Query 027227
Match_columns 226
No_of_seqs 249 out of 1500
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 06:50:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027227.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027227hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2879 Predicted E3 ubiquitin 100.0 1.8E-34 4E-39 238.6 7.6 211 1-221 81-297 (298)
2 KOG0317 Predicted E3 ubiquitin 99.9 4E-22 8.6E-27 166.9 13.2 183 20-213 88-286 (293)
3 KOG0826 Predicted E3 ubiquitin 99.8 1.3E-19 2.9E-24 153.8 15.2 197 13-211 98-346 (357)
4 PF04757 Pex2_Pex12: Pex2 / Pe 99.8 2.5E-19 5.3E-24 149.8 14.9 129 16-144 73-217 (229)
5 PF15227 zf-C3HC4_4: zinc fing 99.2 5.3E-12 1.2E-16 77.8 3.1 40 166-206 1-42 (42)
6 PLN03208 E3 ubiquitin-protein 99.2 2.1E-11 4.6E-16 98.2 5.7 52 160-212 15-80 (193)
7 KOG0823 Predicted E3 ubiquitin 99.2 2E-11 4.3E-16 100.0 3.4 52 160-212 44-96 (230)
8 PF13923 zf-C3HC4_2: Zinc fing 99.1 8.1E-11 1.8E-15 71.3 2.5 39 166-206 1-39 (39)
9 PF13920 zf-C3HC4_3: Zinc fing 99.0 3.5E-10 7.5E-15 72.3 3.1 47 163-212 2-49 (50)
10 KOG0320 Predicted E3 ubiquitin 99.0 4.1E-10 8.9E-15 88.8 4.0 55 159-215 127-182 (187)
11 smart00504 Ubox Modified RING 99.0 7.9E-10 1.7E-14 73.8 4.5 45 164-211 2-46 (63)
12 PF00097 zf-C3HC4: Zinc finger 99.0 5.1E-10 1.1E-14 68.4 2.9 41 166-206 1-41 (41)
13 PF13639 zf-RING_2: Ring finge 98.9 8E-10 1.7E-14 68.7 1.7 41 165-207 2-44 (44)
14 PHA02929 N1R/p28-like protein; 98.8 2.4E-09 5.1E-14 89.6 3.9 52 162-215 173-231 (238)
15 COG5574 PEX10 RING-finger-cont 98.8 2.4E-09 5.3E-14 89.3 2.6 51 160-211 212-262 (271)
16 cd00162 RING RING-finger (Real 98.8 5.4E-09 1.2E-13 64.2 3.5 45 165-210 1-45 (45)
17 TIGR00599 rad18 DNA repair pro 98.7 6.2E-09 1.4E-13 93.0 3.9 50 159-211 22-71 (397)
18 KOG2164 Predicted E3 ubiquitin 98.7 7.8E-09 1.7E-13 93.4 3.2 49 163-212 186-237 (513)
19 PF13445 zf-RING_UBOX: RING-ty 98.7 7.8E-09 1.7E-13 63.8 1.9 37 166-204 1-43 (43)
20 PHA02926 zinc finger-like prot 98.7 1.4E-08 3E-13 83.1 3.9 54 162-216 169-235 (242)
21 smart00184 RING Ring finger. E 98.6 3E-08 6.6E-13 58.7 3.5 39 166-206 1-39 (39)
22 COG5432 RAD18 RING-finger-cont 98.6 1.3E-08 2.9E-13 85.9 2.2 49 161-212 23-71 (391)
23 PF14634 zf-RING_5: zinc-RING 98.6 4.4E-08 9.6E-13 60.8 3.3 42 165-208 1-44 (44)
24 KOG0978 E3 ubiquitin ligase in 98.6 1.7E-08 3.7E-13 95.1 1.5 54 162-217 642-695 (698)
25 PF04564 U-box: U-box domain; 98.6 5.8E-08 1.3E-12 67.0 3.3 49 162-212 3-51 (73)
26 PF14835 zf-RING_6: zf-RING of 98.5 2E-08 4.4E-13 66.4 0.2 47 161-211 5-51 (65)
27 KOG0287 Postreplication repair 98.5 2.8E-08 6.1E-13 85.6 1.0 50 160-212 20-69 (442)
28 KOG1002 Nucleotide excision re 98.4 7.2E-07 1.6E-11 81.0 6.8 95 71-211 489-586 (791)
29 COG5243 HRD1 HRD ubiquitin lig 98.3 9.1E-07 2E-11 77.3 5.8 54 160-216 284-350 (491)
30 PF12678 zf-rbx1: RING-H2 zinc 98.3 5.8E-07 1.2E-11 62.0 3.3 42 164-207 20-73 (73)
31 KOG2177 Predicted E3 ubiquitin 98.3 3.2E-07 6.9E-12 78.1 1.8 46 160-208 10-55 (386)
32 KOG0824 Predicted E3 ubiquitin 98.3 4E-07 8.7E-12 77.5 2.1 48 163-212 7-54 (324)
33 TIGR00570 cdk7 CDK-activating 98.2 1.3E-06 2.7E-11 75.6 4.4 50 162-212 2-55 (309)
34 KOG0311 Predicted E3 ubiquitin 98.2 1.9E-07 4E-12 81.0 -1.7 57 161-218 41-97 (381)
35 PF11789 zf-Nse: Zinc-finger o 98.1 1.2E-06 2.6E-11 57.4 1.8 46 161-206 9-54 (57)
36 KOG4172 Predicted E3 ubiquitin 98.1 8.3E-07 1.8E-11 56.5 0.8 48 163-212 7-55 (62)
37 KOG1734 Predicted RING-contain 98.0 3.4E-05 7.3E-10 64.9 8.5 137 66-212 136-282 (328)
38 COG5222 Uncharacterized conser 97.8 1.1E-05 2.4E-10 68.7 2.5 45 164-209 275-319 (427)
39 KOG4628 Predicted E3 ubiquitin 97.8 1.3E-05 2.7E-10 70.5 2.8 48 164-212 230-279 (348)
40 COG5152 Uncharacterized conser 97.8 8.3E-06 1.8E-10 65.6 1.3 48 161-211 194-241 (259)
41 COG5540 RING-finger-containing 97.7 1.5E-05 3.3E-10 68.0 2.3 49 162-211 322-372 (374)
42 KOG0802 E3 ubiquitin ligase [P 97.7 1.4E-05 2.9E-10 75.2 1.9 47 161-210 289-340 (543)
43 KOG4265 Predicted E3 ubiquitin 97.7 2.5E-05 5.4E-10 68.2 3.2 56 161-219 288-344 (349)
44 KOG0297 TNF receptor-associate 97.7 2.4E-05 5.2E-10 70.6 3.1 58 160-219 18-75 (391)
45 KOG1785 Tyrosine kinase negati 97.7 2.2E-05 4.9E-10 69.3 2.3 55 164-219 370-424 (563)
46 KOG2660 Locus-specific chromos 97.7 1.2E-05 2.7E-10 69.3 0.5 51 161-213 13-63 (331)
47 PF12861 zf-Apc11: Anaphase-pr 97.6 7.2E-05 1.6E-09 52.6 3.8 36 176-211 46-82 (85)
48 KOG4159 Predicted E3 ubiquitin 97.6 2.9E-05 6.3E-10 69.7 2.3 50 160-212 81-130 (398)
49 KOG1813 Predicted E3 ubiquitin 97.5 3.3E-05 7.2E-10 65.8 1.3 48 162-212 240-287 (313)
50 KOG4692 Predicted E3 ubiquitin 97.3 0.00015 3.2E-09 63.3 3.0 48 161-211 420-467 (489)
51 KOG0828 Predicted E3 ubiquitin 97.3 0.00073 1.6E-08 61.4 7.3 52 160-212 568-635 (636)
52 KOG1039 Predicted E3 ubiquitin 97.1 0.00033 7.2E-09 61.8 2.5 54 161-214 159-224 (344)
53 KOG1001 Helicase-like transcri 96.9 0.0004 8.7E-09 66.6 1.5 50 164-215 455-504 (674)
54 KOG2932 E3 ubiquitin ligase in 96.9 0.00038 8.2E-09 59.8 0.9 50 163-216 90-139 (389)
55 KOG1941 Acetylcholine receptor 96.8 0.00051 1.1E-08 60.8 1.7 65 161-225 363-431 (518)
56 KOG3039 Uncharacterized conser 96.8 0.001 2.2E-08 55.5 3.3 56 162-219 220-278 (303)
57 PF14447 Prok-RING_4: Prokaryo 96.5 0.0015 3.1E-08 42.1 1.7 46 162-212 6-51 (55)
58 KOG0804 Cytoplasmic Zn-finger 96.5 0.0013 2.7E-08 59.3 1.9 48 160-211 172-222 (493)
59 smart00744 RINGv The RING-vari 96.5 0.0033 7.1E-08 39.8 3.3 42 165-207 1-49 (49)
60 PF04641 Rtf2: Rtf2 RING-finge 96.4 0.0041 8.9E-08 53.1 4.5 59 160-221 110-171 (260)
61 KOG1571 Predicted E3 ubiquitin 96.3 0.0021 4.6E-08 56.4 2.2 46 161-212 303-348 (355)
62 KOG4367 Predicted Zn-finger pr 96.1 0.0037 8E-08 56.2 2.4 43 161-204 2-44 (699)
63 KOG1645 RING-finger-containing 96.1 0.0036 7.7E-08 55.8 2.2 50 162-211 3-56 (463)
64 PF02891 zf-MIZ: MIZ/SP-RING z 96.0 0.0061 1.3E-07 38.7 2.6 47 163-209 2-50 (50)
65 KOG4739 Uncharacterized protei 96.0 0.0026 5.7E-08 53.0 1.1 48 165-217 5-53 (233)
66 COG5219 Uncharacterized conser 96.0 0.0045 9.7E-08 60.5 2.6 51 161-211 1467-1523(1525)
67 KOG4275 Predicted E3 ubiquitin 95.9 0.0014 3E-08 56.0 -1.1 46 162-214 299-345 (350)
68 KOG0825 PHD Zn-finger protein 95.7 0.0019 4.2E-08 61.7 -1.1 53 162-216 122-176 (1134)
69 PF11793 FANCL_C: FANCL C-term 95.7 0.0035 7.5E-08 42.7 0.5 49 163-211 2-66 (70)
70 COG5236 Uncharacterized conser 95.6 0.013 2.8E-07 51.4 3.5 54 158-212 56-109 (493)
71 KOG0827 Predicted E3 ubiquitin 94.9 0.018 3.8E-07 51.2 2.3 45 164-208 5-53 (465)
72 COG5194 APC11 Component of SCF 94.4 0.045 9.8E-07 37.9 2.9 31 179-211 51-81 (88)
73 KOG4185 Predicted E3 ubiquitin 94.4 0.032 6.9E-07 48.4 2.7 45 164-210 4-54 (296)
74 KOG2114 Vacuolar assembly/sort 94.3 0.024 5.2E-07 54.9 2.0 42 163-209 840-881 (933)
75 PF05290 Baculo_IE-1: Baculovi 94.2 0.047 1E-06 41.5 3.0 50 163-212 80-133 (140)
76 PF14570 zf-RING_4: RING/Ubox 94.0 0.06 1.3E-06 33.8 2.7 41 166-210 1-47 (48)
77 KOG1493 Anaphase-promoting com 93.8 0.021 4.6E-07 39.2 0.4 36 176-211 45-81 (84)
78 COG5175 MOT2 Transcriptional r 93.4 0.062 1.3E-06 47.1 2.7 49 162-211 13-64 (480)
79 KOG2930 SCF ubiquitin ligase, 93.1 0.068 1.5E-06 38.8 2.1 30 180-211 79-108 (114)
80 KOG3039 Uncharacterized conser 92.6 0.1 2.2E-06 43.9 2.8 36 160-196 40-75 (303)
81 PF10367 Vps39_2: Vacuolar sor 92.4 0.06 1.3E-06 39.1 1.1 32 161-192 76-108 (109)
82 KOG2034 Vacuolar sorting prote 92.2 0.078 1.7E-06 51.8 1.9 37 160-196 814-851 (911)
83 KOG3800 Predicted E3 ubiquitin 92.0 0.14 3E-06 44.0 2.9 46 165-211 2-51 (300)
84 PF07800 DUF1644: Protein of u 91.9 0.19 4.1E-06 39.5 3.4 21 162-183 1-21 (162)
85 PHA02825 LAP/PHD finger-like p 91.8 0.28 6E-06 38.6 4.1 50 160-211 5-59 (162)
86 KOG1814 Predicted E3 ubiquitin 91.2 0.13 2.7E-06 46.3 2.0 46 162-207 183-236 (445)
87 KOG3002 Zn finger protein [Gen 90.9 0.19 4E-06 43.9 2.7 48 161-215 46-95 (299)
88 PHA03096 p28-like protein; Pro 90.7 0.16 3.4E-06 44.0 2.0 45 164-208 179-231 (284)
89 PF08746 zf-RING-like: RING-li 90.5 0.29 6.2E-06 29.9 2.5 41 166-206 1-43 (43)
90 KOG1100 Predicted E3 ubiquitin 90.5 0.15 3.2E-06 42.2 1.6 41 165-212 160-201 (207)
91 KOG3579 Predicted E3 ubiquitin 89.9 0.25 5.4E-06 42.4 2.5 50 161-211 266-328 (352)
92 KOG3970 Predicted E3 ubiquitin 89.9 0.35 7.5E-06 40.2 3.3 49 162-211 49-105 (299)
93 KOG2817 Predicted E3 ubiquitin 89.3 2.4 5.3E-05 38.1 8.3 49 161-210 332-384 (394)
94 KOG3161 Predicted E3 ubiquitin 87.5 0.2 4.4E-06 47.4 0.5 38 162-204 10-51 (861)
95 KOG1428 Inhibitor of type V ad 87.4 0.25 5.5E-06 51.0 1.1 54 161-214 3484-3547(3738)
96 KOG4362 Transcriptional regula 86.8 0.15 3.3E-06 48.7 -0.7 48 163-211 21-69 (684)
97 PHA02862 5L protein; Provision 86.1 0.9 2E-05 35.2 3.2 46 164-211 3-53 (156)
98 KOG1812 Predicted E3 ubiquitin 85.0 0.5 1.1E-05 42.7 1.7 44 162-205 145-195 (384)
99 PRK04023 DNA polymerase II lar 84.7 0.55 1.2E-05 46.9 1.9 51 161-216 624-679 (1121)
100 PF07975 C1_4: TFIIH C1-like d 83.9 0.87 1.9E-05 28.9 2.0 29 177-207 22-50 (51)
101 KOG4445 Uncharacterized conser 83.9 0.39 8.5E-06 41.5 0.5 51 161-211 113-186 (368)
102 COG5220 TFB3 Cdk activating ki 83.8 0.42 9.1E-06 40.1 0.6 49 162-211 9-64 (314)
103 PF07191 zinc-ribbons_6: zinc- 83.6 0.067 1.4E-06 36.3 -3.5 44 164-215 2-45 (70)
104 PF14569 zf-UDP: Zinc-binding 82.9 1.6 3.5E-05 30.1 3.1 50 162-212 8-63 (80)
105 PLN02638 cellulose synthase A 82.2 1.2 2.7E-05 44.9 3.2 49 162-211 16-70 (1079)
106 PF03854 zf-P11: P-11 zinc fin 81.5 0.88 1.9E-05 28.4 1.2 44 164-212 3-47 (50)
107 PF10497 zf-4CXXC_R1: Zinc-fin 81.4 1.9 4E-05 31.7 3.2 27 183-209 37-70 (105)
108 PF05605 zf-Di19: Drought indu 80.3 0.95 2.1E-05 28.8 1.2 40 163-210 2-41 (54)
109 KOG2979 Protein involved in DN 80.2 1.2 2.7E-05 37.6 2.1 48 162-209 175-222 (262)
110 PF04216 FdhE: Protein involve 79.8 0.31 6.8E-06 42.2 -1.6 48 161-211 170-222 (290)
111 PLN02436 cellulose synthase A 79.0 1.4 3.1E-05 44.4 2.5 50 162-212 35-90 (1094)
112 PLN02915 cellulose synthase A 78.6 2.1 4.6E-05 43.1 3.5 52 160-212 12-69 (1044)
113 PF15616 TerY-C: TerY-C metal 78.1 1.2 2.5E-05 34.1 1.2 43 160-211 74-116 (131)
114 PLN02189 cellulose synthase 78.1 1.7 3.7E-05 43.8 2.7 50 162-212 33-88 (1040)
115 KOG0298 DEAD box-containing he 77.8 0.51 1.1E-05 48.1 -1.0 45 162-208 1152-1196(1394)
116 KOG3799 Rab3 effector RIM1 and 77.8 0.79 1.7E-05 35.0 0.2 46 160-210 62-117 (169)
117 PF10272 Tmpp129: Putative tra 77.5 1.8 3.8E-05 38.8 2.4 31 184-214 313-354 (358)
118 KOG1952 Transcription factor N 77.3 1.9 4E-05 42.4 2.6 50 161-210 189-246 (950)
119 PLN02195 cellulose synthase A 76.1 2.5 5.4E-05 42.4 3.2 48 163-211 6-59 (977)
120 PF05883 Baculo_RING: Baculovi 75.9 1 2.3E-05 34.4 0.4 34 163-196 26-67 (134)
121 TIGR01562 FdhE formate dehydro 75.8 1.2 2.6E-05 39.0 0.8 55 162-219 183-242 (305)
122 PF06906 DUF1272: Protein of u 74.6 4.6 0.0001 26.1 3.1 44 164-211 6-52 (57)
123 PLN02400 cellulose synthase 73.9 2 4.3E-05 43.5 1.9 50 162-212 35-90 (1085)
124 KOG1815 Predicted E3 ubiquitin 73.9 2.5 5.3E-05 39.0 2.4 37 161-197 68-104 (444)
125 PRK03564 formate dehydrogenase 73.6 1.4 3.1E-05 38.5 0.8 55 162-219 186-244 (309)
126 PF10235 Cript: Microtubule-as 72.7 2.2 4.7E-05 30.5 1.4 37 163-211 44-80 (90)
127 KOG0825 PHD Zn-finger protein 72.0 3.1 6.7E-05 40.7 2.6 56 162-217 95-160 (1134)
128 PF12906 RINGv: RING-variant d 71.5 3.3 7.2E-05 25.6 1.9 40 166-206 1-47 (47)
129 COG5183 SSM4 Protein involved 69.9 5.1 0.00011 39.4 3.5 61 160-221 9-76 (1175)
130 COG3813 Uncharacterized protei 69.6 3.6 7.8E-05 28.0 1.8 24 184-211 29-52 (84)
131 KOG3113 Uncharacterized conser 69.0 6.1 0.00013 33.6 3.4 50 161-214 109-161 (293)
132 KOG1940 Zn-finger protein [Gen 68.7 3.3 7.2E-05 35.7 1.9 42 164-208 159-204 (276)
133 PF10571 UPF0547: Uncharacteri 68.4 3.3 7E-05 22.4 1.2 10 201-210 15-24 (26)
134 PF04710 Pellino: Pellino; In 68.2 1.7 3.6E-05 39.2 0.0 37 173-212 300-340 (416)
135 KOG2169 Zn-finger transcriptio 67.0 3.8 8.3E-05 39.6 2.2 52 160-211 303-356 (636)
136 KOG3899 Uncharacterized conser 66.2 3.8 8.1E-05 35.5 1.7 38 182-219 325-373 (381)
137 KOG1812 Predicted E3 ubiquitin 65.7 2.7 5.9E-05 38.0 0.9 34 163-197 306-344 (384)
138 TIGR00622 ssl1 transcription f 64.5 8.2 0.00018 28.7 3.0 43 163-207 55-110 (112)
139 COG5109 Uncharacterized conser 64.4 4.8 0.0001 35.3 2.1 49 161-210 334-386 (396)
140 PF03833 PolC_DP2: DNA polymer 62.4 2.5 5.5E-05 41.7 0.0 52 162-218 654-710 (900)
141 KOG4718 Non-SMC (structural ma 62.2 3.9 8.5E-05 33.7 1.1 47 162-210 180-226 (235)
142 KOG3842 Adaptor protein Pellin 59.1 10 0.00023 33.2 3.2 52 160-212 338-415 (429)
143 smart00064 FYVE Protein presen 58.4 9.4 0.0002 25.1 2.3 33 163-195 10-45 (68)
144 KOG0289 mRNA splicing factor [ 56.9 14 0.0003 33.9 3.7 46 165-212 2-47 (506)
145 KOG2231 Predicted E3 ubiquitin 56.7 11 0.00023 36.6 3.1 46 165-211 2-52 (669)
146 PF12773 DZR: Double zinc ribb 56.2 10 0.00022 23.4 2.0 27 185-211 13-40 (50)
147 cd00065 FYVE FYVE domain; Zinc 54.0 11 0.00023 23.8 1.9 32 164-195 3-37 (57)
148 KOG2068 MOT2 transcription fac 52.5 14 0.0003 32.6 2.9 47 163-211 249-298 (327)
149 PF14353 CpXC: CpXC protein 51.3 12 0.00027 28.0 2.2 13 200-212 38-50 (128)
150 PF04423 Rad50_zn_hook: Rad50 50.5 5.5 0.00012 25.2 0.1 11 202-212 22-32 (54)
151 PF01363 FYVE: FYVE zinc finge 50.0 4.1 9E-05 27.0 -0.6 34 161-194 7-43 (69)
152 KOG2113 Predicted RNA binding 49.9 11 0.00023 33.2 1.8 47 161-212 341-388 (394)
153 PRK14714 DNA polymerase II lar 49.1 8.6 0.00019 39.7 1.3 53 163-216 667-725 (1337)
154 KOG0824 Predicted E3 ubiquitin 48.8 5.3 0.00011 34.8 -0.2 49 160-210 102-150 (324)
155 COG3364 Zn-ribbon containing p 48.2 12 0.00026 27.3 1.5 27 176-208 2-28 (112)
156 KOG2807 RNA polymerase II tran 47.6 23 0.0005 31.3 3.5 45 162-208 329-375 (378)
157 PF13240 zinc_ribbon_2: zinc-r 47.3 3.3 7.1E-05 21.7 -1.1 8 202-209 15-22 (23)
158 COG0068 HypF Hydrogenase matur 46.0 13 0.00029 36.1 2.0 26 186-211 153-184 (750)
159 COG2093 DNA-directed RNA polym 45.8 11 0.00023 25.0 0.9 30 186-217 6-35 (64)
160 COG4229 Predicted enolase-phos 45.3 1.1E+02 0.0025 25.0 6.8 75 26-104 17-92 (229)
161 KOG3726 Uncharacterized conser 44.4 15 0.00032 35.5 2.0 41 163-209 654-698 (717)
162 KOG1729 FYVE finger containing 44.0 4.2 9E-05 35.4 -1.6 50 161-210 166-224 (288)
163 smart00647 IBR In Between Ring 43.9 4.8 0.0001 25.9 -1.0 15 181-195 45-59 (64)
164 smart00531 TFIIE Transcription 43.6 15 0.00032 28.4 1.6 41 160-213 96-136 (147)
165 cd00350 rubredoxin_like Rubred 42.9 3 6.6E-05 23.7 -1.8 14 199-212 16-29 (33)
166 PF09889 DUF2116: Uncharacteri 42.8 16 0.00034 23.9 1.4 12 200-211 3-14 (59)
167 COG5151 SSL1 RNA polymerase II 42.0 64 0.0014 28.4 5.3 46 161-208 360-418 (421)
168 PTZ00303 phosphatidylinositol 41.8 15 0.00034 36.2 1.7 31 164-194 461-499 (1374)
169 KOG3268 Predicted E3 ubiquitin 41.2 23 0.0005 28.6 2.3 51 161-211 163-228 (234)
170 PF02148 zf-UBP: Zn-finger in 41.0 16 0.00034 23.9 1.2 32 166-197 1-36 (63)
171 PF09723 Zn-ribbon_8: Zinc rib 40.5 9.2 0.0002 23.0 -0.0 10 199-208 25-34 (42)
172 PF06844 DUF1244: Protein of u 40.5 16 0.00035 24.4 1.1 13 185-197 11-23 (68)
173 PF10083 DUF2321: Uncharacteri 40.0 18 0.0004 28.4 1.6 25 183-212 27-51 (158)
174 COG3058 FdhE Uncharacterized p 39.6 21 0.00045 30.9 2.0 47 161-209 183-234 (308)
175 PF13248 zf-ribbon_3: zinc-rib 39.0 7.5 0.00016 20.8 -0.5 9 201-209 17-25 (26)
176 PF04281 Tom22: Mitochondrial 37.7 22 0.00047 27.4 1.6 21 120-140 90-110 (137)
177 KOG3362 Predicted BBOX Zn-fing 37.2 12 0.00027 28.9 0.2 32 162-195 117-149 (156)
178 KOG2462 C2H2-type Zn-finger pr 36.8 16 0.00034 31.5 0.8 50 161-211 159-226 (279)
179 PRK11595 DNA utilization prote 36.5 32 0.00069 28.5 2.6 39 164-210 6-44 (227)
180 smart00249 PHD PHD zinc finger 36.3 15 0.00032 21.4 0.5 41 166-206 2-47 (47)
181 smart00154 ZnF_AN1 AN1-like Zi 36.3 24 0.00052 20.9 1.3 23 166-188 1-24 (39)
182 PF10013 DUF2256: Uncharacteri 35.8 22 0.00048 21.6 1.1 14 199-212 7-20 (42)
183 PF02318 FYVE_2: FYVE-type zin 35.6 19 0.00041 26.7 1.0 46 162-208 53-102 (118)
184 PRK12380 hydrogenase nickel in 35.2 8.1 0.00018 28.6 -1.0 11 200-210 86-96 (113)
185 KOG3476 Microtubule-associated 35.0 4.1 8.8E-05 28.7 -2.5 37 163-211 54-90 (100)
186 KOG3842 Adaptor protein Pellin 33.8 15 0.00032 32.4 0.2 35 174-211 314-352 (429)
187 KOG4536 Predicted membrane pro 33.7 1.1E+02 0.0024 26.6 5.3 45 60-104 114-158 (347)
188 TIGR00100 hypA hydrogenase nic 33.5 8.8 0.00019 28.5 -1.1 11 200-210 86-96 (115)
189 PF15178 TOM_sub5: Mitochondri 33.1 44 0.00095 20.7 2.1 19 26-44 32-50 (51)
190 KOG1356 Putative transcription 33.0 15 0.00033 36.3 0.2 55 160-214 226-285 (889)
191 PLN02248 cellulose synthase-li 32.5 44 0.00095 34.4 3.2 30 181-212 149-178 (1135)
192 KOG1814 Predicted E3 ubiquitin 32.0 22 0.00048 32.4 1.0 34 162-195 367-405 (445)
193 COG4098 comFA Superfamily II D 31.6 21 0.00046 32.0 0.8 33 160-192 36-68 (441)
194 PF09297 zf-NADH-PPase: NADH p 31.6 5.6 0.00012 22.3 -1.9 25 184-208 3-29 (32)
195 KOG1815 Predicted E3 ubiquitin 31.3 14 0.00031 33.9 -0.3 33 163-195 226-265 (444)
196 KOG3352 Cytochrome c oxidase, 31.2 20 0.00044 28.0 0.6 25 195-220 128-152 (153)
197 PF03119 DNA_ligase_ZBD: NAD-d 31.1 20 0.00043 19.6 0.4 11 202-212 1-11 (28)
198 KOG1609 Protein involved in mR 30.7 37 0.0008 29.1 2.2 50 162-212 77-135 (323)
199 COG4306 Uncharacterized protei 30.5 29 0.00063 26.3 1.3 23 185-212 29-51 (160)
200 PF07503 zf-HYPF: HypF finger; 30.2 52 0.0011 19.1 2.0 25 187-211 2-32 (35)
201 PF13824 zf-Mss51: Zinc-finger 30.2 46 0.00099 21.5 2.0 11 200-210 14-24 (55)
202 TIGR00373 conserved hypothetic 30.1 41 0.00089 26.4 2.1 37 160-214 106-142 (158)
203 PF14446 Prok-RING_1: Prokaryo 29.5 61 0.0013 20.8 2.5 32 162-193 4-38 (54)
204 COG4338 Uncharacterized protei 29.1 16 0.00035 22.9 -0.3 12 200-211 12-23 (54)
205 cd00729 rubredoxin_SM Rubredox 28.7 7.7 0.00017 22.3 -1.6 13 200-212 18-30 (34)
206 PRK06393 rpoE DNA-directed RNA 28.7 40 0.00087 22.4 1.6 25 200-224 17-44 (64)
207 smart00734 ZnF_Rad18 Rad18-lik 28.6 29 0.00062 18.6 0.7 10 202-211 3-12 (26)
208 PRK06266 transcription initiat 28.6 52 0.0011 26.4 2.6 37 160-214 114-150 (178)
209 PRK00564 hypA hydrogenase nick 28.0 18 0.00039 26.9 -0.2 11 201-211 89-99 (117)
210 smart00132 LIM Zinc-binding do 27.8 38 0.00083 18.8 1.3 36 165-210 1-37 (39)
211 COG5627 MMS21 DNA repair prote 27.8 33 0.00073 28.9 1.3 44 162-205 188-231 (275)
212 smart00290 ZnF_UBP Ubiquitin C 27.6 39 0.00085 20.5 1.3 25 165-190 1-25 (50)
213 PF09538 FYDLN_acid: Protein o 27.4 39 0.00085 24.9 1.5 11 201-211 27-37 (108)
214 PRK12496 hypothetical protein; 27.4 17 0.00038 28.7 -0.4 11 201-211 144-154 (164)
215 KOG1819 FYVE finger-containing 27.4 23 0.00049 33.2 0.3 32 161-192 899-933 (990)
216 PRK14559 putative protein seri 27.1 64 0.0014 31.4 3.3 14 200-213 41-54 (645)
217 COG1996 RPC10 DNA-directed RNA 26.7 28 0.00062 21.9 0.6 16 199-214 23-38 (49)
218 PRK03681 hypA hydrogenase nick 26.5 15 0.00032 27.3 -0.9 10 201-210 88-97 (114)
219 COG2816 NPY1 NTP pyrophosphohy 26.5 16 0.00035 31.6 -0.8 8 164-171 112-119 (279)
220 COG1545 Predicted nucleic-acid 26.1 38 0.00083 26.0 1.3 10 201-210 44-53 (140)
221 PRK01343 zinc-binding protein; 26.1 42 0.00092 21.8 1.3 12 200-211 9-20 (57)
222 PF01485 IBR: IBR domain; Int 26.0 18 0.0004 23.0 -0.4 31 164-194 19-58 (64)
223 KOG3053 Uncharacterized conser 25.9 38 0.00082 29.0 1.3 53 159-211 16-82 (293)
224 KOG1701 Focal adhesion adaptor 25.4 45 0.00098 30.6 1.8 46 162-211 359-405 (468)
225 PF14319 Zn_Tnp_IS91: Transpos 25.2 24 0.00052 26.0 0.0 29 161-192 40-68 (111)
226 COG1885 Uncharacterized protei 25.0 41 0.00089 24.6 1.2 12 200-211 49-60 (115)
227 PF13894 zf-C2H2_4: C2H2-type 24.7 14 0.00031 18.2 -0.9 11 202-212 2-12 (24)
228 PF09845 DUF2072: Zn-ribbon co 24.6 43 0.00092 25.6 1.3 29 176-210 1-29 (131)
229 PF07754 DUF1610: Domain of un 24.6 33 0.00071 18.2 0.5 9 200-208 16-24 (24)
230 PF01155 HypA: Hydrogenase exp 24.4 6 0.00013 29.3 -3.4 10 201-210 87-96 (113)
231 KOG1829 Uncharacterized conser 24.3 33 0.00071 32.8 0.7 41 162-207 510-557 (580)
232 TIGR00375 conserved hypothetic 24.1 24 0.00053 31.8 -0.1 12 200-212 259-270 (374)
233 KOG0309 Conserved WD40 repeat- 24.1 48 0.001 32.8 1.8 41 163-205 1028-1069(1081)
234 PRK08351 DNA-directed RNA poly 23.8 55 0.0012 21.5 1.5 18 201-218 16-33 (61)
235 COG1198 PriA Primosomal protei 23.7 26 0.00057 34.5 0.0 24 183-209 461-484 (730)
236 cd00730 rubredoxin Rubredoxin; 23.7 39 0.00084 21.3 0.8 13 199-211 33-45 (50)
237 COG0375 HybF Zn finger protein 23.5 15 0.00032 27.5 -1.4 13 200-212 86-98 (115)
238 PF00301 Rubredoxin: Rubredoxi 23.5 44 0.00095 20.7 1.0 11 199-209 33-43 (47)
239 COG4068 Uncharacterized protei 23.4 49 0.0011 21.6 1.2 14 199-212 7-20 (64)
240 PF09237 GAGA: GAGA factor; I 23.4 16 0.00035 23.2 -1.0 11 201-211 25-35 (54)
241 TIGR01206 lysW lysine biosynth 23.3 38 0.00082 21.7 0.7 11 201-211 3-13 (54)
242 COG5533 UBP5 Ubiquitin C-termi 23.2 67 0.0014 28.5 2.3 56 161-219 233-303 (415)
243 COG3492 Uncharacterized protei 23.1 43 0.00094 23.9 1.0 13 185-197 42-54 (104)
244 COG1592 Rubrerythrin [Energy p 23.0 24 0.00051 28.1 -0.4 14 200-213 149-162 (166)
245 PF13913 zf-C2HC_2: zinc-finge 22.7 48 0.001 17.4 0.9 11 201-211 3-13 (25)
246 PF13901 DUF4206: Domain of un 22.6 82 0.0018 25.7 2.7 39 163-208 152-197 (202)
247 PLN02294 cytochrome c oxidase 22.4 40 0.00087 27.0 0.8 25 197-222 138-162 (174)
248 PF00412 LIM: LIM domain; Int 22.3 78 0.0017 19.5 2.1 32 162-193 25-56 (58)
249 PF05502 Dynactin_p62: Dynacti 22.3 41 0.00089 31.5 1.0 11 201-211 53-63 (483)
250 PF02146 SIR2: Sir2 family; I 22.3 1E+02 0.0023 24.2 3.2 33 179-211 108-140 (178)
251 PHA00626 hypothetical protein 22.3 67 0.0014 20.8 1.6 12 200-211 23-34 (59)
252 PRK04179 rpl37e 50S ribosomal 22.2 26 0.00055 23.2 -0.3 36 183-219 16-52 (62)
253 PF14369 zf-RING_3: zinc-finge 22.1 20 0.00043 20.8 -0.8 26 185-210 3-31 (35)
254 COG1379 PHP family phosphoeste 21.6 67 0.0014 28.6 2.0 47 164-212 227-277 (403)
255 KOG0314 Predicted E3 ubiquitin 21.5 24 0.00052 32.6 -0.7 47 160-206 216-264 (448)
256 COG3024 Uncharacterized protei 21.5 46 0.00099 22.1 0.8 13 200-212 7-19 (65)
257 PF03850 Tfb4: Transcription f 21.3 1.6E+02 0.0035 25.3 4.4 20 77-96 188-207 (276)
258 COG2331 Uncharacterized protei 20.9 59 0.0013 22.4 1.3 39 177-218 13-52 (82)
259 PF00096 zf-C2H2: Zinc finger, 20.8 24 0.00052 17.6 -0.5 11 202-212 2-12 (23)
260 PF15200 KRTDAP: Keratinocyte 20.7 92 0.002 21.2 2.1 22 124-145 43-64 (77)
261 KOG4185 Predicted E3 ubiquitin 20.5 34 0.00073 29.4 0.0 45 163-209 207-265 (296)
262 PF01428 zf-AN1: AN1-like Zinc 20.4 40 0.00086 20.2 0.3 22 169-190 6-27 (43)
263 COG4647 AcxC Acetone carboxyla 20.1 45 0.00097 25.5 0.6 22 168-190 62-83 (165)
264 PRK00418 DNA gyrase inhibitor; 20.1 53 0.0011 21.7 0.8 12 200-211 6-17 (62)
No 1
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.8e-34 Score=238.63 Aligned_cols=211 Identities=36% Similarity=0.632 Sum_probs=170.7
Q ss_pred CCccccccccccccCCCCCCChhHHHHHHHHHHHHHHHHHHHHhHHhhhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 027227 1 MNVLWKQEQKVRTGLEGPGLTNAQKIWYCIATVGGQYLWARLQSFSAFRRWGDSEQRPLARRAWILIQRIEALYKAASFG 80 (226)
Q Consensus 1 ~~~~~~~~~~~~~~~~g~~Ls~~~r~~~~l~~v~~pYl~~Kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 80 (226)
|||.|+.|.....-.-+++ ++++.+.++++.|+.++.+ ....++|.++ .-.+++..+.+++.++.+..+.
T Consensus 81 l~v~y~~ek~~~~r~~l~g-----~IW~~v~sig~~~~~~r~q-m~l~r~~~~~----~~~~~~~~v~~ve~i~~~~~~~ 150 (298)
T KOG2879|consen 81 LNVAYIFEKLPVLRVVLEG-----KIWTHVFSIGGSWLEERNQ-MDLFRAGWVN----LTPKLITSVFMVEGILKALGML 150 (298)
T ss_pred hhHHhhhccCceEEEeecc-----eEEEEeccccCCchhhhhH-HHHHHhhhhh----HHHHHHHHHHHHHHHHHHHHHH
Confidence 5777777765222221121 5666678899999999976 2223333332 2233677788999999999999
Q ss_pred HHHHHhhcCCcCcHHHHHhhceeeecCCCCCcccchhhhhhHHHHHHHHHHHHHHhhcccchhhhhhccCCCCC------
Q 027227 81 NLLIFLYTGRYRNLIERALRARLVYGTPNMNRAVSFEYMNRQLVWNEFSEMLLLLLPLLNSSTVKGLFGPFSKD------ 154 (226)
Q Consensus 81 ~~l~Fl~~g~y~sl~~rll~lr~~~~~~~~~~~~~~~~~~r~l~~~~~~e~l~~~lp~~~~~~~~~~l~~~~~~------ 154 (226)
|++.||..|+++++.++++|++++...+...|+++|||+||||+|++++|++.+++|+++++++++.++++..+
T Consensus 151 n~l~fL~~gr~~tlie~il~~~si~~~~~~~R~ig~eY~NReLlW~~F~e~ll~~lp~I~~~k~r~~l~sw~~~l~~ap~ 230 (298)
T KOG2879|consen 151 NLLSFLYRGRMYTLIEAILGLGSILHFPYFNRSIGYEYQNRELLWNAFREVLLLTLPFINFRKLRRVLKSWKLDLDRAPK 230 (298)
T ss_pred HHHHHHHhhhhhHHHHHHhccchhhhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999998866554433
Q ss_pred CCCCCCcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccccccccCC
Q 027227 155 KSSSSEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVINP 221 (226)
Q Consensus 155 ~~~~~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 221 (226)
...+..+++.+|++|.+.+++|++..+|||+|||+|+.+....+..+.||.|++++..++..||..|
T Consensus 231 ~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq~sgv~~~ 297 (298)
T KOG2879|consen 231 FSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPLQASGVKSP 297 (298)
T ss_pred cccccccCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCcchhhccCCCC
Confidence 2334557889999999999999988889999999999998877667999999999998887777655
No 2
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.88 E-value=4e-22 Score=166.91 Aligned_cols=183 Identities=17% Similarity=0.297 Sum_probs=116.3
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHhHHhhh--hcCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcCcHHHH
Q 027227 20 LTNAQKIWYCIATVGGQYLWARLQSFSAFR--RWGDSEQRPLARRAWILIQRIEALYKAASFGNLLIFLYTGRYRNLIER 97 (226)
Q Consensus 20 Ls~~~r~~~~l~~v~~pYl~~Kl~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~Fl~~g~y~sl~~r 97 (226)
++..++..+++++.+.||+.+|+.+.+... .|..-.+ ..++.+. +... ....+|...||++|.||++++|
T Consensus 88 pssl~~~~~v~~~~v~~~~~~~l~~~l~q~l~~~~~i~p-~~~~~~l------~~l~-~v~~~h~~lFY~~g~~y~IskR 159 (293)
T KOG0317|consen 88 PSSLRRIVFVASHLVLPLLLDKLTKKLMQALQSSSEILP-QARRNFL------RGLF-AVLRAHKALFYINGSFYSISKR 159 (293)
T ss_pred CchhhhHHHHHHHHHHHHHhHHHHHHHHHhhccCccccc-HHHHHHh------hhHH-HHHHHhhheEEecCchHHHHHh
Confidence 477788888999999999999888776521 1111111 1122222 2333 7788999999999999999999
Q ss_pred HhhceeeecCCC----CCcccchhhhhhHHHHHHHHHHHHHHh-hcccchhhh-hhcc-----CC---CCCCCCCCCcCc
Q 027227 98 ALRARLVYGTPN----MNRAVSFEYMNRQLVWNEFSEMLLLLL-PLLNSSTVK-GLFG-----PF---SKDKSSSSEEDV 163 (226)
Q Consensus 98 ll~lr~~~~~~~----~~~~~~~~~~~r~l~~~~~~e~l~~~l-p~~~~~~~~-~~l~-----~~---~~~~~~~~~~~~ 163 (226)
+.||||+++... ......|..++-..+-+..+.+...+. .+..-.+.. +... .. .+...+...+..
T Consensus 160 ltgI~yv~~~~~~~~~~~~~q~y~iLg~I~L~ql~~slg~r~~~s~~q~~~s~~e~~~e~~~~~~~~~~s~~~~~i~~a~ 239 (293)
T KOG0317|consen 160 LTGIRYVLARTLKGHEANASQPYKILGYILLIQLLLSLGSRLYASFLQHKRSSTESIEESKLNHSKLEDSNSLSSIPEAT 239 (293)
T ss_pred hccceEEEEecccccccccccceeeechhhHHHHHHhhhhHHHHHHHhcccccccccccccccccchhhccCCccCCCCC
Confidence 999999998522 222345555554444442222221111 000000000 0000 00 001123345677
Q ss_pred ccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccc
Q 027227 164 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAM 213 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~ 213 (226)
.+|.+|++...+| ..+||||+|||.||.+|..++ ..||+||++++.-
T Consensus 240 ~kC~LCLe~~~~p-SaTpCGHiFCWsCI~~w~~ek--~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 240 RKCSLCLENRSNP-SATPCGHIFCWSCILEWCSEK--AECPLCREKFQPS 286 (293)
T ss_pred CceEEEecCCCCC-CcCcCcchHHHHHHHHHHccc--cCCCcccccCCCc
Confidence 9999999999999 789999999999999999764 5799999988743
No 3
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=99.83 E-value=1.3e-19 Score=153.80 Aligned_cols=197 Identities=15% Similarity=0.125 Sum_probs=142.3
Q ss_pred ccCCCCCCChhHHHHHHHHHHHHHHHHHHHHhHHhhhhcCC-----CCC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027227 13 TGLEGPGLTNAQKIWYCIATVGGQYLWARLQSFSAFRRWGD-----SEQ-RPLARRAWILIQRIEALYKAASFGNLLIFL 86 (226)
Q Consensus 13 ~~~~g~~Ls~~~r~~~~l~~v~~pYl~~Kl~~~~~~~~~~~-----~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~Fl 86 (226)
...+|.+|.++||++++++.|+.||+..||+..++..+-.+ +.+ ...++.|..++|++++++++.++++.+.|+
T Consensus 98 e~~~~~~l~krQr~~s~~~lv~lPYv~~KL~~i~~k~~e~~~~~S~e~~~~~~~~aF~~~~p~i~~a~els~lvq~l~yI 177 (357)
T KOG0826|consen 98 EWPQGLGLNKRQRIVSFLFLVILPYVEAKLDEIYEKLRENNEFSSDETENKRPKRAFLRIYPFIKMALELSKLVQQLRYI 177 (357)
T ss_pred cccCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccCchhhhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence 34688999999999999999999999999999987533211 112 223666889999999999999999999999
Q ss_pred h-cCCcCcHHHHHhhceeeecCCCCCc-------ccc------h---------hhhhhHH--------HHHHHHHHHHHH
Q 027227 87 Y-TGRYRNLIERALRARLVYGTPNMNR-------AVS------F---------EYMNRQL--------VWNEFSEMLLLL 135 (226)
Q Consensus 87 ~-~g~y~sl~~rll~lr~~~~~~~~~~-------~~~------~---------~~~~r~l--------~~~~~~e~l~~~ 135 (226)
. ...-+||+.++.|+.+.+.+|.+.. +.+ . .++++.. +-..++..+.|+
T Consensus 178 lkrs~~hSPll~lsgv~L~~lt~~dl~a~~~gp~e~~~~~q~~r~t~~e~i~l~~qgaL~~~~~~v~~~~stgl~~~vFf 257 (357)
T KOG0826|consen 178 LKRSSHHSPLLYLSGVQLGTLTPEDLQALEHGPAELSMMDQPARKTVSEKIFLLMQGALKKAVRGVAFSLSTGLSVGVFF 257 (357)
T ss_pred HHhcccccHHHHHhhcccccccHHHHHHhhccccccchhhhhhhhhhhhhHHHHHHhHHHHHHhhHHHHHHhhHHHHHHH
Confidence 8 4889999999999999987773310 000 0 0011110 112245667778
Q ss_pred hhcccchhhh---hhccCCCCC--C----------CCCCCcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCC
Q 027227 136 LPLLNSSTVK---GLFGPFSKD--K----------SSSSEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPS 200 (226)
Q Consensus 136 lp~~~~~~~~---~~l~~~~~~--~----------~~~~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~ 200 (226)
+++++++... +.+++-... + ....+.+...||+|.+...||.+....|.+|||.|+..++.+ .
T Consensus 258 lqfldWWyssd~~~~~k~~l~~p~PpPPh~~~~se~e~l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~~--~ 335 (357)
T KOG0826|consen 258 LQFLDWWYSSDNQRKIKSTLDPPIPPPPHKQYNSESELLPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVVN--Y 335 (357)
T ss_pred HHHHHHHhcchHHHhhccCCCCCCCcCChhhcccccccCCCccccChhHHhccCCCceEEecceEEeHHHHHHHHHh--c
Confidence 8887776432 222221111 0 112345779999999999999877888999999999999975 5
Q ss_pred CCCCCCCcccc
Q 027227 201 FRCSRCNEPVI 211 (226)
Q Consensus 201 ~~CP~Cr~~~~ 211 (226)
..||+.+.|..
T Consensus 336 ~~CPVT~~p~~ 346 (357)
T KOG0826|consen 336 GHCPVTGYPAS 346 (357)
T ss_pred CCCCccCCcch
Confidence 68999998875
No 4
>PF04757 Pex2_Pex12: Pex2 / Pex12 amino terminal region; InterPro: IPR006845 This region is the N-terminal part of a number of peroxisomal biogenesis proteins, including Pex2, Pex10 and Pex12, which contain two predicted transmembrane segments. The majority of these proteins have a C-terminal ring finger domain IPR001841 from INTERPRO.; GO: 0007031 peroxisome organization, 0005778 peroxisomal membrane
Probab=99.82 E-value=2.5e-19 Score=149.75 Aligned_cols=129 Identities=34% Similarity=0.500 Sum_probs=110.2
Q ss_pred CCCCCChhHHHHHHHHHHHHHHHHHHHHhHHhhhhcCCCCC--------------chHHHHHHHHHHHHHHHHHHHHHHH
Q 027227 16 EGPGLTNAQKIWYCIATVGGQYLWARLQSFSAFRRWGDSEQ--------------RPLARRAWILIQRIEALYKAASFGN 81 (226)
Q Consensus 16 ~g~~Ls~~~r~~~~l~~v~~pYl~~Kl~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~l~~ 81 (226)
++..++.++|+++++++|++||+++|+++.+....+..... ..+++.++++++++++++++++++|
T Consensus 73 ~~~~ls~~~r~~~l~~~vl~PYl~~Kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 (229)
T PF04757_consen 73 ERRPLSRRQRLLSLLLLVLGPYLKEKLDSLLERLSERSAESISSRSARARRARLKSKLKRRFVKLYPYLNALYELLNLLH 152 (229)
T ss_pred ccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37889999999999999999999999999987543322211 1246678899999999999999999
Q ss_pred HHHHhhcCC-cCcHHHHHhhceeeecCCC-CCcccchhhhhhHHHHHHHHHHHHHHhhcccchhh
Q 027227 82 LLIFLYTGR-YRNLIERALRARLVYGTPN-MNRAVSFEYMNRQLVWNEFSEMLLLLLPLLNSSTV 144 (226)
Q Consensus 82 ~l~Fl~~g~-y~sl~~rll~lr~~~~~~~-~~~~~~~~~~~r~l~~~~~~e~l~~~lp~~~~~~~ 144 (226)
++.||++|+ |++|++|++||+|++.++. ..++++|+++|++++|+.+++++.+++|.+....+
T Consensus 153 ~~~Fl~~g~~y~s~~~rllgi~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~ 217 (229)
T PF04757_consen 153 LLLFLLGGTPYYSPSKRLLGIRYVRLSPSDLQRNPSYEFLGRQLLWQLLSEFLLFLLPLLLPRSL 217 (229)
T ss_pred HHHHHhCCCCCCCHHHHHhCcEEEECCccchhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999 9999999999999999544 45568999999999999999999999988775544
No 5
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.24 E-value=5.3e-12 Score=77.76 Aligned_cols=40 Identities=38% Similarity=1.016 Sum_probs=31.4
Q ss_pred ccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCC--CCCCCC
Q 027227 166 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPS--FRCSRC 206 (226)
Q Consensus 166 C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~--~~CP~C 206 (226)
||||++.+.+| ++++|||+||..||..+++..+. ..||.|
T Consensus 1 CpiC~~~~~~P-v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP-VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE-EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc-cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999 89999999999999999976432 579987
No 6
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.20 E-value=2.1e-11 Score=98.16 Aligned_cols=52 Identities=23% Similarity=0.575 Sum_probs=44.0
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhc--------------CCCCCCCCCCccccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAA--------------SPSFRCSRCNEPVIA 212 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~--------------~~~~~CP~Cr~~~~~ 212 (226)
..++..|+||.+.+++| +.++|||.||+.||..|+.. +....||+|+.++..
T Consensus 15 ~~~~~~CpICld~~~dP-VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 15 SGGDFDCNICLDQVRDP-VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCCccCCccCCCcCCCc-EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 44678999999999999 78999999999999999742 124689999999865
No 7
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=2e-11 Score=100.05 Aligned_cols=52 Identities=27% Similarity=0.644 Sum_probs=45.3
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCC-CCCCCCCCccccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASP-SFRCSRCNEPVIA 212 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~-~~~CP~Cr~~~~~ 212 (226)
......|-||++..++| +.+.|||.|||.||.+|+.... ...||+|+..+..
T Consensus 44 ~~~~FdCNICLd~akdP-VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP-VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeeccccCCC-EEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 45678999999999999 8899999999999999997643 5678999988864
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=99.06 E-value=8.1e-11 Score=71.32 Aligned_cols=39 Identities=31% Similarity=0.911 Sum_probs=33.5
Q ss_pred ccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCC
Q 027227 166 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRC 206 (226)
Q Consensus 166 C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 206 (226)
|+||.+.+.+|.+.++|||.||+.|+.++++. ...||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~--~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK--NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC--TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC--cCCCcCC
Confidence 89999999999668999999999999999986 4789987
No 9
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=98.98 E-value=3.5e-10 Score=72.30 Aligned_cols=47 Identities=30% Similarity=0.783 Sum_probs=40.2
Q ss_pred cccccccCCCCCCCCeecCCCCc-ccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
+..|+||.+...++ +..+|||. ||..|+.++.+. ...||.||+++..
T Consensus 2 ~~~C~iC~~~~~~~-~~~pCgH~~~C~~C~~~~~~~--~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRDV-VLLPCGHLCFCEECAERLLKR--KKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSSE-EEETTCEEEEEHHHHHHHHHT--TSBBTTTTBB-SE
T ss_pred cCCCccCCccCCce-EEeCCCChHHHHHHhHHhccc--CCCCCcCChhhcC
Confidence 56899999999998 78999999 999999999874 5789999998864
No 10
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=4.1e-10 Score=88.77 Aligned_cols=55 Identities=24% Similarity=0.634 Sum_probs=43.3
Q ss_pred CCcCcccccccCCCCCCCC-eecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccccc
Q 027227 159 SEEDVTTCPICQASPTTPF-LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQR 215 (226)
Q Consensus 159 ~~~~~~~C~iC~~~~~~p~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~ 215 (226)
..+....||||++....-. +.+.|||+||..||++.++. ...||+|++.+..-+.
T Consensus 127 ~~~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~--~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 127 RKEGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN--TNKCPTCRKKITHKQF 182 (187)
T ss_pred ccccccCCCceecchhhccccccccchhHHHHHHHHHHHh--CCCCCCcccccchhhh
Confidence 3456699999998765432 56899999999999999976 4589999998765443
No 11
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.97 E-value=7.9e-10 Score=73.78 Aligned_cols=45 Identities=18% Similarity=0.275 Sum_probs=40.9
Q ss_pred ccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 164 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
..||||.+.+.+| +.++|||+||..||..+++. ...||.|+.++.
T Consensus 2 ~~Cpi~~~~~~~P-v~~~~G~v~~~~~i~~~~~~--~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP-VILPSGQTYERRAIEKWLLS--HGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC-EECCCCCEEeHHHHHHHHHH--CCCCCCCcCCCC
Confidence 5799999999999 78999999999999999976 468999998875
No 12
>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=98.95 E-value=5.1e-10 Score=68.39 Aligned_cols=41 Identities=41% Similarity=0.994 Sum_probs=36.6
Q ss_pred ccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCC
Q 027227 166 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRC 206 (226)
Q Consensus 166 C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 206 (226)
|+||.+.+.+|...++|||.||..|+.++++......||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999999999338999999999999999985567889987
No 13
>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=98.87 E-value=8e-10 Score=68.67 Aligned_cols=41 Identities=27% Similarity=0.718 Sum_probs=33.7
Q ss_pred cccccCCCCC--CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCC
Q 027227 165 TCPICQASPT--TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCN 207 (226)
Q Consensus 165 ~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr 207 (226)
.|+||++.+. +..+.++|||.||..|+.+|++. ...||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~--~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR--NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH--SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh--CCcCCccC
Confidence 6999998773 34477899999999999999987 35999996
No 14
>PHA02929 N1R/p28-like protein; Provisional
Probab=98.84 E-value=2.4e-09 Score=89.65 Aligned_cols=52 Identities=21% Similarity=0.552 Sum_probs=41.7
Q ss_pred CcccccccCCCCCCCC-------eecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccccc
Q 027227 162 DVTTCPICQASPTTPF-------LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQR 215 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~-------~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~ 215 (226)
++..|+||++.+.++- +.++|||.||..||..|... ...||+||.++..+..
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~--~~tCPlCR~~~~~v~~ 231 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE--KNTCPVCRTPFISVIK 231 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc--CCCCCCCCCEeeEEee
Confidence 4579999999765431 45689999999999999875 4689999999886543
No 15
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=2.4e-09 Score=89.33 Aligned_cols=51 Identities=25% Similarity=0.568 Sum_probs=42.5
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
.+.+.+|+||.+.+..| ..++|||+||+.||...+..+....||+||+.+.
T Consensus 212 p~~d~kC~lC~e~~~~p-s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~ 262 (271)
T COG5574 212 PLADYKCFLCLEEPEVP-SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVY 262 (271)
T ss_pred cccccceeeeecccCCc-ccccccchhhHHHHHHHHHhhccccCchhhhhcc
Confidence 35689999999999999 7899999999999999443333445999998775
No 16
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.79 E-value=5.4e-09 Score=64.18 Aligned_cols=45 Identities=31% Similarity=0.854 Sum_probs=37.5
Q ss_pred cccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 165 TCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 165 ~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
.|+||.+.+.++....+|||.||..|+..|.+. ....||.|+..+
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~-~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKS-GKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHh-CcCCCCCCCCcC
Confidence 499999999888555669999999999999875 456899998753
No 17
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.75 E-value=6.2e-09 Score=93.04 Aligned_cols=50 Identities=22% Similarity=0.594 Sum_probs=44.0
Q ss_pred CCcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 159 SEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 159 ~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
..+....|+||.+.+.+| +.++|||.||..|+..++.. ...||.|+.++.
T Consensus 22 ~Le~~l~C~IC~d~~~~P-vitpCgH~FCs~CI~~~l~~--~~~CP~Cr~~~~ 71 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVP-VLTSCSHTFCSLCIRRCLSN--QPKCPLCRAEDQ 71 (397)
T ss_pred ccccccCCCcCchhhhCc-cCCCCCCchhHHHHHHHHhC--CCCCCCCCCccc
Confidence 356779999999999999 68999999999999999875 347999999876
No 18
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=7.8e-09 Score=93.41 Aligned_cols=49 Identities=27% Similarity=0.673 Sum_probs=43.2
Q ss_pred cccccccCCCCCCCCeecCCCCcccHHHHHHHHhcC---CCCCCCCCCccccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAAS---PSFRCSRCNEPVIA 212 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~---~~~~CP~Cr~~~~~ 212 (226)
+..||||++.+.-| +.+.|||+||+.||..++... ....||.|+..+..
T Consensus 186 ~~~CPICL~~~~~p-~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP-VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCcc-cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 78999999999999 678899999999999998753 46789999988875
No 19
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.69 E-value=7.8e-09 Score=63.76 Aligned_cols=37 Identities=43% Similarity=1.093 Sum_probs=22.8
Q ss_pred ccccCCCCCC----CCeecCCCCcccHHHHHHHHhcC--CCCCCC
Q 027227 166 CPICQASPTT----PFLALPCQHRYCYYCLRTRCAAS--PSFRCS 204 (226)
Q Consensus 166 C~iC~~~~~~----p~~~~~CgH~fC~~Ci~~~~~~~--~~~~CP 204 (226)
||||.+ +.+ | +.++|||+||..|+....+.. ..+.||
T Consensus 1 CpIc~e-~~~~~n~P-~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPP-MVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-E-EE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCC-EEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 777 8 678999999999999998753 467787
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=98.69 E-value=1.4e-08 Score=83.06 Aligned_cols=54 Identities=20% Similarity=0.450 Sum_probs=41.6
Q ss_pred CcccccccCCCCCC---------CCeecCCCCcccHHHHHHHHhcCC----CCCCCCCCccccccccc
Q 027227 162 DVTTCPICQASPTT---------PFLALPCQHRYCYYCLRTRCAASP----SFRCSRCNEPVIAMQRH 216 (226)
Q Consensus 162 ~~~~C~iC~~~~~~---------p~~~~~CgH~fC~~Ci~~~~~~~~----~~~CP~Cr~~~~~~~~~ 216 (226)
.+..|+||++.... + +..+|+|.||..||..|.+.+. ...||.||..+..+.+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFG-IL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pS 235 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFG-LLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMS 235 (242)
T ss_pred CCCCCccCcccccccccccccccc-ccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeeccc
Confidence 45789999987532 3 5679999999999999997531 35699999998765543
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.64 E-value=3e-08 Score=58.68 Aligned_cols=39 Identities=36% Similarity=0.982 Sum_probs=33.8
Q ss_pred ccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCC
Q 027227 166 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRC 206 (226)
Q Consensus 166 C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 206 (226)
|+||.+...++ +.++|||.||+.|+..+++. ....||.|
T Consensus 1 C~iC~~~~~~~-~~~~C~H~~c~~C~~~~~~~-~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDP-VVLPCGHTFCRSCIRKWLKS-GNNTCPIC 39 (39)
T ss_pred CCcCccCCCCc-EEecCCChHHHHHHHHHHHh-CcCCCCCC
Confidence 88999998888 78999999999999999873 45679987
No 22
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.63 E-value=1.3e-08 Score=85.92 Aligned_cols=49 Identities=24% Similarity=0.672 Sum_probs=42.9
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
...+.|-||.+.+..| ..++|||.||+.||..++.+ ...||+|+.+...
T Consensus 23 Ds~lrC~IC~~~i~ip-~~TtCgHtFCslCIR~hL~~--qp~CP~Cr~~~~e 71 (391)
T COG5432 23 DSMLRCRICDCRISIP-CETTCGHTFCSLCIRRHLGT--QPFCPVCREDPCE 71 (391)
T ss_pred hhHHHhhhhhheeecc-eecccccchhHHHHHHHhcC--CCCCccccccHHh
Confidence 4568999999999999 78999999999999999976 3579999987753
No 23
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.59 E-value=4.4e-08 Score=60.82 Aligned_cols=42 Identities=26% Similarity=0.615 Sum_probs=33.9
Q ss_pred cccccCCCC--CCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCc
Q 027227 165 TCPICQASP--TTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208 (226)
Q Consensus 165 ~C~iC~~~~--~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 208 (226)
.|++|.+.+ ..+...++|||+||..|+.... +....||+|++
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~--~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK--GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc--CCCCCCcCCCC
Confidence 489999887 3333789999999999999887 34678999984
No 24
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=1.7e-08 Score=95.06 Aligned_cols=54 Identities=24% Similarity=0.634 Sum_probs=46.8
Q ss_pred CcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccccccc
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHG 217 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~ 217 (226)
.-++||+|...+++. +.+.|||+||+.|+.+..... ...||.|+.+|...+.+.
T Consensus 642 ~~LkCs~Cn~R~Kd~-vI~kC~H~FC~~Cvq~r~etR-qRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA-VITKCGHVFCEECVQTRYETR-QRKCPKCNAAFGANDVHR 695 (698)
T ss_pred hceeCCCccCchhhH-HHHhcchHHHHHHHHHHHHHh-cCCCCCCCCCCCcccccc
Confidence 458999999999999 789999999999999998764 467999999998766543
No 25
>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=98.55 E-value=5.8e-08 Score=66.97 Aligned_cols=49 Identities=20% Similarity=0.272 Sum_probs=39.2
Q ss_pred CcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
+++.|||+.+.+.+| +.++|||+|+..||..|+.. ....||.|++++..
T Consensus 3 ~~f~CpIt~~lM~dP-Vi~~~G~tyer~~I~~~l~~-~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRDP-VILPSGHTYERSAIERWLEQ-NGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SSE-EEETTSEEEEHHHHHHHHCT-TSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhCc-eeCCcCCEEcHHHHHHHHHc-CCCCCCCCCCcCCc
Confidence 578999999999999 78999999999999999976 35789999988764
No 26
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.52 E-value=2e-08 Score=66.41 Aligned_cols=47 Identities=28% Similarity=0.694 Sum_probs=25.8
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
++-..|++|.+.+.+|+.+..|.|+||+.||.+.+. ..||+|..|.-
T Consensus 5 e~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~----~~CPvC~~Paw 51 (65)
T PF14835_consen 5 EELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIG----SECPVCHTPAW 51 (65)
T ss_dssp HHTTS-SSS-S--SS-B---SSS--B-TTTGGGGTT----TB-SSS--B-S
T ss_pred HHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhcC----CCCCCcCChHH
Confidence 345789999999999955689999999999977553 36999998874
No 27
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.51 E-value=2.8e-08 Score=85.56 Aligned_cols=50 Identities=28% Similarity=0.690 Sum_probs=43.9
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
..+-++|.||.+.+..| +.++|+|.||.-||..++.. ...||.|..++..
T Consensus 20 lD~lLRC~IC~eyf~ip-~itpCsHtfCSlCIR~~L~~--~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 20 LDDLLRCGICFEYFNIP-MITPCSHTFCSLCIRKFLSY--KPQCPTCCVTVTE 69 (442)
T ss_pred hHHHHHHhHHHHHhcCc-eeccccchHHHHHHHHHhcc--CCCCCceecccch
Confidence 45668999999999999 68999999999999999976 4589999988764
No 28
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=98.38 E-value=7.2e-07 Score=81.02 Aligned_cols=95 Identities=15% Similarity=0.442 Sum_probs=67.8
Q ss_pred HHHHHHHHHHHHHHHhhcCCcCcHHHHHhhceeeecCCCCCcccchhhhhhHHHHHHHHHHHHHHhhcccchhhhhhccC
Q 027227 71 EALYKAASFGNLLIFLYTGRYRNLIERALRARLVYGTPNMNRAVSFEYMNRQLVWNEFSEMLLLLLPLLNSSTVKGLFGP 150 (226)
Q Consensus 71 ~~~~~~~~l~~~l~Fl~~g~y~sl~~rll~lr~~~~~~~~~~~~~~~~~~r~l~~~~~~e~l~~~lp~~~~~~~~~~l~~ 150 (226)
++.++...++| .|.++..-|.+||+.-.+|...- |. . ...
T Consensus 489 ntyieeGvvlN--------NYAnIF~LitRmRQ~aDHP~LVl---~S-------------------------~----~~n 528 (791)
T KOG1002|consen 489 NTYIEEGVVLN--------NYANIFTLITRMRQAADHPDLVL---YS-------------------------A----NAN 528 (791)
T ss_pred hhHHhhhhhhh--------hHHHHHHHHHHHHHhccCcceee---eh-------------------------h----hcC
Confidence 34444444555 69999999999999888875321 00 0 001
Q ss_pred CCCCCCCCCCcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhc---CCCCCCCCCCcccc
Q 027227 151 FSKDKSSSSEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAA---SPSFRCSRCNEPVI 211 (226)
Q Consensus 151 ~~~~~~~~~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~---~~~~~CP~Cr~~~~ 211 (226)
+ ......+..|.+|.+...++ +...|.|.||.-|+.+++.. ..+-.||.|..++.
T Consensus 529 ~-----~~enk~~~~C~lc~d~aed~-i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 529 L-----PDENKGEVECGLCHDPAEDY-IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred C-----CccccCceeecccCChhhhh-HhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 1 11234567899999999999 78999999999999988764 23678999977665
No 29
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=9.1e-07 Score=77.29 Aligned_cols=54 Identities=33% Similarity=0.604 Sum_probs=43.0
Q ss_pred CcCcccccccCCCCC-------------CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccccc
Q 027227 160 EEDVTTCPICQASPT-------------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRH 216 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~-------------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~ 216 (226)
..++..|.||++... .| ..++|||.+...|++.|++. ...||.||.|+..-++-
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~p-KrLpCGHilHl~CLknW~ER--qQTCPICr~p~ifd~~~ 350 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTP-KRLPCGHILHLHCLKNWLER--QQTCPICRRPVIFDQSS 350 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCc-ccccccceeeHHHHHHHHHh--ccCCCcccCccccccCC
Confidence 457899999998743 45 57899999999999999976 45899999997543333
No 30
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=98.30 E-value=5.8e-07 Score=61.99 Aligned_cols=42 Identities=24% Similarity=0.691 Sum_probs=32.2
Q ss_pred ccccccCCCCC------------CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCC
Q 027227 164 TTCPICQASPT------------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCN 207 (226)
Q Consensus 164 ~~C~iC~~~~~------------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr 207 (226)
..|+||++.+. .+....+|||.|...||..|++. ...||.||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~--~~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ--NNTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT--SSB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc--CCcCCCCC
Confidence 35999998873 33244689999999999999975 44999997
No 31
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=3.2e-07 Score=78.08 Aligned_cols=46 Identities=33% Similarity=0.817 Sum_probs=41.2
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 208 (226)
..+...|+||++.+..| .+++|||.||..|+...+. ....||.|+.
T Consensus 10 ~~~~~~C~iC~~~~~~p-~~l~C~H~~c~~C~~~~~~--~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP-VLLPCGHNFCRACLTRSWE--GPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC-ccccccchHhHHHHHHhcC--CCcCCcccCC
Confidence 45778999999999999 7899999999999999887 4578999993
No 32
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=4e-07 Score=77.47 Aligned_cols=48 Identities=27% Similarity=0.757 Sum_probs=42.1
Q ss_pred cccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
...|+||+....-| +.+.|+|.|||.||+..... +...|++||.++..
T Consensus 7 ~~eC~IC~nt~n~P-v~l~C~HkFCyiCiKGsy~n-dk~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNTGNCP-VNLYCFHKFCYICIKGSYKN-DKKTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeeccCCcC-ccccccchhhhhhhcchhhc-CCCCCceecCCCCc
Confidence 45799999999999 79999999999999987765 45679999999975
No 33
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.22 E-value=1.3e-06 Score=75.56 Aligned_cols=50 Identities=26% Similarity=0.612 Sum_probs=37.6
Q ss_pred CcccccccCCC-CCCCC---eecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 162 DVTTCPICQAS-PTTPF---LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 162 ~~~~C~iC~~~-~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
++..||+|... ..+|- ...+|||.||..|+...+.. +...||.|+.++..
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~-~~~~CP~C~~~lrk 55 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVR-GSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcC-CCCCCCCCCCccch
Confidence 35689999873 44552 12379999999999998865 45689999988764
No 34
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=1.9e-07 Score=81.03 Aligned_cols=57 Identities=19% Similarity=0.600 Sum_probs=48.4
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccccccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 218 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~ 218 (226)
..+..|+||++.++..+.+..|+|.||..||...+.. ++..||.||+.+.+-..+..
T Consensus 41 ~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~-gn~ecptcRk~l~SkrsLr~ 97 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRS-GNNECPTCRKKLVSKRSLRI 97 (381)
T ss_pred hhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHh-cCCCCchHHhhccccccCCC
Confidence 4568999999999999777889999999999999886 46799999998876555554
No 35
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.13 E-value=1.2e-06 Score=57.36 Aligned_cols=46 Identities=20% Similarity=0.288 Sum_probs=33.4
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCC
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRC 206 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~C 206 (226)
..+.+|||....+.+|+....|||+|....|.+++..+....||+-
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~ 54 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVA 54 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCC
Confidence 4568999999999999766799999999999999966667889983
No 36
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=8.3e-07 Score=56.54 Aligned_cols=48 Identities=27% Similarity=0.597 Sum_probs=41.4
Q ss_pred cccccccCCCCCCCCeecCCCCc-ccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
+..|.||.+.+.+. +...|||. .||.|-.+.++. ....||.||+++..
T Consensus 7 ~dECTICye~pvds-VlYtCGHMCmCy~Cg~rl~~~-~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 7 SDECTICYEHPVDS-VLYTCGHMCMCYACGLRLKKA-LHGCCPICRAPIKD 55 (62)
T ss_pred ccceeeeccCcchH-HHHHcchHHhHHHHHHHHHHc-cCCcCcchhhHHHH
Confidence 36899999999999 78999997 799999888765 45789999999864
No 37
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=3.4e-05 Score=64.94 Aligned_cols=137 Identities=16% Similarity=0.310 Sum_probs=74.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCcCcHHHHHhhceeeecCCCCCcccchhhhhhHHHHHHHHHHHHHHhhcccchhhh
Q 027227 66 LIQRIEALYKAASFGNLLIFLYTGRYRNLIERALRARLVYGTPNMNRAVSFEYMNRQLVWNEFSEMLLLLLPLLNSSTVK 145 (226)
Q Consensus 66 ~~~~~~~~~~~~~l~~~l~Fl~~g~y~sl~~rll~lr~~~~~~~~~~~~~~~~~~r~l~~~~~~e~l~~~lp~~~~~~~~ 145 (226)
+|.++..++.+..++-++- |--+.--++|+.+.+..++.. .++|..+ .+.+.....++..-...+-.....
T Consensus 136 VYkwFl~lyklSy~~g~vG------yl~im~~~~g~n~~F~~~~~~-~md~gi~--~lfyglYyGvlgRdfa~icsd~mA 206 (328)
T KOG1734|consen 136 VYKWFLFLYKLSYLLGVVG------YLAIMFAQFGLNFTFFYLKTT-YMDFGIS--FLFYGLYYGVLGRDFAEICSDYMA 206 (328)
T ss_pred HHHHHHHHHHHHHHHHHHH------HHHHHHHHhceeeEEeecchh-HhhhhHH--HHHHHHHHHhhhhHHHHHHHHHHH
Confidence 4555555555555555444 445677788999988754321 1222110 011111111111000001111222
Q ss_pred hhccCCCCCCCCCCCcCcccccccCCCCC----------CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 146 GLFGPFSKDKSSSSEEDVTTCPICQASPT----------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 146 ~~l~~~~~~~~~~~~~~~~~C~iC~~~~~----------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
..+.=.+++--+....++..|.+|.+.+. +.| .++|+|+|.-.||..|..-+....||-|++.++.
T Consensus 207 s~iGfYs~~glPtkhl~d~vCaVCg~~~~~s~~eegvienty-~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 207 STIGFYSPSGLPTKHLSDSVCAVCGQQIDVSVDEEGVIENTY-KLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred HHhcccCCCCCCCCCCCcchhHhhcchheeecchhhhhhhhe-eeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 22222233222333456789999986443 553 6899999999999999877667899999998873
No 38
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.81 E-value=1.1e-05 Score=68.73 Aligned_cols=45 Identities=27% Similarity=0.790 Sum_probs=39.8
Q ss_pred ccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcc
Q 027227 164 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEP 209 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~ 209 (226)
+.|++|.....+|+.+.+|||.||..||...+.. ..+.||.|...
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~d-sDf~CpnC~rk 319 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLD-SDFKCPNCSRK 319 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhh-ccccCCCcccc
Confidence 8999999999999766689999999999998875 46899999764
No 39
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=1.3e-05 Score=70.51 Aligned_cols=48 Identities=23% Similarity=0.609 Sum_probs=39.6
Q ss_pred ccccccCCCCC--CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 164 TTCPICQASPT--TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 164 ~~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
..|.||+|.++ +-...+||+|.|...||..|+.+. ...||+|++.+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~-r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT-RTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc-CccCCCCCCcCCC
Confidence 49999999876 333669999999999999999874 4569999987754
No 40
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.78 E-value=8.3e-06 Score=65.64 Aligned_cols=48 Identities=21% Similarity=0.586 Sum_probs=41.3
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
.-...|.||.+.+..| +.+.|||.||..|.....+. ...|-+|++...
T Consensus 194 ~IPF~C~iCKkdy~sp-vvt~CGH~FC~~Cai~~y~k--g~~C~~Cgk~t~ 241 (259)
T COG5152 194 KIPFLCGICKKDYESP-VVTECGHSFCSLCAIRKYQK--GDECGVCGKATY 241 (259)
T ss_pred CCceeehhchhhccch-hhhhcchhHHHHHHHHHhcc--CCcceecchhhc
Confidence 3467999999999999 78999999999999888864 468999988664
No 41
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=1.5e-05 Score=68.05 Aligned_cols=49 Identities=24% Similarity=0.571 Sum_probs=40.2
Q ss_pred CcccccccCCCCC--CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 162 DVTTCPICQASPT--TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 162 ~~~~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
....|.||++.++ +-++.+||.|.|.-.|+..|+.. -+..||+||.+++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~-y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLG-YSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhh-hcccCCccCCCCC
Confidence 3478999998765 34577999999999999999963 3568999999876
No 42
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=1.4e-05 Score=75.18 Aligned_cols=47 Identities=28% Similarity=0.600 Sum_probs=40.9
Q ss_pred cCcccccccCCCCCC-----CCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 161 EDVTTCPICQASPTT-----PFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~-----p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
..+..|+||.+.... | ..++|||+||-.|+..|++. ...||.||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~-~rL~C~Hifh~~CL~~W~er--~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITP-KRLPCGHIFHDSCLRSWFER--QQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhcccccccc-ceeecccchHHHHHHHHHHH--hCcCCcchhhh
Confidence 347899999999888 7 68999999999999999987 45899999843
No 43
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=2.5e-05 Score=68.24 Aligned_cols=56 Identities=25% Similarity=0.568 Sum_probs=45.4
Q ss_pred cCcccccccCCCCCCCCeecCCCCc-ccHHHHHHHHhcCCCCCCCCCCcccccccccccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVI 219 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 219 (226)
+...+|.||+...++- +.+||.|. .|..|.....-+ ...||+||+++..+-...+.
T Consensus 288 ~~gkeCVIClse~rdt-~vLPCRHLCLCs~Ca~~Lr~q--~n~CPICRqpi~~ll~i~~~ 344 (349)
T KOG4265|consen 288 ESGKECVICLSESRDT-VVLPCRHLCLCSGCAKSLRYQ--TNNCPICRQPIEELLEIYVN 344 (349)
T ss_pred cCCCeeEEEecCCcce-EEecchhhehhHhHHHHHHHh--hcCCCccccchHhhheeccc
Confidence 4468999999999999 78999997 699999776522 34799999999876665554
No 44
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.70 E-value=2.4e-05 Score=70.60 Aligned_cols=58 Identities=24% Similarity=0.580 Sum_probs=48.7
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccccccccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVI 219 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 219 (226)
.++++.|++|.....+|..++.|||.||..|+..+... ...||.|+......+..+.+
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~--~~~cp~~~~~~~~~~~~~~~ 75 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN--HQKCPVCRQELTQAEELPVP 75 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhhcc--CcCCcccccccchhhccCch
Confidence 56789999999999999543699999999999999976 56899999888776666543
No 45
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.67 E-value=2.2e-05 Score=69.31 Aligned_cols=55 Identities=20% Similarity=0.417 Sum_probs=47.1
Q ss_pred ccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccccccccc
Q 027227 164 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVI 219 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 219 (226)
..|.||.+.-++- ..-+|||..|-.|+..|..+++...||.||..+..-++.-|+
T Consensus 370 eLCKICaendKdv-kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~viid 424 (563)
T KOG1785|consen 370 ELCKICAENDKDV-KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPVIID 424 (563)
T ss_pred HHHHHhhccCCCc-ccccccchHHHHHHHhhcccCCCCCCCceeeEeccccceeee
Confidence 5799999888877 678999999999999998776678999999999887766665
No 46
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.65 E-value=1.2e-05 Score=69.35 Aligned_cols=51 Identities=20% Similarity=0.453 Sum_probs=44.2
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAM 213 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~ 213 (226)
..-..|.+|...+.++.+++.|-|.||..||..++.. ...||.|+..+...
T Consensus 13 n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~--~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE--SKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH--hccCCccceeccCc
Confidence 3457899999999999777889999999999999986 56899998877654
No 47
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=97.62 E-value=7.2e-05 Score=52.60 Aligned_cols=36 Identities=19% Similarity=0.525 Sum_probs=29.7
Q ss_pred CCeecCCCCcccHHHHHHHHhcC-CCCCCCCCCcccc
Q 027227 176 PFLALPCQHRYCYYCLRTRCAAS-PSFRCSRCNEPVI 211 (226)
Q Consensus 176 p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~Cr~~~~ 211 (226)
|.+.-.|+|.|...||.+|+.++ ....||.||++..
T Consensus 46 plv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 46 PLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred ceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 54556799999999999999864 3579999999865
No 48
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.61 E-value=2.9e-05 Score=69.73 Aligned_cols=50 Identities=22% Similarity=0.663 Sum_probs=43.2
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
...+..|.+|...+..| ++++|||.||..|+...+. ....||.|+.++..
T Consensus 81 ~~sef~c~vc~~~l~~p-v~tpcghs~c~~Cl~r~ld--~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPP-VVTPCGHSFCLECLDRSLD--QETECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCCC-ccccccccccHHHHHHHhc--cCCCCccccccccc
Confidence 35689999999999999 7889999999999988664 46789999988764
No 49
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=3.3e-05 Score=65.80 Aligned_cols=48 Identities=21% Similarity=0.479 Sum_probs=41.5
Q ss_pred CcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
-...|-||.+.+.+| +.+.|||.||..|....++. ...|++|.+.+..
T Consensus 240 ~Pf~c~icr~~f~~p-Vvt~c~h~fc~~ca~~~~qk--~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 240 LPFKCFICRKYFYRP-VVTKCGHYFCEVCALKPYQK--GEKCYVCSQQTHG 287 (313)
T ss_pred CCccccccccccccc-hhhcCCceeehhhhcccccc--CCcceeccccccc
Confidence 356799999999999 78999999999999888764 4589999988764
No 50
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.00015 Score=63.33 Aligned_cols=48 Identities=38% Similarity=0.856 Sum_probs=41.9
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
.++..||||...+.+. +..||+|.-|+.||.+++-. .+.|-.|+..+.
T Consensus 420 sEd~lCpICyA~pi~A-vf~PC~H~SC~~CI~qHlmN--~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINA-VFAPCSHRSCYGCITQHLMN--CKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchh-hccCCCCchHHHHHHHHHhc--CCeeeEecceee
Confidence 4678999999999999 78999999999999999865 568999987765
No 51
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=0.00073 Score=61.41 Aligned_cols=52 Identities=21% Similarity=0.535 Sum_probs=40.1
Q ss_pred CcCcccccccCCCCC----------------CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 160 EEDVTTCPICQASPT----------------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~----------------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
.+....|+||+.... .-|..+||.|+|...|+++|+.. -+..||+||.++..
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~-ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDT-YKLICPVCRCPLPP 635 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhh-hcccCCccCCCCCC
Confidence 456789999986432 12456799999999999999963 24589999998763
No 52
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.00033 Score=61.83 Aligned_cols=54 Identities=24% Similarity=0.569 Sum_probs=42.1
Q ss_pred cCcccccccCCCCCCCC-------eecCCCCcccHHHHHHHHhcCC-----CCCCCCCCccccccc
Q 027227 161 EDVTTCPICQASPTTPF-------LALPCQHRYCYYCLRTRCAASP-----SFRCSRCNEPVIAMQ 214 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~-------~~~~CgH~fC~~Ci~~~~~~~~-----~~~CP~Cr~~~~~~~ 214 (226)
..+..|.||++....+. +..+|.|.||..||..|-.... ...||.||.+....-
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~ 224 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVN 224 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccc
Confidence 45789999999877661 1267999999999999986544 588999998776543
No 53
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.88 E-value=0.0004 Score=66.61 Aligned_cols=50 Identities=22% Similarity=0.514 Sum_probs=42.0
Q ss_pred ccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccccc
Q 027227 164 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQR 215 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~ 215 (226)
..|.+|.+ ...+ +.+.|||.||..|+...+.......||.|+..+....-
T Consensus 455 ~~c~ic~~-~~~~-~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 455 HWCHICCD-LDSF-FITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccccccc-cccc-eeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHH
Confidence 78999999 7777 78999999999999999877656689999987765443
No 54
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=96.85 E-value=0.00038 Score=59.82 Aligned_cols=50 Identities=24% Similarity=0.594 Sum_probs=38.2
Q ss_pred cccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRH 216 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~ 216 (226)
-..|.-|...+..=-.+++|.|+||++|... ++.+.||.|..++..++..
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~----~~dK~Cp~C~d~VqrIeq~ 139 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCKHVFCLECARS----DSDKICPLCDDRVQRIEQI 139 (389)
T ss_pred eEeecccCCcceeeecccccchhhhhhhhhc----CccccCcCcccHHHHHHHh
Confidence 5678889876655446789999999999753 3467899999888766543
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=96.85 E-value=0.00051 Score=60.79 Aligned_cols=65 Identities=25% Similarity=0.424 Sum_probs=49.5
Q ss_pred cCcccccccCCCCC---CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccc-cccccCCCCCC
Q 027227 161 EDVTTCPICQASPT---TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQ-RHGVINPKISS 225 (226)
Q Consensus 161 ~~~~~C~iC~~~~~---~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~-~~~~~~~~~~~ 225 (226)
+-++.|..|.+.+- .....+||.|+|.-.|+.+.+.++....||.||+-..++. +.+|--|++++
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrSs~~rpgfvgs~~Ves 431 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRSSMKRPGFVGSVPVES 431 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHhhccCCCCcCCCcccc
Confidence 45689999986432 2225789999999999999998877889999997777666 45555555554
No 56
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.84 E-value=0.001 Score=55.52 Aligned_cols=56 Identities=14% Similarity=0.225 Sum_probs=44.7
Q ss_pred CcccccccCCCCCCCC---eecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccccccccc
Q 027227 162 DVTTCPICQASPTTPF---LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVI 219 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 219 (226)
....||+|.+.++|.+ +..+|||++|+.|++..+.. ...||+|+.++..-+-.+++
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~--D~v~pv~d~plkdrdiI~Lq 278 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK--DMVDPVTDKPLKDRDIIGLQ 278 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc--cccccCCCCcCcccceEeee
Confidence 5689999999888753 34789999999999998864 57899999998765544444
No 57
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.54 E-value=0.0015 Score=42.06 Aligned_cols=46 Identities=26% Similarity=0.539 Sum_probs=36.4
Q ss_pred CcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
....|-.|...-... +.++|||.-|..|.--. ....||.|+.++..
T Consensus 6 ~~~~~~~~~~~~~~~-~~~pCgH~I~~~~f~~~----rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKG-TVLPCGHLICDNCFPGE----RYNGCPFCGTPFEF 51 (55)
T ss_pred cceeEEEcccccccc-ccccccceeeccccChh----hccCCCCCCCcccC
Confidence 345788898887777 68999999999997432 34579999998874
No 58
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=96.52 E-value=0.0013 Score=59.27 Aligned_cols=48 Identities=23% Similarity=0.551 Sum_probs=38.0
Q ss_pred CcCcccccccCCCCCCCC---eecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 160 EEDVTTCPICQASPTTPF---LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
..+--+||+|++.+.... .++.|.|.|-..|+..|. ...||+||..-.
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~----~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW----DSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhcc----cCcChhhhhhcC
Confidence 345679999998776553 568899999999999987 358999987544
No 59
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=96.51 E-value=0.0033 Score=39.76 Aligned_cols=42 Identities=29% Similarity=0.634 Sum_probs=33.9
Q ss_pred cccccCC--CCCCCCeecCCC-----CcccHHHHHHHHhcCCCCCCCCCC
Q 027227 165 TCPICQA--SPTTPFLALPCQ-----HRYCYYCLRTRCAASPSFRCSRCN 207 (226)
Q Consensus 165 ~C~iC~~--~~~~p~~~~~Cg-----H~fC~~Ci~~~~~~~~~~~CP~Cr 207 (226)
.|.||.+ ...+| ...||. |.+-..|+..|+.......||+|+
T Consensus 1 ~CrIC~~~~~~~~~-l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDP-LVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCe-eEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4889986 56677 467885 678999999999876677899995
No 60
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.44 E-value=0.0041 Score=53.14 Aligned_cols=59 Identities=20% Similarity=0.368 Sum_probs=44.6
Q ss_pred CcCcccccccCCCCCC--CC-eecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccccccccCC
Q 027227 160 EEDVTTCPICQASPTT--PF-LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVINP 221 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~--p~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 221 (226)
......|||....+.. ++ ...+|||+|++.++.+.- ....||+|+.++..-+..-++.|
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k---~~~~Cp~c~~~f~~~DiI~Lnp~ 171 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK---KSKKCPVCGKPFTEEDIIPLNPP 171 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc---ccccccccCCccccCCEEEecCC
Confidence 4567899999987743 22 346999999999998873 24579999999997766666544
No 61
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.35 E-value=0.0021 Score=56.42 Aligned_cols=46 Identities=22% Similarity=0.617 Sum_probs=36.4
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
.....|.||.+.+.+. +-.+|||.-| |..-... ...||+||+.+..
T Consensus 303 ~~p~lcVVcl~e~~~~-~fvpcGh~cc--ct~cs~~---l~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSA-VFVPCGHVCC--CTLCSKH---LPQCPVCRQRIRL 348 (355)
T ss_pred CCCCceEEecCCccce-eeecCCcEEE--chHHHhh---CCCCchhHHHHHH
Confidence 3457899999999997 8899999977 7655442 4569999988764
No 62
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=96.08 E-value=0.0037 Score=56.21 Aligned_cols=43 Identities=30% Similarity=0.748 Sum_probs=35.1
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCC
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCS 204 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP 204 (226)
+++++|++|...+.+| +.++|+|..|..|......+.+...-|
T Consensus 2 eeelkc~vc~~f~~ep-iil~c~h~lc~~ca~~~~~~tp~~~sp 44 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREP-IILPCSHNLCQACARNILVQTPESESP 44 (699)
T ss_pred cccccCceehhhccCc-eEeecccHHHHHHHHhhcccCCCCCCc
Confidence 5789999999999999 899999999999998776543333333
No 63
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.06 E-value=0.0036 Score=55.82 Aligned_cols=50 Identities=30% Similarity=0.617 Sum_probs=40.2
Q ss_pred CcccccccCCCCCCC----CeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 162 DVTTCPICQASPTTP----FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p----~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
...+||||++.++.| .+.+.|||.|-..||+.|+.......||.|.....
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT 56 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence 457899999988765 24578999999999999996545678999976553
No 64
>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=96.02 E-value=0.0061 Score=38.68 Aligned_cols=47 Identities=23% Similarity=0.635 Sum_probs=24.7
Q ss_pred cccccccCCCCCCCCeecCCCCcccHHH--HHHHHhcCCCCCCCCCCcc
Q 027227 163 VTTCPICQASPTTPFLALPCQHRYCYYC--LRTRCAASPSFRCSRCNEP 209 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~fC~~C--i~~~~~~~~~~~CP~Cr~~ 209 (226)
.+.||+....+..|.....|.|.-|.+= ..+...+.+.+.||.|+++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 3689999999999977789999977654 2222233457899999864
No 65
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.01 E-value=0.0026 Score=53.00 Aligned_cols=48 Identities=23% Similarity=0.652 Sum_probs=34.2
Q ss_pred cccccCCC-CCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccccccc
Q 027227 165 TCPICQAS-PTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHG 217 (226)
Q Consensus 165 ~C~iC~~~-~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~ 217 (226)
.|-.|... ..+|+-.+.|+|+||-.|..... ...||.|++++. +..++
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~----~~~C~lCkk~ir-~i~l~ 53 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASS----PDVCPLCKKSIR-IIQLN 53 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhcccCC----ccccccccceee-eeecc
Confidence 56667532 36777789999999999985433 238999999865 44443
No 66
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.98 E-value=0.0045 Score=60.46 Aligned_cols=51 Identities=22% Similarity=0.518 Sum_probs=39.5
Q ss_pred cCcccccccCCCC-----CCCC-eecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 161 EDVTTCPICQASP-----TTPF-LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 161 ~~~~~C~iC~~~~-----~~p~-~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
+.-..|+||.... +-|. ....|.|.|.-.|+..|.++..+..||.||..++
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 4567899996422 1221 3567999999999999999878889999997765
No 67
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.89 E-value=0.0014 Score=55.98 Aligned_cols=46 Identities=24% Similarity=0.597 Sum_probs=37.3
Q ss_pred CcccccccCCCCCCCCeecCCCCc-ccHHHHHHHHhcCCCCCCCCCCccccccc
Q 027227 162 DVTTCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIAMQ 214 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 214 (226)
....|.||++.+.+- +.++|||. -|+.|-.. ...||+||+.+....
T Consensus 299 ~~~LC~ICmDaP~DC-vfLeCGHmVtCt~CGkr------m~eCPICRqyi~rvv 345 (350)
T KOG4275|consen 299 TRRLCAICMDAPRDC-VFLECGHMVTCTKCGKR------MNECPICRQYIVRVV 345 (350)
T ss_pred HHHHHHHHhcCCcce-EEeecCcEEeehhhccc------cccCchHHHHHHHHH
Confidence 378899999999999 78999995 69999632 347999998876543
No 68
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.70 E-value=0.0019 Score=61.70 Aligned_cols=53 Identities=15% Similarity=0.274 Sum_probs=37.4
Q ss_pred CcccccccCCCCCCCC--eecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccccc
Q 027227 162 DVTTCPICQASPTTPF--LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRH 216 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~--~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~ 216 (226)
....|++|...+.+-. .-.+|+|.||..|+..|... ...||+|+..+..+..+
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~--aqTCPiDR~EF~~v~V~ 176 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC--AQTCPVDRGEFGEVKVL 176 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh--cccCchhhhhhheeeee
Confidence 4567888864322110 12579999999999999865 35899999988776543
No 69
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=95.69 E-value=0.0035 Score=42.72 Aligned_cols=49 Identities=20% Similarity=0.497 Sum_probs=23.4
Q ss_pred cccccccCCCCC----CCCe-e--cCCCCcccHHHHHHHHhcC--C-------CCCCCCCCcccc
Q 027227 163 VTTCPICQASPT----TPFL-A--LPCQHRYCYYCLRTRCAAS--P-------SFRCSRCNEPVI 211 (226)
Q Consensus 163 ~~~C~iC~~~~~----~p~~-~--~~CgH~fC~~Ci~~~~~~~--~-------~~~CP~Cr~~~~ 211 (226)
+..|+||.+... .|.+ . ..|+..|-..|+.+|+... . ...||.|++++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 467999986543 2311 1 2689999999999998741 1 245999999876
No 70
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.56 E-value=0.013 Score=51.41 Aligned_cols=54 Identities=28% Similarity=0.534 Sum_probs=41.5
Q ss_pred CCCcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 158 SSEEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 158 ~~~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
+..+++..|.||.+..+-. ..+||+|..|..|....-.--....||.|+..-..
T Consensus 56 dtDEen~~C~ICA~~~TYs-~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 56 DTDEENMNCQICAGSTTYS-ARYPCGHQICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred ccccccceeEEecCCceEE-EeccCCchHHHHHHHHHHHHHhccCCCccccccce
Confidence 3457789999999988877 67999999999998654322234689999976544
No 71
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.88 E-value=0.018 Score=51.24 Aligned_cols=45 Identities=24% Similarity=0.510 Sum_probs=33.5
Q ss_pred ccccccCCCCCCCC---eecCCCCcccHHHHHHHHhcCCC-CCCCCCCc
Q 027227 164 TTCPICQASPTTPF---LALPCQHRYCYYCLRTRCAASPS-FRCSRCNE 208 (226)
Q Consensus 164 ~~C~iC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~-~~CP~Cr~ 208 (226)
..|.||.+...+-. .+-.|||+|--.|+..|+...+. ..||.|+-
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQI 53 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceee
Confidence 57999965443211 12349999999999999987665 68999983
No 72
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=94.38 E-value=0.045 Score=37.88 Aligned_cols=31 Identities=13% Similarity=0.196 Sum_probs=26.7
Q ss_pred ecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 179 ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 179 ~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
--.|.|.|--.||..|+.. ...||.++++..
T Consensus 51 wG~CnHaFH~HCI~rWL~T--k~~CPld~q~w~ 81 (88)
T COG5194 51 WGVCNHAFHDHCIYRWLDT--KGVCPLDRQTWV 81 (88)
T ss_pred EEecchHHHHHHHHHHHhh--CCCCCCCCceeE
Confidence 3469999999999999976 458999998876
No 73
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.35 E-value=0.032 Score=48.35 Aligned_cols=45 Identities=27% Similarity=0.641 Sum_probs=36.0
Q ss_pred ccccccCCCC------CCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 164 TTCPICQASP------TTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 164 ~~C~iC~~~~------~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
..|-||.+.+ ..| ..+.|||.+|..|+...... ....||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p-~~l~c~h~~c~~c~~~l~~~-~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIP-RVLKCGHTICQNCASKLLGN-SRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCC-cccccCceehHhHHHHHhcC-ceeeccCCCCcc
Confidence 4688887644 467 67889999999999888765 467789999985
No 74
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.30 E-value=0.024 Score=54.91 Aligned_cols=42 Identities=29% Similarity=0.779 Sum_probs=36.7
Q ss_pred cccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcc
Q 027227 163 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEP 209 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~ 209 (226)
..+|..|...+..|++...|||.|...|+. +....||.|...
T Consensus 840 ~skCs~C~~~LdlP~VhF~CgHsyHqhC~e-----~~~~~CP~C~~e 881 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPFVHFLCGHSYHQHCLE-----DKEDKCPKCLPE 881 (933)
T ss_pred eeeecccCCccccceeeeecccHHHHHhhc-----cCcccCCccchh
Confidence 469999999999999999999999999997 245789999863
No 75
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.23 E-value=0.047 Score=41.52 Aligned_cols=50 Identities=16% Similarity=0.369 Sum_probs=38.1
Q ss_pred cccccccCCCCCCCCe---ecCCCCcccHHHHHHHHhc-CCCCCCCCCCccccc
Q 027227 163 VTTCPICQASPTTPFL---ALPCQHRYCYYCLRTRCAA-SPSFRCSRCNEPVIA 212 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~---~~~CgH~fC~~Ci~~~~~~-~~~~~CP~Cr~~~~~ 212 (226)
-..|-||.+...+..- .-.||...|.-|-...|+. .-...||+|+..+.+
T Consensus 80 lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKs 133 (140)
T PF05290_consen 80 LYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKS 133 (140)
T ss_pred ceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccc
Confidence 4689999976553321 3579999999999988864 246789999988874
No 76
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=93.98 E-value=0.06 Score=33.78 Aligned_cols=41 Identities=29% Similarity=0.829 Sum_probs=20.7
Q ss_pred ccccCCCCC------CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 166 CPICQASPT------TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 166 C~iC~~~~~------~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
||+|.+.+. .| =+||+..|..|.....+. ....||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~P---C~Cgf~IC~~C~~~i~~~-~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYP---CECGFQICRFCYHDILEN-EGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--S---STTS----HHHHHHHTTS-S-SB-TTT--B-
T ss_pred CCCcccccccCCCcccc---CcCCCcHHHHHHHHHHhc-cCCCCCCCCCCC
Confidence 678876552 23 268999999999887753 467899999874
No 77
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=93.77 E-value=0.021 Score=39.16 Aligned_cols=36 Identities=17% Similarity=0.381 Sum_probs=27.9
Q ss_pred CCeecCCCCcccHHHHHHHHhcC-CCCCCCCCCcccc
Q 027227 176 PFLALPCQHRYCYYCLRTRCAAS-PSFRCSRCNEPVI 211 (226)
Q Consensus 176 p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~Cr~~~~ 211 (226)
|.+.--|.|.|--.||.+|+... ....||.||+...
T Consensus 45 PLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 45 PLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred ccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 43444599999999999999753 2467999998765
No 78
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=93.38 E-value=0.062 Score=47.10 Aligned_cols=49 Identities=22% Similarity=0.625 Sum_probs=32.3
Q ss_pred CcccccccCCCCCCC---CeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 162 DVTTCPICQASPTTP---FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p---~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
++..||+|.+.+... +.--+||...|..|....-+ +-+..||.||....
T Consensus 13 eed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq-~lngrcpacrr~y~ 64 (480)
T COG5175 13 EEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQ-NLNGRCPACRRKYD 64 (480)
T ss_pred ccccCcccccccccccCCcccCCcccHHHHHHHHHHHh-hccCCChHhhhhcc
Confidence 344599999865421 11237998878888654332 34678999998765
No 79
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=93.14 E-value=0.068 Score=38.83 Aligned_cols=30 Identities=17% Similarity=0.393 Sum_probs=25.0
Q ss_pred cCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 180 LPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 180 ~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
-.|.|.|-..||..|+++ ...||+|.++-.
T Consensus 79 G~CNHaFH~hCisrWlkt--r~vCPLdn~eW~ 108 (114)
T KOG2930|consen 79 GVCNHAFHFHCISRWLKT--RNVCPLDNKEWV 108 (114)
T ss_pred eecchHHHHHHHHHHHhh--cCcCCCcCccee
Confidence 359999999999999976 568999987543
No 80
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.64 E-value=0.1 Score=43.88 Aligned_cols=36 Identities=8% Similarity=0.072 Sum_probs=31.2
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHh
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCA 196 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~ 196 (226)
..+-..|++|++...+| +..+=||+||..||.+++.
T Consensus 40 iK~FdcCsLtLqPc~dP-vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 40 IKPFDCCSLTLQPCRDP-VITPDGYLFDREAILEYIL 75 (303)
T ss_pred cCCcceeeeecccccCC-ccCCCCeeeeHHHHHHHHH
Confidence 34556899999999999 7899999999999988764
No 81
>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=92.41 E-value=0.06 Score=39.07 Aligned_cols=32 Identities=28% Similarity=0.817 Sum_probs=25.8
Q ss_pred cCcccccccCCCCCC-CCeecCCCCcccHHHHH
Q 027227 161 EDVTTCPICQASPTT-PFLALPCQHRYCYYCLR 192 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~-p~~~~~CgH~fC~~Ci~ 192 (226)
.++..|++|.+.+.+ +++..||||+|.+.|+.
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 456789999987764 44668999999999974
No 82
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.24 E-value=0.078 Score=51.75 Aligned_cols=37 Identities=27% Similarity=0.598 Sum_probs=31.5
Q ss_pred CcCcccccccCCC-CCCCCeecCCCCcccHHHHHHHHh
Q 027227 160 EEDVTTCPICQAS-PTTPFLALPCQHRYCYYCLRTRCA 196 (226)
Q Consensus 160 ~~~~~~C~iC~~~-~~~p~~~~~CgH~fC~~Ci~~~~~ 196 (226)
.+....|.+|... ...|+...+|||.|.+.|+.+...
T Consensus 814 ~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ecCccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 4678899999865 568888899999999999988765
No 83
>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=91.99 E-value=0.14 Score=43.99 Aligned_cols=46 Identities=24% Similarity=0.586 Sum_probs=33.7
Q ss_pred cccccCC-CCCCCC---eecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 165 TCPICQA-SPTTPF---LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 165 ~C~iC~~-~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
.||.|.. ...+|. ...+|||..|-.|+-..+.. +...||.|...+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~-g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSL-GPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhc-CCCCCCcccchhh
Confidence 5899974 344441 23489999999999887765 4578999987664
No 84
>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=91.94 E-value=0.19 Score=39.49 Aligned_cols=21 Identities=38% Similarity=0.917 Sum_probs=16.6
Q ss_pred CcccccccCCCCCCCCeecCCC
Q 027227 162 DVTTCPICQASPTTPFLALPCQ 183 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~Cg 183 (226)
++..||||++.+.|+ +.+-|.
T Consensus 1 ed~~CpICme~PHNA-VLLlCS 21 (162)
T PF07800_consen 1 EDVTCPICMEHPHNA-VLLLCS 21 (162)
T ss_pred CCccCceeccCCCce-EEEEec
Confidence 357899999999998 666554
No 85
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=91.78 E-value=0.28 Score=38.60 Aligned_cols=50 Identities=22% Similarity=0.349 Sum_probs=37.7
Q ss_pred CcCcccccccCCCCCCCCeecCCCCc-----ccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHR-----YCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~-----fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
...+..|-||.+... + ...||... -...|++.|....+...|+.|+.+..
T Consensus 5 s~~~~~CRIC~~~~~-~-~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 5 SLMDKCCWICKDEYD-V-VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCCeeEecCCCCC-C-ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 456678999987653 3 23466542 37899999998877889999998875
No 86
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.23 E-value=0.13 Score=46.27 Aligned_cols=46 Identities=26% Similarity=0.652 Sum_probs=33.1
Q ss_pred CcccccccCCCCC--CCCeecCCCCcccHHHHHHHHhc---C---CCCCCCCCC
Q 027227 162 DVTTCPICQASPT--TPFLALPCQHRYCYYCLRTRCAA---S---PSFRCSRCN 207 (226)
Q Consensus 162 ~~~~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~---~---~~~~CP~Cr 207 (226)
....|.||.+... .-+..++|+|+||..|..++... + ....||.++
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 4578999986543 33456899999999999998753 1 245676654
No 87
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.88 E-value=0.19 Score=43.89 Aligned_cols=48 Identities=27% Similarity=0.686 Sum_probs=38.0
Q ss_pred cCcccccccCCCCCCCCeecCC--CCcccHHHHHHHHhcCCCCCCCCCCcccccccc
Q 027227 161 EDVTTCPICQASPTTPFLALPC--QHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQR 215 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~C--gH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~ 215 (226)
.+-+.||+|.+.+..| +..| ||.-|..|-.+. ...||.|+.++..++-
T Consensus 46 ~~lleCPvC~~~l~~P--i~QC~nGHlaCssC~~~~-----~~~CP~Cr~~~g~~R~ 95 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP--IFQCDNGHLACSSCRTKV-----SNKCPTCRLPIGNIRC 95 (299)
T ss_pred hhhccCchhhccCccc--ceecCCCcEehhhhhhhh-----cccCCccccccccHHH
Confidence 4568999999999999 3566 799999997532 3479999999886543
No 88
>PHA03096 p28-like protein; Provisional
Probab=90.67 E-value=0.16 Score=43.99 Aligned_cols=45 Identities=13% Similarity=0.328 Sum_probs=29.7
Q ss_pred ccccccCCCCCC------CC-eecCCCCcccHHHHHHHHhcC-CCCCCCCCCc
Q 027227 164 TTCPICQASPTT------PF-LALPCQHRYCYYCLRTRCAAS-PSFRCSRCNE 208 (226)
Q Consensus 164 ~~C~iC~~~~~~------p~-~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~Cr~ 208 (226)
-.|.||++.... .+ ....|.|.||..|+..|..+. ....||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 579999874331 11 345799999999999998753 2233444443
No 89
>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=90.46 E-value=0.29 Score=29.95 Aligned_cols=41 Identities=20% Similarity=0.468 Sum_probs=22.8
Q ss_pred ccccCCCCCCCCeec--CCCCcccHHHHHHHHhcCCCCCCCCC
Q 027227 166 CPICQASPTTPFLAL--PCQHRYCYYCLRTRCAASPSFRCSRC 206 (226)
Q Consensus 166 C~iC~~~~~~p~~~~--~CgH~fC~~Ci~~~~~~~~~~~CP~C 206 (226)
|.+|.+..+.-..-. .|+-.+-..|+..+++......||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 667887777653222 48878889999999987555579987
No 90
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.46 E-value=0.15 Score=42.19 Aligned_cols=41 Identities=32% Similarity=0.721 Sum_probs=31.9
Q ss_pred cccccCCCCCCCCeecCCCCc-ccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 165 TCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 165 ~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
.|-.|.+.-..- ...||.|. +|..|-.. ...||.|+.+...
T Consensus 160 ~Cr~C~~~~~~V-lllPCrHl~lC~~C~~~------~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 160 SCRKCGEREATV-LLLPCRHLCLCGICDES------LRICPICRSPKTS 201 (207)
T ss_pred cceecCcCCceE-EeecccceEeccccccc------CccCCCCcChhhc
Confidence 399999887775 78999985 89999532 3579999876553
No 91
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.92 E-value=0.25 Score=42.37 Aligned_cols=50 Identities=18% Similarity=0.525 Sum_probs=36.9
Q ss_pred cCcccccccCCCCCCCCeecCC----CCcccHHHHHHHHhcCC---------CCCCCCCCcccc
Q 027227 161 EDVTTCPICQASPTTPFLALPC----QHRYCYYCLRTRCAASP---------SFRCSRCNEPVI 211 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~C----gH~fC~~Ci~~~~~~~~---------~~~CP~Cr~~~~ 211 (226)
...+.|.+|.+.+.+.+ -..| .|.||+.|-.+.++.+. .-+||+-+..+.
T Consensus 266 ~apLcCTLC~ERLEDTH-FVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~vP 328 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTH-FVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNVP 328 (352)
T ss_pred CCceeehhhhhhhccCc-eeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCccc
Confidence 34589999999999885 4566 59999999999887531 345777665554
No 92
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.91 E-value=0.35 Score=40.19 Aligned_cols=49 Identities=22% Similarity=0.653 Sum_probs=37.1
Q ss_pred CcccccccCCCCC--CCCeecCCCCcccHHHHHHHHhcC------CCCCCCCCCcccc
Q 027227 162 DVTTCPICQASPT--TPFLALPCQHRYCYYCLRTRCAAS------PSFRCSRCNEPVI 211 (226)
Q Consensus 162 ~~~~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~------~~~~CP~Cr~~~~ 211 (226)
..-.|.+|...+. +. +.+.|-|.|-|.|+.++...- ....||.|..++-
T Consensus 49 Y~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 3457999986654 33 568899999999999987642 2578999987763
No 93
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.30 E-value=2.4 Score=38.06 Aligned_cols=49 Identities=24% Similarity=0.510 Sum_probs=35.2
Q ss_pred cCcccccccCCC---CCCCCeecCCCCcccHHHHHHHHhcC-CCCCCCCCCccc
Q 027227 161 EDVTTCPICQAS---PTTPFLALPCQHRYCYYCLRTRCAAS-PSFRCSRCNEPV 210 (226)
Q Consensus 161 ~~~~~C~iC~~~---~~~p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~Cr~~~ 210 (226)
..-..|||=.+. -..| ..+.|||+-|.+-+....+.. ..+.||-|-...
T Consensus 332 HSvF~CPVlKeqtsdeNPP-m~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPP-MMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred cceeecccchhhccCCCCC-eeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 456899985532 2345 679999999999987766542 148999996544
No 94
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.54 E-value=0.2 Score=47.43 Aligned_cols=38 Identities=26% Similarity=0.592 Sum_probs=29.1
Q ss_pred CcccccccCCCC----CCCCeecCCCCcccHHHHHHHHhcCCCCCCC
Q 027227 162 DVTTCPICQASP----TTPFLALPCQHRYCYYCLRTRCAASPSFRCS 204 (226)
Q Consensus 162 ~~~~C~iC~~~~----~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP 204 (226)
+-+.|+||...+ ..| +.+.|||+.|..|++.... ..||
T Consensus 10 ~~l~c~ic~n~f~~~~~~P-vsl~cghtic~~c~~~lyn----~scp 51 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEP-VSLQCGHTICGHCVQLLYN----ASCP 51 (861)
T ss_pred HHhhchHHHHHHHHHhcCc-ccccccchHHHHHHHhHhh----ccCC
Confidence 446899996543 378 7899999999999987653 4677
No 95
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=87.38 E-value=0.25 Score=50.95 Aligned_cols=54 Identities=20% Similarity=0.489 Sum_probs=40.3
Q ss_pred cCcccccccCC--CCCCCCeecCCCCcccHHHHHHHHhcC--------CCCCCCCCCccccccc
Q 027227 161 EDVTTCPICQA--SPTTPFLALPCQHRYCYYCLRTRCAAS--------PSFRCSRCNEPVIAMQ 214 (226)
Q Consensus 161 ~~~~~C~iC~~--~~~~p~~~~~CgH~fC~~Ci~~~~~~~--------~~~~CP~Cr~~~~~~~ 214 (226)
..+..|.||.. .-..|.+.+.|+|.|-..|....++.. +-..||.|..++.-+-
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~~ 3547 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHIV 3547 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhHH
Confidence 45678999963 345776779999999999988776542 2457999998886543
No 96
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=86.82 E-value=0.15 Score=48.75 Aligned_cols=48 Identities=25% Similarity=0.679 Sum_probs=39.6
Q ss_pred cccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCC-CCCCCCCCcccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASP-SFRCSRCNEPVI 211 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~-~~~CP~Cr~~~~ 211 (226)
...|+||......| +.+.|-|.||..|+...+.... ...||+|+..+.
T Consensus 21 ~lEc~ic~~~~~~p-~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 21 ILECPICLEHVKEP-SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hccCCceeEEeecc-chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 46899999999999 7899999999999987665432 678999985443
No 97
>PHA02862 5L protein; Provisional
Probab=86.09 E-value=0.9 Score=35.20 Aligned_cols=46 Identities=17% Similarity=0.274 Sum_probs=34.4
Q ss_pred ccccccCCCCCCCCeecCCCC-----cccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 164 TTCPICQASPTTPFLALPCQH-----RYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~CgH-----~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
..|-||.+.-... ..||.. .-...|+.+|+....+..|+.|+.+..
T Consensus 3 diCWIC~~~~~e~--~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDER--NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCCC--cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 5799998765443 345553 346899999998777889999998874
No 98
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.99 E-value=0.5 Score=42.72 Aligned_cols=44 Identities=30% Similarity=0.777 Sum_probs=30.1
Q ss_pred CcccccccC-CCCCCC--CeecCCCCcccHHHHHHHHhcC----CCCCCCC
Q 027227 162 DVTTCPICQ-ASPTTP--FLALPCQHRYCYYCLRTRCAAS----PSFRCSR 205 (226)
Q Consensus 162 ~~~~C~iC~-~~~~~p--~~~~~CgH~fC~~Ci~~~~~~~----~~~~CP~ 205 (226)
....|.||. +.+... ..+..|+|.||..|+.++++.. ....||.
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~ 195 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH 195 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence 467899998 443321 1246799999999999998742 2455654
No 99
>PRK04023 DNA polymerase II large subunit; Validated
Probab=84.67 E-value=0.55 Score=46.90 Aligned_cols=51 Identities=16% Similarity=0.328 Sum_probs=35.4
Q ss_pred cCcccccccCCCCCCCCeecCCCC-----cccHHHHHHHHhcCCCCCCCCCCccccccccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQH-----RYCYYCLRTRCAASPSFRCSRCNEPVIAMQRH 216 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH-----~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~ 216 (226)
.....|+-|....... ....||. .||..|-.. .....||.|+.....-...
T Consensus 624 Vg~RfCpsCG~~t~~f-rCP~CG~~Te~i~fCP~CG~~----~~~y~CPKCG~El~~~s~~ 679 (1121)
T PRK04023 624 IGRRKCPSCGKETFYR-RCPFCGTHTEPVYRCPRCGIE----VEEDECEKCGREPTPYSKR 679 (1121)
T ss_pred ccCccCCCCCCcCCcc-cCCCCCCCCCcceeCccccCc----CCCCcCCCCCCCCCccceE
Confidence 3567999999875544 5677985 499999322 1245799999888754443
No 100
>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=83.93 E-value=0.87 Score=28.94 Aligned_cols=29 Identities=17% Similarity=0.581 Sum_probs=14.9
Q ss_pred CeecCCCCcccHHHHHHHHhcCCCCCCCCCC
Q 027227 177 FLALPCQHRYCYYCLRTRCAASPSFRCSRCN 207 (226)
Q Consensus 177 ~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr 207 (226)
|.-..|++.||.+|=. .+. +.-..||-|.
T Consensus 22 y~C~~C~~~FC~dCD~-fiH-E~LH~CPGC~ 50 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDV-FIH-ETLHNCPGCE 50 (51)
T ss_dssp E--TTTT--B-HHHHH-TTT-TTS-SSSTT-
T ss_pred EECCCCCCccccCcCh-hhh-ccccCCcCCC
Confidence 4556799999999943 222 2356899884
No 101
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=83.89 E-value=0.39 Score=41.54 Aligned_cols=51 Identities=24% Similarity=0.514 Sum_probs=36.4
Q ss_pred cCcccccccCCCCC-CC-CeecCCCCcccHHHHHHHHhc---------------------CCCCCCCCCCcccc
Q 027227 161 EDVTTCPICQASPT-TP-FLALPCQHRYCYYCLRTRCAA---------------------SPSFRCSRCNEPVI 211 (226)
Q Consensus 161 ~~~~~C~iC~~~~~-~p-~~~~~CgH~fC~~Ci~~~~~~---------------------~~~~~CP~Cr~~~~ 211 (226)
.....|.||+--+. .| ++.++|-|-|-..|+..++.. ...-.||+||..+.
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 44578999974332 33 466899999999999877542 01345999999886
No 102
>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=83.83 E-value=0.42 Score=40.10 Aligned_cols=49 Identities=22% Similarity=0.621 Sum_probs=34.7
Q ss_pred CcccccccCCC-CCCCC----eecCCCCcccHHHHHHHHhcCCCCCCC--CCCcccc
Q 027227 162 DVTTCPICQAS-PTTPF----LALPCQHRYCYYCLRTRCAASPSFRCS--RCNEPVI 211 (226)
Q Consensus 162 ~~~~C~iC~~~-~~~p~----~~~~CgH~fC~~Ci~~~~~~~~~~~CP--~Cr~~~~ 211 (226)
.+..||+|... .-+|- +...|-|..|-.|+..-+.. +.-.|| -|++-+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~-GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSR-GPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcC-CCCCCCCccHHHHHH
Confidence 45799999853 33441 22349999999999988876 446798 7876543
No 103
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=83.56 E-value=0.067 Score=36.26 Aligned_cols=44 Identities=25% Similarity=0.525 Sum_probs=24.8
Q ss_pred ccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccccc
Q 027227 164 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQR 215 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~ 215 (226)
..||.|...+. + .. |+.+|..|-..+.. ...||.|++++..++-
T Consensus 2 ~~CP~C~~~L~-~---~~-~~~~C~~C~~~~~~---~a~CPdC~~~Le~LkA 45 (70)
T PF07191_consen 2 NTCPKCQQELE-W---QG-GHYHCEACQKDYKK---EAFCPDCGQPLEVLKA 45 (70)
T ss_dssp -B-SSS-SBEE-E---ET-TEEEETTT--EEEE---EEE-TTT-SB-EEEEE
T ss_pred CcCCCCCCccE-E---eC-CEEECcccccccee---cccCCCcccHHHHHHH
Confidence 57999997643 2 12 88899999876543 2479999998876543
No 104
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=82.90 E-value=1.6 Score=30.09 Aligned_cols=50 Identities=18% Similarity=0.440 Sum_probs=20.9
Q ss_pred CcccccccCCCCC-----CCCe-ecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 162 DVTTCPICQASPT-----TPFL-ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 162 ~~~~C~iC~~~~~-----~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
....|.||.+..- ++++ ...|+.-.|..|.+--.+ .++..||.|+.+...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErk-eg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERK-EGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHH-TS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhh-cCcccccccCCCccc
Confidence 4568999986432 3432 256888889999865444 467899999977653
No 105
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=82.22 E-value=1.2 Score=44.88 Aligned_cols=49 Identities=20% Similarity=0.487 Sum_probs=36.7
Q ss_pred CcccccccCCCCC-----CCCe-ecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 162 DVTTCPICQASPT-----TPFL-ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 162 ~~~~C~iC~~~~~-----~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
....|.||.+..- +|++ .-.||.--|..|. ++-..+++..||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY-EYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY-EYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCchh
Confidence 4458999997643 3432 3568888999998 5555567899999998876
No 106
>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=81.53 E-value=0.88 Score=28.38 Aligned_cols=44 Identities=27% Similarity=0.637 Sum_probs=23.5
Q ss_pred ccccccCCCCCCCCeecCCC-CcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 164 TTCPICQASPTTPFLALPCQ-HRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~Cg-H~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
..|.-|.-..+. ...|. |-.|..|+...+.. +..||.|+++++.
T Consensus 3 ~nCKsCWf~~k~---Li~C~dHYLCl~CLt~ml~~--s~~C~iC~~~LPt 47 (50)
T PF03854_consen 3 YNCKSCWFANKG---LIKCSDHYLCLNCLTLMLSR--SDRCPICGKPLPT 47 (50)
T ss_dssp ----SS-S--SS---EEE-SS-EEEHHHHHHT-SS--SSEETTTTEE---
T ss_pred ccChhhhhcCCC---eeeecchhHHHHHHHHHhcc--ccCCCcccCcCcc
Confidence 357777755554 34565 66799999888764 5689999998763
No 107
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=81.38 E-value=1.9 Score=31.71 Aligned_cols=27 Identities=30% Similarity=0.926 Sum_probs=20.7
Q ss_pred CCcccHHHHHHHHhc-------CCCCCCCCCCcc
Q 027227 183 QHRYCYYCLRTRCAA-------SPSFRCSRCNEP 209 (226)
Q Consensus 183 gH~fC~~Ci~~~~~~-------~~~~~CP~Cr~~ 209 (226)
.-.||+.|+.....+ +..+.||.|+..
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crgi 70 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGI 70 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCCe
Confidence 667999998776543 357899999863
No 108
>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=80.28 E-value=0.95 Score=28.83 Aligned_cols=40 Identities=23% Similarity=0.452 Sum_probs=25.2
Q ss_pred cccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
...||.|.+.+... .++.-|......+.....||+|...+
T Consensus 2 ~f~CP~C~~~~~~~--------~L~~H~~~~H~~~~~~v~CPiC~~~~ 41 (54)
T PF05605_consen 2 SFTCPYCGKGFSES--------SLVEHCEDEHRSESKNVVCPICSSRV 41 (54)
T ss_pred CcCCCCCCCccCHH--------HHHHHHHhHCcCCCCCccCCCchhhh
Confidence 56899999843332 14455555555443467899998644
No 109
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=80.23 E-value=1.2 Score=37.65 Aligned_cols=48 Identities=17% Similarity=0.236 Sum_probs=39.9
Q ss_pred CcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcc
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEP 209 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~ 209 (226)
-++.||+=...+.+|.+...|||+|=.+=|...........||+=+.+
T Consensus 175 fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 175 FSNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred hcccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 358999999999999888999999999999988765446778886655
No 110
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=79.79 E-value=0.31 Score=42.21 Aligned_cols=48 Identities=17% Similarity=0.376 Sum_probs=23.8
Q ss_pred cCcccccccCCCCCCCCeecCC-----CCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 161 EDVTTCPICQASPTTPFLALPC-----QHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~C-----gH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
.....||+|...+... +...= .|.+|..|-..|--. ...||.|+..-.
T Consensus 170 w~~g~CPvCGs~P~~s-~l~~~~~~G~R~L~Cs~C~t~W~~~--R~~Cp~Cg~~~~ 222 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLS-VLRGGEREGKRYLHCSLCGTEWRFV--RIKCPYCGNTDH 222 (290)
T ss_dssp TT-SS-TTT---EEEE-EEE------EEEEEETTT--EEE----TTS-TTT---SS
T ss_pred ccCCcCCCCCCcCceE-EEecCCCCccEEEEcCCCCCeeeec--CCCCcCCCCCCC
Confidence 3457999999987765 23232 467899999888643 568999987654
No 111
>PLN02436 cellulose synthase A
Probab=78.98 E-value=1.4 Score=44.41 Aligned_cols=50 Identities=22% Similarity=0.497 Sum_probs=36.7
Q ss_pred CcccccccCCCCC-----CCCe-ecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 162 DVTTCPICQASPT-----TPFL-ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 162 ~~~~C~iC~~~~~-----~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
....|.||.+..- +|++ .-.|+.-.|..|. ++-.++++..||.|+.....
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cy-eyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCY-EYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchhh
Confidence 4469999998643 3443 2458888999998 55555578899999988763
No 112
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=78.55 E-value=2.1 Score=43.14 Aligned_cols=52 Identities=23% Similarity=0.529 Sum_probs=37.9
Q ss_pred CcCcccccccCCCCC-----CCCe-ecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 160 EEDVTTCPICQASPT-----TPFL-ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~-----~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
.-+...|.||.+..- +|++ .-.|+.-.|..|. ++-.++++..||.|+.....
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cy-eye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCY-EYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEEEeccCCCccccchh-hhhhhcCCccCCccCCchhh
Confidence 345678999997533 3432 3568888999998 55555578899999988763
No 113
>PF15616 TerY-C: TerY-C metal binding domain
Probab=78.08 E-value=1.2 Score=34.15 Aligned_cols=43 Identities=16% Similarity=0.416 Sum_probs=32.1
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
+...-.||.|.....-. +. .||+++|+.= .+...||-|++...
T Consensus 74 L~g~PgCP~CGn~~~fa-~C-~CGkl~Ci~g-------~~~~~CPwCg~~g~ 116 (131)
T PF15616_consen 74 LIGAPGCPHCGNQYAFA-VC-GCGKLFCIDG-------EGEVTCPWCGNEGS 116 (131)
T ss_pred hcCCCCCCCCcChhcEE-Ee-cCCCEEEeCC-------CCCEECCCCCCeee
Confidence 34557999999876665 34 8999999842 23578999998764
No 114
>PLN02189 cellulose synthase
Probab=78.05 E-value=1.7 Score=43.79 Aligned_cols=50 Identities=22% Similarity=0.452 Sum_probs=36.6
Q ss_pred CcccccccCCCCC-----CCCee-cCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 162 DVTTCPICQASPT-----TPFLA-LPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 162 ~~~~C~iC~~~~~-----~p~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
....|.||.+..- +|++. -.|+.--|..|. ++-.++++..||.|+.....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cy-eyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCY-EYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchh-hhhhhcCCccCcccCCchhh
Confidence 4458999997643 44432 458888999998 55555578899999988763
No 115
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=77.81 E-value=0.51 Score=48.10 Aligned_cols=45 Identities=27% Similarity=0.417 Sum_probs=36.3
Q ss_pred CcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCc
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 208 (226)
+...|++|.+...+--....|||-+|..|...|... ...||.|..
T Consensus 1152 ~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~--~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYA--SSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHH--hccCcchhh
Confidence 345899999988733256899999999999999976 457999973
No 116
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.80 E-value=0.79 Score=35.04 Aligned_cols=46 Identities=33% Similarity=0.726 Sum_probs=29.0
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhc----------CCCCCCCCCCccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAA----------SPSFRCSRCNEPV 210 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~----------~~~~~CP~Cr~~~ 210 (226)
..++.+|.||+..- -...||| -|.+|-...... +..+.|-.|+...
T Consensus 62 v~ddatC~IC~KTK----FADG~GH-~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 62 VGDDATCGICHKTK----FADGCGH-NCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred cCcCcchhhhhhcc----cccccCc-ccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 46788999999743 2468999 577776554331 1135577776543
No 117
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=77.49 E-value=1.8 Score=38.77 Aligned_cols=31 Identities=16% Similarity=0.496 Sum_probs=23.4
Q ss_pred CcccHHHHHHHHhcC-----------CCCCCCCCCccccccc
Q 027227 184 HRYCYYCLRTRCAAS-----------PSFRCSRCNEPVIAMQ 214 (226)
Q Consensus 184 H~fC~~Ci~~~~~~~-----------~~~~CP~Cr~~~~~~~ 214 (226)
..-|-.|+.+|+.++ ++..||.||+++.-.|
T Consensus 313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilD 354 (358)
T PF10272_consen 313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILD 354 (358)
T ss_pred chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeee
Confidence 345889999998753 2567999999987444
No 118
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=77.25 E-value=1.9 Score=42.40 Aligned_cols=50 Identities=22% Similarity=0.585 Sum_probs=36.7
Q ss_pred cCcccccccCCCCC--CCC-eecCCCCcccHHHHHHHHhcC-----CCCCCCCCCccc
Q 027227 161 EDVTTCPICQASPT--TPF-LALPCQHRYCYYCLRTRCAAS-----PSFRCSRCNEPV 210 (226)
Q Consensus 161 ~~~~~C~iC~~~~~--~p~-~~~~CgH~fC~~Ci~~~~~~~-----~~~~CP~Cr~~~ 210 (226)
.+...|.||.+.+. .|+ ....|-|+|-+.||.+|..+. ..+.||.|....
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 45689999998765 331 224577999999999997641 478999998443
No 119
>PLN02195 cellulose synthase A
Probab=76.14 E-value=2.5 Score=42.41 Aligned_cols=48 Identities=23% Similarity=0.500 Sum_probs=36.0
Q ss_pred cccccccCCCCC-----CCCe-ecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 163 VTTCPICQASPT-----TPFL-ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 163 ~~~C~iC~~~~~-----~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
...|.||.+... +|++ .-.|+.--|..|. ++-..+++..||.|+....
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCy-eyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACL-EYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchh-hhhhhcCCccCCccCCccc
Confidence 358999987433 4542 3568888999998 5555567899999998876
No 120
>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=75.88 E-value=1 Score=34.43 Aligned_cols=34 Identities=15% Similarity=0.329 Sum_probs=26.4
Q ss_pred cccccccCCCCCC--CCeecCCC------CcccHHHHHHHHh
Q 027227 163 VTTCPICQASPTT--PFLALPCQ------HRYCYYCLRTRCA 196 (226)
Q Consensus 163 ~~~C~iC~~~~~~--p~~~~~Cg------H~fC~~Ci~~~~~ 196 (226)
...|.||.+.+.+ -.+..+|| |.||..|+..|-.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 4689999988776 44556676 6799999999943
No 121
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=75.84 E-value=1.2 Score=39.04 Aligned_cols=55 Identities=20% Similarity=0.455 Sum_probs=37.2
Q ss_pred CcccccccCCCCCCCCeec---CCC--CcccHHHHHHHHhcCCCCCCCCCCcccccccccccc
Q 027227 162 DVTTCPICQASPTTPFLAL---PCQ--HRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVI 219 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~---~Cg--H~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 219 (226)
....||+|...+...++.. .=| +.+|..|-.+|--. ...||.|+.. ..+.-+.+.
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~--R~~C~~Cg~~-~~l~y~~~e 242 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYV--RVKCSHCEES-KHLAYLSLE 242 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccccc--CccCCCCCCC-CceeeEeec
Confidence 4569999999876552211 233 66799999888643 5689999975 345555553
No 122
>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=74.60 E-value=4.6 Score=26.07 Aligned_cols=44 Identities=20% Similarity=0.513 Sum_probs=29.0
Q ss_pred ccccccCCCCCCCC-eecCCCC--cccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 164 TTCPICQASPTTPF-LALPCQH--RYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 164 ~~C~iC~~~~~~p~-~~~~CgH--~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
-.|-.|...+.... ...-|.+ .||..|....+. ..||.|+-.+.
T Consensus 6 pnCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l~----~~CPNCgGelv 52 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYICSFECTFCADCAETMLN----GVCPNCGGELV 52 (57)
T ss_pred CCccccCCCCCCCCCcceEEeEeCcccHHHHHHHhc----CcCcCCCCccc
Confidence 35777765443221 2345664 699999988773 48999987664
No 123
>PLN02400 cellulose synthase
Probab=73.95 E-value=2 Score=43.51 Aligned_cols=50 Identities=18% Similarity=0.421 Sum_probs=36.7
Q ss_pred CcccccccCCCCC-----CCCe-ecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 162 DVTTCPICQASPT-----TPFL-ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 162 ~~~~C~iC~~~~~-----~p~~-~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
....|.||.+..- +|++ .-.|+.--|..|- ++-..+++..||.|+.....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY-EYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCY-EYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchh-heecccCCccCcccCCcccc
Confidence 4469999997643 3432 3568888999998 55555578899999988763
No 124
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.94 E-value=2.5 Score=38.99 Aligned_cols=37 Identities=24% Similarity=0.539 Sum_probs=30.2
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAA 197 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~ 197 (226)
.....|.||.+..........|||.||..|+..++..
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhh
Confidence 4457899999887653367899999999999998875
No 125
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=73.65 E-value=1.4 Score=38.54 Aligned_cols=55 Identities=16% Similarity=0.456 Sum_probs=36.8
Q ss_pred CcccccccCCCCCCCCeec--CCC--CcccHHHHHHHHhcCCCCCCCCCCcccccccccccc
Q 027227 162 DVTTCPICQASPTTPFLAL--PCQ--HRYCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVI 219 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~--~Cg--H~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 219 (226)
....||+|...+...++.. .=| |.+|..|-.+|--. ...||.|+.. ..+.-++++
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~--R~~C~~Cg~~-~~l~y~~~~ 244 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVV--RVKCSNCEQS-GKLHYWSLD 244 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccccc--CccCCCCCCC-Cceeeeeec
Confidence 5689999999876552211 234 56799998888643 5689999973 335544443
No 126
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=72.68 E-value=2.2 Score=30.46 Aligned_cols=37 Identities=24% Similarity=0.736 Sum_probs=27.8
Q ss_pred cccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
...|.+|.....++ ||.||..|... ...|..|+..+.
T Consensus 44 ~~~C~~CK~~v~q~------g~~YCq~CAYk------kGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVHQP------GAKYCQTCAYK------KGICAMCGKKIL 80 (90)
T ss_pred CccccccccccccC------CCccChhhhcc------cCcccccCCeec
Confidence 56899998654443 77899999632 458999998874
No 127
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=72.00 E-value=3.1 Score=40.71 Aligned_cols=56 Identities=18% Similarity=0.271 Sum_probs=36.4
Q ss_pred CcccccccCCCCCCC---Ce---ecCCCCcccHHHHHHHHhc----CCCCCCCCCCcccccccccc
Q 027227 162 DVTTCPICQASPTTP---FL---ALPCQHRYCYYCLRTRCAA----SPSFRCSRCNEPVIAMQRHG 217 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p---~~---~~~CgH~fC~~Ci~~~~~~----~~~~~CP~Cr~~~~~~~~~~ 217 (226)
+...|.+|...+.+| .- ...|+|.+|+.||..|... .....|+.|...+..+.+..
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a 160 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA 160 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc
Confidence 456666665444331 11 2459999999999998753 23567889987776655443
No 128
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=71.53 E-value=3.3 Score=25.63 Aligned_cols=40 Identities=30% Similarity=0.654 Sum_probs=23.0
Q ss_pred ccccCCCCC--CCCeecCCCC-----cccHHHHHHHHhcCCCCCCCCC
Q 027227 166 CPICQASPT--TPFLALPCQH-----RYCYYCLRTRCAASPSFRCSRC 206 (226)
Q Consensus 166 C~iC~~~~~--~p~~~~~CgH-----~fC~~Ci~~~~~~~~~~~CP~C 206 (226)
|-||.+.-. +| ...||+- .--..|+..|+...+...|++|
T Consensus 1 CrIC~~~~~~~~~-li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEP-LISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCc-eecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 556764322 24 3556653 3468899999987667789887
No 129
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=69.92 E-value=5.1 Score=39.44 Aligned_cols=61 Identities=25% Similarity=0.404 Sum_probs=44.2
Q ss_pred CcCcccccccC--CCCCCCCeecCCCCc-----ccHHHHHHHHhcCCCCCCCCCCccccccccccccCC
Q 027227 160 EEDVTTCPICQ--ASPTTPFLALPCQHR-----YCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGVINP 221 (226)
Q Consensus 160 ~~~~~~C~iC~--~~~~~p~~~~~CgH~-----fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 221 (226)
.+|+..|.||. +...+| .--||... ...+|+.+|+.-.+...|-.|..++..-+-..-+-|
T Consensus 9 N~d~~~CRICr~e~~~d~p-LfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~e~mP 76 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDP-LFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYKEDMP 76 (1175)
T ss_pred CccchhceeecCCCCCCCc-CcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecccCCC
Confidence 45678999996 445567 35566543 368999999987678899999999876555554444
No 130
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=69.56 E-value=3.6 Score=28.01 Aligned_cols=24 Identities=21% Similarity=0.620 Sum_probs=19.4
Q ss_pred CcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 184 HRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 184 H~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
+.||-.|.+..+ ...||.|+-.+.
T Consensus 29 cTFCadCae~~l----~g~CPnCGGelv 52 (84)
T COG3813 29 CTFCADCAENRL----HGLCPNCGGELV 52 (84)
T ss_pred eehhHhHHHHhh----cCcCCCCCchhh
Confidence 689999998877 348999987654
No 131
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.96 E-value=6.1 Score=33.57 Aligned_cols=50 Identities=12% Similarity=0.210 Sum_probs=35.7
Q ss_pred cCcccccccCCCCCCCC---eecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccc
Q 027227 161 EDVTTCPICQASPTTPF---LALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQ 214 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~---~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 214 (226)
.....|||-.-.+..-| ..-+|||+|-..-+.+.- ...|++|++.+..-+
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik----as~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK----ASVCHVCGAAYQEDD 161 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHhh----hccccccCCcccccC
Confidence 45689998764443322 457899999998876654 348999999887543
No 132
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=68.72 E-value=3.3 Score=35.68 Aligned_cols=42 Identities=24% Similarity=0.626 Sum_probs=33.3
Q ss_pred ccccccCCCC----CCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCc
Q 027227 164 TTCPICQASP----TTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208 (226)
Q Consensus 164 ~~C~iC~~~~----~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 208 (226)
..||+|.+.+ ..| ...+|||..-..|....... ...||.|.+
T Consensus 159 ~ncPic~e~l~~s~~~~-~~~~CgH~~h~~cf~e~~~~--~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDA-GVLKCGHYMHSRCFEEMICE--GYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccC-CccCcccchHHHHHHHHhcc--CCCCCcccc
Confidence 4499998643 355 57899999889999888765 389999988
No 133
>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=68.41 E-value=3.3 Score=22.44 Aligned_cols=10 Identities=20% Similarity=0.487 Sum_probs=5.6
Q ss_pred CCCCCCCccc
Q 027227 201 FRCSRCNEPV 210 (226)
Q Consensus 201 ~~CP~Cr~~~ 210 (226)
..||.|+..+
T Consensus 15 ~~Cp~CG~~F 24 (26)
T PF10571_consen 15 KFCPHCGYDF 24 (26)
T ss_pred CcCCCCCCCC
Confidence 3566666554
No 134
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=68.24 E-value=1.7 Score=39.18 Aligned_cols=37 Identities=24% Similarity=0.352 Sum_probs=0.0
Q ss_pred CCCCCeecCCCCcccHHHHHHHHhcC----CCCCCCCCCccccc
Q 027227 173 PTTPFLALPCQHRYCYYCLRTRCAAS----PSFRCSRCNEPVIA 212 (226)
Q Consensus 173 ~~~p~~~~~CgH~fC~~Ci~~~~~~~----~~~~CP~Cr~~~~~ 212 (226)
-++|++-+.|||++=+. .|...+ ....||.|+..-..
T Consensus 300 ~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 300 ERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGPY 340 (416)
T ss_dssp --------------------------------------------
T ss_pred ccCceeeccccceeeec---ccccccccccccccCCCccccCCc
Confidence 45888889999998884 443221 25789999976654
No 135
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=66.96 E-value=3.8 Score=39.57 Aligned_cols=52 Identities=21% Similarity=0.510 Sum_probs=38.7
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHh--cCCCCCCCCCCcccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCA--ASPSFRCSRCNEPVI 211 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~--~~~~~~CP~Cr~~~~ 211 (226)
..-.+.|+++...+.-|.....|+|.=|.+=..-... +++.+.||+|.+...
T Consensus 303 ~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~ 356 (636)
T KOG2169|consen 303 LRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAP 356 (636)
T ss_pred ceeEecCCcccceeecCCcccccccceecchhhhHHhccCCCeeeCccCCcccc
Confidence 3457999999988888877788999878776532222 235799999987765
No 136
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=66.18 E-value=3.8 Score=35.52 Aligned_cols=38 Identities=24% Similarity=0.487 Sum_probs=27.7
Q ss_pred CCCcccHHHHHHHHhcC-----------CCCCCCCCCcccccccccccc
Q 027227 182 CQHRYCYYCLRTRCAAS-----------PSFRCSRCNEPVIAMQRHGVI 219 (226)
Q Consensus 182 CgH~fC~~Ci~~~~~~~-----------~~~~CP~Cr~~~~~~~~~~~~ 219 (226)
|....|..|+..|.... ++..||.||+.+.-.+.+-++
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v~ 373 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCVD 373 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEEE
Confidence 55567889999887531 467899999999866655444
No 137
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.72 E-value=2.7 Score=38.01 Aligned_cols=34 Identities=24% Similarity=0.613 Sum_probs=24.9
Q ss_pred cccccccCCCCC-----CCCeecCCCCcccHHHHHHHHhc
Q 027227 163 VTTCPICQASPT-----TPFLALPCQHRYCYYCLRTRCAA 197 (226)
Q Consensus 163 ~~~C~iC~~~~~-----~p~~~~~CgH~fC~~Ci~~~~~~ 197 (226)
-..||.|.-... +.++.. |||-|||.|..+|...
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~ 344 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTH 344 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhC
Confidence 578999975433 553445 9999999999887653
No 138
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=64.54 E-value=8.2 Score=28.70 Aligned_cols=43 Identities=21% Similarity=0.495 Sum_probs=30.3
Q ss_pred cccccccCCCCCCC-------------CeecCCCCcccHHHHHHHHhcCCCCCCCCCC
Q 027227 163 VTTCPICQASPTTP-------------FLALPCQHRYCYYCLRTRCAASPSFRCSRCN 207 (226)
Q Consensus 163 ~~~C~iC~~~~~~p-------------~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr 207 (226)
+..|-.|+..+..+ |....|++.||.+|=.-..+ .-..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe--~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHE--SLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhh--hccCCcCCC
Confidence 35699998876543 34678999999999543332 245799985
No 139
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=64.43 E-value=4.8 Score=35.26 Aligned_cols=49 Identities=24% Similarity=0.486 Sum_probs=34.5
Q ss_pred cCcccccccCCCC---CCCCeecCCCCcccHHHHHHHHhcC-CCCCCCCCCccc
Q 027227 161 EDVTTCPICQASP---TTPFLALPCQHRYCYYCLRTRCAAS-PSFRCSRCNEPV 210 (226)
Q Consensus 161 ~~~~~C~iC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~-~~~~CP~Cr~~~ 210 (226)
..-..||+=.+.- ..| +++.|||+.-..-+...-+++ ..+.||-|-...
T Consensus 334 Hs~FiCPVlKe~~t~ENpP-~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~ 386 (396)
T COG5109 334 HSLFICPVLKELCTDENPP-VMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS 386 (396)
T ss_pred cceeeccccHhhhcccCCC-eeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence 4568899754432 245 689999999998876665543 278999996544
No 140
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=62.36 E-value=2.5 Score=41.65 Aligned_cols=52 Identities=15% Similarity=0.383 Sum_probs=0.0
Q ss_pred CcccccccCCCCCCCCeecCCCCc-----ccHHHHHHHHhcCCCCCCCCCCccccccccccc
Q 027227 162 DVTTCPICQASPTTPFLALPCQHR-----YCYYCLRTRCAASPSFRCSRCNEPVIAMQRHGV 218 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~-----fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~~ 218 (226)
....|+-|...-... ....||.. +|..|-...- ...||.|+..........+
T Consensus 654 ~~r~Cp~Cg~~t~~~-~Cp~CG~~T~~~~~Cp~C~~~~~----~~~C~~C~~~~~~~~~~~i 710 (900)
T PF03833_consen 654 GRRRCPKCGKETFYN-RCPECGSHTEPVYVCPDCGIEVE----EDECPKCGRETTSYSKQKI 710 (900)
T ss_dssp --------------------------------------------------------------
T ss_pred ecccCcccCCcchhh-cCcccCCccccceeccccccccC----ccccccccccCcccceeec
Confidence 457899999766555 45668844 7999976543 2389999988765444433
No 141
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=62.18 E-value=3.9 Score=33.74 Aligned_cols=47 Identities=17% Similarity=0.440 Sum_probs=34.8
Q ss_pred CcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
.-..|.+|......-...-.||-.|-..|+.++.++ ...||.|+.-.
T Consensus 180 nlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~--~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQR--RDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHhheeeccCcccchhhhHHHHHHhcc--cCcCCchhccc
Confidence 346899999877765334556666778999999976 56899996544
No 142
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=59.07 E-value=10 Score=33.24 Aligned_cols=52 Identities=21% Similarity=0.492 Sum_probs=31.5
Q ss_pred CcCcccccccCCCCC-----------------CC-CeecCCCCcccHHHHHHHHhcCC--------CCCCCCCCccccc
Q 027227 160 EEDVTTCPICQASPT-----------------TP-FLALPCQHRYCYYCLRTRCAASP--------SFRCSRCNEPVIA 212 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~-----------------~p-~~~~~CgH~fC~~Ci~~~~~~~~--------~~~CP~Cr~~~~~ 212 (226)
...+.+||+|...-. .| +.-.||||+ |.+=-..+|.+-+ ...||.|...+..
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv-~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHV-CSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccc-cchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 345789999975211 11 234799994 5554455554321 4569999877653
No 143
>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 KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=56.90 E-value=14 Score=33.88 Aligned_cols=46 Identities=20% Similarity=0.275 Sum_probs=40.9
Q ss_pred cccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 165 TCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 165 ~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
.|.|-.+.+..|.+....||+|=..=|++++.+ +..||+.++++..
T Consensus 2 ~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI~e--~G~DPIt~~pLs~ 47 (506)
T KOG0289|consen 2 VCAISGEVPEEPVVSPVSGHVFEKRLIEQYIAE--TGKDPITNEPLSI 47 (506)
T ss_pred eecccCCCCCCccccccccchHHHHHHHHHHHH--cCCCCCCCCcCCH
Confidence 599999999999777889999999999999976 5689999999864
No 145
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.68 E-value=11 Score=36.56 Aligned_cols=46 Identities=28% Similarity=0.504 Sum_probs=35.7
Q ss_pred cccccCCCCCCCCeecCCCC-cccHHHHHHHHhcCC----CCCCCCCCcccc
Q 027227 165 TCPICQASPTTPFLALPCQH-RYCYYCLRTRCAASP----SFRCSRCNEPVI 211 (226)
Q Consensus 165 ~C~iC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~~~----~~~CP~Cr~~~~ 211 (226)
.|+||-..+.-+ ..-.||| .-|-.|......... ...||+|+..+.
T Consensus 2 ~c~ic~~s~~~~-~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFV-GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCcccc-ccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 599998877777 5679999 799999987654322 456899998776
No 146
>PF12773 DZR: Double zinc ribbon
Probab=56.20 E-value=10 Score=23.35 Aligned_cols=27 Identities=15% Similarity=0.365 Sum_probs=13.4
Q ss_pred cccHHHHHHHHh-cCCCCCCCCCCcccc
Q 027227 185 RYCYYCLRTRCA-ASPSFRCSRCNEPVI 211 (226)
Q Consensus 185 ~fC~~Ci~~~~~-~~~~~~CP~Cr~~~~ 211 (226)
.||..|=..... ......||.|++.+.
T Consensus 13 ~fC~~CG~~l~~~~~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 13 KFCPHCGTPLPPPDQSKKICPNCGAENP 40 (50)
T ss_pred cCChhhcCChhhccCCCCCCcCCcCCCc
Confidence 355555433331 123456777777654
No 147
>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=54.02 E-value=11 Score=23.78 Aligned_cols=32 Identities=22% Similarity=0.477 Sum_probs=22.2
Q ss_pred ccccccCCCCC---CCCeecCCCCcccHHHHHHHH
Q 027227 164 TTCPICQASPT---TPFLALPCQHRYCYYCLRTRC 195 (226)
Q Consensus 164 ~~C~iC~~~~~---~p~~~~~CgH~fC~~Ci~~~~ 195 (226)
..|..|...+. ..+....||++||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46888875443 222457899999999986544
No 148
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=52.46 E-value=14 Score=32.62 Aligned_cols=47 Identities=34% Similarity=0.843 Sum_probs=34.1
Q ss_pred cccccccCCCC---CCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 163 VTTCPICQASP---TTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 163 ~~~C~iC~~~~---~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
...|++|-+.. ..+..-.+||+..|..|..+... +...||.|+++..
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~--~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISD--GDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhcccc--cCCCCCccCCccc
Confidence 36899998744 22223357999999999987764 4679999997664
No 149
>PF14353 CpXC: CpXC protein
Probab=51.29 E-value=12 Score=28.00 Aligned_cols=13 Identities=31% Similarity=0.741 Sum_probs=10.3
Q ss_pred CCCCCCCCccccc
Q 027227 200 SFRCSRCNEPVIA 212 (226)
Q Consensus 200 ~~~CP~Cr~~~~~ 212 (226)
...||.|++.+.-
T Consensus 38 ~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 38 SFTCPSCGHKFRL 50 (128)
T ss_pred EEECCCCCCceec
Confidence 5789999988753
No 150
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=50.54 E-value=5.5 Score=25.24 Aligned_cols=11 Identities=27% Similarity=0.770 Sum_probs=5.6
Q ss_pred CCCCCCccccc
Q 027227 202 RCSRCNEPVIA 212 (226)
Q Consensus 202 ~CP~Cr~~~~~ 212 (226)
.||+|+.++..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 79999888764
No 151
>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=50.00 E-value=4.1 Score=26.97 Aligned_cols=34 Identities=21% Similarity=0.490 Sum_probs=17.2
Q ss_pred cCcccccccCCCCC---CCCeecCCCCcccHHHHHHH
Q 027227 161 EDVTTCPICQASPT---TPFLALPCQHRYCYYCLRTR 194 (226)
Q Consensus 161 ~~~~~C~iC~~~~~---~p~~~~~CgH~fC~~Ci~~~ 194 (226)
.+...|.+|...+. ..+.-..||++||..|....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 34578999987663 33345679999999997543
No 152
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=49.89 E-value=11 Score=33.16 Aligned_cols=47 Identities=6% Similarity=-0.158 Sum_probs=35.5
Q ss_pred cCcccccccCCCCCCCCeecCCCCc-ccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHR-YCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~-fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
...++|-.|.+-.... ...+|+|. ||..|.... -...||+|......
T Consensus 341 ~s~~~~~~~~~~~~st-~~~~~~~n~~~~~~a~~s----~~~~~~~c~~~~~~ 388 (394)
T KOG2113|consen 341 MSSLKGTSAGFGLLST-IWSGGNMNLSPGSLASAS----ASPTSSTCDHNDHT 388 (394)
T ss_pred hhhcccccccCceeee-EeecCCcccChhhhhhcc----cCCcccccccccee
Confidence 3468899999877666 67899996 899998632 25689999876543
No 153
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=49.13 E-value=8.6 Score=39.73 Aligned_cols=53 Identities=23% Similarity=0.463 Sum_probs=33.7
Q ss_pred cccccccCCCCCCCCeecCCCCc-----ccHHHHHHHHhc-CCCCCCCCCCccccccccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHR-----YCYYCLRTRCAA-SPSFRCSRCNEPVIAMQRH 216 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~-----fC~~Ci~~~~~~-~~~~~CP~Cr~~~~~~~~~ 216 (226)
...||-|....... ....||.. .|..|=.+.... .....||.|+.+.......
T Consensus 667 ~rkCPkCG~~t~~~-fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~CGtplv~~~~~ 725 (1337)
T PRK14714 667 RRRCPSCGTETYEN-RCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRCDVELTPYQRR 725 (1337)
T ss_pred EEECCCCCCccccc-cCcccCCcCCCceeCccCCCccCCCccccccCCCCCCcccccceE
Confidence 37999999765555 56678855 388886532211 0133799999887654443
No 154
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.79 E-value=5.3 Score=34.77 Aligned_cols=49 Identities=29% Similarity=0.708 Sum_probs=37.6
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
-.+...|-+|...++-|...-.|+|-||+.|-..+... ...||.|+...
T Consensus 102 ~~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~~~--~~~~~d~~~~~ 150 (324)
T KOG0824|consen 102 QQDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNFAM--GNDCPDCRGKI 150 (324)
T ss_pred cCCccceeeeeeeEEecccccCceeeeeecCCchhhhh--hhccchhhcCc
Confidence 35667999999999998656679999999999888764 23577765443
No 155
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=48.18 E-value=12 Score=27.31 Aligned_cols=27 Identities=15% Similarity=0.308 Sum_probs=17.4
Q ss_pred CCeecCCCCcccHHHHHHHHhcCCCCCCCCCCc
Q 027227 176 PFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208 (226)
Q Consensus 176 p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 208 (226)
|+..+.|||+|=.- ...+ ...||.|+.
T Consensus 2 pH~CtrCG~vf~~g--~~~i----l~GCp~CG~ 28 (112)
T COG3364 2 PHQCTRCGEVFDDG--SEEI----LSGCPKCGC 28 (112)
T ss_pred Cceecccccccccc--cHHH----HccCccccc
Confidence 56778899988653 1222 135999974
No 156
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=47.61 E-value=23 Score=31.26 Aligned_cols=45 Identities=18% Similarity=0.458 Sum_probs=30.0
Q ss_pred CcccccccCCCCC--CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCc
Q 027227 162 DVTTCPICQASPT--TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208 (226)
Q Consensus 162 ~~~~C~iC~~~~~--~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 208 (226)
.+..|-.|.+... ..|+.-.|.+.||.+|=.-... .-..||-|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHe--sLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHE--SLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHh--hhhcCCCcCC
Confidence 4456999955433 3445678999999999543322 2457999963
No 157
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=47.26 E-value=3.3 Score=21.68 Aligned_cols=8 Identities=38% Similarity=1.182 Sum_probs=4.6
Q ss_pred CCCCCCcc
Q 027227 202 RCSRCNEP 209 (226)
Q Consensus 202 ~CP~Cr~~ 209 (226)
-||.|+.+
T Consensus 15 fC~~CG~~ 22 (23)
T PF13240_consen 15 FCPNCGTP 22 (23)
T ss_pred chhhhCCc
Confidence 46666654
No 158
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=46.04 E-value=13 Score=36.08 Aligned_cols=26 Identities=15% Similarity=0.580 Sum_probs=17.8
Q ss_pred ccHHHHHHHHhcC------CCCCCCCCCcccc
Q 027227 186 YCYYCLRTRCAAS------PSFRCSRCNEPVI 211 (226)
Q Consensus 186 fC~~Ci~~~~~~~------~~~~CP~Cr~~~~ 211 (226)
.|-.|-.++-.-. +...||.|+-.+.
T Consensus 153 lC~~C~~EY~dP~nRRfHAQp~aCp~CGP~~~ 184 (750)
T COG0068 153 LCPFCDKEYKDPLNRRFHAQPIACPKCGPHLF 184 (750)
T ss_pred CCHHHHHHhcCccccccccccccCcccCCCeE
Confidence 3899988765321 3567999986655
No 159
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=45.79 E-value=11 Score=24.98 Aligned_cols=30 Identities=20% Similarity=0.459 Sum_probs=16.4
Q ss_pred ccHHHHHHHHhcCCCCCCCCCCcccccccccc
Q 027227 186 YCYYCLRTRCAASPSFRCSRCNEPVIAMQRHG 217 (226)
Q Consensus 186 fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~~~~ 217 (226)
-|..|- .+...+...||+|+.+-..-++.|
T Consensus 6 AC~~Ck--~l~~~d~e~CP~Cgs~~~te~W~G 35 (64)
T COG2093 6 ACKNCK--RLTPEDTEICPVCGSTDLTEEWFG 35 (64)
T ss_pred HHhhcc--ccCCCCCccCCCCCCcccchhhcc
Confidence 366663 233334456999998743334433
No 160
>COG4229 Predicted enolase-phosphatase [Energy production and conversion]
Probab=45.31 E-value=1.1e+02 Score=25.00 Aligned_cols=75 Identities=12% Similarity=0.002 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHHHhHHhhhhcCCCCCchHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhcCCcCcHHHHHhhceee
Q 027227 26 IWYCIATVGGQYLWARLQSFSAFRRWGDSEQRPLARRAWILIQRIEALYKAASFGN-LLIFLYTGRYRNLIERALRARLV 104 (226)
Q Consensus 26 ~~~~l~~v~~pYl~~Kl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~l~Fl~~g~y~sl~~rll~lr~~ 104 (226)
-++++--|+.||..+|+.++... .|.+.+- ++.+-...+......+.=.+++ ++.....++-.++++-+=|+-..
T Consensus 17 ~iSFVkdvlFPYa~~~lp~fv~e-~~e~~~v---~~~v~~v~~e~g~~~s~E~lva~~~~wiaed~K~t~lK~lQG~iWa 92 (229)
T COG4229 17 PISFVKDVLFPYAARKLPDFVRE-NTEDSEV---KKIVDEVLSEFGIANSEEALVALLLEWIAEDSKDTPLKALQGMIWA 92 (229)
T ss_pred chhHHHhhhhHHHHHHhHHHHHh-hccCChh---hHHHHHHHHHhCccchHHHHHHHHHHHHhcccccchHHHHHhHHHH
Confidence 35688899999999999999853 3443322 1112222222222221222333 33455567777777777776544
No 161
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.39 E-value=15 Score=35.54 Aligned_cols=41 Identities=22% Similarity=0.463 Sum_probs=27.9
Q ss_pred cccccccCCCCC----CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcc
Q 027227 163 VTTCPICQASPT----TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEP 209 (226)
Q Consensus 163 ~~~C~iC~~~~~----~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~ 209 (226)
...|.+|+..-. -+ .++.|+-.||+.|..+.- ..||+|+-.
T Consensus 654 ~r~C~vcq~pedse~~v~-rt~~C~~~~C~~c~~~~~-----~~~~vC~~~ 698 (717)
T KOG3726|consen 654 IRTCKVCQLPEDSETDVC-RTTFCYTPYCVACSLDYA-----SISEVCGPD 698 (717)
T ss_pred HHHHHHhcCCcCcccccc-CccccCCcchHhhhhhhh-----ccCcccCch
Confidence 467888874322 33 456899999999976543 369999643
No 162
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=44.03 E-value=4.2 Score=35.36 Aligned_cols=50 Identities=26% Similarity=0.501 Sum_probs=32.1
Q ss_pred cCcccccccCC-CCC---CCCeecCCCCcccHHHHHHHHhc-----CCCCCCCCCCccc
Q 027227 161 EDVTTCPICQA-SPT---TPFLALPCQHRYCYYCLRTRCAA-----SPSFRCSRCNEPV 210 (226)
Q Consensus 161 ~~~~~C~iC~~-~~~---~p~~~~~CgH~fC~~Ci~~~~~~-----~~~~~CP~Cr~~~ 210 (226)
.+...|.+|.. .+. .-+....||++||..|-...... ++...|+.|=..+
T Consensus 166 ~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 166 SEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred ccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCcccccccCCCCceecHHHHHHH
Confidence 35689999998 333 22235789999999998763321 2233677774444
No 163
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=43.92 E-value=4.8 Score=25.87 Aligned_cols=15 Identities=20% Similarity=0.758 Sum_probs=12.4
Q ss_pred CCCCcccHHHHHHHH
Q 027227 181 PCQHRYCYYCLRTRC 195 (226)
Q Consensus 181 ~CgH~fC~~Ci~~~~ 195 (226)
.||+.||+.|..+|.
T Consensus 45 ~C~~~fC~~C~~~~H 59 (64)
T smart00647 45 KCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCeECCCCCCcCC
Confidence 689999999977664
No 164
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=43.63 E-value=15 Score=28.44 Aligned_cols=41 Identities=24% Similarity=0.421 Sum_probs=23.2
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAM 213 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~ 213 (226)
......||.|...+..- . ........+.+.||.|+.++...
T Consensus 96 ~~~~Y~Cp~C~~~y~~~-e------------a~~~~d~~~~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 96 NNAYYKCPNCQSKYTFL-E------------ANQLLDMDGTFTCPRCGEELEED 136 (147)
T ss_pred CCcEEECcCCCCEeeHH-H------------HHHhcCCCCcEECCCCCCEEEEc
Confidence 34578899887544421 0 11111112348999999988643
No 165
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=42.88 E-value=3 Score=23.72 Aligned_cols=14 Identities=21% Similarity=0.615 Sum_probs=10.0
Q ss_pred CCCCCCCCCccccc
Q 027227 199 PSFRCSRCNEPVIA 212 (226)
Q Consensus 199 ~~~~CP~Cr~~~~~ 212 (226)
....||.|+.+-..
T Consensus 16 ~~~~CP~Cg~~~~~ 29 (33)
T cd00350 16 APWVCPVCGAPKDK 29 (33)
T ss_pred CCCcCcCCCCcHHH
Confidence 35789999876443
No 166
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=42.75 E-value=16 Score=23.94 Aligned_cols=12 Identities=25% Similarity=0.783 Sum_probs=9.4
Q ss_pred CCCCCCCCcccc
Q 027227 200 SFRCSRCNEPVI 211 (226)
Q Consensus 200 ~~~CP~Cr~~~~ 211 (226)
...||.|++++.
T Consensus 3 HkHC~~CG~~Ip 14 (59)
T PF09889_consen 3 HKHCPVCGKPIP 14 (59)
T ss_pred CCcCCcCCCcCC
Confidence 457888888876
No 167
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=42.02 E-value=64 Score=28.44 Aligned_cols=46 Identities=22% Similarity=0.487 Sum_probs=29.7
Q ss_pred cCcccccccCCCCCCC-------------CeecCCCCcccHHHHHHHHhcCCCCCCCCCCc
Q 027227 161 EDVTTCPICQASPTTP-------------FLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p-------------~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 208 (226)
.....|-.|+..+..| |..-.|...||.+|-.-... .-..|+-|..
T Consensus 360 ~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe--~Lh~C~gCe~ 418 (421)
T COG5151 360 PKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHE--TLHFCIGCEL 418 (421)
T ss_pred CCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHH--HHhhCCCCcC
Confidence 3456799998755433 44456888999999543332 2346888854
No 168
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=41.77 E-value=15 Score=36.20 Aligned_cols=31 Identities=26% Similarity=0.748 Sum_probs=24.2
Q ss_pred ccccccCCCCC--------CCCeecCCCCcccHHHHHHH
Q 027227 164 TTCPICQASPT--------TPFLALPCQHRYCYYCLRTR 194 (226)
Q Consensus 164 ~~C~iC~~~~~--------~p~~~~~CgH~fC~~Ci~~~ 194 (226)
..|..|...+. ..+..-.||.+||..|-...
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnR 499 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKR 499 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCc
Confidence 56999998874 34457889999999997544
No 169
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.23 E-value=23 Score=28.58 Aligned_cols=51 Identities=20% Similarity=0.501 Sum_probs=34.1
Q ss_pred cCcccccccCCC-----CCCC-CeecCCCCcccHHHHHHHHhc----CC-----CCCCCCCCcccc
Q 027227 161 EDVTTCPICQAS-----PTTP-FLALPCQHRYCYYCLRTRCAA----SP-----SFRCSRCNEPVI 211 (226)
Q Consensus 161 ~~~~~C~iC~~~-----~~~p-~~~~~CgH~fC~~Ci~~~~~~----~~-----~~~CP~Cr~~~~ 211 (226)
+.-..|.||... ..+- .-...||..|..-|+.+|++. .+ -..||.|..|+.
T Consensus 163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 344567788532 1111 123579999999999999863 11 357999998876
No 170
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=40.96 E-value=16 Score=23.90 Aligned_cols=32 Identities=19% Similarity=0.440 Sum_probs=21.8
Q ss_pred ccccCCCCCCCCeecCCCCcccHH----HHHHHHhc
Q 027227 166 CPICQASPTTPFLALPCQHRYCYY----CLRTRCAA 197 (226)
Q Consensus 166 C~iC~~~~~~p~~~~~CgH~fC~~----Ci~~~~~~ 197 (226)
|..|.....+.++-+.||+++|.. ....+.++
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~~ 36 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGRYSNGHALKHYKE 36 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETTTSTSHHHHHHHH
T ss_pred CCCCCCcCCceEEeCCCCcccccCCcCcHHHHhhcc
Confidence 566765555666789999999997 66666553
No 171
>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=40.49 E-value=9.2 Score=22.97 Aligned_cols=10 Identities=20% Similarity=0.777 Sum_probs=8.1
Q ss_pred CCCCCCCCCc
Q 027227 199 PSFRCSRCNE 208 (226)
Q Consensus 199 ~~~~CP~Cr~ 208 (226)
....||.|+.
T Consensus 25 ~~~~CP~Cg~ 34 (42)
T PF09723_consen 25 DPVPCPECGS 34 (42)
T ss_pred CCCcCCCCCC
Confidence 4678999987
No 172
>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=40.47 E-value=16 Score=24.40 Aligned_cols=13 Identities=23% Similarity=0.644 Sum_probs=9.2
Q ss_pred cccHHHHHHHHhc
Q 027227 185 RYCYYCLRTRCAA 197 (226)
Q Consensus 185 ~fC~~Ci~~~~~~ 197 (226)
-||..|+..|..+
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999864
No 173
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=39.96 E-value=18 Score=28.38 Aligned_cols=25 Identities=20% Similarity=0.749 Sum_probs=20.0
Q ss_pred CCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 183 QHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 183 gH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
.+.||..|=.+.+. .||.|..++..
T Consensus 27 ~~~fC~kCG~~tI~-----~Cp~C~~~IrG 51 (158)
T PF10083_consen 27 REKFCSKCGAKTIT-----SCPNCSTPIRG 51 (158)
T ss_pred HHHHHHHhhHHHHH-----HCcCCCCCCCC
Confidence 46799999887764 59999998875
No 174
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=39.58 E-value=21 Score=30.86 Aligned_cols=47 Identities=21% Similarity=0.566 Sum_probs=32.3
Q ss_pred cCcccccccCCCCCCCCeecC---CC--CcccHHHHHHHHhcCCCCCCCCCCcc
Q 027227 161 EDVTTCPICQASPTTPFLALP---CQ--HRYCYYCLRTRCAASPSFRCSRCNEP 209 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~---Cg--H~fC~~Ci~~~~~~~~~~~CP~Cr~~ 209 (226)
+.-..||+|...+...++... =| ..-|.-|..+|..- ...|-.|++.
T Consensus 183 e~~~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~~V--R~KC~nC~~t 234 (308)
T COG3058 183 ESRQYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWHYV--RVKCSNCEQS 234 (308)
T ss_pred cccccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHHHH--HHHhcccccc
Confidence 455799999998887644322 22 34699999999653 3468888653
No 175
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=39.05 E-value=7.5 Score=20.77 Aligned_cols=9 Identities=22% Similarity=0.630 Sum_probs=5.0
Q ss_pred CCCCCCCcc
Q 027227 201 FRCSRCNEP 209 (226)
Q Consensus 201 ~~CP~Cr~~ 209 (226)
.-||.|+++
T Consensus 17 ~fC~~CG~~ 25 (26)
T PF13248_consen 17 KFCPNCGAK 25 (26)
T ss_pred ccChhhCCC
Confidence 346666654
No 176
>PF04281 Tom22: Mitochondrial import receptor subunit Tom22 ; InterPro: IPR005683 The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family represents the Tom22 proteins []. The N-terminal region of Tom22 has been shown to have chaperone-like activity, and the C-terminal region faces the intermembrane face []. ; GO: 0006886 intracellular protein transport, 0005741 mitochondrial outer membrane
Probab=37.68 E-value=22 Score=27.45 Aligned_cols=21 Identities=29% Similarity=0.431 Sum_probs=17.3
Q ss_pred hhHHHHHHHHHHHHHHhhccc
Q 027227 120 NRQLVWNEFSEMLLLLLPLLN 140 (226)
Q Consensus 120 ~r~l~~~~~~e~l~~~lp~~~ 140 (226)
.+..+|-+.+..+.+++|++-
T Consensus 90 ~g~a~Wi~tTSallLgvPl~l 110 (137)
T PF04281_consen 90 SGKALWIVTTSALLLGVPLAL 110 (137)
T ss_pred cchhHHHHHHHHHHHHHHHHH
Confidence 467789999999999999853
No 177
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=37.19 E-value=12 Score=28.94 Aligned_cols=32 Identities=25% Similarity=0.703 Sum_probs=23.0
Q ss_pred CcccccccCCCCCCCCeecCCCCcccH-HHHHHHH
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCY-YCLRTRC 195 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~-~Ci~~~~ 195 (226)
.-..|.||. ...+|..+.||..||. .|...+-
T Consensus 117 ~r~fCaVCG--~~S~ysC~~CG~kyCsv~C~~~Hn 149 (156)
T KOG3362|consen 117 LRKFCAVCG--YDSKYSCVNCGTKYCSVRCLKTHN 149 (156)
T ss_pred cchhhhhcC--CCchhHHHhcCCceeechhhhhcc
Confidence 456899999 4455578999999875 5665543
No 178
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=36.83 E-value=16 Score=31.46 Aligned_cols=50 Identities=18% Similarity=0.487 Sum_probs=27.3
Q ss_pred cCcccccccCCCCC---------CCCeecCCCCcccHHHHH-HHHhc--------CCCCCCCCCCcccc
Q 027227 161 EDVTTCPICQASPT---------TPFLALPCQHRYCYYCLR-TRCAA--------SPSFRCSRCNEPVI 211 (226)
Q Consensus 161 ~~~~~C~iC~~~~~---------~p~~~~~CgH~fC~~Ci~-~~~~~--------~~~~~CP~Cr~~~~ 211 (226)
.....|..|.+... .. -+++|...+|-.=+. .|+-+ +..+.||.|++.|.
T Consensus 159 ~ka~~C~~C~K~YvSmpALkMHirT-H~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFA 226 (279)
T KOG2462|consen 159 KKAFSCKYCGKVYVSMPALKMHIRT-HTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFA 226 (279)
T ss_pred cccccCCCCCceeeehHHHhhHhhc-cCCCcccccccccccchHHhhcccccccCCCCccCCcccchhc
Confidence 44577888876433 11 134555555554443 33332 12578888888775
No 179
>PRK11595 DNA utilization protein GntX; Provisional
Probab=36.53 E-value=32 Score=28.53 Aligned_cols=39 Identities=21% Similarity=0.512 Sum_probs=22.9
Q ss_pred ccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 164 TTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
..|.+|.+....+ ....|..|....... ...||.|+.+.
T Consensus 6 ~~C~~C~~~~~~~------~~~lC~~C~~~l~~~--~~~C~~Cg~~~ 44 (227)
T PRK11595 6 GLCWLCRMPLALS------HWGICSVCSRALRTL--KTCCPQCGLPA 44 (227)
T ss_pred CcCccCCCccCCC------CCcccHHHHhhCCcc--cCcCccCCCcC
Confidence 3688888654322 123677886654321 23688888764
No 180
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=36.32 E-value=24 Score=20.88 Aligned_cols=23 Identities=22% Similarity=0.616 Sum_probs=14.6
Q ss_pred ccccCCCCCC-CCeecCCCCcccH
Q 027227 166 CPICQASPTT-PFLALPCQHRYCY 188 (226)
Q Consensus 166 C~iC~~~~~~-p~~~~~CgH~fC~ 188 (226)
|.+|.+.... |+.-.-|+..||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 5567655444 7544558888876
No 182
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=35.80 E-value=22 Score=21.58 Aligned_cols=14 Identities=36% Similarity=0.710 Sum_probs=10.5
Q ss_pred CCCCCCCCCccccc
Q 027227 199 PSFRCSRCNEPVIA 212 (226)
Q Consensus 199 ~~~~CP~Cr~~~~~ 212 (226)
+...||+|+.++..
T Consensus 7 p~K~C~~C~rpf~W 20 (42)
T PF10013_consen 7 PSKICPVCGRPFTW 20 (42)
T ss_pred CCCcCcccCCcchH
Confidence 35689999988863
No 183
>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=35.62 E-value=19 Score=26.75 Aligned_cols=46 Identities=22% Similarity=0.536 Sum_probs=28.3
Q ss_pred CcccccccCCCCC----CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCc
Q 027227 162 DVTTCPICQASPT----TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208 (226)
Q Consensus 162 ~~~~C~iC~~~~~----~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 208 (226)
++..|.+|...+. .......|+|.+|..|-.. ...+..+.|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 5679999987542 2334577899999988644 21234566777754
No 184
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=35.23 E-value=8.1 Score=28.65 Aligned_cols=11 Identities=18% Similarity=0.655 Sum_probs=7.7
Q ss_pred CCCCCCCCccc
Q 027227 200 SFRCSRCNEPV 210 (226)
Q Consensus 200 ~~~CP~Cr~~~ 210 (226)
...||.|+..-
T Consensus 86 ~~~CP~Cgs~~ 96 (113)
T PRK12380 86 DAQCPHCHGER 96 (113)
T ss_pred CccCcCCCCCC
Confidence 35699998653
No 185
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=34.98 E-value=4.1 Score=28.73 Aligned_cols=37 Identities=24% Similarity=0.710 Sum_probs=28.2
Q ss_pred cccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 163 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
-..|.||.....+| |..||..|... ...|..|++.+.
T Consensus 54 ~~kC~iCk~~vHQ~------GshYC~tCAY~------KgiCAMCGKki~ 90 (100)
T KOG3476|consen 54 LAKCRICKQLVHQP------GSHYCQTCAYK------KGICAMCGKKIL 90 (100)
T ss_pred cchhHHHHHHhcCC------cchhHhHhhhh------hhHHHHhhhHhh
Confidence 46899999877777 44599999753 347999998775
No 186
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=33.80 E-value=15 Score=32.35 Aligned_cols=35 Identities=20% Similarity=0.339 Sum_probs=24.0
Q ss_pred CCCCeecCCCCcccHHHHHHHHhcC----CCCCCCCCCcccc
Q 027227 174 TTPFLALPCQHRYCYYCLRTRCAAS----PSFRCSRCNEPVI 211 (226)
Q Consensus 174 ~~p~~~~~CgH~fC~~Ci~~~~~~~----~~~~CP~Cr~~~~ 211 (226)
++|++-+.|||+--|. .|-... ....||.|+..-.
T Consensus 314 ~QP~vYl~CGHV~G~H---~WG~~e~~g~~~r~CPmC~~~gp 352 (429)
T KOG3842|consen 314 KQPWVYLNCGHVHGYH---NWGVRENTGQRERECPMCRVVGP 352 (429)
T ss_pred cCCeEEEecccccccc---ccccccccCcccCcCCeeeeecc
Confidence 4888889999987663 332211 2578999987554
No 187
>KOG4536 consensus Predicted membrane protein [Function unknown]
Probab=33.66 E-value=1.1e+02 Score=26.65 Aligned_cols=45 Identities=18% Similarity=0.217 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcCcHHHHHhhceee
Q 027227 60 ARRAWILIQRIEALYKAASFGNLLIFLYTGRYRNLIERALRARLV 104 (226)
Q Consensus 60 ~~~~~~~~~~~~~~~~~~~l~~~l~Fl~~g~y~sl~~rll~lr~~ 104 (226)
-+.+|.++..+-...++...+-.+.|.+.|.|.|+.+-+++--.+
T Consensus 114 dkvlW~i~~fF~ls~el~~~v~glaFg~~~n~~Si~~aL~~T~li 158 (347)
T KOG4536|consen 114 DKVLWNILTFFTLSGELFLEVSGLAFGFQGNYASIAEALTRTFLI 158 (347)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence 345788888888888999999999999999999999888776554
No 188
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=33.51 E-value=8.8 Score=28.54 Aligned_cols=11 Identities=27% Similarity=1.005 Sum_probs=8.0
Q ss_pred CCCCCCCCccc
Q 027227 200 SFRCSRCNEPV 210 (226)
Q Consensus 200 ~~~CP~Cr~~~ 210 (226)
...||.|+..-
T Consensus 86 ~~~CP~Cgs~~ 96 (115)
T TIGR00100 86 LYRCPKCHGIM 96 (115)
T ss_pred CccCcCCcCCC
Confidence 35799998754
No 189
>PF15178 TOM_sub5: Mitochondrial import receptor subunit TOM5 homolog
Probab=33.12 E-value=44 Score=20.74 Aligned_cols=19 Identities=21% Similarity=0.303 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 027227 26 IWYCIATVGGQYLWARLQS 44 (226)
Q Consensus 26 ~~~~l~~v~~pYl~~Kl~~ 44 (226)
++++.+.=..||+.+||++
T Consensus 32 liyVALlR~tpyvlkklds 50 (51)
T PF15178_consen 32 LIYVALLRVTPYVLKKLDS 50 (51)
T ss_pred HHHHHHHHhChHHHHHhcc
Confidence 4566677778999999985
No 190
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=32.95 E-value=15 Score=36.29 Aligned_cols=55 Identities=15% Similarity=0.231 Sum_probs=36.7
Q ss_pred CcCcccccccCCCCCC-CCeecCCCCcccHHHHHHHH----hcCCCCCCCCCCccccccc
Q 027227 160 EEDVTTCPICQASPTT-PFLALPCQHRYCYYCLRTRC----AASPSFRCSRCNEPVIAMQ 214 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~-p~~~~~CgH~fC~~Ci~~~~----~~~~~~~CP~Cr~~~~~~~ 214 (226)
......|..|.....+ -.+...||+.+|..|+..|. .++....|+.|+.....-+
T Consensus 226 ~g~~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~C~~~q 285 (889)
T KOG1356|consen 226 KGIREMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLKCNKGQ 285 (889)
T ss_pred cCcchhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHhcCCcc
Confidence 3456789999876665 44667899999999999884 1112334666665554433
No 191
>PLN02248 cellulose synthase-like protein
Probab=32.51 E-value=44 Score=34.43 Aligned_cols=30 Identities=23% Similarity=0.579 Sum_probs=24.9
Q ss_pred CCCCcccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 181 PCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 181 ~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
.|++..|.+|..+.+.. ...||-|+++...
T Consensus 149 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 178 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKS--GGICPGCKEPYKV 178 (1135)
T ss_pred cccchhHHhHhhhhhhc--CCCCCCCcccccc
Confidence 57788899999999876 4589999988853
No 192
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.04 E-value=22 Score=32.36 Aligned_cols=34 Identities=18% Similarity=0.596 Sum_probs=25.4
Q ss_pred CcccccccCCCCC-----CCCeecCCCCcccHHHHHHHH
Q 027227 162 DVTTCPICQASPT-----TPFLALPCQHRYCYYCLRTRC 195 (226)
Q Consensus 162 ~~~~C~iC~~~~~-----~p~~~~~CgH~fC~~Ci~~~~ 195 (226)
+.-.||-|.-.+. +-+..+.|||.|||-|....-
T Consensus 367 N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~ 405 (445)
T KOG1814|consen 367 NSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLY 405 (445)
T ss_pred cCCCCCcccceeecCCCccceeeccccccceeehhhhcC
Confidence 4568999975543 445678999999999986654
No 193
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=31.62 E-value=21 Score=32.03 Aligned_cols=33 Identities=33% Similarity=0.712 Sum_probs=24.3
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHH
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLR 192 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~ 192 (226)
......|--|...-..-...++||..||..|+.
T Consensus 36 ~~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~ 68 (441)
T COG4098 36 ENGKYRCNRCGNTHIELFAKLPCGCLYCRNCLM 68 (441)
T ss_pred ccCcEEehhcCCcchhhhcccccceEeehhhhh
Confidence 345679999984433333678999999999985
No 194
>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=31.58 E-value=5.6 Score=22.34 Aligned_cols=25 Identities=32% Similarity=0.664 Sum_probs=9.4
Q ss_pred CcccHHHHHHHHhcC--CCCCCCCCCc
Q 027227 184 HRYCYYCLRTRCAAS--PSFRCSRCNE 208 (226)
Q Consensus 184 H~fC~~Ci~~~~~~~--~~~~CP~Cr~ 208 (226)
|.||..|=....... -...||.|+.
T Consensus 3 ~rfC~~CG~~t~~~~~g~~r~C~~Cg~ 29 (32)
T PF09297_consen 3 HRFCGRCGAPTKPAPGGWARRCPSCGH 29 (32)
T ss_dssp TSB-TTT--BEEE-SSSS-EEESSSS-
T ss_pred CcccCcCCccccCCCCcCEeECCCCcC
Confidence 455665544332211 1345777764
No 195
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.29 E-value=14 Score=33.95 Aligned_cols=33 Identities=24% Similarity=0.750 Sum_probs=20.9
Q ss_pred cccccccCCCCCCCC-----e--ecCCCCcccHHHHHHHH
Q 027227 163 VTTCPICQASPTTPF-----L--ALPCQHRYCYYCLRTRC 195 (226)
Q Consensus 163 ~~~C~iC~~~~~~p~-----~--~~~CgH~fC~~Ci~~~~ 195 (226)
.-.||.|......-. . ..+|.|.|||.|+..|.
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~ 265 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLS 265 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeecccc
Confidence 345999986544210 1 12499999999965554
No 196
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=31.22 E-value=20 Score=27.97 Aligned_cols=25 Identities=20% Similarity=0.417 Sum_probs=16.5
Q ss_pred HhcCCCCCCCCCCccccccccccccC
Q 027227 195 CAASPSFRCSRCNEPVIAMQRHGVIN 220 (226)
Q Consensus 195 ~~~~~~~~CP~Cr~~~~~~~~~~~~~ 220 (226)
+..++.+.||.|++-+. +...+..+
T Consensus 128 l~Kge~~rc~eCG~~fk-L~~v~~~~ 152 (153)
T KOG3352|consen 128 LEKGETQRCPECGHYFK-LVPVGPVN 152 (153)
T ss_pred EEcCCcccCCcccceEE-eeecCCCC
Confidence 34445788999998877 55554433
No 197
>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=31.14 E-value=20 Score=19.62 Aligned_cols=11 Identities=18% Similarity=0.773 Sum_probs=5.9
Q ss_pred CCCCCCccccc
Q 027227 202 RCSRCNEPVIA 212 (226)
Q Consensus 202 ~CP~Cr~~~~~ 212 (226)
.||.|+.++..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 49999988763
No 198
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=30.72 E-value=37 Score=29.14 Aligned_cols=50 Identities=22% Similarity=0.455 Sum_probs=35.1
Q ss_pred CcccccccCCCCCC----CCeecCCCC-----cccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 162 DVTTCPICQASPTT----PFLALPCQH-----RYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 162 ~~~~C~iC~~~~~~----p~~~~~CgH-----~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
+...|-||...... + ...+|.. ..-..|+..|...+++..|..|......
T Consensus 77 ~~~~cRIc~~~~~~~~~~~-l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLL-LISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCCcEEEEecccccccccc-cccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 35789999864321 3 3445542 2468999999987778899999876653
No 199
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.51 E-value=29 Score=26.35 Aligned_cols=23 Identities=17% Similarity=0.644 Sum_probs=15.3
Q ss_pred cccHHHHHHHHhcCCCCCCCCCCccccc
Q 027227 185 RYCYYCLRTRCAASPSFRCSRCNEPVIA 212 (226)
Q Consensus 185 ~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~ 212 (226)
.||..|-...+. .||.|..++..
T Consensus 29 afcskcgeati~-----qcp~csasirg 51 (160)
T COG4306 29 AFCSKCGEATIT-----QCPICSASIRG 51 (160)
T ss_pred HHHhhhchHHHh-----cCCccCCcccc
Confidence 578888665542 58888777654
No 200
>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=30.22 E-value=52 Score=19.05 Aligned_cols=25 Identities=24% Similarity=0.565 Sum_probs=13.2
Q ss_pred cHHHHHHHHhcC------CCCCCCCCCcccc
Q 027227 187 CYYCLRTRCAAS------PSFRCSRCNEPVI 211 (226)
Q Consensus 187 C~~Ci~~~~~~~------~~~~CP~Cr~~~~ 211 (226)
|..|..++.... +...|+.|+-.+.
T Consensus 2 C~~C~~Ey~~p~~RR~~~~~isC~~CGPr~~ 32 (35)
T PF07503_consen 2 CDDCLKEYFDPSNRRFHYQFISCTNCGPRYS 32 (35)
T ss_dssp -HHHHHHHCSTTSTTTT-TT--BTTCC-SCC
T ss_pred CHHHHHHHcCCCCCcccCcCccCCCCCCCEE
Confidence 667777664321 3567999986654
No 201
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=30.16 E-value=46 Score=21.46 Aligned_cols=11 Identities=36% Similarity=1.111 Sum_probs=5.7
Q ss_pred CCCCCCCCccc
Q 027227 200 SFRCSRCNEPV 210 (226)
Q Consensus 200 ~~~CP~Cr~~~ 210 (226)
.+.||.|+-++
T Consensus 14 ~~~Cp~cGipt 24 (55)
T PF13824_consen 14 NFECPDCGIPT 24 (55)
T ss_pred CCcCCCCCCcC
Confidence 34555555444
No 202
>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=30.11 E-value=41 Score=26.41 Aligned_cols=37 Identities=19% Similarity=0.308 Sum_probs=23.5
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQ 214 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 214 (226)
......||.|...++.- +.+. ..+.||.|+.++...+
T Consensus 106 ~~~~Y~Cp~c~~r~tf~----------------eA~~--~~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 106 NNMFFICPNMCVRFTFN----------------EAME--LNFTCPRCGAMLDYLD 142 (158)
T ss_pred CCCeEECCCCCcEeeHH----------------HHHH--cCCcCCCCCCEeeecc
Confidence 34568899887543321 2222 2689999999876544
No 203
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=29.50 E-value=61 Score=20.79 Aligned_cols=32 Identities=19% Similarity=0.504 Sum_probs=23.1
Q ss_pred CcccccccCCCC--CCCC-eecCCCCcccHHHHHH
Q 027227 162 DVTTCPICQASP--TTPF-LALPCQHRYCYYCLRT 193 (226)
Q Consensus 162 ~~~~C~iC~~~~--~~p~-~~~~CgH~fC~~Ci~~ 193 (226)
....|++|.+.+ .+.. +...||-.|-..|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 356899999988 4442 3367998888888643
No 204
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.06 E-value=16 Score=22.86 Aligned_cols=12 Identities=25% Similarity=0.645 Sum_probs=8.8
Q ss_pred CCCCCCCCcccc
Q 027227 200 SFRCSRCNEPVI 211 (226)
Q Consensus 200 ~~~CP~Cr~~~~ 211 (226)
...||+|+.|+.
T Consensus 12 ~KICpvCqRPFs 23 (54)
T COG4338 12 DKICPVCQRPFS 23 (54)
T ss_pred hhhhhhhcCchH
Confidence 457888888775
No 205
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=28.72 E-value=7.7 Score=22.27 Aligned_cols=13 Identities=23% Similarity=0.600 Sum_probs=9.3
Q ss_pred CCCCCCCCccccc
Q 027227 200 SFRCSRCNEPVIA 212 (226)
Q Consensus 200 ~~~CP~Cr~~~~~ 212 (226)
...||+|+.+-..
T Consensus 18 p~~CP~Cg~~~~~ 30 (34)
T cd00729 18 PEKCPICGAPKEK 30 (34)
T ss_pred CCcCcCCCCchHH
Confidence 3589999886543
No 206
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=28.68 E-value=40 Score=22.42 Aligned_cols=25 Identities=16% Similarity=0.256 Sum_probs=15.0
Q ss_pred CCCCCCCCccccccccccc---cCCCCC
Q 027227 200 SFRCSRCNEPVIAMQRHGV---INPKIS 224 (226)
Q Consensus 200 ~~~CP~Cr~~~~~~~~~~~---~~~~~~ 224 (226)
...||.|+....+-+..|+ .+|..|
T Consensus 17 ~~~Cp~Cgs~~~S~~w~G~v~i~dPe~S 44 (64)
T PRK06393 17 EKTCPVHGDEKTTTEWFGFLIITEPEGS 44 (64)
T ss_pred CCcCCCCCCCcCCcCcceEEEEECCchh
Confidence 3489999987654444443 255543
No 207
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=28.64 E-value=29 Score=18.59 Aligned_cols=10 Identities=30% Similarity=0.684 Sum_probs=7.7
Q ss_pred CCCCCCcccc
Q 027227 202 RCSRCNEPVI 211 (226)
Q Consensus 202 ~CP~Cr~~~~ 211 (226)
.||+|.+.+.
T Consensus 3 ~CPiC~~~v~ 12 (26)
T smart00734 3 QCPVCFREVP 12 (26)
T ss_pred cCCCCcCccc
Confidence 5999988763
No 208
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=28.60 E-value=52 Score=26.40 Aligned_cols=37 Identities=24% Similarity=0.469 Sum_probs=23.5
Q ss_pred CcCcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccccc
Q 027227 160 EEDVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIAMQ 214 (226)
Q Consensus 160 ~~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~~~ 214 (226)
......||.|...++.- +.+. ..+.||.|+.++...+
T Consensus 114 ~~~~Y~Cp~C~~rytf~----------------eA~~--~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 114 NNMFFFCPNCHIRFTFD----------------EAME--YGFRCPQCGEMLEEYD 150 (178)
T ss_pred CCCEEECCCCCcEEeHH----------------HHhh--cCCcCCCCCCCCeecc
Confidence 34568899887544321 1222 3689999999886543
No 209
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=27.97 E-value=18 Score=26.93 Aligned_cols=11 Identities=18% Similarity=0.618 Sum_probs=7.8
Q ss_pred CCCCCCCcccc
Q 027227 201 FRCSRCNEPVI 211 (226)
Q Consensus 201 ~~CP~Cr~~~~ 211 (226)
..||.|+.+..
T Consensus 89 ~~CP~Cgs~~~ 99 (117)
T PRK00564 89 GVCEKCHSKNV 99 (117)
T ss_pred CcCcCCCCCce
Confidence 35999987643
No 210
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=27.82 E-value=38 Score=18.78 Aligned_cols=36 Identities=22% Similarity=0.614 Sum_probs=18.4
Q ss_pred cccccCCCCCCC-CeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 165 TCPICQASPTTP-FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 165 ~C~iC~~~~~~p-~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
.|..|.+.+... .....=+..|...| +.|..|+.++
T Consensus 1 ~C~~C~~~i~~~~~~~~~~~~~~H~~C----------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELVLRALGKVWHPEC----------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEEEEeCCccccccC----------CCCcccCCcC
Confidence 377777765542 12222334444444 3577776654
No 211
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=27.78 E-value=33 Score=28.90 Aligned_cols=44 Identities=20% Similarity=0.359 Sum_probs=35.4
Q ss_pred CcccccccCCCCCCCCeecCCCCcccHHHHHHHHhcCCCCCCCC
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSR 205 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~ 205 (226)
-+.+|||-.....-|.....|.|.|=.+-|...++-.....||.
T Consensus 188 ~~nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 188 LSNRCPITLNPDFYPILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred hcccCCcccCcchhHHHHhhhcccccHHHHHHHhcCCceeecch
Confidence 36899998888888866688999999999998886444566775
No 212
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=27.61 E-value=39 Score=20.54 Aligned_cols=25 Identities=24% Similarity=0.599 Sum_probs=17.1
Q ss_pred cccccCCCCCCCCeecCCCCcccHHH
Q 027227 165 TCPICQASPTTPFLALPCQHRYCYYC 190 (226)
Q Consensus 165 ~C~iC~~~~~~p~~~~~CgH~fC~~C 190 (226)
+|..|.... +-++.+.|++++|..-
T Consensus 1 ~C~~C~~~~-~l~~CL~C~~~~c~~~ 25 (50)
T smart00290 1 RCSVCGTIE-NLWLCLTCGQVGCGRY 25 (50)
T ss_pred CcccCCCcC-CeEEecCCCCcccCCC
Confidence 477777544 3446788999999543
No 213
>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=27.44 E-value=39 Score=24.89 Aligned_cols=11 Identities=18% Similarity=0.679 Sum_probs=6.6
Q ss_pred CCCCCCCcccc
Q 027227 201 FRCSRCNEPVI 211 (226)
Q Consensus 201 ~~CP~Cr~~~~ 211 (226)
..||.|+..+.
T Consensus 27 ivCP~CG~~~~ 37 (108)
T PF09538_consen 27 IVCPKCGTEFP 37 (108)
T ss_pred ccCCCCCCccC
Confidence 45677766554
No 214
>PRK12496 hypothetical protein; Provisional
Probab=27.43 E-value=17 Score=28.73 Aligned_cols=11 Identities=36% Similarity=0.721 Sum_probs=8.4
Q ss_pred CCCCCCCcccc
Q 027227 201 FRCSRCNEPVI 211 (226)
Q Consensus 201 ~~CP~Cr~~~~ 211 (226)
..||.|+.++.
T Consensus 144 ~~C~~CG~~~~ 154 (164)
T PRK12496 144 DVCEICGSPVK 154 (164)
T ss_pred CcCCCCCChhh
Confidence 36999988775
No 215
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=27.43 E-value=23 Score=33.20 Aligned_cols=32 Identities=25% Similarity=0.479 Sum_probs=21.4
Q ss_pred cCcccccccCCCCC---CCCeecCCCCcccHHHHH
Q 027227 161 EDVTTCPICQASPT---TPFLALPCQHRYCYYCLR 192 (226)
Q Consensus 161 ~~~~~C~iC~~~~~---~p~~~~~CgH~fC~~Ci~ 192 (226)
++...|..|.-.+. ..+....||.+||..|-.
T Consensus 899 ~~a~~cmacq~pf~afrrrhhcrncggifcg~cs~ 933 (990)
T KOG1819|consen 899 EDAEQCMACQMPFNAFRRRHHCRNCGGIFCGKCSC 933 (990)
T ss_pred CcchhhhhccCcHHHHHHhhhhcccCceeeccccc
Confidence 34567777775432 223467899999999864
No 216
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=27.12 E-value=64 Score=31.38 Aligned_cols=14 Identities=14% Similarity=0.494 Sum_probs=9.2
Q ss_pred CCCCCCCCcccccc
Q 027227 200 SFRCSRCNEPVIAM 213 (226)
Q Consensus 200 ~~~CP~Cr~~~~~~ 213 (226)
..-||.|+.++...
T Consensus 41 ~~fC~~CG~~~~~~ 54 (645)
T PRK14559 41 EAHCPNCGAETGTI 54 (645)
T ss_pred cccccccCCcccch
Confidence 34588887776553
No 217
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=26.70 E-value=28 Score=21.85 Aligned_cols=16 Identities=19% Similarity=0.684 Sum_probs=11.3
Q ss_pred CCCCCCCCCccccccc
Q 027227 199 PSFRCSRCNEPVIAMQ 214 (226)
Q Consensus 199 ~~~~CP~Cr~~~~~~~ 214 (226)
....||.|+..+---.
T Consensus 23 ~~irCp~Cg~rIl~K~ 38 (49)
T COG1996 23 RGIRCPYCGSRILVKE 38 (49)
T ss_pred CceeCCCCCcEEEEec
Confidence 4578999998775433
No 218
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=26.52 E-value=15 Score=27.32 Aligned_cols=10 Identities=30% Similarity=0.923 Sum_probs=7.4
Q ss_pred CCCCCCCccc
Q 027227 201 FRCSRCNEPV 210 (226)
Q Consensus 201 ~~CP~Cr~~~ 210 (226)
..||.|+..-
T Consensus 88 ~~CP~Cgs~~ 97 (114)
T PRK03681 88 RRCPQCHGDM 97 (114)
T ss_pred CcCcCcCCCC
Confidence 5699998653
No 219
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=26.50 E-value=16 Score=31.58 Aligned_cols=8 Identities=25% Similarity=0.675 Sum_probs=4.9
Q ss_pred ccccccCC
Q 027227 164 TTCPICQA 171 (226)
Q Consensus 164 ~~C~iC~~ 171 (226)
..|+-|..
T Consensus 112 RFCg~CG~ 119 (279)
T COG2816 112 RFCGRCGT 119 (279)
T ss_pred cCCCCCCC
Confidence 45776664
No 220
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=26.14 E-value=38 Score=26.02 Aligned_cols=10 Identities=20% Similarity=0.737 Sum_probs=6.5
Q ss_pred CCCCCCCccc
Q 027227 201 FRCSRCNEPV 210 (226)
Q Consensus 201 ~~CP~Cr~~~ 210 (226)
..||.|+.+.
T Consensus 44 ~~Cp~C~~~~ 53 (140)
T COG1545 44 AYCPKCGSET 53 (140)
T ss_pred ccCCCCCCCC
Confidence 3577777664
No 221
>PRK01343 zinc-binding protein; Provisional
Probab=26.07 E-value=42 Score=21.79 Aligned_cols=12 Identities=25% Similarity=0.800 Sum_probs=8.4
Q ss_pred CCCCCCCCcccc
Q 027227 200 SFRCSRCNEPVI 211 (226)
Q Consensus 200 ~~~CP~Cr~~~~ 211 (226)
...||.|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 456888887754
No 222
>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=25.99 E-value=18 Score=22.95 Aligned_cols=31 Identities=19% Similarity=0.577 Sum_probs=16.1
Q ss_pred ccccc--cCCCCC-----CC--CeecCCCCcccHHHHHHH
Q 027227 164 TTCPI--CQASPT-----TP--FLALPCQHRYCYYCLRTR 194 (226)
Q Consensus 164 ~~C~i--C~~~~~-----~p--~~~~~CgH~fC~~Ci~~~ 194 (226)
..||- |...+. +. +.-..|++.||+.|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 47766 764332 11 233459999999997554
No 223
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.86 E-value=38 Score=28.97 Aligned_cols=53 Identities=21% Similarity=0.333 Sum_probs=34.3
Q ss_pred CCcCcccccccCCC--------CCCCCeecCCCCcccHHHHHHHHhcCC------CCCCCCCCcccc
Q 027227 159 SEEDVTTCPICQAS--------PTTPFLALPCQHRYCYYCLRTRCAASP------SFRCSRCNEPVI 211 (226)
Q Consensus 159 ~~~~~~~C~iC~~~--------~~~p~~~~~CgH~fC~~Ci~~~~~~~~------~~~CP~Cr~~~~ 211 (226)
..+.+..|-||... +.+|.....-.|--...|+..|+.+++ .-.||.|+....
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 34677889999742 334432222234467899999987642 356999987653
No 224
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=25.41 E-value=45 Score=30.58 Aligned_cols=46 Identities=28% Similarity=0.625 Sum_probs=33.8
Q ss_pred CcccccccCCCCC-CCCeecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 162 DVTTCPICQASPT-TPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 162 ~~~~C~iC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
.-++|.+|.+-+. .|++...=+.++|-.|..+.+. ..|-+|..+|.
T Consensus 359 ~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfA----PrCs~C~~PI~ 405 (468)
T KOG1701|consen 359 GCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFA----PRCSVCGNPIL 405 (468)
T ss_pred CceEEEEeccccCCccccccCCCceeeehhhhhhcC----cchhhccCCcc
Confidence 3577888876543 6665566778899999877663 57999998885
No 225
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=25.17 E-value=24 Score=26.02 Aligned_cols=29 Identities=21% Similarity=0.404 Sum_probs=22.3
Q ss_pred cCcccccccCCCCCCCCeecCCCCcccHHHHH
Q 027227 161 EDVTTCPICQASPTTPFLALPCQHRYCYYCLR 192 (226)
Q Consensus 161 ~~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~ 192 (226)
.....|+-|.....-+ .+|++.+|..|-.
T Consensus 40 ~~~~~C~~Cg~~~~~~---~SCk~R~CP~C~~ 68 (111)
T PF14319_consen 40 FHRYRCEDCGHEKIVY---NSCKNRHCPSCQA 68 (111)
T ss_pred cceeecCCCCceEEec---CcccCcCCCCCCC
Confidence 3457899999877655 5899999988864
No 226
>COG1885 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.04 E-value=41 Score=24.63 Aligned_cols=12 Identities=42% Similarity=0.969 Sum_probs=7.4
Q ss_pred CCCCCCCCcccc
Q 027227 200 SFRCSRCNEPVI 211 (226)
Q Consensus 200 ~~~CP~Cr~~~~ 211 (226)
...||.|+.++.
T Consensus 49 ~t~CP~Cg~~~e 60 (115)
T COG1885 49 STSCPKCGEPFE 60 (115)
T ss_pred cccCCCCCCccc
Confidence 345777766654
No 227
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=24.70 E-value=14 Score=18.16 Aligned_cols=11 Identities=18% Similarity=0.706 Sum_probs=5.4
Q ss_pred CCCCCCccccc
Q 027227 202 RCSRCNEPVIA 212 (226)
Q Consensus 202 ~CP~Cr~~~~~ 212 (226)
.||.|+..+..
T Consensus 2 ~C~~C~~~~~~ 12 (24)
T PF13894_consen 2 QCPICGKSFRS 12 (24)
T ss_dssp E-SSTS-EESS
T ss_pred CCcCCCCcCCc
Confidence 47777666554
No 228
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=24.64 E-value=43 Score=25.61 Aligned_cols=29 Identities=14% Similarity=0.238 Sum_probs=15.7
Q ss_pred CCeecCCCCcccHHHHHHHHhcCCCCCCCCCCccc
Q 027227 176 PFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 210 (226)
Q Consensus 176 p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~ 210 (226)
|+..+.||++|=--=. . + ...||.|+-.-
T Consensus 1 PH~Ct~Cg~~f~dgs~-e-i----l~GCP~CGg~k 29 (131)
T PF09845_consen 1 PHQCTKCGRVFEDGSK-E-I----LSGCPECGGNK 29 (131)
T ss_pred CcccCcCCCCcCCCcH-H-H----HccCcccCCcc
Confidence 4556777777642111 1 1 23699997543
No 229
>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=24.59 E-value=33 Score=18.19 Aligned_cols=9 Identities=33% Similarity=0.988 Sum_probs=6.4
Q ss_pred CCCCCCCCc
Q 027227 200 SFRCSRCNE 208 (226)
Q Consensus 200 ~~~CP~Cr~ 208 (226)
.+.||.|+.
T Consensus 16 ~f~CPnCG~ 24 (24)
T PF07754_consen 16 PFPCPNCGF 24 (24)
T ss_pred eEeCCCCCC
Confidence 567888863
No 230
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=24.42 E-value=6 Score=29.30 Aligned_cols=10 Identities=50% Similarity=1.338 Sum_probs=6.3
Q ss_pred CCCCCCCccc
Q 027227 201 FRCSRCNEPV 210 (226)
Q Consensus 201 ~~CP~Cr~~~ 210 (226)
..||.|+..-
T Consensus 87 ~~CP~Cgs~~ 96 (113)
T PF01155_consen 87 FSCPRCGSPD 96 (113)
T ss_dssp HH-SSSSSS-
T ss_pred CCCcCCcCCC
Confidence 4699998764
No 231
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=24.31 E-value=33 Score=32.80 Aligned_cols=41 Identities=32% Similarity=0.644 Sum_probs=25.1
Q ss_pred CcccccccCC-CCCCCC------eecCCCCcccHHHHHHHHhcCCCCCCCCCC
Q 027227 162 DVTTCPICQA-SPTTPF------LALPCQHRYCYYCLRTRCAASPSFRCSRCN 207 (226)
Q Consensus 162 ~~~~C~iC~~-~~~~p~------~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr 207 (226)
....|.+|.. .+.=|+ ....||++|...|... ....||.|-
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r-----~s~~CPrC~ 557 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR-----KSPCCPRCE 557 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc-----cCCCCCchH
Confidence 3467778852 222232 3356888888888753 234599993
No 232
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=24.10 E-value=24 Score=31.84 Aligned_cols=12 Identities=17% Similarity=0.578 Sum_probs=9.2
Q ss_pred CCCCCCCCccccc
Q 027227 200 SFRCSRCNEPVIA 212 (226)
Q Consensus 200 ~~~CP~Cr~~~~~ 212 (226)
...|| |+.++..
T Consensus 259 ~~~Cp-CG~~i~~ 270 (374)
T TIGR00375 259 CANCP-CGGRIKK 270 (374)
T ss_pred CCCCC-CCCccee
Confidence 47899 9998753
No 233
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=24.09 E-value=48 Score=32.78 Aligned_cols=41 Identities=17% Similarity=0.376 Sum_probs=27.7
Q ss_pred cccccccCCCCC-CCCeecCCCCcccHHHHHHHHhcCCCCCCCC
Q 027227 163 VTTCPICQASPT-TPFLALPCQHRYCYYCLRTRCAASPSFRCSR 205 (226)
Q Consensus 163 ~~~C~iC~~~~~-~p~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~ 205 (226)
...|.+|.-... ...+...|||+..-.|..+|++.++ .||.
T Consensus 1028 ~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~gd--~Cps 1069 (1081)
T KOG0309|consen 1028 TFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTGD--VCPS 1069 (1081)
T ss_pred eeeeeeEeeEeeccchhhccccccccHHHHHHHHhcCC--cCCC
Confidence 355666653222 2224567999999999999998754 6763
No 234
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=23.82 E-value=55 Score=21.55 Aligned_cols=18 Identities=17% Similarity=0.394 Sum_probs=12.1
Q ss_pred CCCCCCCccccccccccc
Q 027227 201 FRCSRCNEPVIAMQRHGV 218 (226)
Q Consensus 201 ~~CP~Cr~~~~~~~~~~~ 218 (226)
..||.|+.....-++.|.
T Consensus 16 ~~CP~Cgs~~~T~~W~G~ 33 (61)
T PRK08351 16 DRCPVCGSRDLSDEWFDL 33 (61)
T ss_pred CcCCCCcCCccccccccE
Confidence 369999887655555553
No 235
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=23.74 E-value=26 Score=34.47 Aligned_cols=24 Identities=21% Similarity=0.527 Sum_probs=16.8
Q ss_pred CCcccHHHHHHHHhcCCCCCCCCCCcc
Q 027227 183 QHRYCYYCLRTRCAASPSFRCSRCNEP 209 (226)
Q Consensus 183 gH~fC~~Ci~~~~~~~~~~~CP~Cr~~ 209 (226)
+...|.+|-.. +.....||.|+..
T Consensus 461 ~~L~CH~Cg~~---~~~p~~Cp~Cgs~ 484 (730)
T COG1198 461 GQLRCHYCGYQ---EPIPQSCPECGSE 484 (730)
T ss_pred CeeEeCCCCCC---CCCCCCCCCCCCC
Confidence 55678888543 2235789999987
No 236
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=23.71 E-value=39 Score=21.25 Aligned_cols=13 Identities=15% Similarity=0.414 Sum_probs=8.9
Q ss_pred CCCCCCCCCcccc
Q 027227 199 PSFRCSRCNEPVI 211 (226)
Q Consensus 199 ~~~~CP~Cr~~~~ 211 (226)
..+.||+|+.+-.
T Consensus 33 ~~w~CP~C~a~K~ 45 (50)
T cd00730 33 DDWVCPVCGAGKD 45 (50)
T ss_pred CCCCCCCCCCcHH
Confidence 3678888876543
No 237
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=23.47 E-value=15 Score=27.49 Aligned_cols=13 Identities=23% Similarity=0.882 Sum_probs=8.6
Q ss_pred CCCCCCCCccccc
Q 027227 200 SFRCSRCNEPVIA 212 (226)
Q Consensus 200 ~~~CP~Cr~~~~~ 212 (226)
...||.|+..-..
T Consensus 86 ~~~CP~C~s~~~~ 98 (115)
T COG0375 86 DYRCPKCGSINLR 98 (115)
T ss_pred eeECCCCCCCceE
Confidence 3459999865543
No 238
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=23.46 E-value=44 Score=20.73 Aligned_cols=11 Identities=27% Similarity=0.933 Sum_probs=6.4
Q ss_pred CCCCCCCCCcc
Q 027227 199 PSFRCSRCNEP 209 (226)
Q Consensus 199 ~~~~CP~Cr~~ 209 (226)
+.+.||+|+.+
T Consensus 33 ~~w~CP~C~a~ 43 (47)
T PF00301_consen 33 DDWVCPVCGAP 43 (47)
T ss_dssp TT-B-TTTSSB
T ss_pred CCCcCcCCCCc
Confidence 36788888764
No 239
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=23.44 E-value=49 Score=21.60 Aligned_cols=14 Identities=21% Similarity=0.655 Sum_probs=10.6
Q ss_pred CCCCCCCCCccccc
Q 027227 199 PSFRCSRCNEPVIA 212 (226)
Q Consensus 199 ~~~~CP~Cr~~~~~ 212 (226)
+...|++|++++..
T Consensus 7 PH~HC~VCg~aIp~ 20 (64)
T COG4068 7 PHRHCVVCGKAIPP 20 (64)
T ss_pred CCccccccCCcCCC
Confidence 35679999988873
No 240
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 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. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=23.43 E-value=16 Score=23.22 Aligned_cols=11 Identities=18% Similarity=0.540 Sum_probs=3.8
Q ss_pred CCCCCCCcccc
Q 027227 201 FRCSRCNEPVI 211 (226)
Q Consensus 201 ~~CP~Cr~~~~ 211 (226)
..||.|+..+.
T Consensus 25 atCP~C~a~~~ 35 (54)
T PF09237_consen 25 ATCPICGAVIR 35 (54)
T ss_dssp EE-TTT--EES
T ss_pred CCCCcchhhcc
Confidence 34555554443
No 241
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=23.32 E-value=38 Score=21.70 Aligned_cols=11 Identities=27% Similarity=0.933 Sum_probs=8.1
Q ss_pred CCCCCCCcccc
Q 027227 201 FRCSRCNEPVI 211 (226)
Q Consensus 201 ~~CP~Cr~~~~ 211 (226)
+.||.|++.+.
T Consensus 3 ~~CP~CG~~ie 13 (54)
T TIGR01206 3 FECPDCGAEIE 13 (54)
T ss_pred cCCCCCCCEEe
Confidence 47888887664
No 242
>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=23.19 E-value=67 Score=28.48 Aligned_cols=56 Identities=16% Similarity=0.460 Sum_probs=34.9
Q ss_pred cCcccccccCCCCC----------CCCeecCCCCcccHHHHHHHHhc-----CCCCCCCCCCcccccccccccc
Q 027227 161 EDVTTCPICQASPT----------TPFLALPCQHRYCYYCLRTRCAA-----SPSFRCSRCNEPVIAMQRHGVI 219 (226)
Q Consensus 161 ~~~~~C~iC~~~~~----------~p~~~~~CgH~fC~~Ci~~~~~~-----~~~~~CP~Cr~~~~~~~~~~~~ 219 (226)
...+.|..|....+ .|+.+..|+ =.+|+.+..+. ++.+.||.|+..-.+-++..+.
T Consensus 233 ~srlqC~~C~~TStT~a~fs~l~vp~~~v~~~~---l~eC~~~f~~~e~L~g~d~W~CpkC~~k~ss~K~~~I~ 303 (415)
T COG5533 233 KSRLQCEACNYTSTTIAMFSTLLVPPYEVVQLG---LQECIDRFYEEEKLEGKDAWRCPKCGRKESSRKRMEIL 303 (415)
T ss_pred hhhhhhhhcCCceeEEeccceeeeccchheeec---HHHHHHHhhhHHhhcCcccccCchhcccccchheEEEE
Confidence 34688999975332 222344566 47888766543 3579999998766554444443
No 243
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.07 E-value=43 Score=23.90 Aligned_cols=13 Identities=23% Similarity=0.654 Sum_probs=11.1
Q ss_pred cccHHHHHHHHhc
Q 027227 185 RYCYYCLRTRCAA 197 (226)
Q Consensus 185 ~fC~~Ci~~~~~~ 197 (226)
-||..|+..|..+
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999865
No 244
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=23.01 E-value=24 Score=28.15 Aligned_cols=14 Identities=21% Similarity=0.484 Sum_probs=10.0
Q ss_pred CCCCCCCCcccccc
Q 027227 200 SFRCSRCNEPVIAM 213 (226)
Q Consensus 200 ~~~CP~Cr~~~~~~ 213 (226)
...||+|+.+-...
T Consensus 149 P~~CPiCga~k~~F 162 (166)
T COG1592 149 PEVCPICGAPKEKF 162 (166)
T ss_pred CCcCCCCCChHHHh
Confidence 46799999765443
No 245
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=22.74 E-value=48 Score=17.43 Aligned_cols=11 Identities=18% Similarity=0.537 Sum_probs=8.7
Q ss_pred CCCCCCCcccc
Q 027227 201 FRCSRCNEPVI 211 (226)
Q Consensus 201 ~~CP~Cr~~~~ 211 (226)
..||.|+..+.
T Consensus 3 ~~C~~CgR~F~ 13 (25)
T PF13913_consen 3 VPCPICGRKFN 13 (25)
T ss_pred CcCCCCCCEEC
Confidence 46999998875
No 246
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=22.57 E-value=82 Score=25.74 Aligned_cols=39 Identities=26% Similarity=0.674 Sum_probs=25.6
Q ss_pred cccccccCC-CCCCCC------eecCCCCcccHHHHHHHHhcCCCCCCCCCCc
Q 027227 163 VTTCPICQA-SPTTPF------LALPCQHRYCYYCLRTRCAASPSFRCSRCNE 208 (226)
Q Consensus 163 ~~~C~iC~~-~~~~p~------~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~ 208 (226)
...|-+|.+ .+.-|+ ....|+.+|-..|.. ...||.|..
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-------~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-------KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-------CCCCCCcHh
Confidence 468999974 333332 235688888888874 146999954
No 247
>PLN02294 cytochrome c oxidase subunit Vb
Probab=22.35 E-value=40 Score=26.96 Aligned_cols=25 Identities=24% Similarity=0.469 Sum_probs=18.5
Q ss_pred cCCCCCCCCCCccccccccccccCCC
Q 027227 197 ASPSFRCSRCNEPVIAMQRHGVINPK 222 (226)
Q Consensus 197 ~~~~~~CP~Cr~~~~~~~~~~~~~~~ 222 (226)
++....||.|+..+. ++.+|..+|.
T Consensus 138 kGkp~RCpeCG~~fk-L~~vG~~~~~ 162 (174)
T PLN02294 138 KGKSFECPVCTQYFE-LEVVGPGGPP 162 (174)
T ss_pred CCCceeCCCCCCEEE-EEEeCCCCCC
Confidence 344678999999887 7777776554
No 248
>PF00412 LIM: LIM domain; InterPro: IPR001781 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 LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=22.32 E-value=78 Score=19.52 Aligned_cols=32 Identities=16% Similarity=0.339 Sum_probs=20.6
Q ss_pred CcccccccCCCCCCCCeecCCCCcccHHHHHH
Q 027227 162 DVTTCPICQASPTTPFLALPCQHRYCYYCLRT 193 (226)
Q Consensus 162 ~~~~C~iC~~~~~~p~~~~~CgH~fC~~Ci~~ 193 (226)
+=..|..|...+........=|..||..|..+
T Consensus 25 ~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp TTSBETTTTCBTTTSSEEEETTEEEEHHHHHH
T ss_pred cccccCCCCCccCCCeeEeECCEEECHHHHhh
Confidence 34678888777665523445567788887654
No 249
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=22.31 E-value=41 Score=31.48 Aligned_cols=11 Identities=36% Similarity=0.981 Sum_probs=8.2
Q ss_pred CCCCCCCcccc
Q 027227 201 FRCSRCNEPVI 211 (226)
Q Consensus 201 ~~CP~Cr~~~~ 211 (226)
+.||.|..++.
T Consensus 53 f~CP~C~~~L~ 63 (483)
T PF05502_consen 53 FDCPICFSPLS 63 (483)
T ss_pred ccCCCCCCcce
Confidence 56888887765
No 250
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=22.31 E-value=1e+02 Score=24.23 Aligned_cols=33 Identities=15% Similarity=0.296 Sum_probs=20.1
Q ss_pred ecCCCCcccHHHHHHHHhcCCCCCCCCCCcccc
Q 027227 179 ALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVI 211 (226)
Q Consensus 179 ~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~ 211 (226)
...|++.+-..-+...........||.|+..+.
T Consensus 108 C~~C~~~~~~~~~~~~~~~~~~~~C~~C~~~lr 140 (178)
T PF02146_consen 108 CSKCGKEYDREDIVDSIDEEEPPRCPKCGGLLR 140 (178)
T ss_dssp ETTTSBEEEGHHHHHHHHTTSSCBCTTTSCBEE
T ss_pred ecCCCccccchhhcccccccccccccccCccCC
Confidence 344666555544444444444568999998664
No 251
>PHA00626 hypothetical protein
Probab=22.28 E-value=67 Score=20.83 Aligned_cols=12 Identities=17% Similarity=0.515 Sum_probs=6.5
Q ss_pred CCCCCCCCcccc
Q 027227 200 SFRCSRCNEPVI 211 (226)
Q Consensus 200 ~~~CP~Cr~~~~ 211 (226)
...||.|+..++
T Consensus 23 rYkCkdCGY~ft 34 (59)
T PHA00626 23 DYVCCDCGYNDS 34 (59)
T ss_pred ceEcCCCCCeec
Confidence 345666655544
No 252
>PRK04179 rpl37e 50S ribosomal protein L37e; Reviewed
Probab=22.16 E-value=26 Score=23.15 Aligned_cols=36 Identities=19% Similarity=0.300 Sum_probs=24.9
Q ss_pred CCcccHHHHHHHHhcCCCCCCCCCCc-ccccccccccc
Q 027227 183 QHRYCYYCLRTRCAASPSFRCSRCNE-PVIAMQRHGVI 219 (226)
Q Consensus 183 gH~fC~~Ci~~~~~~~~~~~CP~Cr~-~~~~~~~~~~~ 219 (226)
.|+.|..|=...... +...|..|+. +...++..++.
T Consensus 16 tHt~CrRCG~~syh~-qK~~CasCGygps~k~R~YnWs 52 (62)
T PRK04179 16 THIRCRRCGRHSYNV-RKKYCAACGFGRSKRIRRYSWQ 52 (62)
T ss_pred ccchhcccCcccccc-cccchhhcCCCcccccccccHH
Confidence 577788886655433 3568999998 77777766654
No 253
>PF14369 zf-RING_3: zinc-finger
Probab=22.11 E-value=20 Score=20.75 Aligned_cols=26 Identities=23% Similarity=0.566 Sum_probs=14.0
Q ss_pred cccHHHHHHHHh---cCCCCCCCCCCccc
Q 027227 185 RYCYYCLRTRCA---ASPSFRCSRCNEPV 210 (226)
Q Consensus 185 ~fC~~Ci~~~~~---~~~~~~CP~Cr~~~ 210 (226)
-+|+.|-..... ..+...||.|+..+
T Consensus 3 ywCh~C~~~V~~~~~~~~~~~CP~C~~gF 31 (35)
T PF14369_consen 3 YWCHQCNRFVRIAPSPDSDVACPRCHGGF 31 (35)
T ss_pred EeCccCCCEeEeCcCCCCCcCCcCCCCcE
Confidence 367777533221 11233499998654
No 254
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=21.56 E-value=67 Score=28.60 Aligned_cols=47 Identities=21% Similarity=0.426 Sum_probs=26.8
Q ss_pred ccccccCCCCCCCCeecCCCC-cccHHHHHHHHhc---CCCCCCCCCCccccc
Q 027227 164 TTCPICQASPTTPFLALPCQH-RYCYYCLRTRCAA---SPSFRCSRCNEPVIA 212 (226)
Q Consensus 164 ~~C~iC~~~~~~p~~~~~CgH-~fC~~Ci~~~~~~---~~~~~CP~Cr~~~~~ 212 (226)
..|.|-...--+| .. .--| .-|..|-..+--+ ...+.||.|+..+..
T Consensus 227 ~g~~ivaNyGLdP-~L-GKY~~TAC~rC~t~y~le~A~~~~wrCpkCGg~ikK 277 (403)
T COG1379 227 DGCKIVANYGLDP-RL-GKYHLTACSRCYTRYSLEEAKSLRWRCPKCGGKIKK 277 (403)
T ss_pred CCceEEEecCcCc-cc-cchhHHHHHHhhhccCcchhhhhcccCcccccchhh
Confidence 3566666665666 22 2222 3577776433221 135889999987654
No 255
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.49 E-value=24 Score=32.59 Aligned_cols=47 Identities=19% Similarity=0.480 Sum_probs=32.6
Q ss_pred CcCccccccc-CCCCCCCCee-cCCCCcccHHHHHHHHhcCCCCCCCCC
Q 027227 160 EEDVTTCPIC-QASPTTPFLA-LPCQHRYCYYCLRTRCAASPSFRCSRC 206 (226)
Q Consensus 160 ~~~~~~C~iC-~~~~~~p~~~-~~CgH~fC~~Ci~~~~~~~~~~~CP~C 206 (226)
..++..|++| .+.+...+.. -.|...||-.||.+.+.++....|+.|
T Consensus 216 ~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l~~~~~~~c~~~ 264 (448)
T KOG0314|consen 216 LPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDALISKSMCVCGAS 264 (448)
T ss_pred CCccccCceecchhhHHHHHhhhhhcccCCccccccccccccCCcchhh
Confidence 3577899999 5656655433 468899999999988865443444444
No 256
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.48 E-value=46 Score=22.14 Aligned_cols=13 Identities=31% Similarity=0.922 Sum_probs=10.3
Q ss_pred CCCCCCCCccccc
Q 027227 200 SFRCSRCNEPVIA 212 (226)
Q Consensus 200 ~~~CP~Cr~~~~~ 212 (226)
.-.||.|++++..
T Consensus 7 ~v~CP~Cgkpv~w 19 (65)
T COG3024 7 TVPCPTCGKPVVW 19 (65)
T ss_pred cccCCCCCCcccc
Confidence 3479999998864
No 257
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=21.29 E-value=1.6e+02 Score=25.33 Aligned_cols=20 Identities=15% Similarity=0.142 Sum_probs=13.9
Q ss_pred HHHHHHHHHhhcCCcCcHHH
Q 027227 77 ASFGNLLIFLYTGRYRNLIE 96 (226)
Q Consensus 77 ~~l~~~l~Fl~~g~y~sl~~ 96 (226)
..++.++..+.+|.|..+.+
T Consensus 188 s~fLqQa~d~T~G~y~~~~~ 207 (276)
T PF03850_consen 188 STFLQQASDITGGIYLKVSK 207 (276)
T ss_pred hHHHHHHHHHhCceeeccCc
Confidence 45666777777888876655
No 258
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.92 E-value=59 Score=22.43 Aligned_cols=39 Identities=15% Similarity=0.467 Sum_probs=23.8
Q ss_pred CeecCCCCcccHHHHHHHHhcCCCCCCCCCCccccc-cccccc
Q 027227 177 FLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPVIA-MQRHGV 218 (226)
Q Consensus 177 ~~~~~CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~~~~-~~~~~~ 218 (226)
|..+.|||.|= +.+.+..++.-.||.|+.++.. +.+.|+
T Consensus 13 Y~c~~cg~~~d---vvq~~~ddplt~ce~c~a~~kk~l~~vgi 52 (82)
T COG2331 13 YECTECGNRFD---VVQAMTDDPLTTCEECGARLKKLLNAVGI 52 (82)
T ss_pred EeecccchHHH---HHHhcccCccccChhhChHHHHhhccceE
Confidence 45567887542 3444555566789999987753 334443
No 259
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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 C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=20.79 E-value=24 Score=17.58 Aligned_cols=11 Identities=18% Similarity=0.761 Sum_probs=7.7
Q ss_pred CCCCCCccccc
Q 027227 202 RCSRCNEPVIA 212 (226)
Q Consensus 202 ~CP~Cr~~~~~ 212 (226)
.||.|++.+..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 47888777654
No 260
>PF15200 KRTDAP: Keratinocyte differentiation-associated
Probab=20.70 E-value=92 Score=21.17 Aligned_cols=22 Identities=27% Similarity=0.461 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHhhcccchhhh
Q 027227 124 VWNEFSEMLLLLLPLLNSSTVK 145 (226)
Q Consensus 124 ~~~~~~e~l~~~lp~~~~~~~~ 145 (226)
-||++.|.+.--+|++|+..+-
T Consensus 43 NWHalfe~iK~kLPFlNWdafP 64 (77)
T PF15200_consen 43 NWHALFEAIKRKLPFLNWDAFP 64 (77)
T ss_pred hHHHHHHHHHHhCcccchhhhh
Confidence 4999999999999999986543
No 261
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.51 E-value=34 Score=29.43 Aligned_cols=45 Identities=27% Similarity=0.572 Sum_probs=33.2
Q ss_pred cccccccCCC------CCCCCeecC--------CCCcccHHHHHHHHhcCCCCCCCCCCcc
Q 027227 163 VTTCPICQAS------PTTPFLALP--------CQHRYCYYCLRTRCAASPSFRCSRCNEP 209 (226)
Q Consensus 163 ~~~C~iC~~~------~~~p~~~~~--------CgH~fC~~Ci~~~~~~~~~~~CP~Cr~~ 209 (226)
...|.+|... ...| .... |||..|..|+..-+.... ..||.|+..
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p-~vl~~~~~~~~~c~htlc~~c~~~~l~~~~-~~cp~~~~~ 265 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAP-LVLSLSRLKEKIEGHTLCKECIDTILLQAG-IKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHhhccccccch-hHHHHHHHHHHHHHHHHHhcchHHHHHHhh-hcCCcccce
Confidence 3568888643 3356 4556 999999999998876544 789999863
No 262
>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=20.44 E-value=40 Score=20.20 Aligned_cols=22 Identities=23% Similarity=0.643 Sum_probs=11.4
Q ss_pred cCCCCCCCCeecCCCCcccHHH
Q 027227 169 CQASPTTPFLALPCQHRYCYYC 190 (226)
Q Consensus 169 C~~~~~~p~~~~~CgH~fC~~C 190 (226)
|......|+.-..|+..||..-
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~H 27 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLKH 27 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TTT
T ss_pred CcCccCCCeECCCCCcccCccc
Confidence 7665557755556888888743
No 263
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.09 E-value=45 Score=25.46 Aligned_cols=22 Identities=27% Similarity=0.617 Sum_probs=13.9
Q ss_pred ccCCCCCCCCeecCCCCcccHHH
Q 027227 168 ICQASPTTPFLALPCQHRYCYYC 190 (226)
Q Consensus 168 iC~~~~~~p~~~~~CgH~fC~~C 190 (226)
||++.-..- +.-.|||.||-+=
T Consensus 62 i~qs~~~rv-~rcecghsf~d~r 83 (165)
T COG4647 62 ICQSAQKRV-IRCECGHSFGDYR 83 (165)
T ss_pred EEecccccE-EEEeccccccChh
Confidence 455443332 4567999999753
No 264
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=20.06 E-value=53 Score=21.73 Aligned_cols=12 Identities=33% Similarity=0.971 Sum_probs=9.4
Q ss_pred CCCCCCCCcccc
Q 027227 200 SFRCSRCNEPVI 211 (226)
Q Consensus 200 ~~~CP~Cr~~~~ 211 (226)
...||.|++++.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 357999999874
Done!