ICG 300 (566)
Q Consensus 276 tK~CPkC~~~IEK--n~GCNhm~C-~C~ 300 (566)
-++||.|+.+|+| .+|=.-.+| .|+
T Consensus 245 g~pC~~Cg~~I~~~~~~gR~t~~CP~CQ 272 (272)
T TIGR00577 245 GEPCRRCGTPIEKIKVGGRGTHFCPQCQ 272 (272)
T ss_pred CCCCCCCCCeeEEEEECCCCCEECCCCC
Confidence 3699999999986 567666777 464
No 226
>COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]
Probab=32.55 E-value=35 Score=30.14 Aligned_cols=27 Identities=26% Similarity=0.594 Sum_probs=18.2
Q ss_pred cCCCCCCcceee--cCCCCeeEe-ccCccc
Q 008419 277 KPCPKCHKPVEK--NGGCNLVSC-ICGQAF 303 (566)
Q Consensus 277 K~CPkC~~~IEK--n~GCNhm~C-~C~~~F 303 (566)
+.||+|+.++.- .++=+-+.| +||+++
T Consensus 3 ~FCp~Cgsll~p~~~~~~~~l~C~kCgye~ 32 (113)
T COG1594 3 RFCPKCGSLLYPKKDDEGGKLVCRKCGYEE 32 (113)
T ss_pred cccCCccCeeEEeEcCCCcEEECCCCCcch
Confidence 789999987764 112236888 488764
No 227
>PF12677 DUF3797: Domain of unknown function (DUF3797); InterPro: IPR024256 This presumed domain is functionally uncharacterised. This domain family is found in bacteria and viruses, and is approximately 50 amino acids in length. There is a conserved CGN sequence motif.
Probab=32.34 E-value=40 Score=25.03 Aligned_cols=28 Identities=32% Similarity=0.638 Sum_probs=18.2
Q ss_pred CcCCCCCCcceeecCCCC--------eeEeccCccc
Q 008419 276 TKPCPKCHKPVEKNGGCN--------LVSCICGQAF 303 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCN--------hm~C~C~~~F 303 (566)
.-.||+|+.-.--|++=+ +=+|+||..+
T Consensus 13 Y~~Cp~CGN~~vGngEG~liV~edtfkRtCkCGfni 48 (49)
T PF12677_consen 13 YCKCPKCGNDKVGNGEGTLIVEEDTFKRTCKCGFNI 48 (49)
T ss_pred hccCcccCCcEeecCcceEEEeccceeeeecccccc
Confidence 368999988766655433 2357777643
No 228
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=32.14 E-value=30 Score=26.67 Aligned_cols=23 Identities=30% Similarity=0.694 Sum_probs=15.9
Q ss_pred cCCcCCCCCCcceeecCCCCeeEe-ccCc
Q 008419 274 VHTKPCPKCHKPVEKNGGCNLVSC-ICGQ 301 (566)
Q Consensus 274 ~~tK~CPkC~~~IEKn~GCNhm~C-~C~~ 301 (566)
.+.-.||+|+.+.. .|-.| .||+
T Consensus 25 ~~l~~C~~CG~~~~-----~H~vC~~CG~ 48 (57)
T PRK12286 25 PGLVECPNCGEPKL-----PHRVCPSCGY 48 (57)
T ss_pred CcceECCCCCCccC-----CeEECCCCCc
Confidence 34568999999987 56666 3553
No 229
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=32.02 E-value=32 Score=35.19 Aligned_cols=25 Identities=28% Similarity=0.814 Sum_probs=19.4
Q ss_pred CcCCCCCCcceee--cCCCCeeEe-ccC
Q 008419 276 TKPCPKCHKPVEK--NGGCNLVSC-ICG 300 (566)
Q Consensus 276 tK~CPkC~~~IEK--n~GCNhm~C-~C~ 300 (566)
-++||+|+.+|++ .+|=.-.+| .|+
T Consensus 244 g~pCprCG~~I~~~~~~gR~t~~CP~CQ 271 (272)
T PRK14810 244 GEPCLNCKTPIRRVVVAGRSSHYCPHCQ 271 (272)
T ss_pred CCcCCCCCCeeEEEEECCCccEECcCCc
Confidence 4799999999986 567666777 475
No 230
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=31.99 E-value=57 Score=25.89 Aligned_cols=31 Identities=32% Similarity=0.623 Sum_probs=23.8
Q ss_pred ccCCCCCCCCceEEecCCcceeeEec-CCCeeecc
Q 008419 208 KWCPSTPHCGNAIRVEEVEVCEVECA-CGAQFCFS 241 (566)
Q Consensus 208 ~~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~~fC~~ 241 (566)
..|| +|++...+-..+...|+|. ||...+..
T Consensus 20 VkCp---dC~N~q~vFshast~V~C~~CG~~l~~P 51 (67)
T COG2051 20 VKCP---DCGNEQVVFSHASTVVTCLICGTTLAEP 51 (67)
T ss_pred EECC---CCCCEEEEeccCceEEEecccccEEEec
Confidence 4688 6999877666666679997 99988754
No 231
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=31.84 E-value=8e+02 Score=27.80 Aligned_cols=43 Identities=19% Similarity=0.321 Sum_probs=28.9
Q ss_pred HHHHHHHhhHHHHHHHHHhhhhhHHHH-HHHHHHHHHHHHHHhh
Q 008419 337 ERAKRELYRYMHYHNRYKAHTDSFKLE-SKLKETVLEKVSISEE 379 (566)
Q Consensus 337 ~~~k~~l~ry~~y~~r~~~h~~s~k~e-~~l~~~i~~k~~~~~~ 379 (566)
...+.++.+|..|...+..|.+++... ..++..|.++..+++.
T Consensus 269 ~~L~~D~nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~ 312 (581)
T KOG0995|consen 269 ARLQDDVNKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEK 312 (581)
T ss_pred HHHHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667888999998888887765433 4566666666555543
No 232
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=31.80 E-value=31 Score=35.41 Aligned_cols=25 Identities=40% Similarity=0.881 Sum_probs=20.0
Q ss_pred CcCCCCCCcceee--cCCCCeeEe-ccC
Q 008419 276 TKPCPKCHKPVEK--NGGCNLVSC-ICG 300 (566)
Q Consensus 276 tK~CPkC~~~IEK--n~GCNhm~C-~C~ 300 (566)
-++||.|+.+|+| .+|=.-.+| .|+
T Consensus 254 g~pC~~Cg~~I~~~~~~gR~t~~CP~CQ 281 (282)
T PRK13945 254 GKPCRKCGTPIERIKLAGRSTHWCPNCQ 281 (282)
T ss_pred cCCCCcCCCeeEEEEECCCccEECCCCc
Confidence 4799999999986 577777778 476
No 233
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=31.79 E-value=26 Score=31.70 Aligned_cols=51 Identities=25% Similarity=0.531 Sum_probs=37.8
Q ss_pred cccccccccccccCCCceec--CCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 115 STVMCDICMEEVAGDKATKM--DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l--~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
.-.+|.||-|....+.+... -||-..|.-|....|...- ....||. |+..+
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~-----~ypvCPv--CkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCN-----LYPVCPV--CKTSF 131 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcc-----cCCCCCc--ccccc
Confidence 45899999998553332222 4999999999999998743 3468999 88754
No 234
>PHA02929 N1R/p28-like protein; Provisional
Probab=31.72 E-value=19 Score=36.12 Aligned_cols=38 Identities=24% Similarity=0.407 Sum_probs=26.2
Q ss_pred CcCCCCCCcceeecCCCC---eeEeccCccccccccccccC
Q 008419 276 TKPCPKCHKPVEKNGGCN---LVSCICGQAFCWLCGGATGR 313 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCN---hm~C~C~~~FCw~C~~~~~~ 313 (566)
...||-|...+.....-+ -+.-.|+|.||..|...|..
T Consensus 174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~ 214 (238)
T PHA02929 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK 214 (238)
T ss_pred CCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh
Confidence 468999998876443222 13346888899999888754
No 235
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=31.51 E-value=44 Score=34.53 Aligned_cols=50 Identities=18% Similarity=0.491 Sum_probs=34.8
Q ss_pred cccccccccccccC-CCceecCCCCccchhhHHHHHHhhhccCCcceeecCccccccc
Q 008419 115 STVMCDICMEEVAG-DKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI 171 (566)
Q Consensus 115 ~~~~C~IC~e~~~~-~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~ 171 (566)
.-|.|||=-+.-.. +.|+.|.|||..=+.=+...- ++|. ..++||- |+..
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS----~nG~-~~FKCPY--CP~~ 385 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLS----QNGV-LSFKCPY--CPEM 385 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHh----hcCc-EEeeCCC--CCcc
Confidence 56899997665433 456788999998766554432 3454 5799998 8764
No 236
>PRK10445 endonuclease VIII; Provisional
Probab=31.41 E-value=33 Score=34.87 Aligned_cols=25 Identities=24% Similarity=0.537 Sum_probs=19.6
Q ss_pred CcCCCCCCcceee--cCCCCeeEe-ccC
Q 008419 276 TKPCPKCHKPVEK--NGGCNLVSC-ICG 300 (566)
Q Consensus 276 tK~CPkC~~~IEK--n~GCNhm~C-~C~ 300 (566)
-++||.|+.+|++ .+|=.-.+| .|+
T Consensus 235 g~~Cp~Cg~~I~~~~~~gR~t~~CP~CQ 262 (263)
T PRK10445 235 GEACERCGGIIEKTTLSSRPFYWCPGCQ 262 (263)
T ss_pred CCCCCCCCCEeEEEEECCCCcEECCCCc
Confidence 3799999999986 577667777 475
No 237
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.09 E-value=18 Score=29.01 Aligned_cols=44 Identities=25% Similarity=0.621 Sum_probs=30.9
Q ss_pred ccccccccccCCCceecCC--CCccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 118 MCDICMEEVAGDKATKMDC--GHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 118 ~C~IC~e~~~~~~~~~l~C--gH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
.|.-|-.+++++..-.+-| .|.||.+|-..-+. | .||. |+..+.
T Consensus 7 nCECCDrDLpp~s~dA~ICtfEcTFCadCae~~l~-----g-----~CPn--CGGelv 52 (84)
T COG3813 7 NCECCDRDLPPDSTDARICTFECTFCADCAENRLH-----G-----LCPN--CGGELV 52 (84)
T ss_pred CCcccCCCCCCCCCceeEEEEeeehhHhHHHHhhc-----C-----cCCC--CCchhh
Confidence 5888888887655555556 48999999876544 2 5888 887543
No 238
>PF15616 TerY-C: TerY-C metal binding domain
Probab=30.87 E-value=31 Score=31.31 Aligned_cols=34 Identities=32% Similarity=0.799 Sum_probs=17.7
Q ss_pred CcCCCCCCccee-ecCCCCeeEec--cCccccccccc
Q 008419 276 TKPCPKCHKPVE-KNGGCNLVSCI--CGQAFCWLCGG 309 (566)
Q Consensus 276 tK~CPkC~~~IE-Kn~GCNhm~C~--C~~~FCw~C~~ 309 (566)
.--||.|+...- -.-+|++++|. =+...|--|+.
T Consensus 77 ~PgCP~CGn~~~fa~C~CGkl~Ci~g~~~~~CPwCg~ 113 (131)
T PF15616_consen 77 APGCPHCGNQYAFAVCGCGKLFCIDGEGEVTCPWCGN 113 (131)
T ss_pred CCCCCCCcChhcEEEecCCCEEEeCCCCCEECCCCCC
Confidence 368999987742 12244444441 33344444544
No 239
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=30.66 E-value=6.4e+02 Score=26.31 Aligned_cols=13 Identities=15% Similarity=0.237 Sum_probs=6.8
Q ss_pred ccCCcchhheecc
Q 008419 548 HFPFPSLFLFSAH 560 (566)
Q Consensus 548 ~~~~~~~~~~~~~ 560 (566)
.|.|...+.++.+
T Consensus 305 ~~~~~~~i~~~fd 317 (325)
T PF08317_consen 305 EFRYKDEIELSFD 317 (325)
T ss_pred EEEEcCEEEEEEe
Confidence 5555555555544
No 240
>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=30.12 E-value=29 Score=27.41 Aligned_cols=18 Identities=22% Similarity=0.645 Sum_probs=12.7
Q ss_pred ccchhhHHHHHHhhhccC
Q 008419 139 CFCNDCWTEHFIVKINEG 156 (566)
Q Consensus 139 ~fC~~C~~~yl~~~i~~g 156 (566)
-||++|+..|+...-.+.
T Consensus 11 gFCRNCLskWy~~aA~~~ 28 (68)
T PF06844_consen 11 GFCRNCLSKWYREAAEER 28 (68)
T ss_dssp S--HHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 499999999998876543
No 241
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=29.82 E-value=50 Score=22.46 Aligned_cols=12 Identities=33% Similarity=0.515 Sum_probs=8.7
Q ss_pred CcCCCCCCccee
Q 008419 276 TKPCPKCHKPVE 287 (566)
Q Consensus 276 tK~CPkC~~~IE 287 (566)
-+.|+.|+....
T Consensus 3 ~~~C~~C~~~~i 14 (33)
T PF08792_consen 3 LKKCSKCGGNGI 14 (33)
T ss_pred ceEcCCCCCCeE
Confidence 378999987654
No 242
>PF14149 YhfH: YhfH-like protein
Probab=29.58 E-value=4.1 Score=28.42 Aligned_cols=26 Identities=31% Similarity=0.790 Sum_probs=19.5
Q ss_pred cCCcCCCCCCcceeecCCCCeeEe-cc
Q 008419 274 VHTKPCPKCHKPVEKNGGCNLVSC-IC 299 (566)
Q Consensus 274 ~~tK~CPkC~~~IEKn~GCNhm~C-~C 299 (566)
...|.||.|+..|+--.-|-.+.| +|
T Consensus 11 Lp~K~C~~CG~~i~EQ~E~Y~n~C~~C 37 (37)
T PF14149_consen 11 LPPKKCTECGKEIEEQAECYGNECDRC 37 (37)
T ss_pred CCCcccHHHHHHHHHHHHHHhCcCCCC
Confidence 346999999999987666666666 45
No 243
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=29.23 E-value=34 Score=26.12 Aligned_cols=22 Identities=27% Similarity=0.578 Sum_probs=15.8
Q ss_pred CCcCCCCCCcceeecCCCCeeEe-ccCc
Q 008419 275 HTKPCPKCHKPVEKNGGCNLVSC-ICGQ 301 (566)
Q Consensus 275 ~tK~CPkC~~~IEKn~GCNhm~C-~C~~ 301 (566)
+.-.||.|+.+.. .|-.| .||+
T Consensus 25 ~l~~C~~cG~~~~-----~H~vc~~cG~ 47 (55)
T TIGR01031 25 TLVVCPNCGEFKL-----PHRVCPSCGY 47 (55)
T ss_pred cceECCCCCCccc-----CeeECCccCe
Confidence 4467999999887 66666 3663
No 244
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=28.94 E-value=51 Score=25.99 Aligned_cols=14 Identities=43% Similarity=0.949 Sum_probs=10.8
Q ss_pred CCcCCCCCCcceee
Q 008419 275 HTKPCPKCHKPVEK 288 (566)
Q Consensus 275 ~tK~CPkC~~~IEK 288 (566)
+.|+||.|+..+..
T Consensus 5 ~lKPCPFCG~~~~~ 18 (64)
T PRK09710 5 NVKPCPFCGCPSVT 18 (64)
T ss_pred cccCCCCCCCceeE
Confidence 45999999876654
No 245
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=28.72 E-value=29 Score=41.94 Aligned_cols=17 Identities=29% Similarity=0.548 Sum_probs=8.1
Q ss_pred CCCCCcceeecCCCCee
Q 008419 279 CPKCHKPVEKNGGCNLV 295 (566)
Q Consensus 279 CPkC~~~IEKn~GCNhm 295 (566)
=|+|-.-+.-.+.|--|
T Consensus 2281 r~kclfE~rn~g~~Lam 2297 (3015)
T KOG0943|consen 2281 RGKCLFEVRNDGNCLAM 2297 (3015)
T ss_pred CCcceEEEecCCceeec
Confidence 35555544444445444
No 246
>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=28.48 E-value=55 Score=30.59 Aligned_cols=36 Identities=28% Similarity=0.572 Sum_probs=22.9
Q ss_pred ccccccccccccCCCceecCC-------CCccc------hhhHHHHHHhhh
Q 008419 116 TVMCDICMEEVAGDKATKMDC-------GHCFC------NDCWTEHFIVKI 153 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~~~l~C-------gH~fC------~~C~~~yl~~~i 153 (566)
..+|+||+|- +-+.+.|-| .-+.| .+|+.+|-....
T Consensus 2 d~~CpICme~--PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~ 50 (162)
T PF07800_consen 2 DVTCPICMEH--PHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYG 50 (162)
T ss_pred CccCceeccC--CCceEEEEeccccCCccccccCCccchhHHHHHHHHHhc
Confidence 4689999986 335565544 33344 478888876544
No 247
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=28.13 E-value=25 Score=26.38 Aligned_cols=11 Identities=36% Similarity=0.854 Sum_probs=6.0
Q ss_pred CCCCCCcceee
Q 008419 278 PCPKCHKPVEK 288 (566)
Q Consensus 278 ~CPkC~~~IEK 288 (566)
+|++|++.+-+
T Consensus 6 RC~~CnklLa~ 16 (51)
T PF10122_consen 6 RCGHCNKLLAK 16 (51)
T ss_pred eccchhHHHhh
Confidence 55555555554
No 248
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=27.95 E-value=42 Score=38.85 Aligned_cols=49 Identities=16% Similarity=0.374 Sum_probs=33.2
Q ss_pred ccccccccccccCCCc-eecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchh
Q 008419 116 TVMCDICMEEVAGDKA-TKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDE 174 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~-~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~ 174 (566)
.-.|++|+..+..... ....|+|+||..|+..|-... =.||. |...+..
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a--------qTCPi--DR~EF~~ 172 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA--------QTCPV--DRGEFGE 172 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc--------ccCch--hhhhhhe
Confidence 3468888877543222 234899999999999986541 27887 7765543
No 249
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=27.34 E-value=45 Score=24.21 Aligned_cols=10 Identities=20% Similarity=0.647 Sum_probs=5.1
Q ss_pred cCCCCCCcce
Q 008419 277 KPCPKCHKPV 286 (566)
Q Consensus 277 K~CPkC~~~I 286 (566)
-+||.|+..|
T Consensus 20 irC~~CG~rI 29 (44)
T smart00659 20 VRCRECGYRI 29 (44)
T ss_pred eECCCCCceE
Confidence 4555555444
No 250
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=27.04 E-value=51 Score=23.56 Aligned_cols=17 Identities=29% Similarity=0.868 Sum_probs=11.2
Q ss_pred eeEec-CCCeeeccccCC
Q 008419 229 EVECA-CGAQFCFSCLSE 245 (566)
Q Consensus 229 ~v~C~-Cg~~fC~~C~~~ 245 (566)
.+.|+ |+..||..+..+
T Consensus 13 ~~~C~~C~~~FC~~Hr~~ 30 (43)
T PF01428_consen 13 PFKCKHCGKSFCLKHRLP 30 (43)
T ss_dssp HEE-TTTS-EE-TTTHST
T ss_pred CeECCCCCcccCccccCc
Confidence 47998 999999998743
No 251
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=26.87 E-value=43 Score=32.12 Aligned_cols=25 Identities=36% Similarity=0.890 Sum_probs=19.9
Q ss_pred cCCCCCCcceeecCCCCeeEe-ccCcc
Q 008419 277 KPCPKCHKPVEKNGGCNLVSC-ICGQA 302 (566)
Q Consensus 277 K~CPkC~~~IEKn~GCNhm~C-~C~~~ 302 (566)
-.||.|+.++.+ .+.|+|.| .|++.
T Consensus 150 a~~~~~g~~~~~-~~~~~~~c~~~~~~ 175 (189)
T PRK09521 150 AMCSRCRTPLVK-KGENELKCPNCGNI 175 (189)
T ss_pred EEccccCCceEE-CCCCEEECCCCCCE
Confidence 379999999987 44599999 59864
No 252
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=26.42 E-value=43 Score=40.41 Aligned_cols=57 Identities=19% Similarity=0.499 Sum_probs=40.1
Q ss_pred CCCceEEecCCcceeeEec-CCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCcceeecCCCC
Q 008419 215 HCGNAIRVEEVEVCEVECA-CGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCN 293 (566)
Q Consensus 215 ~C~~~i~~~~~~~~~v~C~-Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IEKn~GCN 293 (566)
-||--+....+....|-|. |+.-.|..|-. + . .+...+.||+|+....+--||.
T Consensus 22 ICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-Y---------E---------------r~eG~q~CPqCktrYkr~kgsp 76 (1079)
T PLN02638 22 ICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-Y---------E---------------RKDGNQSCPQCKTKYKRHKGSP 76 (1079)
T ss_pred ecccccCcCCCCCEEEEeccCCCccccchhh-h---------h---------------hhcCCccCCccCCchhhhcCCC
Confidence 4887777666666779997 99999998852 1 0 0123488999998888666665
Q ss_pred eeE
Q 008419 294 LVS 296 (566)
Q Consensus 294 hm~ 296 (566)
.+-
T Consensus 77 rv~ 79 (1079)
T PLN02638 77 AIL 79 (1079)
T ss_pred CcC
Confidence 543
No 253
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=26.40 E-value=1.3e+03 Score=28.66 Aligned_cols=77 Identities=19% Similarity=0.240 Sum_probs=47.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCC------CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 008419 425 TDEEREIKQHLFEDQQQQLEANVEKLSKFLEEPFDQY------PDDKVMEIRMQVINLSVITDTLCKKMYECIENDLLGC 498 (566)
Q Consensus 425 ~~~~~~~~~~lfe~~Q~~le~~~E~L~~~le~~~~~~------~~~~i~~~k~~~~~l~~~~~~~~~~~~~~~~~~l~~~ 498 (566)
+.+..++....++.+.++|...+|.|... |..|... ...++..+..+...|..++..+-..+..-.+.+.+|.
T Consensus 1223 s~~~i~~l~~~~~~lr~~l~~~~e~L~~~-E~~Lsdi~~~~~~a~~~LesLq~~~~~l~~~~keL~e~~~~ik~sdi~GA 1301 (1758)
T KOG0994|consen 1223 SAEDIAQLASATESLRRQLQALTEDLPQE-EETLSDITNSLPLAGKDLESLQREFNGLLTTYKELREQLEKIKESDILGA 1301 (1758)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHhhhhhh-hhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhccCchhH
Confidence 44455566777777777777777777643 3333221 1244666677777777777777666666666666666
Q ss_pred hhhc
Q 008419 499 LQLG 502 (566)
Q Consensus 499 ~~~~ 502 (566)
+.+.
T Consensus 1302 ~~~~ 1305 (1758)
T KOG0994|consen 1302 FNST 1305 (1758)
T ss_pred HHHH
Confidence 6543
No 254
>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=25.92 E-value=38 Score=30.43 Aligned_cols=24 Identities=17% Similarity=0.277 Sum_probs=14.8
Q ss_pred cCCCCCCccee-ecCCCCeeEe-ccCcc
Q 008419 277 KPCPKCHKPVE-KNGGCNLVSC-ICGQA 302 (566)
Q Consensus 277 K~CPkC~~~IE-Kn~GCNhm~C-~C~~~ 302 (566)
+.||+|++..- .|- +-++| +||..
T Consensus 10 r~Cp~cg~kFYDLnk--~p~vcP~cg~~ 35 (129)
T TIGR02300 10 RICPNTGSKFYDLNR--RPAVSPYTGEQ 35 (129)
T ss_pred ccCCCcCccccccCC--CCccCCCcCCc
Confidence 57999987543 222 45677 46655
No 255
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=25.70 E-value=44 Score=23.60 Aligned_cols=29 Identities=31% Similarity=0.573 Sum_probs=17.4
Q ss_pred CCCCCCcceeecCCCCeeEeccCccccccccccc
Q 008419 278 PCPKCHKPVEKNGGCNLVSCICGQAFCWLCGGAT 311 (566)
Q Consensus 278 ~CPkC~~~IEKn~GCNhm~C~C~~~FCw~C~~~~ 311 (566)
.||+|+..++...- ..+ ....|-.|++.|
T Consensus 1 ~CP~C~~~l~~~~~-~~~----~id~C~~C~G~W 29 (41)
T PF13453_consen 1 KCPRCGTELEPVRL-GDV----EIDVCPSCGGIW 29 (41)
T ss_pred CcCCCCcccceEEE-CCE----EEEECCCCCeEE
Confidence 59999988774332 112 224466777775
No 256
>PLN02189 cellulose synthase
Probab=25.66 E-value=43 Score=40.25 Aligned_cols=60 Identities=27% Similarity=0.563 Sum_probs=42.1
Q ss_pred cCCCCCCCCceEEecCCcceeeEec-CCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCccee
Q 008419 209 WCPSTPHCGNAIRVEEVEVCEVECA-CGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVE 287 (566)
Q Consensus 209 ~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IE 287 (566)
-|. -|+--+....+....|-|. |+...|..|-. +- .+...+.||+|+....
T Consensus 36 ~C~---iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cye-ye------------------------r~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 36 VCE---ICGDEIGLTVDGDLFVACNECGFPVCRPCYE-YE------------------------RREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccc---ccccccCcCCCCCEEEeeccCCCccccchhh-hh------------------------hhcCCccCcccCCchh
Confidence 565 4888777666666779998 99999999852 10 0123488999999888
Q ss_pred ecCCCCeeE
Q 008419 288 KNGGCNLVS 296 (566)
Q Consensus 288 Kn~GCNhm~ 296 (566)
+--|++.+.
T Consensus 88 r~kgs~~v~ 96 (1040)
T PLN02189 88 RLKGSPRVE 96 (1040)
T ss_pred hccCCCCcC
Confidence 666666543
No 257
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=25.57 E-value=49 Score=24.82 Aligned_cols=30 Identities=30% Similarity=0.629 Sum_probs=23.2
Q ss_pred ccccccccccCCCceecCCCCccchhhHHHH
Q 008419 118 MCDICMEEVAGDKATKMDCGHCFCNDCWTEH 148 (566)
Q Consensus 118 ~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~y 148 (566)
.|+||-..+..-..+.+.=| ..|.+|++..
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 49999998765444667777 8999999876
No 258
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=25.54 E-value=75 Score=24.20 Aligned_cols=28 Identities=39% Similarity=0.750 Sum_probs=20.3
Q ss_pred cCCCCCCCCceEEecC-CcceeeEec-CCCeee
Q 008419 209 WCPSTPHCGNAIRVEE-VEVCEVECA-CGAQFC 239 (566)
Q Consensus 209 ~CP~~p~C~~~i~~~~-~~~~~v~C~-Cg~~fC 239 (566)
-|| .|+.-|...+ .....+.|+ ||..+=
T Consensus 4 ~CP---~CG~~iev~~~~~GeiV~Cp~CGaele 33 (54)
T TIGR01206 4 ECP---DCGAEIELENPELGELVICDECGAELE 33 (54)
T ss_pred CCC---CCCCEEecCCCccCCEEeCCCCCCEEE
Confidence 588 5999988765 224568998 998753
No 259
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.30 E-value=25 Score=36.14 Aligned_cols=26 Identities=31% Similarity=0.863 Sum_probs=19.1
Q ss_pred CcCCCCCCcceeecCCCCeeEe----ccCcccccccccc
Q 008419 276 TKPCPKCHKPVEKNGGCNLVSC----ICGQAFCWLCGGA 310 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCNhm~C----~C~~~FCw~C~~~ 310 (566)
++.||-|.-. |.| .|+|.|||+|.+.
T Consensus 7 ~~eC~IC~nt---------~n~Pv~l~C~HkFCyiCiKG 36 (324)
T KOG0824|consen 7 KKECLICYNT---------GNCPVNLYCFHKFCYICIKG 36 (324)
T ss_pred CCcceeeecc---------CCcCccccccchhhhhhhcc
Confidence 3678877643 455 2999999999865
No 260
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=24.88 E-value=33 Score=35.33 Aligned_cols=28 Identities=25% Similarity=0.776 Sum_probs=21.5
Q ss_pred CcCCCCCCcceeecCCCCeeEec---cCcccccccccc
Q 008419 276 TKPCPKCHKPVEKNGGCNLVSCI---CGQAFCWLCGGA 310 (566)
Q Consensus 276 tK~CPkC~~~IEKn~GCNhm~C~---C~~~FCw~C~~~ 310 (566)
...|-+|..+|- ++=| |++.||+.|-..
T Consensus 90 VHfCd~Cd~PI~-------IYGRmIPCkHvFCl~CAr~ 120 (389)
T KOG2932|consen 90 VHFCDRCDFPIA-------IYGRMIPCKHVFCLECARS 120 (389)
T ss_pred eEeecccCCcce-------eeecccccchhhhhhhhhc
Confidence 468999999998 5553 888888888654
No 261
>TIGR02159 PA_CoA_Oxy4 phenylacetate-CoA oxygenase, PaaJ subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=24.49 E-value=35 Score=31.51 Aligned_cols=96 Identities=14% Similarity=0.223 Sum_probs=52.7
Q ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHHHhcChhhhhhhcCCcccCCCCCCCC--Cccccccccccc
Q 008419 47 LLAAQKEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVLVENGKESLFNEAGVTVIDDADPMLP--LSSTVMCDICME 124 (566)
Q Consensus 47 l~~~~~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~~~~~~~~~~~~~gl~~~~~~~~~~~--~~~~~~C~IC~e 124 (566)
....++++|.+...-+|+..-.. .+-..=-|+.|.+.+. |+ .-|.+.||.++.......+ ......|+-|-.
T Consensus 40 a~e~L~~~I~~aL~~~Gv~~V~V-~i~~~p~Wt~d~it~~----gr-~~l~~~giapp~~~~~~~~~~~~~~~~cp~c~s 113 (146)
T TIGR02159 40 ALEVIRQDIRDAVRALGVEVVEV-STSLDPPWTTDWITED----AR-EKLREYGIAPPAGHYVVGVSPEPPSVQCPRCGS 113 (146)
T ss_pred hHHHHHHHHHHHHHhcCCCeEEE-eEeeCCCCChHHCCHH----HH-HHHHhcCccCCCccCCCcccCCCCCCcCCCCCC
Confidence 33344444444433346543111 1222345888887655 33 3577889987764311110 112478999987
Q ss_pred ccc--CCCceecCCC-CccchhhHHHH
Q 008419 125 EVA--GDKATKMDCG-HCFCNDCWTEH 148 (566)
Q Consensus 125 ~~~--~~~~~~l~Cg-H~fC~~C~~~y 148 (566)
.-+ .+.+-+..|. ..+|++|..-|
T Consensus 114 ~~t~~~s~fg~t~cka~~~c~~c~epf 140 (146)
T TIGR02159 114 ADTTITSIFGPTACKALYRCRACKEPF 140 (146)
T ss_pred CCcEeecCCCChhhHHHhhhhhhCCcH
Confidence 643 2344556887 67899997543
No 262
>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=24.26 E-value=1.1e+02 Score=21.82 Aligned_cols=12 Identities=42% Similarity=1.176 Sum_probs=8.3
Q ss_pred cCCCCCCc-ceee
Q 008419 277 KPCPKCHK-PVEK 288 (566)
Q Consensus 277 K~CPkC~~-~IEK 288 (566)
..||.|+. .++|
T Consensus 27 ~~CP~Cg~~~~~r 39 (42)
T PF09723_consen 27 VPCPECGSTEVRR 39 (42)
T ss_pred CcCCCCCCCceEE
Confidence 57888877 5554
No 263
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=24.23 E-value=70 Score=32.79 Aligned_cols=35 Identities=23% Similarity=0.595 Sum_probs=25.2
Q ss_pred HHHHHHcCCcCCCCCCcceeecCCCCeeEe-ccCccc
Q 008419 268 TVNWITVHTKPCPKCHKPVEKNGGCNLVSC-ICGQAF 303 (566)
Q Consensus 268 ~~~~i~~~tK~CPkC~~~IEKn~GCNhm~C-~C~~~F 303 (566)
-..|...+ +.||+|+.+.+-..|=-.+.| .||+.+
T Consensus 104 l~~w~~~~-RFCg~CG~~~~~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 104 LLEWYRSH-RFCGRCGTKTYPREGGWARVCPKCGHEH 139 (279)
T ss_pred HHHHHhhC-cCCCCCCCcCccccCceeeeCCCCCCcc
Confidence 34454443 899999999887777677888 488654
No 264
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=24.19 E-value=1.5e+02 Score=26.05 Aligned_cols=22 Identities=27% Similarity=0.712 Sum_probs=16.0
Q ss_pred cCCCeeeccccCCCCCCCCchhhHHHHHhh
Q 008419 233 ACGAQFCFSCLSEAHSPCSCSMWDLWAKKC 262 (566)
Q Consensus 233 ~Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~ 262 (566)
+|+..+|..|+.. ...+|....
T Consensus 57 SCk~R~CP~C~~~--------~~~~W~~~~ 78 (111)
T PF14319_consen 57 SCKNRHCPSCQAK--------ATEQWIEKQ 78 (111)
T ss_pred cccCcCCCCCCCh--------HHHHHHHHH
Confidence 5999999999764 556676543
No 265
>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=23.55 E-value=44 Score=34.18 Aligned_cols=12 Identities=42% Similarity=0.847 Sum_probs=8.6
Q ss_pred CCCCCCCCCCcc
Q 008419 1 MEDSFSGDEDYY 12 (566)
Q Consensus 1 ~~~~~~~~~~~~ 12 (566)
|.|+++|||+||
T Consensus 1 m~D~~MdddEDY 12 (440)
T KOG1464|consen 1 MSDDFMDDDEDY 12 (440)
T ss_pred CCccccccchhc
Confidence 777777666666
No 266
>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 PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=23.28 E-value=33 Score=26.18 Aligned_cols=21 Identities=33% Similarity=0.855 Sum_probs=14.3
Q ss_pred CCcCCCCCCcceeecCCCCeeEe-ccC
Q 008419 275 HTKPCPKCHKPVEKNGGCNLVSC-ICG 300 (566)
Q Consensus 275 ~tK~CPkC~~~IEKn~GCNhm~C-~C~ 300 (566)
+...||.|+.+.. .|..| .||
T Consensus 25 ~l~~c~~cg~~~~-----~H~vc~~cG 46 (56)
T PF01783_consen 25 NLVKCPNCGEPKL-----PHRVCPSCG 46 (56)
T ss_dssp SEEESSSSSSEES-----TTSBCTTTB
T ss_pred ceeeeccCCCEec-----ccEeeCCCC
Confidence 4568999998877 55555 354
No 268
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.90 E-value=83 Score=37.49 Aligned_cols=6 Identities=33% Similarity=0.268 Sum_probs=2.3
Q ss_pred HHHHHH
Q 008419 48 LAAQKE 53 (566)
Q Consensus 48 ~~~~~~ 53 (566)
.+..++
T Consensus 961 f~~f~~ 966 (1010)
T KOG1991|consen 961 FQLFKE 966 (1010)
T ss_pred HHHHHH
Confidence 333333
No 269
>KOG2906 consensus RNA polymerase III subunit C11 [Transcription]
Probab=22.75 E-value=92 Score=26.71 Aligned_cols=27 Identities=37% Similarity=0.795 Sum_probs=16.9
Q ss_pred ccCCCCCCCCceEEecCCcc-eeeEec-CCCe
Q 008419 208 KWCPSTPHCGNAIRVEEVEV-CEVECA-CGAQ 237 (566)
Q Consensus 208 ~~CP~~p~C~~~i~~~~~~~-~~v~C~-Cg~~ 237 (566)
.+|| .|++.+.++.+.. ....|. |++.
T Consensus 2 ~FCP---~Cgn~Live~g~~~~rf~C~tCpY~ 30 (105)
T KOG2906|consen 2 LFCP---TCGNMLIVESGESCNRFSCRTCPYV 30 (105)
T ss_pred cccC---CCCCEEEEecCCeEeeEEcCCCCce
Confidence 3798 5999998876543 344443 4443
No 270
>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=22.63 E-value=1.1e+02 Score=22.76 Aligned_cols=45 Identities=18% Similarity=0.417 Sum_probs=23.7
Q ss_pred ccccccccccccCCCceecCCCCccchhhHHHHHHhhhccCCcceeecCcccccccchhHHH
Q 008419 116 TVMCDICMEEVAGDKATKMDCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICDEAVV 177 (566)
Q Consensus 116 ~~~C~IC~e~~~~~~~~~l~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~~~~i 177 (566)
.+.||.|...++. .. +..++...=... ...+.||. |...+....+
T Consensus 2 ~f~CP~C~~~~~~---~~-----------L~~H~~~~H~~~-~~~v~CPi--C~~~~~~~l~ 46 (54)
T PF05605_consen 2 SFTCPYCGKGFSE---SS-----------LVEHCEDEHRSE-SKNVVCPI--CSSRVTDNLI 46 (54)
T ss_pred CcCCCCCCCccCH---HH-----------HHHHHHhHCcCC-CCCccCCC--chhhhhhHHH
Confidence 5789999885441 11 223332221111 13589999 8865544333
No 271
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=22.59 E-value=75 Score=38.49 Aligned_cols=49 Identities=22% Similarity=0.606 Sum_probs=34.4
Q ss_pred cccccccccccccC---CCce-ec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 115 STVMCDICMEEVAG---DKAT-KM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 115 ~~~~C~IC~e~~~~---~~~~-~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
....|.||-+++.. .+++ .. .|+--.|+.|. +| ..++|. -.||+ |+...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EY---Er~eG~---q~CPq--CktrY 69 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EY---ERKDGN---QSCPQ--CKTKY 69 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchh-hh---hhhcCC---ccCCc--cCCch
Confidence 45689999999643 2343 33 78888999998 44 345666 58998 87643
No 272
>PRK08115 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=22.56 E-value=41 Score=39.85 Aligned_cols=24 Identities=50% Similarity=1.297 Sum_probs=18.9
Q ss_pred cCCCCCCc-ceeecCCCCeeEe-ccCcc
Q 008419 277 KPCPKCHK-PVEKNGGCNLVSC-ICGQA 302 (566)
Q Consensus 277 K~CPkC~~-~IEKn~GCNhm~C-~C~~~ 302 (566)
-.||-|+. .||..|||| +| .|+.+
T Consensus 828 ~~cp~c~~~~~~~~~~c~--~c~~c~~~ 853 (858)
T PRK08115 828 NTCPVCREGTVEEIGGCN--TCTNCGAQ 853 (858)
T ss_pred CCCCccCCCceeecCCCc--cccchhhh
Confidence 48999975 788999996 67 47754
No 273
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=22.22 E-value=1.2e+02 Score=27.87 Aligned_cols=19 Identities=26% Similarity=0.560 Sum_probs=14.1
Q ss_pred HHHHHHcCCCHHHHHHHHH
Q 008419 56 RRVMELLSLREHHARTLLI 74 (566)
Q Consensus 56 ~~v~~~l~i~~~~a~~LL~ 74 (566)
..+++.||++....|.+|.
T Consensus 19 edLa~~l~i~~n~vRkiL~ 37 (147)
T smart00531 19 EDLAELLGIKQKQLRKILY 37 (147)
T ss_pred HHHHHHhCCCHHHHHHHHH
Confidence 3566777888888877775
No 274
>PHA02926 zinc finger-like protein; Provisional
Probab=22.21 E-value=42 Score=33.19 Aligned_cols=38 Identities=26% Similarity=0.402 Sum_probs=24.7
Q ss_pred CcCCCCCCcce-eecC-CCCeeEe---ccCccccccccccccCC
Q 008419 276 TKPCPKCHKPV-EKNG-GCNLVSC---ICGQAFCWLCGGATGRD 314 (566)
Q Consensus 276 tK~CPkC~~~I-EKn~-GCNhm~C---~C~~~FCw~C~~~~~~~ 314 (566)
-+.|+-|-..+ +|.. ++. .+- .|+|.||+.|...|...
T Consensus 170 E~eCgICmE~I~eK~~~~eR-rFGIL~~CnHsFCl~CIr~Wr~~ 212 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDR-YFGLLDSCNHIFCITCINIWHRT 212 (242)
T ss_pred CCCCccCccccccccccccc-cccccCCCCchHHHHHHHHHHHh
Confidence 38899998665 4421 111 112 48888999999988654
No 275
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=21.95 E-value=69 Score=29.96 Aligned_cols=48 Identities=21% Similarity=0.408 Sum_probs=33.1
Q ss_pred cccccccccccccCCCceecCCC--C---ccchhhHHHHHHhhhccCCcceeecCcccccccch
Q 008419 115 STVMCDICMEEVAGDKATKMDCG--H---CFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAICD 173 (566)
Q Consensus 115 ~~~~C~IC~e~~~~~~~~~l~Cg--H---~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~~ 173 (566)
....|-||.++-.. . .-||. . ....+|+..|+... + ..+|+. |+....
T Consensus 7 ~~~~CRIC~~~~~~-~--~~PC~CkGs~k~VH~sCL~rWi~~s---~---~~~Cei--C~~~Y~ 59 (162)
T PHA02825 7 MDKCCWICKDEYDV-V--TNYCNCKNENKIVHKECLEEWINTS---K---NKSCKI--CNGPYN 59 (162)
T ss_pred CCCeeEecCCCCCC-c--cCCcccCCCchHHHHHHHHHHHhcC---C---CCcccc--cCCeEE
Confidence 35689999988531 2 23554 3 45899999999963 3 378998 887543
No 276
>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=21.76 E-value=1.1e+02 Score=28.62 Aligned_cols=32 Identities=28% Similarity=0.530 Sum_probs=18.8
Q ss_pred cCcccccCCCCCCCCceEEecCCcceeeEec-CCCe
Q 008419 203 DNKMVKWCPSTPHCGNAIRVEEVEVCEVECA-CGAQ 237 (566)
Q Consensus 203 ~~~~~~~CP~~p~C~~~i~~~~~~~~~v~C~-Cg~~ 237 (566)
.++.+-.|| .|+.-+...+.-...+.|| ||..
T Consensus 105 ~~~~~Y~Cp---~c~~r~tf~eA~~~~F~Cp~Cg~~ 137 (158)
T TIGR00373 105 TNNMFFICP---NMCVRFTFNEAMELNFTCPRCGAM 137 (158)
T ss_pred cCCCeEECC---CCCcEeeHHHHHHcCCcCCCCCCE
Confidence 344555798 3876555444323357777 7765
No 277
>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=21.76 E-value=58 Score=33.38 Aligned_cols=52 Identities=25% Similarity=0.632 Sum_probs=33.2
Q ss_pred cCCCCCCCCceEEecCCcceeeEecCCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCcceee
Q 008419 209 WCPSTPHCGNAIRVEEVEVCEVECACGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEK 288 (566)
Q Consensus 209 ~CP~~p~C~~~i~~~~~~~~~v~C~Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IEK 288 (566)
-|| .|........+-...+. +|++..|.+|.-. ....+.-.||.|.++.-|
T Consensus 2 ~Cp---~CKt~~Y~np~lk~~in-~C~H~lCEsCvd~-------------------------iF~~g~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACP---KCKTDRYLNPDLKLMIN-ECGHRLCESCVDR-------------------------IFSLGPAQCPECMVILRK 52 (300)
T ss_pred CCc---ccccceecCccceeeec-cccchHHHHHHHH-------------------------HHhcCCCCCCcccchhhh
Confidence 376 57766665554444455 7999999998421 011344689999888764
Q ss_pred c
Q 008419 289 N 289 (566)
Q Consensus 289 n 289 (566)
+
T Consensus 53 ~ 53 (300)
T KOG3800|consen 53 N 53 (300)
T ss_pred c
Confidence 3
No 278
>PF06044 DRP: Dam-replacing family; InterPro: IPR010324 Dam-replacing protein (DRP) is a restriction endonuclease that is flanked by pseudo-transposable small repeat elements. The replacement of Dam-methylase by DRP allows phase variation through slippage-like mechanisms in several pathogenic isolates of Neisseria meningitidis [].; PDB: 4ESJ_A.
Probab=21.74 E-value=56 Score=32.70 Aligned_cols=35 Identities=26% Similarity=0.700 Sum_probs=0.0
Q ss_pred HHHHHHcCCcCCCCCCcc-eee---cCCCCeeEe-ccCccc
Q 008419 268 TVNWITVHTKPCPKCHKP-VEK---NGGCNLVSC-ICGQAF 303 (566)
Q Consensus 268 ~~~~i~~~tK~CPkC~~~-IEK---n~GCNhm~C-~C~~~F 303 (566)
+..|+..+. .||+|+.. +.+ |.-=--++| .|+.+|
T Consensus 24 tE~Wv~~n~-yCP~Cg~~~L~~f~NN~PVaDF~C~~C~eey 63 (254)
T PF06044_consen 24 TEDWVAENM-YCPNCGSKPLSKFENNRPVADFYCPNCNEEY 63 (254)
T ss_dssp HHHHHHHH----TTT--SS-EE--------EEE-TTT--EE
T ss_pred HHHHHHHCC-cCCCCCChhHhhccCCCccceeECCCCchHH
No 279
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=21.52 E-value=50 Score=22.78 Aligned_cols=30 Identities=27% Similarity=0.542 Sum_probs=15.4
Q ss_pred cchhhHHHHHHhhhccCCcceeecCccccccc
Q 008419 140 FCNDCWTEHFIVKINEGQSKRIRCMAHKCNAI 171 (566)
Q Consensus 140 fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~ 171 (566)
.|.+|+++|....-+-=....+.|+. |+-.
T Consensus 1 lC~~C~~Ey~~p~~RR~~~~~isC~~--CGPr 30 (35)
T PF07503_consen 1 LCDDCLKEYFDPSNRRFHYQFISCTN--CGPR 30 (35)
T ss_dssp --HHHHHHHCSTTSTTTT-TT--BTT--CC-S
T ss_pred CCHHHHHHHcCCCCCcccCcCccCCC--CCCC
Confidence 48899999976532211135689988 7643
No 280
>PRK02935 hypothetical protein; Provisional
Probab=21.33 E-value=35 Score=29.56 Aligned_cols=18 Identities=33% Similarity=0.875 Sum_probs=11.8
Q ss_pred cCCCCCCccee---ecCCCCe
Q 008419 277 KPCPKCHKPVE---KNGGCNL 294 (566)
Q Consensus 277 K~CPkC~~~IE---Kn~GCNh 294 (566)
-.||+|+++.. |.+.|.|
T Consensus 71 V~CP~C~K~TKmLGrvD~CM~ 91 (110)
T PRK02935 71 VICPSCEKPTKMLGRVDACMH 91 (110)
T ss_pred eECCCCCchhhhccceeecCc
Confidence 47999998754 4455533
No 281
>KOG3876 consensus Arfaptin and related proteins [Signal transduction mechanisms]
Probab=21.31 E-value=3e+02 Score=28.00 Aligned_cols=25 Identities=20% Similarity=0.315 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Q 008419 432 KQHLFEDQQQQLEANVEKLSKFLEE 456 (566)
Q Consensus 432 ~~~lfe~~Q~~le~~~E~L~~~le~ 456 (566)
....|.-+|++||..+..++.++.-
T Consensus 306 iaAYfsGNak~LE~tlkqf~iklkp 330 (341)
T KOG3876|consen 306 IAAYFSGNAKQLEQTLKQFNIKLKP 330 (341)
T ss_pred HHHHhcccHHHHHHHHHHhceecCC
Confidence 3445666789999999888876653
No 282
>PF05633 DUF793: Protein of unknown function (DUF793); InterPro: IPR008511 This entry includes Protein BYPASS 1 which is required for normal root and shoot development. Prevents constitutive production of a root mobile carotenoid-derived signaling compound that is capable of arresting shoot and leaf development [, ].
Probab=21.23 E-value=4.8e+02 Score=28.20 Aligned_cols=39 Identities=13% Similarity=0.261 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHhhccCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008419 439 QQQQLEANVEKLSKFLEEPFDQYPDDKVMEIRMQVINLSVITDTLCKKMYE 489 (566)
Q Consensus 439 ~Q~~le~~~E~L~~~le~~~~~~~~~~i~~~k~~~~~l~~~~~~~~~~~~~ 489 (566)
...++...|++|.+..+. ++.-|.-|.+-|+.+|..++.
T Consensus 342 ~~~ev~~~V~EL~~~~~~------------L~~GLdpLerqVre~Fh~IV~ 380 (389)
T PF05633_consen 342 KEEEVREAVEELARVCEA------------LSQGLDPLERQVREVFHRIVR 380 (389)
T ss_pred HHHHHHHHHHHHHHHHHH------------HHcccHHHHHHHHHHHHHHHH
Confidence 344555555555554442 223333444555555554444
No 283
>TIGR02443 conserved hypothetical metal-binding protein. Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N-terminus and a probable metal-binding motif CPXCX(18)CXXC. Members are found in various Proteobacteria.
Probab=20.99 E-value=88 Score=24.29 Aligned_cols=26 Identities=35% Similarity=0.792 Sum_probs=17.8
Q ss_pred cCCCCCCcc----eeecCCCCeeEe-ccCcc
Q 008419 277 KPCPKCHKP----VEKNGGCNLVSC-ICGQA 302 (566)
Q Consensus 277 K~CPkC~~~----IEKn~GCNhm~C-~C~~~ 302 (566)
-.||+|+.+ +-+..|=.++.| .||+.
T Consensus 10 A~CP~C~~~Dtl~~~~e~~~e~vECv~Cg~~ 40 (59)
T TIGR02443 10 AVCPACSAQDTLAMWKENNIELVECVECGYQ 40 (59)
T ss_pred ccCCCCcCccEEEEEEeCCceEEEeccCCCc
Confidence 479999864 224555578888 58875
No 284
>COG4640 Predicted membrane protein [Function unknown]
Probab=20.98 E-value=48 Score=35.37 Aligned_cols=8 Identities=63% Similarity=1.327 Sum_probs=5.7
Q ss_pred cCCCCCCc
Q 008419 277 KPCPKCHK 284 (566)
Q Consensus 277 K~CPkC~~ 284 (566)
+.||+|+.
T Consensus 2 ~fC~kcG~ 9 (465)
T COG4640 2 KFCPKCGS 9 (465)
T ss_pred Cccccccc
Confidence 56888873
No 285
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=20.96 E-value=5.3e+02 Score=26.51 Aligned_cols=21 Identities=19% Similarity=0.335 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 008419 466 VMEIRMQVINLSVITDTLCKK 486 (566)
Q Consensus 466 i~~~k~~~~~l~~~~~~~~~~ 486 (566)
+++.|.++.+|-.++++-...
T Consensus 119 LKEARkEIkQLkQvieTmrss 139 (305)
T PF15290_consen 119 LKEARKEIKQLKQVIETMRSS 139 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 444445555554444444433
No 286
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=20.89 E-value=2.3e+02 Score=25.17 Aligned_cols=36 Identities=28% Similarity=0.302 Sum_probs=30.4
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHcCCChHHHHHHH
Q 008419 52 KEDLRRVMELLSLREHHARTLLIHYRWDVEKLLAVL 87 (566)
Q Consensus 52 ~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~~~~ 87 (566)
.++|.-|++-.|++...|+..|...+||.-.-+-.+
T Consensus 77 ~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~L 112 (115)
T PRK06369 77 EEDIELVAEQTGVSEEEARKALEEANGDLAEAILKL 112 (115)
T ss_pred HHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHHH
Confidence 578889999999999999999999999976544433
No 287
>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=20.47 E-value=49 Score=34.07 Aligned_cols=35 Identities=31% Similarity=0.942 Sum_probs=16.8
Q ss_pred cCCCCCCcc-----eeecC--CCCeeEe-ccCccc------cccccccc
Q 008419 277 KPCPKCHKP-----VEKNG--GCNLVSC-ICGQAF------CWLCGGAT 311 (566)
Q Consensus 277 K~CPkC~~~-----IEKn~--GCNhm~C-~C~~~F------Cw~C~~~~ 311 (566)
..||-|+.+ |...+ |=-+++| .|+++| |-.||..-
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~ 221 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTD 221 (290)
T ss_dssp SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---S
T ss_pred CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCC
Confidence 689999865 23333 7899999 599886 99999873
No 288
>KOG4677 consensus Golgi integral membrane protein [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]
Probab=20.46 E-value=1.2e+03 Score=25.79 Aligned_cols=58 Identities=16% Similarity=0.236 Sum_probs=33.4
Q ss_pred HHhhHHHHHHHHHhhhhhHHHH-HHHHHHHHHHHHHHhhhhccccchhHHHHHHHHHHHHhHhhhc
Q 008419 342 ELYRYMHYHNRYKAHTDSFKLE-SKLKETVLEKVSISEERESRLRDFSWVTNGLYRLFRSRRVLSY 406 (566)
Q Consensus 342 ~l~ry~~y~~r~~~h~~s~k~e-~~l~~~i~~k~~~~~~~~~~~~~~~~l~~a~~~l~~~R~~L~~ 406 (566)
.++.|..|.++|.......+.+ +..++.+..|+..++. ++-+....+.|..+|..++-
T Consensus 166 ~~~q~~d~~e~~~~kdSQlkvrlqe~~~ll~~Rve~le~-------~Sal~~lq~~L~la~~~~~~ 224 (554)
T KOG4677|consen 166 KGEQYRDYSEDWSPKDSQLKVRLQEVRRLLKGRVESLER-------FSALRSLQDKLQLAEEAVSM 224 (554)
T ss_pred hhhhHhhHhhhcccchhhHHHHHHHHHHHHHhhhHHHHH-------HHHHHHHHHHHHHHHHHHHh
Confidence 3446778888887766555443 3344455555555443 23456666666666666543
No 289
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=20.45 E-value=80 Score=19.96 Aligned_cols=7 Identities=57% Similarity=1.630 Sum_probs=4.1
Q ss_pred cCCCCCC
Q 008419 277 KPCPKCH 283 (566)
Q Consensus 277 K~CPkC~ 283 (566)
-.||+|+
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 3566665
No 290
>PLN02436 cellulose synthase A
Probab=20.43 E-value=63 Score=39.05 Aligned_cols=57 Identities=23% Similarity=0.509 Sum_probs=39.3
Q ss_pred CCCceEEecCCcceeeEec-CCCeeeccccCCCCCCCCchhhHHHHHhhhhhHHHHHHHHcCCcCCCCCCcceeecCCCC
Q 008419 215 HCGNAIRVEEVEVCEVECA-CGAQFCFSCLSEAHSPCSCSMWDLWAKKCRDESETVNWITVHTKPCPKCHKPVEKNGGCN 293 (566)
Q Consensus 215 ~C~~~i~~~~~~~~~v~C~-Cg~~fC~~C~~~~H~p~~C~~~~~w~~~~~~e~e~~~~i~~~tK~CPkC~~~IEKn~GCN 293 (566)
-|+--+....+....|-|. |+...|..|-. +- .+...+.||+|+....+--|++
T Consensus 41 ICGD~Vg~t~dGe~FVACn~C~fpvCr~Cye-ye------------------------r~eg~~~Cpqckt~Y~r~kgs~ 95 (1094)
T PLN02436 41 ICGDEIELTVDGEPFVACNECAFPVCRPCYE-YE------------------------RREGNQACPQCKTRYKRIKGSP 95 (1094)
T ss_pred ccccccCcCCCCCEEEeeccCCCccccchhh-hh------------------------hhcCCccCcccCCchhhccCCC
Confidence 4777776555556679997 99999999852 10 0123478999998888666666
Q ss_pred eeE
Q 008419 294 LVS 296 (566)
Q Consensus 294 hm~ 296 (566)
.+.
T Consensus 96 ~~~ 98 (1094)
T PLN02436 96 RVE 98 (1094)
T ss_pred CcC
Confidence 543
No 291
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=20.31 E-value=9.4e+02 Score=24.62 Aligned_cols=51 Identities=24% Similarity=0.449 Sum_probs=30.0
Q ss_pred chhHHHHHHHHHHHHhHhhhccccceeecccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 008419 386 DFSWVTNGLYRLFRSRRVLSYSYPFAFYMFGEELFKDEMTDEEREIKQHLFEDQQQQLEANVEKLS 451 (566)
Q Consensus 386 ~~~~l~~a~~~l~~~R~~L~~sy~~~yy~~~~~~~~~~~~~~~~~~~~~lfe~~Q~~le~~~E~L~ 451 (566)
++.||+..+..+.++++.+.- ..+...+++......+.....|+...|.|.
T Consensus 167 kV~WLR~~L~Ei~Ea~e~~~~---------------~~~~e~eke~~~r~l~~~~~ELe~~~EeL~ 217 (269)
T PF05278_consen 167 KVDWLRSKLEEILEAKEIYDQ---------------HETREEEKEEKDRKLELKKEELEELEEELK 217 (269)
T ss_pred chHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678999999999888665421 112223344444455555555555555554
No 292
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=20.27 E-value=2.4e+02 Score=25.09 Aligned_cols=33 Identities=21% Similarity=0.316 Sum_probs=29.0
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHcCCChHHHH
Q 008419 52 KEDLRRVMELLSLREHHARTLLIHYRWDVEKLL 84 (566)
Q Consensus 52 ~~~i~~v~~~l~i~~~~a~~LL~~~~W~~~~l~ 84 (566)
.++|.-|++-.|++...|+..|...+||.-.-+
T Consensus 79 ~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI 111 (116)
T TIGR00264 79 EDDIELVMKQCNVSKEEARRALEECGGDLAEAI 111 (116)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHH
Confidence 578889999999999999999999999975543
No 293
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=20.25 E-value=1e+03 Score=29.21 Aligned_cols=15 Identities=47% Similarity=1.232 Sum_probs=12.1
Q ss_pred CcCCCCCCcceeecC
Q 008419 276 TKPCPKCHKPVEKNG 290 (566)
Q Consensus 276 tK~CPkC~~~IEKn~ 290 (566)
.-.||+|+.|+|-..
T Consensus 796 ~~~~~~~~~~~~~~~ 810 (1006)
T PRK12775 796 VATCPKCHRPLEGDE 810 (1006)
T ss_pred CccCcccCCCCCCCc
Confidence 468999999998543
No 294
>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=20.14 E-value=55 Score=24.41 Aligned_cols=35 Identities=20% Similarity=0.523 Sum_probs=24.4
Q ss_pred cccccccccccCCC--ceecCCCCccchhhHHHHHHh
Q 008419 117 VMCDICMEEVAGDK--ATKMDCGHCFCNDCWTEHFIV 151 (566)
Q Consensus 117 ~~C~IC~e~~~~~~--~~~l~CgH~fC~~C~~~yl~~ 151 (566)
..|.+|-..|.... ..--.||+.||.+|.......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~~ 39 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIPL 39 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeeec
Confidence 46888877765321 122379999999999987554
No 295
>PLN02436 cellulose synthase A
Probab=20.07 E-value=76 Score=38.38 Aligned_cols=49 Identities=27% Similarity=0.596 Sum_probs=34.2
Q ss_pred cccccccccccccC---CCce-ec-CCCCccchhhHHHHHHhhhccCCcceeecCcccccccc
Q 008419 115 STVMCDICMEEVAG---DKAT-KM-DCGHCFCNDCWTEHFIVKINEGQSKRIRCMAHKCNAIC 172 (566)
Q Consensus 115 ~~~~C~IC~e~~~~---~~~~-~l-~CgH~fC~~C~~~yl~~~i~~g~~~~i~CP~~~C~~~~ 172 (566)
....|.||-|++.. .+++ .. .|+-..|+.|. +|- .++|. -.||+ |+...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cy-eye---r~eg~---~~Cpq--ckt~Y 88 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCY-EYE---RREGN---QACPQ--CKTRY 88 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchh-hhh---hhcCC---ccCcc--cCCch
Confidence 45689999999642 2344 33 58888999998 553 34565 58998 87643
Done!