Query 028048
Match_columns 214
No_of_seqs 229 out of 1964
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 05:26:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028048.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028048hhsearch_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 2.7E-17 5.9E-22 103.3 2.5 44 160-203 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 3.8E-15 8.2E-20 130.3 4.7 52 160-211 230-282 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.5 2.6E-14 5.7E-19 99.3 4.2 46 158-203 18-73 (73)
4 COG5243 HRD1 HRD ubiquitin lig 99.4 2.4E-13 5.2E-18 118.4 3.5 54 157-210 285-348 (491)
5 PHA02929 N1R/p28-like protein; 99.3 7E-13 1.5E-17 111.3 3.8 51 158-208 173-228 (238)
6 PF12861 zf-Apc11: Anaphase-pr 99.3 2.1E-12 4.5E-17 91.3 3.7 53 158-210 20-85 (85)
7 PF13920 zf-C3HC4_3: Zinc fing 99.3 3.9E-12 8.6E-17 81.9 3.7 46 159-207 2-48 (50)
8 PF13923 zf-C3HC4_2: Zinc fing 99.2 6.5E-12 1.4E-16 76.7 3.2 39 162-202 1-39 (39)
9 COG5540 RING-finger-containing 99.2 3.9E-12 8.5E-17 108.3 2.7 50 158-207 322-372 (374)
10 cd00162 RING RING-finger (Real 99.2 1.5E-11 3.3E-16 75.9 4.0 44 161-206 1-45 (45)
11 PLN03208 E3 ubiquitin-protein 99.1 3.1E-11 6.7E-16 97.8 4.2 51 157-210 16-82 (193)
12 KOG0320 Predicted E3 ubiquitin 99.1 3E-11 6.6E-16 95.9 2.3 53 157-210 129-181 (187)
13 PF14634 zf-RING_5: zinc-RING 99.1 7.4E-11 1.6E-15 73.9 3.5 44 161-204 1-44 (44)
14 KOG0317 Predicted E3 ubiquitin 99.1 3.7E-11 7.9E-16 101.9 2.6 52 157-211 237-288 (293)
15 PHA02926 zinc finger-like prot 99.1 8.1E-11 1.8E-15 96.7 4.0 56 158-213 169-236 (242)
16 PF15227 zf-C3HC4_4: zinc fing 99.1 1.4E-10 3.1E-15 72.0 3.3 38 162-202 1-42 (42)
17 KOG0823 Predicted E3 ubiquitin 99.0 9.4E-11 2E-15 96.8 2.4 51 157-210 45-98 (230)
18 PF00097 zf-C3HC4: Zinc finger 99.0 3E-10 6.5E-15 69.8 3.6 39 162-202 1-41 (41)
19 COG5194 APC11 Component of SCF 99.0 2.1E-10 4.6E-15 79.3 2.9 53 159-211 20-85 (88)
20 KOG0802 E3 ubiquitin ligase [P 99.0 1.5E-10 3.3E-15 108.3 2.1 50 158-207 290-341 (543)
21 smart00504 Ubox Modified RING 99.0 6.2E-10 1.3E-14 74.5 4.4 48 160-210 2-49 (63)
22 smart00184 RING Ring finger. E 99.0 7.2E-10 1.6E-14 66.0 3.5 38 162-202 1-39 (39)
23 PF13445 zf-RING_UBOX: RING-ty 98.9 2.2E-09 4.7E-14 66.9 3.1 34 162-196 1-35 (43)
24 TIGR00599 rad18 DNA repair pro 98.8 1.9E-09 4.2E-14 96.7 3.8 51 156-209 23-73 (397)
25 KOG1493 Anaphase-promoting com 98.8 1.1E-09 2.4E-14 75.2 -0.4 52 158-209 19-83 (84)
26 smart00744 RINGv The RING-vari 98.6 3.1E-08 6.7E-13 63.5 3.5 42 161-203 1-49 (49)
27 KOG2164 Predicted E3 ubiquitin 98.5 8.1E-08 1.8E-12 87.3 2.9 49 159-210 186-239 (513)
28 COG5574 PEX10 RING-finger-cont 98.5 8.3E-08 1.8E-12 80.8 2.5 51 157-210 213-265 (271)
29 KOG2930 SCF ubiquitin ligase, 98.4 8.3E-08 1.8E-12 69.7 1.8 67 144-210 30-111 (114)
30 PF11793 FANCL_C: FANCL C-term 98.4 4.4E-08 9.6E-13 67.4 -0.2 51 159-209 2-68 (70)
31 KOG0828 Predicted E3 ubiquitin 98.4 9.9E-08 2.1E-12 86.3 1.7 51 157-207 569-634 (636)
32 PF04564 U-box: U-box domain; 98.4 1.9E-07 4.2E-12 64.7 2.7 50 158-210 3-53 (73)
33 KOG1734 Predicted RING-contain 98.3 1E-07 2.2E-12 80.5 0.4 51 157-207 222-281 (328)
34 KOG0804 Cytoplasmic Zn-finger 98.3 2.2E-07 4.8E-12 83.3 2.0 49 157-207 173-222 (493)
35 KOG1039 Predicted E3 ubiquitin 98.3 3.2E-07 6.9E-12 81.0 2.5 55 158-212 160-226 (344)
36 KOG0287 Postreplication repair 98.3 2.6E-07 5.7E-12 80.2 1.4 47 157-206 21-67 (442)
37 COG5432 RAD18 RING-finger-cont 98.2 5.2E-07 1.1E-11 77.0 2.0 47 157-206 23-69 (391)
38 KOG2177 Predicted E3 ubiquitin 98.2 5.5E-07 1.2E-11 76.0 1.6 45 157-204 11-55 (386)
39 COG5219 Uncharacterized conser 98.1 6E-07 1.3E-11 86.6 0.9 52 157-208 1467-1524(1525)
40 PF14835 zf-RING_6: zf-RING of 98.0 1.1E-06 2.3E-11 58.9 -0.4 50 157-210 5-54 (65)
41 KOG0978 E3 ubiquitin ligase in 97.9 4.3E-06 9.3E-11 79.5 0.9 49 159-210 643-692 (698)
42 KOG4265 Predicted E3 ubiquitin 97.8 1.4E-05 3E-10 70.2 3.1 47 157-206 288-335 (349)
43 KOG0825 PHD Zn-finger protein 97.8 3.5E-06 7.6E-11 80.0 -0.7 52 158-209 122-173 (1134)
44 KOG0311 Predicted E3 ubiquitin 97.8 2.8E-06 6E-11 74.3 -1.7 54 157-212 41-95 (381)
45 PF11789 zf-Nse: Zinc-finger o 97.7 3E-05 6.6E-10 51.1 2.5 43 157-201 9-53 (57)
46 KOG1428 Inhibitor of type V ad 97.6 3.2E-05 7E-10 77.6 2.7 52 156-207 3483-3544(3738)
47 KOG0297 TNF receptor-associate 97.5 4.8E-05 1.1E-09 68.8 2.0 53 157-211 19-71 (391)
48 KOG4172 Predicted E3 ubiquitin 97.5 2.4E-05 5.1E-10 50.6 -0.3 45 159-206 7-53 (62)
49 COG5152 Uncharacterized conser 97.4 4.5E-05 9.7E-10 62.0 0.9 44 160-206 197-240 (259)
50 KOG4445 Uncharacterized conser 97.4 4.1E-05 8.8E-10 65.8 0.4 51 160-210 116-189 (368)
51 KOG1952 Transcription factor N 97.4 0.00086 1.9E-08 64.8 9.0 48 156-203 188-243 (950)
52 PF12906 RINGv: RING-variant d 97.3 0.00013 2.9E-09 46.1 2.0 40 162-202 1-47 (47)
53 KOG1941 Acetylcholine receptor 97.3 8.4E-05 1.8E-09 66.0 0.9 48 157-204 363-413 (518)
54 TIGR00570 cdk7 CDK-activating 97.1 0.00026 5.6E-09 61.7 2.5 35 175-209 21-56 (309)
55 KOG4159 Predicted E3 ubiquitin 97.1 0.00027 5.9E-09 63.8 2.7 48 157-207 82-129 (398)
56 KOG1785 Tyrosine kinase negati 97.1 0.00017 3.7E-09 64.3 1.3 49 160-211 370-420 (563)
57 PF05883 Baculo_RING: Baculovi 97.1 0.00023 4.9E-09 54.7 1.2 35 159-193 26-66 (134)
58 KOG2660 Locus-specific chromos 97.0 0.00018 3.9E-09 62.6 0.2 53 157-211 13-65 (331)
59 KOG1813 Predicted E3 ubiquitin 97.0 0.00023 5E-09 61.1 0.8 44 160-206 242-285 (313)
60 KOG0827 Predicted E3 ubiquitin 97.0 0.00033 7.2E-09 62.2 1.5 28 176-203 22-52 (465)
61 PHA02862 5L protein; Provision 96.9 0.00048 1E-08 53.4 2.0 48 159-210 2-56 (156)
62 PHA02825 LAP/PHD finger-like p 96.9 0.001 2.2E-08 52.5 3.2 51 155-209 4-61 (162)
63 KOG2879 Predicted E3 ubiquitin 96.8 0.0014 3E-08 55.9 3.8 49 157-207 237-287 (298)
64 KOG4692 Predicted E3 ubiquitin 96.8 0.00088 1.9E-08 59.0 2.4 48 157-207 420-467 (489)
65 PF03854 zf-P11: P-11 zinc fin 96.5 0.0009 2E-08 42.0 0.8 43 162-209 5-48 (50)
66 PF10367 Vps39_2: Vacuolar sor 96.5 0.0021 4.5E-08 47.0 2.5 33 157-190 76-108 (109)
67 PF14447 Prok-RING_4: Prokaryo 96.4 0.0018 3.9E-08 42.1 1.5 48 159-211 7-54 (55)
68 PHA03096 p28-like protein; Pro 96.3 0.0021 4.7E-08 55.7 1.9 45 160-204 179-231 (284)
69 PF14570 zf-RING_4: RING/Ubox 96.3 0.0044 9.4E-08 39.3 2.7 45 162-206 1-47 (48)
70 COG5175 MOT2 Transcriptional r 96.2 0.0032 7E-08 55.3 2.5 54 153-206 8-63 (480)
71 KOG3039 Uncharacterized conser 96.2 0.0045 9.7E-08 52.1 3.2 54 158-211 220-274 (303)
72 KOG1645 RING-finger-containing 96.1 0.0036 7.8E-08 56.1 2.6 37 170-206 17-55 (463)
73 KOG1814 Predicted E3 ubiquitin 96.0 0.0036 7.8E-08 56.2 2.1 45 160-204 185-237 (445)
74 KOG1571 Predicted E3 ubiquitin 95.8 0.0056 1.2E-07 54.1 2.4 44 157-206 303-346 (355)
75 KOG4275 Predicted E3 ubiquitin 95.8 0.0016 3.4E-08 56.0 -1.2 41 159-206 300-341 (350)
76 KOG1002 Nucleotide excision re 95.7 0.0046 9.9E-08 57.2 1.5 50 157-209 534-588 (791)
77 COG5236 Uncharacterized conser 95.7 0.01 2.3E-07 52.3 3.3 49 154-205 56-106 (493)
78 KOG3268 Predicted E3 ubiquitin 95.6 0.0086 1.9E-07 48.1 2.5 53 157-209 163-230 (234)
79 PF04641 Rtf2: Rtf2 RING-finge 95.5 0.014 3.1E-07 49.9 3.7 53 157-210 111-164 (260)
80 KOG1940 Zn-finger protein [Gen 95.1 0.012 2.5E-07 50.7 1.7 45 160-204 159-204 (276)
81 KOG2114 Vacuolar assembly/sort 95.0 0.012 2.6E-07 57.1 1.8 41 160-205 841-881 (933)
82 PF08746 zf-RING-like: RING-li 94.7 0.014 3E-07 36.2 1.0 41 162-202 1-43 (43)
83 KOG2817 Predicted E3 ubiquitin 94.7 0.027 5.8E-07 50.5 3.1 47 160-206 335-384 (394)
84 PF07800 DUF1644: Protein of u 94.6 0.04 8.7E-07 43.5 3.5 34 158-194 1-47 (162)
85 KOG0827 Predicted E3 ubiquitin 94.4 0.002 4.4E-08 57.3 -4.6 48 161-208 198-246 (465)
86 KOG3970 Predicted E3 ubiquitin 94.3 0.042 9E-07 45.9 3.1 51 157-208 48-106 (299)
87 COG5222 Uncharacterized conser 93.9 0.036 7.7E-07 48.1 2.1 48 160-209 275-324 (427)
88 KOG3002 Zn finger protein [Gen 93.6 0.04 8.6E-07 48.2 1.9 43 158-207 47-91 (299)
89 KOG0801 Predicted E3 ubiquitin 93.6 0.023 4.9E-07 45.1 0.3 29 158-186 176-204 (205)
90 KOG3053 Uncharacterized conser 93.5 0.032 6.8E-07 47.4 1.0 49 157-206 18-81 (293)
91 KOG1001 Helicase-like transcri 93.4 0.021 4.6E-07 55.1 -0.2 46 160-209 455-502 (674)
92 KOG0826 Predicted E3 ubiquitin 93.0 0.054 1.2E-06 47.5 1.7 52 157-210 298-349 (357)
93 KOG0298 DEAD box-containing he 92.5 0.028 6.1E-07 56.9 -0.7 44 159-204 1153-1196(1394)
94 COG5183 SSM4 Protein involved 92.3 0.086 1.9E-06 51.3 2.3 53 157-210 10-69 (1175)
95 KOG0309 Conserved WD40 repeat- 92.2 0.075 1.6E-06 51.3 1.7 28 174-201 1042-1069(1081)
96 KOG1609 Protein involved in mR 91.8 0.096 2.1E-06 45.3 1.8 49 159-207 78-134 (323)
97 KOG2932 E3 ubiquitin ligase in 91.2 0.08 1.7E-06 46.1 0.8 29 176-206 105-133 (389)
98 KOG2034 Vacuolar sorting prote 90.4 0.15 3.4E-06 50.0 1.9 38 155-193 813-850 (911)
99 PF10272 Tmpp129: Putative tra 89.9 0.42 9.2E-06 42.8 4.1 29 181-209 312-353 (358)
100 KOG1100 Predicted E3 ubiquitin 89.5 0.21 4.7E-06 41.4 1.9 41 162-209 161-202 (207)
101 PF02891 zf-MIZ: MIZ/SP-RING z 89.4 0.53 1.1E-05 30.0 3.2 42 161-205 4-50 (50)
102 KOG3161 Predicted E3 ubiquitin 88.9 0.14 3.1E-06 48.6 0.4 43 159-204 11-54 (861)
103 KOG1829 Uncharacterized conser 88.8 0.15 3.3E-06 48.2 0.5 43 158-203 510-557 (580)
104 KOG1812 Predicted E3 ubiquitin 88.5 0.16 3.5E-06 46.0 0.5 38 159-196 146-184 (384)
105 PF05290 Baculo_IE-1: Baculovi 87.8 0.48 1E-05 36.5 2.6 48 160-209 81-134 (140)
106 KOG0802 E3 ubiquitin ligase [P 86.7 0.32 6.9E-06 46.0 1.3 49 157-212 477-525 (543)
107 KOG4185 Predicted E3 ubiquitin 85.4 0.59 1.3E-05 40.4 2.3 35 172-206 19-54 (296)
108 smart00249 PHD PHD zinc finger 85.1 0.6 1.3E-05 27.9 1.6 31 161-191 1-31 (47)
109 PF13901 DUF4206: Domain of un 84.6 0.76 1.7E-05 37.9 2.5 42 158-204 151-197 (202)
110 KOG4362 Transcriptional regula 84.0 0.25 5.5E-06 47.5 -0.7 46 158-206 20-68 (684)
111 COG5109 Uncharacterized conser 83.6 0.88 1.9E-05 39.9 2.5 45 160-204 337-384 (396)
112 KOG0825 PHD Zn-finger protein 83.5 0.63 1.4E-05 45.4 1.7 50 158-207 95-154 (1134)
113 PF14446 Prok-RING_1: Prokaryo 83.4 1.8 4E-05 28.0 3.3 46 159-208 5-53 (54)
114 COG5220 TFB3 Cdk activating ki 83.4 0.53 1.2E-05 39.8 1.0 47 159-205 10-62 (314)
115 KOG2066 Vacuolar assembly/sort 82.9 0.66 1.4E-05 45.2 1.6 44 159-203 784-831 (846)
116 KOG3899 Uncharacterized conser 82.3 0.69 1.5E-05 40.2 1.3 31 180-210 325-368 (381)
117 PF00628 PHD: PHD-finger; Int 79.6 0.84 1.8E-05 28.5 0.7 43 161-203 1-49 (51)
118 KOG0269 WD40 repeat-containing 79.4 1.9 4E-05 42.1 3.3 44 161-205 781-826 (839)
119 KOG1815 Predicted E3 ubiquitin 79.1 1.1 2.5E-05 41.2 1.8 38 157-196 68-105 (444)
120 KOG3579 Predicted E3 ubiquitin 78.1 1 2.2E-05 39.1 1.0 46 158-206 267-327 (352)
121 TIGR03602 streptolysinS bacter 77.4 0.82 1.8E-05 28.9 0.2 8 2-9 24-31 (56)
122 PF07975 C1_4: TFIIH C1-like d 73.3 2 4.3E-05 27.6 1.2 42 162-203 2-50 (51)
123 KOG1812 Predicted E3 ubiquitin 72.3 2 4.4E-05 38.9 1.5 42 160-202 307-351 (384)
124 KOG4718 Non-SMC (structural ma 68.4 2.6 5.7E-05 35.0 1.2 43 160-204 182-224 (235)
125 TIGR00622 ssl1 transcription f 65.5 8.2 0.00018 28.9 3.2 45 159-203 55-110 (112)
126 PF13717 zinc_ribbon_4: zinc-r 64.5 3.7 8E-05 24.2 1.0 25 161-185 4-36 (36)
127 PF14569 zf-UDP: Zinc-binding 62.7 8.2 0.00018 26.9 2.6 49 158-206 8-61 (80)
128 KOG2068 MOT2 transcription fac 62.6 6.7 0.00014 34.7 2.6 50 160-209 250-300 (327)
129 PF07649 C1_3: C1-like domain; 60.3 7 0.00015 21.7 1.6 29 161-189 2-30 (30)
130 PF04710 Pellino: Pellino; In 60.1 2.9 6.3E-05 37.8 0.0 31 173-206 302-338 (416)
131 KOG2807 RNA polymerase II tran 58.4 8.2 0.00018 34.2 2.4 47 158-204 329-375 (378)
132 KOG3005 GIY-YIG type nuclease 58.1 2.2 4.7E-05 36.7 -1.1 50 160-209 183-245 (276)
133 PF10571 UPF0547: Uncharacteri 57.3 6.1 0.00013 21.6 1.0 23 161-184 2-24 (26)
134 KOG3799 Rab3 effector RIM1 and 56.7 3.7 8.1E-05 31.7 0.1 50 156-205 62-116 (169)
135 PF14169 YdjO: Cold-inducible 56.7 5.2 0.00011 26.4 0.8 14 196-209 39-52 (59)
136 PRK05978 hypothetical protein; 56.4 7 0.00015 30.7 1.5 23 191-213 47-69 (148)
137 PF07191 zinc-ribbons_6: zinc- 55.7 0.94 2E-05 31.0 -3.0 39 160-206 2-40 (70)
138 smart00064 FYVE Protein presen 55.2 6.7 0.00014 26.0 1.1 38 157-194 8-46 (68)
139 PF01363 FYVE: FYVE zinc finge 54.5 5.9 0.00013 26.3 0.8 37 157-193 7-44 (69)
140 PLN02189 cellulose synthase 53.4 13 0.00027 38.0 3.1 49 159-207 34-87 (1040)
141 PF13719 zinc_ribbon_5: zinc-r 52.5 9.2 0.0002 22.5 1.3 25 161-185 4-36 (37)
142 PF06844 DUF1244: Protein of u 51.8 9.7 0.00021 25.7 1.4 11 184-194 12-22 (68)
143 KOG0824 Predicted E3 ubiquitin 51.7 4.3 9.3E-05 35.5 -0.3 48 157-206 103-150 (324)
144 PF02318 FYVE_2: FYVE-type zin 50.9 10 0.00022 28.3 1.6 46 158-204 53-102 (118)
145 PF04423 Rad50_zn_hook: Rad50 49.7 5.5 0.00012 25.4 0.0 10 198-207 22-31 (54)
146 cd00350 rubredoxin_like Rubred 48.7 14 0.00031 21.0 1.7 9 196-204 17-25 (33)
147 PF13832 zf-HC5HC2H_2: PHD-zin 47.7 12 0.00026 27.2 1.6 33 158-192 54-88 (110)
148 PRK00418 DNA gyrase inhibitor; 46.5 14 0.00029 24.7 1.5 14 196-209 6-19 (62)
149 KOG2071 mRNA cleavage and poly 46.3 11 0.00025 35.8 1.5 36 157-192 511-556 (579)
150 PF06906 DUF1272: Protein of u 46.3 22 0.00048 23.2 2.4 46 161-209 7-54 (57)
151 KOG3039 Uncharacterized conser 45.5 18 0.00039 30.9 2.4 35 157-194 41-75 (303)
152 smart00132 LIM Zinc-binding do 45.4 22 0.00049 19.9 2.3 37 161-206 1-37 (39)
153 PRK13130 H/ACA RNA-protein com 44.4 17 0.00037 23.7 1.7 19 196-214 17-35 (56)
154 PF14353 CpXC: CpXC protein 43.6 18 0.00039 27.1 2.0 50 161-213 3-55 (128)
155 PF14311 DUF4379: Domain of un 41.4 18 0.00038 23.1 1.4 24 178-202 32-55 (55)
156 PF11023 DUF2614: Protein of u 41.4 22 0.00047 26.6 2.1 30 177-212 72-101 (114)
157 KOG3113 Uncharacterized conser 40.5 27 0.00058 30.0 2.7 50 159-210 111-161 (293)
158 PF13771 zf-HC5HC2H: PHD-like 40.5 19 0.00041 25.0 1.6 33 159-191 36-68 (90)
159 COG3364 Zn-ribbon containing p 39.6 18 0.00038 26.7 1.3 26 175-204 3-28 (112)
160 KOG4185 Predicted E3 ubiquitin 39.4 4.4 9.6E-05 34.9 -2.2 46 160-205 208-265 (296)
161 smart00734 ZnF_Rad18 Rad18-lik 39.2 14 0.00031 20.0 0.6 9 198-206 3-11 (26)
162 PLN02638 cellulose synthase A 38.3 29 0.00063 35.6 3.0 49 159-207 17-70 (1079)
163 PLN02436 cellulose synthase A 38.0 27 0.00059 35.8 2.8 49 159-207 36-89 (1094)
164 cd00065 FYVE FYVE domain; Zinc 37.6 27 0.00059 22.0 1.9 35 160-194 3-38 (57)
165 PF10235 Cript: Microtubule-as 36.9 17 0.00036 26.2 0.8 38 159-208 44-81 (90)
166 PF12660 zf-TFIIIC: Putative z 36.2 2.9 6.2E-05 30.5 -3.3 49 160-210 15-69 (99)
167 smart00647 IBR In Between Ring 35.6 11 0.00023 24.2 -0.3 18 176-193 42-59 (64)
168 KOG1814 Predicted E3 ubiquitin 35.3 20 0.00044 32.7 1.3 35 157-191 366-403 (445)
169 KOG1729 FYVE finger containing 34.4 5.9 0.00013 34.6 -2.2 36 161-196 216-251 (288)
170 PF09723 Zn-ribbon_8: Zinc rib 34.2 9.1 0.0002 23.2 -0.7 28 176-204 7-34 (42)
171 KOG3842 Adaptor protein Pellin 33.3 38 0.00083 30.0 2.6 48 159-206 341-413 (429)
172 COG2260 Predicted Zn-ribbon RN 32.9 33 0.00071 22.6 1.6 19 196-214 17-35 (59)
173 PF03884 DUF329: Domain of unk 31.7 17 0.00038 23.8 0.2 11 198-208 4-14 (57)
174 cd00729 rubredoxin_SM Rubredox 31.1 34 0.00073 19.7 1.4 8 197-204 19-26 (34)
175 PLN02195 cellulose synthase A 30.7 61 0.0013 33.0 3.9 49 159-207 6-59 (977)
176 COG2824 PhnA Uncharacterized Z 30.5 17 0.00037 26.9 0.0 29 160-194 4-32 (112)
177 PLN02400 cellulose synthase 30.4 32 0.00068 35.4 1.9 49 159-207 36-89 (1085)
178 PRK01343 zinc-binding protein; 29.3 32 0.0007 22.5 1.2 12 196-207 9-20 (57)
179 PRK11827 hypothetical protein; 28.3 21 0.00046 23.6 0.2 19 191-209 3-21 (60)
180 PF03119 DNA_ligase_ZBD: NAD-d 26.9 24 0.00052 19.5 0.2 10 198-207 1-10 (28)
181 PF09889 DUF2116: Uncharacteri 25.9 36 0.00077 22.5 0.9 15 196-210 3-17 (59)
182 PF15616 TerY-C: TerY-C metal 25.4 29 0.00063 26.7 0.5 45 157-210 75-119 (131)
183 KOG2169 Zn-finger transcriptio 25.3 44 0.00096 32.4 1.9 44 161-211 308-360 (636)
184 PLN02915 cellulose synthase A 25.2 61 0.0013 33.3 2.8 50 158-207 14-68 (1044)
185 PF09237 GAGA: GAGA factor; I 24.6 22 0.00048 22.9 -0.2 9 198-206 26-34 (54)
186 TIGR02605 CxxC_CxxC_SSSS putat 24.4 28 0.0006 21.7 0.2 24 176-204 7-34 (52)
187 COG3492 Uncharacterized protei 24.4 40 0.00087 24.3 1.0 12 184-195 43-54 (104)
188 KOG2979 Protein involved in DN 24.2 39 0.00084 29.0 1.1 44 160-205 177-222 (262)
189 KOG1356 Putative transcription 23.8 23 0.0005 35.2 -0.4 45 159-204 229-279 (889)
190 PF04135 Nop10p: Nucleolar RNA 23.1 53 0.0011 21.2 1.3 18 197-214 18-35 (53)
191 TIGR00686 phnA alkylphosphonat 23.0 54 0.0012 24.4 1.5 23 161-183 4-28 (109)
192 COG3813 Uncharacterized protei 22.9 62 0.0013 22.3 1.7 27 181-209 28-54 (84)
193 PF10497 zf-4CXXC_R1: Zinc-fin 22.6 63 0.0014 23.7 1.8 24 181-204 37-69 (105)
194 KOG1245 Chromatin remodeling c 22.3 28 0.00062 36.9 -0.1 50 157-206 1106-1159(1404)
195 PF02148 zf-UBP: Zn-finger in 22.2 56 0.0012 21.3 1.4 32 162-195 1-36 (63)
196 PF00412 LIM: LIM domain; Int 22.2 66 0.0014 20.0 1.7 37 162-207 1-37 (58)
197 KOG1512 PHD Zn-finger protein 22.2 37 0.00079 29.7 0.6 30 160-189 315-344 (381)
198 PF04216 FdhE: Protein involve 22.2 7.4 0.00016 33.7 -3.8 41 159-204 172-219 (290)
199 PF02444 HEV_ORF1: Hepatitis E 21.7 32 0.00069 25.0 0.1 8 2-9 9-16 (114)
200 PRK03564 formate dehydrogenase 21.7 59 0.0013 28.7 1.8 42 158-204 186-234 (309)
201 KOG4451 Uncharacterized conser 21.3 67 0.0015 27.2 1.9 24 186-209 253-276 (286)
202 COG2835 Uncharacterized conser 21.0 42 0.0009 22.2 0.5 13 198-210 10-22 (60)
203 COG3024 Uncharacterized protei 20.6 64 0.0014 21.7 1.3 14 197-210 8-21 (65)
204 KOG1512 PHD Zn-finger protein 20.5 1.2E+02 0.0026 26.6 3.3 49 159-207 258-325 (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=99.66 E-value=2.7e-17 Score=103.32 Aligned_cols=44 Identities=45% Similarity=1.152 Sum_probs=40.0
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCN 203 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr 203 (214)
+.|+||+++|..++.++.++|||.||..||.+|++++.+||+||
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=99.54 E-value=3.8e-15 Score=130.27 Aligned_cols=52 Identities=37% Similarity=0.927 Sum_probs=46.6
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCC-CCCcccccccCCCC
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD-TCPVCNQEMIFDLP 211 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~-tCPvCr~~~~~~~~ 211 (214)
++|+||||+|..++.++.|||+|.||..||++||...+ .||+||+.+.....
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 48999999999999999999999999999999997775 49999998866543
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=99.49 E-value=2.6e-14 Score=99.35 Aligned_cols=46 Identities=37% Similarity=1.006 Sum_probs=37.4
Q ss_pred CCCcccccccccCC----------CCCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028048 158 EEDVCPTCLEEYDA----------ENPRIITKCEHHFHLACIFEWMERSDTCPVCN 203 (214)
Q Consensus 158 e~~~C~ICle~~~~----------~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr 203 (214)
.++.|+||++.|.. +..+...+|||.||..||.+||+.+.+||+||
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 45569999999922 23456678999999999999999999999997
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=2.4e-13 Score=118.42 Aligned_cols=54 Identities=33% Similarity=0.955 Sum_probs=46.1
Q ss_pred CCCCcccccccc-cCCCC---------CeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028048 157 EEEDVCPTCLEE-YDAEN---------PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~-~~~~~---------~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~ 210 (214)
..+..|.||+++ |..++ .++.++|||.||..|++.||+|+.+||+||.++.++.
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 44442 3467999999999999999999999999999988775
No 5
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.33 E-value=7e-13 Score=111.28 Aligned_cols=51 Identities=31% Similarity=0.810 Sum_probs=42.1
Q ss_pred CCCcccccccccCCCC-----CeEEcCCCCcccHHHHHHHHhcCCCCCcccccccC
Q 028048 158 EEDVCPTCLEEYDAEN-----PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 208 (214)
Q Consensus 158 e~~~C~ICle~~~~~~-----~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~ 208 (214)
.+..|+||++.+.... ..++++|+|.||..||.+|++++.+||+||..+..
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~ 228 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFIS 228 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeE
Confidence 3567999999875432 13567899999999999999999999999998753
No 6
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.29 E-value=2.1e-12 Score=91.30 Aligned_cols=53 Identities=36% Similarity=0.931 Sum_probs=43.5
Q ss_pred CCCcccccccccCCC----------CCeEEcCCCCcccHHHHHHHHhc---CCCCCcccccccCCC
Q 028048 158 EEDVCPTCLEEYDAE----------NPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDL 210 (214)
Q Consensus 158 e~~~C~ICle~~~~~----------~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCPvCr~~~~~~~ 210 (214)
++++|.||...|+.. -+++.-.|+|.||..||.+||+. +..||+||++..+++
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 467899999999742 25566689999999999999975 478999999987753
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=3.9e-12 Score=81.86 Aligned_cols=46 Identities=28% Similarity=0.782 Sum_probs=39.6
Q ss_pred CCcccccccccCCCCCeEEcCCCCc-ccHHHHHHHHhcCCCCCccccccc
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEHH-FHLACIFEWMERSDTCPVCNQEMI 207 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H~-Fh~~CI~~Wl~~~~tCPvCr~~~~ 207 (214)
+..|.||++.... .++++|||. ||..|+.+|++++..||+||+++.
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 4579999998654 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=99.23 E-value=6.5e-12 Score=76.70 Aligned_cols=39 Identities=44% Similarity=1.142 Sum_probs=33.8
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcc
Q 028048 162 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVC 202 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvC 202 (214)
|+||++.+.. +++.++|||.||..||.+|++.+.+||+|
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 8999998854 56789999999999999999999999998
No 9
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.23 E-value=3.9e-12 Score=108.33 Aligned_cols=50 Identities=26% Similarity=0.802 Sum_probs=45.3
Q ss_pred CCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHh-cCCCCCccccccc
Q 028048 158 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMI 207 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~~~tCPvCr~~~~ 207 (214)
..-.|+|||+.|.-++...++||.|.||..||.+||. -+..||+||.+++
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 4457999999998888899999999999999999998 6789999999875
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=99.21 E-value=1.5e-11 Score=75.94 Aligned_cols=44 Identities=39% Similarity=1.092 Sum_probs=37.7
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-CCCCCcccccc
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEM 206 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~tCPvCr~~~ 206 (214)
.|+||++.+ .+...+++|||.||..|+..|++. +..||+||+.+
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 445667779999999999999987 77899999864
No 11
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.15 E-value=3.1e-11 Score=97.82 Aligned_cols=51 Identities=27% Similarity=0.696 Sum_probs=40.9
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc----------------CCCCCcccccccCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER----------------SDTCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~----------------~~tCPvCr~~~~~~~ 210 (214)
.++..|+||++.+.. .++++|||.||..||.+|+.. ...||+||..+....
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 247999999886543
No 12
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=3e-11 Score=95.87 Aligned_cols=53 Identities=28% Similarity=0.701 Sum_probs=43.8
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~ 210 (214)
+.--.|+|||+.|.... .+.++|||.||..||+..++...+||+|++.|..+.
T Consensus 129 ~~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred ccccCCCceecchhhcc-ccccccchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 33457999999996432 356999999999999999999999999999875544
No 13
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.10 E-value=7.4e-11 Score=73.93 Aligned_cols=44 Identities=32% Similarity=0.785 Sum_probs=39.5
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
.|.||++.|..+....+++|||.||..||..++.....||+||+
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 39999999966677899999999999999999977788999985
No 14
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=3.7e-11 Score=101.95 Aligned_cols=52 Identities=31% Similarity=0.720 Sum_probs=44.5
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 211 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~~ 211 (214)
+....|.||||.... +..++|||.||..||.+|...+.-||+||..+...+.
T Consensus 237 ~a~~kC~LCLe~~~~---pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 237 EATRKCSLCLENRSN---PSATPCGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCceEEEecCCCC---CCcCcCcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 555689999997643 6789999999999999999999999999998866554
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=99.08 E-value=8.1e-11 Score=96.70 Aligned_cols=56 Identities=25% Similarity=0.614 Sum_probs=42.0
Q ss_pred CCCcccccccccCCC----C--CeEEcCCCCcccHHHHHHHHhcC------CCCCcccccccCCCCCC
Q 028048 158 EEDVCPTCLEEYDAE----N--PRIITKCEHHFHLACIFEWMERS------DTCPVCNQEMIFDLPVD 213 (214)
Q Consensus 158 e~~~C~ICle~~~~~----~--~~~~l~C~H~Fh~~CI~~Wl~~~------~tCPvCr~~~~~~~~~~ 213 (214)
++.+|+||||..... + ..++.+|+|.||..||..|.+.+ .+||+||..+.+-.|-.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~pSr 236 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNITMSK 236 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeecccc
Confidence 457899999985221 1 23567899999999999999753 46999999886655443
No 16
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.05 E-value=1.4e-10 Score=71.97 Aligned_cols=38 Identities=29% Similarity=0.838 Sum_probs=29.8
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC----CCCCcc
Q 028048 162 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVC 202 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~----~tCPvC 202 (214)
|+||++.|.. ++.++|||.|+..||.+|++.. -.||+|
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 7889999999999999999664 369987
No 17
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.03 E-value=9.4e-11 Score=96.75 Aligned_cols=51 Identities=31% Similarity=0.790 Sum_probs=41.3
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---CCCCCcccccccCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCPvCr~~~~~~~ 210 (214)
.....|-|||+.-.. ++++.|||.||..||++||.. ++.|||||..|..+.
T Consensus 45 ~~~FdCNICLd~akd---PVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKD---PVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCceeeeeeccccCC---CEEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 344579999996533 567889999999999999965 467999999886654
No 18
>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=99.01 E-value=3e-10 Score=69.83 Aligned_cols=39 Identities=44% Similarity=1.182 Sum_probs=33.8
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHh--cCCCCCcc
Q 028048 162 CPTCLEEYDAENPRIITKCEHHFHLACIFEWME--RSDTCPVC 202 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~--~~~tCPvC 202 (214)
|+||++.+.. +..+++|||.||..||.+|++ ....||+|
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 8999998855 345899999999999999998 55779998
No 19
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.00 E-value=2.1e-10 Score=79.32 Aligned_cols=53 Identities=30% Similarity=0.725 Sum_probs=41.7
Q ss_pred CCcccccccccCC-------------CCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCC
Q 028048 159 EDVCPTCLEEYDA-------------ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 211 (214)
Q Consensus 159 ~~~C~ICle~~~~-------------~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~~ 211 (214)
-|+|.||...|.. +-++..-.|.|.||..||.+||..++.||++|+...+.+.
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~~ 85 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLADG 85 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEecc
Confidence 4678888776533 1244556799999999999999999999999998876554
No 20
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=1.5e-10 Score=108.34 Aligned_cols=50 Identities=34% Similarity=0.845 Sum_probs=43.0
Q ss_pred CCCcccccccccCCCCC--eEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028048 158 EEDVCPTCLEEYDAENP--RIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 207 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~--~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~ 207 (214)
.++.|+||+|.+..+.. ...++|+|.||..|++.||+++.+||+||..+.
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 46789999999865433 678999999999999999999999999999543
No 21
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.98 E-value=6.2e-10 Score=74.52 Aligned_cols=48 Identities=23% Similarity=0.402 Sum_probs=41.3
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 210 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~ 210 (214)
..|+||++.+.. +++++|||.|+..||.+|++.+.+||+|++.+..++
T Consensus 2 ~~Cpi~~~~~~~---Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKD---PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCC---CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCChhh
Confidence 469999998854 467899999999999999999999999999885443
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=98.95 E-value=7.2e-10 Score=66.00 Aligned_cols=38 Identities=42% Similarity=1.189 Sum_probs=32.9
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHh-cCCCCCcc
Q 028048 162 CPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVC 202 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~~~tCPvC 202 (214)
|+||++.. ...+.++|||.||..||..|++ .+..||+|
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 78999983 3477889999999999999998 66789987
No 23
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.85 E-value=2.2e-09 Score=66.86 Aligned_cols=34 Identities=35% Similarity=0.875 Sum_probs=23.6
Q ss_pred cccccccc-CCCCCeEEcCCCCcccHHHHHHHHhcC
Q 028048 162 CPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERS 196 (214)
Q Consensus 162 C~ICle~~-~~~~~~~~l~C~H~Fh~~CI~~Wl~~~ 196 (214)
|+||+| | ..++++++|+|||.|+..||.+|++++
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC
Confidence 899999 7 557788899999999999999999854
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.84 E-value=1.9e-09 Score=96.65 Aligned_cols=51 Identities=25% Similarity=0.636 Sum_probs=43.4
Q ss_pred cCCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCC
Q 028048 156 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 209 (214)
Q Consensus 156 ~ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~ 209 (214)
.+....|+||++.|.. .++++|||.||..||..|+.....||+|+..+...
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 3566789999999854 45789999999999999999988999999987543
No 25
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=1.1e-09 Score=75.19 Aligned_cols=52 Identities=31% Similarity=0.841 Sum_probs=40.4
Q ss_pred CCCcccccccccCCC----------CCeEEcCCCCcccHHHHHHHHhc---CCCCCcccccccCC
Q 028048 158 EEDVCPTCLEEYDAE----------NPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFD 209 (214)
Q Consensus 158 e~~~C~ICle~~~~~----------~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCPvCr~~~~~~ 209 (214)
.+++|.||.-.|+.- -+++.-.|.|.||..||.+|+.. +..||+||+...+.
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~ 83 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFK 83 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEec
Confidence 344899999999662 23444469999999999999954 46799999987664
No 26
>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=98.64 E-value=3.1e-08 Score=63.45 Aligned_cols=42 Identities=29% Similarity=0.890 Sum_probs=32.8
Q ss_pred cccccccccCCCCCeEEcCCC-----CcccHHHHHHHHhcC--CCCCccc
Q 028048 161 VCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERS--DTCPVCN 203 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~~--~tCPvCr 203 (214)
.|.||++....++ ....||. |.||..|+.+|+..+ .+||+|+
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 4578884 999999999999554 5899995
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=8.1e-08 Score=87.35 Aligned_cols=49 Identities=31% Similarity=0.737 Sum_probs=39.7
Q ss_pred CCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC-----CCCCcccccccCCC
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS-----DTCPVCNQEMIFDL 210 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~-----~tCPvCr~~~~~~~ 210 (214)
+..|||||+.... ..++.|||+||..||.+.+... ..||+|+..|...+
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 5689999998654 5567799999999999988554 67999998876543
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.46 E-value=8.3e-08 Score=80.78 Aligned_cols=51 Identities=29% Similarity=0.675 Sum_probs=41.2
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHH-HHhcCC-CCCcccccccCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFE-WMERSD-TCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~-Wl~~~~-tCPvCr~~~~~~~ 210 (214)
+.+-.|.||+|.... ...++|||.||..||.. |=+++- .||+||+.+..++
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 345679999997543 77999999999999999 987764 4999999875543
No 29
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.44 E-value=8.3e-08 Score=69.70 Aligned_cols=67 Identities=28% Similarity=0.524 Sum_probs=47.7
Q ss_pred HHhhcccccccc-cCCCCcccccccccC--------------CCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccC
Q 028048 144 ELSKSVHHVVAV-IEEEDVCPTCLEEYD--------------AENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 208 (214)
Q Consensus 144 ~~~~~~~~~~~~-~ee~~~C~ICle~~~--------------~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~ 208 (214)
+++|+....... +..-|.|+||..-+- .+-.+.---|+|.||..||.+||+.++.||+|.++..+
T Consensus 30 ~lKKWnAvAlWaWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 30 ELKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVF 109 (114)
T ss_pred EEeeeeeeeeeeeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeE
Confidence 456665444433 356778999975431 11233445699999999999999999999999998766
Q ss_pred CC
Q 028048 209 DL 210 (214)
Q Consensus 209 ~~ 210 (214)
..
T Consensus 110 qr 111 (114)
T KOG2930|consen 110 QR 111 (114)
T ss_pred ee
Confidence 53
No 30
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.41 E-value=4.4e-08 Score=67.43 Aligned_cols=51 Identities=27% Similarity=0.694 Sum_probs=24.9
Q ss_pred CCcccccccccC-CCC-C-eEE--cCCCCcccHHHHHHHHhcC-----------CCCCcccccccCC
Q 028048 159 EDVCPTCLEEYD-AEN-P-RII--TKCEHHFHLACIFEWMERS-----------DTCPVCNQEMIFD 209 (214)
Q Consensus 159 ~~~C~ICle~~~-~~~-~-~~~--l~C~H~Fh~~CI~~Wl~~~-----------~tCPvCr~~~~~~ 209 (214)
+..|.||+.... .+. + ++. ..|++.||..||.+||... ..||.|+++|.+.
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 346999999865 222 2 222 2699999999999999531 3699999988653
No 31
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=9.9e-08 Score=86.31 Aligned_cols=51 Identities=29% Similarity=0.792 Sum_probs=39.7
Q ss_pred CCCCcccccccccCC---CCC-----------eEEcCCCCcccHHHHHHHHh-cCCCCCccccccc
Q 028048 157 EEEDVCPTCLEEYDA---ENP-----------RIITKCEHHFHLACIFEWME-RSDTCPVCNQEMI 207 (214)
Q Consensus 157 ee~~~C~ICle~~~~---~~~-----------~~~l~C~H~Fh~~CI~~Wl~-~~~tCPvCr~~~~ 207 (214)
+....|+|||..++. +.+ -.++||.|.||..|+.+||. .+--||+||..++
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 344579999988643 221 24569999999999999999 5669999999874
No 32
>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=98.39 E-value=1.9e-07 Score=64.69 Aligned_cols=50 Identities=24% Similarity=0.382 Sum_probs=38.4
Q ss_pred CCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-CCCCCcccccccCCC
Q 028048 158 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDL 210 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~tCPvCr~~~~~~~ 210 (214)
++..|+|+.+-+.. ++++++||.|...+|.+|+++ ..+||+|++.+...+
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 34679999999865 667899999999999999998 899999998876543
No 33
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=1e-07 Score=80.48 Aligned_cols=51 Identities=29% Similarity=0.711 Sum_probs=40.8
Q ss_pred CCCCcccccccccCCCC-------CeEEcCCCCcccHHHHHHHH--hcCCCCCccccccc
Q 028048 157 EEEDVCPTCLEEYDAEN-------PRIITKCEHHFHLACIFEWM--ERSDTCPVCNQEMI 207 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~-------~~~~l~C~H~Fh~~CI~~Wl--~~~~tCPvCr~~~~ 207 (214)
-++.+|+||-..++... ..-.|.|+|.||..||+-|- -.+.+||.||..+.
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 35568999988875432 45678999999999999998 45689999998763
No 34
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.32 E-value=2.2e-07 Score=83.26 Aligned_cols=49 Identities=35% Similarity=0.889 Sum_probs=40.0
Q ss_pred CCCCcccccccccCCC-CCeEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028048 157 EEEDVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 207 (214)
Q Consensus 157 ee~~~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~ 207 (214)
.|..+|+||||.++.. +.++.+.|.|.||..|+.+|- ..+|||||....
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhhcC
Confidence 5677999999999664 345677899999999999994 456999997543
No 35
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=3.2e-07 Score=81.01 Aligned_cols=55 Identities=33% Similarity=0.773 Sum_probs=41.4
Q ss_pred CCCcccccccccCCCC-----CeEEcCCCCcccHHHHHHHH--hc-----CCCCCcccccccCCCCC
Q 028048 158 EEDVCPTCLEEYDAEN-----PRIITKCEHHFHLACIFEWM--ER-----SDTCPVCNQEMIFDLPV 212 (214)
Q Consensus 158 e~~~C~ICle~~~~~~-----~~~~l~C~H~Fh~~CI~~Wl--~~-----~~tCPvCr~~~~~~~~~ 212 (214)
.+.+|.||||....-. -.++.+|.|.||..||+.|. .+ .+.||.||....+--+.
T Consensus 160 ~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v~pS 226 (344)
T KOG1039|consen 160 SEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFVNPS 226 (344)
T ss_pred ccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccccccc
Confidence 4568999999874322 22347799999999999998 44 57899999977555443
No 36
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.28 E-value=2.6e-07 Score=80.24 Aligned_cols=47 Identities=28% Similarity=0.714 Sum_probs=41.7
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
+.-..|.||.|.|.. +.+++|+|.||.-||+..|..+..||.|+..+
T Consensus 21 D~lLRC~IC~eyf~i---p~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNI---PMITPCSHTFCSLCIRKFLSYKPQCPTCCVTV 67 (442)
T ss_pred HHHHHHhHHHHHhcC---ceeccccchHHHHHHHHHhccCCCCCceeccc
Confidence 344579999999976 67889999999999999999999999999876
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.22 E-value=5.2e-07 Score=76.99 Aligned_cols=47 Identities=26% Similarity=0.517 Sum_probs=41.7
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
+.-..|-||-+.|.. +..++|||.||.-||+..|..+..||+||.+.
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 444679999999876 67889999999999999999999999999865
No 38
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=5.5e-07 Score=75.98 Aligned_cols=45 Identities=38% Similarity=0.849 Sum_probs=39.3
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
+++..|+||++.|... .+++|+|.||..||..|+...-.||.||.
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred cccccChhhHHHhhcC---ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 5677899999999663 78999999999999999886677999993
No 39
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.14 E-value=6e-07 Score=86.57 Aligned_cols=52 Identities=27% Similarity=0.875 Sum_probs=40.2
Q ss_pred CCCCcccccccccCCCC----CeEEcCCCCcccHHHHHHHHhcC--CCCCcccccccC
Q 028048 157 EEEDVCPTCLEEYDAEN----PRIITKCEHHFHLACIFEWMERS--DTCPVCNQEMIF 208 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~----~~~~l~C~H~Fh~~CI~~Wl~~~--~tCPvCr~~~~~ 208 (214)
+...+|+||......-+ ..++..|.|.||..|+++|++.+ ++||+||.++.+
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 45567999998765211 13456699999999999999764 789999988765
No 40
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.00 E-value=1.1e-06 Score=58.90 Aligned_cols=50 Identities=30% Similarity=0.664 Sum_probs=25.8
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~ 210 (214)
++...|++|.+.+. +++.+..|.|.||..||..-+. ..||+|+.+.+.++
T Consensus 5 e~lLrCs~C~~~l~--~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 5 EELLRCSICFDILK--EPVCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp HHTTS-SSS-S--S--S-B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred HHhcCCcHHHHHhc--CCceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 34467999999874 4567789999999999988554 34999999886655
No 41
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.86 E-value=4.3e-06 Score=79.46 Aligned_cols=49 Identities=31% Similarity=0.614 Sum_probs=42.1
Q ss_pred CCcccccccccCCCCCeEEcCCCCcccHHHHHHHHh-cCCCCCcccccccCCC
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME-RSDTCPVCNQEMIFDL 210 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~-~~~tCPvCr~~~~~~~ 210 (214)
-..|+.|-..|.. .++++|+|.||..||..-+. |..+||.|...|-.++
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 3489999988865 67899999999999999994 5689999999887665
No 42
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=1.4e-05 Score=70.16 Aligned_cols=47 Identities=26% Similarity=0.668 Sum_probs=39.8
Q ss_pred CCCCcccccccccCCCCCeEEcCCCC-cccHHHHHHHHhcCCCCCcccccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEH-HFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H-~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
+...+|.|||.+-.. ..+|||.| -.|.+|.+.-.-..+.||+||+.+
T Consensus 288 ~~gkeCVIClse~rd---t~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi 335 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPI 335 (349)
T ss_pred cCCCeeEEEecCCcc---eEEecchhhehhHhHHHHHHHhhcCCCccccch
Confidence 446689999998654 67899999 689999999876788899999976
No 43
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.80 E-value=3.5e-06 Score=80.04 Aligned_cols=52 Identities=27% Similarity=0.507 Sum_probs=43.1
Q ss_pred CCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCC
Q 028048 158 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 209 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~ 209 (214)
....|+|||..|..+......+|+|.||..||..|-+.-.+||+||.++.--
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 3457999999986555455678999999999999999999999999987443
No 44
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.77 E-value=2.8e-06 Score=74.33 Aligned_cols=54 Identities=22% Similarity=0.707 Sum_probs=41.7
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-CCCCCcccccccCCCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVCNQEMIFDLPV 212 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~tCPvCr~~~~~~~~~ 212 (214)
..+..|+|||+.+.. ...+..|.|.||..||..-|+. .+.||.||+.+...-.|
T Consensus 41 ~~~v~c~icl~llk~--tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL 95 (381)
T KOG0311|consen 41 DIQVICPICLSLLKK--TMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL 95 (381)
T ss_pred hhhhccHHHHHHHHh--hcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence 345679999998743 2345669999999999999976 57899999987655433
No 45
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.67 E-value=3e-05 Score=51.13 Aligned_cols=43 Identities=35% Similarity=0.765 Sum_probs=29.8
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPV 201 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~tCPv 201 (214)
.-...|||.+..| .++++...|||.|-...|.+||++ ...||+
T Consensus 9 ~~~~~CPiT~~~~--~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPF--EDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB---SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChh--hCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3446899999988 567888899999999999999944 457998
No 46
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.61 E-value=3.2e-05 Score=77.63 Aligned_cols=52 Identities=31% Similarity=0.742 Sum_probs=44.5
Q ss_pred cCCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC----------CCCCccccccc
Q 028048 156 IEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----------DTCPVCNQEMI 207 (214)
Q Consensus 156 ~ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~----------~tCPvCr~~~~ 207 (214)
.+.+|+|.||+.+--...+.+.|.|+|+||..|.+.-|+++ -+||+|+.++.
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 35678999999987777789999999999999999888765 47999998773
No 47
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.49 E-value=4.8e-05 Score=68.77 Aligned_cols=53 Identities=32% Similarity=0.760 Sum_probs=43.3
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 211 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~~ 211 (214)
++...|+||...+.. ++..+.|||.||..||.+|+..+..||.|+..+.....
T Consensus 19 ~~~l~C~~C~~vl~~--p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD--PVQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAEE 71 (391)
T ss_pred cccccCccccccccC--CCCCCCCCCcccccccchhhccCcCCcccccccchhhc
Confidence 455679999998744 34446999999999999999999999999988765543
No 48
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.46 E-value=2.4e-05 Score=50.59 Aligned_cols=45 Identities=24% Similarity=0.642 Sum_probs=33.2
Q ss_pred CCcccccccccCCCCCeEEcCCCC-cccHHHHHHHHh-cCCCCCcccccc
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEH-HFHLACIFEWME-RSDTCPVCNQEM 206 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H-~Fh~~CI~~Wl~-~~~tCPvCr~~~ 206 (214)
.++|.||+|.-.. -++--||| -.|..|-.+-++ .+..||+||+++
T Consensus 7 ~dECTICye~pvd---sVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVD---SVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcch---HHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 3679999996422 23556999 578888766554 688999999976
No 49
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.43 E-value=4.5e-05 Score=62.01 Aligned_cols=44 Identities=27% Similarity=0.782 Sum_probs=39.9
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
..|.||-++|.. ++++.|||+||..|...-++....|-+|.+.+
T Consensus 197 F~C~iCKkdy~s---pvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYES---PVVTECGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccc---hhhhhcchhHHHHHHHHHhccCCcceecchhh
Confidence 489999999976 67899999999999999999999999998865
No 50
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.41 E-value=4.1e-05 Score=65.84 Aligned_cols=51 Identities=25% Similarity=0.744 Sum_probs=42.1
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-----------------------CCCCCcccccccCCC
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-----------------------SDTCPVCNQEMIFDL 210 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-----------------------~~tCPvCr~~~~~~~ 210 (214)
..|.|||-.|......+.+.|-|.||..|+.+.|.. ...|||||..|..+.
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 459999999988887889999999999999887731 246999999886543
No 51
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.39 E-value=0.00086 Score=64.77 Aligned_cols=48 Identities=33% Similarity=0.731 Sum_probs=36.7
Q ss_pred cCCCCcccccccccCCCCCe-EEcCCCCcccHHHHHHHHhcC-------CCCCccc
Q 028048 156 IEEEDVCPTCLEEYDAENPR-IITKCEHHFHLACIFEWMERS-------DTCPVCN 203 (214)
Q Consensus 156 ~ee~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl~~~-------~tCPvCr 203 (214)
....-+|.||++.+....++ ....|=|+||+.||.+|-+.. -.||.|.
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 34556899999998665443 345688999999999999643 2599997
No 52
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.32 E-value=0.00013 Score=46.11 Aligned_cols=40 Identities=28% Similarity=0.904 Sum_probs=27.7
Q ss_pred ccccccccCCCCCeEEcCCC-----CcccHHHHHHHHhc--CCCCCcc
Q 028048 162 CPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMER--SDTCPVC 202 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~--~~tCPvC 202 (214)
|-||++....++ ....||. -..|..|+.+|+.. +.+|++|
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 789999876555 5567873 47899999999964 5779987
No 53
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.28 E-value=8.4e-05 Score=66.03 Aligned_cols=48 Identities=33% Similarity=0.684 Sum_probs=39.6
Q ss_pred CCCCcccccccccCCC-CCeEEcCCCCcccHHHHHHHHhcC--CCCCcccc
Q 028048 157 EEEDVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERS--DTCPVCNQ 204 (214)
Q Consensus 157 ee~~~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~~--~tCPvCr~ 204 (214)
+-+..|..|=|.+... +.+-.+||.|+||..|+.+.|+++ .+||-||+
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 3456899999998543 456689999999999999999776 68999995
No 54
>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=97.14 E-value=0.00026 Score=61.70 Aligned_cols=35 Identities=20% Similarity=0.560 Sum_probs=27.3
Q ss_pred eEEcCCCCcccHHHHHHHH-hcCCCCCcccccccCC
Q 028048 175 RIITKCEHHFHLACIFEWM-ERSDTCPVCNQEMIFD 209 (214)
Q Consensus 175 ~~~l~C~H~Fh~~CI~~Wl-~~~~tCPvCr~~~~~~ 209 (214)
+.+-.|||.||..||...+ .....||+|++.+..+
T Consensus 21 l~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 21 LMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKN 56 (309)
T ss_pred cccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence 3344899999999999955 5557899999877544
No 55
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.14 E-value=0.00027 Score=63.79 Aligned_cols=48 Identities=27% Similarity=0.722 Sum_probs=40.8
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 207 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~ 207 (214)
..+..|.||+..+.. ++.++|||.||..||.+-|..+.-||.||..+.
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 344579999887754 567799999999999999998899999998875
No 56
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.13 E-value=0.00017 Score=64.27 Aligned_cols=49 Identities=29% Similarity=0.752 Sum_probs=39.4
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCcccccccCCCC
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQEMIFDLP 211 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~tCPvCr~~~~~~~~ 211 (214)
..|-||-|. +..+.+-+|||..|..|+..|-.. ..+||.||.+|.-.++
T Consensus 370 eLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~ 420 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEP 420 (563)
T ss_pred HHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccc
Confidence 369999885 334778899999999999999844 4799999998865443
No 57
>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=97.05 E-value=0.00023 Score=54.66 Aligned_cols=35 Identities=17% Similarity=0.429 Sum_probs=30.1
Q ss_pred CCcccccccccCCCCCeEEcCCC------CcccHHHHHHHH
Q 028048 159 EDVCPTCLEEYDAENPRIITKCE------HHFHLACIFEWM 193 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~------H~Fh~~CI~~Wl 193 (214)
..+|.||++.+..+..++.+.|| |.||..|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 45799999999776678888886 999999999994
No 58
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.00 E-value=0.00018 Score=62.64 Aligned_cols=53 Identities=28% Similarity=0.579 Sum_probs=41.8
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 211 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~~ 211 (214)
....+|.+|-.-|... -.++-|-|.||..||.+.|+.++.||.|+..+--..|
T Consensus 13 n~~itC~LC~GYliDA--TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~p 65 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDA--TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHP 65 (331)
T ss_pred ccceehhhccceeecc--hhHHHHHHHHHHHHHHHHHHHhccCCccceeccCccc
Confidence 4557899998877332 2356799999999999999999999999887644443
No 59
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.99 E-value=0.00023 Score=61.13 Aligned_cols=44 Identities=27% Similarity=0.631 Sum_probs=39.7
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
+.|-||...|.. .+++.|+|.||..|-..-+++...|.+|.+.+
T Consensus 242 f~c~icr~~f~~---pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYR---PVVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred cccccccccccc---chhhcCCceeehhhhccccccCCcceeccccc
Confidence 469999999965 67899999999999999999999999998866
No 60
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.00033 Score=62.22 Aligned_cols=28 Identities=39% Similarity=1.105 Sum_probs=24.2
Q ss_pred EEcCCCCcccHHHHHHHHhcC---CCCCccc
Q 028048 176 IITKCEHHFHLACIFEWMERS---DTCPVCN 203 (214)
Q Consensus 176 ~~l~C~H~Fh~~CI~~Wl~~~---~tCPvCr 203 (214)
.+-.|||+||..|+.+|++.- ..||+|+
T Consensus 22 ~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 22 PIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 355699999999999999863 5799998
No 61
>PHA02862 5L protein; Provisional
Probab=96.94 E-value=0.00048 Score=53.36 Aligned_cols=48 Identities=21% Similarity=0.593 Sum_probs=35.9
Q ss_pred CCcccccccccCCCCCeEEcCC-----CCcccHHHHHHHHhc--CCCCCcccccccCCC
Q 028048 159 EDVCPTCLEEYDAENPRIITKC-----EHHFHLACIFEWMER--SDTCPVCNQEMIFDL 210 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C-----~H~Fh~~CI~~Wl~~--~~tCPvCr~~~~~~~ 210 (214)
.+.|-||+++.+.+ .-|| .-..|..|+.+|++. +..|++|+.+..+..
T Consensus 2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 35799999986432 2455 367899999999965 467999999875543
No 62
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.85 E-value=0.001 Score=52.46 Aligned_cols=51 Identities=29% Similarity=0.704 Sum_probs=37.0
Q ss_pred ccCCCCcccccccccCCCCCeEEcCC--CC---cccHHHHHHHHhcC--CCCCcccccccCC
Q 028048 155 VIEEEDVCPTCLEEYDAENPRIITKC--EH---HFHLACIFEWMERS--DTCPVCNQEMIFD 209 (214)
Q Consensus 155 ~~ee~~~C~ICle~~~~~~~~~~l~C--~H---~Fh~~CI~~Wl~~~--~tCPvCr~~~~~~ 209 (214)
....+..|-||.++.+.. .-|| .. ..|.+|+.+|+..+ ..|++|+++..+.
T Consensus 4 ~s~~~~~CRIC~~~~~~~----~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 4 VSLMDKCCWICKDEYDVV----TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred cCCCCCeeEecCCCCCCc----cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 345667899999985421 2465 33 67999999999654 6799999987543
No 63
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.78 E-value=0.0014 Score=55.91 Aligned_cols=49 Identities=33% Similarity=0.653 Sum_probs=39.0
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCccccccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQEMI 207 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~tCPvCr~~~~ 207 (214)
....+|++|-+.- ..|-+..+|+|+||.-||..-+.- +-+||.|...+.
T Consensus 237 t~~~~C~~Cg~~P--tiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPP--TIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCC--CCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 4556899999853 556778889999999999886643 468999988764
No 64
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.75 E-value=0.00088 Score=59.02 Aligned_cols=48 Identities=23% Similarity=0.660 Sum_probs=41.2
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 207 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~ 207 (214)
.|++.|+||.-. ....+..||+|.-|+.||.+.|.+.+.|=.|+..+.
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 566789999764 344678999999999999999999999999998765
No 65
>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=96.55 E-value=0.0009 Score=42.02 Aligned_cols=43 Identities=30% Similarity=0.798 Sum_probs=27.0
Q ss_pred ccccccccCCCCCeEEcCC-CCcccHHHHHHHHhcCCCCCcccccccCC
Q 028048 162 CPTCLEEYDAENPRIITKC-EHHFHLACIFEWMERSDTCPVCNQEMIFD 209 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C-~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~ 209 (214)
|--|+-.... +..| .|..|..|+...|.+++.||+|+++++..
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 6667765443 6779 59999999999999999999999988754
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=96.47 E-value=0.0021 Score=46.97 Aligned_cols=33 Identities=24% Similarity=0.555 Sum_probs=26.8
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHH
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIF 190 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~ 190 (214)
.++..|+||-..+.. ....+.||||.||..|+.
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 456788999999999975
No 67
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.38 E-value=0.0018 Score=42.06 Aligned_cols=48 Identities=27% Similarity=0.506 Sum_probs=36.9
Q ss_pred CCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCC
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 211 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~~ 211 (214)
+..|..|... +....+++|||..+..|..-| +-+-||+|.+++...++
T Consensus 7 ~~~~~~~~~~---~~~~~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~~~~~ 54 (55)
T PF14447_consen 7 EQPCVFCGFV---GTKGTVLPCGHLICDNCFPGE--RYNGCPFCGTPFEFDDP 54 (55)
T ss_pred ceeEEEcccc---ccccccccccceeeccccChh--hccCCCCCCCcccCCCC
Confidence 3446666553 344678999999999998764 78889999999987765
No 68
>PHA03096 p28-like protein; Provisional
Probab=96.28 E-value=0.0021 Score=55.65 Aligned_cols=45 Identities=33% Similarity=0.696 Sum_probs=31.3
Q ss_pred CcccccccccCCCC----C-eEEcCCCCcccHHHHHHHHhcC---CCCCcccc
Q 028048 160 DVCPTCLEEYDAEN----P-RIITKCEHHFHLACIFEWMERS---DTCPVCNQ 204 (214)
Q Consensus 160 ~~C~ICle~~~~~~----~-~~~l~C~H~Fh~~CI~~Wl~~~---~tCPvCr~ 204 (214)
..|.||||...... . -++..|.|.||..||..|...+ .+||.||.
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 67999999864321 1 1345699999999999999543 44555543
No 69
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.26 E-value=0.0044 Score=39.31 Aligned_cols=45 Identities=27% Similarity=0.645 Sum_probs=22.5
Q ss_pred ccccccccCCCC-CeEEcCCCCcccHHHHHHHHh-cCCCCCcccccc
Q 028048 162 CPTCLEEYDAEN-PRIITKCEHHFHLACIFEWME-RSDTCPVCNQEM 206 (214)
Q Consensus 162 C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~-~~~tCPvCr~~~ 206 (214)
|++|.++++... ...-=+||+.++..|...-++ ....||-||++.
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 789999985433 222235799999999998886 478999999863
No 70
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=96.19 E-value=0.0032 Score=55.26 Aligned_cols=54 Identities=24% Similarity=0.556 Sum_probs=37.8
Q ss_pred ccccCCCCcccccccccCCCCCe-EEcCCCCcccHHHHHHHHh-cCCCCCcccccc
Q 028048 153 VAVIEEEDVCPTCLEEYDAENPR-IITKCEHHFHLACIFEWME-RSDTCPVCNQEM 206 (214)
Q Consensus 153 ~~~~ee~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl~-~~~tCPvCr~~~ 206 (214)
..+++|+|.|+.|+|+++..+.- .--+||-..|.-|+..--+ -+..||-||+..
T Consensus 8 ~~sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y 63 (480)
T COG5175 8 HNSEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKY 63 (480)
T ss_pred cccccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhc
Confidence 34567778899999999765533 3346898888878654322 246799999854
No 71
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.19 E-value=0.0045 Score=52.13 Aligned_cols=54 Identities=13% Similarity=0.265 Sum_probs=44.7
Q ss_pred CCCcccccccccCCCCCeE-EcCCCCcccHHHHHHHHhcCCCCCcccccccCCCC
Q 028048 158 EEDVCPTCLEEYDAENPRI-ITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLP 211 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~~ 211 (214)
..-.|+||.+......+.. +-+|||+|+..|+.+.+..-..||+|.+++..++-
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdi 274 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDI 274 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccce
Confidence 3457999999986655554 45799999999999999999999999999876653
No 72
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.14 E-value=0.0036 Score=56.11 Aligned_cols=37 Identities=24% Similarity=0.723 Sum_probs=29.6
Q ss_pred CCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCcccccc
Q 028048 170 DAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQEM 206 (214)
Q Consensus 170 ~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~tCPvCr~~~ 206 (214)
..+.....+.|||.|...||.+||-. ...||.|..+-
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 44556778999999999999999953 35699997654
No 73
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.04 E-value=0.0036 Score=56.17 Aligned_cols=45 Identities=22% Similarity=0.412 Sum_probs=37.5
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--------CCCCCcccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--------SDTCPVCNQ 204 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--------~~tCPvCr~ 204 (214)
-.|.||+++..+....+.+||+|.||+.|+...+.. .-.||-++.
T Consensus 185 f~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred ccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 469999999987788999999999999999998853 246877654
No 74
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.82 E-value=0.0056 Score=54.08 Aligned_cols=44 Identities=30% Similarity=0.724 Sum_probs=32.5
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
...+.|.||+++... .+.++|||.-| |+.--. .-.+||+||+.+
T Consensus 303 ~~p~lcVVcl~e~~~---~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI 346 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS---AVFVPCGHVCC--CTLCSK-HLPQCPVCRQRI 346 (355)
T ss_pred CCCCceEEecCCccc---eeeecCCcEEE--chHHHh-hCCCCchhHHHH
Confidence 345679999998754 67899999865 665532 234599999876
No 75
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.78 E-value=0.0016 Score=56.05 Aligned_cols=41 Identities=22% Similarity=0.646 Sum_probs=31.4
Q ss_pred CCcccccccccCCCCCeEEcCCCC-cccHHHHHHHHhcCCCCCcccccc
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEH-HFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H-~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
...|.||++.-.. .+.|.||| .-|..|-+.. +.||+||+.|
T Consensus 300 ~~LC~ICmDaP~D---CvfLeCGHmVtCt~CGkrm----~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLECGHMVTCTKCGKRM----NECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCCcc---eEEeecCcEEeehhhcccc----ccCchHHHHH
Confidence 5679999996533 77899999 5577776543 3799999866
No 76
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.74 E-value=0.0046 Score=57.24 Aligned_cols=50 Identities=34% Similarity=0.709 Sum_probs=39.9
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-----CCCCCcccccccCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-----SDTCPVCNQEMIFD 209 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-----~~tCPvCr~~~~~~ 209 (214)
.++.+|.+|-+.-.. .+...|.|.||.-||.++++. +-+||+|-..+..+
T Consensus 534 k~~~~C~lc~d~aed---~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 534 KGEVECGLCHDPAED---YIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred cCceeecccCChhhh---hHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 456689999886433 678899999999999988843 47899998877655
No 77
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.65 E-value=0.01 Score=52.30 Aligned_cols=49 Identities=24% Similarity=0.472 Sum_probs=38.8
Q ss_pred cccCCCCcccccccccCCCCCeEEcCCCCcccHHHHHH--HHhcCCCCCccccc
Q 028048 154 AVIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFE--WMERSDTCPVCNQE 205 (214)
Q Consensus 154 ~~~ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~--Wl~~~~tCPvCr~~ 205 (214)
+.+|+...|.||-+.... ..++||+|..|--|-.+ .|=..+.||+||.+
T Consensus 56 dtDEen~~C~ICA~~~TY---s~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 56 DTDEENMNCQICAGSTTY---SARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred ccccccceeEEecCCceE---EEeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 344667789999998765 66899999999999754 44557889999985
No 78
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.63 E-value=0.0086 Score=48.15 Aligned_cols=53 Identities=21% Similarity=0.597 Sum_probs=36.8
Q ss_pred CCCCcccccccccCCCC----CeEEcCCCCcccHHHHHHHHhc-----C------CCCCcccccccCC
Q 028048 157 EEEDVCPTCLEEYDAEN----PRIITKCEHHFHLACIFEWMER-----S------DTCPVCNQEMIFD 209 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~----~~~~l~C~H~Fh~~CI~~Wl~~-----~------~tCPvCr~~~~~~ 209 (214)
++...|.||+-.--.+. ..--..||.-||.-|+..||+. + ..||+|-+++..+
T Consensus 163 d~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 163 DELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hhhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 45556999976432221 1223579999999999999954 1 5799999887543
No 79
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.52 E-value=0.014 Score=49.95 Aligned_cols=53 Identities=23% Similarity=0.530 Sum_probs=40.8
Q ss_pred CCCCcccccccccCCCCCeE-EcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRI-ITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~-~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~ 210 (214)
.....|||...+|......+ +-+|||+|...+|.+- +....||+|.+++...+
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 45568999999995544444 4589999999999996 34668999999876443
No 80
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.05 E-value=0.012 Score=50.73 Aligned_cols=45 Identities=31% Similarity=0.608 Sum_probs=37.8
Q ss_pred Cccccccccc-CCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 160 DVCPTCLEEY-DAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 160 ~~C~ICle~~-~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
..|+||.|.+ .....+..++|||..|..|..+-....=+||+|.+
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 3499999986 44556678999999999999998877789999987
No 81
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.98 E-value=0.012 Score=57.12 Aligned_cols=41 Identities=32% Similarity=0.789 Sum_probs=34.0
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQE 205 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~ 205 (214)
.+|.+|--..+ -|.+.-.|||.||..|+. .....||-|+.+
T Consensus 841 skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchh
Confidence 57999987664 467888999999999988 456789999874
No 82
>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=94.74 E-value=0.014 Score=36.16 Aligned_cols=41 Identities=22% Similarity=0.600 Sum_probs=21.7
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCC--CCCcc
Q 028048 162 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSD--TCPVC 202 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~--tCPvC 202 (214)
|.+|-+....+..-....|+=.+|..|+..+++... .||.|
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 567777664432211225888999999999997765 79987
No 83
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.70 E-value=0.027 Score=50.50 Aligned_cols=47 Identities=26% Similarity=0.513 Sum_probs=40.2
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC---CCCCcccccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS---DTCPVCNQEM 206 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~---~tCPvCr~~~ 206 (214)
.+|||=-+.-..+|++..|.|||+..+.=|.+.-+.. -+||+|-.+.
T Consensus 335 F~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~ 384 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQ 384 (394)
T ss_pred eecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCccc
Confidence 4899999999999999999999999999999976554 4799996543
No 84
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=94.57 E-value=0.04 Score=43.49 Aligned_cols=34 Identities=24% Similarity=0.627 Sum_probs=23.0
Q ss_pred CCCcccccccccCCCCCeEEcCCC-------------CcccHHHHHHHHh
Q 028048 158 EEDVCPTCLEEYDAENPRIITKCE-------------HHFHLACIFEWME 194 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~C~-------------H~Fh~~CI~~Wl~ 194 (214)
|+..|+||||-- ...++|-|. -.-|..|+++.-+
T Consensus 1 ed~~CpICme~P---HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHP---HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCC---CceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 346799999953 335566663 3458899998764
No 85
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.41 E-value=0.002 Score=57.35 Aligned_cols=48 Identities=19% Similarity=0.475 Sum_probs=40.6
Q ss_pred cccccccccCCC-CCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccC
Q 028048 161 VCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 208 (214)
Q Consensus 161 ~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~ 208 (214)
.|+||.+.|... +....+.|||.+|.+||.+||.....||.|+.++..
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 699999988543 345567899999999999999999999999998753
No 86
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.31 E-value=0.042 Score=45.85 Aligned_cols=51 Identities=25% Similarity=0.554 Sum_probs=40.4
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--------CCCCCcccccccC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--------SDTCPVCNQEMIF 208 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--------~~tCPvCr~~~~~ 208 (214)
+-...|..|-.....++.. .|-|-|.||..|+.+|--. .-.||.|.++|..
T Consensus 48 DY~pNC~LC~t~La~gdt~-RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTT-RLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCCCceeCCccccCcce-eehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 4445699998888777654 6789999999999999853 2569999998854
No 87
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.95 E-value=0.036 Score=48.09 Aligned_cols=48 Identities=29% Similarity=0.591 Sum_probs=35.3
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc-CCCCCcc-cccccCC
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER-SDTCPVC-NQEMIFD 209 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~-~~tCPvC-r~~~~~~ 209 (214)
..|+.|-.-. .++..+.-|+|.||..||...|.. ...||.| |+.++.+
T Consensus 275 LkCplc~~Ll--rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~rkdvlld 324 (427)
T COG5222 275 LKCPLCHCLL--RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSRKDVLLD 324 (427)
T ss_pred ccCcchhhhh--hCcccCccccchHHHHHHhhhhhhccccCCCcccccchhh
Confidence 5799987654 445555568999999999988854 4789999 4455444
No 88
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.63 E-value=0.04 Score=48.18 Aligned_cols=43 Identities=26% Similarity=0.583 Sum_probs=33.7
Q ss_pred CCCcccccccccCCCCCeEEcCC--CCcccHHHHHHHHhcCCCCCccccccc
Q 028048 158 EEDVCPTCLEEYDAENPRIITKC--EHHFHLACIFEWMERSDTCPVCNQEMI 207 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~C--~H~Fh~~CI~~Wl~~~~tCPvCr~~~~ 207 (214)
+-..||||.+.+.. -..+| ||..|..|-. +.++.||.||.+|.
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 33569999998865 35678 7998888865 46788999999875
No 89
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.56 E-value=0.023 Score=45.08 Aligned_cols=29 Identities=24% Similarity=0.533 Sum_probs=25.9
Q ss_pred CCCcccccccccCCCCCeEEcCCCCcccH
Q 028048 158 EEDVCPTCLEEYDAENPRIITKCEHHFHL 186 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~C~H~Fh~ 186 (214)
+.-+|.||||++..++.+..|||--+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEeec
Confidence 34479999999999999999999999986
No 90
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.49 E-value=0.032 Score=47.36 Aligned_cols=49 Identities=27% Similarity=0.713 Sum_probs=35.2
Q ss_pred CCCCcccccccccCCCCCe--EEcCC-----CCcccHHHHHHHHhcC--------CCCCcccccc
Q 028048 157 EEEDVCPTCLEEYDAENPR--IITKC-----EHHFHLACIFEWMERS--------DTCPVCNQEM 206 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~--~~l~C-----~H~Fh~~CI~~Wl~~~--------~tCPvCr~~~ 206 (214)
+.+..|=||+..= .+|.. -+-|| .|..|..|+..|+..+ -+||.|+.+.
T Consensus 18 e~eR~CWiCF~Td-eDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 18 ELERCCWICFATD-EDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccceeEEEEeccC-cccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchh
Confidence 5566799999863 23322 24466 4899999999999543 3699999875
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.36 E-value=0.021 Score=55.14 Aligned_cols=46 Identities=26% Similarity=0.704 Sum_probs=37.0
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC--CCCCcccccccCC
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS--DTCPVCNQEMIFD 209 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~--~tCPvCr~~~~~~ 209 (214)
..|.||++ .+..+.+.|+|.||..|+.+-++.. ..||+||..+..+
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~ 502 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEK 502 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHH
Confidence 57999999 3447789999999999999988654 4599999866443
No 92
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=92.97 E-value=0.054 Score=47.50 Aligned_cols=52 Identities=29% Similarity=0.688 Sum_probs=40.9
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~ 210 (214)
.....|+||+-.- .|+-++.-=|-.||..||-..+...+.|||=..+...++
T Consensus 298 ~~~~~CpvClk~r--~Nptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~~v~~ 349 (357)
T KOG0826|consen 298 PDREVCPVCLKKR--QNPTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYPASVDH 349 (357)
T ss_pred CccccChhHHhcc--CCCceEEecceEEeHHHHHHHHHhcCCCCccCCcchHHH
Confidence 3455799999965 445555556999999999999999999999877765543
No 93
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=92.52 E-value=0.028 Score=56.89 Aligned_cols=44 Identities=30% Similarity=0.638 Sum_probs=37.1
Q ss_pred CCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
...|.||++.... -..+..|||.||..|+..|+..+..||+|+.
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 3489999998742 2346789999999999999999999999974
No 94
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.31 E-value=0.086 Score=51.30 Aligned_cols=53 Identities=32% Similarity=0.755 Sum_probs=40.7
Q ss_pred CCCCcccccccccCCCCCeEEcCCC-----CcccHHHHHHHHhcC--CCCCcccccccCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCE-----HHFHLACIFEWMERS--DTCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~-----H~Fh~~CI~~Wl~~~--~tCPvCr~~~~~~~ 210 (214)
++...|.||..+-..++++. -||. -..|.+|+.+||.-+ ..|-+|+.++.+++
T Consensus 10 ~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred ccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 44568999999877677664 3553 468999999999754 67999999887664
No 95
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=92.22 E-value=0.075 Score=51.33 Aligned_cols=28 Identities=32% Similarity=0.872 Sum_probs=24.6
Q ss_pred CeEEcCCCCcccHHHHHHHHhcCCCCCc
Q 028048 174 PRIITKCEHHFHLACIFEWMERSDTCPV 201 (214)
Q Consensus 174 ~~~~l~C~H~Fh~~CI~~Wl~~~~tCPv 201 (214)
..++..|+|..|..|..+|++....||-
T Consensus 1042 s~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1042 SNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred chhhccccccccHHHHHHHHhcCCcCCC
Confidence 3456789999999999999999999984
No 96
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=91.79 E-value=0.096 Score=45.34 Aligned_cols=49 Identities=29% Similarity=0.710 Sum_probs=36.9
Q ss_pred CCcccccccccCCCCC-eEEcCCC-----CcccHHHHHHHHh--cCCCCCccccccc
Q 028048 159 EDVCPTCLEEYDAENP-RIITKCE-----HHFHLACIFEWME--RSDTCPVCNQEMI 207 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~-~~~l~C~-----H~Fh~~CI~~Wl~--~~~tCPvCr~~~~ 207 (214)
+..|-||.++....+. ....+|. +..|..|+..|+. ++..|.+|...+.
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~ 134 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFI 134 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccce
Confidence 4679999998754332 4566773 6789999999997 6678999988553
No 97
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=91.24 E-value=0.08 Score=46.15 Aligned_cols=29 Identities=28% Similarity=0.843 Sum_probs=22.9
Q ss_pred EEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028048 176 IITKCEHHFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 176 ~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
++++|.|.||++|-.- ..-+.||.|...|
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 5789999999999754 3356899997654
No 98
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.36 E-value=0.15 Score=49.97 Aligned_cols=38 Identities=29% Similarity=0.655 Sum_probs=30.7
Q ss_pred ccCCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHH
Q 028048 155 VIEEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWM 193 (214)
Q Consensus 155 ~~ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl 193 (214)
..+-.+.|.||.-.+-. .+-.+.+|||.||..||.+-+
T Consensus 813 v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred EecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHH
Confidence 34667889999887754 356788999999999998876
No 99
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=89.87 E-value=0.42 Score=42.80 Aligned_cols=29 Identities=21% Similarity=0.647 Sum_probs=22.0
Q ss_pred CCcccHHHHHHHHhc-------------CCCCCcccccccCC
Q 028048 181 EHHFHLACIFEWMER-------------SDTCPVCNQEMIFD 209 (214)
Q Consensus 181 ~H~Fh~~CI~~Wl~~-------------~~tCPvCr~~~~~~ 209 (214)
.-..|.+|+-+|+-. +-.||.||+.+...
T Consensus 312 RPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCil 353 (358)
T PF10272_consen 312 RPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCIL 353 (358)
T ss_pred cchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceee
Confidence 345689999999932 35799999987654
No 100
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.53 E-value=0.21 Score=41.36 Aligned_cols=41 Identities=22% Similarity=0.514 Sum_probs=29.8
Q ss_pred ccccccccCCCCCeEEcCCCC-cccHHHHHHHHhcCCCCCcccccccCC
Q 028048 162 CPTCLEEYDAENPRIITKCEH-HFHLACIFEWMERSDTCPVCNQEMIFD 209 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C~H-~Fh~~CI~~Wl~~~~tCPvCr~~~~~~ 209 (214)
|-+|-+.- ..+.++||.| .+|..|=.. -..||+|+......
T Consensus 161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~s~ 202 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSPKTSS 202 (207)
T ss_pred ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcChhhce
Confidence 88888853 3488999998 678888433 45699998766443
No 101
>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=89.37 E-value=0.53 Score=29.96 Aligned_cols=42 Identities=24% Similarity=0.595 Sum_probs=20.3
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---C--CCCCccccc
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---S--DTCPVCNQE 205 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~--~tCPvCr~~ 205 (214)
.|+|....+ ..+++...|.|.-+.+ +..||+. . =.||+|+++
T Consensus 4 ~CPls~~~i--~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRI--RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB---SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEE--EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 588888776 4477888899974322 3445533 2 259999863
No 102
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.89 E-value=0.14 Score=48.64 Aligned_cols=43 Identities=19% Similarity=0.480 Sum_probs=31.8
Q ss_pred CCcccccccccCCC-CCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 159 EDVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 159 ~~~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
-..|.||+..|..+ -..+.+.|||..|..|+..-..+ +|| |+.
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~lyn~--scp-~~~ 54 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLYNA--SCP-TKR 54 (861)
T ss_pred HhhchHHHHHHHHHhcCcccccccchHHHHHHHhHhhc--cCC-CCc
Confidence 35699999888443 23567889999999999986554 587 543
No 103
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=88.77 E-value=0.15 Score=48.23 Aligned_cols=43 Identities=28% Similarity=0.748 Sum_probs=29.9
Q ss_pred CCCcccccccc-----cCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028048 158 EEDVCPTCLEE-----YDAENPRIITKCEHHFHLACIFEWMERSDTCPVCN 203 (214)
Q Consensus 158 e~~~C~ICle~-----~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr 203 (214)
....|.||... |...+......|++.||..|+.. .+.-||.|-
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 34578888543 33455667788999999999554 444599994
No 104
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.51 E-value=0.16 Score=45.98 Aligned_cols=38 Identities=29% Similarity=0.645 Sum_probs=28.8
Q ss_pred CCcccccc-cccCCCCCeEEcCCCCcccHHHHHHHHhcC
Q 028048 159 EDVCPTCL-EEYDAENPRIITKCEHHFHLACIFEWMERS 196 (214)
Q Consensus 159 ~~~C~ICl-e~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~ 196 (214)
..+|.||+ +....+....+..|+|.||..|+.+-++.+
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 45799999 444443444478899999999999888754
No 105
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=87.85 E-value=0.48 Score=36.46 Aligned_cols=48 Identities=23% Similarity=0.459 Sum_probs=34.8
Q ss_pred CcccccccccCCCCCeEEcC---CCCcccHHHHHHHHhc---CCCCCcccccccCC
Q 028048 160 DVCPTCLEEYDAENPRIITK---CEHHFHLACIFEWMER---SDTCPVCNQEMIFD 209 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~---C~H~Fh~~CI~~Wl~~---~~tCPvCr~~~~~~ 209 (214)
=.|-||.|.-..+. .+-| ||-..|..|....++- ...||+|+..+...
T Consensus 81 YeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 81 YECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred eeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 37999999865432 2222 8999999998766554 47899999987554
No 106
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.71 E-value=0.32 Score=45.98 Aligned_cols=49 Identities=35% Similarity=0.775 Sum_probs=40.4
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV 212 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~~~ 212 (214)
+..+.|.||+++. .....+|. |..|+.+|+-.+..||+|.+.+..++..
T Consensus 477 ~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~~ 525 (543)
T KOG0802|consen 477 EPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYMKEDDFL 525 (543)
T ss_pred cccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhhhccccc
Confidence 4567899999988 24566777 8999999999999999999988777643
No 107
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.38 E-value=0.59 Score=40.40 Aligned_cols=35 Identities=23% Similarity=0.544 Sum_probs=28.6
Q ss_pred CCCeEEcCCCCcccHHHHHHHHhcC-CCCCcccccc
Q 028048 172 ENPRIITKCEHHFHLACIFEWMERS-DTCPVCNQEM 206 (214)
Q Consensus 172 ~~~~~~l~C~H~Fh~~CI~~Wl~~~-~tCPvCr~~~ 206 (214)
...++.|+|||.|+..|+.+-+... ..||.||...
T Consensus 19 ~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 19 DHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred ccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 3445678899999999999988664 5799999874
No 108
>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=84.60 E-value=0.76 Score=37.85 Aligned_cols=42 Identities=24% Similarity=0.723 Sum_probs=31.6
Q ss_pred CCCcccccccc-----cCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 158 EEDVCPTCLEE-----YDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 158 e~~~C~ICle~-----~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
....|-||-.. |+.++......|+-.||..|.. +..||-|.+
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 45678888753 4555667778899999999976 267999954
No 110
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=83.97 E-value=0.25 Score=47.49 Aligned_cols=46 Identities=28% Similarity=0.722 Sum_probs=35.9
Q ss_pred CCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---CCCCCcccccc
Q 028048 158 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEM 206 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCPvCr~~~ 206 (214)
-..+|+||++.|.. .+.++|.|.|+..|+..-+.. ...||+|+..+
T Consensus 20 k~lEc~ic~~~~~~---p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 20 KILECPICLEHVKE---PSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hhccCCceeEEeec---cchhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 34569999999865 378999999999999765544 45799998544
No 111
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=83.63 E-value=0.88 Score=39.94 Aligned_cols=45 Identities=27% Similarity=0.547 Sum_probs=37.0
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---CCCCCcccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQ 204 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCPvCr~ 204 (214)
..||+=-|.-..+|++.++.|||+.-+.-++..-++ +-.||+|--
T Consensus 337 FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 337 FICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 489998888888999999999999998888875443 246999954
No 112
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=83.46 E-value=0.63 Score=45.45 Aligned_cols=50 Identities=16% Similarity=0.231 Sum_probs=34.9
Q ss_pred CCCcccccccccCC-C---CCeEEcCCCCcccHHHHHHHHhc------CCCCCccccccc
Q 028048 158 EEDVCPTCLEEYDA-E---NPRIITKCEHHFHLACIFEWMER------SDTCPVCNQEMI 207 (214)
Q Consensus 158 e~~~C~ICle~~~~-~---~~~~~l~C~H~Fh~~CI~~Wl~~------~~tCPvCr~~~~ 207 (214)
+.+.|.||.-++.. . ....+-.|+|.||..||..|+.+ .-.|+.|..-|.
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 44678888888744 1 12233459999999999999954 345888876553
No 113
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=83.39 E-value=1.8 Score=28.04 Aligned_cols=46 Identities=17% Similarity=0.561 Sum_probs=33.8
Q ss_pred CCcccccccccC-CCCCeEEcCCCCcccHHHHHHHHhcCCCCCc--ccccccC
Q 028048 159 EDVCPTCLEEYD-AENPRIITKCEHHFHLACIFEWMERSDTCPV--CNQEMIF 208 (214)
Q Consensus 159 ~~~C~ICle~~~-~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPv--Cr~~~~~ 208 (214)
...|.+|-+.|. .++.++...||=-+|..|..+ ...|-+ |...+.+
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 456999999996 456677788999999999544 456665 6655543
No 114
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=83.38 E-value=0.53 Score=39.78 Aligned_cols=47 Identities=26% Similarity=0.699 Sum_probs=34.6
Q ss_pred CCcccccccc-cCCCCCeEEc-C-CCCcccHHHHHHHHhcC-CCCC--ccccc
Q 028048 159 EDVCPTCLEE-YDAENPRIIT-K-CEHHFHLACIFEWMERS-DTCP--VCNQE 205 (214)
Q Consensus 159 ~~~C~ICle~-~~~~~~~~~l-~-C~H~Fh~~CI~~Wl~~~-~tCP--vCr~~ 205 (214)
+..||||..+ |-..+.+++. | |-|..|.+|+++-+.+. ..|| -|.+-
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kI 62 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKI 62 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHH
Confidence 4479999976 4444444433 3 99999999999999775 6799 78653
No 115
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=82.88 E-value=0.66 Score=45.19 Aligned_cols=44 Identities=23% Similarity=0.609 Sum_probs=33.2
Q ss_pred CCcccccccccCC-C---CCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028048 159 EDVCPTCLEEYDA-E---NPRIITKCEHHFHLACIFEWMERSDTCPVCN 203 (214)
Q Consensus 159 ~~~C~ICle~~~~-~---~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr 203 (214)
+..|.-|.+.... + +..+++.|||.||+.|+.--+.+++ |-.|.
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~~ 831 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIES 831 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChhh
Confidence 3479999998742 2 4578899999999999987776665 66654
No 116
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.25 E-value=0.69 Score=40.17 Aligned_cols=31 Identities=19% Similarity=0.563 Sum_probs=23.4
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCCcccccccCCC
Q 028048 180 CEHHFHLACIFEWME-------------RSDTCPVCNQEMIFDL 210 (214)
Q Consensus 180 C~H~Fh~~CI~~Wl~-------------~~~tCPvCr~~~~~~~ 210 (214)
|.-..|.+|+.+|+. .+-+||.||+.+...+
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 456778899988873 3568999999876543
No 117
>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=79.60 E-value=0.84 Score=28.55 Aligned_cols=43 Identities=23% Similarity=0.529 Sum_probs=29.7
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHh------cCCCCCccc
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWME------RSDTCPVCN 203 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~------~~~tCPvCr 203 (214)
.|.||......+..+..-.|+..||..|+..=.+ ..=.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 4889998555555566677999999999865432 123577775
No 118
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=79.41 E-value=1.9 Score=42.05 Aligned_cols=44 Identities=18% Similarity=0.368 Sum_probs=32.9
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCc--cccc
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPV--CNQE 205 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPv--Cr~~ 205 (214)
.|.+|-..+. |.-+-...|||.-|..|+++|+.....||. |...
T Consensus 781 ~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~~~C~~~ 826 (839)
T KOG0269|consen 781 KCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFKASPCAKSICPHL 826 (839)
T ss_pred Cceeecceee-eeEeecccccccccHHHHHHHHhcCCCCccccCCcc
Confidence 6888866553 222345679999999999999999888877 6543
No 119
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.14 E-value=1.1 Score=41.17 Aligned_cols=38 Identities=26% Similarity=0.565 Sum_probs=31.3
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS 196 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~ 196 (214)
.....|.||.+.+.. ..+.+.|||.|+..|+..-+.++
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 344679999999865 46778999999999999988664
No 120
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.11 E-value=1 Score=39.06 Aligned_cols=46 Identities=24% Similarity=0.672 Sum_probs=34.2
Q ss_pred CCCcccccccccCCCCCeEEcCC----CCcccHHHHHHHHhcC-----------CCCCcccccc
Q 028048 158 EEDVCPTCLEEYDAENPRIITKC----EHHFHLACIFEWMERS-----------DTCPVCNQEM 206 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~C----~H~Fh~~CI~~Wl~~~-----------~tCPvCr~~~ 206 (214)
....|.+|.|.++..+ ..+| .|.||.-|-++-+|++ .+||+=...|
T Consensus 267 apLcCTLC~ERLEDTH---FVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPSGdkCPLvgS~v 327 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTH---FVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPSGDKCPLVGSNV 327 (352)
T ss_pred CceeehhhhhhhccCc---eeecCCCcccceecccCHHHHHhhcCCCceeCCCCCcCcccCCcc
Confidence 4468999999986533 4567 6999999999999875 4566655444
No 121
>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=77.38 E-value=0.82 Score=28.93 Aligned_cols=8 Identities=75% Similarity=2.469 Sum_probs=5.4
Q ss_pred CCcccCCC
Q 028048 2 GGCCCCSS 9 (214)
Q Consensus 2 g~~c~~~~ 9 (214)
||||||..
T Consensus 24 ggcccccc 31 (56)
T TIGR03602 24 GGCCCCCC 31 (56)
T ss_pred CCeEEEec
Confidence 78776653
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=73.27 E-value=2 Score=27.56 Aligned_cols=42 Identities=26% Similarity=0.618 Sum_probs=21.3
Q ss_pred ccccccccCCC-------CCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028048 162 CPTCLEEYDAE-------NPRIITKCEHHFHLACIFEWMERSDTCPVCN 203 (214)
Q Consensus 162 C~ICle~~~~~-------~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr 203 (214)
|--|+..|... .......|+++|+.+|=.---+.=..||-|.
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 44566666443 2344578999999999444334557799883
No 123
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.30 E-value=2 Score=38.90 Aligned_cols=42 Identities=26% Similarity=0.628 Sum_probs=30.2
Q ss_pred Cccccccccc---CCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcc
Q 028048 160 DVCPTCLEEY---DAENPRIITKCEHHFHLACIFEWMERSDTCPVC 202 (214)
Q Consensus 160 ~~C~ICle~~---~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvC 202 (214)
..|++|.-.+ .+-+..... |||.||..|...|...+..|.-|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 3477776554 333444455 99999999999998887777555
No 124
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=68.43 E-value=2.6 Score=34.98 Aligned_cols=43 Identities=26% Similarity=0.609 Sum_probs=34.4
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
..|-+|-+-.-. ..+.-.|+-.+|..||.+.+++...||.|..
T Consensus 182 k~Cn~Ch~LvIq--g~rCg~c~i~~h~~c~qty~q~~~~cphc~d 224 (235)
T KOG4718|consen 182 KNCNLCHCLVIQ--GIRCGSCNIQYHRGCIQTYLQRRDICPHCGD 224 (235)
T ss_pred HHHhHhHHHhhe--eeccCcccchhhhHHHHHHhcccCcCCchhc
Confidence 479998876532 2456678889999999999999999999954
No 125
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=65.52 E-value=8.2 Score=28.88 Aligned_cols=45 Identities=20% Similarity=0.467 Sum_probs=35.1
Q ss_pred CCcccccccccCCC-----------CCeEEcCCCCcccHHHHHHHHhcCCCCCccc
Q 028048 159 EDVCPTCLEEYDAE-----------NPRIITKCEHHFHLACIFEWMERSDTCPVCN 203 (214)
Q Consensus 159 ~~~C~ICle~~~~~-----------~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr 203 (214)
...|--|+..|... ..-....|++.|+.+|=.-|-+.=..||-|.
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 34699999988532 1223678999999999888888888999996
No 126
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=64.51 E-value=3.7 Score=24.18 Aligned_cols=25 Identities=32% Similarity=0.873 Sum_probs=16.0
Q ss_pred cccccccccCCCC--------CeEEcCCCCccc
Q 028048 161 VCPTCLEEYDAEN--------PRIITKCEHHFH 185 (214)
Q Consensus 161 ~C~ICle~~~~~~--------~~~~l~C~H~Fh 185 (214)
+|+-|.-.|...+ .+....|+|.|+
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 5888888875533 244556778774
No 127
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=62.69 E-value=8.2 Score=26.93 Aligned_cols=49 Identities=18% Similarity=0.466 Sum_probs=20.3
Q ss_pred CCCcccccccccCC---CCCe-EEcCCCCcccHHHHH-HHHhcCCCCCcccccc
Q 028048 158 EEDVCPTCLEEYDA---ENPR-IITKCEHHFHLACIF-EWMERSDTCPVCNQEM 206 (214)
Q Consensus 158 e~~~C~ICle~~~~---~~~~-~~l~C~H~Fh~~CI~-~Wl~~~~tCPvCr~~~ 206 (214)
...+|-||=+++.. ++.- ..-.|+--.|..|+. +.-+.++.||.|+...
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 34579999998732 3322 234577778889984 4445578899998764
No 128
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=62.59 E-value=6.7 Score=34.69 Aligned_cols=50 Identities=22% Similarity=0.514 Sum_probs=37.5
Q ss_pred CcccccccccCCC-CCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCC
Q 028048 160 DVCPTCLEEYDAE-NPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFD 209 (214)
Q Consensus 160 ~~C~ICle~~~~~-~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~ 209 (214)
..|+||-+..+.. ...+-.+|+|..|..|...-......||.||+.....
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~~~ 300 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYERN 300 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccccC
Confidence 5799999977432 2233346789999999888888889999999876543
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=60.34 E-value=7 Score=21.73 Aligned_cols=29 Identities=21% Similarity=0.476 Sum_probs=11.7
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHH
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHLACI 189 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI 189 (214)
.|.+|.+....+..-....|.-.+|..|+
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 48888887755445567889999999986
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=60.07 E-value=2.9 Score=37.84 Aligned_cols=31 Identities=32% Similarity=0.743 Sum_probs=0.0
Q ss_pred CCeEEcCCCCcccHHHHHHHHhc------CCCCCcccccc
Q 028048 173 NPRIITKCEHHFHLACIFEWMER------SDTCPVCNQEM 206 (214)
Q Consensus 173 ~~~~~l~C~H~Fh~~CI~~Wl~~------~~tCPvCr~~~ 206 (214)
.+-+-+.|||++.. ..|-.+ ..+||+||+.=
T Consensus 302 qP~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 302 QPWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp ----------------------------------------
T ss_pred Cceeeccccceeee---cccccccccccccccCCCccccC
Confidence 34566899998764 567632 46899999854
No 131
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=58.41 E-value=8.2 Score=34.20 Aligned_cols=47 Identities=23% Similarity=0.465 Sum_probs=36.8
Q ss_pred CCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 158 EEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
....|-.|.++.........-.|.|.||..|=.---+.=..||.|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHHHHhhhhcCCCcCC
Confidence 33459999888777777788899999999996655555578999963
No 132
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=58.14 E-value=2.2 Score=36.67 Aligned_cols=50 Identities=22% Similarity=0.458 Sum_probs=34.1
Q ss_pred CcccccccccCCCCCeEE----cCCCCcccHHHHHHHHh-c--------CCCCCcccccccCC
Q 028048 160 DVCPTCLEEYDAENPRII----TKCEHHFHLACIFEWME-R--------SDTCPVCNQEMIFD 209 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~----l~C~H~Fh~~CI~~Wl~-~--------~~tCPvCr~~~~~~ 209 (214)
.+|-||..++...+..+. ..|+-++|..|+..-+. . ...||.|++.+.+.
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~~w~ 245 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFLSWT 245 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhceeeHH
Confidence 479999999843222221 34788999999988332 2 36799999866543
No 133
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=57.30 E-value=6.1 Score=21.58 Aligned_cols=23 Identities=26% Similarity=0.690 Sum_probs=12.0
Q ss_pred cccccccccCCCCCeEEcCCCCcc
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHF 184 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~F 184 (214)
.||-|-.++... .....-|||.|
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 466776665321 13344466666
No 134
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.74 E-value=3.7 Score=31.71 Aligned_cols=50 Identities=18% Similarity=0.488 Sum_probs=30.2
Q ss_pred cCCCCcccccccc-cCCCCCeEEcCCCCcccHHHHHHHHhcCC----CCCccccc
Q 028048 156 IEEEDVCPTCLEE-YDAENPRIITKCEHHFHLACIFEWMERSD----TCPVCNQE 205 (214)
Q Consensus 156 ~ee~~~C~ICle~-~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~----tCPvCr~~ 205 (214)
.+.+.+|.||+-. |..+-.-..--|.-.||..|--+--.+++ .|-+|++.
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 3566789999976 55444444555666666666544433332 47777653
No 135
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=56.70 E-value=5.2 Score=26.43 Aligned_cols=14 Identities=29% Similarity=0.883 Sum_probs=11.1
Q ss_pred CCCCCcccccccCC
Q 028048 196 SDTCPVCNQEMIFD 209 (214)
Q Consensus 196 ~~tCPvCr~~~~~~ 209 (214)
..+||+|+.+|...
T Consensus 39 ~p~CPlC~s~M~~~ 52 (59)
T PF14169_consen 39 EPVCPLCKSPMVSG 52 (59)
T ss_pred CccCCCcCCccccc
Confidence 47899999988644
No 136
>PRK05978 hypothetical protein; Provisional
Probab=56.38 E-value=7 Score=30.73 Aligned_cols=23 Identities=17% Similarity=0.573 Sum_probs=18.4
Q ss_pred HHHhcCCCCCcccccccCCCCCC
Q 028048 191 EWMERSDTCPVCNQEMIFDLPVD 213 (214)
Q Consensus 191 ~Wl~~~~tCPvCr~~~~~~~~~~ 213 (214)
.+|+.+..||.|..++...+.-|
T Consensus 47 g~Lkv~~~C~~CG~~~~~~~a~D 69 (148)
T PRK05978 47 AFLKPVDHCAACGEDFTHHRADD 69 (148)
T ss_pred cccccCCCccccCCccccCCccc
Confidence 68899999999999887665433
No 137
>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=55.75 E-value=0.94 Score=31.00 Aligned_cols=39 Identities=28% Similarity=0.705 Sum_probs=19.7
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
..||+|..++...+ +|.+|..|-.. ++....||-|.++|
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 46899988764322 55555556444 35567799998876
No 138
>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 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=54.52 E-value=5.9 Score=26.31 Aligned_cols=37 Identities=16% Similarity=0.349 Sum_probs=19.1
Q ss_pred CCCCcccccccccCCCCCe-EEcCCCCcccHHHHHHHH
Q 028048 157 EEEDVCPTCLEEYDAENPR-IITKCEHHFHLACIFEWM 193 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~-~~l~C~H~Fh~~CI~~Wl 193 (214)
.+...|.+|...|..-... ..-.||+.|+..|....+
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 4567899999999653322 345699999999986554
No 140
>PLN02189 cellulose synthase
Probab=53.39 E-value=13 Score=37.96 Aligned_cols=49 Identities=22% Similarity=0.466 Sum_probs=33.3
Q ss_pred CCcccccccccCC---CCCe-EEcCCCCcccHHHHH-HHHhcCCCCCccccccc
Q 028048 159 EDVCPTCLEEYDA---ENPR-IITKCEHHFHLACIF-EWMERSDTCPVCNQEMI 207 (214)
Q Consensus 159 ~~~C~ICle~~~~---~~~~-~~l~C~H~Fh~~CI~-~Wl~~~~tCPvCr~~~~ 207 (214)
...|.||-++... ++.- .+--|+--.|..|.. +.-+.++.||.||+...
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3579999999742 3322 233477778999983 33344688999998764
No 141
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=52.52 E-value=9.2 Score=22.52 Aligned_cols=25 Identities=28% Similarity=0.745 Sum_probs=16.0
Q ss_pred cccccccccCCCC--------CeEEcCCCCccc
Q 028048 161 VCPTCLEEYDAEN--------PRIITKCEHHFH 185 (214)
Q Consensus 161 ~C~ICle~~~~~~--------~~~~l~C~H~Fh 185 (214)
.|+-|.-.|...+ .+....|+|.|.
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 5888888875433 344556777774
No 142
>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=51.80 E-value=9.7 Score=25.71 Aligned_cols=11 Identities=27% Similarity=0.918 Sum_probs=8.3
Q ss_pred ccHHHHHHHHh
Q 028048 184 FHLACIFEWME 194 (214)
Q Consensus 184 Fh~~CI~~Wl~ 194 (214)
||..|+.+|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999995
No 143
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.75 E-value=4.3 Score=35.48 Aligned_cols=48 Identities=23% Similarity=0.615 Sum_probs=37.6
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
...+.|-||..-+.... ....|.|.|+..|...|..+.+.||.|+...
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 45678999988775421 2234999999999999999999999998743
No 144
>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=50.94 E-value=10 Score=28.34 Aligned_cols=46 Identities=22% Similarity=0.568 Sum_probs=29.8
Q ss_pred CCCcccccccccC--CCCCeEEcCCCCcccHHHHHHHHhcCC--CCCcccc
Q 028048 158 EEDVCPTCLEEYD--AENPRIITKCEHHFHLACIFEWMERSD--TCPVCNQ 204 (214)
Q Consensus 158 e~~~C~ICle~~~--~~~~~~~l~C~H~Fh~~CI~~Wl~~~~--tCPvCr~ 204 (214)
.+..|.+|...|. .+.......|.|.+|..|-.. ..+.. .|-+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 4568999998863 344577889999999999655 11111 3777754
No 145
>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=49.73 E-value=5.5 Score=25.42 Aligned_cols=10 Identities=30% Similarity=1.076 Sum_probs=5.1
Q ss_pred CCCccccccc
Q 028048 198 TCPVCNQEMI 207 (214)
Q Consensus 198 tCPvCr~~~~ 207 (214)
.||+|.++|.
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 146
>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=48.70 E-value=14 Score=21.03 Aligned_cols=9 Identities=44% Similarity=1.088 Sum_probs=6.5
Q ss_pred CCCCCcccc
Q 028048 196 SDTCPVCNQ 204 (214)
Q Consensus 196 ~~tCPvCr~ 204 (214)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 347898865
No 147
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=47.68 E-value=12 Score=27.21 Aligned_cols=33 Identities=21% Similarity=0.307 Sum_probs=22.7
Q ss_pred CCCcccccccccCCCCCeEEcC--CCCcccHHHHHHH
Q 028048 158 EEDVCPTCLEEYDAENPRIITK--CEHHFHLACIFEW 192 (214)
Q Consensus 158 e~~~C~ICle~~~~~~~~~~l~--C~H~Fh~~CI~~W 192 (214)
....|.||...... .+.... |...||..|...+
T Consensus 54 ~~~~C~iC~~~~G~--~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSGGA--CIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCCce--eEEcCCCCCCcCCCHHHHHHC
Confidence 34679999997432 233333 7789999998663
No 148
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=46.52 E-value=14 Score=24.73 Aligned_cols=14 Identities=21% Similarity=0.802 Sum_probs=10.3
Q ss_pred CCCCCcccccccCC
Q 028048 196 SDTCPVCNQEMIFD 209 (214)
Q Consensus 196 ~~tCPvCr~~~~~~ 209 (214)
...||+|++.+.+.
T Consensus 6 ~v~CP~C~k~~~w~ 19 (62)
T PRK00418 6 TVNCPTCGKPVEWG 19 (62)
T ss_pred cccCCCCCCccccc
Confidence 35699999987653
No 149
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=46.31 E-value=11 Score=35.76 Aligned_cols=36 Identities=28% Similarity=0.633 Sum_probs=24.6
Q ss_pred CCCCcccccccccCC----CCCe------EEcCCCCcccHHHHHHH
Q 028048 157 EEEDVCPTCLEEYDA----ENPR------IITKCEHHFHLACIFEW 192 (214)
Q Consensus 157 ee~~~C~ICle~~~~----~~~~------~~l~C~H~Fh~~CI~~W 192 (214)
+....|+||.|.|.. +... +-+.=|-+||..|+.+-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 666789999999854 2111 12224789999998764
No 150
>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=46.31 E-value=22 Score=23.22 Aligned_cols=46 Identities=22% Similarity=0.607 Sum_probs=29.5
Q ss_pred cccccccccCCCCCeEEcCCC--CcccHHHHHHHHhcCCCCCcccccccCC
Q 028048 161 VCPTCLEEYDAENPRIITKCE--HHFHLACIFEWMERSDTCPVCNQEMIFD 209 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~--H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~ 209 (214)
.|-.|-.++..+... ..-|. ..||..|...-| .+.||-|.-.+.-.
T Consensus 7 nCE~C~~dLp~~s~~-A~ICSfECTFC~~C~e~~l--~~~CPNCgGelv~R 54 (57)
T PF06906_consen 7 NCECCDKDLPPDSPE-AYICSFECTFCADCAETML--NGVCPNCGGELVRR 54 (57)
T ss_pred CccccCCCCCCCCCc-ceEEeEeCcccHHHHHHHh--cCcCcCCCCccccC
Confidence 366666665433211 12243 469999999976 56799998887543
No 151
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.49 E-value=18 Score=30.94 Aligned_cols=35 Identities=23% Similarity=0.333 Sum_probs=28.7
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHh
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME 194 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~ 194 (214)
..-+-|..||..+.. +++.+=||.|+.+||.+.+-
T Consensus 41 K~FdcCsLtLqPc~d---Pvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRD---PVITPDGYLFDREAILEYIL 75 (303)
T ss_pred CCcceeeeecccccC---CccCCCCeeeeHHHHHHHHH
Confidence 455779999998854 56778899999999999873
No 152
>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=45.37 E-value=22 Score=19.90 Aligned_cols=37 Identities=16% Similarity=0.509 Sum_probs=22.2
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccc
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEM 206 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~ 206 (214)
.|..|-+.+...... +..=+..||..|. .|..|+..|
T Consensus 1 ~C~~C~~~i~~~~~~-~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 1 KCAGCGKPIRGGELV-LRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred CccccCCcccCCcEE-EEeCCccccccCC--------CCcccCCcC
Confidence 377787776543222 2223677887763 477777665
No 153
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=44.44 E-value=17 Score=23.72 Aligned_cols=19 Identities=26% Similarity=0.684 Sum_probs=15.8
Q ss_pred CCCCCcccccccCCCCCCC
Q 028048 196 SDTCPVCNQEMIFDLPVDY 214 (214)
Q Consensus 196 ~~tCPvCr~~~~~~~~~~~ 214 (214)
+..||.|...+..-.|..|
T Consensus 17 k~~CP~CG~~t~~~~P~rf 35 (56)
T PRK13130 17 KEICPVCGGKTKNPHPPRF 35 (56)
T ss_pred cccCcCCCCCCCCCCCCCC
Confidence 6779999999888887766
No 154
>PF14353 CpXC: CpXC protein
Probab=43.60 E-value=18 Score=27.12 Aligned_cols=50 Identities=24% Similarity=0.464 Sum_probs=25.3
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhc---CCCCCcccccccCCCCCC
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER---SDTCPVCNQEMIFDLPVD 213 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~---~~tCPvCr~~~~~~~~~~ 213 (214)
+||-|...|..+- .+--.=.....=..+-|.. .-+||.|.+.+..+-++-
T Consensus 3 tCP~C~~~~~~~v---~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~l 55 (128)
T PF14353_consen 3 TCPHCGHEFEFEV---WTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPLL 55 (128)
T ss_pred CCCCCCCeeEEEE---EeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCEE
Confidence 5777777764421 1111111222223333322 257999998877666543
No 155
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=41.40 E-value=18 Score=23.06 Aligned_cols=24 Identities=29% Similarity=0.825 Sum_probs=14.4
Q ss_pred cCCCCcccHHHHHHHHhcCCCCCcc
Q 028048 178 TKCEHHFHLACIFEWMERSDTCPVC 202 (214)
Q Consensus 178 l~C~H~Fh~~CI~~Wl~~~~tCPvC 202 (214)
..|||.|-.. |..-..+...||.|
T Consensus 32 ~~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 32 PKCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCCeeEcc-HhhhccCCCCCCCC
Confidence 3567766543 33323567789988
No 156
>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=41.40 E-value=22 Score=26.60 Aligned_cols=30 Identities=20% Similarity=0.564 Sum_probs=21.5
Q ss_pred EcCCCCcccHHHHHHHHhcCCCCCcccccccCCCCC
Q 028048 177 ITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDLPV 212 (214)
Q Consensus 177 ~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~~~ 212 (214)
...|+|. .+-+.+...|+.|++++..++.+
T Consensus 72 CP~C~K~------TKmLGr~D~CM~C~~pLTLd~~l 101 (114)
T PF11023_consen 72 CPNCGKQ------TKMLGRVDACMHCKEPLTLDPSL 101 (114)
T ss_pred CCCCCCh------HhhhchhhccCcCCCcCccCchh
Confidence 4456664 34466778899999999887754
No 157
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.51 E-value=27 Score=29.99 Aligned_cols=50 Identities=20% Similarity=0.311 Sum_probs=34.7
Q ss_pred CCcccccccccCCCC-CeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028048 159 EDVCPTCLEEYDAEN-PRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 210 (214)
Q Consensus 159 ~~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~ 210 (214)
...|+|=--+|.... -..+-.|||.|-..-+.+- ...+|++|.+.+..++
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDD 161 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccC
Confidence 447998666554322 2345679999998887774 3678999998775544
No 158
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=40.49 E-value=19 Score=25.02 Aligned_cols=33 Identities=21% Similarity=0.389 Sum_probs=22.8
Q ss_pred CCcccccccccCCCCCeEEcCCCCcccHHHHHH
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFE 191 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~ 191 (214)
...|.+|-.....-..-....|.-.||..|...
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 357999998743322223456889999999765
No 159
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=39.64 E-value=18 Score=26.68 Aligned_cols=26 Identities=27% Similarity=0.483 Sum_probs=17.1
Q ss_pred eEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 175 RIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 175 ~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
-.+++|||.|-.. ++-|.+ -||-|..
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 3578999999875 333333 3888843
No 160
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.39 E-value=4.4 Score=34.92 Aligned_cols=46 Identities=20% Similarity=0.483 Sum_probs=35.4
Q ss_pred CcccccccccCCC---CCeEEcC--------CCCcccHHHHHHHHhcC-CCCCccccc
Q 028048 160 DVCPTCLEEYDAE---NPRIITK--------CEHHFHLACIFEWMERS-DTCPVCNQE 205 (214)
Q Consensus 160 ~~C~ICle~~~~~---~~~~~l~--------C~H~Fh~~CI~~Wl~~~-~tCPvCr~~ 205 (214)
..|.||...|... ....++. |||..+..|+..=+... ..||.|+..
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 2233455 99999999999987654 589999874
No 161
>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=39.23 E-value=14 Score=20.01 Aligned_cols=9 Identities=56% Similarity=1.390 Sum_probs=7.1
Q ss_pred CCCcccccc
Q 028048 198 TCPVCNQEM 206 (214)
Q Consensus 198 tCPvCr~~~ 206 (214)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 589997776
No 162
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=38.26 E-value=29 Score=35.60 Aligned_cols=49 Identities=20% Similarity=0.566 Sum_probs=33.5
Q ss_pred CCcccccccccCC---CCC-eEEcCCCCcccHHHH-HHHHhcCCCCCccccccc
Q 028048 159 EDVCPTCLEEYDA---ENP-RIITKCEHHFHLACI-FEWMERSDTCPVCNQEMI 207 (214)
Q Consensus 159 ~~~C~ICle~~~~---~~~-~~~l~C~H~Fh~~CI-~~Wl~~~~tCPvCr~~~~ 207 (214)
..+|-||=++... ++. +.+--|+-=.|..|. ++.-+.+..||.|++...
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3579999998733 332 223446666899998 344455689999998654
No 163
>PLN02436 cellulose synthase A
Probab=38.04 E-value=27 Score=35.77 Aligned_cols=49 Identities=22% Similarity=0.523 Sum_probs=32.6
Q ss_pred CCcccccccccCC---CCCe-EEcCCCCcccHHHHH-HHHhcCCCCCccccccc
Q 028048 159 EDVCPTCLEEYDA---ENPR-IITKCEHHFHLACIF-EWMERSDTCPVCNQEMI 207 (214)
Q Consensus 159 ~~~C~ICle~~~~---~~~~-~~l~C~H~Fh~~CI~-~Wl~~~~tCPvCr~~~~ 207 (214)
..+|-||-++... ++.- .+--|+--.|..|.. +.-+.++.||.|++...
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3479999999732 3322 223477778999983 22344688999998654
No 164
>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=37.60 E-value=27 Score=21.95 Aligned_cols=35 Identities=14% Similarity=0.353 Sum_probs=25.7
Q ss_pred CcccccccccCCCC-CeEEcCCCCcccHHHHHHHHh
Q 028048 160 DVCPTCLEEYDAEN-PRIITKCEHHFHLACIFEWME 194 (214)
Q Consensus 160 ~~C~ICle~~~~~~-~~~~l~C~H~Fh~~CI~~Wl~ 194 (214)
..|.+|-..|..-. ......||++|+..|....+.
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 46999998886533 223456999999999887664
No 165
>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=36.89 E-value=17 Score=26.16 Aligned_cols=38 Identities=13% Similarity=0.562 Sum_probs=27.9
Q ss_pred CCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccC
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIF 208 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~ 208 (214)
...|-||-... -.=||+||..|-++ +..|.+|.+.|..
T Consensus 44 ~~~C~~CK~~v--------~q~g~~YCq~CAYk----kGiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKV--------HQPGAKYCQTCAYK----KGICAMCGKKILD 81 (90)
T ss_pred Ccccccccccc--------ccCCCccChhhhcc----cCcccccCCeecc
Confidence 34699997643 22378899999765 6789999988743
No 166
>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=36.19 E-value=2.9 Score=30.50 Aligned_cols=49 Identities=20% Similarity=0.574 Sum_probs=13.4
Q ss_pred CcccccccccCCCCCeEEcCC--CCcccHHHHHHHHhc----CCCCCcccccccCCC
Q 028048 160 DVCPTCLEEYDAENPRIITKC--EHHFHLACIFEWMER----SDTCPVCNQEMIFDL 210 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C--~H~Fh~~CI~~Wl~~----~~tCPvCr~~~~~~~ 210 (214)
+.|+||.+.+...+.. ...| ||.|-. |...-|-- -+.|++|+..+...+
T Consensus 15 E~C~~C~~~i~~~~~~-~~~C~~GH~w~R-C~lT~l~i~~~~~r~C~~C~~~~l~~~ 69 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLD-EAQCENGHVWPR-CALTFLPIQTPGVRVCPVCGRRALDPE 69 (99)
T ss_dssp --------------SS-EEE-TTS-EEEB--SSS-SBS-SS-EEE-TTT--EEE-GG
T ss_pred ccccccccccccCCcC-EeECCCCCEEee-eeeeeeeeccCCeeEcCCCCCEEecCc
Confidence 4699999887544432 2346 787753 33332311 167999988665433
No 167
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=35.56 E-value=11 Score=24.23 Aligned_cols=18 Identities=28% Similarity=0.759 Sum_probs=14.6
Q ss_pred EEcCCCCcccHHHHHHHH
Q 028048 176 IITKCEHHFHLACIFEWM 193 (214)
Q Consensus 176 ~~l~C~H~Fh~~CI~~Wl 193 (214)
....|+|.||..|-.+|.
T Consensus 42 ~C~~C~~~fC~~C~~~~H 59 (64)
T smart00647 42 TCPKCGFSFCFRCKVPWH 59 (64)
T ss_pred ECCCCCCeECCCCCCcCC
Confidence 334799999999998884
No 168
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.31 E-value=20 Score=32.72 Aligned_cols=35 Identities=26% Similarity=0.424 Sum_probs=26.0
Q ss_pred CCCCccccccccc---CCCCCeEEcCCCCcccHHHHHH
Q 028048 157 EEEDVCPTCLEEY---DAENPRIITKCEHHFHLACIFE 191 (214)
Q Consensus 157 ee~~~C~ICle~~---~~~~~~~~l~C~H~Fh~~CI~~ 191 (214)
.....||-|.-.+ ++-|....+.|+|.||.-|-.-
T Consensus 366 ~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~ 403 (445)
T KOG1814|consen 366 SNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAEL 403 (445)
T ss_pred hcCCCCCcccceeecCCCccceeeccccccceeehhhh
Confidence 3445688887665 4457788899999999888654
No 169
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=34.36 E-value=5.9 Score=34.56 Aligned_cols=36 Identities=25% Similarity=0.512 Sum_probs=26.8
Q ss_pred cccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS 196 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~ 196 (214)
+|.||+++|..+.....+.|.-.||..|+..|+...
T Consensus 216 vC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 899999999643334445555589999999999653
No 170
>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=34.25 E-value=9.1 Score=23.18 Aligned_cols=28 Identities=21% Similarity=0.533 Sum_probs=16.0
Q ss_pred EEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 176 IITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 176 ~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
....|||.|-..--..= .....||.|..
T Consensus 7 ~C~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 7 RCEECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred EeCCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 45678888864211000 12357999987
No 171
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=33.33 E-value=38 Score=30.04 Aligned_cols=48 Identities=21% Similarity=0.499 Sum_probs=33.1
Q ss_pred CCcccccccccCC---------------CC-CeEEcCCCCcccHHHHHHHHhc---------CCCCCcccccc
Q 028048 159 EDVCPTCLEEYDA---------------EN-PRIITKCEHHFHLACIFEWMER---------SDTCPVCNQEM 206 (214)
Q Consensus 159 ~~~C~ICle~~~~---------------~~-~~~~l~C~H~Fh~~CI~~Wl~~---------~~tCPvCr~~~ 206 (214)
+..|++|+..-.. +- .-...||||.--..=+.-|-+. +..||.|-+.+
T Consensus 341 ~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 341 ERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred cCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 4589999976211 11 1124689999888888889754 35799998765
No 172
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=32.92 E-value=33 Score=22.61 Aligned_cols=19 Identities=26% Similarity=0.779 Sum_probs=13.9
Q ss_pred CCCCCcccccccCCCCCCC
Q 028048 196 SDTCPVCNQEMIFDLPVDY 214 (214)
Q Consensus 196 ~~tCPvCr~~~~~~~~~~~ 214 (214)
+.+||+|......-.|..|
T Consensus 17 ke~Cp~CG~~t~~~~PprF 35 (59)
T COG2260 17 KEKCPVCGGDTKVPHPPRF 35 (59)
T ss_pred cccCCCCCCccccCCCCCC
Confidence 3679999887777666655
No 173
>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=31.70 E-value=17 Score=23.78 Aligned_cols=11 Identities=27% Similarity=1.141 Sum_probs=5.5
Q ss_pred CCCcccccccC
Q 028048 198 TCPVCNQEMIF 208 (214)
Q Consensus 198 tCPvCr~~~~~ 208 (214)
.||+|++.+.+
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 58999888766
No 174
>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=31.10 E-value=34 Score=19.72 Aligned_cols=8 Identities=38% Similarity=1.526 Sum_probs=5.9
Q ss_pred CCCCcccc
Q 028048 197 DTCPVCNQ 204 (214)
Q Consensus 197 ~tCPvCr~ 204 (214)
..||+|..
T Consensus 19 ~~CP~Cg~ 26 (34)
T cd00729 19 EKCPICGA 26 (34)
T ss_pred CcCcCCCC
Confidence 47888866
No 175
>PLN02195 cellulose synthase A
Probab=30.74 E-value=61 Score=33.02 Aligned_cols=49 Identities=22% Similarity=0.395 Sum_probs=33.2
Q ss_pred CCcccccccccCC---CCC-eEEcCCCCcccHHHHHH-HHhcCCCCCccccccc
Q 028048 159 EDVCPTCLEEYDA---ENP-RIITKCEHHFHLACIFE-WMERSDTCPVCNQEMI 207 (214)
Q Consensus 159 ~~~C~ICle~~~~---~~~-~~~l~C~H~Fh~~CI~~-Wl~~~~tCPvCr~~~~ 207 (214)
...|-||=++... +++ +.+--|+--.|..|..- --+.+..||.|+....
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 3579999997733 232 23445788899999832 1233578999998775
No 176
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=30.47 E-value=17 Score=26.92 Aligned_cols=29 Identities=34% Similarity=0.739 Sum_probs=20.5
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHh
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWME 194 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~ 194 (214)
..|++|-.+|..++.. +.+|..|..+|-.
T Consensus 4 p~cp~c~sEytYed~~------~~~cpec~~ew~~ 32 (112)
T COG2824 4 PPCPKCNSEYTYEDGG------QLICPECAHEWNE 32 (112)
T ss_pred CCCCccCCceEEecCc------eEeCchhcccccc
Confidence 4599999999665543 3466778888863
No 177
>PLN02400 cellulose synthase
Probab=30.40 E-value=32 Score=35.37 Aligned_cols=49 Identities=16% Similarity=0.470 Sum_probs=32.9
Q ss_pred CCcccccccccCC---CCC-eEEcCCCCcccHHHHH-HHHhcCCCCCccccccc
Q 028048 159 EDVCPTCLEEYDA---ENP-RIITKCEHHFHLACIF-EWMERSDTCPVCNQEMI 207 (214)
Q Consensus 159 ~~~C~ICle~~~~---~~~-~~~l~C~H~Fh~~CI~-~Wl~~~~tCPvCr~~~~ 207 (214)
..+|-||=++... +++ +.+--|+-=.|..|.. +.-+.+..||.||....
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 4579999998733 332 2334567668999983 33344688999998654
No 178
>PRK01343 zinc-binding protein; Provisional
Probab=29.31 E-value=32 Score=22.54 Aligned_cols=12 Identities=25% Similarity=0.816 Sum_probs=8.6
Q ss_pred CCCCCccccccc
Q 028048 196 SDTCPVCNQEMI 207 (214)
Q Consensus 196 ~~tCPvCr~~~~ 207 (214)
...||+|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 456888888764
No 179
>PRK11827 hypothetical protein; Provisional
Probab=28.32 E-value=21 Score=23.63 Aligned_cols=19 Identities=26% Similarity=0.711 Sum_probs=11.4
Q ss_pred HHHhcCCCCCcccccccCC
Q 028048 191 EWMERSDTCPVCNQEMIFD 209 (214)
Q Consensus 191 ~Wl~~~~tCPvCr~~~~~~ 209 (214)
+||..--.||+|+..+..+
T Consensus 3 ~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred hHHHhheECCCCCCcCeEc
Confidence 4444445577777766554
No 180
>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=26.90 E-value=24 Score=19.50 Aligned_cols=10 Identities=50% Similarity=1.471 Sum_probs=5.5
Q ss_pred CCCccccccc
Q 028048 198 TCPVCNQEMI 207 (214)
Q Consensus 198 tCPvCr~~~~ 207 (214)
.||+|...+.
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 181
>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=25.93 E-value=36 Score=22.45 Aligned_cols=15 Identities=33% Similarity=0.742 Sum_probs=11.5
Q ss_pred CCCCCcccccccCCC
Q 028048 196 SDTCPVCNQEMIFDL 210 (214)
Q Consensus 196 ~~tCPvCr~~~~~~~ 210 (214)
++.||+|.+++..+.
T Consensus 3 HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDE 17 (59)
T ss_pred CCcCCcCCCcCCcch
Confidence 567999998887654
No 182
>PF15616 TerY-C: TerY-C metal binding domain
Probab=25.40 E-value=29 Score=26.69 Aligned_cols=45 Identities=29% Similarity=0.558 Sum_probs=31.8
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCcccccccCCC
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMIFDL 210 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~~ 210 (214)
.+..-||-|-..+.. ++-.||++||. .. ....+||-|.+...+..
T Consensus 75 ~g~PgCP~CGn~~~f----a~C~CGkl~Ci---~g--~~~~~CPwCg~~g~~~~ 119 (131)
T PF15616_consen 75 IGAPGCPHCGNQYAF----AVCGCGKLFCI---DG--EGEVTCPWCGNEGSFGA 119 (131)
T ss_pred cCCCCCCCCcChhcE----EEecCCCEEEe---CC--CCCEECCCCCCeeeecc
Confidence 455779999887643 44589999863 33 34578999998776543
No 183
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=25.32 E-value=44 Score=32.41 Aligned_cols=44 Identities=23% Similarity=0.369 Sum_probs=26.2
Q ss_pred cccccccccCCCCCeEEcCCCCcccH--HHHHH-HHhc----C--CCCCcccccccCCCC
Q 028048 161 VCPTCLEEYDAENPRIITKCEHHFHL--ACIFE-WMER----S--DTCPVCNQEMIFDLP 211 (214)
Q Consensus 161 ~C~ICle~~~~~~~~~~l~C~H~Fh~--~CI~~-Wl~~----~--~tCPvCr~~~~~~~~ 211 (214)
.|+|+.- ...+||.++.|+ .|.+. |+.. + -.||||.+...++.+
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 5666544 345666555554 67643 4421 1 259999998877664
No 184
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=25.22 E-value=61 Score=33.27 Aligned_cols=50 Identities=24% Similarity=0.513 Sum_probs=33.5
Q ss_pred CCCcccccccccCC---CCC-eEEcCCCCcccHHHHH-HHHhcCCCCCccccccc
Q 028048 158 EEDVCPTCLEEYDA---ENP-RIITKCEHHFHLACIF-EWMERSDTCPVCNQEMI 207 (214)
Q Consensus 158 e~~~C~ICle~~~~---~~~-~~~l~C~H~Fh~~CI~-~Wl~~~~tCPvCr~~~~ 207 (214)
...+|-||=++... +++ +.+--|+--.|..|.. +.-+.+..||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 34579999998733 332 2234467779999983 33344688999998654
No 185
>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=24.65 E-value=22 Score=22.86 Aligned_cols=9 Identities=44% Similarity=1.368 Sum_probs=3.2
Q ss_pred CCCcccccc
Q 028048 198 TCPVCNQEM 206 (214)
Q Consensus 198 tCPvCr~~~ 206 (214)
+||+|...+
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 466665543
No 186
>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=24.41 E-value=28 Score=21.66 Aligned_cols=24 Identities=33% Similarity=0.721 Sum_probs=15.4
Q ss_pred EEcCCCCcccHHHHHHHHh----cCCCCCcccc
Q 028048 176 IITKCEHHFHLACIFEWME----RSDTCPVCNQ 204 (214)
Q Consensus 176 ~~l~C~H~Fh~~CI~~Wl~----~~~tCPvCr~ 204 (214)
....|||.|-. |.. ....||.|..
T Consensus 7 ~C~~Cg~~fe~-----~~~~~~~~~~~CP~Cg~ 34 (52)
T TIGR02605 7 RCTACGHRFEV-----LQKMSDDPLATCPECGG 34 (52)
T ss_pred EeCCCCCEeEE-----EEecCCCCCCCCCCCCC
Confidence 45678888763 322 2236999986
No 187
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.39 E-value=40 Score=24.29 Aligned_cols=12 Identities=25% Similarity=0.844 Sum_probs=10.7
Q ss_pred ccHHHHHHHHhc
Q 028048 184 FHLACIFEWMER 195 (214)
Q Consensus 184 Fh~~CI~~Wl~~ 195 (214)
||..|+..|...
T Consensus 43 FCRNCLs~Wy~e 54 (104)
T COG3492 43 FCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHH
Confidence 999999999953
No 188
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=24.20 E-value=39 Score=28.99 Aligned_cols=44 Identities=27% Similarity=0.439 Sum_probs=32.9
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHHHHHHhc--CCCCCccccc
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMER--SDTCPVCNQE 205 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~--~~tCPvCr~~ 205 (214)
..|||=.-. ..++++-.+|||+|-..=|...+.. .-.||+=..+
T Consensus 177 ~rdPis~~~--I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 177 NRDPISKKP--IVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred ccCchhhhh--hhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 378875443 3678889999999999999998865 3458875443
No 189
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=23.77 E-value=23 Score=35.23 Aligned_cols=45 Identities=16% Similarity=0.422 Sum_probs=30.1
Q ss_pred CCcccccccccCCCCCeEEcCCCCcccHHHHHHHH-h-----cCCCCCcccc
Q 028048 159 EDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWM-E-----RSDTCPVCNQ 204 (214)
Q Consensus 159 ~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl-~-----~~~tCPvCr~ 204 (214)
...|-.|.-..- ....++..|+|.||..|++.|. . .-..|+.|+.
T Consensus 229 ~~mC~~C~~tlf-n~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~ 279 (889)
T KOG1356|consen 229 REMCDRCETTLF-NIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWL 279 (889)
T ss_pred chhhhhhccccc-ceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHH
Confidence 345777765431 1245778899999999999995 1 1245777654
No 190
>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=23.13 E-value=53 Score=21.18 Aligned_cols=18 Identities=28% Similarity=0.680 Sum_probs=14.4
Q ss_pred CCCCcccccccCCCCCCC
Q 028048 197 DTCPVCNQEMIFDLPVDY 214 (214)
Q Consensus 197 ~tCPvCr~~~~~~~~~~~ 214 (214)
.+||.|......-.|..|
T Consensus 18 ~~cp~cG~~T~~ahPaRF 35 (53)
T PF04135_consen 18 DKCPPCGGPTESAHPARF 35 (53)
T ss_dssp SBBTTTSSBSEESSSSSS
T ss_pred CccCCCCCCCcCCcCCCC
Confidence 579999988877777665
No 191
>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=22.98 E-value=54 Score=24.37 Aligned_cols=23 Identities=30% Similarity=0.618 Sum_probs=15.1
Q ss_pred cccccccccCC--CCCeEEcCCCCc
Q 028048 161 VCPTCLEEYDA--ENPRIITKCEHH 183 (214)
Q Consensus 161 ~C~ICle~~~~--~~~~~~l~C~H~ 183 (214)
.||-|..+|.. ++..+...|+|.
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~E 28 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYE 28 (109)
T ss_pred cCCcCCCcceEecCCeeECcccccc
Confidence 59999999844 444555556664
No 192
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.86 E-value=62 Score=22.32 Aligned_cols=27 Identities=26% Similarity=0.598 Sum_probs=20.9
Q ss_pred CCcccHHHHHHHHhcCCCCCcccccccCC
Q 028048 181 EHHFHLACIFEWMERSDTCPVCNQEMIFD 209 (214)
Q Consensus 181 ~H~Fh~~CI~~Wl~~~~tCPvCr~~~~~~ 209 (214)
.|.||..|...-| ...||-|..+++-.
T Consensus 28 EcTFCadCae~~l--~g~CPnCGGelv~R 54 (84)
T COG3813 28 ECTFCADCAENRL--HGLCPNCGGELVAR 54 (84)
T ss_pred eeehhHhHHHHhh--cCcCCCCCchhhcC
Confidence 5789999998754 46799998877543
No 193
>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=22.58 E-value=63 Score=23.70 Aligned_cols=24 Identities=21% Similarity=0.490 Sum_probs=18.7
Q ss_pred CCcccHHHHHHHHhc---------CCCCCcccc
Q 028048 181 EHHFHLACIFEWMER---------SDTCPVCNQ 204 (214)
Q Consensus 181 ~H~Fh~~CI~~Wl~~---------~~tCPvCr~ 204 (214)
.=.||..||..++.. .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999988843 245999986
No 194
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=22.33 E-value=28 Score=36.87 Aligned_cols=50 Identities=24% Similarity=0.547 Sum_probs=39.5
Q ss_pred CCCCcccccccccCCCCCeEEcCCCCcccHHHHHHHHhcC----CCCCcccccc
Q 028048 157 EEEDVCPTCLEEYDAENPRIITKCEHHFHLACIFEWMERS----DTCPVCNQEM 206 (214)
Q Consensus 157 ee~~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~----~tCPvCr~~~ 206 (214)
.....|.||....+.+.-+...-|.-.||..|++.-|... -.||-|+..-
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 3455799999998776666667788899999999988653 4699998753
No 195
>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=22.23 E-value=56 Score=21.33 Aligned_cols=32 Identities=13% Similarity=0.170 Sum_probs=20.1
Q ss_pred ccccccccCCCCCeEEcCCCCcccHH----HHHHHHhc
Q 028048 162 CPTCLEEYDAENPRIITKCEHHFHLA----CIFEWMER 195 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C~H~Fh~~----CI~~Wl~~ 195 (214)
|.+|... ..+.-+.|.||++++.. .+.+-++.
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 5667654 34557789999999885 55555543
No 196
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=22.21 E-value=66 Score=19.96 Aligned_cols=37 Identities=19% Similarity=0.522 Sum_probs=18.3
Q ss_pred ccccccccCCCCCeEEcCCCCcccHHHHHHHHhcCCCCCccccccc
Q 028048 162 CPTCLEEYDAENPRIITKCEHHFHLACIFEWMERSDTCPVCNQEMI 207 (214)
Q Consensus 162 C~ICle~~~~~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~~~~ 207 (214)
|..|-..+..+. .++..-+..||..| -+|-.|++.|.
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 455555554322 22223455666655 24666666553
No 197
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=22.20 E-value=37 Score=29.71 Aligned_cols=30 Identities=20% Similarity=0.529 Sum_probs=23.5
Q ss_pred CcccccccccCCCCCeEEcCCCCcccHHHH
Q 028048 160 DVCPTCLEEYDAENPRIITKCEHHFHLACI 189 (214)
Q Consensus 160 ~~C~ICle~~~~~~~~~~l~C~H~Fh~~CI 189 (214)
..|.||+.....++.+..--|..-||.-|+
T Consensus 315 ~lC~IC~~P~~E~E~~FCD~CDRG~HT~CV 344 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHLFCDVCDRGPHTLCV 344 (381)
T ss_pred HhhhccCCcccchheeccccccCCCCcccc
Confidence 368899888776776777778888888887
No 198
>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=22.18 E-value=7.4 Score=33.68 Aligned_cols=41 Identities=22% Similarity=0.442 Sum_probs=18.5
Q ss_pred CCcccccccccC-----CCC--CeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 159 EDVCPTCLEEYD-----AEN--PRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 159 ~~~C~ICle~~~-----~~~--~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
...||||=..-. .+. .. .|.+|.-|=.+|--....||.|..
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~-----R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGK-----RYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp -SS-TTT---EEEEEEE------E-----EEEEETTT--EEE--TTS-TTT--
T ss_pred CCcCCCCCCcCceEEEecCCCCcc-----EEEEcCCCCCeeeecCCCCcCCCC
Confidence 358999976531 111 12 345677788889888889999954
No 199
>PF02444 HEV_ORF1: Hepatitis E virus ORF-2 (Putative capsid protein); InterPro: IPR003384 The Hepatitis E virus(HEV) genome is a single-stranded, positive-sense RNA molecule of approximately 7.5 kb []. Three open reading frames (ORF) were identified within the HEV genome: ORF1 encodes nonstructural proteins, ORF2 encodes the putative structural protein(s), and ORF3 encodes a protein of unknown function. ORF2 contains a consensus signal peptide sequence at its amino terminus and a capsid-like region with a high content of basic amino acids similar to that seen with other virus capsid proteins [].; GO: 0030430 host cell cytoplasm
Probab=21.73 E-value=32 Score=25.03 Aligned_cols=8 Identities=75% Similarity=1.676 Sum_probs=5.6
Q ss_pred CCcccCCC
Q 028048 2 GGCCCCSS 9 (214)
Q Consensus 2 g~~c~~~~ 9 (214)
|=|||||+
T Consensus 9 glfc~css 16 (114)
T PF02444_consen 9 GLFCCCSS 16 (114)
T ss_pred hhhheccc
Confidence 44888885
No 200
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=21.68 E-value=59 Score=28.68 Aligned_cols=42 Identities=21% Similarity=0.380 Sum_probs=28.6
Q ss_pred CCCcccccccccCC-------CCCeEEcCCCCcccHHHHHHHHhcCCCCCcccc
Q 028048 158 EEDVCPTCLEEYDA-------ENPRIITKCEHHFHLACIFEWMERSDTCPVCNQ 204 (214)
Q Consensus 158 e~~~C~ICle~~~~-------~~~~~~l~C~H~Fh~~CI~~Wl~~~~tCPvCr~ 204 (214)
....||||=..-.. .+..+ |.+|.-|=.+|--..-.||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~R-----yL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLR-----YLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCce-----EEEcCCCCCcccccCccCCCCCC
Confidence 45689999765211 12233 44566688899888899999975
No 201
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=21.32 E-value=67 Score=27.18 Aligned_cols=24 Identities=21% Similarity=0.531 Sum_probs=15.1
Q ss_pred HHHHHHHHhcCCCCCcccccccCC
Q 028048 186 LACIFEWMERSDTCPVCNQEMIFD 209 (214)
Q Consensus 186 ~~CI~~Wl~~~~tCPvCr~~~~~~ 209 (214)
..|-.+--++-..||+|+..-...
T Consensus 253 lsChqqIHRNAPiCPlCKaKsRSr 276 (286)
T KOG4451|consen 253 LSCHQQIHRNAPICPLCKAKSRSR 276 (286)
T ss_pred HHHHHHHhcCCCCCcchhhccccC
Confidence 344444445678999998765443
No 202
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=20.95 E-value=42 Score=22.25 Aligned_cols=13 Identities=38% Similarity=1.198 Sum_probs=9.6
Q ss_pred CCCcccccccCCC
Q 028048 198 TCPVCNQEMIFDL 210 (214)
Q Consensus 198 tCPvCr~~~~~~~ 210 (214)
.||+||..+..+.
T Consensus 10 aCP~~kg~L~~~~ 22 (60)
T COG2835 10 ACPVCKGPLVYDE 22 (60)
T ss_pred eccCcCCcceEec
Confidence 4999998876543
No 203
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.64 E-value=64 Score=21.66 Aligned_cols=14 Identities=21% Similarity=0.828 Sum_probs=9.8
Q ss_pred CCCCcccccccCCC
Q 028048 197 DTCPVCNQEMIFDL 210 (214)
Q Consensus 197 ~tCPvCr~~~~~~~ 210 (214)
..||.|.+.+.+.+
T Consensus 8 v~CP~Cgkpv~w~~ 21 (65)
T COG3024 8 VPCPTCGKPVVWGE 21 (65)
T ss_pred ccCCCCCCcccccc
Confidence 45888888776644
No 204
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=20.47 E-value=1.2e+02 Score=26.64 Aligned_cols=49 Identities=14% Similarity=0.310 Sum_probs=31.2
Q ss_pred CCcccccccccCC------CCCeEEcCCCCcccHHHHH------------HHHh-cCCCCCccccccc
Q 028048 159 EDVCPTCLEEYDA------ENPRIITKCEHHFHLACIF------------EWME-RSDTCPVCNQEMI 207 (214)
Q Consensus 159 ~~~C~ICle~~~~------~~~~~~l~C~H~Fh~~CI~------------~Wl~-~~~tCPvCr~~~~ 207 (214)
...|.|||..-.. +.-+..-+|...+|-.||. +|-= .-.+|-+|.++..
T Consensus 258 ~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~ 325 (381)
T KOG1512|consen 258 RNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVI 325 (381)
T ss_pred hhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCccc
Confidence 3579999986422 1223457899999999985 3321 1256788877653
Done!