Query 028186
Match_columns 212
No_of_seqs 231 out of 1973
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 07:36:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028186.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028186hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.7 1.1E-17 2.4E-22 104.9 2.5 44 158-201 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 5.5E-15 1.2E-19 129.0 4.8 52 158-209 230-282 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 1.4E-14 3.1E-19 100.5 4.1 46 156-201 18-73 (73)
4 PF12861 zf-Apc11: Anaphase-pr 99.4 3.3E-13 7.2E-18 95.1 3.7 53 156-208 20-85 (85)
5 COG5243 HRD1 HRD ubiquitin lig 99.4 3.8E-13 8.2E-18 117.0 3.6 54 155-208 285-348 (491)
6 PHA02929 N1R/p28-like protein; 99.4 4.5E-13 9.7E-18 112.2 3.6 50 156-205 173-227 (238)
7 PF13920 zf-C3HC4_3: Zinc fing 99.3 3.8E-12 8.3E-17 81.8 3.7 46 157-205 2-48 (50)
8 PF13923 zf-C3HC4_2: Zinc fing 99.3 3.2E-12 7E-17 77.9 3.0 39 160-200 1-39 (39)
9 COG5540 RING-finger-containing 99.3 2.5E-12 5.4E-17 109.3 3.1 49 157-205 323-372 (374)
10 cd00162 RING RING-finger (Real 99.2 7.8E-12 1.7E-16 77.1 3.8 44 159-204 1-45 (45)
11 KOG0320 Predicted E3 ubiquitin 99.2 1.8E-11 4E-16 96.9 6.5 54 155-209 129-182 (187)
12 PLN03208 E3 ubiquitin-protein 99.2 8.7E-12 1.9E-16 100.8 4.0 51 155-208 16-82 (193)
13 KOG0823 Predicted E3 ubiquitin 99.2 1.6E-11 3.5E-16 101.1 2.8 51 155-208 45-98 (230)
14 KOG0317 Predicted E3 ubiquitin 99.1 1.9E-11 4.1E-16 103.4 3.0 54 154-210 236-289 (293)
15 PF14634 zf-RING_5: zinc-RING 99.1 3.7E-11 8.1E-16 75.1 3.4 44 159-202 1-44 (44)
16 PHA02926 zinc finger-like prot 99.1 4.9E-11 1.1E-15 97.8 3.7 57 156-212 169-237 (242)
17 COG5194 APC11 Component of SCF 99.1 4.6E-11 9.9E-16 82.4 2.8 54 157-210 20-86 (88)
18 PF15227 zf-C3HC4_4: zinc fing 99.1 8.7E-11 1.9E-15 72.8 3.4 38 160-200 1-42 (42)
19 smart00504 Ubox Modified RING 99.0 2.4E-10 5.2E-15 76.4 4.2 48 158-208 2-49 (63)
20 PF00097 zf-C3HC4: Zinc finger 99.0 2.3E-10 4.9E-15 70.2 3.5 39 160-200 1-41 (41)
21 KOG0802 E3 ubiquitin ligase [P 99.0 1.3E-10 2.8E-15 108.6 2.2 49 156-204 290-340 (543)
22 smart00184 RING Ring finger. E 99.0 4.1E-10 8.9E-15 67.0 3.4 38 160-200 1-39 (39)
23 KOG1493 Anaphase-promoting com 98.9 1.6E-10 3.4E-15 79.2 -0.2 52 157-208 20-84 (84)
24 KOG2930 SCF ubiquitin ligase, 98.9 2E-10 4.3E-15 83.1 -0.6 69 140-208 28-111 (114)
25 TIGR00599 rad18 DNA repair pro 98.9 1.7E-09 3.7E-14 96.8 3.9 51 154-207 23-73 (397)
26 PF13445 zf-RING_UBOX: RING-ty 98.8 4E-09 8.7E-14 65.5 3.0 38 160-198 1-43 (43)
27 smart00744 RINGv The RING-vari 98.7 2.3E-08 5.1E-13 63.9 3.4 42 159-201 1-49 (49)
28 COG5574 PEX10 RING-finger-cont 98.6 1.8E-08 3.9E-13 84.5 2.4 51 155-208 213-265 (271)
29 PF11793 FANCL_C: FANCL C-term 98.6 8.5E-09 1.8E-13 70.9 -0.2 51 157-207 2-68 (70)
30 KOG2164 Predicted E3 ubiquitin 98.5 3.7E-08 8E-13 89.4 2.8 49 157-208 186-239 (513)
31 PF04564 U-box: U-box domain; 98.5 1.1E-07 2.3E-12 65.8 2.6 50 156-208 3-53 (73)
32 KOG0828 Predicted E3 ubiquitin 98.4 7.2E-08 1.6E-12 87.0 1.7 51 155-205 569-634 (636)
33 KOG1734 Predicted RING-contain 98.4 7.7E-08 1.7E-12 81.0 0.7 52 155-206 222-282 (328)
34 KOG0804 Cytoplasmic Zn-finger 98.3 1.6E-07 3.6E-12 83.9 1.8 49 155-205 173-222 (493)
35 KOG0287 Postreplication repair 98.3 2.4E-07 5.2E-12 80.3 1.5 48 155-205 21-68 (442)
36 KOG1039 Predicted E3 ubiquitin 98.3 4.5E-07 9.7E-12 79.9 2.5 56 156-211 160-227 (344)
37 KOG2177 Predicted E3 ubiquitin 98.2 3.7E-07 8E-12 76.9 1.7 46 154-202 10-55 (386)
38 COG5219 Uncharacterized conser 98.2 7E-07 1.5E-11 86.0 2.2 52 155-206 1467-1524(1525)
39 COG5432 RAD18 RING-finger-cont 98.2 8.8E-07 1.9E-11 75.4 2.2 47 155-204 23-69 (391)
40 PF14835 zf-RING_6: zf-RING of 98.1 5.6E-07 1.2E-11 60.1 -0.2 50 155-208 5-54 (65)
41 KOG0311 Predicted E3 ubiquitin 98.1 4.2E-07 9E-12 79.2 -1.1 53 155-209 41-94 (381)
42 KOG0825 PHD Zn-finger protein 98.0 1.3E-06 2.9E-11 82.6 -0.5 54 157-210 123-176 (1134)
43 KOG0978 E3 ubiquitin ligase in 97.8 5.7E-06 1.2E-10 78.5 0.9 49 157-208 643-692 (698)
44 PF11789 zf-Nse: Zinc-finger o 97.8 1.7E-05 3.7E-10 52.2 2.4 43 155-199 9-53 (57)
45 KOG1428 Inhibitor of type V ad 97.6 3.3E-05 7.2E-10 77.4 2.8 50 155-204 3484-3543(3738)
46 KOG0297 TNF receptor-associate 97.6 3.2E-05 7E-10 69.8 1.9 52 155-208 19-70 (391)
47 KOG4265 Predicted E3 ubiquitin 97.6 5.7E-05 1.2E-09 66.2 3.1 48 155-205 288-336 (349)
48 KOG1952 Transcription factor N 97.5 0.0003 6.6E-09 67.6 8.1 49 154-202 188-244 (950)
49 KOG4445 Uncharacterized conser 97.5 3.4E-05 7.3E-10 66.2 0.6 51 158-208 116-189 (368)
50 COG5152 Uncharacterized conser 97.4 4.4E-05 9.6E-10 61.9 0.9 45 157-204 196-240 (259)
51 PF12906 RINGv: RING-variant d 97.3 0.00013 2.9E-09 46.0 2.0 40 160-200 1-47 (47)
52 KOG1941 Acetylcholine receptor 97.3 6.2E-05 1.4E-09 66.7 0.6 48 155-202 363-413 (518)
53 KOG1785 Tyrosine kinase negati 97.3 0.00012 2.5E-09 65.2 1.5 51 157-210 369-421 (563)
54 KOG4159 Predicted E3 ubiquitin 97.3 0.00018 4E-09 64.7 2.8 48 155-205 82-129 (398)
55 KOG4172 Predicted E3 ubiquitin 97.2 6.4E-05 1.4E-09 48.5 -0.1 45 158-205 8-54 (62)
56 TIGR00570 cdk7 CDK-activating 97.2 0.00023 5E-09 61.9 2.4 35 174-208 22-57 (309)
57 KOG1813 Predicted E3 ubiquitin 97.1 0.00018 4E-09 61.6 0.8 45 157-204 241-285 (313)
58 KOG0827 Predicted E3 ubiquitin 97.0 0.00025 5.5E-09 62.8 1.5 27 175-201 23-52 (465)
59 PF05883 Baculo_RING: Baculovi 97.0 0.00027 5.8E-09 54.1 1.3 36 157-192 26-67 (134)
60 KOG2660 Locus-specific chromos 97.0 0.0002 4.4E-09 62.2 0.4 51 155-207 13-63 (331)
61 KOG3039 Uncharacterized conser 97.0 0.00062 1.4E-08 57.1 3.2 55 156-210 220-275 (303)
62 KOG2879 Predicted E3 ubiquitin 97.0 0.00086 1.9E-08 57.0 3.9 49 155-205 237-287 (298)
63 PHA02862 5L protein; Provision 97.0 0.00051 1.1E-08 53.1 2.3 47 157-207 2-55 (156)
64 PHA02825 LAP/PHD finger-like p 96.7 0.0014 3E-08 51.6 3.0 49 154-206 5-60 (162)
65 PF14447 Prok-RING_4: Prokaryo 96.6 0.0012 2.7E-08 42.7 1.5 47 158-209 8-54 (55)
66 PF10367 Vps39_2: Vacuolar sor 96.4 0.0022 4.7E-08 46.8 2.5 33 155-188 76-108 (109)
67 KOG4692 Predicted E3 ubiquitin 96.3 0.0024 5.2E-08 56.2 2.3 48 155-205 420-467 (489)
68 KOG1645 RING-finger-containing 96.3 0.0025 5.4E-08 57.0 2.5 37 168-204 17-55 (463)
69 KOG1814 Predicted E3 ubiquitin 96.3 0.0024 5.2E-08 57.2 2.2 46 157-202 184-237 (445)
70 PF14570 zf-RING_4: RING/Ubox 96.3 0.0043 9.3E-08 39.3 2.6 45 160-204 1-47 (48)
71 PHA03096 p28-like protein; Pro 96.1 0.003 6.5E-08 54.7 2.1 45 158-202 179-231 (284)
72 PF03854 zf-P11: P-11 zinc fin 96.1 0.0024 5.2E-08 40.0 1.1 43 160-207 5-48 (50)
73 KOG1002 Nucleotide excision re 96.1 0.0023 4.9E-08 59.0 1.3 52 154-208 533-589 (791)
74 PF04641 Rtf2: Rtf2 RING-finge 96.1 0.0057 1.2E-07 52.3 3.5 53 155-208 111-164 (260)
75 KOG4275 Predicted E3 ubiquitin 96.0 0.0015 3.2E-08 56.1 -0.7 42 157-205 300-342 (350)
76 KOG3970 Predicted E3 ubiquitin 95.9 0.0057 1.2E-07 50.8 2.7 50 156-206 49-106 (299)
77 KOG3268 Predicted E3 ubiquitin 95.8 0.0063 1.4E-07 48.8 2.5 53 155-207 163-230 (234)
78 KOG1571 Predicted E3 ubiquitin 95.6 0.0078 1.7E-07 53.1 2.5 44 156-205 304-347 (355)
79 COG5175 MOT2 Transcriptional r 95.4 0.01 2.2E-07 52.1 2.4 53 152-204 9-63 (480)
80 COG5236 Uncharacterized conser 95.4 0.016 3.4E-07 51.1 3.4 50 152-204 56-107 (493)
81 PF08746 zf-RING-like: RING-li 95.0 0.0097 2.1E-07 36.8 0.9 41 160-200 1-43 (43)
82 KOG2817 Predicted E3 ubiquitin 95.0 0.02 4.3E-07 51.2 3.1 47 158-204 335-384 (394)
83 KOG0826 Predicted E3 ubiquitin 94.9 0.012 2.5E-07 51.4 1.3 51 156-208 299-349 (357)
84 KOG0827 Predicted E3 ubiquitin 94.9 0.0015 3.2E-08 58.1 -4.3 48 159-206 198-246 (465)
85 KOG1940 Zn-finger protein [Gen 94.9 0.014 3.1E-07 50.1 1.8 45 158-202 159-204 (276)
86 PF07800 DUF1644: Protein of u 94.5 0.042 9.2E-07 43.3 3.4 33 157-192 2-47 (162)
87 KOG2114 Vacuolar assembly/sort 94.4 0.02 4.2E-07 55.6 1.7 42 158-204 841-882 (933)
88 KOG1001 Helicase-like transcri 94.3 0.011 2.4E-07 56.9 -0.3 47 158-208 455-503 (674)
89 KOG0801 Predicted E3 ubiquitin 93.9 0.021 4.6E-07 45.1 0.7 29 156-184 176-204 (205)
90 KOG3053 Uncharacterized conser 93.8 0.027 6E-07 47.6 1.2 50 154-204 17-81 (293)
91 COG5222 Uncharacterized conser 93.7 0.04 8.7E-07 47.7 2.1 49 158-208 275-325 (427)
92 KOG3002 Zn finger protein [Gen 93.7 0.036 7.8E-07 48.4 1.8 43 156-205 47-91 (299)
93 KOG0309 Conserved WD40 repeat- 92.3 0.076 1.6E-06 51.2 1.9 30 170-199 1040-1069(1081)
94 COG5183 SSM4 Protein involved 92.1 0.095 2.1E-06 50.9 2.3 54 155-208 10-69 (1175)
95 KOG0298 DEAD box-containing he 92.1 0.038 8.1E-07 55.9 -0.4 44 157-202 1153-1196(1394)
96 KOG1609 Protein involved in mR 91.8 0.1 2.2E-06 45.1 2.0 48 157-204 78-133 (323)
97 KOG2034 Vacuolar sorting prote 91.1 0.11 2.3E-06 50.9 1.5 39 153-192 813-851 (911)
98 PF14446 Prok-RING_1: Prokaryo 89.7 0.47 1E-05 30.7 3.1 46 157-206 5-53 (54)
99 KOG0802 E3 ubiquitin ligase [P 88.4 0.23 4.9E-06 46.9 1.4 49 155-210 477-525 (543)
100 PF02891 zf-MIZ: MIZ/SP-RING z 88.4 0.62 1.3E-05 29.6 3.0 43 158-203 3-50 (50)
101 KOG1829 Uncharacterized conser 87.8 0.2 4.3E-06 47.4 0.6 44 155-201 509-557 (580)
102 KOG2932 E3 ubiquitin ligase in 87.5 0.23 5E-06 43.3 0.8 29 174-204 105-133 (389)
103 KOG3161 Predicted E3 ubiquitin 87.0 0.23 4.9E-06 47.2 0.5 43 157-202 11-54 (861)
104 COG5109 Uncharacterized conser 87.0 0.45 9.7E-06 41.6 2.2 46 158-203 337-385 (396)
105 KOG1812 Predicted E3 ubiquitin 86.9 0.22 4.9E-06 45.0 0.4 38 157-194 146-184 (384)
106 KOG4362 Transcriptional regula 86.9 0.16 3.4E-06 48.8 -0.6 45 157-204 21-68 (684)
107 smart00249 PHD PHD zinc finger 86.4 0.43 9.3E-06 28.6 1.4 31 159-189 1-31 (47)
108 PF13901 DUF4206: Domain of un 85.6 0.61 1.3E-05 38.3 2.3 43 155-202 150-197 (202)
109 KOG0825 PHD Zn-finger protein 85.1 0.5 1.1E-05 46.0 1.7 49 156-204 95-153 (1134)
110 KOG4185 Predicted E3 ubiquitin 83.9 0.86 1.9E-05 39.3 2.6 36 169-204 18-54 (296)
111 KOG3899 Uncharacterized conser 83.9 0.54 1.2E-05 40.7 1.3 31 178-208 325-368 (381)
112 PF10272 Tmpp129: Putative tra 83.7 0.68 1.5E-05 41.4 1.9 51 155-207 269-353 (358)
113 KOG2066 Vacuolar assembly/sort 83.1 0.65 1.4E-05 45.2 1.6 45 157-202 784-832 (846)
114 PF00628 PHD: PHD-finger; Int 81.0 0.64 1.4E-05 29.0 0.5 44 159-202 1-50 (51)
115 COG5220 TFB3 Cdk activating ki 80.5 0.68 1.5E-05 39.1 0.6 48 157-204 10-63 (314)
116 PF05290 Baculo_IE-1: Baculovi 77.9 1.9 4.1E-05 33.2 2.3 53 156-208 79-135 (140)
117 KOG1815 Predicted E3 ubiquitin 77.6 1.4 3.1E-05 40.4 2.0 38 155-194 68-105 (444)
118 KOG3579 Predicted E3 ubiquitin 76.0 1.2 2.7E-05 38.4 0.9 48 155-205 266-328 (352)
119 KOG0269 WD40 repeat-containing 75.8 2.6 5.7E-05 41.0 3.2 43 159-202 781-825 (839)
120 KOG4718 Non-SMC (structural ma 70.2 2.4 5.2E-05 35.1 1.3 43 159-203 183-225 (235)
121 KOG1812 Predicted E3 ubiquitin 69.3 2.5 5.5E-05 38.2 1.4 41 159-200 308-351 (384)
122 PF07975 C1_4: TFIIH C1-like d 67.0 3.2 7E-05 26.5 1.1 42 160-201 2-50 (51)
123 KOG3005 GIY-YIG type nuclease 66.2 1.4 3E-05 37.7 -0.8 51 158-208 183-246 (276)
124 PF01363 FYVE: FYVE zinc finge 65.6 3 6.5E-05 27.7 0.9 38 154-191 6-44 (69)
125 PF13717 zinc_ribbon_4: zinc-r 63.6 3.7 8E-05 24.1 0.9 25 159-183 4-36 (36)
126 KOG1100 Predicted E3 ubiquitin 63.5 3.5 7.6E-05 34.1 1.0 39 160-205 161-200 (207)
127 TIGR03602 streptolysinS bacter 63.1 2.5 5.5E-05 26.7 0.1 8 2-9 24-31 (56)
128 KOG2068 MOT2 transcription fac 62.8 6.3 0.00014 34.8 2.5 50 158-207 250-300 (327)
129 PF07649 C1_3: C1-like domain; 62.6 5.6 0.00012 22.1 1.5 29 159-187 2-30 (30)
130 PF04710 Pellino: Pellino; In 61.8 2.6 5.7E-05 38.1 0.0 44 157-203 277-337 (416)
131 PF14169 YdjO: Cold-inducible 60.9 4 8.6E-05 26.9 0.7 14 194-207 39-52 (59)
132 PF10571 UPF0547: Uncharacteri 60.2 4.8 0.0001 22.0 0.9 23 159-182 2-24 (26)
133 TIGR00622 ssl1 transcription f 59.5 11 0.00025 28.0 3.1 45 157-201 55-110 (112)
134 smart00132 LIM Zinc-binding do 56.7 11 0.00023 21.3 2.1 37 159-204 1-37 (39)
135 smart00064 FYVE Protein presen 56.5 5.7 0.00012 26.2 1.0 38 155-192 8-46 (68)
136 PF06844 DUF1244: Protein of u 56.1 7.4 0.00016 26.2 1.4 12 181-192 11-22 (68)
137 PRK05978 hypothetical protein; 55.7 7.2 0.00016 30.6 1.5 28 179-211 42-69 (148)
138 KOG3039 Uncharacterized conser 55.2 10 0.00022 32.3 2.4 36 153-191 39-74 (303)
139 PF07191 zinc-ribbons_6: zinc- 53.8 1.1 2.4E-05 30.6 -2.8 39 158-204 2-40 (70)
140 KOG3113 Uncharacterized conser 53.3 12 0.00027 31.9 2.6 51 156-208 110-161 (293)
141 cd00350 rubredoxin_like Rubred 52.3 11 0.00024 21.5 1.6 9 194-202 17-25 (33)
142 PF04423 Rad50_zn_hook: Rad50 49.8 5.9 0.00013 25.2 0.2 10 196-205 22-31 (54)
143 PF13719 zinc_ribbon_5: zinc-r 49.1 11 0.00023 22.2 1.2 25 159-183 4-36 (37)
144 PF14569 zf-UDP: Zinc-binding 49.1 24 0.00052 24.6 3.1 49 156-204 8-61 (80)
145 PF02318 FYVE_2: FYVE-type zin 48.4 11 0.00025 28.0 1.6 46 156-203 53-103 (118)
146 PRK13130 H/ACA RNA-protein com 48.4 13 0.00029 24.2 1.7 19 194-212 17-35 (56)
147 KOG2807 RNA polymerase II tran 47.5 16 0.00034 32.4 2.5 46 157-202 330-375 (378)
148 PRK00418 DNA gyrase inhibitor; 44.9 15 0.00032 24.5 1.5 13 195-207 7-19 (62)
149 KOG2071 mRNA cleavage and poly 44.6 15 0.00033 34.9 2.1 37 155-191 511-557 (579)
150 PF10235 Cript: Microtubule-as 44.6 10 0.00023 27.1 0.8 38 157-206 44-81 (90)
151 KOG3799 Rab3 effector RIM1 and 44.5 5.7 0.00012 30.7 -0.6 50 154-203 62-116 (169)
152 KOG0824 Predicted E3 ubiquitin 44.2 6.9 0.00015 34.2 -0.2 48 155-204 103-150 (324)
153 PF13832 zf-HC5HC2H_2: PHD-zin 44.0 21 0.00045 25.9 2.4 33 156-190 54-88 (110)
154 KOG3842 Adaptor protein Pellin 43.8 27 0.00059 30.9 3.3 49 157-205 341-414 (429)
155 PF06906 DUF1272: Protein of u 42.6 27 0.00058 22.8 2.3 42 160-206 8-53 (57)
156 PLN02189 cellulose synthase 41.8 23 0.00051 36.0 3.0 50 156-205 33-87 (1040)
157 KOG1729 FYVE finger containing 41.7 4.3 9.3E-05 35.3 -1.9 36 159-194 216-251 (288)
158 smart00734 ZnF_Rad18 Rad18-lik 41.6 12 0.00027 20.2 0.6 9 196-204 3-11 (26)
159 cd00065 FYVE FYVE domain; Zinc 41.1 21 0.00046 22.4 1.8 35 158-192 3-38 (57)
160 KOG4185 Predicted E3 ubiquitin 40.3 5.7 0.00012 34.2 -1.3 46 158-203 208-265 (296)
161 smart00647 IBR In Between Ring 39.6 8.2 0.00018 24.7 -0.4 20 171-190 38-58 (64)
162 PF14311 DUF4379: Domain of un 39.4 20 0.00042 22.8 1.4 23 177-200 33-55 (55)
163 PF12660 zf-TFIIIC: Putative z 38.2 2.7 5.9E-05 30.6 -3.1 48 158-207 15-68 (99)
164 PF13771 zf-HC5HC2H: PHD-like 37.6 20 0.00044 24.8 1.4 33 157-189 36-68 (90)
165 COG3364 Zn-ribbon containing p 37.2 20 0.00043 26.3 1.3 26 173-202 3-28 (112)
166 KOG1814 Predicted E3 ubiquitin 37.2 18 0.00039 33.0 1.3 36 154-189 365-403 (445)
167 PLN02195 cellulose synthase A 36.5 45 0.00096 33.9 4.0 52 157-208 6-62 (977)
168 cd00729 rubredoxin_SM Rubredox 36.0 25 0.00053 20.3 1.3 8 195-202 19-26 (34)
169 COG2260 Predicted Zn-ribbon RN 35.2 28 0.00061 22.9 1.6 19 194-212 17-35 (59)
170 PF14353 CpXC: CpXC protein 34.9 30 0.00066 25.8 2.1 16 195-210 39-54 (128)
171 PF11023 DUF2614: Protein of u 34.4 30 0.00066 25.8 1.9 22 189-210 80-101 (114)
172 PF09723 Zn-ribbon_8: Zinc rib 33.2 9.6 0.00021 23.0 -0.8 27 175-202 8-34 (42)
173 PF03119 DNA_ligase_ZBD: NAD-d 32.8 15 0.00033 20.2 0.1 10 196-205 1-10 (28)
174 PF03884 DUF329: Domain of unk 31.6 18 0.00038 23.7 0.2 11 196-206 4-14 (57)
175 PLN02638 cellulose synthase A 31.3 45 0.00097 34.2 3.1 50 156-205 16-70 (1079)
176 PF09889 DUF2116: Uncharacteri 30.4 27 0.00059 23.0 1.0 16 193-208 2-17 (59)
177 COG3492 Uncharacterized protei 30.1 27 0.00058 25.1 1.0 12 182-193 43-54 (104)
178 PF00412 LIM: LIM domain; Int 29.9 39 0.00085 21.0 1.7 37 160-205 1-37 (58)
179 PF02148 zf-UBP: Zn-finger in 27.8 35 0.00076 22.3 1.2 32 160-193 1-36 (63)
180 PRK11827 hypothetical protein; 27.5 21 0.00046 23.6 0.1 19 189-207 3-21 (60)
181 PRK01343 zinc-binding protein; 27.5 35 0.00077 22.3 1.1 12 194-205 9-20 (57)
182 TIGR00686 phnA alkylphosphonat 27.4 38 0.00082 25.1 1.4 24 159-182 4-29 (109)
183 KOG2169 Zn-finger transcriptio 26.8 39 0.00084 32.7 1.8 44 159-209 308-360 (636)
184 TIGR02605 CxxC_CxxC_SSSS putat 26.7 24 0.00051 22.0 0.2 24 174-202 7-34 (52)
185 KOG1245 Chromatin remodeling c 26.4 23 0.00049 37.5 0.1 50 155-204 1106-1159(1404)
186 KOG4218 Nuclear hormone recept 26.3 24 0.00052 31.6 0.2 48 155-203 13-76 (475)
187 TIGR01206 lysW lysine biosynth 25.7 38 0.00081 21.9 1.0 15 195-209 3-17 (54)
188 KOG2979 Protein involved in DN 25.3 36 0.00078 29.1 1.1 43 159-203 178-222 (262)
189 PF09237 GAGA: GAGA factor; I 25.2 22 0.00048 22.8 -0.2 9 196-204 26-34 (54)
190 PF10497 zf-4CXXC_R1: Zinc-fin 24.6 1.1E+02 0.0024 22.4 3.5 24 179-202 37-69 (105)
191 COG2824 PhnA Uncharacterized Z 24.4 26 0.00056 25.9 0.1 29 158-192 4-32 (112)
192 PF06750 DiS_P_DiS: Bacterial 24.2 59 0.0013 23.2 1.9 38 157-206 33-70 (92)
193 PLN02436 cellulose synthase A 23.6 74 0.0016 32.8 3.0 50 156-205 35-89 (1094)
194 PLN02400 cellulose synthase 22.8 56 0.0012 33.6 2.1 50 156-205 35-89 (1085)
195 PF04135 Nop10p: Nucleolar RNA 22.7 48 0.001 21.3 1.1 19 194-212 17-35 (53)
196 COG3813 Uncharacterized protei 21.6 69 0.0015 22.1 1.7 27 179-207 28-54 (84)
197 TIGR01367 pyrE_Therm orotate p 21.3 45 0.00098 26.9 0.9 17 194-210 169-185 (187)
198 PRK10220 hypothetical protein; 21.0 62 0.0013 24.0 1.5 23 159-181 5-29 (111)
199 PF01485 IBR: IBR domain; Int 20.8 11 0.00023 24.1 -2.4 32 159-190 20-58 (64)
200 KOG1356 Putative transcription 20.7 29 0.00062 34.5 -0.4 45 158-203 230-280 (889)
201 KOG4443 Putative transcription 20.7 52 0.0011 31.9 1.3 46 157-202 18-70 (694)
202 smart00531 TFIIE Transcription 20.5 64 0.0014 24.9 1.6 14 195-208 124-137 (147)
203 COG3024 Uncharacterized protei 20.4 64 0.0014 21.6 1.3 14 195-208 8-21 (65)
204 COG5627 MMS21 DNA repair prote 20.4 46 0.001 28.2 0.8 49 157-207 189-241 (275)
205 PF05502 Dynactin_p62: Dynacti 20.4 51 0.0011 30.8 1.2 37 156-205 25-63 (483)
206 COG2835 Uncharacterized conser 20.2 42 0.0009 22.2 0.4 13 196-208 10-22 (60)
207 KOG1815 Predicted E3 ubiquitin 20.1 31 0.00066 31.8 -0.4 38 156-193 225-267 (444)
208 COG4647 AcxC Acetone carboxyla 20.1 58 0.0013 25.0 1.2 21 161-184 61-81 (165)
209 PF04216 FdhE: Protein involve 20.1 8.9 0.00019 33.1 -3.7 43 157-202 172-219 (290)
210 KOG1512 PHD Zn-finger protein 20.0 1.3E+02 0.0028 26.4 3.4 140 68-208 165-328 (381)
No 1
>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=99.69 E-value=1.1e-17 Score=104.91 Aligned_cols=44 Identities=45% Similarity=1.152 Sum_probs=40.2
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (212)
+.|+||++.|..++..+.++|||.||.+||.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 46999999998888899999999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.53 E-value=5.5e-15 Score=129.00 Aligned_cols=52 Identities=38% Similarity=0.957 Sum_probs=46.9
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCC-CCcccccccCCCC
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDT-CPVCNQEMIFDLP 209 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~t-CPvCr~~l~~~~~ 209 (212)
+.|+||||+|..|+.+++|+|+|.||..||++||.+..+ ||+||+.+.....
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 489999999999999999999999999999999988755 9999998865543
No 3
>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=99.51 E-value=1.4e-14 Score=100.50 Aligned_cols=46 Identities=37% Similarity=1.006 Sum_probs=37.4
Q ss_pred CCCccccccccccC----------CCCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028186 156 EEDVCPTCLEEYDA----------ENPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (212)
Q Consensus 156 e~~~C~ICle~~~~----------~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (212)
.++.|+||++.|.. +.++...+|||.||..||.+||+++.+||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 45569999999932 24556678999999999999999999999997
No 4
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.38 E-value=3.3e-13 Score=95.11 Aligned_cols=53 Identities=36% Similarity=0.967 Sum_probs=44.2
Q ss_pred CCCccccccccccC----------CCCeEEcCCCCcccHHHHHHHHhc---CCCCCcccccccCCC
Q 028186 156 EEDVCPTCLEEYDA----------ENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDL 208 (212)
Q Consensus 156 e~~~C~ICle~~~~----------~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~l~~~~ 208 (212)
++++|.||+..|+. +.+++.-.|+|.||..||.+||+. ++.||+||+++.+++
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k~ 85 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFKE 85 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeCC
Confidence 47779999999974 235666789999999999999975 478999999998764
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=3.8e-13 Score=116.96 Aligned_cols=54 Identities=33% Similarity=0.955 Sum_probs=46.0
Q ss_pred cCCCcccccccc-ccCCC---------CeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028186 155 EEEDVCPTCLEE-YDAEN---------PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 208 (212)
Q Consensus 155 ee~~~C~ICle~-~~~~~---------~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~ 208 (212)
.++..|.||+|+ |..++ .+..++|||+||..|++.||+|+++||+||.++.+|.
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ifd~ 348 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVIFDQ 348 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcccccc
Confidence 456689999999 55542 3467999999999999999999999999999988775
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.35 E-value=4.5e-13 Score=112.21 Aligned_cols=50 Identities=32% Similarity=0.853 Sum_probs=41.9
Q ss_pred CCCccccccccccCCCC-----eEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028186 156 EEDVCPTCLEEYDAENP-----RIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~-----~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
.+..|+||++.+..... .++++|+|.||..||.+|++++.+||+||+.+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 35679999999754331 356789999999999999999999999999875
No 7
>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=99.27 E-value=3.8e-12 Score=81.76 Aligned_cols=46 Identities=28% Similarity=0.782 Sum_probs=39.5
Q ss_pred CCccccccccccCCCCeEEcCCCCc-ccHHHHHHHHhcCCCCCccccccc
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
+..|.||++.... .+.++|||. |+..|+.+|+++..+||+||+.+.
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 4569999998654 788999999 999999999999999999999874
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=99.27 E-value=3.2e-12 Score=77.92 Aligned_cols=39 Identities=44% Similarity=1.142 Sum_probs=33.9
Q ss_pred cccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcc
Q 028186 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVC 200 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvC 200 (212)
|+||++.+.. +.+.++|||.||..||.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999998855 56789999999999999999999999998
No 9
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=2.5e-12 Score=109.30 Aligned_cols=49 Identities=27% Similarity=0.811 Sum_probs=45.0
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHh-cCCCCCccccccc
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMI 205 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~l~ 205 (212)
.-.|+|||+.|..++...+|||.|.||..||.+||. -++.||+||.+++
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 456999999998888899999999999999999998 6789999999885
No 10
>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=99.24 E-value=7.8e-12 Score=77.15 Aligned_cols=44 Identities=39% Similarity=1.092 Sum_probs=37.8
Q ss_pred ccccccccccCCCCeEEcCCCCcccHHHHHHHHhc-CCCCCcccccc
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEM 204 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvCr~~l 204 (212)
.|+||++.+ .+...+++|||.||..|+..|++. +..||+||+.+
T Consensus 1 ~C~iC~~~~--~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF--REPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh--hCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 499999998 445667779999999999999998 77899999864
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=1.8e-11 Score=96.91 Aligned_cols=54 Identities=28% Similarity=0.664 Sum_probs=45.3
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 209 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~~ 209 (212)
+.-..|||||+.|.... .+.++|||+||..||+..++...+||+|++.|..+..
T Consensus 129 ~~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF 182 (187)
T ss_pred ccccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence 44568999999996533 3569999999999999999999999999998866543
No 12
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.22 E-value=8.7e-12 Score=100.77 Aligned_cols=51 Identities=27% Similarity=0.696 Sum_probs=41.1
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc----------------CCCCCcccccccCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER----------------SDTCPVCNQEMIFDL 208 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~----------------~~tCPvCr~~l~~~~ 208 (212)
.++..|+||++.+.. .++++|||.||..||.+|+.. ..+||+||..+....
T Consensus 16 ~~~~~CpICld~~~d---PVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 16 GGDFDCNICLDQVRD---PVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred CCccCCccCCCcCCC---cEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 345679999998754 567899999999999999853 247999999886544
No 13
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=1.6e-11 Score=101.06 Aligned_cols=51 Identities=31% Similarity=0.790 Sum_probs=41.6
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc---CCCCCcccccccCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDL 208 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~l~~~~ 208 (212)
.....|.||||.-++ .+++.|||.||..||++||.. ++.|||||..|..+.
T Consensus 45 ~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 445679999996543 667889999999999999966 467999999887665
No 14
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.14 E-value=1.9e-11 Score=103.43 Aligned_cols=54 Identities=30% Similarity=0.696 Sum_probs=45.5
Q ss_pred ccCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCCC
Q 028186 154 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV 210 (212)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~~~ 210 (212)
.+....|.||||.-.. ...++|||+||..||.+|...+..||+||..+.-.+.|
T Consensus 236 ~~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 236 PEATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCccee
Confidence 3556789999997543 66899999999999999999999999999988766543
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.14 E-value=3.7e-11 Score=75.14 Aligned_cols=44 Identities=32% Similarity=0.785 Sum_probs=39.7
Q ss_pred ccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
.|+||++.|..+....+|.|||+||..||..++.....||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 39999999976778899999999999999999967788999986
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=99.11 E-value=4.9e-11 Score=97.78 Aligned_cols=57 Identities=25% Similarity=0.612 Sum_probs=42.8
Q ss_pred CCCccccccccccCC------CCeEEcCCCCcccHHHHHHHHhcC------CCCCcccccccCCCCCCC
Q 028186 156 EEDVCPTCLEEYDAE------NPRIITKCEHHFHLACIFEWMERS------DTCPVCNQEMIFDLPVDY 212 (212)
Q Consensus 156 e~~~C~ICle~~~~~------~~~~~l~C~H~FH~~CI~~Wl~~~------~tCPvCr~~l~~~~~~~~ 212 (212)
++.+|+||||..... ...++.+|+|.||..||.+|.+.+ .+||+||+.+.+=.|-.|
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSrf 237 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSKF 237 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeeccccc
Confidence 467799999986321 124567899999999999999753 469999998866555443
No 17
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.10 E-value=4.6e-11 Score=82.44 Aligned_cols=54 Identities=30% Similarity=0.691 Sum_probs=43.7
Q ss_pred CCccccccccccC-------------CCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCCC
Q 028186 157 EDVCPTCLEEYDA-------------ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV 210 (212)
Q Consensus 157 ~~~C~ICle~~~~-------------~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~~~ 210 (212)
-|+|+||..-|.. +-++..-.|.|.||..||.+||..++.||++|+.+.+.++.
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~~ 86 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADGG 86 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEeccc
Confidence 4678888877633 22455567999999999999999999999999999877653
No 18
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.09 E-value=8.7e-11 Score=72.78 Aligned_cols=38 Identities=29% Similarity=0.838 Sum_probs=30.0
Q ss_pred cccccccccCCCCeEEcCCCCcccHHHHHHHHhcC----CCCCcc
Q 028186 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVC 200 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~----~tCPvC 200 (212)
|+||++.|.. .+.++|||.|+..||.+|.+.. ..||+|
T Consensus 1 CpiC~~~~~~---Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999976 7889999999999999999764 369988
No 19
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.04 E-value=2.4e-10 Score=76.36 Aligned_cols=48 Identities=23% Similarity=0.402 Sum_probs=41.6
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 208 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~ 208 (212)
..|+||++.+.. .++++|||.|+..||.+|++.+.+||+|++.+..++
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 469999998865 467899999999999999999999999999885544
No 20
>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=99.03 E-value=2.3e-10 Score=70.24 Aligned_cols=39 Identities=44% Similarity=1.182 Sum_probs=33.8
Q ss_pred cccccccccCCCCeEEcCCCCcccHHHHHHHHh--cCCCCCcc
Q 028186 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWME--RSDTCPVC 200 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~--~~~tCPvC 200 (212)
|+||++.+.. +.++++|||.||..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~~--~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED--PVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS--EEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccC--CCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 8999998865 345899999999999999998 45679998
No 21
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=1.3e-10 Score=108.59 Aligned_cols=49 Identities=35% Similarity=0.867 Sum_probs=42.8
Q ss_pred CCCccccccccccCCCC--eEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 156 EEDVCPTCLEEYDAENP--RIITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~--~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
..+.|+||+|.+..+.. ...++|+|+||..|++.||+++++||+||..+
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 46789999999866543 66789999999999999999999999999944
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.99 E-value=4.1e-10 Score=66.96 Aligned_cols=38 Identities=42% Similarity=1.189 Sum_probs=32.9
Q ss_pred cccccccccCCCCeEEcCCCCcccHHHHHHHHh-cCCCCCcc
Q 028186 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVC 200 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvC 200 (212)
|+||++.. ...+.++|||.||..||..|++ .+.+||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999973 3477889999999999999998 66789997
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=1.6e-10 Score=79.18 Aligned_cols=52 Identities=31% Similarity=0.827 Sum_probs=41.5
Q ss_pred CCccccccccccCC----------CCeEEcCCCCcccHHHHHHHHhc---CCCCCcccccccCCC
Q 028186 157 EDVCPTCLEEYDAE----------NPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDL 208 (212)
Q Consensus 157 ~~~C~ICle~~~~~----------~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~l~~~~ 208 (212)
.++|.||...|+.- -|++.-.|.|.||..||.+|+.. +..||+||+++.+++
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~e 84 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFKE 84 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEecC
Confidence 44899999999652 34555569999999999999954 467999999987753
No 24
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.89 E-value=2e-10 Score=83.05 Aligned_cols=69 Identities=28% Similarity=0.522 Sum_probs=51.0
Q ss_pred HHHhhhcccccccc-ccCCCccccccccccC-------------CC-CeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 140 EVELSKSVHHVVAV-IEEEDVCPTCLEEYDA-------------EN-PRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 140 ~~~~~~~~~~~~~~-~ee~~~C~ICle~~~~-------------~~-~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
..+++|+....... +..-|.|+||..-+.. ++ .+.--.|.|.||..||.+||+.++.||+|.++.
T Consensus 28 rF~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 28 RFELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred ceEEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 34567776554443 3567889999865411 12 234456999999999999999999999999998
Q ss_pred cCCC
Q 028186 205 IFDL 208 (212)
Q Consensus 205 ~~~~ 208 (212)
.++.
T Consensus 108 ~~qr 111 (114)
T KOG2930|consen 108 VFQR 111 (114)
T ss_pred eEee
Confidence 8765
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.86 E-value=1.7e-09 Score=96.78 Aligned_cols=51 Identities=25% Similarity=0.636 Sum_probs=43.4
Q ss_pred ccCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCC
Q 028186 154 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 207 (212)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~ 207 (212)
.+....|+||++.|.. .++++|||.||..||..|+.....||+|+..+...
T Consensus 23 Le~~l~C~IC~d~~~~---PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKDFFDV---PVLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCchhhhC---ccCCCCCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 3567789999999854 45789999999999999999988999999987543
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.80 E-value=4e-09 Score=65.53 Aligned_cols=38 Identities=37% Similarity=0.912 Sum_probs=24.5
Q ss_pred cccccccc-cCCCCeEEcCCCCcccHHHHHHHHhcC----CCCC
Q 028186 160 CPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERS----DTCP 198 (212)
Q Consensus 160 C~ICle~~-~~~~~~~~l~C~H~FH~~CI~~Wl~~~----~tCP 198 (212)
|+||+| | ..+++.++|+|||.|+.+||.+|++++ -+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 7 557788899999999999999999864 2576
No 27
>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=98.65 E-value=2.3e-08 Score=63.89 Aligned_cols=42 Identities=29% Similarity=0.890 Sum_probs=32.9
Q ss_pred ccccccccccCCCCeEEcCCC-----CcccHHHHHHHHhcC--CCCCccc
Q 028186 159 VCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERS--DTCPVCN 201 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~-----H~FH~~CI~~Wl~~~--~tCPvCr 201 (212)
.|.||++..+.++ ....||. |.||..|+.+|+..+ .+||+|+
T Consensus 1 ~CrIC~~~~~~~~-~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGD-PLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCC-eeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4999999444444 4567884 999999999999654 5899995
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.61 E-value=1.8e-08 Score=84.54 Aligned_cols=51 Identities=29% Similarity=0.675 Sum_probs=42.1
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHH-HHhcCC-CCCcccccccCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFE-WMERSD-TCPVCNQEMIFDL 208 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~-Wl~~~~-tCPvCr~~l~~~~ 208 (212)
+.+..|+||+|.... ...++|||+||..||.. |-.++- .||+||+....++
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCC---cccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 456789999997544 77899999999999999 987764 5999999876554
No 29
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.58 E-value=8.5e-09 Score=70.85 Aligned_cols=51 Identities=27% Similarity=0.690 Sum_probs=25.4
Q ss_pred CCcccccccccc-CCC-C-eEE--cCCCCcccHHHHHHHHhc-----------CCCCCcccccccCC
Q 028186 157 EDVCPTCLEEYD-AEN-P-RII--TKCEHHFHLACIFEWMER-----------SDTCPVCNQEMIFD 207 (212)
Q Consensus 157 ~~~C~ICle~~~-~~~-~-~~~--l~C~H~FH~~CI~~Wl~~-----------~~tCPvCr~~l~~~ 207 (212)
+..|+||+..+. .+. + ++. ..|++.||..||.+||.. .++||.|+++|.++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 345999999875 322 2 222 369999999999999964 14699999988654
No 30
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=3.7e-08 Score=89.36 Aligned_cols=49 Identities=31% Similarity=0.737 Sum_probs=39.9
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcC-----CCCCcccccccCCC
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-----DTCPVCNQEMIFDL 208 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~-----~tCPvCr~~l~~~~ 208 (212)
+..|||||+.... ..+|.|||+||..||...+... ..||+||..|..++
T Consensus 186 ~~~CPICL~~~~~---p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCc---ccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 6679999997654 5567799999999999988654 68999999876544
No 31
>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=98.46 E-value=1.1e-07 Score=65.84 Aligned_cols=50 Identities=24% Similarity=0.382 Sum_probs=38.7
Q ss_pred CCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc-CCCCCcccccccCCC
Q 028186 156 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDL 208 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvCr~~l~~~~ 208 (212)
++..|+|+.+.+.. .+++++||.|...+|.+|+++ ..+||+|++.+..++
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred cccCCcCcCcHhhC---ceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 35679999999876 678899999999999999998 889999999876544
No 32
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=7.2e-08 Score=87.02 Aligned_cols=51 Identities=29% Similarity=0.792 Sum_probs=39.8
Q ss_pred cCCCccccccccccC---CCC-----------eEEcCCCCcccHHHHHHHHh-cCCCCCccccccc
Q 028186 155 EEEDVCPTCLEEYDA---ENP-----------RIITKCEHHFHLACIFEWME-RSDTCPVCNQEMI 205 (212)
Q Consensus 155 ee~~~C~ICle~~~~---~~~-----------~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~l~ 205 (212)
+....|+||+..++. +.+ -..+||.|+||..|+..||. .+-.||+||..+.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 344569999988733 211 34579999999999999999 5669999999875
No 33
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=7.7e-08 Score=80.97 Aligned_cols=52 Identities=29% Similarity=0.710 Sum_probs=41.7
Q ss_pred cCCCccccccccccCCC-------CeEEcCCCCcccHHHHHHHH--hcCCCCCcccccccC
Q 028186 155 EEEDVCPTCLEEYDAEN-------PRIITKCEHHFHLACIFEWM--ERSDTCPVCNQEMIF 206 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~-------~~~~l~C~H~FH~~CI~~Wl--~~~~tCPvCr~~l~~ 206 (212)
.++.+|+||-..++... ..-.|.|+|.||..||+-|- -++.+||.|++.+..
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl 282 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDL 282 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhH
Confidence 45668999998885533 45678999999999999998 457899999987643
No 34
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.35 E-value=1.6e-07 Score=83.88 Aligned_cols=49 Identities=35% Similarity=0.906 Sum_probs=39.3
Q ss_pred cCCCccccccccccCCCCe-EEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028186 155 EEEDVCPTCLEEYDAENPR-IITKCEHHFHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~-~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
-+-.+||||||.++..... +.+.|.|.||..|+.+| ...+|||||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhcC
Confidence 4566899999999776544 44669999999999999 4566999997544
No 35
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.29 E-value=2.4e-07 Score=80.31 Aligned_cols=48 Identities=27% Similarity=0.695 Sum_probs=42.3
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
++-..|.||.|.|.. ..+++|+|.||.-||...|..+..||.|+.++.
T Consensus 21 D~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~ 68 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTVT 68 (442)
T ss_pred HHHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceecccc
Confidence 345579999999977 668899999999999999999999999998764
No 36
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.26 E-value=4.5e-07 Score=79.90 Aligned_cols=56 Identities=32% Similarity=0.762 Sum_probs=42.5
Q ss_pred CCCccccccccccCCC-----CeEEcCCCCcccHHHHHHHH--hc-----CCCCCcccccccCCCCCC
Q 028186 156 EEDVCPTCLEEYDAEN-----PRIITKCEHHFHLACIFEWM--ER-----SDTCPVCNQEMIFDLPVD 211 (212)
Q Consensus 156 e~~~C~ICle~~~~~~-----~~~~l~C~H~FH~~CI~~Wl--~~-----~~tCPvCr~~l~~~~~~~ 211 (212)
.+.+|.||+|....-. -.|+.+|.|.||..||.+|. ++ .+.||.||....+--+.+
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS~ 227 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPSS 227 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccccccc
Confidence 4667999999874422 23446799999999999998 44 578999999876555443
No 37
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=3.7e-07 Score=76.89 Aligned_cols=46 Identities=37% Similarity=0.851 Sum_probs=40.0
Q ss_pred ccCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 154 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
.+++..|+||++.|... .+++|+|.||..||..|+...-.||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 35677899999999764 78999999999999999986678999993
No 38
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.18 E-value=7e-07 Score=85.96 Aligned_cols=52 Identities=27% Similarity=0.892 Sum_probs=40.2
Q ss_pred cCCCccccccccccC-CC---CeEEcCCCCcccHHHHHHHHhcC--CCCCcccccccC
Q 028186 155 EEEDVCPTCLEEYDA-EN---PRIITKCEHHFHLACIFEWMERS--DTCPVCNQEMIF 206 (212)
Q Consensus 155 ee~~~C~ICle~~~~-~~---~~~~l~C~H~FH~~CI~~Wl~~~--~tCPvCr~~l~~ 206 (212)
+....|+||+..... +. ...+..|.|.||..|+++|++.+ ++||+||.++.+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 455579999988752 11 23455699999999999999875 689999988865
No 39
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.16 E-value=8.8e-07 Score=75.45 Aligned_cols=47 Identities=26% Similarity=0.517 Sum_probs=41.4
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
+.-+.|-||-+.|.. ...++|||.||.-||...|..+.-||+||.+.
T Consensus 23 Ds~lrC~IC~~~i~i---p~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 23 DSMLRCRICDCRISI---PCETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred hhHHHhhhhhheeec---ceecccccchhHHHHHHHhcCCCCCccccccH
Confidence 345579999998876 66889999999999999999999999999864
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.10 E-value=5.6e-07 Score=60.08 Aligned_cols=50 Identities=30% Similarity=0.658 Sum_probs=25.8
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 208 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~ 208 (212)
++-..|+||.+.+.. ++.+..|+|+||..||.+-+. ..||+|+.+...++
T Consensus 5 e~lLrCs~C~~~l~~--pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 5 EELLRCSICFDILKE--PVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp HHTTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred HHhcCCcHHHHHhcC--CceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 345679999998744 667789999999999988544 34999999876665
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=4.2e-07 Score=79.23 Aligned_cols=53 Identities=23% Similarity=0.709 Sum_probs=41.3
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc-CCCCCcccccccCCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDLP 209 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvCr~~l~~~~~ 209 (212)
..+..|+|||+-+.. ......|.|.||.+||.+-|+. ++.||.||+.+.-+-.
T Consensus 41 ~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~Skrs 94 (381)
T KOG0311|consen 41 DIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRS 94 (381)
T ss_pred hhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcccccc
Confidence 346679999998854 2334569999999999999976 5789999998865443
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.96 E-value=1.3e-06 Score=82.65 Aligned_cols=54 Identities=26% Similarity=0.487 Sum_probs=44.3
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCCC
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV 210 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~~~ 210 (212)
...|+|||-.|..+......+|+|.||..||..|-+.-++||+||.++.--..+
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V~ 176 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVKVL 176 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheeeee
Confidence 446999999997665555677999999999999999999999999987543333
No 43
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=5.7e-06 Score=78.47 Aligned_cols=49 Identities=31% Similarity=0.614 Sum_probs=41.8
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHh-cCCCCCcccccccCCC
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMIFDL 208 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~l~~~~ 208 (212)
-..|+.|-..|.. .++++|+|.||..||..-++ |..+||.|...+-.+|
T Consensus 643 ~LkCs~Cn~R~Kd---~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---AVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred ceeCCCccCchhh---HHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 4489999998876 77899999999999999995 4678999999886655
No 44
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.77 E-value=1.7e-05 Score=52.22 Aligned_cols=43 Identities=33% Similarity=0.758 Sum_probs=29.8
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPV 199 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPv 199 (212)
.-...|||.+..|. +|++...|||.|-.+.|.+||++ ...||+
T Consensus 9 ~~~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 44668999999884 57888899999999999999944 457998
No 45
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.61 E-value=3.3e-05 Score=77.36 Aligned_cols=50 Identities=32% Similarity=0.803 Sum_probs=43.7
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcC----------CCCCcccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----------DTCPVCNQEM 204 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~----------~tCPvCr~~l 204 (212)
+.+|+|.||+-+--..-|.+.|.|+|+||..|...-|++. -+||+|+.+|
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 4678999999988778889999999999999999888764 3799999876
No 46
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.56 E-value=3.2e-05 Score=69.76 Aligned_cols=52 Identities=33% Similarity=0.777 Sum_probs=42.9
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 208 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~ 208 (212)
++...|+||...+.. +...+.|||.||..||.+|+..+..||+|++.+....
T Consensus 19 ~~~l~C~~C~~vl~~--p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD--PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred cccccCccccccccC--CCCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 456779999998755 3434689999999999999999999999998876544
No 47
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=5.7e-05 Score=66.25 Aligned_cols=48 Identities=25% Similarity=0.632 Sum_probs=39.7
Q ss_pred cCCCccccccccccCCCCeEEcCCCCc-ccHHHHHHHHhcCCCCCccccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
+....|.|||.+-.. ..+|||.|. .|.+|.+.-.-+.+.||+||+.+.
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 346689999997654 778999996 799999997767889999999763
No 48
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.54 E-value=0.0003 Score=67.61 Aligned_cols=49 Identities=33% Similarity=0.717 Sum_probs=38.2
Q ss_pred ccCCCccccccccccCCCCeE-EcCCCCcccHHHHHHHHhcC-------CCCCcccc
Q 028186 154 IEEEDVCPTCLEEYDAENPRI-ITKCEHHFHLACIFEWMERS-------DTCPVCNQ 202 (212)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~-~l~C~H~FH~~CI~~Wl~~~-------~tCPvCr~ 202 (212)
..+...|.||+|.+....++. ...|=|+||+.||.+|-+.. -.||.|..
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 455668999999997655443 45689999999999999653 25999983
No 49
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.47 E-value=3.4e-05 Score=66.18 Aligned_cols=51 Identities=25% Similarity=0.744 Sum_probs=42.5
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhc-----------------------CCCCCcccccccCCC
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-----------------------SDTCPVCNQEMIFDL 208 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-----------------------~~tCPvCr~~l~~~~ 208 (212)
..|.|||--|......+.+.|-|.||..|+-+.|.- ...|||||..|..+.
T Consensus 116 gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 116 GQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 359999999988888899999999999999887731 236999999886553
No 50
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.44 E-value=4.4e-05 Score=61.91 Aligned_cols=45 Identities=27% Similarity=0.761 Sum_probs=40.5
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
...|.||-++|.. ++++.|||.||..|...-++.-.+|-+|.+.+
T Consensus 196 PF~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 4489999999977 67899999999999999999999999998865
No 51
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.33 E-value=0.00013 Score=46.04 Aligned_cols=40 Identities=28% Similarity=0.904 Sum_probs=27.9
Q ss_pred cccccccccCCCCeEEcCCC-----CcccHHHHHHHHhc--CCCCCcc
Q 028186 160 CPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMER--SDTCPVC 200 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~-----H~FH~~CI~~Wl~~--~~tCPvC 200 (212)
|-||++.-..+. ..+.||. -..|..|+.+|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 789999876655 4567773 58899999999974 5679988
No 52
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.32 E-value=6.2e-05 Score=66.69 Aligned_cols=48 Identities=33% Similarity=0.682 Sum_probs=39.8
Q ss_pred cCCCccccccccccC-CCCeEEcCCCCcccHHHHHHHHhcC--CCCCcccc
Q 028186 155 EEEDVCPTCLEEYDA-ENPRIITKCEHHFHLACIFEWMERS--DTCPVCNQ 202 (212)
Q Consensus 155 ee~~~C~ICle~~~~-~~~~~~l~C~H~FH~~CI~~Wl~~~--~tCPvCr~ 202 (212)
+-+..|..|-|.|.. .+.+..++|.|+||..|+.+.|+++ .+||-||+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 446689999999844 3456679999999999999999876 57999995
No 53
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.25 E-value=0.00012 Score=65.18 Aligned_cols=51 Identities=29% Similarity=0.720 Sum_probs=41.4
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCcccccccCCCCC
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQEMIFDLPV 210 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPvCr~~l~~~~~~ 210 (212)
...|-||-|. +..+.+-+|||..|..|+..|-.. .++||.||.+|+..+++
T Consensus 369 FeLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v 421 (563)
T KOG1785|consen 369 FELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV 421 (563)
T ss_pred HHHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence 3469999884 344778899999999999999844 47899999999876654
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=0.00018 Score=64.74 Aligned_cols=48 Identities=27% Similarity=0.722 Sum_probs=41.6
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
..+..|.||+..+.. .+.++|||.||..||.+-|..+..||.||.++.
T Consensus 82 ~sef~c~vc~~~l~~---pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred cchhhhhhhHhhcCC---CccccccccccHHHHHHHhccCCCCcccccccc
Confidence 456679999887755 667899999999999999998999999999875
No 55
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.25 E-value=6.4e-05 Score=48.50 Aligned_cols=45 Identities=24% Similarity=0.625 Sum_probs=32.6
Q ss_pred CccccccccccCCCCeEEcCCCCc-ccHHHHHHHHh-cCCCCCccccccc
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWME-RSDTCPVCNQEMI 205 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~-~~~tCPvCr~~l~ 205 (212)
+.|.||+|.-.. .++--|||. .|..|-.+-++ .+..||+||.++.
T Consensus 8 dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 669999985422 234569996 67888665444 6889999999763
No 56
>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=97.17 E-value=0.00023 Score=61.85 Aligned_cols=35 Identities=20% Similarity=0.552 Sum_probs=27.4
Q ss_pred EEcCCCCcccHHHHHHHH-hcCCCCCcccccccCCC
Q 028186 174 IITKCEHHFHLACIFEWM-ERSDTCPVCNQEMIFDL 208 (212)
Q Consensus 174 ~~l~C~H~FH~~CI~~Wl-~~~~tCPvCr~~l~~~~ 208 (212)
.+..|||.||..||...+ .....||+|++.+..+.
T Consensus 22 ~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 22 MVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred ccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 344899999999999955 55678999998775443
No 57
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.06 E-value=0.00018 Score=61.59 Aligned_cols=45 Identities=27% Similarity=0.613 Sum_probs=40.4
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
.+.|-||...|.. .+++.|+|.||..|-..-+++...|.+|.+.+
T Consensus 241 Pf~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred Ccccccccccccc---chhhcCCceeehhhhccccccCCcceeccccc
Confidence 3469999999976 67899999999999999999999999998876
No 58
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.04 E-value=0.00025 Score=62.82 Aligned_cols=27 Identities=41% Similarity=1.178 Sum_probs=23.6
Q ss_pred EcCCCCcccHHHHHHHHhcC---CCCCccc
Q 028186 175 ITKCEHHFHLACIFEWMERS---DTCPVCN 201 (212)
Q Consensus 175 ~l~C~H~FH~~CI~~Wl~~~---~tCPvCr 201 (212)
+-.|||+||..|+.+|++.- ..||+|+
T Consensus 23 i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 23 IGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 44599999999999999873 5799998
No 59
>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=97.02 E-value=0.00027 Score=54.15 Aligned_cols=36 Identities=17% Similarity=0.421 Sum_probs=29.7
Q ss_pred CCccccccccccCCCCeEEcCCC------CcccHHHHHHHHh
Q 028186 157 EDVCPTCLEEYDAENPRIITKCE------HHFHLACIFEWME 192 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~------H~FH~~CI~~Wl~ 192 (212)
...|.||++.+.....++.+.|| |.||..|+.+|-+
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 45699999999775567777785 9999999999943
No 60
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.99 E-value=0.0002 Score=62.20 Aligned_cols=51 Identities=27% Similarity=0.565 Sum_probs=41.2
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 207 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~ 207 (212)
....+|.+|--.|... ..++.|-|.||.+||.+.|+.++.||.|+..+-..
T Consensus 13 n~~itC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 3456799998887553 34567999999999999999999999998766433
No 61
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.98 E-value=0.00062 Score=57.06 Aligned_cols=55 Identities=13% Similarity=0.274 Sum_probs=47.9
Q ss_pred CCCccccccccccCCCCeEEc-CCCCcccHHHHHHHHhcCCCCCcccccccCCCCC
Q 028186 156 EEDVCPTCLEEYDAENPRIIT-KCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV 210 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l-~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~~~ 210 (212)
...+||||.+.+....+...| +|||+|+.+|+.+.++.-..||||.+.+..++.|
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI 275 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDII 275 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceE
Confidence 456899999999877776665 5999999999999999999999999999887755
No 62
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.00086 Score=57.02 Aligned_cols=49 Identities=33% Similarity=0.676 Sum_probs=39.8
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCccccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQEMI 205 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPvCr~~l~ 205 (212)
....+|++|-+. +..|-+..+|+|+||.-||..-+.- +-+||.|.....
T Consensus 237 t~~~~C~~Cg~~--PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEP--PTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCC--CCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 456689999885 4567788899999999999987653 468999988764
No 63
>PHA02862 5L protein; Provisional
Probab=96.95 E-value=0.00051 Score=53.12 Aligned_cols=47 Identities=21% Similarity=0.620 Sum_probs=35.4
Q ss_pred CCccccccccccCCCCeEEcCC-----CCcccHHHHHHHHhc--CCCCCcccccccCC
Q 028186 157 EDVCPTCLEEYDAENPRIITKC-----EHHFHLACIFEWMER--SDTCPVCNQEMIFD 207 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C-----~H~FH~~CI~~Wl~~--~~tCPvCr~~l~~~ 207 (212)
.+.|-||+++-+.+ .-|| ....|..|+.+|++. +..|++|+.+..++
T Consensus 2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik 55 (156)
T PHA02862 2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIK 55 (156)
T ss_pred CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEE
Confidence 35799999986432 2455 478999999999965 46799999987543
No 64
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.71 E-value=0.0014 Score=51.57 Aligned_cols=49 Identities=29% Similarity=0.706 Sum_probs=36.1
Q ss_pred ccCCCccccccccccCCCCeEEcCC--CC---cccHHHHHHHHhcC--CCCCcccccccC
Q 028186 154 IEEEDVCPTCLEEYDAENPRIITKC--EH---HFHLACIFEWMERS--DTCPVCNQEMIF 206 (212)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C--~H---~FH~~CI~~Wl~~~--~tCPvCr~~l~~ 206 (212)
...+..|-||.++.... .-|| .. ..|.+|+.+|+..+ .+|++|+++..+
T Consensus 5 s~~~~~CRIC~~~~~~~----~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 5 SLMDKCCWICKDEYDVV----TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCCeeEecCCCCCCc----cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEE
Confidence 45677899999885432 2355 33 67999999999664 579999987644
No 65
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.56 E-value=0.0012 Score=42.73 Aligned_cols=47 Identities=26% Similarity=0.491 Sum_probs=36.4
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCC
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 209 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~~ 209 (212)
..|-.|... +....+++|||..+..|..-| +.+-||+|.+.+..+++
T Consensus 8 ~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 8 QPCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDDP 54 (55)
T ss_pred eeEEEcccc---ccccccccccceeeccccChh--hccCCCCCCCcccCCCC
Confidence 345555543 444678999999999998865 88899999999987775
No 66
>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=96.45 E-value=0.0022 Score=46.79 Aligned_cols=33 Identities=24% Similarity=0.555 Sum_probs=27.0
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHH
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIF 188 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~ 188 (212)
.++..|+||-..+.. ....+.||||.||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 345669999999865 556778999999999975
No 67
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.0024 Score=56.24 Aligned_cols=48 Identities=23% Similarity=0.660 Sum_probs=40.7
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
.|++.|+||.-. ....+..||+|.-|.+||.+-|-+++.|=.|+..+.
T Consensus 420 sEd~lCpICyA~---pi~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAG---PINAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecc---cchhhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 567789999763 334667899999999999999999999999998764
No 68
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.31 E-value=0.0025 Score=57.01 Aligned_cols=37 Identities=24% Similarity=0.723 Sum_probs=29.3
Q ss_pred cCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCcccccc
Q 028186 168 DAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQEM 204 (212)
Q Consensus 168 ~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPvCr~~l 204 (212)
..++....+.|||.|...||.+||-+ ...||.|..+-
T Consensus 17 ~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 17 AGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred cCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 34555677899999999999999953 35799997654
No 69
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.27 E-value=0.0024 Score=57.18 Aligned_cols=46 Identities=22% Similarity=0.383 Sum_probs=38.3
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc--------CCCCCcccc
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--------SDTCPVCNQ 202 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--------~~tCPvCr~ 202 (212)
-..|.||+++....+..+.++|+|+||..|+...+.. .-+||-++-
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 3469999999988788999999999999999999854 246887653
No 70
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.25 E-value=0.0043 Score=39.26 Aligned_cols=45 Identities=27% Similarity=0.646 Sum_probs=22.8
Q ss_pred cccccccccCCCC-eEEcCCCCcccHHHHHHHHh-cCCCCCcccccc
Q 028186 160 CPTCLEEYDAENP-RIITKCEHHFHLACIFEWME-RSDTCPVCNQEM 204 (212)
Q Consensus 160 C~ICle~~~~~~~-~~~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~l 204 (212)
||+|.++++.... ..--+||+.++..|...-++ ..+.||-||+..
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7999999944332 22235799999999999886 478999999864
No 71
>PHA03096 p28-like protein; Provisional
Probab=96.14 E-value=0.003 Score=54.66 Aligned_cols=45 Identities=33% Similarity=0.696 Sum_probs=31.3
Q ss_pred CccccccccccCC-----CCeEEcCCCCcccHHHHHHHHhcC---CCCCcccc
Q 028186 158 DVCPTCLEEYDAE-----NPRIITKCEHHFHLACIFEWMERS---DTCPVCNQ 202 (212)
Q Consensus 158 ~~C~ICle~~~~~-----~~~~~l~C~H~FH~~CI~~Wl~~~---~tCPvCr~ 202 (212)
..|.||+|..... --.++..|.|.||..||..|...+ .+||.||.
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 5699999986432 113345699999999999999543 34554443
No 72
>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=96.14 E-value=0.0024 Score=40.04 Aligned_cols=43 Identities=30% Similarity=0.798 Sum_probs=26.6
Q ss_pred cccccccccCCCCeEEcCC-CCcccHHHHHHHHhcCCCCCcccccccCC
Q 028186 160 CPTCLEEYDAENPRIITKC-EHHFHLACIFEWMERSDTCPVCNQEMIFD 207 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C-~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~ 207 (212)
|--|+-.... +..| .|..|..|+...|.+++.||+|.++++.+
T Consensus 5 CKsCWf~~k~-----Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 5 CKSCWFANKG-----LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLPTK 48 (50)
T ss_dssp --SS-S--SS-----EEE-SS-EEEHHHHHHT-SSSSEETTTTEE----
T ss_pred ChhhhhcCCC-----eeeecchhHHHHHHHHHhccccCCCcccCcCccc
Confidence 6667654433 5568 69999999999999999999999988754
No 73
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=96.13 E-value=0.0023 Score=59.05 Aligned_cols=52 Identities=35% Similarity=0.689 Sum_probs=41.1
Q ss_pred ccCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc-----CCCCCcccccccCCC
Q 028186 154 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-----SDTCPVCNQEMIFDL 208 (212)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-----~~tCPvCr~~l~~~~ 208 (212)
..++..|.+|-+.-+. .+.+.|.|.||.-||.+++.. +-+||+|-..+..|.
T Consensus 533 nk~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred ccCceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 3556689999986443 678899999999999988853 468999988876653
No 74
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.09 E-value=0.0057 Score=52.26 Aligned_cols=53 Identities=23% Similarity=0.508 Sum_probs=41.7
Q ss_pred cCCCccccccccccCCCCeEE-cCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRII-TKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 208 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~-l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~ 208 (212)
.....|||...+|......+. -+|||+|-..+|.+- .....||+|.+.+...+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFTEED 164 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccccCC
Confidence 556789999999965544444 479999999999996 34668999999886544
No 75
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.96 E-value=0.0015 Score=56.12 Aligned_cols=42 Identities=21% Similarity=0.676 Sum_probs=31.4
Q ss_pred CCccccccccccCCCCeEEcCCCCcc-cHHHHHHHHhcCCCCCccccccc
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHF-HLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~F-H~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
...|.||++.-.. .+.|.|||.. |.+|=.. =+.|||||+.|+
T Consensus 300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcc---eEEeecCcEEeehhhccc----cccCchHHHHHH
Confidence 5679999996544 7789999964 6666443 348999999763
No 76
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.93 E-value=0.0057 Score=50.80 Aligned_cols=50 Identities=26% Similarity=0.544 Sum_probs=40.0
Q ss_pred CCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhc--------CCCCCcccccccC
Q 028186 156 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--------SDTCPVCNQEMIF 206 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--------~~tCPvCr~~l~~ 206 (212)
-...|..|-..+..++. +.|-|-|.||.+|+.+|--. .-.||.|.++|.-
T Consensus 49 Y~pNC~LC~t~La~gdt-~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDT-TRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCCceeCCccccCcc-eeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 34469999888877774 46779999999999999854 2479999998863
No 77
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.84 E-value=0.0063 Score=48.79 Aligned_cols=53 Identities=23% Similarity=0.610 Sum_probs=36.7
Q ss_pred cCCCccccccccccCCC----CeEEcCCCCcccHHHHHHHHhc------C-----CCCCcccccccCC
Q 028186 155 EEEDVCPTCLEEYDAEN----PRIITKCEHHFHLACIFEWMER------S-----DTCPVCNQEMIFD 207 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~----~~~~l~C~H~FH~~CI~~Wl~~------~-----~tCPvCr~~l~~~ 207 (212)
++...|.||+-.--.|. ..--..||.-||.-|+..||+. + +.||+|-+++..+
T Consensus 163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 34446999976432222 1223569999999999999964 1 5799999887554
No 78
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.64 E-value=0.0078 Score=53.08 Aligned_cols=44 Identities=30% Similarity=0.708 Sum_probs=32.9
Q ss_pred CCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028186 156 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
..+.|.||+++... .+.++|||.-+ |+.--.. ..+||+||+.+.
T Consensus 304 ~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~~-l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSKH-LPQCPVCRQRIR 347 (355)
T ss_pred CCCceEEecCCccc---eeeecCCcEEE--chHHHhh-CCCCchhHHHHH
Confidence 45579999998755 67899999966 7666432 334999998763
No 79
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.39 E-value=0.01 Score=52.08 Aligned_cols=53 Identities=25% Similarity=0.579 Sum_probs=37.1
Q ss_pred ccccCCCccccccccccCCCCeE-EcCCCCcccHHHHHHHHh-cCCCCCcccccc
Q 028186 152 AVIEEEDVCPTCLEEYDAENPRI-ITKCEHHFHLACIFEWME-RSDTCPVCNQEM 204 (212)
Q Consensus 152 ~~~ee~~~C~ICle~~~~~~~~~-~l~C~H~FH~~CI~~Wl~-~~~tCPvCr~~l 204 (212)
.+++++|.||.|+|+++..+.-. --+||-..|.-|...--+ -++.||.||...
T Consensus 9 ~sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 9 NSEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred ccccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 45567778999999997655333 356898877777554322 257899999854
No 80
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.36 E-value=0.016 Score=51.07 Aligned_cols=50 Identities=24% Similarity=0.478 Sum_probs=39.5
Q ss_pred ccccCCCccccccccccCCCCeEEcCCCCcccHHHHHHH--HhcCCCCCcccccc
Q 028186 152 AVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEW--MERSDTCPVCNQEM 204 (212)
Q Consensus 152 ~~~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~W--l~~~~tCPvCr~~l 204 (212)
..+|++..|-||-+.+.. ..++||+|..|.-|-.+- |=..+.||+||.++
T Consensus 56 dtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 56 DTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 345777789999987765 668999999999998653 33467899999864
No 81
>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=95.05 E-value=0.0097 Score=36.76 Aligned_cols=41 Identities=22% Similarity=0.600 Sum_probs=22.1
Q ss_pred cccccccccCCCCeEEcCCCCcccHHHHHHHHhcCC--CCCcc
Q 028186 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD--TCPVC 200 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~--tCPvC 200 (212)
|.+|-+....|..-....|+=.+|..|+..+++... .||.|
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 567777665543222225888999999999997765 79988
No 82
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.01 E-value=0.02 Score=51.18 Aligned_cols=47 Identities=26% Similarity=0.513 Sum_probs=40.3
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhcC---CCCCcccccc
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS---DTCPVCNQEM 204 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~---~tCPvCr~~l 204 (212)
.+|||=.++-..+||+..|.|||+...+=|.+-.+.. -+||+|-.+.
T Consensus 335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 3899999999999999999999999999999966543 4799996543
No 83
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=94.91 E-value=0.012 Score=51.44 Aligned_cols=51 Identities=29% Similarity=0.705 Sum_probs=40.9
Q ss_pred CCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028186 156 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 208 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~ 208 (212)
+...||||+-.- .|+.++.-=|-+||..||...+...+.|||=..++.+++
T Consensus 299 ~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~ 349 (357)
T KOG0826|consen 299 DREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDH 349 (357)
T ss_pred ccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHH
Confidence 445799999865 445555556999999999999999999999877766554
No 84
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.88 E-value=0.0015 Score=58.09 Aligned_cols=48 Identities=19% Similarity=0.475 Sum_probs=40.2
Q ss_pred ccccccccccCC-CCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccC
Q 028186 159 VCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 206 (212)
Q Consensus 159 ~C~ICle~~~~~-~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~ 206 (212)
.|+||.+.|... +....+.|||.+|.+||.+||.....||-|+.++..
T Consensus 198 sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 198 SLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred hhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 599999988554 334457799999999999999999999999998753
No 85
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=94.88 E-value=0.014 Score=50.12 Aligned_cols=45 Identities=31% Similarity=0.605 Sum_probs=37.2
Q ss_pred Ccccccccccc-CCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 158 DVCPTCLEEYD-AENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 158 ~~C~ICle~~~-~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
..||||.|.+. ....+..++|||.-|..|..+-....=+||+|.+
T Consensus 159 ~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 159 FNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 34999999863 3455667999999999999988877789999987
No 86
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=94.50 E-value=0.042 Score=43.28 Aligned_cols=33 Identities=21% Similarity=0.609 Sum_probs=22.5
Q ss_pred CCccccccccccCCCCeEEcCCC-------------CcccHHHHHHHHh
Q 028186 157 EDVCPTCLEEYDAENPRIITKCE-------------HHFHLACIFEWME 192 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~-------------H~FH~~CI~~Wl~ 192 (212)
+.+||||||-- +..++|.|. -.-|..|+++.-+
T Consensus 2 d~~CpICme~P---HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 2 DVTCPICMEHP---HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CccCceeccCC---CceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 55799999953 335666663 3457889998753
No 87
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.44 E-value=0.02 Score=55.62 Aligned_cols=42 Identities=29% Similarity=0.777 Sum_probs=34.5
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
.+|.+|--.. +-|.+...|||.||..|+. +....||-|+.++
T Consensus 841 skCs~C~~~L--dlP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTL--DLPFVHFLCGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCcc--ccceeeeecccHHHHHhhc---cCcccCCccchhh
Confidence 4799997766 4478889999999999998 5667899998743
No 88
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.29 E-value=0.011 Score=56.90 Aligned_cols=47 Identities=26% Similarity=0.674 Sum_probs=38.2
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhcC--CCCCcccccccCCC
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--DTCPVCNQEMIFDL 208 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~--~tCPvCr~~l~~~~ 208 (212)
..|.||++ .+..+.+.|+|.||..|+.+-++.. ..||+||..+..+.
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~ 503 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKK 503 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHH
Confidence 57999999 4457789999999999999988664 36999998765443
No 89
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.92 E-value=0.021 Score=45.15 Aligned_cols=29 Identities=24% Similarity=0.533 Sum_probs=26.0
Q ss_pred CCCccccccccccCCCCeEEcCCCCcccH
Q 028186 156 EEDVCPTCLEEYDAENPRIITKCEHHFHL 184 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C~H~FH~ 184 (212)
+.-+|.||||++..++.+..|+|--+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEeec
Confidence 44469999999999999999999999996
No 90
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.81 E-value=0.027 Score=47.61 Aligned_cols=50 Identities=26% Similarity=0.704 Sum_probs=35.6
Q ss_pred ccCCCccccccccccCCCCe--EEcCC-----CCcccHHHHHHHHhcC--------CCCCcccccc
Q 028186 154 IEEEDVCPTCLEEYDAENPR--IITKC-----EHHFHLACIFEWMERS--------DTCPVCNQEM 204 (212)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~--~~l~C-----~H~FH~~CI~~Wl~~~--------~tCPvCr~~l 204 (212)
.+.+..|=||+..=+ ++.. -+-|| .|..|..|+..|+..+ -+||.|+.+.
T Consensus 17 ~e~eR~CWiCF~Tde-Dn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 17 QELERCCWICFATDE-DNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred cccceeEEEEeccCc-ccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 355678999998532 3322 23456 5999999999999553 2699999875
No 91
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.73 E-value=0.04 Score=47.68 Aligned_cols=49 Identities=29% Similarity=0.550 Sum_probs=35.7
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhc-CCCCCcc-cccccCCC
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVC-NQEMIFDL 208 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~-~~tCPvC-r~~l~~~~ 208 (212)
..|+.|---. .++....-|+|.||.+||...|-- -..||.| |+.++.+.
T Consensus 275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld~ 325 (427)
T COG5222 275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLDG 325 (427)
T ss_pred ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhhc
Confidence 5799987754 344444458999999999988855 4689999 55555443
No 92
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.73 E-value=0.036 Score=48.35 Aligned_cols=43 Identities=26% Similarity=0.583 Sum_probs=34.0
Q ss_pred CCCccccccccccCCCCeEEcCC--CCcccHHHHHHHHhcCCCCCccccccc
Q 028186 156 EEDVCPTCLEEYDAENPRIITKC--EHHFHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~C--~H~FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
+-..||||.+.+.. -+.+| ||.-|..|-. +.++.||.||.+|.
T Consensus 47 ~lleCPvC~~~l~~----Pi~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSP----PIFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCcc----cceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 34469999998865 24678 8999999976 46889999999875
No 93
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.31 E-value=0.076 Score=51.19 Aligned_cols=30 Identities=30% Similarity=0.815 Sum_probs=25.8
Q ss_pred CCCeEEcCCCCcccHHHHHHHHhcCCCCCc
Q 028186 170 ENPRIITKCEHHFHLACIFEWMERSDTCPV 199 (212)
Q Consensus 170 ~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPv 199 (212)
+...++..|+|+.|.+|..+|++....||-
T Consensus 1040 gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1040 GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 344566789999999999999999999984
No 94
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.11 E-value=0.095 Score=50.90 Aligned_cols=54 Identities=33% Similarity=0.743 Sum_probs=41.6
Q ss_pred cCCCccccccccccCCCCeEE-cCCC---CcccHHHHHHHHhcC--CCCCcccccccCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRII-TKCE---HHFHLACIFEWMERS--DTCPVCNQEMIFDL 208 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~-l~C~---H~FH~~CI~~Wl~~~--~tCPvCr~~l~~~~ 208 (212)
++...|.||.-+-..++++.. -+|. -..|.+|+.+||.-+ .+|-+|..++.+++
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 445679999998877776643 2342 568999999999765 57999999988775
No 95
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.09 E-value=0.038 Score=55.93 Aligned_cols=44 Identities=30% Similarity=0.638 Sum_probs=36.9
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
...|.||++.... -..+..|||.|+..|+..|+..+..||+|+.
T Consensus 1153 ~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1153 HFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred ccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 3489999998752 2346679999999999999999999999974
No 96
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.75 E-value=0.1 Score=45.06 Aligned_cols=48 Identities=27% Similarity=0.697 Sum_probs=36.3
Q ss_pred CCccccccccccCCCC-eEEcCCC-----CcccHHHHHHHHh--cCCCCCcccccc
Q 028186 157 EDVCPTCLEEYDAENP-RIITKCE-----HHFHLACIFEWME--RSDTCPVCNQEM 204 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~-~~~l~C~-----H~FH~~CI~~Wl~--~~~tCPvCr~~l 204 (212)
+..|-||.++....+. ....+|. +..|..|+..|+. .+..|.+|....
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 4679999997754332 4456773 7789999999997 567899998754
No 97
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=91.08 E-value=0.11 Score=50.91 Aligned_cols=39 Identities=28% Similarity=0.614 Sum_probs=31.4
Q ss_pred cccCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHh
Q 028186 153 VIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME 192 (212)
Q Consensus 153 ~~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~ 192 (212)
..+-.+.|.||.-.+.. .+-.+.+|||.||.+||.+-+.
T Consensus 813 v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred EecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence 34667789999887744 3677889999999999998773
No 98
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=89.67 E-value=0.47 Score=30.71 Aligned_cols=46 Identities=17% Similarity=0.556 Sum_probs=33.5
Q ss_pred CCccccccccccC-CCCeEEcCCCCcccHHHHHHHHhcCCCCCc--ccccccC
Q 028186 157 EDVCPTCLEEYDA-ENPRIITKCEHHFHLACIFEWMERSDTCPV--CNQEMIF 206 (212)
Q Consensus 157 ~~~C~ICle~~~~-~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPv--Cr~~l~~ 206 (212)
...|++|-+.|.. ++.++...||=-+|..|..+ ...|-+ |...+.+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~~~~ 53 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTGFEW 53 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCCccc
Confidence 4569999999974 45566677999999999654 566665 6655443
No 99
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.44 E-value=0.23 Score=46.86 Aligned_cols=49 Identities=35% Similarity=0.775 Sum_probs=40.9
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCCC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV 210 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~~~ 210 (212)
+..+.|.||+++. ....++|. |.-|+.+|+..+..||+|++.+..++..
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred cccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 4567799999988 24456777 9999999999999999999998887754
No 100
>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=88.39 E-value=0.62 Score=29.57 Aligned_cols=43 Identities=23% Similarity=0.550 Sum_probs=21.0
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhc---C--CCCCccccc
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---S--DTCPVCNQE 203 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~---~--~tCPvCr~~ 203 (212)
..|||....+ ..|++...|.|.-+.+ +..||+. . -.||+|++.
T Consensus 3 L~CPls~~~i--~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRI--RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB---SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEE--EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 3588888876 4477778899985432 3445533 2 259999863
No 101
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=87.82 E-value=0.2 Score=47.40 Aligned_cols=44 Identities=27% Similarity=0.725 Sum_probs=31.1
Q ss_pred cCCCcccccccc-----ccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028186 155 EEEDVCPTCLEE-----YDAENPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (212)
Q Consensus 155 ee~~~C~ICle~-----~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (212)
.....|.||... |..++......|+++||.+|+.. .+.-||.|-
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 456678888433 34455666788999999999554 445599994
No 102
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=87.52 E-value=0.23 Score=43.28 Aligned_cols=29 Identities=28% Similarity=0.843 Sum_probs=22.2
Q ss_pred EEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 174 IITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 174 ~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
++.+|.|+||++|... ..-+.||.|...+
T Consensus 105 RmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 105 RMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred cccccchhhhhhhhhc--CccccCcCcccHH
Confidence 4689999999999654 3346799996543
No 103
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.05 E-value=0.23 Score=47.24 Aligned_cols=43 Identities=19% Similarity=0.482 Sum_probs=31.8
Q ss_pred CCccccccccccCC-CCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 157 EDVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 157 ~~~C~ICle~~~~~-~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
-..|+||+..|-.+ -..+.+.|||..|..|+..-.. .+|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn--~scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYN--ASCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhh--ccCC-CCc
Confidence 44699999888443 3456788999999999998644 4588 543
No 104
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=86.99 E-value=0.45 Score=41.64 Aligned_cols=46 Identities=26% Similarity=0.520 Sum_probs=37.7
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhc---CCCCCccccc
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQE 203 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~ 203 (212)
..||+=-|.-..+|++.++.|||+.-.+=++..-++ .-+||+|-..
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~ 385 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEM 385 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcc
Confidence 389999999899999999999999998888774433 2479999654
No 105
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.88 E-value=0.22 Score=44.95 Aligned_cols=38 Identities=29% Similarity=0.645 Sum_probs=28.5
Q ss_pred CCcccccc-ccccCCCCeEEcCCCCcccHHHHHHHHhcC
Q 028186 157 EDVCPTCL-EEYDAENPRIITKCEHHFHLACIFEWMERS 194 (212)
Q Consensus 157 ~~~C~ICl-e~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~ 194 (212)
..+|.||+ +....+.-..+..|+|.||..|+.+-++.+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~ 184 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVK 184 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhh
Confidence 55799999 444443434468899999999999988754
No 106
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=86.86 E-value=0.16 Score=48.77 Aligned_cols=45 Identities=29% Similarity=0.727 Sum_probs=36.4
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcC---CCCCcccccc
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS---DTCPVCNQEM 204 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~---~tCPvCr~~l 204 (212)
...|+||++.|.. .+.++|.|.|+..|+..-|+.. ..||+|+..+
T Consensus 21 ~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 21 ILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 4569999999866 3788999999999998877554 5799998654
No 107
>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 PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=85.56 E-value=0.61 Score=38.33 Aligned_cols=43 Identities=23% Similarity=0.719 Sum_probs=32.3
Q ss_pred cCCCcccccccc-----ccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 155 EEEDVCPTCLEE-----YDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 155 ee~~~C~ICle~-----~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
..+..|-||-.. |+.++......|+-+||..|.. +..||-|..
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 346678888753 4555667778899999999976 267999943
No 109
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=85.08 E-value=0.5 Score=46.03 Aligned_cols=49 Identities=16% Similarity=0.266 Sum_probs=34.8
Q ss_pred CCCccccccccccC-C---CCeEEcCCCCcccHHHHHHHHhc------CCCCCcccccc
Q 028186 156 EEDVCPTCLEEYDA-E---NPRIITKCEHHFHLACIFEWMER------SDTCPVCNQEM 204 (212)
Q Consensus 156 e~~~C~ICle~~~~-~---~~~~~l~C~H~FH~~CI~~Wl~~------~~tCPvCr~~l 204 (212)
+.+.|.||+.++.. . ....+-.|+|.||..||..|+.+ .-.|+.|..-|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 45678888888855 1 12223449999999999999965 34588887644
No 110
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.94 E-value=0.86 Score=39.29 Aligned_cols=36 Identities=22% Similarity=0.533 Sum_probs=28.9
Q ss_pred CCCCeEEcCCCCcccHHHHHHHHhcC-CCCCcccccc
Q 028186 169 AENPRIITKCEHHFHLACIFEWMERS-DTCPVCNQEM 204 (212)
Q Consensus 169 ~~~~~~~l~C~H~FH~~CI~~Wl~~~-~tCPvCr~~l 204 (212)
....+..|+|||.|+..|+.+-+... ..||.||...
T Consensus 18 ~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 18 GDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred cccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 34446678899999999999987665 5699999974
No 111
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.87 E-value=0.54 Score=40.75 Aligned_cols=31 Identities=19% Similarity=0.563 Sum_probs=23.5
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCCcccccccCCC
Q 028186 178 CEHHFHLACIFEWME-------------RSDTCPVCNQEMIFDL 208 (212)
Q Consensus 178 C~H~FH~~CI~~Wl~-------------~~~tCPvCr~~l~~~~ 208 (212)
|.-..|.+|+-+|+. .+-+||.||+.+...+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~d 368 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRD 368 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEee
Confidence 456778899998883 3568999999875543
No 112
>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=83.66 E-value=0.68 Score=41.43 Aligned_cols=51 Identities=22% Similarity=0.694 Sum_probs=33.6
Q ss_pred cCCCccccccccccCCCCeEEcCC---------------------CCcccHHHHHHHHhc-------------CCCCCcc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKC---------------------EHHFHLACIFEWMER-------------SDTCPVC 200 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C---------------------~H~FH~~CI~~Wl~~-------------~~tCPvC 200 (212)
++.+.|--|+..- .+.++.-.| .=..|.+|+-+|+-. +-.||.|
T Consensus 269 ~e~e~CigC~~~~--~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtC 346 (358)
T PF10272_consen 269 QELEPCIGCMQAQ--PNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTC 346 (358)
T ss_pred cccCCccccccCC--CCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCC
Confidence 6777899998752 222222222 345689999999932 3479999
Q ss_pred cccccCC
Q 028186 201 NQEMIFD 207 (212)
Q Consensus 201 r~~l~~~ 207 (212)
|+.+..-
T Consensus 347 Ra~FCil 353 (358)
T PF10272_consen 347 RAKFCIL 353 (358)
T ss_pred cccceee
Confidence 9987543
No 113
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=83.07 E-value=0.65 Score=45.18 Aligned_cols=45 Identities=22% Similarity=0.588 Sum_probs=34.2
Q ss_pred CCccccccccccC-C---CCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 157 EDVCPTCLEEYDA-E---NPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 157 ~~~C~ICle~~~~-~---~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
+..|.-|++.... + +..+++.|||.||..|+.--+.+++ |-.|..
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~~ 832 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIESG 832 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhhc
Confidence 3369999988742 2 4677899999999999988877665 666643
No 114
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=80.97 E-value=0.64 Score=29.04 Aligned_cols=44 Identities=23% Similarity=0.519 Sum_probs=30.1
Q ss_pred ccccccccccCCCCeEEcCCCCcccHHHHHHHHhc------CCCCCcccc
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER------SDTCPVCNQ 202 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~------~~tCPvCr~ 202 (212)
.|.||......+.-+..-.|+..||..|+..=.+. .-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 48899985554555555679999999998765431 235777753
No 115
>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=80.46 E-value=0.68 Score=39.09 Aligned_cols=48 Identities=27% Similarity=0.720 Sum_probs=34.6
Q ss_pred CCcccccccc-ccCCCCeE-EcC-CCCcccHHHHHHHHhcC-CCCC--cccccc
Q 028186 157 EDVCPTCLEE-YDAENPRI-ITK-CEHHFHLACIFEWMERS-DTCP--VCNQEM 204 (212)
Q Consensus 157 ~~~C~ICle~-~~~~~~~~-~l~-C~H~FH~~CI~~Wl~~~-~tCP--vCr~~l 204 (212)
+..||||..+ |-..+-++ +-| |=|..|.+|+++-+.+. ..|| -|.+-+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kIL 63 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKIL 63 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHH
Confidence 4479999976 33333333 334 99999999999999764 6799 787643
No 116
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=77.88 E-value=1.9 Score=33.16 Aligned_cols=53 Identities=21% Similarity=0.286 Sum_probs=36.3
Q ss_pred CCCccccccccccCCCCeEE-cCCCCcccHHHHHHHHhc---CCCCCcccccccCCC
Q 028186 156 EEDVCPTCLEEYDAENPRII-TKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDL 208 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~-l~C~H~FH~~CI~~Wl~~---~~tCPvCr~~l~~~~ 208 (212)
.-..|-||.|.-.++.-+.- --||-..|..|...-.+- ...||+|+..+....
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 34579999998655432211 128999999887765544 468999999876543
No 117
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.64 E-value=1.4 Score=40.43 Aligned_cols=38 Identities=26% Similarity=0.565 Sum_probs=31.4
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcC
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS 194 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~ 194 (212)
.....|.||.+.+.. ..+.+.|||.|+..|+..-+.++
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhhe
Confidence 345679999999865 56678999999999999999663
No 118
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.97 E-value=1.2 Score=38.41 Aligned_cols=48 Identities=23% Similarity=0.627 Sum_probs=36.1
Q ss_pred cCCCccccccccccCCCCeEEcCC----CCcccHHHHHHHHhcC-----------CCCCccccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKC----EHHFHLACIFEWMERS-----------DTCPVCNQEMI 205 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C----~H~FH~~CI~~Wl~~~-----------~tCPvCr~~l~ 205 (212)
.....|.+|.|.+++.+ ..+| .|.||.-|-.+-++++ .+||+=...|.
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 34568999999997754 3456 7999999999999874 46776655543
No 119
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=75.76 E-value=2.6 Score=40.96 Aligned_cols=43 Identities=19% Similarity=0.408 Sum_probs=31.8
Q ss_pred ccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCc--ccc
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPV--CNQ 202 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPv--Cr~ 202 (212)
.|.+|-..+.. .-.-.-.|||.-|.+|+++|+.....||. |-.
T Consensus 781 ~CtVC~~vi~G-~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~ 825 (839)
T KOG0269|consen 781 KCTVCDLVIRG-VDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPH 825 (839)
T ss_pred Cceeecceeee-eEeecccccccccHHHHHHHHhcCCCCccccCCc
Confidence 58888665432 22334569999999999999999888876 644
No 120
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=70.15 E-value=2.4 Score=35.12 Aligned_cols=43 Identities=26% Similarity=0.590 Sum_probs=34.9
Q ss_pred ccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccc
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 203 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~ 203 (212)
.|.+|.+-...+ ..+-.|+-.+|..||.+.+.+...||.|..-
T Consensus 183 ~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc~d~ 225 (235)
T KOG4718|consen 183 NCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHCGDL 225 (235)
T ss_pred HHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCchhcc
Confidence 799998876442 3456688999999999999999999999553
No 121
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.35 E-value=2.5 Score=38.19 Aligned_cols=41 Identities=27% Similarity=0.646 Sum_probs=29.3
Q ss_pred ccccccccc---cCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcc
Q 028186 159 VCPTCLEEY---DAENPRIITKCEHHFHLACIFEWMERSDTCPVC 200 (212)
Q Consensus 159 ~C~ICle~~---~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvC 200 (212)
.|++|.-.+ ..-+..... |||.|+..|.-.|...+..|.-|
T Consensus 308 ~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 308 QCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 477776554 333334444 99999999999998888777555
No 122
>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=66.97 E-value=3.2 Score=26.54 Aligned_cols=42 Identities=26% Similarity=0.618 Sum_probs=19.8
Q ss_pred cccccccccCC-------CCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028186 160 CPTCLEEYDAE-------NPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (212)
Q Consensus 160 C~ICle~~~~~-------~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (212)
|--|+..|... ..-....|+++|+.+|=.--=+.=..||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 44455555443 1233467999999999333223446799883
No 123
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=66.18 E-value=1.4 Score=37.71 Aligned_cols=51 Identities=24% Similarity=0.520 Sum_probs=35.6
Q ss_pred Ccccccccccc-CCCCeEE---cCCCCcccHHHHHHHHhc---------CCCCCcccccccCCC
Q 028186 158 DVCPTCLEEYD-AENPRII---TKCEHHFHLACIFEWMER---------SDTCPVCNQEMIFDL 208 (212)
Q Consensus 158 ~~C~ICle~~~-~~~~~~~---l~C~H~FH~~CI~~Wl~~---------~~tCPvCr~~l~~~~ 208 (212)
..|-||..++. .+..... ..|+-++|..|+-.-+.. ...||.|++.+.+.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w~~ 246 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSWTT 246 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeHHH
Confidence 57999999994 3332221 348999999999984422 368999999765543
No 124
>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=65.56 E-value=3 Score=27.73 Aligned_cols=38 Identities=16% Similarity=0.307 Sum_probs=19.9
Q ss_pred ccCCCccccccccccCCCCeE-EcCCCCcccHHHHHHHH
Q 028186 154 IEEEDVCPTCLEEYDAENPRI-ITKCEHHFHLACIFEWM 191 (212)
Q Consensus 154 ~ee~~~C~ICle~~~~~~~~~-~l~C~H~FH~~CI~~Wl 191 (212)
+.+...|.+|...|..-.... .-.||++|+..|....+
T Consensus 6 d~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 6 DSEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GGG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 455678999999996543333 34599999999987654
No 125
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=63.55 E-value=3.7 Score=24.12 Aligned_cols=25 Identities=32% Similarity=0.873 Sum_probs=15.7
Q ss_pred ccccccccccCCC--------CeEEcCCCCccc
Q 028186 159 VCPTCLEEYDAEN--------PRIITKCEHHFH 183 (212)
Q Consensus 159 ~C~ICle~~~~~~--------~~~~l~C~H~FH 183 (212)
+|+=|.-.|...+ .+....|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 4788887775433 244466788774
No 126
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.50 E-value=3.5 Score=34.10 Aligned_cols=39 Identities=26% Similarity=0.608 Sum_probs=27.2
Q ss_pred cccccccccCCCCeEEcCCCCc-ccHHHHHHHHhcCCCCCccccccc
Q 028186 160 CPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~-FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
|-+|-+. +..+.++||.|+ +|..|=.. -..||+|+....
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChhh
Confidence 8888774 444788999765 66667432 456999987553
No 127
>TIGR03602 streptolysinS bacteriocin protoxin, streptolysin S family. Members of this family are bacteriocin precursors. These small, ribosomally produced polypeptide precursors are extensively processed post-translationally. This family belongs to a class of heterocycle-containing bacteriocins, including streptolysin S from Streptococcus pyogenes, and related bacteriocins from Streptococcus iniae and Clostridium botulinum. Streptolysin S is hemolytic. Bacteriocin genes in general are small and highly diverse, with odd sequence composition, and are easily missed by many gene-finding programs.
Probab=63.13 E-value=2.5 Score=26.68 Aligned_cols=8 Identities=75% Similarity=2.469 Sum_probs=5.2
Q ss_pred CCcccCCC
Q 028186 2 GGCCCCSS 9 (212)
Q Consensus 2 g~~c~~~~ 9 (212)
||||||..
T Consensus 24 ggcccccc 31 (56)
T TIGR03602 24 GGCCCCCC 31 (56)
T ss_pred CCeEEEec
Confidence 77776653
No 128
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=62.81 E-value=6.3 Score=34.77 Aligned_cols=50 Identities=22% Similarity=0.523 Sum_probs=37.8
Q ss_pred CccccccccccCCC-CeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCC
Q 028186 158 DVCPTCLEEYDAEN-PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 207 (212)
Q Consensus 158 ~~C~ICle~~~~~~-~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~ 207 (212)
..|+||-+.....+ ..+-.+|+|..|+.|...-.....+||.||+.....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 47999999874433 223345899999999888888889999999876543
No 129
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=62.59 E-value=5.6 Score=22.10 Aligned_cols=29 Identities=21% Similarity=0.476 Sum_probs=11.6
Q ss_pred ccccccccccCCCCeEEcCCCCcccHHHH
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHLACI 187 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI 187 (212)
.|.+|.+....+..-....|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 48888887765455566889999999986
No 130
>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=61.80 E-value=2.6 Score=38.06 Aligned_cols=44 Identities=30% Similarity=0.684 Sum_probs=0.0
Q ss_pred CCcccccccccc-----------CCCCeEEcCCCCcccHHHHHHHHhc------CCCCCccccc
Q 028186 157 EDVCPTCLEEYD-----------AENPRIITKCEHHFHLACIFEWMER------SDTCPVCNQE 203 (212)
Q Consensus 157 ~~~C~ICle~~~-----------~~~~~~~l~C~H~FH~~CI~~Wl~~------~~tCPvCr~~ 203 (212)
-..||+=|..+. ...+-+-+.|||++.. ..|-.+ ..+||+||+.
T Consensus 277 rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 277 RPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ----------------------------------------------------------------
T ss_pred CCCCCcCCCccccccccccccccccCceeeccccceeee---cccccccccccccccCCCcccc
Confidence 445887765541 1345667999999874 577632 4579999975
No 131
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=60.86 E-value=4 Score=26.94 Aligned_cols=14 Identities=29% Similarity=0.883 Sum_probs=10.9
Q ss_pred CCCCCcccccccCC
Q 028186 194 SDTCPVCNQEMIFD 207 (212)
Q Consensus 194 ~~tCPvCr~~l~~~ 207 (212)
..+||+|+.+|...
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 36899999988643
No 132
>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=60.22 E-value=4.8 Score=21.96 Aligned_cols=23 Identities=26% Similarity=0.690 Sum_probs=12.2
Q ss_pred ccccccccccCCCCeEEcCCCCcc
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHF 182 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~F 182 (212)
.||-|..++... ......|||.|
T Consensus 2 ~CP~C~~~V~~~-~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES-AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh-cCcCCCCCCCC
Confidence 477777665321 23334467766
No 133
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=59.51 E-value=11 Score=28.05 Aligned_cols=45 Identities=20% Similarity=0.467 Sum_probs=34.4
Q ss_pred CCccccccccccCC-----------CCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028186 157 EDVCPTCLEEYDAE-----------NPRIITKCEHHFHLACIFEWMERSDTCPVCN 201 (212)
Q Consensus 157 ~~~C~ICle~~~~~-----------~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr 201 (212)
...|--|+..|... ..-....|.+.|+.+|=.-|-+.=..||-|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 34599999988532 1122578999999999888888888899996
No 134
>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=56.70 E-value=11 Score=21.32 Aligned_cols=37 Identities=16% Similarity=0.459 Sum_probs=22.9
Q ss_pred ccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
.|..|-+.+..+... +..=+..||..| -+|..|++.|
T Consensus 1 ~C~~C~~~i~~~~~~-~~~~~~~~H~~C--------f~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELV-LRALGKVWHPEC--------FKCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEE-EEeCCccccccC--------CCCcccCCcC
Confidence 377888877554222 222377888776 3477787765
No 135
>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 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=56.12 E-value=7.4 Score=26.21 Aligned_cols=12 Identities=25% Similarity=0.803 Sum_probs=8.7
Q ss_pred cccHHHHHHHHh
Q 028186 181 HFHLACIFEWME 192 (212)
Q Consensus 181 ~FH~~CI~~Wl~ 192 (212)
-||..|+.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999985
No 137
>PRK05978 hypothetical protein; Provisional
Probab=55.72 E-value=7.2 Score=30.58 Aligned_cols=28 Identities=18% Similarity=0.536 Sum_probs=21.4
Q ss_pred CCcccHHHHHHHHhcCCCCCcccccccCCCCCC
Q 028186 179 EHHFHLACIFEWMERSDTCPVCNQEMIFDLPVD 211 (212)
Q Consensus 179 ~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~~~~ 211 (212)
|+.|+ .+|+.+.+||+|..++...+.-|
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~a~D 69 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHRADD 69 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCCccc
Confidence 45665 78899999999999887655433
No 138
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.24 E-value=10 Score=32.29 Aligned_cols=36 Identities=25% Similarity=0.377 Sum_probs=29.9
Q ss_pred cccCCCccccccccccCCCCeEEcCCCCcccHHHHHHHH
Q 028186 153 VIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWM 191 (212)
Q Consensus 153 ~~ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl 191 (212)
+....+.|..||..+.. .++++=||+|+.+||.+.+
T Consensus 39 siK~FdcCsLtLqPc~d---Pvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 39 SIKPFDCCSLTLQPCRD---PVITPDGYLFDREAILEYI 74 (303)
T ss_pred ccCCcceeeeecccccC---CccCCCCeeeeHHHHHHHH
Confidence 34567889999998855 5677789999999999987
No 139
>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=53.82 E-value=1.1 Score=30.55 Aligned_cols=39 Identities=28% Similarity=0.705 Sum_probs=19.7
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
..||+|..++.... +|.+|..|-.. ++....||-|.++|
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHH
Confidence 35889988764322 55566666544 45566788888876
No 140
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.29 E-value=12 Score=31.91 Aligned_cols=51 Identities=20% Similarity=0.324 Sum_probs=36.2
Q ss_pred CCCccccccccccCCCC-eEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028186 156 EEDVCPTCLEEYDAENP-RIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 208 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~-~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~~ 208 (212)
....|||=--++..... ..+-.|||+|-..=+.+- ....|++|.+.+..++
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 34579987766644322 234579999999887774 4678999999876655
No 141
>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=52.29 E-value=11 Score=21.50 Aligned_cols=9 Identities=44% Similarity=1.088 Sum_probs=6.4
Q ss_pred CCCCCcccc
Q 028186 194 SDTCPVCNQ 202 (212)
Q Consensus 194 ~~tCPvCr~ 202 (212)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 447888865
No 142
>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=49.76 E-value=5.9 Score=25.21 Aligned_cols=10 Identities=30% Similarity=1.076 Sum_probs=5.0
Q ss_pred CCCccccccc
Q 028186 196 TCPVCNQEMI 205 (212)
Q Consensus 196 tCPvCr~~l~ 205 (212)
.||+|...|.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 8999988763
No 143
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=49.14 E-value=11 Score=22.21 Aligned_cols=25 Identities=28% Similarity=0.745 Sum_probs=15.6
Q ss_pred ccccccccccCCC--------CeEEcCCCCccc
Q 028186 159 VCPTCLEEYDAEN--------PRIITKCEHHFH 183 (212)
Q Consensus 159 ~C~ICle~~~~~~--------~~~~l~C~H~FH 183 (212)
.||-|.-.|...+ .+....|+|.|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 4888887774432 344456777774
No 144
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=49.10 E-value=24 Score=24.62 Aligned_cols=49 Identities=16% Similarity=0.430 Sum_probs=20.0
Q ss_pred CCCccccccccccC---CCCeE-EcCCCCcccHHHHHHHH-hcCCCCCcccccc
Q 028186 156 EEDVCPTCLEEYDA---ENPRI-ITKCEHHFHLACIFEWM-ERSDTCPVCNQEM 204 (212)
Q Consensus 156 e~~~C~ICle~~~~---~~~~~-~l~C~H~FH~~CI~~Wl-~~~~tCPvCr~~l 204 (212)
...+|-||-+++.. +++-+ .-.|+--.|..|..==. +.++.||.|+...
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 45679999998732 33322 34588888888975332 4467899998754
No 145
>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=48.44 E-value=11 Score=28.01 Aligned_cols=46 Identities=22% Similarity=0.577 Sum_probs=30.6
Q ss_pred CCCccccccccc--cCCCCeEEcCCCCcccHHHHHHHHhcCC---CCCccccc
Q 028186 156 EEDVCPTCLEEY--DAENPRIITKCEHHFHLACIFEWMERSD---TCPVCNQE 203 (212)
Q Consensus 156 e~~~C~ICle~~--~~~~~~~~l~C~H~FH~~CI~~Wl~~~~---tCPvCr~~ 203 (212)
.+..|.+|...| ..+.......|.|.+|..|-.. ..+. .|-+|.+.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--TSSSCCEEEHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc--CCCCCCEEChhhHHH
Confidence 456899999987 3344577788999999999655 2222 38888653
No 146
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=48.37 E-value=13 Score=24.16 Aligned_cols=19 Identities=26% Similarity=0.684 Sum_probs=16.0
Q ss_pred CCCCCcccccccCCCCCCC
Q 028186 194 SDTCPVCNQEMIFDLPVDY 212 (212)
Q Consensus 194 ~~tCPvCr~~l~~~~~~~~ 212 (212)
+..||.|........|..|
T Consensus 17 k~~CP~CG~~t~~~~P~rf 35 (56)
T PRK13130 17 KEICPVCGGKTKNPHPPRF 35 (56)
T ss_pred cccCcCCCCCCCCCCCCCC
Confidence 6779999999888888776
No 147
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=47.46 E-value=16 Score=32.39 Aligned_cols=46 Identities=24% Similarity=0.481 Sum_probs=35.0
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
...|-.|.++.........-.|.|.||.+|=.--=+.=..||.|..
T Consensus 330 ~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 330 SRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 3449999888777777778889999999995543344467999963
No 148
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=44.86 E-value=15 Score=24.52 Aligned_cols=13 Identities=23% Similarity=0.825 Sum_probs=9.8
Q ss_pred CCCCcccccccCC
Q 028186 195 DTCPVCNQEMIFD 207 (212)
Q Consensus 195 ~tCPvCr~~l~~~ 207 (212)
-.||+|++.+.+.
T Consensus 7 v~CP~C~k~~~w~ 19 (62)
T PRK00418 7 VNCPTCGKPVEWG 19 (62)
T ss_pred ccCCCCCCccccc
Confidence 4699999987653
No 149
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=44.56 E-value=15 Score=34.87 Aligned_cols=37 Identities=27% Similarity=0.615 Sum_probs=25.4
Q ss_pred cCCCccccccccccC----CC------CeEEcCCCCcccHHHHHHHH
Q 028186 155 EEEDVCPTCLEEYDA----EN------PRIITKCEHHFHLACIFEWM 191 (212)
Q Consensus 155 ee~~~C~ICle~~~~----~~------~~~~l~C~H~FH~~CI~~Wl 191 (212)
+....|+||.|.|+. +. ..+-+.=|-+||..|+.+--
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 667789999999854 11 12222258899999987753
No 150
>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=44.55 E-value=10 Score=27.13 Aligned_cols=38 Identities=13% Similarity=0.568 Sum_probs=28.6
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccC
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 206 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~ 206 (212)
...|-||-.... .=||.||..|-++ ++.|.+|.+.|..
T Consensus 44 ~~~C~~CK~~v~--------q~g~~YCq~CAYk----kGiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKVH--------QPGAKYCQTCAYK----KGICAMCGKKILD 81 (90)
T ss_pred Cccccccccccc--------cCCCccChhhhcc----cCcccccCCeecc
Confidence 446999976432 2378999999776 7899999988743
No 151
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.47 E-value=5.7 Score=30.67 Aligned_cols=50 Identities=18% Similarity=0.488 Sum_probs=27.6
Q ss_pred ccCCCcccccccc-ccCCCCeEEcCCCCcccHHHHHHHHhcCC----CCCccccc
Q 028186 154 IEEEDVCPTCLEE-YDAENPRIITKCEHHFHLACIFEWMERSD----TCPVCNQE 203 (212)
Q Consensus 154 ~ee~~~C~ICle~-~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~----tCPvCr~~ 203 (212)
.+++.+|.||+.. |.+|..-+..-|.-.||..|--+--.+++ .|-+|++.
T Consensus 62 v~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 3567789999975 44443333344455555555433322322 47777653
No 152
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.17 E-value=6.9 Score=34.16 Aligned_cols=48 Identities=23% Similarity=0.615 Sum_probs=37.5
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 204 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l 204 (212)
...+.|-||.-.|.... ..-.|.|.|+..|...|.+..+.||.|+...
T Consensus 103 ~~~~~~~~~~g~l~vpt--~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPT--RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKI 150 (324)
T ss_pred CCccceeeeeeeEEecc--cccCceeeeeecCCchhhhhhhccchhhcCc
Confidence 45667889888775422 2234999999999999999999999998754
No 153
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=44.00 E-value=21 Score=25.86 Aligned_cols=33 Identities=18% Similarity=0.271 Sum_probs=22.8
Q ss_pred CCCccccccccccCCCCeEEcC--CCCcccHHHHHHH
Q 028186 156 EEDVCPTCLEEYDAENPRIITK--CEHHFHLACIFEW 190 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~~l~--C~H~FH~~CI~~W 190 (212)
....|.||.... |-.+.... |...||..|...+
T Consensus 54 ~~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSG--GACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHHC
Confidence 356799999873 22333333 7889999998764
No 154
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=43.75 E-value=27 Score=30.89 Aligned_cols=49 Identities=24% Similarity=0.566 Sum_probs=34.2
Q ss_pred CCcccccccccc---------------CCCC-eEEcCCCCcccHHHHHHHHhc---------CCCCCccccccc
Q 028186 157 EDVCPTCLEEYD---------------AENP-RIITKCEHHFHLACIFEWMER---------SDTCPVCNQEMI 205 (212)
Q Consensus 157 ~~~C~ICle~~~---------------~~~~-~~~l~C~H~FH~~CI~~Wl~~---------~~tCPvCr~~l~ 205 (212)
+..||+|+..-. .+-+ -...||||.--.+=+.-|-+. +..||.|-+.|.
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ 414 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLA 414 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhc
Confidence 558999998621 1111 223689999888888889765 357999987653
No 155
>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=42.59 E-value=27 Score=22.80 Aligned_cols=42 Identities=26% Similarity=0.706 Sum_probs=28.6
Q ss_pred cccccccccCCC--CeEEcCC--CCcccHHHHHHHHhcCCCCCcccccccC
Q 028186 160 CPTCLEEYDAEN--PRIITKC--EHHFHLACIFEWMERSDTCPVCNQEMIF 206 (212)
Q Consensus 160 C~ICle~~~~~~--~~~~l~C--~H~FH~~CI~~Wl~~~~tCPvCr~~l~~ 206 (212)
|-.|-.++..+. ..| | ...||..|...-| .+.||-|.-+++-
T Consensus 8 CE~C~~dLp~~s~~A~I---CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 8 CECCDKDLPPDSPEAYI---CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred ccccCCCCCCCCCcceE---EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 555655554333 222 4 3579999999976 6779999988754
No 156
>PLN02189 cellulose synthase
Probab=41.79 E-value=23 Score=36.03 Aligned_cols=50 Identities=20% Similarity=0.458 Sum_probs=33.6
Q ss_pred CCCccccccccccC---CCCeE-EcCCCCcccHHHHHH-HHhcCCCCCccccccc
Q 028186 156 EEDVCPTCLEEYDA---ENPRI-ITKCEHHFHLACIFE-WMERSDTCPVCNQEMI 205 (212)
Q Consensus 156 e~~~C~ICle~~~~---~~~~~-~l~C~H~FH~~CI~~-Wl~~~~tCPvCr~~l~ 205 (212)
....|.||-++... |++-+ +-.|+--.|..|..- .-+.++.||.|++...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 34579999999742 34333 234787789999832 1133578999998764
No 157
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=41.72 E-value=4.3 Score=35.33 Aligned_cols=36 Identities=25% Similarity=0.512 Sum_probs=27.7
Q ss_pred ccccccccccCCCCeEEcCCCCcccHHHHHHHHhcC
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS 194 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~ 194 (212)
+|.||+++|..+.....+.|.-+||..|+-.|+...
T Consensus 216 vC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 899999999654334455555599999999999764
No 158
>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=41.57 E-value=12 Score=20.23 Aligned_cols=9 Identities=56% Similarity=1.390 Sum_probs=7.0
Q ss_pred CCCcccccc
Q 028186 196 TCPVCNQEM 204 (212)
Q Consensus 196 tCPvCr~~l 204 (212)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 589997766
No 159
>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=41.13 E-value=21 Score=22.41 Aligned_cols=35 Identities=14% Similarity=0.353 Sum_probs=25.6
Q ss_pred CccccccccccCCCC-eEEcCCCCcccHHHHHHHHh
Q 028186 158 DVCPTCLEEYDAENP-RIITKCEHHFHLACIFEWME 192 (212)
Q Consensus 158 ~~C~ICle~~~~~~~-~~~l~C~H~FH~~CI~~Wl~ 192 (212)
..|.+|-..|..-.. ...-.||++|+..|....+.
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 459999888865332 22356999999999887764
No 160
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.27 E-value=5.7 Score=34.16 Aligned_cols=46 Identities=20% Similarity=0.483 Sum_probs=35.4
Q ss_pred CccccccccccCC---CCeEEcC--------CCCcccHHHHHHHHhcC-CCCCccccc
Q 028186 158 DVCPTCLEEYDAE---NPRIITK--------CEHHFHLACIFEWMERS-DTCPVCNQE 203 (212)
Q Consensus 158 ~~C~ICle~~~~~---~~~~~l~--------C~H~FH~~CI~~Wl~~~-~tCPvCr~~ 203 (212)
..|.||...|... ....++. |||..+..|+..=+.+. -.||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 4699999999732 2233444 99999999999988665 489999874
No 161
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=39.65 E-value=8.2 Score=24.74 Aligned_cols=20 Identities=30% Similarity=0.798 Sum_probs=15.3
Q ss_pred CCeEEc-CCCCcccHHHHHHH
Q 028186 171 NPRIIT-KCEHHFHLACIFEW 190 (212)
Q Consensus 171 ~~~~~l-~C~H~FH~~CI~~W 190 (212)
...+.- .|+|.||..|-.+|
T Consensus 38 ~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 38 CNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCeeECCCCCCeECCCCCCcC
Confidence 334444 79999999998888
No 162
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=39.42 E-value=20 Score=22.80 Aligned_cols=23 Identities=30% Similarity=0.859 Sum_probs=13.5
Q ss_pred CCCCcccHHHHHHHHhcCCCCCcc
Q 028186 177 KCEHHFHLACIFEWMERSDTCPVC 200 (212)
Q Consensus 177 ~C~H~FH~~CI~~Wl~~~~tCPvC 200 (212)
.|||.|-.. |..-..+...||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-HhhhccCCCCCCCC
Confidence 466666543 22223567789988
No 163
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=38.25 E-value=2.7 Score=30.56 Aligned_cols=48 Identities=19% Similarity=0.529 Sum_probs=13.0
Q ss_pred CccccccccccCCCCeEEcCC--CCcccHHHHHHHHhc----CCCCCcccccccCC
Q 028186 158 DVCPTCLEEYDAENPRIITKC--EHHFHLACIFEWMER----SDTCPVCNQEMIFD 207 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C--~H~FH~~CI~~Wl~~----~~tCPvCr~~l~~~ 207 (212)
+.|+||-+.+...+.. ...| ||.|-.-.+. -|-- -..|++|+..+...
T Consensus 15 E~C~~C~~~i~~~~~~-~~~C~~GH~w~RC~lT-~l~i~~~~~r~C~~C~~~~l~~ 68 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLD-EAQCENGHVWPRCALT-FLPIQTPGVRVCPVCGRRALDP 68 (99)
T ss_dssp --------------SS-EEE-TTS-EEEB-SSS--SBS-SS-EEE-TTT--EEE-G
T ss_pred ccccccccccccCCcC-EeECCCCCEEeeeeee-eeeeccCCeeEcCCCCCEEecC
Confidence 4599999887544433 2336 7887543322 2211 16799998766443
No 164
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=37.62 E-value=20 Score=24.79 Aligned_cols=33 Identities=21% Similarity=0.389 Sum_probs=22.6
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHH
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFE 189 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~ 189 (212)
...|.+|......-..-....|.-.||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 456999998743322222346899999999765
No 165
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=37.18 E-value=20 Score=26.32 Aligned_cols=26 Identities=27% Similarity=0.483 Sum_probs=17.0
Q ss_pred eEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 173 RIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 173 ~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
-.+++|||+|-.. ++-|.+ -||-|.-
T Consensus 3 H~CtrCG~vf~~g--~~~il~--GCp~CG~ 28 (112)
T COG3364 3 HQCTRCGEVFDDG--SEEILS--GCPKCGC 28 (112)
T ss_pred ceecccccccccc--cHHHHc--cCccccc
Confidence 4578899999876 333333 3888843
No 166
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.16 E-value=18 Score=33.00 Aligned_cols=36 Identities=25% Similarity=0.387 Sum_probs=26.6
Q ss_pred ccCCCcccccccccc---CCCCeEEcCCCCcccHHHHHH
Q 028186 154 IEEEDVCPTCLEEYD---AENPRIITKCEHHFHLACIFE 189 (212)
Q Consensus 154 ~ee~~~C~ICle~~~---~~~~~~~l~C~H~FH~~CI~~ 189 (212)
......||-|.-.++ .-+....+.|+|.||.-|-.-
T Consensus 365 ~~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~ 403 (445)
T KOG1814|consen 365 ESNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAEL 403 (445)
T ss_pred HhcCCCCCcccceeecCCCccceeeccccccceeehhhh
Confidence 345567999987763 345667789999999988655
No 167
>PLN02195 cellulose synthase A
Probab=36.47 E-value=45 Score=33.88 Aligned_cols=52 Identities=21% Similarity=0.357 Sum_probs=34.7
Q ss_pred CCccccccccccC---CCCe-EEcCCCCcccHHHHHHHH-hcCCCCCcccccccCCC
Q 028186 157 EDVCPTCLEEYDA---ENPR-IITKCEHHFHLACIFEWM-ERSDTCPVCNQEMIFDL 208 (212)
Q Consensus 157 ~~~C~ICle~~~~---~~~~-~~l~C~H~FH~~CI~~Wl-~~~~tCPvCr~~l~~~~ 208 (212)
...|.||-++... |++- .+-.|+--.|..|..-=- +.++.||.|++....++
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~~~ 62 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDAEN 62 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccccc
Confidence 4579999998733 3433 334588889999983211 22578999999877333
No 168
>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=36.00 E-value=25 Score=20.28 Aligned_cols=8 Identities=38% Similarity=1.526 Sum_probs=5.8
Q ss_pred CCCCcccc
Q 028186 195 DTCPVCNQ 202 (212)
Q Consensus 195 ~tCPvCr~ 202 (212)
..||+|..
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 46888865
No 169
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=35.21 E-value=28 Score=22.87 Aligned_cols=19 Identities=26% Similarity=0.779 Sum_probs=14.4
Q ss_pred CCCCCcccccccCCCCCCC
Q 028186 194 SDTCPVCNQEMIFDLPVDY 212 (212)
Q Consensus 194 ~~tCPvCr~~l~~~~~~~~ 212 (212)
+.+||+|........|..|
T Consensus 17 ke~Cp~CG~~t~~~~PprF 35 (59)
T COG2260 17 KEKCPVCGGDTKVPHPPRF 35 (59)
T ss_pred cccCCCCCCccccCCCCCC
Confidence 3689999887777777665
No 170
>PF14353 CpXC: CpXC protein
Probab=34.86 E-value=30 Score=25.83 Aligned_cols=16 Identities=31% Similarity=0.910 Sum_probs=12.1
Q ss_pred CCCCcccccccCCCCC
Q 028186 195 DTCPVCNQEMIFDLPV 210 (212)
Q Consensus 195 ~tCPvCr~~l~~~~~~ 210 (212)
-+||.|.+....+-|+
T Consensus 39 ~~CP~Cg~~~~~~~p~ 54 (128)
T PF14353_consen 39 FTCPSCGHKFRLEYPL 54 (128)
T ss_pred EECCCCCCceecCCCE
Confidence 4799998887766654
No 171
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=34.41 E-value=30 Score=25.81 Aligned_cols=22 Identities=23% Similarity=0.616 Sum_probs=17.2
Q ss_pred HHHhcCCCCCcccccccCCCCC
Q 028186 189 EWMERSDTCPVCNQEMIFDLPV 210 (212)
Q Consensus 189 ~Wl~~~~tCPvCr~~l~~~~~~ 210 (212)
+-+.+...|+.|++++..|..+
T Consensus 80 KmLGr~D~CM~C~~pLTLd~~l 101 (114)
T PF11023_consen 80 KMLGRVDACMHCKEPLTLDPSL 101 (114)
T ss_pred hhhchhhccCcCCCcCccCchh
Confidence 4466778899999999887654
No 172
>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=33.23 E-value=9.6 Score=23.03 Aligned_cols=27 Identities=22% Similarity=0.582 Sum_probs=15.0
Q ss_pred EcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 175 ITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 175 ~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
...|||.|-.---..= .....||.|+.
T Consensus 8 C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 8 CEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred eCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 4568888764211000 12357999987
No 173
>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=32.75 E-value=15 Score=20.23 Aligned_cols=10 Identities=50% Similarity=1.471 Sum_probs=5.6
Q ss_pred CCCccccccc
Q 028186 196 TCPVCNQEMI 205 (212)
Q Consensus 196 tCPvCr~~l~ 205 (212)
.||+|...+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 4999988876
No 174
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=31.57 E-value=18 Score=23.68 Aligned_cols=11 Identities=27% Similarity=1.141 Sum_probs=5.4
Q ss_pred CCCcccccccC
Q 028186 196 TCPVCNQEMIF 206 (212)
Q Consensus 196 tCPvCr~~l~~ 206 (212)
.||+|++.+.+
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 48888887766
No 175
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=31.28 E-value=45 Score=34.24 Aligned_cols=50 Identities=20% Similarity=0.507 Sum_probs=33.6
Q ss_pred CCCccccccccccC---CCCeE-EcCCCCcccHHHHH-HHHhcCCCCCccccccc
Q 028186 156 EEDVCPTCLEEYDA---ENPRI-ITKCEHHFHLACIF-EWMERSDTCPVCNQEMI 205 (212)
Q Consensus 156 e~~~C~ICle~~~~---~~~~~-~l~C~H~FH~~CI~-~Wl~~~~tCPvCr~~l~ 205 (212)
...+|-||=+++.. |++-+ +-.|+-=.|..|.. +.-+.++.||.|++...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 35579999999733 34332 34477779999983 22234678999998764
No 176
>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=30.42 E-value=27 Score=22.98 Aligned_cols=16 Identities=31% Similarity=0.677 Sum_probs=12.1
Q ss_pred cCCCCCcccccccCCC
Q 028186 193 RSDTCPVCNQEMIFDL 208 (212)
Q Consensus 193 ~~~tCPvCr~~l~~~~ 208 (212)
.++.||+|.+.+..+.
T Consensus 2 ~HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 2 PHKHCPVCGKPIPPDE 17 (59)
T ss_pred CCCcCCcCCCcCCcch
Confidence 3577999998887653
No 177
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.09 E-value=27 Score=25.10 Aligned_cols=12 Identities=25% Similarity=0.844 Sum_probs=10.7
Q ss_pred ccHHHHHHHHhc
Q 028186 182 FHLACIFEWMER 193 (212)
Q Consensus 182 FH~~CI~~Wl~~ 193 (212)
||..|+..|.+.
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999853
No 178
>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=29.86 E-value=39 Score=21.01 Aligned_cols=37 Identities=19% Similarity=0.522 Sum_probs=17.8
Q ss_pred cccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028186 160 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
|..|-..+..+. .++..-+..||..| -+|-.|++.|.
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~~~H~~C--------f~C~~C~~~l~ 37 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGKFWHPEC--------FKCSKCGKPLN 37 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTEEEETTT--------SBETTTTCBTT
T ss_pred CCCCCCCccCcE-EEEEeCCcEEEccc--------cccCCCCCccC
Confidence 445555554322 22223456666544 34556665554
No 179
>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=27.76 E-value=35 Score=22.25 Aligned_cols=32 Identities=13% Similarity=0.170 Sum_probs=20.3
Q ss_pred cccccccccCCCCeEEcCCCCcccHH----HHHHHHhc
Q 028186 160 CPTCLEEYDAENPRIITKCEHHFHLA----CIFEWMER 193 (212)
Q Consensus 160 C~ICle~~~~~~~~~~l~C~H~FH~~----CI~~Wl~~ 193 (212)
|.+|... .++..+.|.||++++.. .+.+=++.
T Consensus 1 C~~C~~~--~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~~ 36 (63)
T PF02148_consen 1 CSVCGST--NSNLWLCLTCGYVGCGRYSNGHALKHYKE 36 (63)
T ss_dssp -SSSHTC--SSSEEEETTTS-EEETTTSTSHHHHHHHH
T ss_pred CCCCCCc--CCceEEeCCCCcccccCCcCcHHHHhhcc
Confidence 5566654 35567789999999985 56555543
No 180
>PRK11827 hypothetical protein; Provisional
Probab=27.48 E-value=21 Score=23.58 Aligned_cols=19 Identities=26% Similarity=0.711 Sum_probs=10.9
Q ss_pred HHHhcCCCCCcccccccCC
Q 028186 189 EWMERSDTCPVCNQEMIFD 207 (212)
Q Consensus 189 ~Wl~~~~tCPvCr~~l~~~ 207 (212)
+||-.--.||+|+..+..+
T Consensus 3 ~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred hHHHhheECCCCCCcCeEc
Confidence 4444445577777666544
No 181
>PRK01343 zinc-binding protein; Provisional
Probab=27.46 E-value=35 Score=22.29 Aligned_cols=12 Identities=25% Similarity=0.816 Sum_probs=8.4
Q ss_pred CCCCCccccccc
Q 028186 194 SDTCPVCNQEMI 205 (212)
Q Consensus 194 ~~tCPvCr~~l~ 205 (212)
...||+|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 356888887654
No 182
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=27.37 E-value=38 Score=25.11 Aligned_cols=24 Identities=29% Similarity=0.668 Sum_probs=15.7
Q ss_pred cccccccccc--CCCCeEEcCCCCcc
Q 028186 159 VCPTCLEEYD--AENPRIITKCEHHF 182 (212)
Q Consensus 159 ~C~ICle~~~--~~~~~~~l~C~H~F 182 (212)
.||-|..+|. .++..+...|+|-+
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW 29 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEW 29 (109)
T ss_pred cCCcCCCcceEecCCeeECccccccc
Confidence 4999999874 44555555566643
No 183
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=26.75 E-value=39 Score=32.72 Aligned_cols=44 Identities=23% Similarity=0.369 Sum_probs=26.9
Q ss_pred ccccccccccCCCCeEEcCCCCcccH--HHHHH-HHhc----C--CCCCcccccccCCCC
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHL--ACIFE-WMER----S--DTCPVCNQEMIFDLP 209 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~--~CI~~-Wl~~----~--~tCPvCr~~l~~~~~ 209 (212)
.|+|+.- .+.++|.++.|. .|.+. |+-. . -.||||.+...++.+
T Consensus 308 ~CPl~~~-------Rm~~P~r~~~CkHlQcFD~~~~lq~n~~~pTW~CPVC~~~~~~e~l 360 (636)
T KOG2169|consen 308 NCPLSKM-------RMSLPARGHTCKHLQCFDALSYLQMNEQKPTWRCPVCQKAAPFEGL 360 (636)
T ss_pred cCCcccc-------eeecCCcccccccceecchhhhHHhccCCCeeeCccCCccccccch
Confidence 5776655 345566555554 66554 3321 1 259999998887764
No 184
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=26.69 E-value=24 Score=21.96 Aligned_cols=24 Identities=33% Similarity=0.721 Sum_probs=15.1
Q ss_pred EEcCCCCcccHHHHHHHHh----cCCCCCcccc
Q 028186 174 IITKCEHHFHLACIFEWME----RSDTCPVCNQ 202 (212)
Q Consensus 174 ~~l~C~H~FH~~CI~~Wl~----~~~tCPvCr~ 202 (212)
....|||.|-. |.. ....||.|..
T Consensus 7 ~C~~Cg~~fe~-----~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 7 RCTACGHRFEV-----LQKMSDDPLATCPECGG 34 (52)
T ss_pred EeCCCCCEeEE-----EEecCCCCCCCCCCCCC
Confidence 34568887763 322 1236999986
No 185
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=26.43 E-value=23 Score=37.49 Aligned_cols=50 Identities=24% Similarity=0.547 Sum_probs=39.8
Q ss_pred cCCCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcC----CCCCcccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQEM 204 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~----~tCPvCr~~l 204 (212)
.....|.||+...+...-.....|.-.||..|+..-|... -.||-||++-
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 3455799999998776656667789999999999988664 4699998754
No 186
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=26.26 E-value=24 Score=31.59 Aligned_cols=48 Identities=21% Similarity=0.566 Sum_probs=25.8
Q ss_pred cCCCccccccccccCCCCeEEcCC---CCcc--------cHHHHHHHH-----hcCCCCCccccc
Q 028186 155 EEEDVCPTCLEEYDAENPRIITKC---EHHF--------HLACIFEWM-----ERSDTCPVCNQE 203 (212)
Q Consensus 155 ee~~~C~ICle~~~~~~~~~~l~C---~H~F--------H~~CI~~Wl-----~~~~tCPvCr~~ 203 (212)
..+..||+|-+.... -.-.+|.| .-+| |..|+.+-- ...+.||.||..
T Consensus 13 dl~ElCPVCGDkVSG-YHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQ 76 (475)
T KOG4218|consen 13 DLGELCPVCGDKVSG-YHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQ 76 (475)
T ss_pred ccccccccccCcccc-ceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHH
Confidence 345569999987643 22233434 3333 344544321 123679999863
No 187
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=25.69 E-value=38 Score=21.86 Aligned_cols=15 Identities=33% Similarity=0.800 Sum_probs=10.4
Q ss_pred CCCCcccccccCCCC
Q 028186 195 DTCPVCNQEMIFDLP 209 (212)
Q Consensus 195 ~tCPvCr~~l~~~~~ 209 (212)
.+||.|.+.|.+.++
T Consensus 3 ~~CP~CG~~iev~~~ 17 (54)
T TIGR01206 3 FECPDCGAEIELENP 17 (54)
T ss_pred cCCCCCCCEEecCCC
Confidence 368888887766553
No 188
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=25.31 E-value=36 Score=29.12 Aligned_cols=43 Identities=28% Similarity=0.433 Sum_probs=32.4
Q ss_pred ccccccccccCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCccccc
Q 028186 159 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQE 203 (212)
Q Consensus 159 ~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~--~~tCPvCr~~ 203 (212)
.|||=+-.+ .+|++..+|||+|-.+=|...+.. .-.||+=..+
T Consensus 178 rdPis~~~I--~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 178 RDPISKKPI--VNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cCchhhhhh--hchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 688764443 578889999999999999998865 3458874443
No 189
>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=25.18 E-value=22 Score=22.83 Aligned_cols=9 Identities=44% Similarity=1.368 Sum_probs=2.9
Q ss_pred CCCcccccc
Q 028186 196 TCPVCNQEM 204 (212)
Q Consensus 196 tCPvCr~~l 204 (212)
+||+|...+
T Consensus 26 tCP~C~a~~ 34 (54)
T PF09237_consen 26 TCPICGAVI 34 (54)
T ss_dssp E-TTT--EE
T ss_pred CCCcchhhc
Confidence 455555433
No 190
>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=24.63 E-value=1.1e+02 Score=22.36 Aligned_cols=24 Identities=21% Similarity=0.490 Sum_probs=19.0
Q ss_pred CCcccHHHHHHHHhc---------CCCCCcccc
Q 028186 179 EHHFHLACIFEWMER---------SDTCPVCNQ 202 (212)
Q Consensus 179 ~H~FH~~CI~~Wl~~---------~~tCPvCr~ 202 (212)
.=.||..||..++.. .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 677999999998843 236999986
No 191
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=24.43 E-value=26 Score=25.93 Aligned_cols=29 Identities=34% Similarity=0.739 Sum_probs=20.2
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHHh
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME 192 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~ 192 (212)
..|++|-.+|..++.. +.+|-+|..+|-.
T Consensus 4 p~cp~c~sEytYed~~------~~~cpec~~ew~~ 32 (112)
T COG2824 4 PPCPKCNSEYTYEDGG------QLICPECAHEWNE 32 (112)
T ss_pred CCCCccCCceEEecCc------eEeCchhcccccc
Confidence 3599999998665533 3466777778863
No 192
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=24.17 E-value=59 Score=23.15 Aligned_cols=38 Identities=16% Similarity=0.320 Sum_probs=27.2
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccC
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 206 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~~l~~ 206 (212)
...|+-|.....--+.. =|..|+-.+++|..|++.+..
T Consensus 33 rS~C~~C~~~L~~~~lI------------Pi~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLI------------PILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCcCcCCCCcCcccccc------------hHHHHHHhCCCCcccCCCCCh
Confidence 44588888776432211 167899999999999998754
No 193
>PLN02436 cellulose synthase A
Probab=23.58 E-value=74 Score=32.75 Aligned_cols=50 Identities=20% Similarity=0.488 Sum_probs=33.2
Q ss_pred CCCcccccccccc---CCCCeEE-cCCCCcccHHHHHHH-HhcCCCCCccccccc
Q 028186 156 EEDVCPTCLEEYD---AENPRII-TKCEHHFHLACIFEW-MERSDTCPVCNQEMI 205 (212)
Q Consensus 156 e~~~C~ICle~~~---~~~~~~~-l~C~H~FH~~CI~~W-l~~~~tCPvCr~~l~ 205 (212)
...+|.||-++.. .|++-+. -.|+--.|..|..-= -+.++.||.|++...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3457999999972 2443332 347777999998421 123578999998764
No 194
>PLN02400 cellulose synthase
Probab=22.79 E-value=56 Score=33.56 Aligned_cols=50 Identities=14% Similarity=0.416 Sum_probs=33.2
Q ss_pred CCCccccccccccC---CCCe-EEcCCCCcccHHHHHH-HHhcCCCCCccccccc
Q 028186 156 EEDVCPTCLEEYDA---ENPR-IITKCEHHFHLACIFE-WMERSDTCPVCNQEMI 205 (212)
Q Consensus 156 e~~~C~ICle~~~~---~~~~-~~l~C~H~FH~~CI~~-Wl~~~~tCPvCr~~l~ 205 (212)
...+|-||=+++.. |++- .+-.|+-=.|..|..- .-+.++.||.||+...
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 35579999999733 3433 2345777789999831 1123578999998764
No 195
>PF04135 Nop10p: Nucleolar RNA-binding protein, Nop10p family; InterPro: IPR007264 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. In eukaryotes Nop10 is a nucleolar protein that is specifically associated with H/ACA snoRNAs. It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA snoRNAs (H/ACA snoRNPs). Nop10 is probably necessary for the stability of these RNPs [].; PDB: 2RFK_B 3LWR_B 2HVY_C 3HAX_C 3MQK_B 3LWO_B 3LWV_B 3HAY_C 3HJY_B 2EY4_E ....
Probab=22.72 E-value=48 Score=21.32 Aligned_cols=19 Identities=26% Similarity=0.646 Sum_probs=14.9
Q ss_pred CCCCCcccccccCCCCCCC
Q 028186 194 SDTCPVCNQEMIFDLPVDY 212 (212)
Q Consensus 194 ~~tCPvCr~~l~~~~~~~~ 212 (212)
+.+||.|......-.|..|
T Consensus 17 k~~cp~cG~~T~~ahPaRF 35 (53)
T PF04135_consen 17 KDKCPPCGGPTESAHPARF 35 (53)
T ss_dssp SSBBTTTSSBSEESSSSSS
T ss_pred CCccCCCCCCCcCCcCCCC
Confidence 3579999988887777766
No 196
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.61 E-value=69 Score=22.07 Aligned_cols=27 Identities=26% Similarity=0.598 Sum_probs=21.2
Q ss_pred CCcccHHHHHHHHhcCCCCCcccccccCC
Q 028186 179 EHHFHLACIFEWMERSDTCPVCNQEMIFD 207 (212)
Q Consensus 179 ~H~FH~~CI~~Wl~~~~tCPvCr~~l~~~ 207 (212)
.|.||.+|...-| ...||-|.-+++-.
T Consensus 28 EcTFCadCae~~l--~g~CPnCGGelv~R 54 (84)
T COG3813 28 ECTFCADCAENRL--HGLCPNCGGELVAR 54 (84)
T ss_pred eeehhHhHHHHhh--cCcCCCCCchhhcC
Confidence 6889999988743 56799998887543
No 197
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=21.31 E-value=45 Score=26.86 Aligned_cols=17 Identities=29% Similarity=0.655 Sum_probs=13.9
Q ss_pred CCCCCcccccccCCCCC
Q 028186 194 SDTCPVCNQEMIFDLPV 210 (212)
Q Consensus 194 ~~tCPvCr~~l~~~~~~ 210 (212)
+..||.|++.+..++|=
T Consensus 169 ~~~c~~~~~~~~~~~~~ 185 (187)
T TIGR01367 169 SHECPLCLAGIPAEKPG 185 (187)
T ss_pred cccCChhhcCCCCcCCC
Confidence 45799999999888763
No 198
>PRK10220 hypothetical protein; Provisional
Probab=21.03 E-value=62 Score=24.03 Aligned_cols=23 Identities=35% Similarity=0.787 Sum_probs=14.3
Q ss_pred ccccccccccC--CCCeEEcCCCCc
Q 028186 159 VCPTCLEEYDA--ENPRIITKCEHH 181 (212)
Q Consensus 159 ~C~ICle~~~~--~~~~~~l~C~H~ 181 (212)
.||-|-.+|.. +...+...|+|-
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hE 29 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHE 29 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCc
Confidence 49999988744 444444455554
No 199
>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=20.84 E-value=11 Score=24.13 Aligned_cols=32 Identities=25% Similarity=0.627 Sum_probs=16.9
Q ss_pred cccc--ccccccCC---CC--eEEcCCCCcccHHHHHHH
Q 028186 159 VCPT--CLEEYDAE---NP--RIITKCEHHFHLACIFEW 190 (212)
Q Consensus 159 ~C~I--Cle~~~~~---~~--~~~l~C~H~FH~~CI~~W 190 (212)
-||- |-..+... .. +....|++.||..|-.+|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 5766 76665332 22 334458999998887776
No 200
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=20.73 E-value=29 Score=34.51 Aligned_cols=45 Identities=16% Similarity=0.426 Sum_probs=29.9
Q ss_pred CccccccccccCCCCeEEcCCCCcccHHHHHHHH-hc-----CCCCCccccc
Q 028186 158 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWM-ER-----SDTCPVCNQE 203 (212)
Q Consensus 158 ~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl-~~-----~~tCPvCr~~ 203 (212)
.+|-.|.-..- ....++..|+|.||..|+..|. +. -..|+.|+..
T Consensus 230 ~mC~~C~~tlf-n~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~ 280 (889)
T KOG1356|consen 230 EMCDRCETTLF-NIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLK 280 (889)
T ss_pred hhhhhhccccc-ceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHh
Confidence 35666655321 1246678899999999999995 11 2467777654
No 201
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=20.69 E-value=52 Score=31.86 Aligned_cols=46 Identities=22% Similarity=0.606 Sum_probs=29.6
Q ss_pred CCccccccccccC--CCCeEEcCCCCcccHHHHHHHHhcC-----CCCCcccc
Q 028186 157 EDVCPTCLEEYDA--ENPRIITKCEHHFHLACIFEWMERS-----DTCPVCNQ 202 (212)
Q Consensus 157 ~~~C~ICle~~~~--~~~~~~l~C~H~FH~~CI~~Wl~~~-----~tCPvCr~ 202 (212)
..+|+||--.-.. +--++.-.|+-.||..|+.-|+..- -.||-||.
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 4567777443211 2234445689999999999999542 34777765
No 202
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=20.47 E-value=64 Score=24.87 Aligned_cols=14 Identities=43% Similarity=0.695 Sum_probs=11.5
Q ss_pred CCCCcccccccCCC
Q 028186 195 DTCPVCNQEMIFDL 208 (212)
Q Consensus 195 ~tCPvCr~~l~~~~ 208 (212)
-.||.|...|...+
T Consensus 124 f~Cp~Cg~~l~~~d 137 (147)
T smart00531 124 FTCPRCGEELEEDD 137 (147)
T ss_pred EECCCCCCEEEEcC
Confidence 67999999987655
No 203
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.41 E-value=64 Score=21.62 Aligned_cols=14 Identities=21% Similarity=0.828 Sum_probs=9.7
Q ss_pred CCCCcccccccCCC
Q 028186 195 DTCPVCNQEMIFDL 208 (212)
Q Consensus 195 ~tCPvCr~~l~~~~ 208 (212)
-.||.|.+.+.+.+
T Consensus 8 v~CP~Cgkpv~w~~ 21 (65)
T COG3024 8 VPCPTCGKPVVWGE 21 (65)
T ss_pred ccCCCCCCcccccc
Confidence 45888888776644
No 204
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=20.38 E-value=46 Score=28.19 Aligned_cols=49 Identities=27% Similarity=0.552 Sum_probs=35.6
Q ss_pred CCccccccccccCCCCeEEcCCCCcccHHHHHHHHhcC--CCCCc--ccccccCC
Q 028186 157 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--DTCPV--CNQEMIFD 207 (212)
Q Consensus 157 ~~~C~ICle~~~~~~~~~~l~C~H~FH~~CI~~Wl~~~--~tCPv--Cr~~l~~~ 207 (212)
+..|||=+..+.. +++..+|+|.|-.+=|.+.|... ..||+ |-+.+..+
T Consensus 189 ~nrCpitl~p~~~--pils~kcnh~~e~D~I~~~lq~~~trvcp~~~Csq~~~~~ 241 (275)
T COG5627 189 SNRCPITLNPDFY--PILSSKCNHKPEMDLINKKLQVECTRVCPRLICSQKEVVD 241 (275)
T ss_pred cccCCcccCcchh--HHHHhhhcccccHHHHHHHhcCCceeecchhhcchheecc
Confidence 4479998887633 56778999999999999998854 44663 65544443
No 205
>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=20.37 E-value=51 Score=30.80 Aligned_cols=37 Identities=30% Similarity=0.796 Sum_probs=21.7
Q ss_pred CCCccccccccccCCCCeE-EcCCC-CcccHHHHHHHHhcCCCCCccccccc
Q 028186 156 EEDVCPTCLEEYDAENPRI-ITKCE-HHFHLACIFEWMERSDTCPVCNQEMI 205 (212)
Q Consensus 156 e~~~C~ICle~~~~~~~~~-~l~C~-H~FH~~CI~~Wl~~~~tCPvCr~~l~ 205 (212)
+..-||-||+++...+... .-.|. +.| .||+|...|.
T Consensus 25 ~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf-------------~CP~C~~~L~ 63 (483)
T PF05502_consen 25 DSYYCPNCLFEVPSSEARSEKNRCSRNCF-------------DCPICFSPLS 63 (483)
T ss_pred ceeECccccccCChhhheeccceeccccc-------------cCCCCCCcce
Confidence 4556999999986544211 22354 333 3888876653
No 206
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=20.20 E-value=42 Score=22.19 Aligned_cols=13 Identities=38% Similarity=1.198 Sum_probs=9.5
Q ss_pred CCCcccccccCCC
Q 028186 196 TCPVCNQEMIFDL 208 (212)
Q Consensus 196 tCPvCr~~l~~~~ 208 (212)
.||+||..+.++.
T Consensus 10 aCP~~kg~L~~~~ 22 (60)
T COG2835 10 ACPVCKGPLVYDE 22 (60)
T ss_pred eccCcCCcceEec
Confidence 4999988876543
No 207
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.08 E-value=31 Score=31.76 Aligned_cols=38 Identities=18% Similarity=0.559 Sum_probs=26.3
Q ss_pred CCCccccccccccCCC---CeEEc--CCCCcccHHHHHHHHhc
Q 028186 156 EEDVCPTCLEEYDAEN---PRIIT--KCEHHFHLACIFEWMER 193 (212)
Q Consensus 156 e~~~C~ICle~~~~~~---~~~~l--~C~H~FH~~CI~~Wl~~ 193 (212)
....||.|.-.++... ..... .|.|.||.-|+..|...
T Consensus 225 ntk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 225 NTKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred cCccCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 3344999998875432 11222 49999999999888755
No 208
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.07 E-value=58 Score=25.02 Aligned_cols=21 Identities=29% Similarity=0.447 Sum_probs=14.2
Q ss_pred ccccccccCCCCeEEcCCCCcccH
Q 028186 161 PTCLEEYDAENPRIITKCEHHFHL 184 (212)
Q Consensus 161 ~ICle~~~~~~~~~~l~C~H~FH~ 184 (212)
=||.. .+..++.-.|||.|+.
T Consensus 61 fi~qs---~~~rv~rcecghsf~d 81 (165)
T COG4647 61 FICQS---AQKRVIRCECGHSFGD 81 (165)
T ss_pred EEEec---ccccEEEEeccccccC
Confidence 45655 2344667789999985
No 209
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=20.06 E-value=8.9 Score=33.10 Aligned_cols=43 Identities=21% Similarity=0.342 Sum_probs=18.5
Q ss_pred CCccccccccccC-----CCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028186 157 EDVCPTCLEEYDA-----ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 202 (212)
Q Consensus 157 ~~~C~ICle~~~~-----~~~~~~l~C~H~FH~~CI~~Wl~~~~tCPvCr~ 202 (212)
...||||=..-.. +.. . .=.|.+|.-|=.+|--....||.|..
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~--~-G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGER--E-GKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEEEE---------EEEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEEEecCCC--C-ccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 3579999765311 110 0 01356777788888877889999965
No 210
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=20.03 E-value=1.3e+02 Score=26.37 Aligned_cols=140 Identities=11% Similarity=0.108 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCccccccccCCCCCCccCCCCCcccccCCCCccCccccccCCCcchhhhhhhhcccchhhHHHhhhcc
Q 028186 68 TPFDANVRHPQTPPVVQEICSNKSDPSVQTTPVPVQDTLGGNSQETSSKCDDLKEPESKTVANVELESTKELEVELSKSV 147 (212)
Q Consensus 68 lp~d~~~~~~~~~~~~~~~r~d~~~~~~~~~s~~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~ 147 (212)
||++..+..+-.....++++.+.++..-....+...+-..+-+ .+++....-.+.....+......-.++....-.|..
T Consensus 165 L~~N~~~~~~~~~~~L~~m~s~~~S~~~~~~~~D~~~~~~~~~-~~~S~~~~E~~~~~~~~~~s~~~~~~~~A~~~RK~~ 243 (381)
T KOG1512|consen 165 LEWNFNVHKLLNETLLRDMNAMRASEIHDMMQSDFGDIYMEYK-KVVSQREREAQLEKAKEMEAIKNDSVKLAELRRKAV 243 (381)
T ss_pred ccchhhhhcCCcchhhcccccccccccchhhccchhhhccccc-cccccccccccCCcchhhhhhccchhhhhhcchhhc
Q ss_pred ccccccccCCC-----ccccccccccC------CCCeEEcCCCCcccHHHHHHHHhc-------------CCCCCccccc
Q 028186 148 HHVVAVIEEED-----VCPTCLEEYDA------ENPRIITKCEHHFHLACIFEWMER-------------SDTCPVCNQE 203 (212)
Q Consensus 148 ~~~~~~~ee~~-----~C~ICle~~~~------~~~~~~l~C~H~FH~~CI~~Wl~~-------------~~tCPvCr~~ 203 (212)
........+-. .|.|||+.-.. +.-+...+|...+|-.||.--++- ..+|-+|.++
T Consensus 244 ~~~~~~~K~i~~~~~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P 323 (381)
T KOG1512|consen 244 QNAVDFNKDIQNQRRNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGP 323 (381)
T ss_pred cchhhhcccccCcchhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCc
Q ss_pred ccCCC
Q 028186 204 MIFDL 208 (212)
Q Consensus 204 l~~~~ 208 (212)
...++
T Consensus 324 ~~E~E 328 (381)
T KOG1512|consen 324 VIESE 328 (381)
T ss_pred ccchh
Done!