Query 035392
Match_columns 59
No_of_seqs 242 out of 1301
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 02:41:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035392.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035392hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12861 zf-Apc11: Anaphase-pr 99.8 2.5E-21 5.5E-26 100.0 4.4 57 1-57 29-85 (85)
2 PF13639 zf-RING_2: Ring finge 99.7 2.2E-18 4.9E-23 79.6 2.7 43 5-50 1-44 (44)
3 KOG1493 Anaphase-promoting com 99.7 5.1E-19 1.1E-23 89.6 0.4 57 1-57 28-84 (84)
4 PF12678 zf-rbx1: RING-H2 zinc 99.7 3.6E-17 7.8E-22 82.8 3.6 44 4-50 19-73 (73)
5 COG5194 APC11 Component of SCF 99.6 5E-16 1.1E-20 79.3 3.7 54 2-58 29-85 (88)
6 PHA02929 N1R/p28-like protein; 99.6 1.5E-15 3.3E-20 90.7 4.4 49 4-55 174-228 (238)
7 KOG4628 Predicted E3 ubiquitin 99.5 1.4E-14 3.1E-19 90.1 3.2 48 6-55 231-279 (348)
8 PF13923 zf-C3HC4_2: Zinc fing 99.5 3.4E-14 7.4E-19 64.0 2.6 39 7-49 1-39 (39)
9 cd00162 RING RING-finger (Real 99.4 1.5E-13 3.4E-18 62.1 4.0 45 6-53 1-45 (45)
10 COG5243 HRD1 HRD ubiquitin lig 99.4 9.1E-14 2E-18 87.4 3.7 52 3-57 286-348 (491)
11 KOG0823 Predicted E3 ubiquitin 99.4 9.1E-14 2E-18 82.4 3.2 50 5-56 48-97 (230)
12 PF15227 zf-C3HC4_4: zinc fing 99.4 9.4E-14 2E-18 63.7 2.2 41 7-49 1-42 (42)
13 PF13920 zf-C3HC4_3: Zinc fing 99.4 1.2E-13 2.6E-18 65.1 2.6 46 4-54 2-48 (50)
14 PLN03208 E3 ubiquitin-protein 99.4 2E-13 4.4E-18 79.5 4.1 51 4-56 18-81 (193)
15 KOG0320 Predicted E3 ubiquitin 99.4 9.8E-14 2.1E-18 79.8 2.5 49 5-56 132-180 (187)
16 KOG0317 Predicted E3 ubiquitin 99.4 2E-13 4.2E-18 83.1 3.0 48 5-57 240-287 (293)
17 PHA02926 zinc finger-like prot 99.4 4.4E-13 9.6E-18 79.5 4.3 54 2-55 168-231 (242)
18 KOG2930 SCF ubiquitin ligase, 99.4 4.7E-13 1E-17 71.3 2.6 41 15-58 72-112 (114)
19 PF00097 zf-C3HC4: Zinc finger 99.3 1.4E-12 3E-17 59.0 3.3 41 7-49 1-41 (41)
20 COG5540 RING-finger-containing 99.3 2.8E-12 6E-17 79.1 3.3 49 5-55 324-373 (374)
21 PF14634 zf-RING_5: zinc-RING 99.3 6.6E-12 1.4E-16 57.9 3.1 43 6-51 1-44 (44)
22 smart00504 Ubox Modified RING 99.2 2.2E-11 4.7E-16 59.3 4.0 48 4-56 1-48 (63)
23 smart00184 RING Ring finger. E 99.2 2.1E-11 4.5E-16 53.3 3.5 39 7-49 1-39 (39)
24 KOG0802 E3 ubiquitin ligase [P 99.2 6.9E-12 1.5E-16 81.7 2.1 48 3-53 290-340 (543)
25 TIGR00599 rad18 DNA repair pro 99.1 1.7E-10 3.7E-15 73.2 3.6 47 4-55 26-72 (397)
26 PF13445 zf-RING_UBOX: RING-ty 99.0 3.6E-10 7.8E-15 52.0 3.3 41 7-47 1-43 (43)
27 KOG2164 Predicted E3 ubiquitin 99.0 4.2E-10 9.1E-15 72.8 3.8 52 4-57 186-239 (513)
28 smart00744 RINGv The RING-vari 98.9 2.6E-09 5.6E-14 50.3 4.0 44 6-50 1-49 (49)
29 COG5574 PEX10 RING-finger-cont 98.9 9.6E-10 2.1E-14 66.5 2.6 50 4-57 215-265 (271)
30 TIGR00570 cdk7 CDK-activating 98.9 3.4E-09 7.4E-14 65.5 4.1 52 4-57 3-57 (309)
31 KOG0827 Predicted E3 ubiquitin 98.9 1.5E-09 3.2E-14 68.8 2.6 50 1-50 1-52 (465)
32 KOG1734 Predicted RING-contain 98.8 6.1E-10 1.3E-14 67.9 0.1 52 4-56 224-283 (328)
33 PF11793 FANCL_C: FANCL C-term 98.8 1.2E-09 2.5E-14 54.9 0.3 53 4-56 2-68 (70)
34 KOG2177 Predicted E3 ubiquitin 98.7 4.1E-09 8.9E-14 61.8 1.6 42 4-50 13-54 (386)
35 KOG0828 Predicted E3 ubiquitin 98.7 6.6E-09 1.4E-13 67.6 2.4 48 5-54 572-634 (636)
36 KOG0804 Cytoplasmic Zn-finger 98.7 4.9E-09 1.1E-13 67.3 1.4 45 5-54 176-222 (493)
37 COG5219 Uncharacterized conser 98.7 7.9E-09 1.7E-13 71.3 2.0 50 5-55 1470-1524(1525)
38 PF04564 U-box: U-box domain; 98.6 3E-08 6.5E-13 49.9 2.6 53 1-57 1-53 (73)
39 PF14835 zf-RING_6: zf-RING of 98.6 7.2E-09 1.6E-13 51.2 -0.0 47 5-57 8-54 (65)
40 COG5432 RAD18 RING-finger-cont 98.6 2.3E-08 5E-13 61.8 1.9 46 5-55 26-71 (391)
41 KOG0287 Postreplication repair 98.5 2.4E-08 5.3E-13 62.7 1.0 47 5-56 24-70 (442)
42 KOG0978 E3 ubiquitin ligase in 98.4 6.7E-08 1.4E-12 64.8 1.0 49 5-57 644-692 (698)
43 KOG0824 Predicted E3 ubiquitin 98.3 3.1E-07 6.8E-12 56.8 2.1 48 4-55 7-54 (324)
44 KOG1039 Predicted E3 ubiquitin 98.3 4.1E-07 8.9E-12 57.2 2.6 53 4-56 161-223 (344)
45 KOG1645 RING-finger-containing 98.3 5.3E-07 1.2E-11 57.7 3.0 49 3-52 3-54 (463)
46 PF11789 zf-Nse: Zinc-finger o 98.2 1.3E-06 2.8E-11 42.3 1.9 44 3-48 10-53 (57)
47 KOG3970 Predicted E3 ubiquitin 98.1 3.3E-06 7.2E-11 50.9 3.7 53 3-55 49-106 (299)
48 KOG0311 Predicted E3 ubiquitin 98.1 2E-07 4.3E-12 58.6 -1.8 50 4-56 43-92 (381)
49 KOG0297 TNF receptor-associate 98.1 2.3E-06 4.9E-11 54.5 1.9 49 3-55 20-68 (391)
50 KOG0825 PHD Zn-finger protein 98.1 6.5E-07 1.4E-11 61.2 -0.5 48 5-55 124-172 (1134)
51 KOG4445 Uncharacterized conser 98.0 1.5E-06 3.3E-11 54.0 0.8 54 4-57 115-189 (368)
52 KOG2879 Predicted E3 ubiquitin 98.0 7.2E-06 1.6E-10 50.3 3.6 50 3-54 238-287 (298)
53 KOG4172 Predicted E3 ubiquitin 98.0 1.3E-06 2.9E-11 42.0 0.1 48 3-54 6-54 (62)
54 KOG1785 Tyrosine kinase negati 98.0 2.9E-06 6.2E-11 54.6 1.5 48 5-55 370-417 (563)
55 KOG1941 Acetylcholine receptor 97.9 5.6E-06 1.2E-10 53.1 1.4 47 4-51 365-413 (518)
56 PHA02862 5L protein; Provision 97.9 1.6E-05 3.6E-10 44.9 3.0 50 4-57 2-56 (156)
57 PF10367 Vps39_2: Vacuolar sor 97.9 5.3E-06 1.1E-10 43.6 1.0 32 3-34 77-108 (109)
58 PF12906 RINGv: RING-variant d 97.8 1.2E-05 2.5E-10 37.5 1.0 42 7-49 1-47 (47)
59 KOG2660 Locus-specific chromos 97.7 7.2E-06 1.6E-10 51.2 0.0 46 5-54 16-61 (331)
60 KOG4265 Predicted E3 ubiquitin 97.7 3.1E-05 6.6E-10 48.9 2.6 45 5-54 291-336 (349)
61 KOG1428 Inhibitor of type V ad 97.7 4E-05 8.6E-10 55.9 3.2 52 3-54 3485-3544(3738)
62 PF14570 zf-RING_4: RING/Ubox 97.7 4.7E-05 1E-09 35.7 2.3 46 7-54 1-48 (48)
63 KOG1002 Nucleotide excision re 97.6 2.3E-05 5E-10 52.1 1.3 53 4-58 536-590 (791)
64 KOG4159 Predicted E3 ubiquitin 97.6 4.3E-05 9.3E-10 49.0 2.1 46 4-54 84-129 (398)
65 PHA02825 LAP/PHD finger-like p 97.6 0.00011 2.5E-09 42.0 3.5 49 4-56 8-61 (162)
66 KOG4739 Uncharacterized protei 97.5 5E-05 1.1E-09 45.7 1.9 47 6-57 5-51 (233)
67 PF14447 Prok-RING_4: Prokaryo 97.3 0.00011 2.3E-09 35.3 1.3 34 21-59 22-55 (55)
68 PHA03096 p28-like protein; Pro 97.3 0.00014 3E-09 44.9 1.9 47 5-51 179-231 (284)
69 KOG1940 Zn-finger protein [Gen 97.3 0.00023 4.9E-09 43.9 2.4 46 3-51 157-204 (276)
70 KOG4692 Predicted E3 ubiquitin 97.2 0.00025 5.4E-09 45.4 2.4 47 3-54 421-467 (489)
71 KOG1952 Transcription factor N 97.2 0.00025 5.4E-09 49.1 2.2 47 5-51 192-244 (950)
72 COG5152 Uncharacterized conser 97.1 0.00022 4.8E-09 42.5 1.0 43 6-53 198-240 (259)
73 KOG2114 Vacuolar assembly/sort 97.1 0.00033 7.1E-09 48.5 1.8 41 5-52 841-881 (933)
74 KOG1813 Predicted E3 ubiquitin 97.0 0.00027 5.8E-09 43.9 0.7 44 6-54 243-286 (313)
75 KOG1814 Predicted E3 ubiquitin 96.9 0.00062 1.3E-08 44.0 2.2 46 5-50 185-236 (445)
76 KOG1571 Predicted E3 ubiquitin 96.9 0.00072 1.6E-08 42.9 2.0 46 2-55 303-348 (355)
77 KOG2034 Vacuolar sorting prote 96.8 0.00062 1.3E-08 47.3 1.4 35 4-38 817-851 (911)
78 KOG0309 Conserved WD40 repeat- 96.8 0.00072 1.6E-08 46.8 1.6 40 6-48 1030-1069(1081)
79 PF05883 Baculo_RING: Baculovi 96.8 0.00056 1.2E-08 38.2 0.9 36 4-39 26-68 (134)
80 KOG3268 Predicted E3 ubiquitin 96.8 0.0012 2.7E-08 38.8 2.4 37 22-58 188-232 (234)
81 KOG4185 Predicted E3 ubiquitin 96.7 0.0016 3.4E-08 39.8 2.7 49 5-55 4-56 (296)
82 PF04641 Rtf2: Rtf2 RING-finge 96.7 0.0023 5E-08 38.9 3.1 49 5-57 114-164 (260)
83 KOG0826 Predicted E3 ubiquitin 96.6 0.0025 5.5E-08 40.3 2.8 48 4-55 300-347 (357)
84 PF08746 zf-RING-like: RING-li 96.5 0.0035 7.7E-08 28.5 2.4 26 23-49 18-43 (43)
85 KOG2817 Predicted E3 ubiquitin 96.5 0.0034 7.3E-08 40.4 3.0 51 6-56 336-387 (394)
86 PF10272 Tmpp129: Putative tra 96.3 0.0049 1.1E-07 39.3 3.2 30 26-55 313-352 (358)
87 KOG3039 Uncharacterized conser 96.3 0.0056 1.2E-07 37.6 3.3 50 5-57 222-273 (303)
88 KOG1001 Helicase-like transcri 96.3 0.0014 3.1E-08 44.5 0.6 47 5-55 455-501 (674)
89 KOG4275 Predicted E3 ubiquitin 96.2 0.0005 1.1E-08 42.9 -1.5 42 4-54 300-342 (350)
90 COG5222 Uncharacterized conser 96.2 0.0035 7.5E-08 39.6 1.9 44 5-51 275-318 (427)
91 COG5175 MOT2 Transcriptional r 95.9 0.0082 1.8E-07 38.5 2.7 52 4-57 14-67 (480)
92 PF05290 Baculo_IE-1: Baculovi 95.8 0.014 3E-07 32.8 3.0 52 6-57 82-135 (140)
93 PF03854 zf-P11: P-11 zinc fin 95.7 0.0034 7.4E-08 29.4 0.3 30 23-55 17-47 (50)
94 KOG3800 Predicted E3 ubiquitin 95.7 0.013 2.8E-07 36.5 2.9 47 6-54 2-51 (300)
95 PF14446 Prok-RING_1: Prokaryo 95.7 0.018 3.9E-07 27.6 2.8 43 5-54 6-52 (54)
96 PF07800 DUF1644: Protein of u 95.7 0.029 6.2E-07 32.3 4.1 36 4-39 2-48 (162)
97 KOG3053 Uncharacterized conser 95.6 0.0063 1.4E-07 37.5 1.3 51 4-54 20-82 (293)
98 COG5183 SSM4 Protein involved 95.2 0.018 3.9E-07 40.5 2.4 53 4-58 12-70 (1175)
99 KOG4367 Predicted Zn-finger pr 94.8 0.016 3.4E-07 38.4 1.3 37 1-39 1-37 (699)
100 KOG2932 E3 ubiquitin ligase in 94.2 0.023 4.9E-07 36.1 1.0 29 21-54 106-134 (389)
101 COG5109 Uncharacterized conser 94.0 0.046 9.9E-07 34.8 2.2 48 6-53 338-386 (396)
102 COG5220 TFB3 Cdk activating ki 93.8 0.036 7.7E-07 34.1 1.3 46 4-51 10-61 (314)
103 KOG1812 Predicted E3 ubiquitin 93.6 0.038 8.2E-07 35.5 1.2 37 4-40 146-184 (384)
104 COG5236 Uncharacterized conser 93.6 0.073 1.6E-06 34.4 2.5 46 4-54 61-108 (493)
105 KOG4362 Transcriptional regula 93.4 0.012 2.5E-07 40.3 -1.3 50 3-54 20-69 (684)
106 KOG3899 Uncharacterized conser 93.4 0.064 1.4E-06 33.9 2.0 33 24-56 325-367 (381)
107 PF10571 UPF0547: Uncharacteri 93.3 0.053 1.2E-06 22.2 1.1 23 6-28 2-24 (26)
108 KOG0298 DEAD box-containing he 93.1 0.027 5.9E-07 41.0 0.1 43 6-53 1155-1198(1394)
109 KOG1815 Predicted E3 ubiquitin 92.9 0.097 2.1E-06 34.1 2.3 36 4-40 70-105 (444)
110 KOG0827 Predicted E3 ubiquitin 92.5 0.026 5.6E-07 36.7 -0.7 48 5-55 197-246 (465)
111 KOG3002 Zn finger protein [Gen 92.3 0.18 3.8E-06 31.6 2.9 41 5-54 49-91 (299)
112 KOG1100 Predicted E3 ubiquitin 91.8 0.099 2.2E-06 31.1 1.3 38 7-53 161-199 (207)
113 PF13901 DUF4206: Domain of un 91.2 0.14 3E-06 30.2 1.5 38 6-51 154-197 (202)
114 smart00132 LIM Zinc-binding do 90.5 0.37 8E-06 20.2 2.2 37 7-54 2-38 (39)
115 KOG2066 Vacuolar assembly/sort 90.3 0.082 1.8E-06 37.0 -0.0 39 2-40 782-825 (846)
116 KOG4718 Non-SMC (structural ma 90.1 0.18 3.8E-06 30.5 1.2 45 6-54 183-227 (235)
117 smart00249 PHD PHD zinc finger 90.0 0.25 5.4E-06 21.4 1.5 31 6-36 1-32 (47)
118 KOG1609 Protein involved in mR 89.8 0.21 4.6E-06 30.4 1.5 50 5-55 79-135 (323)
119 PF06844 DUF1244: Protein of u 89.6 0.28 6.2E-06 24.4 1.6 13 27-39 11-23 (68)
120 PF00412 LIM: LIM domain; Int 89.5 0.19 4.2E-06 23.3 0.9 38 7-55 1-38 (58)
121 PF04710 Pellino: Pellino; In 89.4 0.11 2.3E-06 33.9 0.0 34 16-52 301-337 (416)
122 PF14569 zf-UDP: Zinc-binding 89.4 0.77 1.7E-05 23.6 3.1 50 5-56 10-64 (80)
123 PF02891 zf-MIZ: MIZ/SP-RING z 89.3 0.99 2.1E-05 20.9 3.3 46 5-52 3-50 (50)
124 KOG0269 WD40 repeat-containing 88.9 0.41 8.9E-06 33.6 2.4 36 6-41 781-816 (839)
125 PF07191 zinc-ribbons_6: zinc- 88.5 0.0061 1.3E-07 30.6 -4.8 42 4-55 1-42 (70)
126 KOG1829 Uncharacterized conser 87.8 0.2 4.4E-06 34.0 0.5 43 6-54 513-561 (580)
127 KOG0801 Predicted E3 ubiquitin 87.8 0.17 3.6E-06 29.6 0.0 26 5-30 178-204 (205)
128 KOG3113 Uncharacterized conser 87.2 0.7 1.5E-05 28.7 2.5 47 6-57 113-161 (293)
129 PF00628 PHD: PHD-finger; Int 86.8 0.28 6E-06 22.3 0.5 46 6-51 1-50 (51)
130 KOG1812 Predicted E3 ubiquitin 85.9 0.5 1.1E-05 30.5 1.5 36 5-40 307-345 (384)
131 PLN02189 cellulose synthase 85.5 0.95 2.1E-05 32.8 2.8 49 5-55 35-88 (1040)
132 KOG3161 Predicted E3 ubiquitin 85.3 0.35 7.5E-06 33.6 0.6 37 5-47 12-51 (861)
133 PF04423 Rad50_zn_hook: Rad50 85.1 0.47 1E-05 22.2 0.9 12 44-55 21-32 (54)
134 PLN02436 cellulose synthase A 83.6 1.3 2.8E-05 32.3 2.7 49 5-55 37-90 (1094)
135 PF13771 zf-HC5HC2H: PHD-like 83.3 0.89 1.9E-05 23.0 1.5 33 3-35 35-68 (90)
136 PF10497 zf-4CXXC_R1: Zinc-fin 82.2 3.8 8.3E-05 21.9 3.7 27 25-51 37-69 (105)
137 PF07649 C1_3: C1-like domain; 82.0 1.2 2.6E-05 18.3 1.4 28 6-33 2-30 (30)
138 PF13832 zf-HC5HC2H_2: PHD-zin 81.7 2.5 5.5E-05 22.1 2.9 31 4-35 55-87 (110)
139 COG5627 MMS21 DNA repair prote 80.6 0.77 1.7E-05 28.3 0.7 44 3-48 188-231 (275)
140 PLN02638 cellulose synthase A 80.3 2 4.4E-05 31.4 2.8 49 5-55 18-71 (1079)
141 PF03119 DNA_ligase_ZBD: NAD-d 79.3 0.91 2E-05 18.7 0.5 13 45-57 1-13 (28)
142 PLN02400 cellulose synthase 78.8 1.9 4.1E-05 31.5 2.3 49 5-55 37-90 (1085)
143 KOG0802 E3 ubiquitin ligase [P 78.1 1.2 2.5E-05 29.9 1.1 46 3-57 478-523 (543)
144 COG3492 Uncharacterized protei 77.6 1.5 3.3E-05 23.2 1.2 14 27-40 42-55 (104)
145 smart00647 IBR In Between Ring 77.6 0.4 8.7E-06 22.5 -0.9 15 22-36 44-58 (64)
146 PF07975 C1_4: TFIIH C1-like d 77.1 1.1 2.4E-05 21.1 0.5 29 19-50 22-50 (51)
147 KOG2979 Protein involved in DN 74.7 1.8 3.9E-05 26.9 1.1 45 3-49 175-219 (262)
148 PF06906 DUF1272: Protein of u 74.3 7.8 0.00017 18.7 3.1 26 26-56 29-54 (57)
149 PRK11827 hypothetical protein; 73.1 1.6 3.4E-05 21.3 0.5 12 44-55 9-20 (60)
150 TIGR00622 ssl1 transcription f 72.2 5.2 0.00011 21.8 2.4 27 21-50 84-110 (112)
151 PLN02195 cellulose synthase A 71.9 5.9 0.00013 28.9 3.2 48 5-54 7-59 (977)
152 KOG3039 Uncharacterized conser 71.6 4.2 9.1E-05 25.4 2.2 33 5-39 44-76 (303)
153 PF14169 YdjO: Cold-inducible 69.5 2.9 6.3E-05 20.3 1.0 12 44-55 40-51 (59)
154 PF12773 DZR: Double zinc ribb 68.9 7.2 0.00016 17.5 2.3 28 28-55 14-41 (50)
155 KOG3579 Predicted E3 ubiquitin 68.7 2.7 5.8E-05 26.7 1.0 35 5-41 269-307 (352)
156 PLN02915 cellulose synthase A 68.6 6.2 0.00013 28.9 2.8 49 5-55 16-69 (1044)
157 KOG2068 MOT2 transcription fac 67.1 10 0.00022 24.4 3.2 48 5-55 250-299 (327)
158 smart00734 ZnF_Rad18 Rad18-lik 65.5 1.4 3E-05 17.8 -0.5 9 45-53 3-11 (26)
159 KOG3842 Adaptor protein Pellin 64.6 12 0.00026 24.3 3.2 35 21-55 375-415 (429)
160 PF06677 Auto_anti-p27: Sjogre 64.0 7.7 0.00017 17.4 1.8 12 44-55 18-29 (41)
161 KOG2807 RNA polymerase II tran 61.0 9.9 0.00022 24.6 2.4 42 7-51 333-375 (378)
162 PRK00418 DNA gyrase inhibitor; 60.5 6.2 0.00013 19.4 1.2 11 44-54 7-17 (62)
163 COG3813 Uncharacterized protei 59.8 15 0.00033 18.7 2.6 26 25-55 28-53 (84)
164 cd00065 FYVE FYVE domain; Zinc 59.2 9.5 0.00021 17.4 1.7 34 5-38 3-38 (57)
165 PLN02248 cellulose synthase-li 59.2 9.9 0.00021 28.2 2.4 31 22-55 148-178 (1135)
166 COG4357 Zinc finger domain con 58.6 9.5 0.00021 20.4 1.8 30 23-56 64-93 (105)
167 PF02318 FYVE_2: FYVE-type zin 56.6 7.8 0.00017 20.8 1.3 46 4-51 54-102 (118)
168 COG2835 Uncharacterized conser 56.4 6 0.00013 19.3 0.8 14 44-57 9-22 (60)
169 PF15616 TerY-C: TerY-C metal 56.2 13 0.00027 20.9 2.1 42 5-57 78-119 (131)
170 PF04216 FdhE: Protein involve 55.7 0.44 9.4E-06 29.4 -4.1 25 25-52 196-220 (290)
171 PF10146 zf-C4H2: Zinc finger- 54.8 13 0.00028 22.6 2.2 25 29-56 197-221 (230)
172 PF13913 zf-C2HC_2: zinc-finge 54.7 4.8 0.00011 15.9 0.2 12 44-55 3-14 (25)
173 PF08274 PhnA_Zn_Ribbon: PhnA 54.5 5.5 0.00012 16.7 0.4 12 45-56 4-15 (30)
174 PF15353 HECA: Headcase protei 54.3 10 0.00022 20.6 1.5 16 23-38 39-54 (107)
175 PF13719 zinc_ribbon_5: zinc-r 53.6 3.9 8.4E-05 17.7 -0.2 13 45-57 4-16 (37)
176 PF01485 IBR: IBR domain; Int 53.6 0.74 1.6E-05 21.5 -2.8 18 19-36 41-58 (64)
177 PRK01343 zinc-binding protein; 53.5 8 0.00017 18.7 0.9 11 44-54 10-20 (57)
178 PF14311 DUF4379: Domain of un 53.4 8.8 0.00019 17.8 1.1 23 23-49 33-55 (55)
179 PF01396 zf-C4_Topoisom: Topoi 52.7 6.9 0.00015 17.1 0.6 13 45-57 3-15 (39)
180 PF13717 zinc_ribbon_4: zinc-r 52.5 4.7 0.0001 17.4 0.0 13 45-57 4-16 (36)
181 COG4647 AcxC Acetone carboxyla 52.0 9 0.0002 21.7 1.1 12 19-30 70-81 (165)
182 KOG4451 Uncharacterized conser 51.7 14 0.0003 22.9 1.9 25 29-56 252-276 (286)
183 COG4469 CoiA Competence protei 50.0 12 0.00025 24.2 1.5 26 33-58 15-40 (342)
184 COG1545 Predicted nucleic-acid 49.7 11 0.00024 21.0 1.2 22 21-53 32-53 (140)
185 KOG4218 Nuclear hormone recept 49.6 19 0.00042 23.7 2.4 21 4-24 15-35 (475)
186 PF11290 DUF3090: Protein of u 49.5 13 0.00028 21.8 1.5 15 42-56 153-167 (171)
187 PF10083 DUF2321: Uncharacteri 48.0 15 0.00033 21.2 1.6 24 25-54 27-50 (158)
188 PF02148 zf-UBP: Zn-finger in 47.7 11 0.00025 17.9 1.0 24 7-31 1-24 (63)
189 PRK00241 nudC NADH pyrophospha 46.9 19 0.0004 22.0 2.0 20 33-55 92-111 (256)
190 KOG0289 mRNA splicing factor [ 46.7 29 0.00063 23.5 2.9 46 7-56 3-48 (506)
191 smart00064 FYVE Protein presen 46.7 21 0.00045 16.9 1.8 35 5-39 11-47 (68)
192 PF13240 zinc_ribbon_2: zinc-r 46.2 15 0.00033 14.2 1.1 9 44-52 14-22 (23)
193 PRK03564 formate dehydrogenase 45.7 4.9 0.00011 25.5 -0.6 45 4-51 187-234 (309)
194 KOG0956 PHD finger protein AF1 45.5 14 0.00031 26.4 1.4 51 3-53 116-181 (900)
195 PF10013 DUF2256: Uncharacteri 45.5 14 0.0003 16.8 1.0 11 44-54 9-19 (42)
196 PF13248 zf-ribbon_3: zinc-rib 45.4 19 0.00041 14.1 1.3 7 45-51 18-24 (26)
197 KOG2041 WD40 repeat protein [G 45.2 13 0.00027 27.0 1.2 48 2-56 1129-1187(1189)
198 PRK00420 hypothetical protein; 44.9 25 0.00054 19.1 2.1 15 43-57 40-54 (112)
199 TIGR01206 lysW lysine biosynth 44.9 13 0.00029 17.6 0.9 14 44-57 3-16 (54)
200 PRK00398 rpoP DNA-directed RNA 44.8 10 0.00022 16.9 0.5 14 44-57 22-35 (46)
201 PF03107 C1_2: C1 domain; Int 44.8 15 0.00033 14.9 1.0 27 6-32 2-29 (30)
202 KOG2231 Predicted E3 ubiquitin 44.7 26 0.00056 24.7 2.6 48 6-55 2-53 (669)
203 cd00350 rubredoxin_like Rubred 44.5 12 0.00025 15.7 0.6 9 44-52 18-26 (33)
204 PF09237 GAGA: GAGA factor; I 44.4 6.7 0.00015 18.7 -0.1 12 44-55 25-36 (54)
205 KOG1701 Focal adhesion adaptor 44.1 20 0.00044 24.0 1.9 47 7-58 363-409 (468)
206 PF07227 DUF1423: Protein of u 43.9 20 0.00044 24.0 1.9 32 6-37 130-165 (446)
207 PF13894 zf-C2H2_4: C2H2-type 43.8 10 0.00022 13.6 0.4 10 45-54 2-11 (24)
208 PF09943 DUF2175: Uncharacteri 43.6 24 0.00053 18.9 1.9 35 5-39 3-37 (101)
209 PF09986 DUF2225: Uncharacteri 43.3 8.8 0.00019 22.8 0.2 13 44-56 6-18 (214)
210 PF13453 zf-TFIIB: Transcripti 43.2 12 0.00026 16.3 0.6 10 45-54 1-10 (41)
211 PF06937 EURL: EURL protein; 43.1 32 0.00069 21.7 2.6 19 27-47 56-74 (285)
212 TIGR02098 MJ0042_CXXC MJ0042 f 42.5 8.1 0.00018 16.4 -0.0 13 44-56 3-15 (38)
213 PF09538 FYDLN_acid: Protein o 42.4 9.4 0.0002 20.6 0.2 27 5-31 10-39 (108)
214 cd00729 rubredoxin_SM Rubredox 42.3 14 0.00031 15.6 0.7 9 44-52 19-27 (34)
215 TIGR03847 conserved hypothetic 42.2 19 0.00042 21.2 1.5 15 42-56 155-169 (177)
216 TIGR01562 FdhE formate dehydro 42.2 4.7 0.0001 25.5 -1.1 24 26-52 210-233 (305)
217 KOG0825 PHD Zn-finger protein 41.8 22 0.00048 25.9 1.9 47 5-51 97-151 (1134)
218 KOG1356 Putative transcription 41.7 6.8 0.00015 28.2 -0.5 48 5-52 230-280 (889)
219 PF06170 DUF983: Protein of un 40.3 10 0.00022 19.6 0.1 14 44-57 9-22 (86)
220 COG0675 Transposase and inacti 40.2 21 0.00045 21.6 1.5 27 5-32 310-336 (364)
221 PF05605 zf-Di19: Drought indu 40.2 11 0.00023 17.4 0.2 10 44-53 3-12 (54)
222 PF00096 zf-C2H2: Zinc finger, 37.9 9.8 0.00021 14.0 -0.1 11 45-55 2-12 (23)
223 PF12088 DUF3565: Protein of u 37.1 21 0.00047 17.4 1.0 14 18-31 11-24 (61)
224 KOG4443 Putative transcription 37.1 24 0.00053 24.9 1.5 46 6-51 20-70 (694)
225 smart00154 ZnF_AN1 AN1-like Zi 36.6 34 0.00073 14.9 1.5 13 18-30 12-24 (39)
226 PF04134 DUF393: Protein of un 36.5 12 0.00026 19.4 0.0 9 3-11 3-11 (114)
227 PRK11595 DNA utilization prote 36.4 44 0.00096 19.8 2.5 40 4-53 5-44 (227)
228 TIGR02367 PylS pyrrolysyl-tRNA 35.9 26 0.00057 23.5 1.5 32 21-52 38-74 (453)
229 PF06750 DiS_P_DiS: Bacterial 35.8 42 0.00091 17.4 2.0 20 33-55 51-70 (92)
230 COG4338 Uncharacterized protei 35.8 12 0.00025 17.6 -0.1 12 44-55 13-24 (54)
231 KOG3799 Rab3 effector RIM1 and 35.3 26 0.00055 20.1 1.2 10 3-12 64-73 (169)
232 cd00730 rubredoxin Rubredoxin; 34.8 21 0.00045 16.6 0.7 9 44-52 35-43 (50)
233 PRK05978 hypothetical protein; 34.7 22 0.00048 20.3 0.9 20 35-57 47-66 (148)
234 KOG4021 Mitochondrial ribosoma 33.9 20 0.00043 21.7 0.7 22 30-53 97-118 (239)
235 COG4068 Uncharacterized protei 33.5 30 0.00066 16.9 1.2 14 43-56 8-21 (64)
236 COG1645 Uncharacterized Zn-fin 32.2 21 0.00046 20.0 0.6 15 44-58 29-43 (131)
237 COG3357 Predicted transcriptio 31.3 21 0.00046 18.9 0.5 27 22-55 62-88 (97)
238 smart00109 C1 Protein kinase C 30.7 43 0.00092 14.3 1.4 31 5-35 12-44 (49)
239 COG4306 Uncharacterized protei 30.6 30 0.00066 19.5 1.0 22 27-54 29-50 (160)
240 PF04606 Ogr_Delta: Ogr/Delta- 30.2 23 0.00051 15.9 0.5 7 22-28 31-37 (47)
241 PF12907 zf-met2: Zinc-binding 30.1 12 0.00026 16.7 -0.5 10 44-53 2-11 (40)
242 PF00301 Rubredoxin: Rubredoxi 29.8 26 0.00056 16.1 0.6 9 44-52 35-43 (47)
243 PF12292 DUF3624: Protein of u 29.6 20 0.00043 18.4 0.2 21 29-51 3-23 (77)
244 TIGR01367 pyrE_Therm orotate p 29.5 28 0.0006 20.2 0.8 15 44-58 170-184 (187)
245 PRK00564 hypA hydrogenase nick 29.4 13 0.00029 20.1 -0.5 25 28-52 73-97 (117)
246 TIGR02652 conserved hypothetic 29.4 20 0.00044 20.6 0.2 11 44-54 10-20 (163)
247 PF09889 DUF2116: Uncharacteri 29.4 62 0.0013 15.6 1.9 28 5-40 4-32 (59)
248 COG3364 Zn-ribbon containing p 29.4 30 0.00065 18.8 0.9 23 22-51 6-28 (112)
249 KOG3005 GIY-YIG type nuclease 29.2 52 0.0011 20.8 1.9 49 5-53 183-242 (276)
250 smart00290 ZnF_UBP Ubiquitin C 29.0 58 0.0012 14.3 1.7 23 7-31 2-24 (50)
251 PF11023 DUF2614: Protein of u 28.9 31 0.00066 18.9 0.8 14 44-57 86-99 (114)
252 PF09654 DUF2396: Protein of u 28.8 21 0.00046 20.4 0.2 11 44-54 7-17 (161)
253 COG2816 NPY1 NTP pyrophosphohy 28.7 62 0.0013 20.4 2.2 27 26-52 111-138 (279)
254 PF02132 RecR: RecR protein; 28.4 10 0.00022 16.7 -0.9 7 5-11 30-36 (41)
255 PF13465 zf-H2C2_2: Zinc-finge 28.3 20 0.00044 13.9 0.1 11 44-54 15-25 (26)
256 PF03966 Trm112p: Trm112p-like 27.9 19 0.00041 17.4 -0.1 15 44-58 54-68 (68)
257 PRK11088 rrmA 23S rRNA methylt 27.7 56 0.0012 19.7 1.9 25 5-29 3-28 (272)
258 KOG0230 Phosphatidylinositol-4 27.6 26 0.00057 27.0 0.6 17 22-38 879-895 (1598)
259 KOG4577 Transcription factor L 27.5 13 0.00027 23.9 -0.9 29 5-33 93-121 (383)
260 COG4847 Uncharacterized protei 27.4 80 0.0017 16.9 2.2 35 5-40 7-42 (103)
261 PF13878 zf-C2H2_3: zinc-finge 27.3 30 0.00064 15.2 0.5 13 44-56 14-26 (41)
262 KOG1244 Predicted transcriptio 27.1 7.3 0.00016 24.7 -2.0 49 6-54 283-333 (336)
263 KOG3726 Uncharacterized conser 27.0 46 0.001 23.7 1.6 41 5-51 655-697 (717)
264 PRK09537 pylS pyrolysyl-tRNA s 26.5 45 0.00098 22.1 1.4 32 21-52 39-75 (417)
265 PF13811 DUF4186: Domain of un 26.3 41 0.0009 18.4 1.1 14 27-40 75-88 (111)
266 PF00130 C1_1: Phorbol esters/ 26.0 27 0.00059 15.6 0.3 31 5-35 12-45 (53)
267 PF15446 zf-PHD-like: PHD/FYVE 25.6 46 0.00099 19.6 1.2 30 6-35 1-34 (175)
268 KOG4323 Polycomb-like PHD Zn-f 25.4 46 0.001 22.5 1.3 50 4-53 168-225 (464)
269 PF14369 zf-RING_3: zinc-finge 24.7 38 0.00083 14.4 0.6 10 45-54 23-32 (35)
270 smart00355 ZnF_C2H2 zinc finge 24.6 40 0.00088 11.9 0.7 10 45-54 2-11 (26)
271 PF08882 Acetone_carb_G: Aceto 24.1 47 0.001 18.2 1.0 12 19-30 24-35 (112)
272 TIGR00373 conserved hypothetic 24.1 73 0.0016 18.1 1.9 14 44-57 129-142 (158)
273 PF13966 zf-RVT: zinc-binding 24.0 95 0.0021 15.3 2.1 10 3-12 58-67 (86)
274 PF07282 OrfB_Zn_ribbon: Putat 23.8 73 0.0016 15.0 1.6 28 5-32 29-60 (69)
275 COG1675 TFA1 Transcription ini 23.1 79 0.0017 18.6 1.9 14 44-57 133-146 (176)
276 smart00746 TRASH metallochaper 23.1 45 0.00097 12.5 0.7 9 46-54 1-9 (39)
277 cd04718 BAH_plant_2 BAH, or Br 23.0 16 0.00035 20.9 -0.9 25 28-52 2-27 (148)
278 COG3809 Uncharacterized protei 23.0 35 0.00076 17.7 0.4 11 44-54 22-32 (88)
279 KOG0006 E3 ubiquitin-protein l 23.0 1E+02 0.0022 20.3 2.4 34 4-39 221-256 (446)
280 PF01363 FYVE: FYVE zinc finge 22.5 18 0.00039 17.2 -0.7 12 44-55 10-21 (69)
281 PF06054 CoiA: Competence prot 22.4 37 0.0008 21.9 0.5 16 43-58 30-45 (375)
282 KOG3816 Cell differentiation r 22.3 42 0.00091 22.5 0.7 16 23-38 105-120 (526)
283 COG0267 RpmG Ribosomal protein 22.3 40 0.00087 15.8 0.5 15 44-58 35-49 (50)
284 PRK00595 rpmG 50S ribosomal pr 22.0 43 0.00092 15.7 0.5 15 44-58 38-52 (53)
285 COG5595 Zn-ribbon-containing, 21.8 49 0.0011 20.2 0.9 14 44-57 219-232 (256)
286 PF02961 BAF: Barrier to autoi 21.8 73 0.0016 16.7 1.4 11 28-38 77-87 (89)
287 TIGR02300 FYDLN_acid conserved 21.4 28 0.00061 19.5 -0.2 27 5-31 10-39 (129)
288 PF10071 DUF2310: Zn-ribbon-co 21.4 65 0.0014 20.1 1.4 14 44-57 221-234 (258)
289 cd00029 C1 Protein kinase C co 21.2 90 0.0019 13.3 1.6 31 5-35 12-45 (50)
290 PF14803 Nudix_N_2: Nudix N-te 21.1 37 0.0008 14.5 0.2 11 45-55 2-12 (34)
291 PF09297 zf-NADH-PPase: NADH p 20.6 65 0.0014 13.0 0.9 7 45-51 23-29 (32)
292 PRK00076 recR recombination pr 20.5 1.1E+02 0.0024 18.3 2.2 14 3-16 64-77 (196)
No 1
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.84 E-value=2.5e-21 Score=99.97 Aligned_cols=57 Identities=67% Similarity=1.749 Sum_probs=50.4
Q ss_pred CCCCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 1 MAFDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 1 ~~~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
++||+.||.|..++++.+++...|+|.||..||.+|+.+++++..||+||++|.+++
T Consensus 29 ~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k~ 85 (85)
T PF12861_consen 29 MPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFKE 85 (85)
T ss_pred cccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeCC
Confidence 467888888888888999999999999999999999998655689999999998864
No 2
>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=99.73 E-value=2.2e-18 Score=79.57 Aligned_cols=43 Identities=35% Similarity=0.842 Sum_probs=34.8
Q ss_pred CcccccCcCC-CCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccc
Q 035392 5 GCCPDCKLPG-DDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCR 50 (59)
Q Consensus 5 ~~C~IC~~~~-~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr 50 (59)
+.|+||++.. .+..++.++|+|.||.+||.+|++.+ .+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~---~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN---NSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS---SB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC---CcCCccC
Confidence 4799999754 34566667899999999999999997 7999997
No 3
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.73 E-value=5.1e-19 Score=89.57 Aligned_cols=57 Identities=75% Similarity=1.742 Sum_probs=52.3
Q ss_pred CCCCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 1 MAFDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 1 ~~~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
|+||+.||-|..+.++.|+++..|.|.||..||.+|+.....+..||+||+.|.+++
T Consensus 28 m~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~~e 84 (84)
T KOG1493|consen 28 MPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQFKE 84 (84)
T ss_pred cccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEecC
Confidence 689999999999999999999999999999999999998776789999999998763
No 4
>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=99.68 E-value=3.6e-17 Score=82.75 Aligned_cols=44 Identities=48% Similarity=1.417 Sum_probs=35.4
Q ss_pred CCcccccCcCC-----------CCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccc
Q 035392 4 DGCCPDCKLPG-----------DDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCR 50 (59)
Q Consensus 4 ~~~C~IC~~~~-----------~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr 50 (59)
++.|+||+++. ++.++.++.|||.||..||.+|++.+ .+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~---~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQN---NTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTS---SB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcC---CcCCCCC
Confidence 56799998643 24567778999999999999999987 6999997
No 5
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=99.62 E-value=5e-16 Score=79.28 Aligned_cols=54 Identities=46% Similarity=1.373 Sum_probs=46.0
Q ss_pred CCCCcccccCc---CCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccCC
Q 035392 2 AFDGCCPDCKL---PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKGS 58 (59)
Q Consensus 2 ~~~~~C~IC~~---~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~~ 58 (59)
+++++|+-|.. +.++.+++...|+|.||..||.+||.++ ..||++|++|.+.++
T Consensus 29 him~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk---~~CPld~q~w~~~~~ 85 (88)
T COG5194 29 HIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTK---GVCPLDRQTWVLADG 85 (88)
T ss_pred cccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhC---CCCCCCCceeEEecc
Confidence 35667777754 5678899999999999999999999997 899999999998765
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.59 E-value=1.5e-15 Score=90.74 Aligned_cols=49 Identities=33% Similarity=0.672 Sum_probs=39.1
Q ss_pred CCcccccCcCCCCCC------eEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 4 DGCCPDCKLPGDDCP------LIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~------~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
+..|+||++...+.+ .++++|+|.||.+||.+|++.+ .+||+||.++..
T Consensus 174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~---~tCPlCR~~~~~ 228 (238)
T PHA02929 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK---NTCPVCRTPFIS 228 (238)
T ss_pred CCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC---CCCCCCCCEeeE
Confidence 578999997543322 3456899999999999999876 799999998764
No 7
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=1.4e-14 Score=90.13 Aligned_cols=48 Identities=29% Similarity=0.753 Sum_probs=39.7
Q ss_pred cccccCcC-CCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 6 CCPDCKLP-GDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 6 ~C~IC~~~-~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
+|+||++. ..+..+..++|+|.||..||+.|+... +..||+|++.+..
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~--r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT--RTFCPVCKRDIRT 279 (348)
T ss_pred eEEEeecccccCCeeeEecCCCchhhccchhhHhhc--CccCCCCCCcCCC
Confidence 89999964 345566678999999999999999987 3579999987654
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=99.47 E-value=3.4e-14 Score=64.04 Aligned_cols=39 Identities=36% Similarity=0.930 Sum_probs=31.6
Q ss_pred ccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccc
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMC 49 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~C 49 (59)
|+||++...+ +++.++|||+||.+|+.+|++.+ ..||+|
T Consensus 1 C~iC~~~~~~-~~~~~~CGH~fC~~C~~~~~~~~---~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD-PVVVTPCGHSFCKECIEKYLEKN---PKCPVC 39 (39)
T ss_dssp ETTTTSB-SS-EEEECTTSEEEEHHHHHHHHHCT---SB-TTT
T ss_pred CCCCCCcccC-cCEECCCCCchhHHHHHHHHHCc---CCCcCC
Confidence 7999765554 65668999999999999999985 789987
No 9
>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=99.45 E-value=1.5e-13 Score=62.15 Aligned_cols=45 Identities=36% Similarity=0.800 Sum_probs=35.5
Q ss_pred cccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccc
Q 035392 6 CCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREW 53 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~ 53 (59)
.|+||++.. ..++..++|+|.||..|+.+|++.. ...||+|+..+
T Consensus 1 ~C~iC~~~~-~~~~~~~~C~H~~c~~C~~~~~~~~--~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEF-REPVVLLPCGHVFCRSCIDKWLKSG--KNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhh-hCceEecCCCChhcHHHHHHHHHhC--cCCCCCCCCcC
Confidence 589998655 3355556799999999999999873 26899999764
No 10
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.44 E-value=9.1e-14 Score=87.41 Aligned_cols=52 Identities=35% Similarity=0.729 Sum_probs=40.8
Q ss_pred CCCcccccCcC-CC----------CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 3 FDGCCPDCKLP-GD----------DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 3 ~~~~C~IC~~~-~~----------~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
-|..|.||+++ .. +.....++|||.||.+|+..|++++ .+||+||.++.+..
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERq---QTCPICr~p~ifd~ 348 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQ---QTCPICRRPVIFDQ 348 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhc---cCCCcccCcccccc
Confidence 46789999854 11 1123457999999999999999998 79999999976654
No 11
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=9.1e-14 Score=82.41 Aligned_cols=50 Identities=26% Similarity=0.733 Sum_probs=41.1
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
-+|.||++..++ +++ +.|||.||+-||.+|+........||+|+..+..+
T Consensus 48 FdCNICLd~akd-PVv-TlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 48 FDCNICLDLAKD-PVV-TLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred eeeeeeccccCC-CEE-eecccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 369999876554 554 58999999999999999977667899999987654
No 12
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.42 E-value=9.4e-14 Score=63.71 Aligned_cols=41 Identities=29% Similarity=0.668 Sum_probs=29.4
Q ss_pred ccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCC-CCCccc
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQ-AHCPMC 49 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~-~~CP~C 49 (59)
||||++.+.+ |+. ++|||+|+++||.+|++...+. ..||.|
T Consensus 1 CpiC~~~~~~-Pv~-l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD-PVS-LPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS-EEE--SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC-ccc-cCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999876665 444 6999999999999999876543 579987
No 13
>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=99.42 E-value=1.2e-13 Score=65.14 Aligned_cols=46 Identities=28% Similarity=0.698 Sum_probs=36.6
Q ss_pred CCcccccCcCCCCCCeEecCCCCc-ccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHA-FHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~-fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
+..|+||++...+ ++.++|||. |+..|+.+|++.. ..||+||+++.
T Consensus 2 ~~~C~iC~~~~~~--~~~~pCgH~~~C~~C~~~~~~~~---~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRD--VVLLPCGHLCFCEECAERLLKRK---KKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSS--EEEETTCEEEEEHHHHHHHHHTT---SBBTTTTBB-S
T ss_pred cCCCccCCccCCc--eEEeCCCChHHHHHHhHHhcccC---CCCCcCChhhc
Confidence 5689999865443 455799999 9999999999965 79999999875
No 14
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.42 E-value=2e-13 Score=79.46 Aligned_cols=51 Identities=29% Similarity=0.670 Sum_probs=38.9
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCC-------------CCCCCcccccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQT-------------PQAHCPMCRREWQFK 56 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~-------------~~~~CP~Cr~~~~~~ 56 (59)
+..|+||++...+ +++ ++|||+||+.||.+|+.... ....||+||+++...
T Consensus 18 ~~~CpICld~~~d-PVv-T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~ 81 (193)
T PLN03208 18 DFDCNICLDQVRD-PVV-TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEA 81 (193)
T ss_pred ccCCccCCCcCCC-cEE-cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChh
Confidence 4689999876554 444 69999999999999986421 135799999988654
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.42 E-value=9.8e-14 Score=79.79 Aligned_cols=49 Identities=27% Similarity=0.561 Sum_probs=41.3
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
..|||||+.+.+...+.+.|||+||..||...++.. ..||+|++.+..+
T Consensus 132 ~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~---~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 132 YKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNT---NKCPTCRKKITHK 180 (187)
T ss_pred cCCCceecchhhccccccccchhHHHHHHHHHHHhC---CCCCCcccccchh
Confidence 469999987766655668999999999999999987 7999999876654
No 16
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.40 E-value=2e-13 Score=83.09 Aligned_cols=48 Identities=31% Similarity=0.751 Sum_probs=39.8
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
..|.+|+++.... .. ++|||.||+.||..|...+ ..||+||..+..++
T Consensus 240 ~kC~LCLe~~~~p-Sa-TpCGHiFCWsCI~~w~~ek---~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 240 RKCSLCLENRSNP-SA-TPCGHIFCWSCILEWCSEK---AECPLCREKFQPSK 287 (293)
T ss_pred CceEEEecCCCCC-Cc-CcCcchHHHHHHHHHHccc---cCCCcccccCCCcc
Confidence 5699998765543 33 6999999999999999987 67999999887654
No 17
>PHA02926 zinc finger-like protein; Provisional
Probab=99.39 E-value=4.4e-13 Score=79.49 Aligned_cols=54 Identities=24% Similarity=0.569 Sum_probs=39.8
Q ss_pred CCCCcccccCcCCCC-------CCeEecCCCCcccHHHHHHHHHhCC---CCCCCccccccccc
Q 035392 2 AFDGCCPDCKLPGDD-------CPLIWGACNHAFHLHCILKWVNSQT---PQAHCPMCRREWQF 55 (59)
Q Consensus 2 ~~~~~C~IC~~~~~~-------~~~~~~~C~H~fh~~Ci~~w~~~~~---~~~~CP~Cr~~~~~ 55 (59)
+-|..|+||++...+ ..-++.+|+|.||..||.+|.+... ....||+||..+.+
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRN 231 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeee
Confidence 347899999864211 1234579999999999999998642 13579999998765
No 18
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=4.7e-13 Score=71.25 Aligned_cols=41 Identities=44% Similarity=1.305 Sum_probs=36.3
Q ss_pred CCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccCC
Q 035392 15 DDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKGS 58 (59)
Q Consensus 15 ~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~~ 58 (59)
++..++...|+|.||..||.+|+++. ..||++.++|.+++.
T Consensus 72 ~EC~VaWG~CNHaFH~hCisrWlktr---~vCPLdn~eW~~qr~ 112 (114)
T KOG2930|consen 72 EECTVAWGVCNHAFHFHCISRWLKTR---NVCPLDNKEWVFQRY 112 (114)
T ss_pred CceEEEeeecchHHHHHHHHHHHhhc---CcCCCcCcceeEeec
Confidence 35577888999999999999999997 899999999998753
No 19
>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=99.34 E-value=1.4e-12 Score=59.01 Aligned_cols=41 Identities=39% Similarity=1.049 Sum_probs=32.5
Q ss_pred ccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccc
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMC 49 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~C 49 (59)
|+||++...+ +..+++|||.||..||.+|++.. ....||+|
T Consensus 1 C~iC~~~~~~-~~~~~~C~H~fC~~C~~~~~~~~-~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFED-PVILLPCGHSFCRDCLRKWLENS-GSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSS-EEEETTTSEEEEHHHHHHHHHHT-SSSBTTTT
T ss_pred CCcCCccccC-CCEEecCCCcchHHHHHHHHHhc-CCccCCcC
Confidence 7899876554 34468999999999999999952 23689987
No 20
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.28 E-value=2.8e-12 Score=79.05 Aligned_cols=49 Identities=29% Similarity=0.602 Sum_probs=39.2
Q ss_pred CcccccCcC-CCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLP-GDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~-~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|+||+.. .+...+..++|.|.||..|+++|+...+ ..||+||.++..
T Consensus 324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~--~~CPvCrt~iPP 373 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYS--NKCPVCRTAIPP 373 (374)
T ss_pred ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhc--ccCCccCCCCCC
Confidence 479999953 3334466789999999999999998653 689999998754
No 21
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.26 E-value=6.6e-12 Score=57.87 Aligned_cols=43 Identities=26% Similarity=0.611 Sum_probs=34.0
Q ss_pred cccccCcCC-CCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 6 CCPDCKLPG-DDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 6 ~C~IC~~~~-~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
.|+||.+.. ++.+..+++|||+||..|+.++... ...||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~---~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGK---SVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCC---CCCCcCCCC
Confidence 489998655 3445667899999999999999822 268999985
No 22
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.22 E-value=2.2e-11 Score=59.26 Aligned_cols=48 Identities=21% Similarity=0.344 Sum_probs=39.3
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
+..||||.+...+ +++ ++|||+|+++||.+|++.+ ..||+|+.++..+
T Consensus 1 ~~~Cpi~~~~~~~-Pv~-~~~G~v~~~~~i~~~~~~~---~~cP~~~~~~~~~ 48 (63)
T smart00504 1 EFLCPISLEVMKD-PVI-LPSGQTYERRAIEKWLLSH---GTDPVTGQPLTHE 48 (63)
T ss_pred CcCCcCCCCcCCC-CEE-CCCCCEEeHHHHHHHHHHC---CCCCCCcCCCChh
Confidence 3579999876555 544 6999999999999999885 7899999988654
No 23
>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=99.21 E-value=2.1e-11 Score=53.32 Aligned_cols=39 Identities=36% Similarity=0.858 Sum_probs=30.0
Q ss_pred ccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccc
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMC 49 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~C 49 (59)
|+||++... ....++|+|.||..|+..|++.. ...||+|
T Consensus 1 C~iC~~~~~--~~~~~~C~H~~c~~C~~~~~~~~--~~~CP~C 39 (39)
T smart00184 1 CPICLEELK--DPVVLPCGHTFCRSCIRKWLKSG--NNTCPIC 39 (39)
T ss_pred CCcCccCCC--CcEEecCCChHHHHHHHHHHHhC--cCCCCCC
Confidence 789976532 34446999999999999999833 2679987
No 24
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=6.9e-12 Score=81.69 Aligned_cols=48 Identities=29% Similarity=0.574 Sum_probs=38.4
Q ss_pred CCCcccccCcCCCCC---CeEecCCCCcccHHHHHHHHHhCCCCCCCccccccc
Q 035392 3 FDGCCPDCKLPGDDC---PLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREW 53 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~---~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~ 53 (59)
.++.|+||++..... ...+++|+|.||..|+.+|+++. ++||.||..+
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~---qtCP~CR~~~ 340 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQ---QTCPTCRTVL 340 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHh---CcCCcchhhh
Confidence 478999998654331 23447999999999999999997 7999999843
No 25
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.05 E-value=1.7e-10 Score=73.21 Aligned_cols=47 Identities=36% Similarity=0.641 Sum_probs=38.4
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
+..|+||++.+.. ++ +++|||.||..||..|+... ..||+|+.++..
T Consensus 26 ~l~C~IC~d~~~~-Pv-itpCgH~FCs~CI~~~l~~~---~~CP~Cr~~~~~ 72 (397)
T TIGR00599 26 SLRCHICKDFFDV-PV-LTSCSHTFCSLCIRRCLSNQ---PKCPLCRAEDQE 72 (397)
T ss_pred ccCCCcCchhhhC-cc-CCCCCCchhHHHHHHHHhCC---CCCCCCCCcccc
Confidence 4689999876554 33 36999999999999999875 689999998764
No 26
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.03 E-value=3.6e-10 Score=52.01 Aligned_cols=41 Identities=29% Similarity=0.682 Sum_probs=22.5
Q ss_pred ccccCcCC-CCCCeEecCCCCcccHHHHHHHHHhCC-CCCCCc
Q 035392 7 CPDCKLPG-DDCPLIWGACNHAFHLHCILKWVNSQT-PQAHCP 47 (59)
Q Consensus 7 C~IC~~~~-~~~~~~~~~C~H~fh~~Ci~~w~~~~~-~~~~CP 47 (59)
||||++.. ++.+..+++|||+|+++||+++++.+. ....||
T Consensus 1 CpIc~e~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKEFSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCccccccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 89998732 234445578999999999999999752 234676
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=4.2e-10 Score=72.80 Aligned_cols=52 Identities=35% Similarity=0.731 Sum_probs=39.8
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCC--CCCCCccccccccccC
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQT--PQAHCPMCRREWQFKG 57 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~--~~~~CP~Cr~~~~~~~ 57 (59)
+..||||+++..- + +++.|||+||..||-++|.... +...||+||..+..++
T Consensus 186 ~~~CPICL~~~~~-p-~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSV-P-VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCc-c-cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 6789999875443 2 3357999999999999987752 2357999999887654
No 28
>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=98.92 E-value=2.6e-09 Score=50.33 Aligned_cols=44 Identities=25% Similarity=0.762 Sum_probs=32.3
Q ss_pred cccccCcCCCCCCeEecCCC-----CcccHHHHHHHHHhCCCCCCCcccc
Q 035392 6 CCPDCKLPGDDCPLIWGACN-----HAFHLHCILKWVNSQTPQAHCPMCR 50 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~-----H~fh~~Ci~~w~~~~~~~~~CP~Cr 50 (59)
.|-||++..++......+|. |.+|..|+.+|+..+. ..+||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~-~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESG-NKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcC-CCcCCCCC
Confidence 48899863333333456885 8999999999998863 35899984
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=9.6e-10 Score=66.55 Aligned_cols=50 Identities=32% Similarity=0.664 Sum_probs=38.2
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHH-HHHhCCCCCCCccccccccccC
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILK-WVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~-w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
|-.|+||+++... + +.++|||+||..||.. |-..+. ..||+||+....++
T Consensus 215 d~kC~lC~e~~~~-p-s~t~CgHlFC~~Cl~~~~t~~k~--~~CplCRak~~pk~ 265 (271)
T COG5574 215 DYKCFLCLEEPEV-P-SCTPCGHLFCLSCLLISWTKKKY--EFCPLCRAKVYPKK 265 (271)
T ss_pred ccceeeeecccCC-c-ccccccchhhHHHHHHHHHhhcc--ccCchhhhhccchh
Confidence 4569999875544 3 3369999999999999 766652 46999999876654
No 30
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.86 E-value=3.4e-09 Score=65.53 Aligned_cols=52 Identities=23% Similarity=0.549 Sum_probs=36.7
Q ss_pred CCcccccCcC--CCCCC-eEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 4 DGCCPDCKLP--GDDCP-LIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 4 ~~~C~IC~~~--~~~~~-~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
+..||+|+.. ..... ..+..|||.||..|+...+.... ..||.|+.++...+
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~--~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGS--GSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCC--CCCCCCCCccchhh
Confidence 4579999853 22221 12237999999999999776543 68999998876543
No 31
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=1.5e-09 Score=68.82 Aligned_cols=50 Identities=30% Similarity=0.744 Sum_probs=37.7
Q ss_pred CCCCCcccccCc--CCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccc
Q 035392 1 MAFDGCCPDCKL--PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCR 50 (59)
Q Consensus 1 ~~~~~~C~IC~~--~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr 50 (59)
||....|.||.+ +.+...-.+..|||+||..|+.+|++....+..||+|+
T Consensus 1 mpi~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 1 MPIMAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred CCccceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 678889999953 22222222346999999999999999875556899998
No 32
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=6.1e-10 Score=67.93 Aligned_cols=52 Identities=31% Similarity=0.675 Sum_probs=38.7
Q ss_pred CCcccccCcCCC----C----CCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 4 DGCCPDCKLPGD----D----CPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 4 ~~~C~IC~~~~~----~----~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
|..|+||-...+ + ..+..++|+|+||..||..|-...+ .++||.|++.++.+
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK-kqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK-KQTCPYCKEKVDLK 283 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC-CCCCchHHHHhhHh
Confidence 567999963211 1 1344679999999999999987654 36999999987754
No 33
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.79 E-value=1.2e-09 Score=54.86 Aligned_cols=53 Identities=25% Similarity=0.561 Sum_probs=25.4
Q ss_pred CCcccccCcCCC---CCCeE-e--cCCCCcccHHHHHHHHHhCCC--------CCCCcccccccccc
Q 035392 4 DGCCPDCKLPGD---DCPLI-W--GACNHAFHLHCILKWVNSQTP--------QAHCPMCRREWQFK 56 (59)
Q Consensus 4 ~~~C~IC~~~~~---~~~~~-~--~~C~H~fh~~Ci~~w~~~~~~--------~~~CP~Cr~~~~~~ 56 (59)
+..|+||..... +.+.+ - ..|+..||..||.+|+..... ...||.|++++..+
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 568999974322 22222 2 379999999999999985321 13599999988765
No 34
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.74 E-value=4.1e-09 Score=61.79 Aligned_cols=42 Identities=26% Similarity=0.590 Sum_probs=35.0
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCR 50 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr 50 (59)
+..|+||++.+... .+++|+|+||..|+..++. . ...||.||
T Consensus 13 ~~~C~iC~~~~~~p--~~l~C~H~~c~~C~~~~~~-~--~~~Cp~cr 54 (386)
T KOG2177|consen 13 ELTCPICLEYFREP--VLLPCGHNFCRACLTRSWE-G--PLSCPVCR 54 (386)
T ss_pred cccChhhHHHhhcC--ccccccchHhHHHHHHhcC-C--CcCCcccC
Confidence 56899998766654 4579999999999999998 2 37899999
No 35
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=6.6e-09 Score=67.63 Aligned_cols=48 Identities=35% Similarity=0.926 Sum_probs=36.3
Q ss_pred CcccccCcCCC------CC---------CeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 5 GCCPDCKLPGD------DC---------PLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 5 ~~C~IC~~~~~------~~---------~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
..|+||+.+.+ +. ...+++|.|.||..|+.+|+.+.+ ..||+||.++.
T Consensus 572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~yk--l~CPvCR~pLP 634 (636)
T KOG0828|consen 572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYK--LICPVCRCPLP 634 (636)
T ss_pred ccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhc--ccCCccCCCCC
Confidence 57999985422 11 123469999999999999999652 58999999875
No 36
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.71 E-value=4.9e-09 Score=67.29 Aligned_cols=45 Identities=38% Similarity=0.849 Sum_probs=35.3
Q ss_pred CcccccCcCCC--CCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 5 GCCPDCKLPGD--DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 5 ~~C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.+||||++..+ ...++...|.|+||-.|+.+|... +||+||.-..
T Consensus 176 PTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~-----scpvcR~~q~ 222 (493)
T KOG0804|consen 176 PTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS-----SCPVCRYCQS 222 (493)
T ss_pred CCcchhHhhcCccccceeeeecccccchHHHhhcccC-----cChhhhhhcC
Confidence 47999996444 334566799999999999999764 6999997544
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.69 E-value=7.9e-09 Score=71.31 Aligned_cols=50 Identities=30% Similarity=0.729 Sum_probs=36.8
Q ss_pred CcccccCc-----CCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKL-----PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~-----~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
+.|+||.. +..-.......|.|.||..|+.+|+++. ++++||+||..+.+
T Consensus 1470 eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss-~~s~CPlCRseitf 1524 (1525)
T COG5219 1470 EECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASS-ARSNCPLCRSEITF 1524 (1525)
T ss_pred chhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhc-CCCCCCcccccccc
Confidence 57999952 1111122235899999999999999985 45799999988765
No 38
>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=98.62 E-value=3e-08 Score=49.89 Aligned_cols=53 Identities=19% Similarity=0.327 Sum_probs=37.1
Q ss_pred CCCCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 1 MAFDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 1 ~~~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
+|-+..|||+.+...+ |++ +++||+|.+.+|.+|++.+ ...||+++.++...+
T Consensus 1 iP~~f~CpIt~~lM~d-PVi-~~~G~tyer~~I~~~l~~~--~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 1 IPDEFLCPITGELMRD-PVI-LPSGHTYERSAIERWLEQN--GGTDPFTRQPLSESD 53 (73)
T ss_dssp SSGGGB-TTTSSB-SS-EEE-ETTSEEEEHHHHHHHHCTT--SSB-TTT-SB-SGGG
T ss_pred CCcccCCcCcCcHhhC-cee-CCcCCEEcHHHHHHHHHcC--CCCCCCCCCcCCccc
Confidence 3556789999765554 444 5899999999999999983 279999999877643
No 39
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.61 E-value=7.2e-09 Score=51.18 Aligned_cols=47 Identities=26% Similarity=0.554 Sum_probs=22.9
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
..|++|.+... .|+.+..|.|+||..||.+-+. ..||+|+.+.-.++
T Consensus 8 LrCs~C~~~l~-~pv~l~~CeH~fCs~Ci~~~~~-----~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 8 LRCSICFDILK-EPVCLGGCEHIFCSSCIRDCIG-----SECPVCHTPAWIQD 54 (65)
T ss_dssp TS-SSS-S--S-S-B---SSS--B-TTTGGGGTT-----TB-SSS--B-S-SS
T ss_pred cCCcHHHHHhc-CCceeccCccHHHHHHhHHhcC-----CCCCCcCChHHHHH
Confidence 46999965544 4666689999999999977443 35999998865544
No 40
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.59 E-value=2.3e-08 Score=61.84 Aligned_cols=46 Identities=28% Similarity=0.556 Sum_probs=36.5
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|-||...+. .+. .++|||.||.-||...|.++ ..||+||.+..+
T Consensus 26 lrC~IC~~~i~-ip~-~TtCgHtFCslCIR~hL~~q---p~CP~Cr~~~~e 71 (391)
T COG5432 26 LRCRICDCRIS-IPC-ETTCGHTFCSLCIRRHLGTQ---PFCPVCREDPCE 71 (391)
T ss_pred HHhhhhhheee-cce-ecccccchhHHHHHHHhcCC---CCCccccccHHh
Confidence 46899955443 333 46999999999999999997 899999987543
No 41
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.54 E-value=2.4e-08 Score=62.73 Aligned_cols=47 Identities=28% Similarity=0.515 Sum_probs=37.9
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
..|-||.+++.- +++ ++|+|.||.-||..+|..+ ..||.|+.++...
T Consensus 24 LRC~IC~eyf~i-p~i-tpCsHtfCSlCIR~~L~~~---p~CP~C~~~~~Es 70 (442)
T KOG0287|consen 24 LRCGICFEYFNI-PMI-TPCSHTFCSLCIRKFLSYK---PQCPTCCVTVTES 70 (442)
T ss_pred HHHhHHHHHhcC-cee-ccccchHHHHHHHHHhccC---CCCCceecccchh
Confidence 369999766554 443 5899999999999999987 7999999877643
No 42
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.43 E-value=6.7e-08 Score=64.84 Aligned_cols=49 Identities=20% Similarity=0.539 Sum_probs=38.8
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
..||+|.....+. +++.|+|.||..|+..-+.+.. ..||.|...|..-+
T Consensus 644 LkCs~Cn~R~Kd~--vI~kC~H~FC~~Cvq~r~etRq--RKCP~Cn~aFganD 692 (698)
T KOG0978|consen 644 LKCSVCNTRWKDA--VITKCGHVFCEECVQTRYETRQ--RKCPKCNAAFGAND 692 (698)
T ss_pred eeCCCccCchhhH--HHHhcchHHHHHHHHHHHHHhc--CCCCCCCCCCCccc
Confidence 4799996443443 3369999999999999998874 78999999987644
No 43
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=3.1e-07 Score=56.76 Aligned_cols=48 Identities=25% Similarity=0.502 Sum_probs=37.3
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
+..|+||+.. ...| +.+.|+|.||..||........ ..|++||.++..
T Consensus 7 ~~eC~IC~nt-~n~P-v~l~C~HkFCyiCiKGsy~ndk--~~CavCR~pids 54 (324)
T KOG0824|consen 7 KKECLICYNT-GNCP-VNLYCFHKFCYICIKGSYKNDK--KTCAVCRFPIDS 54 (324)
T ss_pred CCcceeeecc-CCcC-ccccccchhhhhhhcchhhcCC--CCCceecCCCCc
Confidence 5689999643 2234 4579999999999999887763 679999998764
No 44
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=4.1e-07 Score=57.17 Aligned_cols=53 Identities=32% Similarity=0.649 Sum_probs=38.6
Q ss_pred CCcccccCcCCCCCC------eEecCCCCcccHHHHHHHHHhCCC----CCCCcccccccccc
Q 035392 4 DGCCPDCKLPGDDCP------LIWGACNHAFHLHCILKWVNSQTP----QAHCPMCRREWQFK 56 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~------~~~~~C~H~fh~~Ci~~w~~~~~~----~~~CP~Cr~~~~~~ 56 (59)
+..|.||++...+.+ -.+++|.|.||..||..|-...+. ...||.||....+.
T Consensus 161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 678999986433322 123689999999999999855431 36899999876653
No 45
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.31 E-value=5.3e-07 Score=57.69 Aligned_cols=49 Identities=27% Similarity=0.736 Sum_probs=37.8
Q ss_pred CCCcccccCcC---CCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccc
Q 035392 3 FDGCCPDCKLP---GDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRRE 52 (59)
Q Consensus 3 ~~~~C~IC~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~ 52 (59)
...+||||++. ..+.-++.+.|||.|-.+||++|+. +.....||.|...
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~~~~~cp~c~~k 54 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KKTKMQCPLCSGK 54 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hhhhhhCcccCCh
Confidence 44689999853 2344566789999999999999996 4444689999764
No 46
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.17 E-value=1.3e-06 Score=42.28 Aligned_cols=44 Identities=27% Similarity=0.605 Sum_probs=28.6
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcc
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPM 48 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~ 48 (59)
.+..|||-+.++.+ |+....|+|+|-++.|.+|++++ ....||+
T Consensus 10 ~~~~CPiT~~~~~~-PV~s~~C~H~fek~aI~~~i~~~-~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFED-PVKSKKCGHTFEKEAILQYIQRN-GSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SS-EEEESSS--EEEHHHHHHHCTTT-S-EE-SC
T ss_pred eccCCCCcCChhhC-CcCcCCCCCeecHHHHHHHHHhc-CCCCCCC
Confidence 35679999776554 66667999999999999999543 2357998
No 47
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=3.3e-06 Score=50.89 Aligned_cols=53 Identities=23% Similarity=0.485 Sum_probs=41.2
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCC-----CCCCccccccccc
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTP-----QAHCPMCRREWQF 55 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~-----~~~CP~Cr~~~~~ 55 (59)
|+..|..|..+..+...+.+.|.|.||++|+++|...-.. ...||-|..++..
T Consensus 49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 5678999976666666667899999999999999875321 2479999987654
No 48
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=2e-07 Score=58.64 Aligned_cols=50 Identities=30% Similarity=0.586 Sum_probs=38.5
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
+..|+||+...... +....|.|.||.+||...++.. +..||.||+.+..+
T Consensus 43 ~v~c~icl~llk~t-mttkeClhrfc~~ci~~a~r~g--n~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 43 QVICPICLSLLKKT-MTTKECLHRFCFDCIWKALRSG--NNECPTCRKKLVSK 92 (381)
T ss_pred hhccHHHHHHHHhh-cccHHHHHHHHHHHHHHHHHhc--CCCCchHHhhcccc
Confidence 56799998644432 3336999999999999998876 37999999876543
No 49
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=98.06 E-value=2.3e-06 Score=54.50 Aligned_cols=49 Identities=31% Similarity=0.666 Sum_probs=38.2
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
.+..|++|.....+ ++..+.|||.||..|+..|+..+ ..||.|+.....
T Consensus 20 ~~l~C~~C~~vl~~-p~~~~~cgh~fC~~C~~~~~~~~---~~cp~~~~~~~~ 68 (391)
T KOG0297|consen 20 ENLLCPICMSVLRD-PVQTTTCGHRFCAGCLLESLSNH---QKCPVCRQELTQ 68 (391)
T ss_pred ccccCccccccccC-CCCCCCCCCcccccccchhhccC---cCCcccccccch
Confidence 45789999754444 33335999999999999999985 789999886654
No 50
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.06 E-value=6.5e-07 Score=61.16 Aligned_cols=48 Identities=25% Similarity=0.509 Sum_probs=35.4
Q ss_pred CcccccCcC-CCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLP-GDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~-~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|++|+.. .+........|+|.||..||..|.+.. .+||+||..|..
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~a---qTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCA---QTCPVDRGEFGE 172 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhc---ccCchhhhhhhe
Confidence 457788632 222222334899999999999999987 799999987653
No 51
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.03 E-value=1.5e-06 Score=54.03 Aligned_cols=54 Identities=24% Similarity=0.624 Sum_probs=38.9
Q ss_pred CCcccccCcCCCCC-CeEecCCCCcccHHHHHHHHHhC--------------------CCCCCCccccccccccC
Q 035392 4 DGCCPDCKLPGDDC-PLIWGACNHAFHLHCILKWVNSQ--------------------TPQAHCPMCRREWQFKG 57 (59)
Q Consensus 4 ~~~C~IC~~~~~~~-~~~~~~C~H~fh~~Ci~~w~~~~--------------------~~~~~CP~Cr~~~~~~~ 57 (59)
...|.||+.-+.+. .+..+.|.|.||..|+.+++..- .....||+||..+..+.
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 46899998644433 36678999999999998876420 01247999999887643
No 52
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=7.2e-06 Score=50.34 Aligned_cols=50 Identities=28% Similarity=0.627 Sum_probs=37.4
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.+.+|++|.++ ...|-+..+|+|+||.-||..-..... ..+||.|..+..
T Consensus 238 ~~~~C~~Cg~~-PtiP~~~~~C~HiyCY~Ci~ts~~~~a-sf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 238 SDTECPVCGEP-PTIPHVIGKCGHIYCYYCIATSRLWDA-SFTCPLCGENVE 287 (298)
T ss_pred CCceeeccCCC-CCCCeeeccccceeehhhhhhhhcchh-hcccCccCCCCc
Confidence 46789999543 334556678999999999998766431 258999998766
No 53
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.00 E-value=1.3e-06 Score=42.00 Aligned_cols=48 Identities=23% Similarity=0.515 Sum_probs=34.2
Q ss_pred CCCcccccCcCCCCCCeEecCCCCc-ccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHA-FHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~-fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.++.|.||.+..-+.. +-.|||. .|.+|-.+-++.. ...||+||+++.
T Consensus 6 ~~dECTICye~pvdsV--lYtCGHMCmCy~Cg~rl~~~~--~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHPVDSV--LYTCGHMCMCYACGLRLKKAL--HGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCcchHH--HHHcchHHhHHHHHHHHHHcc--CCcCcchhhHHH
Confidence 4688999976333322 3489995 7899977766643 278999999864
No 54
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.99 E-value=2.9e-06 Score=54.64 Aligned_cols=48 Identities=27% Similarity=0.670 Sum_probs=36.9
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
+.|-||-+...+..+ -+|||..|..|+..|.....+ ..||.||-++.-
T Consensus 370 eLCKICaendKdvkI--EPCGHLlCt~CLa~WQ~sd~g-q~CPFCRcEIKG 417 (563)
T KOG1785|consen 370 ELCKICAENDKDVKI--EPCGHLLCTSCLAAWQDSDEG-QTCPFCRCEIKG 417 (563)
T ss_pred HHHHHhhccCCCccc--ccccchHHHHHHHhhcccCCC-CCCCceeeEecc
Confidence 358899665555444 499999999999999876533 689999987653
No 55
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.88 E-value=5.6e-06 Score=53.15 Aligned_cols=47 Identities=28% Similarity=0.610 Sum_probs=34.8
Q ss_pred CCcccccCcC--CCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 4 DGCCPDCKLP--GDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 4 ~~~C~IC~~~--~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
+..|..|-+. ..+.....++|.|+||..|+...+.++. ..+||.||+
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~-~rsCP~Crk 413 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNG-TRSCPNCRK 413 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCC-CCCCccHHH
Confidence 4568888642 2233445579999999999999997754 368999994
No 56
>PHA02862 5L protein; Provisional
Probab=97.88 E-value=1.6e-05 Score=44.87 Aligned_cols=50 Identities=22% Similarity=0.642 Sum_probs=36.6
Q ss_pred CCcccccCcCCCCCCeEecCCC-----CcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 4 DGCCPDCKLPGDDCPLIWGACN-----HAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~-----H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
++.|=||.+..++. . -+|. -.-|.+|+.+|+... ....|++|+.++..+.
T Consensus 2 ~diCWIC~~~~~e~-~--~PC~C~GS~K~VHq~CL~~WIn~S-~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 2 SDICWICNDVCDER-N--NFCGCNEEYKVVHIKCMQLWINYS-KKKECNLCKTKYNIKK 56 (156)
T ss_pred CCEEEEecCcCCCC-c--ccccccCcchhHHHHHHHHHHhcC-CCcCccCCCCeEEEEE
Confidence 56799998654432 2 3554 478999999999764 4578999999887643
No 57
>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=97.87 E-value=5.3e-06 Score=43.60 Aligned_cols=32 Identities=25% Similarity=0.508 Sum_probs=27.0
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHH
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCIL 34 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~ 34 (59)
.+..|++|..+......+..+|||.||..|+.
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 45789999877776778888999999999975
No 58
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.76 E-value=1.2e-05 Score=37.46 Aligned_cols=42 Identities=19% Similarity=0.642 Sum_probs=25.7
Q ss_pred ccccCcCCCCCCeEecCCCC-----cccHHHHHHHHHhCCCCCCCccc
Q 035392 7 CPDCKLPGDDCPLIWGACNH-----AFHLHCILKWVNSQTPQAHCPMC 49 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H-----~fh~~Ci~~w~~~~~~~~~CP~C 49 (59)
|-||++..++......+|+- ..|.+||.+|+..+. ...|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~~~-~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRESG-NRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHHHT--SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHhcC-CCcCCCC
Confidence 56888544433333357763 679999999999743 3578887
No 59
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.72 E-value=7.2e-06 Score=51.22 Aligned_cols=46 Identities=26% Similarity=0.483 Sum_probs=35.5
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.+|.+|...+-+.. .+.-|-|.||+.||.+.+... ..||.|...+.
T Consensus 16 itC~LC~GYliDAT-TI~eCLHTFCkSCivk~l~~~---~~CP~C~i~ih 61 (331)
T KOG2660|consen 16 ITCRLCGGYLIDAT-TITECLHTFCKSCIVKYLEES---KYCPTCDIVIH 61 (331)
T ss_pred eehhhccceeecch-hHHHHHHHHHHHHHHHHHHHh---ccCCccceecc
Confidence 57888965443332 235999999999999999996 79999987554
No 60
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=3.1e-05 Score=48.85 Aligned_cols=45 Identities=22% Similarity=0.495 Sum_probs=33.6
Q ss_pred CcccccCcCCCCCCeEecCCCCc-ccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHA-FHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~-fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
..|-||+....+ +++++|.|. .|..|.+...-.. +.||+||+++.
T Consensus 291 keCVIClse~rd--t~vLPCRHLCLCs~Ca~~Lr~q~---n~CPICRqpi~ 336 (349)
T KOG4265|consen 291 KECVICLSESRD--TVVLPCRHLCLCSGCAKSLRYQT---NNCPICRQPIE 336 (349)
T ss_pred CeeEEEecCCcc--eEEecchhhehhHhHHHHHHHhh---cCCCccccchH
Confidence 469999865554 344799995 8999988765333 68999999875
No 61
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.69 E-value=4e-05 Score=55.93 Aligned_cols=52 Identities=27% Similarity=0.574 Sum_probs=39.6
Q ss_pred CCCcccccCc-CCCCCCeEecCCCCcccHHHHHHHHHhCCC-------CCCCcccccccc
Q 035392 3 FDGCCPDCKL-PGDDCPLIWGACNHAFHLHCILKWVNSQTP-------QAHCPMCRREWQ 54 (59)
Q Consensus 3 ~~~~C~IC~~-~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~-------~~~CP~Cr~~~~ 54 (59)
.|+.|.||.. .....|...+.|+|.||.+|...-+++... --.||+|..+++
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 3677999973 445556677899999999999988877542 137999998765
No 62
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.66 E-value=4.7e-05 Score=35.70 Aligned_cols=46 Identities=24% Similarity=0.572 Sum_probs=22.1
Q ss_pred ccccCcCCC--CCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 7 CPDCKLPGD--DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 7 C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
||+|.++.+ +.....-.|++..++.|..+-++.. ...||-||++++
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~--~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENE--GGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS---SB-TTT--B--
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhcc--CCCCCCCCCCCC
Confidence 688875443 3333434788999999988877643 278999999863
No 63
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.63 E-value=2.3e-05 Score=52.11 Aligned_cols=53 Identities=28% Similarity=0.578 Sum_probs=38.7
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCC--CCCCccccccccccCC
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTP--QAHCPMCRREWQFKGS 58 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~--~~~CP~Cr~~~~~~~~ 58 (59)
+..|-+|.++.++... ..|.|.||+.||.++...-.. +.+||.|...+....+
T Consensus 536 ~~~C~lc~d~aed~i~--s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDls 590 (791)
T KOG1002|consen 536 EVECGLCHDPAEDYIE--SSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLS 590 (791)
T ss_pred ceeecccCChhhhhHh--hhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccccc
Confidence 3568899766555333 599999999999988765322 3689999987766543
No 64
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.59 E-value=4.3e-05 Score=49.02 Aligned_cols=46 Identities=28% Similarity=0.713 Sum_probs=35.0
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
+-.|.||..-... ++. ++|||.|+..||.+-+... ..||.||.++.
T Consensus 84 ef~c~vc~~~l~~-pv~-tpcghs~c~~Cl~r~ld~~---~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 84 EFECCVCSRALYP-PVV-TPCGHSFCLECLDRSLDQE---TECPLCRDELV 129 (398)
T ss_pred hhhhhhhHhhcCC-Ccc-ccccccccHHHHHHHhccC---CCCcccccccc
Confidence 4578899543333 444 5999999999999976654 78999998875
No 65
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.57 E-value=0.00011 Score=41.99 Aligned_cols=49 Identities=31% Similarity=0.744 Sum_probs=35.5
Q ss_pred CCcccccCcCCCCCCeEecCCC--C---cccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACN--H---AFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~--H---~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
+..|=||.+..+. .. .+|. . .-|.+|+++|+..+. ...|++|+.++...
T Consensus 8 ~~~CRIC~~~~~~-~~--~PC~CkGs~k~VH~sCL~rWi~~s~-~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 8 DKCCWICKDEYDV-VT--NYCNCKNENKIVHKECLEEWINTSK-NKSCKICNGPYNIK 61 (162)
T ss_pred CCeeEecCCCCCC-cc--CCcccCCCchHHHHHHHHHHHhcCC-CCcccccCCeEEEE
Confidence 5679999755332 22 2554 4 569999999999753 46899999988765
No 66
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.55 E-value=5e-05 Score=45.71 Aligned_cols=47 Identities=23% Similarity=0.576 Sum_probs=34.2
Q ss_pred cccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 6 CCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
.|..|.......+..++.|+|+||..|...-. ...||+|++++....
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~-----~~~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASS-----PDVCPLCKKSIRIIQ 51 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhcccCC-----ccccccccceeeeee
Confidence 47777644446677889999999999975421 248999999866543
No 67
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.35 E-value=0.00011 Score=35.35 Aligned_cols=34 Identities=21% Similarity=0.457 Sum_probs=27.1
Q ss_pred ecCCCCcccHHHHHHHHHhCCCCCCCccccccccccCCC
Q 035392 21 WGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKGSE 59 (59)
Q Consensus 21 ~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~~~ 59 (59)
+++|+|..+..|...+-- +.||.|.+++...+.+
T Consensus 22 ~~pCgH~I~~~~f~~~rY-----ngCPfC~~~~~~~~~~ 55 (55)
T PF14447_consen 22 VLPCGHLICDNCFPGERY-----NGCPFCGTPFEFDDPF 55 (55)
T ss_pred cccccceeeccccChhhc-----cCCCCCCCcccCCCCC
Confidence 369999999999877532 4699999999887653
No 68
>PHA03096 p28-like protein; Provisional
Probab=97.32 E-value=0.00014 Score=44.93 Aligned_cols=47 Identities=23% Similarity=0.374 Sum_probs=31.1
Q ss_pred CcccccCcCCCC------CCeEecCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 5 GCCPDCKLPGDD------CPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 5 ~~C~IC~~~~~~------~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
..|.||++.... .--.+..|.|.|+..|+..|........+||.||.
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 368999853211 11234699999999999999887544345555544
No 69
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=97.26 E-value=0.00023 Score=43.87 Aligned_cols=46 Identities=24% Similarity=0.415 Sum_probs=34.9
Q ss_pred CCCcccccCcC--CCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 3 FDGCCPDCKLP--GDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 3 ~~~~C~IC~~~--~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
.+..||||.+. .....+..++|||..|..|+......+ .+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~---y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG---YTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC---CCCCcccc
Confidence 34569999752 222333447999999999999988776 79999987
No 70
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.24 E-value=0.00025 Score=45.37 Aligned_cols=47 Identities=21% Similarity=0.505 Sum_probs=36.3
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.|..||||.- .....+..+|+|.-|..||.+-+.+. ..|=.|+..+.
T Consensus 421 Ed~lCpICyA--~pi~Avf~PC~H~SC~~CI~qHlmN~---k~CFfCktTv~ 467 (489)
T KOG4692|consen 421 EDNLCPICYA--GPINAVFAPCSHRSCYGCITQHLMNC---KRCFFCKTTVI 467 (489)
T ss_pred ccccCcceec--ccchhhccCCCCchHHHHHHHHHhcC---CeeeEecceee
Confidence 4678999942 22223346999999999999999987 68999988665
No 71
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.20 E-value=0.00025 Score=49.09 Aligned_cols=47 Identities=32% Similarity=0.624 Sum_probs=33.2
Q ss_pred CcccccCcCCC--CCCeEecCCCCcccHHHHHHHHHhCCC----CCCCccccc
Q 035392 5 GCCPDCKLPGD--DCPLIWGACNHAFHLHCILKWVNSQTP----QAHCPMCRR 51 (59)
Q Consensus 5 ~~C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~~~~----~~~CP~Cr~ 51 (59)
..|.||.+... .....-..|.|+||..||.+|.+.... .-.||.|..
T Consensus 192 yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 192 YECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred eEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 46999986433 333344578899999999999876321 136999984
No 72
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.07 E-value=0.00022 Score=42.45 Aligned_cols=43 Identities=23% Similarity=0.624 Sum_probs=33.0
Q ss_pred cccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccc
Q 035392 6 CCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREW 53 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~ 53 (59)
.|.||...+.. |++ +.|||.||..|...-++.. ..|-+|.+..
T Consensus 198 ~C~iCKkdy~s-pvv-t~CGH~FC~~Cai~~y~kg---~~C~~Cgk~t 240 (259)
T COG5152 198 LCGICKKDYES-PVV-TECGHSFCSLCAIRKYQKG---DECGVCGKAT 240 (259)
T ss_pred eehhchhhccc-hhh-hhcchhHHHHHHHHHhccC---Ccceecchhh
Confidence 68999755444 444 5999999999988877765 7899997653
No 73
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.06 E-value=0.00033 Score=48.50 Aligned_cols=41 Identities=32% Similarity=0.829 Sum_probs=30.8
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRRE 52 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~ 52 (59)
..|..|... -+.|.+--.|||+||.+|+. .+ ...||-|+..
T Consensus 841 skCs~C~~~-LdlP~VhF~CgHsyHqhC~e----~~--~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGT-LDLPFVHFLCGHSYHQHCLE----DK--EDKCPKCLPE 881 (933)
T ss_pred eeecccCCc-cccceeeeecccHHHHHhhc----cC--cccCCccchh
Confidence 469999433 44577778999999999998 22 2689999863
No 74
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.97 E-value=0.00027 Score=43.93 Aligned_cols=44 Identities=25% Similarity=0.484 Sum_probs=34.5
Q ss_pred cccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 6 CCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.|-||..++.. +|+ +.|+|.||..|...-++.. ..|++|.+...
T Consensus 243 ~c~icr~~f~~-pVv-t~c~h~fc~~ca~~~~qk~---~~c~vC~~~t~ 286 (313)
T KOG1813|consen 243 KCFICRKYFYR-PVV-TKCGHYFCEVCALKPYQKG---EKCYVCSQQTH 286 (313)
T ss_pred ccccccccccc-chh-hcCCceeehhhhccccccC---Ccceecccccc
Confidence 59999766555 343 5999999999998887775 68999987643
No 75
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.94 E-value=0.00062 Score=44.02 Aligned_cols=46 Identities=20% Similarity=0.328 Sum_probs=32.9
Q ss_pred CcccccCcCCC-CCCeEecCCCCcccHHHHHHHHHhCCC-----CCCCcccc
Q 035392 5 GCCPDCKLPGD-DCPLIWGACNHAFHLHCILKWVNSQTP-----QAHCPMCR 50 (59)
Q Consensus 5 ~~C~IC~~~~~-~~~~~~~~C~H~fh~~Ci~~w~~~~~~-----~~~CP~Cr 50 (59)
-.|.||++... ..-+..++|+|+||+.|+..++..... ...||-+.
T Consensus 185 f~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred ccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 36999985433 345666899999999999999875421 23677654
No 76
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.86 E-value=0.00072 Score=42.88 Aligned_cols=46 Identities=22% Similarity=0.532 Sum_probs=32.2
Q ss_pred CCCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 2 AFDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 2 ~~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
+..+.|.||++...+ .+..+|||.-+ |..-.... ..||+||+.+..
T Consensus 303 ~~p~lcVVcl~e~~~--~~fvpcGh~cc--ct~cs~~l----~~CPvCR~rI~~ 348 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKS--AVFVPCGHVCC--CTLCSKHL----PQCPVCRQRIRL 348 (355)
T ss_pred CCCCceEEecCCccc--eeeecCCcEEE--chHHHhhC----CCCchhHHHHHH
Confidence 346789999876555 33459999977 66554443 469999987643
No 77
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.80 E-value=0.00062 Score=47.27 Aligned_cols=35 Identities=29% Similarity=0.605 Sum_probs=28.5
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHH
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVN 38 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~ 38 (59)
++.|.+|..+....+..+-+|||.||++||.+-..
T Consensus 817 ~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 817 QDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred ccchHHhcchhhcCcceeeeccchHHHHHHHHHHH
Confidence 57899998766666767789999999999988643
No 78
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=96.79 E-value=0.00072 Score=46.77 Aligned_cols=40 Identities=28% Similarity=0.742 Sum_probs=30.0
Q ss_pred cccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcc
Q 035392 6 CCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPM 48 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~ 48 (59)
.|+||-........+...|+|+.|.+|...|++++ ..||.
T Consensus 1030 ~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf~~g---d~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGSSNFCGTCGHVGHTSCMMEWFRTG---DVCPS 1069 (1081)
T ss_pred eeeeEeeEeeccchhhccccccccHHHHHHHHhcC---CcCCC
Confidence 46666544444455567999999999999999997 67773
No 79
>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=96.78 E-value=0.00056 Score=38.21 Aligned_cols=36 Identities=17% Similarity=0.292 Sum_probs=25.0
Q ss_pred CCcccccCcCCCC-CCeEecCCC------CcccHHHHHHHHHh
Q 035392 4 DGCCPDCKLPGDD-CPLIWGACN------HAFHLHCILKWVNS 39 (59)
Q Consensus 4 ~~~C~IC~~~~~~-~~~~~~~C~------H~fh~~Ci~~w~~~ 39 (59)
...|.||++.... ..++..++| |.||.+|+.+|-+.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 4579999864333 333334665 78999999999543
No 80
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.77 E-value=0.0012 Score=38.79 Aligned_cols=37 Identities=27% Similarity=0.667 Sum_probs=29.0
Q ss_pred cCCCCcccHHHHHHHHHhCCC--------CCCCccccccccccCC
Q 035392 22 GACNHAFHLHCILKWVNSQTP--------QAHCPMCRREWQFKGS 58 (59)
Q Consensus 22 ~~C~H~fh~~Ci~~w~~~~~~--------~~~CP~Cr~~~~~~~~ 58 (59)
..||..||.-|+..|++.--. -..||.|..++..+-+
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS 232 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS 232 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
Confidence 489999999999999974211 1369999999887654
No 81
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.72 E-value=0.0016 Score=39.82 Aligned_cols=49 Identities=22% Similarity=0.425 Sum_probs=35.6
Q ss_pred CcccccCcCCC----CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGD----DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~----~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|-||-++++ +.....+.|||.|+..|+..-+.... ..||.||.+...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~--i~cpfcR~~~~~ 56 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSR--ILCPFCRETTEI 56 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCce--eeccCCCCcccC
Confidence 46889964332 22233468999999999999887763 578999998644
No 82
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.68 E-value=0.0023 Score=38.88 Aligned_cols=49 Identities=14% Similarity=0.317 Sum_probs=36.0
Q ss_pred CcccccCcCCC--CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 5 GCCPDCKLPGD--DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 5 ~~C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
-.|||....+. ...+.+.+|||+|-..+|.+.- .. ..||+|..+|...+
T Consensus 114 ~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~---~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 114 FICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KS---KKCPVCGKPFTEED 164 (260)
T ss_pred eECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-cc---ccccccCCccccCC
Confidence 35888875433 2345667999999999999973 22 57999999987543
No 83
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.57 E-value=0.0025 Score=40.27 Aligned_cols=48 Identities=23% Similarity=0.508 Sum_probs=35.7
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
...||+|+.... .+.++..-|-+||..|+-+++.+. ..||+=..+...
T Consensus 300 ~~~CpvClk~r~-Nptvl~vSGyVfCY~Ci~~Yv~~~---~~CPVT~~p~~v 347 (357)
T KOG0826|consen 300 REVCPVCLKKRQ-NPTVLEVSGYVFCYPCIFSYVVNY---GHCPVTGYPASV 347 (357)
T ss_pred cccChhHHhccC-CCceEEecceEEeHHHHHHHHHhc---CCCCccCCcchH
Confidence 467999964333 344445679999999999999976 789987665543
No 84
>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=96.48 E-value=0.0035 Score=28.53 Aligned_cols=26 Identities=31% Similarity=0.847 Sum_probs=16.3
Q ss_pred CCCCcccHHHHHHHHHhCCCCCCCccc
Q 035392 23 ACNHAFHLHCILKWVNSQTPQAHCPMC 49 (59)
Q Consensus 23 ~C~H~fh~~Ci~~w~~~~~~~~~CP~C 49 (59)
.|+=.+|..|+..+++..+. ..||.|
T Consensus 18 ~C~~r~H~~C~~~y~r~~~~-~~CP~C 43 (43)
T PF08746_consen 18 DCNVRLHDDCFKKYFRHRSN-PKCPNC 43 (43)
T ss_dssp -S--EE-HHHHHHHTTT-SS--B-TTT
T ss_pred ccCchHHHHHHHHHHhcCCC-CCCcCC
Confidence 58889999999999988642 379987
No 85
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.46 E-value=0.0034 Score=40.39 Aligned_cols=51 Identities=22% Similarity=0.427 Sum_probs=38.5
Q ss_pred cccccCc-CCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 6 CCPDCKL-PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 6 ~C~IC~~-~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
.|||=.+ -.++.|...+.|||+..++-|.+..+++.....||.|-......
T Consensus 336 ~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~ 387 (394)
T KOG2817|consen 336 ICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLAS 387 (394)
T ss_pred ecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHH
Confidence 5788764 34566667789999999999999888765446799997655443
No 86
>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=96.35 E-value=0.0049 Score=39.33 Aligned_cols=30 Identities=30% Similarity=0.812 Sum_probs=23.3
Q ss_pred CcccHHHHHHHHHhCCC----------CCCCccccccccc
Q 035392 26 HAFHLHCILKWVNSQTP----------QAHCPMCRREWQF 55 (59)
Q Consensus 26 H~fh~~Ci~~w~~~~~~----------~~~CP~Cr~~~~~ 55 (59)
-..|.+|+.+|+...+. +..||.||+++-.
T Consensus 313 PmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 313 PMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred chHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 45689999999987652 2479999998754
No 87
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.33 E-value=0.0056 Score=37.64 Aligned_cols=50 Identities=12% Similarity=0.179 Sum_probs=38.0
Q ss_pred CcccccCcCCC--CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 5 GCCPDCKLPGD--DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 5 ~~C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
-.||++.+... ..-.++.++||+|..+|.++.+... ..+|++-+++..++
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D---~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD---MVDPVTDKPLKDRD 273 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc---ccccCCCCcCcccc
Confidence 36999975332 2223456999999999999998876 78999998877554
No 88
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.27 E-value=0.0014 Score=44.52 Aligned_cols=47 Identities=28% Similarity=0.600 Sum_probs=35.5
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|+||++ .+ ..+.+.|+|.|+.+|+...++.... ..||+||..+..
T Consensus 455 ~~c~ic~~-~~--~~~it~c~h~~c~~c~~~~i~~~~~-~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-LD--SFFITRCGHDFCVECLKKSIQQSEN-APCPLCRNVLKE 501 (674)
T ss_pred cccccccc-cc--cceeecccchHHHHHHHhccccccC-CCCcHHHHHHHH
Confidence 57999977 22 2334699999999999998887542 369999986543
No 89
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.0005 Score=42.91 Aligned_cols=42 Identities=26% Similarity=0.651 Sum_probs=29.7
Q ss_pred CCcccccCcCCCCCCeEecCCCC-cccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNH-AFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H-~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
+..|.||++-..+. +.+.||| +-|.+|-.+ ...||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DC--vfLeCGHmVtCt~CGkr-------m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDC--VFLECGHMVTCTKCGKR-------MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcce--EEeecCcEEeehhhccc-------cccCchHHHHHH
Confidence 45699997644444 4469999 568888544 257999998654
No 90
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.20 E-value=0.0035 Score=39.58 Aligned_cols=44 Identities=30% Similarity=0.551 Sum_probs=32.7
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
..|+.|... -..++...-|+|.|+.+||...|.... ..||.|.+
T Consensus 275 LkCplc~~L-lrnp~kT~cC~~~fc~eci~~al~dsD--f~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCL-LRNPMKTPCCGHTFCDECIGTALLDSD--FKCPNCSR 318 (427)
T ss_pred ccCcchhhh-hhCcccCccccchHHHHHHhhhhhhcc--ccCCCccc
Confidence 568888532 223444458999999999999887653 78999976
No 91
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.92 E-value=0.0082 Score=38.51 Aligned_cols=52 Identities=25% Similarity=0.557 Sum_probs=35.2
Q ss_pred CCcccccCcCCC--CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 4 DGCCPDCKLPGD--DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 4 ~~~C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
|+-||.|+++.+ +.-...-+||-..|.-|...--+.- +..||-||+.+..++
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~l--ngrcpacrr~y~den 67 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNL--NGRCPACRRKYDDEN 67 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhc--cCCChHhhhhccccc
Confidence 456999997543 2233334899888888866544432 368999999876554
No 92
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.80 E-value=0.014 Score=32.76 Aligned_cols=52 Identities=15% Similarity=0.370 Sum_probs=36.5
Q ss_pred cccccCcCCCCCCeE--ecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 6 CCPDCKLPGDDCPLI--WGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~--~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
.|.||.+...+.... --=||-..|..|-...|+.......||+|+..+....
T Consensus 82 eCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 82 ECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred eccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 699997532221111 0258999999998888877666689999999887654
No 93
>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=95.72 E-value=0.0034 Score=29.37 Aligned_cols=30 Identities=23% Similarity=0.731 Sum_probs=21.6
Q ss_pred CCC-CcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 23 ACN-HAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 23 ~C~-H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
.|+ |..|..|+...+... ..||+|..++..
T Consensus 17 ~C~dHYLCl~CLt~ml~~s---~~C~iC~~~LPt 47 (50)
T PF03854_consen 17 KCSDHYLCLNCLTLMLSRS---DRCPICGKPLPT 47 (50)
T ss_dssp E-SS-EEEHHHHHHT-SSS---SEETTTTEE---
T ss_pred eecchhHHHHHHHHHhccc---cCCCcccCcCcc
Confidence 565 999999999999886 799999988754
No 94
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=95.72 E-value=0.013 Score=36.51 Aligned_cols=47 Identities=28% Similarity=0.634 Sum_probs=34.1
Q ss_pred cccccCcC--CC-CCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 6 CCPDCKLP--GD-DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 6 ~C~IC~~~--~~-~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.||+|... .. +....+-+|+|..|.+|++.-+..+. ..||.|...+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~--~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGP--AQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCC--CCCCcccchhh
Confidence 58999732 11 22233349999999999999988874 68999977543
No 95
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.71 E-value=0.018 Score=27.57 Aligned_cols=43 Identities=23% Similarity=0.526 Sum_probs=30.4
Q ss_pred CcccccCcCC--CCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcc--cccccc
Q 035392 5 GCCPDCKLPG--DDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPM--CRREWQ 54 (59)
Q Consensus 5 ~~C~IC~~~~--~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~--Cr~~~~ 54 (59)
..|++|.+.+ ++..++-..|+-.+|++|-+. . ..|-. |..++.
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~---~----g~C~~~~c~~~~~ 52 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK---A----GGCINYSCGTGFE 52 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhh---C----CceEeccCCCCcc
Confidence 5699998765 566677789999999999543 2 35655 655543
No 96
>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=95.70 E-value=0.029 Score=32.31 Aligned_cols=36 Identities=22% Similarity=0.484 Sum_probs=20.6
Q ss_pred CCcccccCcCCCCCCeEe----------cCCCC-cccHHHHHHHHHh
Q 035392 4 DGCCPDCKLPGDDCPLIW----------GACNH-AFHLHCILKWVNS 39 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~----------~~C~H-~fh~~Ci~~w~~~ 39 (59)
|.+||||++..-..++++ --|+- .-|.-||+++.+.
T Consensus 2 d~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka 48 (162)
T PF07800_consen 2 DVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKA 48 (162)
T ss_pred CccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHH
Confidence 678999987433221110 12332 3467799998653
No 97
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.63 E-value=0.0063 Score=37.48 Aligned_cols=51 Identities=25% Similarity=0.733 Sum_probs=34.2
Q ss_pred CCcccccCcCCCCCCeE--ecCCC-----CcccHHHHHHHHHhCCC-----CCCCcccccccc
Q 035392 4 DGCCPDCKLPGDDCPLI--WGACN-----HAFHLHCILKWVNSQTP-----QAHCPMCRREWQ 54 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~--~~~C~-----H~fh~~Ci~~w~~~~~~-----~~~CP~Cr~~~~ 54 (59)
|..|=||+...++.... +-||. |..|.+|+..|+..+.. ...||.|+.++.
T Consensus 20 eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYi 82 (293)
T KOG3053|consen 20 ERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYI 82 (293)
T ss_pred ceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhe
Confidence 45699997433333221 12553 88999999999987543 237999998764
No 98
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=95.15 E-value=0.018 Score=40.51 Aligned_cols=53 Identities=26% Similarity=0.730 Sum_probs=38.3
Q ss_pred CCcccccCc-CCCCCCeEecCCCC-----cccHHHHHHHHHhCCCCCCCccccccccccCC
Q 035392 4 DGCCPDCKL-PGDDCPLIWGACNH-----AFHLHCILKWVNSQTPQAHCPMCRREWQFKGS 58 (59)
Q Consensus 4 ~~~C~IC~~-~~~~~~~~~~~C~H-----~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~~ 58 (59)
+.+|-||.. ...+.|.. -||.. ..|++|+.+|+.-+ +...|-+|..++.+++.
T Consensus 12 ~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s-~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 12 KRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECS-GTKKCDICHYEYKFKDI 70 (1175)
T ss_pred chhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcC-CCcceeeecceeeeeee
Confidence 367999984 33344443 36653 58999999999864 34689999999988763
No 99
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=94.78 E-value=0.016 Score=38.39 Aligned_cols=37 Identities=24% Similarity=0.442 Sum_probs=28.0
Q ss_pred CCCCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHh
Q 035392 1 MAFDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNS 39 (59)
Q Consensus 1 ~~~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~ 39 (59)
|..|..|+||..++.+ |++ ++|+|+.|..|...-+.+
T Consensus 1 meeelkc~vc~~f~~e-pii-l~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYRE-PII-LPCSHNLCQACARNILVQ 37 (699)
T ss_pred CcccccCceehhhccC-ceE-eecccHHHHHHHHhhccc
Confidence 5567889999655554 554 599999999998876543
No 100
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.21 E-value=0.023 Score=36.07 Aligned_cols=29 Identities=31% Similarity=0.735 Sum_probs=21.4
Q ss_pred ecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 21 WGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 21 ~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
+.+|.|+||.+|... ...+.||.|..++.
T Consensus 106 mIPCkHvFCl~CAr~-----~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 106 MIPCKHVFCLECARS-----DSDKICPLCDDRVQ 134 (389)
T ss_pred ccccchhhhhhhhhc-----CccccCcCcccHHH
Confidence 359999999999644 11368999987653
No 101
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.04 E-value=0.046 Score=34.80 Aligned_cols=48 Identities=21% Similarity=0.381 Sum_probs=35.8
Q ss_pred cccccCc-CCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccc
Q 035392 6 CCPDCKL-PGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREW 53 (59)
Q Consensus 6 ~C~IC~~-~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~ 53 (59)
.||+=.+ -.++.|...+.|||+.-.+-+++..+++.....||.|-..-
T Consensus 338 iCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~ 386 (396)
T COG5109 338 ICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMS 386 (396)
T ss_pred eccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcch
Confidence 4666543 34566777789999999999999888776556899996543
No 102
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=93.80 E-value=0.036 Score=34.15 Aligned_cols=46 Identities=28% Similarity=0.663 Sum_probs=32.5
Q ss_pred CCcccccCcC--CC-CCCeEecC-CCCcccHHHHHHHHHhCCCCCCCc--cccc
Q 035392 4 DGCCPDCKLP--GD-DCPLIWGA-CNHAFHLHCILKWVNSQTPQAHCP--MCRR 51 (59)
Q Consensus 4 ~~~C~IC~~~--~~-~~~~~~~~-C~H~fh~~Ci~~w~~~~~~~~~CP--~Cr~ 51 (59)
|..||||... .. +..+.+-| |.|..|.+|+++-+..+. ..|| -|.+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~Gp--AqCP~~gC~k 61 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGP--AQCPYKGCGK 61 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCC--CCCCCccHHH
Confidence 5689999743 22 22233334 999999999999998864 6799 6654
No 103
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.57 E-value=0.038 Score=35.51 Aligned_cols=37 Identities=16% Similarity=0.312 Sum_probs=26.2
Q ss_pred CCcccccC-cCC-CCCCeEecCCCCcccHHHHHHHHHhC
Q 035392 4 DGCCPDCK-LPG-DDCPLIWGACNHAFHLHCILKWVNSQ 40 (59)
Q Consensus 4 ~~~C~IC~-~~~-~~~~~~~~~C~H~fh~~Ci~~w~~~~ 40 (59)
..+|.||. +.. .+.......|+|.||.+|+.+.++.+
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 35799997 322 21222246899999999999998865
No 104
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.56 E-value=0.073 Score=34.41 Aligned_cols=46 Identities=24% Similarity=0.493 Sum_probs=31.6
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHH--HHhCCCCCCCcccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKW--VNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w--~~~~~~~~~CP~Cr~~~~ 54 (59)
+..|.||-.... -..+++|+|..|-.|.-+. |-.. ..||+||..+.
T Consensus 61 n~~C~ICA~~~T--Ys~~~PC~H~~CH~Ca~RlRALY~~---K~C~~CrTE~e 108 (493)
T COG5236 61 NMNCQICAGSTT--YSARYPCGHQICHACAVRLRALYMQ---KGCPLCRTETE 108 (493)
T ss_pred cceeEEecCCce--EEEeccCCchHHHHHHHHHHHHHhc---cCCCccccccc
Confidence 356888854322 2345799999999997653 2232 57999998775
No 105
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=93.44 E-value=0.012 Score=40.34 Aligned_cols=50 Identities=22% Similarity=0.444 Sum_probs=37.4
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.+..|+||.....+. .++.|.|.|+..|+..-+....+...||+|+....
T Consensus 20 k~lEc~ic~~~~~~p--~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 20 KILECPICLEHVKEP--SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hhccCCceeEEeecc--chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 467899998655543 34699999999999887766544468999986543
No 106
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.42 E-value=0.064 Score=33.89 Aligned_cols=33 Identities=21% Similarity=0.684 Sum_probs=24.2
Q ss_pred CCCcccHHHHHHHHHhCCC----------CCCCcccccccccc
Q 035392 24 CNHAFHLHCILKWVNSQTP----------QAHCPMCRREWQFK 56 (59)
Q Consensus 24 C~H~fh~~Ci~~w~~~~~~----------~~~CP~Cr~~~~~~ 56 (59)
|.-..|.+|+.+|+...+. ..+||+||+.+-..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 4457889999999865432 35899999977543
No 107
>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=93.28 E-value=0.053 Score=22.16 Aligned_cols=23 Identities=22% Similarity=0.595 Sum_probs=9.4
Q ss_pred cccccCcCCCCCCeEecCCCCcc
Q 035392 6 CCPDCKLPGDDCPLIWGACNHAF 28 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~H~f 28 (59)
.||-|..........-..|||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 45666433222222223455554
No 108
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.13 E-value=0.027 Score=40.98 Aligned_cols=43 Identities=21% Similarity=0.519 Sum_probs=33.4
Q ss_pred cccccCcCCC-CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccc
Q 035392 6 CCPDCKLPGD-DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREW 53 (59)
Q Consensus 6 ~C~IC~~~~~-~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~ 53 (59)
.|+||++... ...+. .|||.++..|+..|+..+ ..||+|....
T Consensus 1155 ~c~ic~dil~~~~~I~--~cgh~~c~~c~~~~l~~~---s~~~~~ksi~ 1198 (1394)
T KOG0298|consen 1155 VCEICLDILRNQGGIA--GCGHEPCCRCDELWLYAS---SRCPICKSIK 1198 (1394)
T ss_pred chHHHHHHHHhcCCee--eechhHhhhHHHHHHHHh---ccCcchhhhh
Confidence 6888875433 33443 899999999999999997 7899997543
No 109
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.86 E-value=0.097 Score=34.06 Aligned_cols=36 Identities=25% Similarity=0.453 Sum_probs=28.6
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhC
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQ 40 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~ 40 (59)
+..|-||.+.... .++.+.|+|.|+..|...++.++
T Consensus 70 ~~~c~ic~~~~~~-~~~~~~c~H~~c~~cw~~yl~~k 105 (444)
T KOG1815|consen 70 DVQCGICVESYDG-EIIGLGCGHPFCPPCWTGYLGTK 105 (444)
T ss_pred cccCCcccCCCcc-hhhhcCCCcHHHHHHHHHHhhhe
Confidence 4679999765444 45567999999999999999875
No 110
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.46 E-value=0.026 Score=36.69 Aligned_cols=48 Identities=25% Similarity=0.442 Sum_probs=34.0
Q ss_pred CcccccCcCCCC--CCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGDD--CPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~~--~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..++||...... ..+....|||.+|.++|.+|+.+. ..+|.|++.+..
T Consensus 197 ~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~---~kl~~~~rel~~ 246 (465)
T KOG0827|consen 197 GSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATK---RKLPSCRRELPK 246 (465)
T ss_pred hhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHH---HHhHHHHhhhhh
Confidence 456777532111 112234899999999999999986 689999987764
No 111
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=92.35 E-value=0.18 Score=31.64 Aligned_cols=41 Identities=32% Similarity=0.638 Sum_probs=29.5
Q ss_pred CcccccCcCCCCCCeEecCC--CCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGAC--NHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C--~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
..||||..+... |+. .| ||..|..|-.+ .. ..||.||.++.
T Consensus 49 leCPvC~~~l~~-Pi~--QC~nGHlaCssC~~~---~~---~~CP~Cr~~~g 91 (299)
T KOG3002|consen 49 LDCPVCFNPLSP-PIF--QCDNGHLACSSCRTK---VS---NKCPTCRLPIG 91 (299)
T ss_pred ccCchhhccCcc-cce--ecCCCcEehhhhhhh---hc---ccCCccccccc
Confidence 479999765554 554 56 69999988653 22 67999998876
No 112
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.84 E-value=0.099 Score=31.09 Aligned_cols=38 Identities=24% Similarity=0.598 Sum_probs=25.8
Q ss_pred ccccCcCCCCCCeEecCCCC-cccHHHHHHHHHhCCCCCCCccccccc
Q 035392 7 CPDCKLPGDDCPLIWGACNH-AFHLHCILKWVNSQTPQAHCPMCRREW 53 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H-~fh~~Ci~~w~~~~~~~~~CP~Cr~~~ 53 (59)
|-.|.+ .+..++++||.| .+|..|-.. -..||+|+.+.
T Consensus 161 Cr~C~~--~~~~VlllPCrHl~lC~~C~~~-------~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGE--REATVLLLPCRHLCLCGICDES-------LRICPICRSPK 199 (207)
T ss_pred ceecCc--CCceEEeecccceEeccccccc-------CccCCCCcChh
Confidence 666633 233467789997 688888533 15799998764
No 113
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=91.23 E-value=0.14 Score=30.23 Aligned_cols=38 Identities=32% Similarity=0.710 Sum_probs=26.6
Q ss_pred cccccCc-----CCCC-CCeEecCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 6 CCPDCKL-----PGDD-CPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 6 ~C~IC~~-----~~~~-~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
.|.+|.. |++. ..+.-..|+-+||+.|..+ ..||-|.+
T Consensus 154 iCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~--------~~CpkC~R 197 (202)
T PF13901_consen 154 ICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK--------KSCPKCAR 197 (202)
T ss_pred CCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC--------CCCCCcHh
Confidence 5777752 3333 4555678999999999762 46999965
No 114
>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=90.47 E-value=0.37 Score=20.17 Aligned_cols=37 Identities=24% Similarity=0.604 Sum_probs=22.4
Q ss_pred ccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
|+.|..+..+.......=+..||.+| ..|..|+.++.
T Consensus 2 C~~C~~~i~~~~~~~~~~~~~~H~~C-----------f~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLRALGKVWHPEC-----------FKCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEEeCCccccccC-----------CCCcccCCcCc
Confidence 67786554443122223467899877 46778877653
No 115
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.28 E-value=0.082 Score=36.96 Aligned_cols=39 Identities=18% Similarity=0.396 Sum_probs=28.2
Q ss_pred CCCCcccccCcCCC-----CCCeEecCCCCcccHHHHHHHHHhC
Q 035392 2 AFDGCCPDCKLPGD-----DCPLIWGACNHAFHLHCILKWVNSQ 40 (59)
Q Consensus 2 ~~~~~C~IC~~~~~-----~~~~~~~~C~H~fh~~Ci~~w~~~~ 40 (59)
++++.|.-|.++.. -..++...|+|.||..|+..-..++
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~ 825 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRN 825 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhc
Confidence 45678888976432 1234557999999999998877664
No 116
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=90.09 E-value=0.18 Score=30.49 Aligned_cols=45 Identities=27% Similarity=0.657 Sum_probs=31.4
Q ss_pred cccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 6 CCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.|.+|..- .-..+...+|+=.+|..|+..++++. ..||.|..-|.
T Consensus 183 ~Cn~Ch~L-vIqg~rCg~c~i~~h~~c~qty~q~~---~~cphc~d~w~ 227 (235)
T KOG4718|consen 183 NCNLCHCL-VIQGIRCGSCNIQYHRGCIQTYLQRR---DICPHCGDLWT 227 (235)
T ss_pred HHhHhHHH-hheeeccCcccchhhhHHHHHHhccc---CcCCchhcccC
Confidence 57777532 11123345778889999999999985 78999965443
No 117
>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 KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=89.75 E-value=0.21 Score=30.39 Aligned_cols=50 Identities=20% Similarity=0.579 Sum_probs=32.6
Q ss_pred CcccccCcCCCCCC--eEecCCC-----CcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGDDCP--LIWGACN-----HAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~~~~--~~~~~C~-----H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|=||........ ....+|. ...|+.|+..|+..+. ...|.+|...+..
T Consensus 79 ~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~-~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 79 PICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKG-NITCEICKSFFIN 135 (323)
T ss_pred CcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhcccc-Ceeeeccccccee
Confidence 46888875332111 2234564 5679999999998643 3689999876543
No 119
>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=89.60 E-value=0.28 Score=24.39 Aligned_cols=13 Identities=31% Similarity=0.876 Sum_probs=9.4
Q ss_pred cccHHHHHHHHHh
Q 035392 27 AFHLHCILKWVNS 39 (59)
Q Consensus 27 ~fh~~Ci~~w~~~ 39 (59)
-||+.||.+|+..
T Consensus 11 gFCRNCLskWy~~ 23 (68)
T PF06844_consen 11 GFCRNCLSKWYRE 23 (68)
T ss_dssp S--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999875
No 120
>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=89.45 E-value=0.19 Score=23.27 Aligned_cols=38 Identities=21% Similarity=0.515 Sum_probs=24.4
Q ss_pred ccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
|+.|..+..+..+.+..=+..||.+| ..|-.|++++..
T Consensus 1 C~~C~~~I~~~~~~~~~~~~~~H~~C-----------f~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKAMGKFWHPEC-----------FKCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEEETTEEEETTT-----------SBETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEEeCCcEEEccc-----------cccCCCCCccCC
Confidence 56676554444444335677888877 468888877654
No 121
>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=89.44 E-value=0.11 Score=33.87 Aligned_cols=34 Identities=24% Similarity=0.691 Sum_probs=0.0
Q ss_pred CCCeEecCCCCcccHHHHHHHHHhCC---CCCCCcccccc
Q 035392 16 DCPLIWGACNHAFHLHCILKWVNSQT---PQAHCPMCRRE 52 (59)
Q Consensus 16 ~~~~~~~~C~H~fh~~Ci~~w~~~~~---~~~~CP~Cr~~ 52 (59)
..|.+-+.|||++-. ..|-.... ....||+||..
T Consensus 301 ~qP~VYl~CGHVhG~---h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 301 RQPWVYLNCGHVHGY---HNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp ----------------------------------------
T ss_pred cCceeeccccceeee---cccccccccccccccCCCcccc
Confidence 446667899998774 45654322 13689999975
No 122
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=89.37 E-value=0.77 Score=23.58 Aligned_cols=50 Identities=14% Similarity=0.307 Sum_probs=20.2
Q ss_pred CcccccCcCC-----CCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 5 GCCPDCKLPG-----DDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 5 ~~C~IC~~~~-----~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
..|.||-+.. .+.-++...|+--.++.|.+-=.+.. +..||.|+.++...
T Consensus 10 qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg--~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 10 QICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEG--NQVCPQCKTRYKRH 64 (80)
T ss_dssp -B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS---SB-TTT--B----
T ss_pred cccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcC--cccccccCCCcccc
Confidence 4699996432 23334455777888999987655444 57899999887653
No 123
>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=89.35 E-value=0.99 Score=20.94 Aligned_cols=46 Identities=22% Similarity=0.473 Sum_probs=19.2
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCC--CCCCCcccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQT--PQAHCPMCRRE 52 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~--~~~~CP~Cr~~ 52 (59)
..|||-.... ..|+....|.|.-+.+ +..|+.... ..-.||+|.++
T Consensus 3 L~CPls~~~i-~~P~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRI-RIPVRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB--SSEEEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEE-EeCccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4677775433 3467777999985433 333443321 12479999864
No 124
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=88.91 E-value=0.41 Score=33.61 Aligned_cols=36 Identities=19% Similarity=0.371 Sum_probs=26.4
Q ss_pred cccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCC
Q 035392 6 CCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQT 41 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~ 41 (59)
.|.+|.....+..+-...|||.-|.+++.+|+...+
T Consensus 781 ~CtVC~~vi~G~~~~c~~C~H~gH~sh~~sw~~~~s 816 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDVWCQVCGHGGHDSHLKSWFFKAS 816 (839)
T ss_pred CceeecceeeeeEeecccccccccHHHHHHHHhcCC
Confidence 577775444443344458999999999999999873
No 125
>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=88.52 E-value=0.0061 Score=30.62 Aligned_cols=42 Identities=24% Similarity=0.646 Sum_probs=20.8
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
|..||.|..+. .... ++.+|..|-..+... ..||-|.+++..
T Consensus 1 e~~CP~C~~~L-----~~~~-~~~~C~~C~~~~~~~----a~CPdC~~~Le~ 42 (70)
T PF07191_consen 1 ENTCPKCQQEL-----EWQG-GHYHCEACQKDYKKE----AFCPDCGQPLEV 42 (70)
T ss_dssp --B-SSS-SBE-----EEET-TEEEETTT--EEEEE----EE-TTT-SB-EE
T ss_pred CCcCCCCCCcc-----EEeC-CEEECccccccceec----ccCCCcccHHHH
Confidence 46799996432 2222 677777776654433 579999988754
No 126
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=87.82 E-value=0.2 Score=33.97 Aligned_cols=43 Identities=26% Similarity=0.651 Sum_probs=27.2
Q ss_pred cccccC-----cCC-CCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 6 CCPDCK-----LPG-DDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 6 ~C~IC~-----~~~-~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.|.+|. .++ .+.......|+++||..|+.. .+ ..||.|-+...
T Consensus 513 iCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r----~s--~~CPrC~R~q~ 561 (580)
T KOG1829|consen 513 ICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR----KS--PCCPRCERRQK 561 (580)
T ss_pred eeeeccCCCcccccccccceeHHHHHHHHHHHHHhc----cC--CCCCchHHHHH
Confidence 466663 133 333444568999999999754 22 44999966433
No 127
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.76 E-value=0.17 Score=29.59 Aligned_cols=26 Identities=19% Similarity=0.289 Sum_probs=20.3
Q ss_pred CcccccCcCCC-CCCeEecCCCCcccH
Q 035392 5 GCCPDCKLPGD-DCPLIWGACNHAFHL 30 (59)
Q Consensus 5 ~~C~IC~~~~~-~~~~~~~~C~H~fh~ 30 (59)
..|.||+++.. ...|..++|-.+||+
T Consensus 178 GECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 178 GECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred CcEEEEhhhccCCCceeccceEEEeec
Confidence 57999997543 457788999999986
No 128
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.16 E-value=0.7 Score=28.72 Aligned_cols=47 Identities=17% Similarity=0.298 Sum_probs=31.5
Q ss_pred cccccCcCCC--CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 6 CCPDCKLPGD--DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 6 ~C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
.|||=..+.. ..-.++..|||+|-..-+.+.-. ..|++|...+...+
T Consensus 113 iCPvtgleMng~~~F~~l~~CGcV~SerAlKeika-----s~C~~C~a~y~~~d 161 (293)
T KOG3113|consen 113 ICPVTGLEMNGKYRFCALRCCGCVFSERALKEIKA-----SVCHVCGAAYQEDD 161 (293)
T ss_pred ecccccceecceEEEEEEeccceeccHHHHHHhhh-----ccccccCCcccccC
Confidence 4665542222 22345679999999888877532 57999999877653
No 129
>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=86.76 E-value=0.28 Score=22.34 Aligned_cols=46 Identities=26% Similarity=0.576 Sum_probs=28.7
Q ss_pred cccccCcCCC-CCCeEecCCCCcccHHHHHHHHHhCC---CCCCCccccc
Q 035392 6 CCPDCKLPGD-DCPLIWGACNHAFHLHCILKWVNSQT---PQAHCPMCRR 51 (59)
Q Consensus 6 ~C~IC~~~~~-~~~~~~~~C~H~fh~~Ci~~w~~~~~---~~~~CP~Cr~ 51 (59)
.|.||..... +..+.-..|+-.||..|+..-..... ..-.||.|+.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 3788975333 33455568899999999876543211 1246887753
No 130
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.91 E-value=0.5 Score=30.50 Aligned_cols=36 Identities=28% Similarity=0.718 Sum_probs=24.4
Q ss_pred CcccccCcC---CCCCCeEecCCCCcccHHHHHHHHHhC
Q 035392 5 GCCPDCKLP---GDDCPLIWGACNHAFHLHCILKWVNSQ 40 (59)
Q Consensus 5 ~~C~IC~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~~~ 40 (59)
..||.|... ..+..-..-.|||.|+..|...|...+
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~ 345 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHN 345 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCC
Confidence 368999632 222322223599999999999998765
No 131
>PLN02189 cellulose synthase
Probab=85.52 E-value=0.95 Score=32.80 Aligned_cols=49 Identities=14% Similarity=0.349 Sum_probs=33.2
Q ss_pred CcccccCcCCC----CC-CeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGD----DC-PLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~----~~-~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|.||.+..+ +. -++.-.|+--.|+.|.+- +.+.+++.||.|+..+..
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyey--er~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEY--ERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhh--hhhcCCccCcccCCchhh
Confidence 47999975422 22 234445888899999844 333446899999998874
No 132
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.35 E-value=0.35 Score=33.62 Aligned_cols=37 Identities=30% Similarity=0.463 Sum_probs=25.5
Q ss_pred CcccccCc-CC-C-CCCeEecCCCCcccHHHHHHHHHhCCCCCCCc
Q 035392 5 GCCPDCKL-PG-D-DCPLIWGACNHAFHLHCILKWVNSQTPQAHCP 47 (59)
Q Consensus 5 ~~C~IC~~-~~-~-~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP 47 (59)
..|+||+. ++ . -.++. +.|||..|+.|+..-.. .+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvs-l~cghtic~~c~~~lyn-----~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVS-LQCGHTICGHCVQLLYN-----ASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCccc-ccccchHHHHHHHhHhh-----ccCC
Confidence 46999963 21 1 23443 69999999999988654 3588
No 133
>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=85.11 E-value=0.47 Score=22.16 Aligned_cols=12 Identities=33% Similarity=0.891 Sum_probs=6.4
Q ss_pred CCCccccccccc
Q 035392 44 AHCPMCRREWQF 55 (59)
Q Consensus 44 ~~CP~Cr~~~~~ 55 (59)
..||+|.+++..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999998864
No 134
>PLN02436 cellulose synthase A
Probab=83.62 E-value=1.3 Score=32.33 Aligned_cols=49 Identities=14% Similarity=0.370 Sum_probs=33.0
Q ss_pred CcccccCcCCC-----CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGD-----DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~-----~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|.||-+... +.-++.-.|+--.|+.|.+- +.+.+++.||.|+..+..
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyey--er~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEY--ERREGNQACPQCKTRYKR 90 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhh--hhhcCCccCcccCCchhh
Confidence 37999975422 22344446777899999844 333446899999998874
No 135
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=83.32 E-value=0.89 Score=22.97 Aligned_cols=33 Identities=27% Similarity=0.454 Sum_probs=22.0
Q ss_pred CCCcccccCcC-CCCCCeEecCCCCcccHHHHHH
Q 035392 3 FDGCCPDCKLP-GDDCPLIWGACNHAFHLHCILK 35 (59)
Q Consensus 3 ~~~~C~IC~~~-~~~~~~~~~~C~H~fh~~Ci~~ 35 (59)
....|.+|... +....-....|.-.||..|...
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 35679999655 3222223457889999999765
No 136
>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=82.20 E-value=3.8 Score=21.88 Aligned_cols=27 Identities=26% Similarity=0.594 Sum_probs=19.8
Q ss_pred CCcccHHHHHHHHHhCC------CCCCCccccc
Q 035392 25 NHAFHLHCILKWVNSQT------PQAHCPMCRR 51 (59)
Q Consensus 25 ~H~fh~~Ci~~w~~~~~------~~~~CP~Cr~ 51 (59)
.=.||..||..++.... ..-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 66799999999876531 1246999986
No 137
>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=81.96 E-value=1.2 Score=18.28 Aligned_cols=28 Identities=25% Similarity=0.552 Sum_probs=10.3
Q ss_pred cccccCcCCCC-CCeEecCCCCcccHHHH
Q 035392 6 CCPDCKLPGDD-CPLIWGACNHAFHLHCI 33 (59)
Q Consensus 6 ~C~IC~~~~~~-~~~~~~~C~H~fh~~Ci 33 (59)
.|.+|..+... ....-..|.-.+|.+|+
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 47778655444 44455688888888885
No 138
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=81.73 E-value=2.5 Score=22.14 Aligned_cols=31 Identities=26% Similarity=0.462 Sum_probs=20.4
Q ss_pred CCcccccCcCCCCCCeEe--cCCCCcccHHHHHH
Q 035392 4 DGCCPDCKLPGDDCPLIW--GACNHAFHLHCILK 35 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~--~~C~H~fh~~Ci~~ 35 (59)
...|.||... .+..+.- ..|...||..|...
T Consensus 55 ~~~C~iC~~~-~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS-GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC-CceeEEcCCCCCCcCCCHHHHHH
Confidence 5689999654 2222222 24888999999866
No 139
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=80.62 E-value=0.77 Score=28.29 Aligned_cols=44 Identities=25% Similarity=0.441 Sum_probs=31.9
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcc
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPM 48 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~ 48 (59)
++.+|||=+.+... |+....|+|.|-++-|...++..- ...||.
T Consensus 188 ~~nrCpitl~p~~~-pils~kcnh~~e~D~I~~~lq~~~-trvcp~ 231 (275)
T COG5627 188 LSNRCPITLNPDFY-PILSSKCNHKPEMDLINKKLQVEC-TRVCPR 231 (275)
T ss_pred hcccCCcccCcchh-HHHHhhhcccccHHHHHHHhcCCc-eeecch
Confidence 46789998766443 566679999999999999988431 145663
No 140
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=80.29 E-value=2 Score=31.35 Aligned_cols=49 Identities=14% Similarity=0.370 Sum_probs=33.4
Q ss_pred CcccccCcCCC-----CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGD-----DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~-----~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|.||-+... +.-++.-.|+--.|+.|.+- +++.+++.||.|+..+..
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEY--Er~eG~q~CPqCktrYkr 71 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEY--ERKDGNQSCPQCKTKYKR 71 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhh--hhhcCCccCCccCCchhh
Confidence 37999975422 22344557777799999843 334456899999998873
No 141
>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=79.26 E-value=0.91 Score=18.67 Aligned_cols=13 Identities=23% Similarity=0.690 Sum_probs=6.0
Q ss_pred CCccccccccccC
Q 035392 45 HCPMCRREWQFKG 57 (59)
Q Consensus 45 ~CP~Cr~~~~~~~ 57 (59)
.||.|.+++...+
T Consensus 1 ~CP~C~s~l~~~~ 13 (28)
T PF03119_consen 1 TCPVCGSKLVREE 13 (28)
T ss_dssp B-TTT--BEEE-C
T ss_pred CcCCCCCEeEcCC
Confidence 4888888776443
No 142
>PLN02400 cellulose synthase
Probab=78.84 E-value=1.9 Score=31.51 Aligned_cols=49 Identities=16% Similarity=0.382 Sum_probs=33.7
Q ss_pred CcccccCcCCC-----CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGD-----DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~-----~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|.||-+... +.-++.-.|+--.|+.|.+- +++.+++.||.|+..+..
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEY--ERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEY--ERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhhe--ecccCCccCcccCCcccc
Confidence 37999975422 22345567777799999843 444456899999998874
No 143
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.06 E-value=1.2 Score=29.86 Aligned_cols=46 Identities=24% Similarity=0.564 Sum_probs=31.8
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
.++.|.||.... . ....+|. |.-|+.+|+..+ ..||+|+..+..++
T Consensus 478 ~~~~~~~~~~~~-~--~~~~~~~---~~~~l~~~~~~~---~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 478 PNDVCAICYQEM-S--ARITPCS---HALCLRKWLYVQ---EVCPLCHTYMKEDD 523 (543)
T ss_pred ccCcchHHHHHH-H--hcccccc---chhHHHhhhhhc---cccCCCchhhhccc
Confidence 356677776433 1 1223566 899999999987 78999988766543
No 144
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=77.62 E-value=1.5 Score=23.22 Aligned_cols=14 Identities=21% Similarity=0.752 Sum_probs=12.0
Q ss_pred cccHHHHHHHHHhC
Q 035392 27 AFHLHCILKWVNSQ 40 (59)
Q Consensus 27 ~fh~~Ci~~w~~~~ 40 (59)
-||+.|+..|+...
T Consensus 42 gFCRNCLs~Wy~ea 55 (104)
T COG3492 42 GFCRNCLSNWYREA 55 (104)
T ss_pred HHHHHHHHHHHHHH
Confidence 49999999999763
No 145
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=77.57 E-value=0.4 Score=22.50 Aligned_cols=15 Identities=27% Similarity=0.977 Sum_probs=13.0
Q ss_pred cCCCCcccHHHHHHH
Q 035392 22 GACNHAFHLHCILKW 36 (59)
Q Consensus 22 ~~C~H~fh~~Ci~~w 36 (59)
..|++.||..|...|
T Consensus 44 ~~C~~~fC~~C~~~~ 58 (64)
T smart00647 44 PKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCCeECCCCCCcC
Confidence 378999999998887
No 146
>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=77.11 E-value=1.1 Score=21.14 Aligned_cols=29 Identities=21% Similarity=0.544 Sum_probs=14.1
Q ss_pred eEecCCCCcccHHHHHHHHHhCCCCCCCcccc
Q 035392 19 LIWGACNHAFHLHCILKWVNSQTPQAHCPMCR 50 (59)
Q Consensus 19 ~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr 50 (59)
..-..|++.|+.+|=.---++ -..||-|.
T Consensus 22 y~C~~C~~~FC~dCD~fiHE~---LH~CPGC~ 50 (51)
T PF07975_consen 22 YRCPKCKNHFCIDCDVFIHET---LHNCPGCE 50 (51)
T ss_dssp E--TTTT--B-HHHHHTTTTT---S-SSSTT-
T ss_pred EECCCCCCccccCcChhhhcc---ccCCcCCC
Confidence 345689999999994332122 24799884
No 147
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=74.69 E-value=1.8 Score=26.85 Aligned_cols=45 Identities=24% Similarity=0.471 Sum_probs=30.5
Q ss_pred CCCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccc
Q 035392 3 FDGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMC 49 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~C 49 (59)
++..|||=..+.. .|++...|||+|-++=|.+.+..... ..||+=
T Consensus 175 fs~rdPis~~~I~-nPviSkkC~HvydrDsI~~~l~~~~~-i~CPv~ 219 (262)
T KOG2979|consen 175 FSNRDPISKKPIV-NPVISKKCGHVYDRDSIMQILCDEIT-IRCPVL 219 (262)
T ss_pred hcccCchhhhhhh-chhhhcCcCcchhhhhHHHHhccCce-eecccc
Confidence 3456666644333 35556799999999999998876322 468863
No 148
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=74.35 E-value=7.8 Score=18.70 Aligned_cols=26 Identities=27% Similarity=0.547 Sum_probs=20.5
Q ss_pred CcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 26 HAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 26 H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
..||.+|.+.-+. ..||.|...+...
T Consensus 29 CTFC~~C~e~~l~-----~~CPNCgGelv~R 54 (57)
T PF06906_consen 29 CTFCADCAETMLN-----GVCPNCGGELVRR 54 (57)
T ss_pred CcccHHHHHHHhc-----CcCcCCCCccccC
Confidence 5799999998773 4799998876543
No 149
>PRK11827 hypothetical protein; Provisional
Probab=73.12 E-value=1.6 Score=21.27 Aligned_cols=12 Identities=25% Similarity=0.911 Sum_probs=7.5
Q ss_pred CCCccccccccc
Q 035392 44 AHCPMCRREWQF 55 (59)
Q Consensus 44 ~~CP~Cr~~~~~ 55 (59)
-.||+|+.++.+
T Consensus 9 LaCP~ckg~L~~ 20 (60)
T PRK11827 9 IACPVCNGKLWY 20 (60)
T ss_pred eECCCCCCcCeE
Confidence 457777666554
No 150
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=72.16 E-value=5.2 Score=21.84 Aligned_cols=27 Identities=26% Similarity=0.578 Sum_probs=20.5
Q ss_pred ecCCCCcccHHHHHHHHHhCCCCCCCcccc
Q 035392 21 WGACNHAFHLHCILKWVNSQTPQAHCPMCR 50 (59)
Q Consensus 21 ~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr 50 (59)
-..|++.|+.+|-.-+-+.- ..||-|.
T Consensus 84 C~~C~~~FC~dCD~fiHe~L---h~CPGC~ 110 (112)
T TIGR00622 84 CAVCKNVFCVDCDVFVHESL---HCCPGCI 110 (112)
T ss_pred CCCCCCccccccchhhhhhc---cCCcCCC
Confidence 46889999999976665553 5799885
No 151
>PLN02195 cellulose synthase A
Probab=71.89 E-value=5.9 Score=28.85 Aligned_cols=48 Identities=13% Similarity=0.336 Sum_probs=33.7
Q ss_pred CcccccCcCCC-----CCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 5 GCCPDCKLPGD-----DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 5 ~~C~IC~~~~~-----~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
..|.||-+..+ +.-++.-.|+--.|+.|.+- +++.+++.||.|+..+.
T Consensus 7 ~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyey--er~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 7 PICATCGEEVGVDSNGEAFVACHECSYPLCKACLEY--EIKEGRKVCLRCGGPYD 59 (977)
T ss_pred ccceecccccCcCCCCCeEEEeccCCCccccchhhh--hhhcCCccCCccCCccc
Confidence 46999975322 23345567888899999843 44445689999999887
No 152
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.60 E-value=4.2 Score=25.40 Aligned_cols=33 Identities=21% Similarity=0.373 Sum_probs=25.6
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHh
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNS 39 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~ 39 (59)
+.|+.++.+..+..+ .+=||.|.+++|.+++..
T Consensus 44 dcCsLtLqPc~dPvi--t~~GylfdrEaILe~ila 76 (303)
T KOG3039|consen 44 DCCSLTLQPCRDPVI--TPDGYLFDREAILEYILA 76 (303)
T ss_pred ceeeeecccccCCcc--CCCCeeeeHHHHHHHHHH
Confidence 568888887666433 477999999999998754
No 153
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=69.49 E-value=2.9 Score=20.31 Aligned_cols=12 Identities=25% Similarity=0.789 Sum_probs=9.8
Q ss_pred CCCccccccccc
Q 035392 44 AHCPMCRREWQF 55 (59)
Q Consensus 44 ~~CP~Cr~~~~~ 55 (59)
..||+|..+...
T Consensus 40 p~CPlC~s~M~~ 51 (59)
T PF14169_consen 40 PVCPLCKSPMVS 51 (59)
T ss_pred ccCCCcCCcccc
Confidence 689999987654
No 154
>PF12773 DZR: Double zinc ribbon
Probab=68.91 E-value=7.2 Score=17.50 Aligned_cols=28 Identities=25% Similarity=0.412 Sum_probs=14.4
Q ss_pred ccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 28 FHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 28 fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
|+..|-..-.........||.|.+.+..
T Consensus 14 fC~~CG~~l~~~~~~~~~C~~Cg~~~~~ 41 (50)
T PF12773_consen 14 FCPHCGTPLPPPDQSKKICPNCGAENPP 41 (50)
T ss_pred CChhhcCChhhccCCCCCCcCCcCCCcC
Confidence 4555544333222223579999887543
No 155
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.72 E-value=2.7 Score=26.72 Aligned_cols=35 Identities=26% Similarity=0.620 Sum_probs=26.0
Q ss_pred CcccccCcCCCCCCeEecCC----CCcccHHHHHHHHHhCC
Q 035392 5 GCCPDCKLPGDDCPLIWGAC----NHAFHLHCILKWVNSQT 41 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C----~H~fh~~Ci~~w~~~~~ 41 (59)
..|.+|.+..++.-.+ .| .|.||+-|-.+.++.+.
T Consensus 269 LcCTLC~ERLEDTHFV--QCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFV--QCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred eeehhhhhhhccCcee--ecCCCcccceecccCHHHHHhhc
Confidence 5799998766554443 44 59999999999988753
No 156
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=68.64 E-value=6.2 Score=28.93 Aligned_cols=49 Identities=14% Similarity=0.314 Sum_probs=33.3
Q ss_pred CcccccCcCCC-----CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGD-----DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~-----~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..|.||-+... +.-++.-.|+--.|+.|.+- +.+.++..||.|+..+..
T Consensus 16 ~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyey--e~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 16 KTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEY--ERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred chhhccccccCcCCCCCEEEEeccCCCccccchhhh--hhhcCCccCCccCCchhh
Confidence 46999975422 22344557777899999943 333446899999998773
No 157
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=67.06 E-value=10 Score=24.40 Aligned_cols=48 Identities=25% Similarity=0.580 Sum_probs=31.0
Q ss_pred CcccccCcCCC--CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 5 GCCPDCKLPGD--DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 5 ~~C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
..||||.++.+ +...+-.+|++..+..|+..-.... ..||.||+++..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~---~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGD---GRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccC---CCCCccCCcccc
Confidence 57999975432 2233334777777777766654443 789999977553
No 158
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=65.48 E-value=1.4 Score=17.76 Aligned_cols=9 Identities=56% Similarity=1.328 Sum_probs=5.9
Q ss_pred CCccccccc
Q 035392 45 HCPMCRREW 53 (59)
Q Consensus 45 ~CP~Cr~~~ 53 (59)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 477776654
No 159
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=64.58 E-value=12 Score=24.35 Aligned_cols=35 Identities=23% Similarity=0.624 Sum_probs=25.6
Q ss_pred ecCCCCcccHHHHHHHHHhCCC------CCCCccccccccc
Q 035392 21 WGACNHAFHLHCILKWVNSQTP------QAHCPMCRREWQF 55 (59)
Q Consensus 21 ~~~C~H~fh~~Ci~~w~~~~~~------~~~CP~Cr~~~~~ 55 (59)
..+|||.--..=..-|.+..-. ...||.|-..+.-
T Consensus 375 F~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 375 FNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 3599999888888888775332 3579999876654
No 160
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=63.96 E-value=7.7 Score=17.36 Aligned_cols=12 Identities=33% Similarity=0.750 Sum_probs=8.6
Q ss_pred CCCccccccccc
Q 035392 44 AHCPMCRREWQF 55 (59)
Q Consensus 44 ~~CP~Cr~~~~~ 55 (59)
..||.|..++..
T Consensus 18 ~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 18 EHCPDCGTPLMR 29 (41)
T ss_pred CccCCCCCeeEE
Confidence 578888776654
No 161
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=61.03 E-value=9.9 Score=24.65 Aligned_cols=42 Identities=24% Similarity=0.494 Sum_probs=25.4
Q ss_pred ccccCcC-CCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 7 CPDCKLP-GDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 7 C~IC~~~-~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
|-.|... ..........|.+.||.+|-.---++- ..||.|..
T Consensus 333 Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~iHesL---h~CpgCeh 375 (378)
T KOG2807|consen 333 CFACQGELLSSGRYRCESCKNVFCLDCDVFIHESL---HNCPGCEH 375 (378)
T ss_pred eeeeccccCCCCcEEchhccceeeccchHHHHhhh---hcCCCcCC
Confidence 6666322 223334456889999999954433332 47999864
No 162
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=60.48 E-value=6.2 Score=19.35 Aligned_cols=11 Identities=27% Similarity=0.957 Sum_probs=8.6
Q ss_pred CCCcccccccc
Q 035392 44 AHCPMCRREWQ 54 (59)
Q Consensus 44 ~~CP~Cr~~~~ 54 (59)
..||+|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 57999998764
No 163
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.81 E-value=15 Score=18.69 Aligned_cols=26 Identities=23% Similarity=0.505 Sum_probs=19.8
Q ss_pred CCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 25 NHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 25 ~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
.+.||.+|.+.-+. ..||.|...+..
T Consensus 28 EcTFCadCae~~l~-----g~CPnCGGelv~ 53 (84)
T COG3813 28 ECTFCADCAENRLH-----GLCPNCGGELVA 53 (84)
T ss_pred eeehhHhHHHHhhc-----CcCCCCCchhhc
Confidence 48899999987554 479999876543
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=59.20 E-value=9.5 Score=17.41 Aligned_cols=34 Identities=18% Similarity=0.349 Sum_probs=22.0
Q ss_pred CcccccCcCCC--CCCeEecCCCCcccHHHHHHHHH
Q 035392 5 GCCPDCKLPGD--DCPLIWGACNHAFHLHCILKWVN 38 (59)
Q Consensus 5 ~~C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~ 38 (59)
..|++|...+. .....-..||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 46888863222 11222358999999999877654
No 165
>PLN02248 cellulose synthase-like protein
Probab=59.19 E-value=9.9 Score=28.20 Aligned_cols=31 Identities=23% Similarity=0.612 Sum_probs=26.3
Q ss_pred cCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 22 GACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 22 ~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
-.|+...|++|....++.. ..||-|+.++..
T Consensus 148 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~ 178 (1135)
T PLN02248 148 CECGFKICRDCYIDAVKSG---GICPGCKEPYKV 178 (1135)
T ss_pred ccccchhHHhHhhhhhhcC---CCCCCCcccccc
Confidence 3678899999999998885 789999998854
No 166
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=58.59 E-value=9.5 Score=20.45 Aligned_cols=30 Identities=17% Similarity=0.399 Sum_probs=19.0
Q ss_pred CCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 23 ACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 23 ~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
-||+--|.-=+.++... ..||.|+++++..
T Consensus 64 iCGvC~~~LT~~EY~~~----~~Cp~C~spFNp~ 93 (105)
T COG4357 64 ICGVCRKLLTRAEYGMC----GSCPYCQSPFNPG 93 (105)
T ss_pred EhhhhhhhhhHHHHhhc----CCCCCcCCCCCcc
Confidence 46655554445555444 4699999998753
No 167
>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=56.62 E-value=7.8 Score=20.84 Aligned_cols=46 Identities=20% Similarity=0.480 Sum_probs=27.7
Q ss_pred CCcccccCcC---CCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 4 DGCCPDCKLP---GDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 4 ~~~C~IC~~~---~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
+..|.+|..+ .......-..|+|.+|..|-.. ..+...-.|-+|.+
T Consensus 54 ~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 54 ERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQK 102 (118)
T ss_dssp CSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--TSSSCCEEEHHHHH
T ss_pred CcchhhhCCcccccCCCCCcCCcCCccccCccCCc--CCCCCCEEChhhHH
Confidence 4579999743 2334566679999999998655 11111125777765
No 168
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=56.44 E-value=6 Score=19.29 Aligned_cols=14 Identities=21% Similarity=0.809 Sum_probs=10.3
Q ss_pred CCCccccccccccC
Q 035392 44 AHCPMCRREWQFKG 57 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~ 57 (59)
-.||+||.++.+..
T Consensus 9 LaCP~~kg~L~~~~ 22 (60)
T COG2835 9 LACPVCKGPLVYDE 22 (60)
T ss_pred eeccCcCCcceEec
Confidence 46999998876543
No 169
>PF15616 TerY-C: TerY-C metal binding domain
Probab=56.20 E-value=13 Score=20.87 Aligned_cols=42 Identities=24% Similarity=0.589 Sum_probs=26.5
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccC
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
..||-|-.. ...++-.||.+||.. .....+||-|.+...+..
T Consensus 78 PgCP~CGn~---~~fa~C~CGkl~Ci~--------g~~~~~CPwCg~~g~~~~ 119 (131)
T PF15616_consen 78 PGCPHCGNQ---YAFAVCGCGKLFCID--------GEGEVTCPWCGNEGSFGA 119 (131)
T ss_pred CCCCCCcCh---hcEEEecCCCEEEeC--------CCCCEECCCCCCeeeecc
Confidence 357777321 133445899999852 122368999998776644
No 170
>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=55.73 E-value=0.44 Score=29.35 Aligned_cols=25 Identities=20% Similarity=0.499 Sum_probs=12.0
Q ss_pred CCcccHHHHHHHHHhCCCCCCCcccccc
Q 035392 25 NHAFHLHCILKWVNSQTPQAHCPMCRRE 52 (59)
Q Consensus 25 ~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~ 52 (59)
.+.+|.-|-.+|--.. ..||.|...
T Consensus 196 R~L~Cs~C~t~W~~~R---~~Cp~Cg~~ 220 (290)
T PF04216_consen 196 RYLHCSLCGTEWRFVR---IKCPYCGNT 220 (290)
T ss_dssp EEEEETTT--EEE--T---TS-TTT---
T ss_pred EEEEcCCCCCeeeecC---CCCcCCCCC
Confidence 3567777777775543 689999653
No 171
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=54.84 E-value=13 Score=22.58 Aligned_cols=25 Identities=16% Similarity=0.483 Sum_probs=15.8
Q ss_pred cHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 29 HLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 29 h~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
|..|-.+--++. ..||+|+..-..+
T Consensus 197 C~sC~qqIHRNA---PiCPlCK~KsRSr 221 (230)
T PF10146_consen 197 CQSCHQQIHRNA---PICPLCKAKSRSR 221 (230)
T ss_pred hHhHHHHHhcCC---CCCcccccccccC
Confidence 555655544444 7899998765443
No 172
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=54.68 E-value=4.8 Score=15.87 Aligned_cols=12 Identities=33% Similarity=1.041 Sum_probs=8.5
Q ss_pred CCCccccccccc
Q 035392 44 AHCPMCRREWQF 55 (59)
Q Consensus 44 ~~CP~Cr~~~~~ 55 (59)
..||.|.+.|..
T Consensus 3 ~~C~~CgR~F~~ 14 (25)
T PF13913_consen 3 VPCPICGRKFNP 14 (25)
T ss_pred CcCCCCCCEECH
Confidence 358888887754
No 173
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=54.50 E-value=5.5 Score=16.69 Aligned_cols=12 Identities=33% Similarity=1.298 Sum_probs=2.9
Q ss_pred CCcccccccccc
Q 035392 45 HCPMCRREWQFK 56 (59)
Q Consensus 45 ~CP~Cr~~~~~~ 56 (59)
.||.|.....+.
T Consensus 4 ~Cp~C~se~~y~ 15 (30)
T PF08274_consen 4 KCPLCGSEYTYE 15 (30)
T ss_dssp --TTT-----EE
T ss_pred CCCCCCCcceec
Confidence 466666655543
No 174
>PF15353 HECA: Headcase protein family homologue
Probab=54.34 E-value=10 Score=20.59 Aligned_cols=16 Identities=25% Similarity=0.669 Sum_probs=12.9
Q ss_pred CCCCcccHHHHHHHHH
Q 035392 23 ACNHAFHLHCILKWVN 38 (59)
Q Consensus 23 ~C~H~fh~~Ci~~w~~ 38 (59)
+.++..|.+|++.|-.
T Consensus 39 p~~~~MH~~CF~~wE~ 54 (107)
T PF15353_consen 39 PFGQYMHRECFEKWED 54 (107)
T ss_pred CCCCchHHHHHHHHHH
Confidence 3468999999999954
No 175
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=53.60 E-value=3.9 Score=17.67 Aligned_cols=13 Identities=23% Similarity=0.884 Sum_probs=8.9
Q ss_pred CCccccccccccC
Q 035392 45 HCPMCRREWQFKG 57 (59)
Q Consensus 45 ~CP~Cr~~~~~~~ 57 (59)
+||.|...+...+
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 5888877766543
No 176
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=53.56 E-value=0.74 Score=21.52 Aligned_cols=18 Identities=22% Similarity=0.693 Sum_probs=13.3
Q ss_pred eEecCCCCcccHHHHHHH
Q 035392 19 LIWGACNHAFHLHCILKW 36 (59)
Q Consensus 19 ~~~~~C~H~fh~~Ci~~w 36 (59)
+.-..|++.||..|...|
T Consensus 41 ~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 41 VTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp CCTTSCCSEECSSSTSES
T ss_pred eECCCCCCcCccccCccc
Confidence 333459999999887776
No 177
>PRK01343 zinc-binding protein; Provisional
Probab=53.49 E-value=8 Score=18.66 Aligned_cols=11 Identities=27% Similarity=0.751 Sum_probs=8.8
Q ss_pred CCCcccccccc
Q 035392 44 AHCPMCRREWQ 54 (59)
Q Consensus 44 ~~CP~Cr~~~~ 54 (59)
..||+|++++.
T Consensus 10 ~~CP~C~k~~~ 20 (57)
T PRK01343 10 RPCPECGKPST 20 (57)
T ss_pred CcCCCCCCcCc
Confidence 57999998754
No 178
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=53.44 E-value=8.8 Score=17.76 Aligned_cols=23 Identities=22% Similarity=0.586 Sum_probs=12.2
Q ss_pred CCCCcccHHHHHHHHHhCCCCCCCccc
Q 035392 23 ACNHAFHLHCILKWVNSQTPQAHCPMC 49 (59)
Q Consensus 23 ~C~H~fh~~Ci~~w~~~~~~~~~CP~C 49 (59)
.|||.|-..=-.+- .. ...||.|
T Consensus 33 ~Cgh~w~~~v~~R~-~~---~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKASVNDRT-RR---GKGCPYC 55 (55)
T ss_pred CCCCeeEccHhhhc-cC---CCCCCCC
Confidence 56777655432222 11 2578887
No 179
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=52.65 E-value=6.9 Score=17.11 Aligned_cols=13 Identities=23% Similarity=0.738 Sum_probs=8.9
Q ss_pred CCccccccccccC
Q 035392 45 HCPMCRREWQFKG 57 (59)
Q Consensus 45 ~CP~Cr~~~~~~~ 57 (59)
.||.|...+..+.
T Consensus 3 ~CP~Cg~~lv~r~ 15 (39)
T PF01396_consen 3 KCPKCGGPLVLRR 15 (39)
T ss_pred CCCCCCceeEEEE
Confidence 5888887666544
No 180
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=52.48 E-value=4.7 Score=17.37 Aligned_cols=13 Identities=23% Similarity=0.963 Sum_probs=9.6
Q ss_pred CCccccccccccC
Q 035392 45 HCPMCRREWQFKG 57 (59)
Q Consensus 45 ~CP~Cr~~~~~~~ 57 (59)
.||.|.+.+...+
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5888888776654
No 181
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=52.04 E-value=9 Score=21.71 Aligned_cols=12 Identities=33% Similarity=0.634 Sum_probs=9.5
Q ss_pred eEecCCCCcccH
Q 035392 19 LIWGACNHAFHL 30 (59)
Q Consensus 19 ~~~~~C~H~fh~ 30 (59)
+..-.|||+|+.
T Consensus 70 v~rcecghsf~d 81 (165)
T COG4647 70 VIRCECGHSFGD 81 (165)
T ss_pred EEEEeccccccC
Confidence 555699999985
No 182
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=51.67 E-value=14 Score=22.89 Aligned_cols=25 Identities=20% Similarity=0.558 Sum_probs=15.1
Q ss_pred cHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 29 HLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 29 h~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
|..|-.+--++. ..||+|+..-..+
T Consensus 252 ClsChqqIHRNA---PiCPlCKaKsRSr 276 (286)
T KOG4451|consen 252 CLSCHQQIHRNA---PICPLCKAKSRSR 276 (286)
T ss_pred HHHHHHHHhcCC---CCCcchhhccccC
Confidence 444544443443 7899998765443
No 183
>COG4469 CoiA Competence protein CoiA-like family, contains a predicted nuclease domain [General function prediction only]
Probab=50.01 E-value=12 Score=24.23 Aligned_cols=26 Identities=19% Similarity=0.436 Sum_probs=18.2
Q ss_pred HHHHHHhCCCCCCCccccccccccCC
Q 035392 33 ILKWVNSQTPQAHCPMCRREWQFKGS 58 (59)
Q Consensus 33 i~~w~~~~~~~~~CP~Cr~~~~~~~~ 58 (59)
+..|.++..++..||.|..++..+.+
T Consensus 15 l~~~~k~~~~~ffCPaC~~~l~lK~G 40 (342)
T COG4469 15 LTALQKTQLQRFFCPACGSQLILKQG 40 (342)
T ss_pred hhhHHHhhhhccccCCCCCeeeeecC
Confidence 45566655334689999999887765
No 184
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=49.69 E-value=11 Score=21.01 Aligned_cols=22 Identities=32% Similarity=0.760 Sum_probs=16.3
Q ss_pred ecCCCCcccHHHHHHHHHhCCCCCCCccccccc
Q 035392 21 WGACNHAFHLHCILKWVNSQTPQAHCPMCRREW 53 (59)
Q Consensus 21 ~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~ 53 (59)
...|||.|+- .+..||.|.++.
T Consensus 32 C~~CG~v~~P-----------Pr~~Cp~C~~~~ 53 (140)
T COG1545 32 CKKCGRVYFP-----------PRAYCPKCGSET 53 (140)
T ss_pred cCCCCeEEcC-----------CcccCCCCCCCC
Confidence 4588898873 346899998874
No 185
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=49.64 E-value=19 Score=23.68 Aligned_cols=21 Identities=19% Similarity=0.287 Sum_probs=12.4
Q ss_pred CCcccccCcCCCCCCeEecCC
Q 035392 4 DGCCPDCKLPGDDCPLIWGAC 24 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C 24 (59)
++.||+|.+...+-...++.|
T Consensus 15 ~ElCPVCGDkVSGYHYGLLTC 35 (475)
T KOG4218|consen 15 GELCPVCGDKVSGYHYGLLTC 35 (475)
T ss_pred ccccccccCccccceeeeeeh
Confidence 567999976544443333444
No 186
>PF11290 DUF3090: Protein of unknown function (DUF3090); InterPro: IPR021441 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=49.50 E-value=13 Score=21.78 Aligned_cols=15 Identities=20% Similarity=0.645 Sum_probs=12.2
Q ss_pred CCCCCcccccccccc
Q 035392 42 PQAHCPMCRREWQFK 56 (59)
Q Consensus 42 ~~~~CP~Cr~~~~~~ 56 (59)
++..||+|..++...
T Consensus 153 GRP~CPlCg~PlDP~ 167 (171)
T PF11290_consen 153 GRPPCPLCGEPLDPE 167 (171)
T ss_pred CCCCCCCCCCCCCCC
Confidence 457899999998764
No 187
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=48.04 E-value=15 Score=21.25 Aligned_cols=24 Identities=25% Similarity=0.565 Sum_probs=18.5
Q ss_pred CCcccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 25 NHAFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 25 ~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.+.||..|-.+-.. .||.|..++.
T Consensus 27 ~~~fC~kCG~~tI~------~Cp~C~~~Ir 50 (158)
T PF10083_consen 27 REKFCSKCGAKTIT------SCPNCSTPIR 50 (158)
T ss_pred HHHHHHHhhHHHHH------HCcCCCCCCC
Confidence 46799999887553 5999988765
No 188
>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=47.69 E-value=11 Score=17.89 Aligned_cols=24 Identities=13% Similarity=0.180 Sum_probs=14.8
Q ss_pred ccccCcCCCCCCeEecCCCCcccHH
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLH 31 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~ 31 (59)
|..|... .....+-+.|+++++.+
T Consensus 1 C~~C~~~-~~~lw~CL~Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGST-NSNLWLCLTCGYVGCGR 24 (63)
T ss_dssp -SSSHTC-SSSEEEETTTS-EEETT
T ss_pred CCCCCCc-CCceEEeCCCCcccccC
Confidence 4566433 34456678999999985
No 189
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=46.85 E-value=19 Score=22.05 Aligned_cols=20 Identities=15% Similarity=0.418 Sum_probs=13.2
Q ss_pred HHHHHHhCCCCCCCccccccccc
Q 035392 33 ILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 33 i~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
+..|.++. ..||.|..++..
T Consensus 92 l~~w~~~~---~fC~~CG~~~~~ 111 (256)
T PRK00241 92 LAEFYRSH---RFCGYCGHPMHP 111 (256)
T ss_pred HHHHhhcC---ccccccCCCCee
Confidence 55666665 678888776554
No 190
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=46.72 E-value=29 Score=23.48 Aligned_cols=46 Identities=13% Similarity=0.268 Sum_probs=35.4
Q ss_pred ccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
|+|= .+.-+.|++...-||+|-++=|++++... ..+|+=.+++..+
T Consensus 3 CaIS-gEvP~~PVvS~~Sg~vfEkrLIEqyI~e~---G~DPIt~~pLs~e 48 (506)
T KOG0289|consen 3 CAIS-GEVPEEPVVSPVSGHVFEKRLIEQYIAET---GKDPITNEPLSIE 48 (506)
T ss_pred eccc-CCCCCCccccccccchHHHHHHHHHHHHc---CCCCCCCCcCCHH
Confidence 5554 33344577777899999999999999987 7899988877654
No 191
>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 PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=46.16 E-value=15 Score=14.16 Aligned_cols=9 Identities=33% Similarity=0.969 Sum_probs=4.5
Q ss_pred CCCcccccc
Q 035392 44 AHCPMCRRE 52 (59)
Q Consensus 44 ~~CP~Cr~~ 52 (59)
..||.|.++
T Consensus 14 ~fC~~CG~~ 22 (23)
T PF13240_consen 14 KFCPNCGTP 22 (23)
T ss_pred cchhhhCCc
Confidence 345555443
No 193
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=45.66 E-value=4.9 Score=25.47 Aligned_cols=45 Identities=18% Similarity=0.335 Sum_probs=25.2
Q ss_pred CCcccccCcC-CCCCCeEecC--CCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 4 DGCCPDCKLP-GDDCPLIWGA--CNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 4 ~~~C~IC~~~-~~~~~~~~~~--C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
...||+|-.. .......... =.+.+|.-|-.+|--.. ..||.|..
T Consensus 187 ~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R---~~C~~Cg~ 234 (309)
T PRK03564 187 RQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVR---VKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccC---ccCCCCCC
Confidence 4689999642 1110000001 12556777777786554 67999975
No 194
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=45.54 E-value=14 Score=26.36 Aligned_cols=51 Identities=22% Similarity=0.491 Sum_probs=29.4
Q ss_pred CCCcccccCcCCCCCCe---E-----ecCCCCcccHHHHHHHHH--hCC-----CCCCCccccccc
Q 035392 3 FDGCCPDCKLPGDDCPL---I-----WGACNHAFHLHCILKWVN--SQT-----PQAHCPMCRREW 53 (59)
Q Consensus 3 ~~~~C~IC~~~~~~~~~---~-----~~~C~H~fh~~Ci~~w~~--~~~-----~~~~CP~Cr~~~ 53 (59)
|+.+|-||.+...+... . .-.|.-.||..|-+..=. ... ....|-+|+.-|
T Consensus 116 fnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hf 181 (900)
T KOG0956|consen 116 FNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHF 181 (900)
T ss_pred hcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHH
Confidence 67899999764332211 1 135667899999876411 100 024688886543
No 195
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=45.54 E-value=14 Score=16.76 Aligned_cols=11 Identities=36% Similarity=1.102 Sum_probs=8.9
Q ss_pred CCCcccccccc
Q 035392 44 AHCPMCRREWQ 54 (59)
Q Consensus 44 ~~CP~Cr~~~~ 54 (59)
..||+|..+|.
T Consensus 9 K~C~~C~rpf~ 19 (42)
T PF10013_consen 9 KICPVCGRPFT 19 (42)
T ss_pred CcCcccCCcch
Confidence 57999988875
No 196
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=45.40 E-value=19 Score=14.13 Aligned_cols=7 Identities=43% Similarity=1.270 Sum_probs=3.3
Q ss_pred CCccccc
Q 035392 45 HCPMCRR 51 (59)
Q Consensus 45 ~CP~Cr~ 51 (59)
.||.|-+
T Consensus 18 fC~~CG~ 24 (26)
T PF13248_consen 18 FCPNCGA 24 (26)
T ss_pred cChhhCC
Confidence 4555543
No 197
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=45.19 E-value=13 Score=26.98 Aligned_cols=48 Identities=29% Similarity=0.630 Sum_probs=28.8
Q ss_pred CCCCcccccCcCC-----CCCC------eEecCCCCcccHHHHHHHHHhCCCCCCCcccccccccc
Q 035392 2 AFDGCCPDCKLPG-----DDCP------LIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFK 56 (59)
Q Consensus 2 ~~~~~C~IC~~~~-----~~~~------~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~ 56 (59)
+++..|+-|...+ .+.+ ...+.|.|--|..=|.+ .+.||+|.....+.
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~-------y~~CPLCHs~~~~~ 1187 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK-------YNCCPLCHSMESFR 1187 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc-------cccCccccChhhcc
Confidence 4567788775211 1112 22457888888755533 26899998776553
No 198
>PRK00420 hypothetical protein; Validated
Probab=44.93 E-value=25 Score=19.15 Aligned_cols=15 Identities=20% Similarity=0.554 Sum_probs=9.7
Q ss_pred CCCCccccccccccC
Q 035392 43 QAHCPMCRREWQFKG 57 (59)
Q Consensus 43 ~~~CP~Cr~~~~~~~ 57 (59)
...||.|...+...+
T Consensus 40 ~~~Cp~Cg~~~~v~~ 54 (112)
T PRK00420 40 EVVCPVHGKVYIVKS 54 (112)
T ss_pred ceECCCCCCeeeecc
Confidence 357888877665443
No 199
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=44.93 E-value=13 Score=17.57 Aligned_cols=14 Identities=29% Similarity=0.743 Sum_probs=9.3
Q ss_pred CCCccccccccccC
Q 035392 44 AHCPMCRREWQFKG 57 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~ 57 (59)
..||.|.+.+.+.+
T Consensus 3 ~~CP~CG~~iev~~ 16 (54)
T TIGR01206 3 FECPDCGAEIELEN 16 (54)
T ss_pred cCCCCCCCEEecCC
Confidence 46788877766544
No 200
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=44.82 E-value=10 Score=16.91 Aligned_cols=14 Identities=36% Similarity=0.826 Sum_probs=10.2
Q ss_pred CCCccccccccccC
Q 035392 44 AHCPMCRREWQFKG 57 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~ 57 (59)
..||.|..++.+++
T Consensus 22 ~~Cp~CG~~~~~~~ 35 (46)
T PRK00398 22 VRCPYCGYRILFKE 35 (46)
T ss_pred eECCCCCCeEEEcc
Confidence 57999988776543
No 201
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=44.78 E-value=15 Score=14.90 Aligned_cols=27 Identities=22% Similarity=0.535 Sum_probs=13.8
Q ss_pred cccccCcCCCCC-CeEecCCCCcccHHH
Q 035392 6 CCPDCKLPGDDC-PLIWGACNHAFHLHC 32 (59)
Q Consensus 6 ~C~IC~~~~~~~-~~~~~~C~H~fh~~C 32 (59)
.|.+|....+.. ...-..|.-.+|..|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCCCeEcCcc
Confidence 477785443333 333345555666554
No 202
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.74 E-value=26 Score=24.71 Aligned_cols=48 Identities=27% Similarity=0.629 Sum_probs=31.8
Q ss_pred cccccCcCCCCCCeEecCCCC-cccHHHHHHHHHhCC---CCCCCccccccccc
Q 035392 6 CCPDCKLPGDDCPLIWGACNH-AFHLHCILKWVNSQT---PQAHCPMCRREWQF 55 (59)
Q Consensus 6 ~C~IC~~~~~~~~~~~~~C~H-~fh~~Ci~~w~~~~~---~~~~CP~Cr~~~~~ 55 (59)
.|+||-...+- .....||| ..+..|..+...... ....||+||..+..
T Consensus 2 ~c~ic~~s~~~--~~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDF--VGRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCccc--cccccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 58999643332 23359999 899999888654322 12468999986553
No 203
>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=44.45 E-value=12 Score=15.66 Aligned_cols=9 Identities=33% Similarity=0.907 Sum_probs=7.1
Q ss_pred CCCcccccc
Q 035392 44 AHCPMCRRE 52 (59)
Q Consensus 44 ~~CP~Cr~~ 52 (59)
..||+|..+
T Consensus 18 ~~CP~Cg~~ 26 (33)
T cd00350 18 WVCPVCGAP 26 (33)
T ss_pred CcCcCCCCc
Confidence 589999764
No 204
>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=44.39 E-value=6.7 Score=18.66 Aligned_cols=12 Identities=33% Similarity=0.800 Sum_probs=6.5
Q ss_pred CCCccccccccc
Q 035392 44 AHCPMCRREWQF 55 (59)
Q Consensus 44 ~~CP~Cr~~~~~ 55 (59)
.+||+|.+.+..
T Consensus 25 atCP~C~a~~~~ 36 (54)
T PF09237_consen 25 ATCPICGAVIRQ 36 (54)
T ss_dssp EE-TTT--EESS
T ss_pred CCCCcchhhccc
Confidence 479999887654
No 205
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=44.07 E-value=20 Score=24.03 Aligned_cols=47 Identities=17% Similarity=0.305 Sum_probs=21.3
Q ss_pred ccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccccccCC
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREWQFKGS 58 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~~~~ 58 (59)
|.+|....++.+..+..=+-++|..+..+-+. ..|-+|..++..+++
T Consensus 363 Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfA-----PrCs~C~~PI~P~~G 409 (468)
T KOG1701|consen 363 CVVCARCLDGIPFTVDSQNNVYCVPDFHKKFA-----PRCSVCGNPILPRDG 409 (468)
T ss_pred EEEeccccCCccccccCCCceeeehhhhhhcC-----cchhhccCCccCCCC
Confidence 44443333433333333344444444333221 457777666655443
No 206
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=43.91 E-value=20 Score=24.00 Aligned_cols=32 Identities=25% Similarity=0.470 Sum_probs=19.1
Q ss_pred cccccCcC-CCCCCeE---ecCCCCcccHHHHHHHH
Q 035392 6 CCPDCKLP-GDDCPLI---WGACNHAFHLHCILKWV 37 (59)
Q Consensus 6 ~C~IC~~~-~~~~~~~---~~~C~H~fh~~Ci~~w~ 37 (59)
.|.||..+ ....+.. ...|||+-|.+|--+-.
T Consensus 130 ~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr~~ 165 (446)
T PF07227_consen 130 MCCICSKFDDNKNTCSWIGCDVCGHWCHLDCALRHE 165 (446)
T ss_pred CccccCCcccCCCCeeEEeccCCCceehhhhhcccc
Confidence 36677532 2222322 34789999999976643
No 207
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=43.83 E-value=10 Score=13.62 Aligned_cols=10 Identities=30% Similarity=1.374 Sum_probs=4.9
Q ss_pred CCcccccccc
Q 035392 45 HCPMCRREWQ 54 (59)
Q Consensus 45 ~CP~Cr~~~~ 54 (59)
.||+|...+.
T Consensus 2 ~C~~C~~~~~ 11 (24)
T PF13894_consen 2 QCPICGKSFR 11 (24)
T ss_dssp E-SSTS-EES
T ss_pred CCcCCCCcCC
Confidence 3777766554
No 208
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=43.56 E-value=24 Score=18.92 Aligned_cols=35 Identities=17% Similarity=0.157 Sum_probs=20.9
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHHh
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNS 39 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~ 39 (59)
-.|.||..+.......+-.=+-..|++|+.+-...
T Consensus 3 WkC~iCg~~I~~gqlFTF~~kG~VH~~C~~~~~~~ 37 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKKGPVHYECFREKASK 37 (101)
T ss_pred eEEEecCCeeeecceEEEecCCcEeHHHHHHHHhh
Confidence 46999975433322222233457899999876543
No 209
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=43.30 E-value=8.8 Score=22.82 Aligned_cols=13 Identities=38% Similarity=1.088 Sum_probs=10.0
Q ss_pred CCCcccccccccc
Q 035392 44 AHCPMCRREWQFK 56 (59)
Q Consensus 44 ~~CP~Cr~~~~~~ 56 (59)
.+||+|.+.+..+
T Consensus 6 ~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 6 ITCPVCGKEFKTK 18 (214)
T ss_pred eECCCCCCeeeee
Confidence 5799998877654
No 210
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=43.24 E-value=12 Score=16.27 Aligned_cols=10 Identities=40% Similarity=1.096 Sum_probs=6.7
Q ss_pred CCcccccccc
Q 035392 45 HCPMCRREWQ 54 (59)
Q Consensus 45 ~CP~Cr~~~~ 54 (59)
.||.|+..+.
T Consensus 1 ~CP~C~~~l~ 10 (41)
T PF13453_consen 1 KCPRCGTELE 10 (41)
T ss_pred CcCCCCcccc
Confidence 3788877654
No 211
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=43.07 E-value=32 Score=21.72 Aligned_cols=19 Identities=26% Similarity=0.499 Sum_probs=13.8
Q ss_pred cccHHHHHHHHHhCCCCCCCc
Q 035392 27 AFHLHCILKWVNSQTPQAHCP 47 (59)
Q Consensus 27 ~fh~~Ci~~w~~~~~~~~~CP 47 (59)
.=|++|+++|-... +..||
T Consensus 56 RGHrdCFEK~HlIa--nQ~~p 74 (285)
T PF06937_consen 56 RGHRDCFEKYHLIA--NQDCP 74 (285)
T ss_pred cchHHHHHHHHHHH--cCCCC
Confidence 36899999996554 25677
No 212
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=42.53 E-value=8.1 Score=16.36 Aligned_cols=13 Identities=23% Similarity=0.897 Sum_probs=8.5
Q ss_pred CCCcccccccccc
Q 035392 44 AHCPMCRREWQFK 56 (59)
Q Consensus 44 ~~CP~Cr~~~~~~ 56 (59)
..||.|.+.+...
T Consensus 3 ~~CP~C~~~~~v~ 15 (38)
T TIGR02098 3 IQCPNCKTSFRVV 15 (38)
T ss_pred EECCCCCCEEEeC
Confidence 3588887766544
No 213
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=42.38 E-value=9.4 Score=20.58 Aligned_cols=27 Identities=22% Similarity=0.591 Sum_probs=12.8
Q ss_pred CcccccCc---CCCCCCeEecCCCCcccHH
Q 035392 5 GCCPDCKL---PGDDCPLIWGACNHAFHLH 31 (59)
Q Consensus 5 ~~C~IC~~---~~~~~~~~~~~C~H~fh~~ 31 (59)
.+|+-|.. .....|++...||..|-..
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 34555641 1223455555555555543
No 214
>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=42.27 E-value=14 Score=15.60 Aligned_cols=9 Identities=33% Similarity=1.169 Sum_probs=7.2
Q ss_pred CCCcccccc
Q 035392 44 AHCPMCRRE 52 (59)
Q Consensus 44 ~~CP~Cr~~ 52 (59)
..||+|..+
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 589999874
No 215
>TIGR03847 conserved hypothetical protein. The conserved hypothetical protein described here occurs as part of the trio of uncharacterized proteins common in the Actinobacteria.
Probab=42.19 E-value=19 Score=21.17 Aligned_cols=15 Identities=27% Similarity=0.700 Sum_probs=12.0
Q ss_pred CCCCCcccccccccc
Q 035392 42 PQAHCPMCRREWQFK 56 (59)
Q Consensus 42 ~~~~CP~Cr~~~~~~ 56 (59)
++..||+|..++...
T Consensus 155 GRP~CPlCg~PldP~ 169 (177)
T TIGR03847 155 GRPPCPLCGRPIDPD 169 (177)
T ss_pred CCCCCCCCCCCCCCC
Confidence 357899999998754
No 216
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=42.16 E-value=4.7 Score=25.47 Aligned_cols=24 Identities=17% Similarity=0.476 Sum_probs=16.6
Q ss_pred CcccHHHHHHHHHhCCCCCCCcccccc
Q 035392 26 HAFHLHCILKWVNSQTPQAHCPMCRRE 52 (59)
Q Consensus 26 H~fh~~Ci~~w~~~~~~~~~CP~Cr~~ 52 (59)
+.+|..|-.+|--.. ..||.|...
T Consensus 210 yL~CslC~teW~~~R---~~C~~Cg~~ 233 (305)
T TIGR01562 210 YLSCSLCATEWHYVR---VKCSHCEES 233 (305)
T ss_pred EEEcCCCCCcccccC---ccCCCCCCC
Confidence 456667777776554 679999753
No 217
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=41.78 E-value=22 Score=25.92 Aligned_cols=47 Identities=9% Similarity=0.168 Sum_probs=28.4
Q ss_pred CcccccCcCCC----CCCeE-ecCCCCcccHHHHHHHHHhCCC---CCCCccccc
Q 035392 5 GCCPDCKLPGD----DCPLI-WGACNHAFHLHCILKWVNSQTP---QAHCPMCRR 51 (59)
Q Consensus 5 ~~C~IC~~~~~----~~~~~-~~~C~H~fh~~Ci~~w~~~~~~---~~~CP~Cr~ 51 (59)
.+|.+|..... ...+. +..|+|.||..||..|...-.. .-.|+.|..
T Consensus 97 ~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~ 151 (1134)
T KOG0825|consen 97 DTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEE 151 (1134)
T ss_pred cccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHH
Confidence 56777763221 11221 2369999999999999875321 234666654
No 218
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=41.68 E-value=6.8 Score=28.16 Aligned_cols=48 Identities=17% Similarity=0.383 Sum_probs=28.5
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHHHHHHH---hCCCCCCCcccccc
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVN---SQTPQAHCPMCRRE 52 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~---~~~~~~~CP~Cr~~ 52 (59)
..|-.|.........+...|++.+|..|+..|.- .......|+.|+..
T Consensus 230 ~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~p~~~~~e~a~k~~~~~~~ 280 (889)
T KOG1356|consen 230 EMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWYPRLSKEEVAEKCEFSWLK 280 (889)
T ss_pred hhhhhhcccccceeEEccccCCeeeecchhhccccchHhHhhhhhhHHHHh
Confidence 4466664322223445568999999999999951 11112356666543
No 219
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=40.29 E-value=10 Score=19.60 Aligned_cols=14 Identities=21% Similarity=0.774 Sum_probs=10.8
Q ss_pred CCCccccccccccC
Q 035392 44 AHCPMCRREWQFKG 57 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~ 57 (59)
..|+.|..++...+
T Consensus 9 ~~C~~CG~d~~~~~ 22 (86)
T PF06170_consen 9 PRCPHCGLDYSHAR 22 (86)
T ss_pred CcccccCCccccCC
Confidence 67999988877654
No 220
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=40.23 E-value=21 Score=21.55 Aligned_cols=27 Identities=15% Similarity=0.268 Sum_probs=16.5
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHH
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHC 32 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~C 32 (59)
.+|+.|.. ..........||+.+|++=
T Consensus 310 ~~C~~cg~-~~~r~~~C~~cg~~~~rD~ 336 (364)
T COG0675 310 KTCPCCGH-LSGRLFKCPRCGFVHDRDV 336 (364)
T ss_pred ccccccCC-ccceeEECCCCCCeehhhH
Confidence 46888855 3333344456888888763
No 221
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=40.18 E-value=11 Score=17.41 Aligned_cols=10 Identities=30% Similarity=1.075 Sum_probs=6.2
Q ss_pred CCCccccccc
Q 035392 44 AHCPMCRREW 53 (59)
Q Consensus 44 ~~CP~Cr~~~ 53 (59)
..||.|.+.+
T Consensus 3 f~CP~C~~~~ 12 (54)
T PF05605_consen 3 FTCPYCGKGF 12 (54)
T ss_pred cCCCCCCCcc
Confidence 4677776643
No 222
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=37.95 E-value=9.8 Score=13.97 Aligned_cols=11 Identities=27% Similarity=1.108 Sum_probs=6.6
Q ss_pred CCccccccccc
Q 035392 45 HCPMCRREWQF 55 (59)
Q Consensus 45 ~CP~Cr~~~~~ 55 (59)
.||.|.+.+..
T Consensus 2 ~C~~C~~~f~~ 12 (23)
T PF00096_consen 2 KCPICGKSFSS 12 (23)
T ss_dssp EETTTTEEESS
T ss_pred CCCCCCCccCC
Confidence 37777665543
No 223
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=37.12 E-value=21 Score=17.40 Aligned_cols=14 Identities=21% Similarity=0.304 Sum_probs=10.8
Q ss_pred CeEecCCCCcccHH
Q 035392 18 PLIWGACNHAFHLH 31 (59)
Q Consensus 18 ~~~~~~C~H~fh~~ 31 (59)
=++.+.|||.-|..
T Consensus 11 WVA~L~CGH~QHvR 24 (61)
T PF12088_consen 11 WVAELSCGHTQHVR 24 (61)
T ss_pred EEEEeccccccccc
Confidence 46678999988864
No 224
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=37.11 E-value=24 Score=24.86 Aligned_cols=46 Identities=28% Similarity=0.735 Sum_probs=28.7
Q ss_pred cccccCcCCC---CCCeEecCCCCcccHHHHHHHHHhCC--CCCCCccccc
Q 035392 6 CCPDCKLPGD---DCPLIWGACNHAFHLHCILKWVNSQT--PQAHCPMCRR 51 (59)
Q Consensus 6 ~C~IC~~~~~---~~~~~~~~C~H~fh~~Ci~~w~~~~~--~~~~CP~Cr~ 51 (59)
-|++|-..+. ...+..-.|+-.||..|+..|+.... +--.||-||.
T Consensus 20 mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 20 MCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 4666643222 22233357889999999999987641 1135888875
No 225
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=36.63 E-value=34 Score=14.89 Aligned_cols=13 Identities=15% Similarity=0.225 Sum_probs=7.5
Q ss_pred CeEecCCCCcccH
Q 035392 18 PLIWGACNHAFHL 30 (59)
Q Consensus 18 ~~~~~~C~H~fh~ 30 (59)
+..-..|+..|+.
T Consensus 12 ~f~C~~C~~~FC~ 24 (39)
T smart00154 12 GFKCRHCGNLFCG 24 (39)
T ss_pred CeECCccCCcccc
Confidence 3433347777774
No 226
>PF04134 DUF393: Protein of unknown function, DUF393; InterPro: IPR007263 The DCC family, named after the conserved N-terminal DxxCxxC motif, encompasses COG3011 from COG. Proteins in this family are predicted to have a thioredoxin-like fold which, together with the presence of an invariant catalytic cysteine residue, suggests that they are a novel group of thiol-disulphide oxidoreductases []. As some of the bacterial proteins are encoded near penicillin-binding proteins, it has been suggested that these may be involved in redox regulation of cell wall biosynthesis [].
Probab=36.54 E-value=12 Score=19.44 Aligned_cols=9 Identities=56% Similarity=1.571 Sum_probs=7.6
Q ss_pred CCCcccccC
Q 035392 3 FDGCCPDCK 11 (59)
Q Consensus 3 ~~~~C~IC~ 11 (59)
||+.|++|.
T Consensus 3 YDg~C~lC~ 11 (114)
T PF04134_consen 3 YDGDCPLCR 11 (114)
T ss_pred ECCCCHhHH
Confidence 788999994
No 227
>PRK11595 DNA utilization protein GntX; Provisional
Probab=36.38 E-value=44 Score=19.82 Aligned_cols=40 Identities=20% Similarity=0.379 Sum_probs=22.2
Q ss_pred CCcccccCcCCCCCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccccc
Q 035392 4 DGCCPDCKLPGDDCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRREW 53 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~ 53 (59)
-..|.+|..+.... ....|..|...+-... ..||.|..+.
T Consensus 5 P~~C~~C~~~~~~~-------~~~lC~~C~~~l~~~~---~~C~~Cg~~~ 44 (227)
T PRK11595 5 PGLCWLCRMPLALS-------HWGICSVCSRALRTLK---TCCPQCGLPA 44 (227)
T ss_pred CCcCccCCCccCCC-------CCcccHHHHhhCCccc---CcCccCCCcC
Confidence 35688885433211 1236777777653222 4688777654
No 228
>TIGR02367 PylS pyrrolysyl-tRNA synthetase. PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, such as trimethylamine methyltransferase.
Probab=35.85 E-value=26 Score=23.55 Aligned_cols=32 Identities=16% Similarity=0.216 Sum_probs=21.7
Q ss_pred ecCCCCccc-----HHHHHHHHHhCCCCCCCcccccc
Q 035392 21 WGACNHAFH-----LHCILKWVNSQTPQAHCPMCRRE 52 (59)
Q Consensus 21 ~~~C~H~fh-----~~Ci~~w~~~~~~~~~CP~Cr~~ 52 (59)
.+.||-.|= ..=-.+||+.+.....||.||-+
T Consensus 38 ~~~c~~~~~~~ns~~~r~~r~~r~~~~~~~c~~c~~~ 74 (453)
T TIGR02367 38 EMACGDHLVVNNSRSCRTARAFRHHKYRKTCKRCRVS 74 (453)
T ss_pred EeccCceEEEecCcccHHHHHHhhccccccCCCCCCC
Confidence 456775442 12356899988777899999863
No 229
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=35.84 E-value=42 Score=17.37 Aligned_cols=20 Identities=20% Similarity=0.426 Sum_probs=14.3
Q ss_pred HHHHHHhCCCCCCCccccccccc
Q 035392 33 ILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 33 i~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
|-.|+..+ ..|..|++++..
T Consensus 51 i~S~l~lr---GrCr~C~~~I~~ 70 (92)
T PF06750_consen 51 ILSYLLLR---GRCRYCGAPIPP 70 (92)
T ss_pred HHHHHHhC---CCCcccCCCCCh
Confidence 45677665 679899887754
No 230
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.76 E-value=12 Score=17.62 Aligned_cols=12 Identities=33% Similarity=1.185 Sum_probs=9.3
Q ss_pred CCCccccccccc
Q 035392 44 AHCPMCRREWQF 55 (59)
Q Consensus 44 ~~CP~Cr~~~~~ 55 (59)
..||+|.++|.-
T Consensus 13 KICpvCqRPFsW 24 (54)
T COG4338 13 KICPVCQRPFSW 24 (54)
T ss_pred hhhhhhcCchHH
Confidence 479999888753
No 231
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.26 E-value=26 Score=20.06 Aligned_cols=10 Identities=30% Similarity=0.544 Sum_probs=7.9
Q ss_pred CCCcccccCc
Q 035392 3 FDGCCPDCKL 12 (59)
Q Consensus 3 ~~~~C~IC~~ 12 (59)
.|.+|-||+.
T Consensus 64 ddatC~IC~K 73 (169)
T KOG3799|consen 64 DDATCGICHK 73 (169)
T ss_pred cCcchhhhhh
Confidence 4678999974
No 232
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=34.78 E-value=21 Score=16.60 Aligned_cols=9 Identities=33% Similarity=0.896 Sum_probs=7.3
Q ss_pred CCCcccccc
Q 035392 44 AHCPMCRRE 52 (59)
Q Consensus 44 ~~CP~Cr~~ 52 (59)
-.||+|..+
T Consensus 35 w~CP~C~a~ 43 (50)
T cd00730 35 WVCPVCGAG 43 (50)
T ss_pred CCCCCCCCc
Confidence 589999864
No 233
>PRK05978 hypothetical protein; Provisional
Probab=34.70 E-value=22 Score=20.25 Aligned_cols=20 Identities=15% Similarity=0.637 Sum_probs=14.5
Q ss_pred HHHHhCCCCCCCccccccccccC
Q 035392 35 KWVNSQTPQAHCPMCRREWQFKG 57 (59)
Q Consensus 35 ~w~~~~~~~~~CP~Cr~~~~~~~ 57 (59)
.+++.+ ..||.|..++....
T Consensus 47 g~Lkv~---~~C~~CG~~~~~~~ 66 (148)
T PRK05978 47 AFLKPV---DHCAACGEDFTHHR 66 (148)
T ss_pred cccccC---CCccccCCccccCC
Confidence 556655 78999988887654
No 234
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=33.90 E-value=20 Score=21.73 Aligned_cols=22 Identities=36% Similarity=0.696 Sum_probs=12.5
Q ss_pred HHHHHHHHHhCCCCCCCccccccc
Q 035392 30 LHCILKWVNSQTPQAHCPMCRREW 53 (59)
Q Consensus 30 ~~Ci~~w~~~~~~~~~CP~Cr~~~ 53 (59)
+.||.+--..- ..-||+||..+
T Consensus 97 ktCIrkn~~~~--gnpCPICRDey 118 (239)
T KOG4021|consen 97 KTCIRKNGRFL--GNPCPICRDEY 118 (239)
T ss_pred hHHHhhcCeec--CCCCCccccce
Confidence 34665532211 25799999754
No 235
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=33.48 E-value=30 Score=16.89 Aligned_cols=14 Identities=21% Similarity=0.615 Sum_probs=10.5
Q ss_pred CCCCcccccccccc
Q 035392 43 QAHCPMCRREWQFK 56 (59)
Q Consensus 43 ~~~CP~Cr~~~~~~ 56 (59)
+..||+|.+++...
T Consensus 8 H~HC~VCg~aIp~d 21 (64)
T COG4068 8 HRHCVVCGKAIPPD 21 (64)
T ss_pred CccccccCCcCCCc
Confidence 36799998887654
No 236
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=32.18 E-value=21 Score=20.01 Aligned_cols=15 Identities=33% Similarity=0.674 Sum_probs=9.9
Q ss_pred CCCccccccccccCC
Q 035392 44 AHCPMCRREWQFKGS 58 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~~ 58 (59)
..||.|..++..+++
T Consensus 29 ~hCp~Cg~PLF~KdG 43 (131)
T COG1645 29 KHCPKCGTPLFRKDG 43 (131)
T ss_pred hhCcccCCcceeeCC
Confidence 368888777765544
No 237
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=31.31 E-value=21 Score=18.94 Aligned_cols=27 Identities=30% Similarity=0.769 Sum_probs=16.3
Q ss_pred cCCCCcccHHHHHHHHHhCCCCCCCccccccccc
Q 035392 22 GACNHAFHLHCILKWVNSQTPQAHCPMCRREWQF 55 (59)
Q Consensus 22 ~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~~ 55 (59)
-.||-.|-.+=| +. .+.||.|++.|..
T Consensus 62 kkCGfef~~~~i------k~-pSRCP~CKSE~Ie 88 (97)
T COG3357 62 KKCGFEFRDDKI------KK-PSRCPKCKSEWIE 88 (97)
T ss_pred cccCcccccccc------CC-cccCCcchhhccc
Confidence 367766654211 11 2689999988754
No 238
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=30.70 E-value=43 Score=14.26 Aligned_cols=31 Identities=23% Similarity=0.245 Sum_probs=18.9
Q ss_pred CcccccCcCCCC--CCeEecCCCCcccHHHHHH
Q 035392 5 GCCPDCKLPGDD--CPLIWGACNHAFHLHCILK 35 (59)
Q Consensus 5 ~~C~IC~~~~~~--~~~~~~~C~H~fh~~Ci~~ 35 (59)
..|.+|...... ....-..|+=..|..|..+
T Consensus 12 ~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 12 TKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 458888653322 1233346777888888765
No 239
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.57 E-value=30 Score=19.54 Aligned_cols=22 Identities=27% Similarity=0.667 Sum_probs=14.9
Q ss_pred cccHHHHHHHHHhCCCCCCCcccccccc
Q 035392 27 AFHLHCILKWVNSQTPQAHCPMCRREWQ 54 (59)
Q Consensus 27 ~fh~~Ci~~w~~~~~~~~~CP~Cr~~~~ 54 (59)
.||..|-..-+ ..||.|..++.
T Consensus 29 afcskcgeati------~qcp~csasir 50 (160)
T COG4306 29 AFCSKCGEATI------TQCPICSASIR 50 (160)
T ss_pred HHHhhhchHHH------hcCCccCCccc
Confidence 57777765532 45999988764
No 240
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=30.23 E-value=23 Score=15.90 Aligned_cols=7 Identities=43% Similarity=1.137 Sum_probs=5.3
Q ss_pred cCCCCcc
Q 035392 22 GACNHAF 28 (59)
Q Consensus 22 ~~C~H~f 28 (59)
+.|||.|
T Consensus 31 ~~Cg~tf 37 (47)
T PF04606_consen 31 PECGHTF 37 (47)
T ss_pred CcCCCEE
Confidence 3689887
No 241
>PF12907 zf-met2: Zinc-binding
Probab=30.06 E-value=12 Score=16.70 Aligned_cols=10 Identities=30% Similarity=1.052 Sum_probs=6.7
Q ss_pred CCCccccccc
Q 035392 44 AHCPMCRREW 53 (59)
Q Consensus 44 ~~CP~Cr~~~ 53 (59)
..|++||+.+
T Consensus 2 i~C~iC~qtF 11 (40)
T PF12907_consen 2 IICKICRQTF 11 (40)
T ss_pred cCcHHhhHHH
Confidence 3688888544
No 242
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=29.78 E-value=26 Score=16.07 Aligned_cols=9 Identities=33% Similarity=0.907 Sum_probs=5.7
Q ss_pred CCCcccccc
Q 035392 44 AHCPMCRRE 52 (59)
Q Consensus 44 ~~CP~Cr~~ 52 (59)
-.||+|...
T Consensus 35 w~CP~C~a~ 43 (47)
T PF00301_consen 35 WVCPVCGAP 43 (47)
T ss_dssp -B-TTTSSB
T ss_pred CcCcCCCCc
Confidence 479999865
No 243
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=29.62 E-value=20 Score=18.35 Aligned_cols=21 Identities=19% Similarity=0.536 Sum_probs=15.3
Q ss_pred cHHHHHHHHHhCCCCCCCccccc
Q 035392 29 HLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 29 h~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
|..|.+.|+..+- ..|..|-.
T Consensus 3 C~~C~~~~F~~Ki--GRC~rCM~ 23 (77)
T PF12292_consen 3 CNDCQESWFWQKI--GRCQRCMW 23 (77)
T ss_pred hhhHHHHHHHHHh--ccHHHHHH
Confidence 5678888888774 56877754
No 244
>TIGR01367 pyrE_Therm orotate phosphoribosyltransferase, Thermus family. This model represents a distinct clade of orotate phosphoribosyltransferases. Members include the experimentally determined example from Thermus aquaticus and additional examples from Caulobacter crescentus, Helicobacter pylori, Mesorhizobium loti, and related species.
Probab=29.48 E-value=28 Score=20.22 Aligned_cols=15 Identities=20% Similarity=0.569 Sum_probs=11.0
Q ss_pred CCCccccccccccCC
Q 035392 44 AHCPMCRREWQFKGS 58 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~~ 58 (59)
..||+|++.+..++.
T Consensus 170 ~~c~~~~~~~~~~~~ 184 (187)
T TIGR01367 170 HECPLCLAGIPAEKP 184 (187)
T ss_pred ccCChhhcCCCCcCC
Confidence 469999987766543
No 245
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=29.44 E-value=13 Score=20.06 Aligned_cols=25 Identities=12% Similarity=0.247 Sum_probs=12.6
Q ss_pred ccHHHHHHHHHhCCCCCCCcccccc
Q 035392 28 FHLHCILKWVNSQTPQAHCPMCRRE 52 (59)
Q Consensus 28 fh~~Ci~~w~~~~~~~~~CP~Cr~~ 52 (59)
+|.+|-..|-........||.|...
T Consensus 73 ~C~~Cg~~~~~~~~~~~~CP~Cgs~ 97 (117)
T PRK00564 73 ECKDCSHVFKPNALDYGVCEKCHSK 97 (117)
T ss_pred EhhhCCCccccCCccCCcCcCCCCC
Confidence 4555544443321111359999864
No 246
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=29.43 E-value=20 Score=20.57 Aligned_cols=11 Identities=36% Similarity=1.035 Sum_probs=8.7
Q ss_pred CCCcccccccc
Q 035392 44 AHCPMCRREWQ 54 (59)
Q Consensus 44 ~~CP~Cr~~~~ 54 (59)
-.||.||+.+.
T Consensus 10 i~CPhCRQ~ip 20 (163)
T TIGR02652 10 IRCPHCRQNIP 20 (163)
T ss_pred CcCchhhcccc
Confidence 57999998764
No 247
>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=29.40 E-value=62 Score=15.59 Aligned_cols=28 Identities=25% Similarity=0.529 Sum_probs=18.1
Q ss_pred CcccccCcCCCCCCeEecCCCCccc-HHHHHHHHHhC
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFH-LHCILKWVNSQ 40 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh-~~Ci~~w~~~~ 40 (59)
..|++|..+... +-.|| .+|-+.|.+.+
T Consensus 4 kHC~~CG~~Ip~--------~~~fCS~~C~~~~~k~q 32 (59)
T PF09889_consen 4 KHCPVCGKPIPP--------DESFCSPKCREEYRKRQ 32 (59)
T ss_pred CcCCcCCCcCCc--------chhhhCHHHHHHHHHHH
Confidence 468899543322 23588 58988887764
No 248
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=29.36 E-value=30 Score=18.77 Aligned_cols=23 Identities=26% Similarity=0.499 Sum_probs=14.3
Q ss_pred cCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 22 GACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 22 ~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
+.|||+|-.. +.-+.+ -||.|.-
T Consensus 6 trCG~vf~~g--~~~il~-----GCp~CG~ 28 (112)
T COG3364 6 TRCGEVFDDG--SEEILS-----GCPKCGC 28 (112)
T ss_pred cccccccccc--cHHHHc-----cCccccc
Confidence 5889988764 332332 4888864
No 249
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=29.21 E-value=52 Score=20.76 Aligned_cols=49 Identities=18% Similarity=0.325 Sum_probs=28.8
Q ss_pred CcccccCcCC-CCCCeE----ecCCCCcccHHHHHHHHHh-CCC-----CCCCccccccc
Q 035392 5 GCCPDCKLPG-DDCPLI----WGACNHAFHLHCILKWVNS-QTP-----QAHCPMCRREW 53 (59)
Q Consensus 5 ~~C~IC~~~~-~~~~~~----~~~C~H~fh~~Ci~~w~~~-~~~-----~~~CP~Cr~~~ 53 (59)
..|.+|.... ...... -..|+-.+|..|+..-+.. ..+ ...||.|++.+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 4677885332 111111 1357778999999994433 221 25799998743
No 250
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=29.05 E-value=58 Score=14.30 Aligned_cols=23 Identities=13% Similarity=0.216 Sum_probs=13.6
Q ss_pred ccccCcCCCCCCeEecCCCCcccHH
Q 035392 7 CPDCKLPGDDCPLIWGACNHAFHLH 31 (59)
Q Consensus 7 C~IC~~~~~~~~~~~~~C~H~fh~~ 31 (59)
|..|.... + ..+-+.|+|+++..
T Consensus 2 C~~C~~~~-~-l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIE-N-LWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcC-C-eEEecCCCCcccCC
Confidence 56664322 2 44557888888843
No 251
>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=28.86 E-value=31 Score=18.95 Aligned_cols=14 Identities=14% Similarity=0.501 Sum_probs=11.4
Q ss_pred CCCccccccccccC
Q 035392 44 AHCPMCRREWQFKG 57 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~ 57 (59)
..|+.|++++..+.
T Consensus 86 D~CM~C~~pLTLd~ 99 (114)
T PF11023_consen 86 DACMHCKEPLTLDP 99 (114)
T ss_pred hccCcCCCcCccCc
Confidence 58999999987654
No 252
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=28.84 E-value=21 Score=20.44 Aligned_cols=11 Identities=36% Similarity=1.023 Sum_probs=8.7
Q ss_pred CCCcccccccc
Q 035392 44 AHCPMCRREWQ 54 (59)
Q Consensus 44 ~~CP~Cr~~~~ 54 (59)
-.||.||+.+.
T Consensus 7 i~CPhCRq~ip 17 (161)
T PF09654_consen 7 IQCPHCRQTIP 17 (161)
T ss_pred CcCchhhcccc
Confidence 57999998664
No 253
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=28.75 E-value=62 Score=20.44 Aligned_cols=27 Identities=30% Similarity=0.484 Sum_probs=11.0
Q ss_pred CcccHHHHHHHHHhCCC-CCCCcccccc
Q 035392 26 HAFHLHCILKWVNSQTP-QAHCPMCRRE 52 (59)
Q Consensus 26 H~fh~~Ci~~w~~~~~~-~~~CP~Cr~~ 52 (59)
|.||..|..+-.....+ ...||.|+..
T Consensus 111 ~RFCg~CG~~~~~~~~g~~~~C~~cg~~ 138 (279)
T COG2816 111 HRFCGRCGTKTYPREGGWARVCPKCGHE 138 (279)
T ss_pred CcCCCCCCCcCccccCceeeeCCCCCCc
Confidence 44444444443222111 1345555543
No 254
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=28.40 E-value=10 Score=16.67 Aligned_cols=7 Identities=29% Similarity=0.752 Sum_probs=2.9
Q ss_pred CcccccC
Q 035392 5 GCCPDCK 11 (59)
Q Consensus 5 ~~C~IC~ 11 (59)
+.|+||.
T Consensus 30 ~~C~IC~ 36 (41)
T PF02132_consen 30 DPCEICS 36 (41)
T ss_dssp SS-HHHH
T ss_pred CcCcCCC
Confidence 4455553
No 255
>PF13465 zf-H2C2_2: Zinc-finger double domain; PDB: 2EN7_A 1TF6_A 1TF3_A 2ELT_A 2EOS_A 2EN2_A 2DMD_A 2WBS_A 2WBU_A 2EM5_A ....
Probab=28.26 E-value=20 Score=13.93 Aligned_cols=11 Identities=27% Similarity=1.044 Sum_probs=7.9
Q ss_pred CCCcccccccc
Q 035392 44 AHCPMCRREWQ 54 (59)
Q Consensus 44 ~~CP~Cr~~~~ 54 (59)
..||.|.+.+.
T Consensus 15 ~~C~~C~k~F~ 25 (26)
T PF13465_consen 15 YKCPYCGKSFS 25 (26)
T ss_dssp EEESSSSEEES
T ss_pred CCCCCCcCeeC
Confidence 47999987653
No 256
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=27.88 E-value=19 Score=17.38 Aligned_cols=15 Identities=33% Similarity=0.902 Sum_probs=10.9
Q ss_pred CCCccccccccccCC
Q 035392 44 AHCPMCRREWQFKGS 58 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~~ 58 (59)
-.||.|++.+..+++
T Consensus 54 L~Cp~c~r~YPI~dG 68 (68)
T PF03966_consen 54 LICPECGREYPIRDG 68 (68)
T ss_dssp EEETTTTEEEEEETT
T ss_pred EEcCCCCCEEeCCCC
Confidence 468999888776553
No 257
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=27.68 E-value=56 Score=19.69 Aligned_cols=25 Identities=28% Similarity=0.380 Sum_probs=14.3
Q ss_pred CcccccCcCCC-CCCeEecCCCCccc
Q 035392 5 GCCPDCKLPGD-DCPLIWGACNHAFH 29 (59)
Q Consensus 5 ~~C~IC~~~~~-~~~~~~~~C~H~fh 29 (59)
..||+|..+.. ......-.-+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCCc
Confidence 47999986543 11222234578884
No 258
>KOG0230 consensus Phosphatidylinositol-4-phosphate 5-kinase and related FYVE finger-containing proteins [Signal transduction mechanisms]
Probab=27.62 E-value=26 Score=27.03 Aligned_cols=17 Identities=24% Similarity=0.643 Sum_probs=14.2
Q ss_pred cCCCCcccHHHHHHHHH
Q 035392 22 GACNHAFHLHCILKWVN 38 (59)
Q Consensus 22 ~~C~H~fh~~Ci~~w~~ 38 (59)
..|+|.||++|+....-
T Consensus 879 ~~C~Hsl~rD~L~ffgf 895 (1598)
T KOG0230|consen 879 ASCGHSLHRDCLRFFGF 895 (1598)
T ss_pred cCCcchhhhhhhhhccc
Confidence 47999999999987643
No 259
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=27.45 E-value=13 Score=23.89 Aligned_cols=29 Identities=24% Similarity=0.549 Sum_probs=15.6
Q ss_pred CcccccCcCCCCCCeEecCCCCcccHHHH
Q 035392 5 GCCPDCKLPGDDCPLIWGACNHAFHLHCI 33 (59)
Q Consensus 5 ~~C~IC~~~~~~~~~~~~~C~H~fh~~Ci 33 (59)
..|+-|.+-.-...++.-.=.|+||.+|+
T Consensus 93 TKCsaC~~GIpPtqVVRkAqd~VYHl~CF 121 (383)
T KOG4577|consen 93 TKCSACQEGIPPTQVVRKAQDFVYHLHCF 121 (383)
T ss_pred CcchhhcCCCChHHHHHHhhcceeehhhh
Confidence 34666643222222333345688998885
No 260
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.39 E-value=80 Score=16.92 Aligned_cols=35 Identities=11% Similarity=0.172 Sum_probs=21.8
Q ss_pred CcccccCcCCCC-CCeEecCCCCcccHHHHHHHHHhC
Q 035392 5 GCCPDCKLPGDD-CPLIWGACNHAFHLHCILKWVNSQ 40 (59)
Q Consensus 5 ~~C~IC~~~~~~-~~~~~~~C~H~fh~~Ci~~w~~~~ 40 (59)
-.|.||-.+..+ ....-.+ .-..|++|+.+-...+
T Consensus 7 wkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~~k 42 (103)
T COG4847 7 WKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKRKK 42 (103)
T ss_pred eeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHhcC
Confidence 469999654332 2222234 6678999998876554
No 261
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=27.32 E-value=30 Score=15.22 Aligned_cols=13 Identities=23% Similarity=0.621 Sum_probs=9.3
Q ss_pred CCCcccccccccc
Q 035392 44 AHCPMCRREWQFK 56 (59)
Q Consensus 44 ~~CP~Cr~~~~~~ 56 (59)
.+||.|...+...
T Consensus 14 ~~C~~CgM~Y~~~ 26 (41)
T PF13878_consen 14 TTCPTCGMLYSPG 26 (41)
T ss_pred cCCCCCCCEECCC
Confidence 5799998766543
No 262
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=27.09 E-value=7.3 Score=24.69 Aligned_cols=49 Identities=22% Similarity=0.543 Sum_probs=31.9
Q ss_pred cccccCc-CCCCCCeEecCCCCcccHHHHHHHHHhCC-CCCCCcccccccc
Q 035392 6 CCPDCKL-PGDDCPLIWGACNHAFHLHCILKWVNSQT-PQAHCPMCRREWQ 54 (59)
Q Consensus 6 ~C~IC~~-~~~~~~~~~~~C~H~fh~~Ci~~w~~~~~-~~~~CP~Cr~~~~ 54 (59)
.|+||-. +.+++.+....|.--||.-||..-+.... +.-+|.+|-..+.
T Consensus 283 ~csicgtsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~~~ 333 (336)
T KOG1244|consen 283 YCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEELK 333 (336)
T ss_pred eeccccCcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHHHh
Confidence 4788863 44555555567888899999887665432 1246888866544
No 263
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.03 E-value=46 Score=23.68 Aligned_cols=41 Identities=20% Similarity=0.451 Sum_probs=26.2
Q ss_pred CcccccCcCCC--CCCeEecCCCCcccHHHHHHHHHhCCCCCCCccccc
Q 035392 5 GCCPDCKLPGD--DCPLIWGACNHAFHLHCILKWVNSQTPQAHCPMCRR 51 (59)
Q Consensus 5 ~~C~IC~~~~~--~~~~~~~~C~H~fh~~Ci~~w~~~~~~~~~CP~Cr~ 51 (59)
.+|-+|..+.+ ......+.|+-.||.+|- +.-. +.||+|--
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c~---~~~~---~~~~vC~~ 697 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVACS---LDYA---SISEVCGP 697 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhhh---hhhh---ccCcccCc
Confidence 46888875433 123334689999999874 3333 56999953
No 264
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=26.48 E-value=45 Score=22.14 Aligned_cols=32 Identities=13% Similarity=0.237 Sum_probs=21.1
Q ss_pred ecCCCCccc-----HHHHHHHHHhCCCCCCCcccccc
Q 035392 21 WGACNHAFH-----LHCILKWVNSQTPQAHCPMCRRE 52 (59)
Q Consensus 21 ~~~C~H~fh-----~~Ci~~w~~~~~~~~~CP~Cr~~ 52 (59)
.+.||-.|= ..=-.+||+.+.....||.||-+
T Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (417)
T PRK09537 39 EMDCGERLTVRNSRSSRTARALRHHKYRKTCKRCRVS 75 (417)
T ss_pred EEccCceEEEEcCcccHHHHHHhhchhhccCCCCCCC
Confidence 356664432 22356799988767789999853
No 265
>PF13811 DUF4186: Domain of unknown function (DUF4186)
Probab=26.29 E-value=41 Score=18.36 Aligned_cols=14 Identities=21% Similarity=0.482 Sum_probs=11.3
Q ss_pred cccHHHHHHHHHhC
Q 035392 27 AFHLHCILKWVNSQ 40 (59)
Q Consensus 27 ~fh~~Ci~~w~~~~ 40 (59)
.-|+.||.+|-.-.
T Consensus 75 tCCRgCL~KWH~Ip 88 (111)
T PF13811_consen 75 TCCRGCLEKWHGIP 88 (111)
T ss_pred cchHHHHHHHhCCC
Confidence 46899999997654
No 266
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=25.95 E-value=27 Score=15.59 Aligned_cols=31 Identities=19% Similarity=0.276 Sum_probs=19.4
Q ss_pred CcccccCcCC---CCCCeEecCCCCcccHHHHHH
Q 035392 5 GCCPDCKLPG---DDCPLIWGACNHAFHLHCILK 35 (59)
Q Consensus 5 ~~C~IC~~~~---~~~~~~~~~C~H~fh~~Ci~~ 35 (59)
..|.+|.... ......-..|+-..|.+|+..
T Consensus 12 ~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 12 TYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp EB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 4588886543 334455568889999999754
No 267
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=25.56 E-value=46 Score=19.62 Aligned_cols=30 Identities=17% Similarity=0.514 Sum_probs=17.4
Q ss_pred cccccCcC----CCCCCeEecCCCCcccHHHHHH
Q 035392 6 CCPDCKLP----GDDCPLIWGACNHAFHLHCILK 35 (59)
Q Consensus 6 ~C~IC~~~----~~~~~~~~~~C~H~fh~~Ci~~ 35 (59)
+|..|... ..+..|.--.|.-+||+.||..
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~ 34 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGP 34 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCC
Confidence 36667422 1222333447778899988754
No 268
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=25.41 E-value=46 Score=22.50 Aligned_cols=50 Identities=24% Similarity=0.551 Sum_probs=29.5
Q ss_pred CCcccccCc--CCC-CCCeEecCCCCcccHHHHHHHHHhCC---C--CCCCccccccc
Q 035392 4 DGCCPDCKL--PGD-DCPLIWGACNHAFHLHCILKWVNSQT---P--QAHCPMCRREW 53 (59)
Q Consensus 4 ~~~C~IC~~--~~~-~~~~~~~~C~H~fh~~Ci~~w~~~~~---~--~~~CP~Cr~~~ 53 (59)
+..|.+|.. +.. ...+..-.|+-.||..|.+....-.. . .-.|-+|....
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 456999962 222 23455568889999999765432210 0 12577776543
No 269
>PF14369 zf-RING_3: zinc-finger
Probab=24.74 E-value=38 Score=14.40 Aligned_cols=10 Identities=30% Similarity=0.966 Sum_probs=7.0
Q ss_pred CCcccccccc
Q 035392 45 HCPMCRREWQ 54 (59)
Q Consensus 45 ~CP~Cr~~~~ 54 (59)
.||.|...|.
T Consensus 23 ~CP~C~~gFv 32 (35)
T PF14369_consen 23 ACPRCHGGFV 32 (35)
T ss_pred CCcCCCCcEe
Confidence 4999976553
No 270
>smart00355 ZnF_C2H2 zinc finger.
Probab=24.59 E-value=40 Score=11.86 Aligned_cols=10 Identities=30% Similarity=1.135 Sum_probs=6.0
Q ss_pred CCcccccccc
Q 035392 45 HCPMCRREWQ 54 (59)
Q Consensus 45 ~CP~Cr~~~~ 54 (59)
.|+.|...+.
T Consensus 2 ~C~~C~~~f~ 11 (26)
T smart00355 2 RCPECGKVFK 11 (26)
T ss_pred CCCCCcchhC
Confidence 4677766543
No 271
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=24.13 E-value=47 Score=18.18 Aligned_cols=12 Identities=25% Similarity=0.520 Sum_probs=9.2
Q ss_pred eEecCCCCcccH
Q 035392 19 LIWGACNHAFHL 30 (59)
Q Consensus 19 ~~~~~C~H~fh~ 30 (59)
++.-.|||.|+.
T Consensus 24 ~vkc~CGh~f~d 35 (112)
T PF08882_consen 24 VVKCDCGHEFCD 35 (112)
T ss_pred eeeccCCCeecC
Confidence 444589999986
No 272
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=24.12 E-value=73 Score=18.05 Aligned_cols=14 Identities=21% Similarity=0.620 Sum_probs=10.8
Q ss_pred CCCccccccccccC
Q 035392 44 AHCPMCRREWQFKG 57 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~ 57 (59)
..||.|..++...+
T Consensus 129 F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 129 FTCPRCGAMLDYLD 142 (158)
T ss_pred CcCCCCCCEeeecc
Confidence 78999988876544
No 273
>PF13966 zf-RVT: zinc-binding in reverse transcriptase
Probab=24.01 E-value=95 Score=15.33 Aligned_cols=10 Identities=40% Similarity=0.820 Sum_probs=6.7
Q ss_pred CCCcccccCc
Q 035392 3 FDGCCPDCKL 12 (59)
Q Consensus 3 ~~~~C~IC~~ 12 (59)
.+..|++|..
T Consensus 58 ~~~~C~~C~~ 67 (86)
T PF13966_consen 58 VDPICPLCGN 67 (86)
T ss_pred cCCccccCCC
Confidence 4567888854
No 274
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=23.81 E-value=73 Score=15.04 Aligned_cols=28 Identities=14% Similarity=0.387 Sum_probs=13.1
Q ss_pred CcccccCcCCC----CCCeEecCCCCcccHHH
Q 035392 5 GCCPDCKLPGD----DCPLIWGACNHAFHLHC 32 (59)
Q Consensus 5 ~~C~IC~~~~~----~~~~~~~~C~H~fh~~C 32 (59)
.+|+.|..... ........||+.++++-
T Consensus 29 q~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~ 60 (69)
T PF07282_consen 29 QTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDV 60 (69)
T ss_pred cCccCcccccccccccceEEcCCCCCEECcHH
Confidence 45777753211 12222334666666553
No 275
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=23.13 E-value=79 Score=18.57 Aligned_cols=14 Identities=21% Similarity=0.567 Sum_probs=10.8
Q ss_pred CCCccccccccccC
Q 035392 44 AHCPMCRREWQFKG 57 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~ 57 (59)
.+||.|...+..-+
T Consensus 133 F~Cp~Cg~~L~~~d 146 (176)
T COG1675 133 FTCPKCGEDLEEYD 146 (176)
T ss_pred CCCCCCCchhhhcc
Confidence 68999998876543
No 276
>smart00746 TRASH metallochaperone-like domain.
Probab=23.09 E-value=45 Score=12.48 Aligned_cols=9 Identities=22% Similarity=0.959 Sum_probs=5.7
Q ss_pred Ccccccccc
Q 035392 46 CPMCRREWQ 54 (59)
Q Consensus 46 CP~Cr~~~~ 54 (59)
||+|...+.
T Consensus 1 c~~C~~~~~ 9 (39)
T smart00746 1 CSFCGKDIY 9 (39)
T ss_pred CCCCCCCcc
Confidence 667766654
No 277
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=23.00 E-value=16 Score=20.86 Aligned_cols=25 Identities=32% Similarity=0.684 Sum_probs=14.5
Q ss_pred ccHHHHHHHHHhCC-CCCCCcccccc
Q 035392 28 FHLHCILKWVNSQT-PQAHCPMCRRE 52 (59)
Q Consensus 28 fh~~Ci~~w~~~~~-~~~~CP~Cr~~ 52 (59)
||..||+.=|..-. +.=.||.|...
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~ 27 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVE 27 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCC
Confidence 66677666554321 12368888754
No 278
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.99 E-value=35 Score=17.68 Aligned_cols=11 Identities=45% Similarity=1.235 Sum_probs=8.9
Q ss_pred CCCcccccccc
Q 035392 44 AHCPMCRREWQ 54 (59)
Q Consensus 44 ~~CP~Cr~~~~ 54 (59)
..||.||..|-
T Consensus 22 D~CPrCrGVWL 32 (88)
T COG3809 22 DYCPRCRGVWL 32 (88)
T ss_pred eeCCccccEee
Confidence 57999998764
No 279
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=22.96 E-value=1e+02 Score=20.31 Aligned_cols=34 Identities=24% Similarity=0.507 Sum_probs=23.3
Q ss_pred CCcccccCcCCCCCCeEecCCC--CcccHHHHHHHHHh
Q 035392 4 DGCCPDCKLPGDDCPLIWGACN--HAFHLHCILKWVNS 39 (59)
Q Consensus 4 ~~~C~IC~~~~~~~~~~~~~C~--H~fh~~Ci~~w~~~ 39 (59)
+.+|..|- ... .++...+|+ |+-|.+|+..+-.+
T Consensus 221 ni~C~~Ct-dv~-~~vlvf~Cns~HvtC~dCFr~yc~~ 256 (446)
T KOG0006|consen 221 NITCITCT-DVR-SPVLVFQCNSRHVTCLDCFRLYCVT 256 (446)
T ss_pred cceeEEec-CCc-cceEEEecCCceeehHHhhhhHhhh
Confidence 34677773 323 356667998 99999999876554
No 280
>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=22.54 E-value=18 Score=17.22 Aligned_cols=12 Identities=17% Similarity=0.946 Sum_probs=5.3
Q ss_pred CCCccccccccc
Q 035392 44 AHCPMCRREWQF 55 (59)
Q Consensus 44 ~~CP~Cr~~~~~ 55 (59)
..|.+|.++|.+
T Consensus 10 ~~C~~C~~~F~~ 21 (69)
T PF01363_consen 10 SNCMICGKKFSL 21 (69)
T ss_dssp SB-TTT--B-BS
T ss_pred CcCcCcCCcCCC
Confidence 567777777654
No 281
>PF06054 CoiA: Competence protein CoiA-like family; InterPro: IPR010330 Competence is the ability of a cell to take up exogenous DNA from its environment, resulting in transformation. It is widespread among bacteria and is probably an important mechanism for the horizontal transfer of genes. Cells that take up DNA inevitably acquire the nucleotides the DNA consists of, and, because nucleotides are needed for DNA and RNA synthesis and are expensive to synthesise, these may make a significant contribution to the cell's energy budget []. The lateral gene transfer caused by competence also contributes to the genetic diversity that makes evolution possible. DNA usually becomes available by the death and lysis of other cells. Competent bacteria use components of extracellular filaments called type 4 pili to create pores in their membranes and pull DNA through the pores into the cytoplasm. This process, including the development of competence and the expression of the uptake machinery, is regulated in response to cell-cell signalling and/or nutritional conditions []. Many of the members of this family are described as transcription factors. CoiA falls within a competence-specific operon in Streptococcus. CoiA is an uncharacterised protein.
Probab=22.38 E-value=37 Score=21.94 Aligned_cols=16 Identities=25% Similarity=0.526 Sum_probs=12.9
Q ss_pred CCCCccccccccccCC
Q 035392 43 QAHCPMCRREWQFKGS 58 (59)
Q Consensus 43 ~~~CP~Cr~~~~~~~~ 58 (59)
...||.|+.++.++.+
T Consensus 30 ~~~CP~C~~~v~lk~G 45 (375)
T PF06054_consen 30 KYFCPGCGEPVILKKG 45 (375)
T ss_pred cEECCCCCCeeEEEEc
Confidence 3689999999887665
No 282
>KOG3816 consensus Cell differentiation regulator of the Headcase family [Signal transduction mechanisms]
Probab=22.32 E-value=42 Score=22.54 Aligned_cols=16 Identities=31% Similarity=1.009 Sum_probs=13.8
Q ss_pred CCCCcccHHHHHHHHH
Q 035392 23 ACNHAFHLHCILKWVN 38 (59)
Q Consensus 23 ~C~H~fh~~Ci~~w~~ 38 (59)
+|+-..|++|+..|-.
T Consensus 105 ~~~~~MH~qCF~~WEs 120 (526)
T KOG3816|consen 105 PCSTWMHLQCFYEWES 120 (526)
T ss_pred ChhhHHHHHHHHHHHH
Confidence 7888999999999943
No 283
>COG0267 RpmG Ribosomal protein L33 [Translation, ribosomal structure and biogenesis]
Probab=22.32 E-value=40 Score=15.77 Aligned_cols=15 Identities=33% Similarity=0.802 Sum_probs=10.8
Q ss_pred CCCccccccccccCC
Q 035392 44 AHCPMCRREWQFKGS 58 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~~ 58 (59)
..||.||+-..+.+.
T Consensus 35 Kycp~~~khtlhkE~ 49 (50)
T COG0267 35 KYCPVCRKHTLHKET 49 (50)
T ss_pred ecCcccccEEEEeec
Confidence 479999987666543
No 284
>PRK00595 rpmG 50S ribosomal protein L33; Validated
Probab=21.96 E-value=43 Score=15.69 Aligned_cols=15 Identities=20% Similarity=0.208 Sum_probs=10.6
Q ss_pred CCCccccccccccCC
Q 035392 44 AHCPMCRREWQFKGS 58 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~~ 58 (59)
..||.|++-..+.++
T Consensus 38 Kycp~~~khtlhkE~ 52 (53)
T PRK00595 38 KYDPVLRKHVLHKET 52 (53)
T ss_pred CcCCCCCCEEeEEec
Confidence 479999987665543
No 285
>COG5595 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]
Probab=21.81 E-value=49 Score=20.17 Aligned_cols=14 Identities=43% Similarity=1.289 Sum_probs=11.9
Q ss_pred CCCccccccccccC
Q 035392 44 AHCPMCRREWQFKG 57 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~ 57 (59)
..||.|.+.|.+++
T Consensus 219 r~CPsC~k~Wqlk~ 232 (256)
T COG5595 219 RCCPSCGKDWQLKN 232 (256)
T ss_pred CCCCcccccceecc
Confidence 57999999998875
No 286
>PF02961 BAF: Barrier to autointegration factor; InterPro: IPR004122 Barrier-to-autointegration factor (BAF) is an essential protein that is highly conserved in metazoan evolution, and which may act as a DNA-bridging protein []. BAF binds directly to double-stranded DNA, to transcription activators, and to inner nuclear membrane proteins, including lamin A filament proteins that anchor nuclear-pore complexes in place, and nuclear LEM-domain proteins that bind to laminins filaments and chromatin. New findings suggest that BAF has structural roles in nuclear assembly and chromatin organisation, represses gene expression and might interlink chromatin structure, nuclear architecture and gene regulation in metazoans []. BAF can be exploited by retroviruses to act as a host component of pre-integration complexes, which promote the integration of the retroviral DNA into the host chromosome by preventing autointegration of retroviral DNA []. BAF might contribute to the assembly or activity of retroviral pre-integration complexes through direct binding to the retroviral proteins p55 Gag and matrix, as well as to DNA.; GO: 0003677 DNA binding; PDB: 2ODG_A 2BZF_A 2EZX_B 2EZY_B 1QCK_B 1CI4_B 2EZZ_B.
Probab=21.78 E-value=73 Score=16.73 Aligned_cols=11 Identities=18% Similarity=0.764 Sum_probs=7.7
Q ss_pred ccHHHHHHHHH
Q 035392 28 FHLHCILKWVN 38 (59)
Q Consensus 28 fh~~Ci~~w~~ 38 (59)
=|..||.+|..
T Consensus 77 dcy~cL~eWc~ 87 (89)
T PF02961_consen 77 DCYNCLKEWCD 87 (89)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 46678888864
No 287
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=21.41 E-value=28 Score=19.51 Aligned_cols=27 Identities=15% Similarity=0.207 Sum_probs=14.3
Q ss_pred CcccccCc---CCCCCCeEecCCCCcccHH
Q 035392 5 GCCPDCKL---PGDDCPLIWGACNHAFHLH 31 (59)
Q Consensus 5 ~~C~IC~~---~~~~~~~~~~~C~H~fh~~ 31 (59)
.+|+-|.. .....|++...||..|-..
T Consensus 10 r~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 45666642 2233455556666666544
No 288
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=21.39 E-value=65 Score=20.12 Aligned_cols=14 Identities=36% Similarity=1.189 Sum_probs=11.7
Q ss_pred CCCccccccccccC
Q 035392 44 AHCPMCRREWQFKG 57 (59)
Q Consensus 44 ~~CP~Cr~~~~~~~ 57 (59)
..||.|...|.++.
T Consensus 221 r~CP~Cg~~W~L~~ 234 (258)
T PF10071_consen 221 RKCPSCGGDWRLKE 234 (258)
T ss_pred CCCCCCCCccccCC
Confidence 67999999998764
No 289
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=21.20 E-value=90 Score=13.34 Aligned_cols=31 Identities=23% Similarity=0.283 Sum_probs=17.0
Q ss_pred CcccccCcCCC---CCCeEecCCCCcccHHHHHH
Q 035392 5 GCCPDCKLPGD---DCPLIWGACNHAFHLHCILK 35 (59)
Q Consensus 5 ~~C~IC~~~~~---~~~~~~~~C~H~fh~~Ci~~ 35 (59)
..|.+|..... .....-..|+=..|.+|..+
T Consensus 12 ~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 12 TFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 35777754322 12233346777777777654
No 290
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=21.05 E-value=37 Score=14.46 Aligned_cols=11 Identities=27% Similarity=0.751 Sum_probs=4.5
Q ss_pred CCccccccccc
Q 035392 45 HCPMCRREWQF 55 (59)
Q Consensus 45 ~CP~Cr~~~~~ 55 (59)
.||.|-.++..
T Consensus 2 fC~~CG~~l~~ 12 (34)
T PF14803_consen 2 FCPQCGGPLER 12 (34)
T ss_dssp B-TTT--B-EE
T ss_pred ccccccChhhh
Confidence 47777776654
No 291
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=20.62 E-value=65 Score=13.05 Aligned_cols=7 Identities=43% Similarity=1.398 Sum_probs=3.3
Q ss_pred CCccccc
Q 035392 45 HCPMCRR 51 (59)
Q Consensus 45 ~CP~Cr~ 51 (59)
.||.|..
T Consensus 23 ~C~~Cg~ 29 (32)
T PF09297_consen 23 RCPSCGH 29 (32)
T ss_dssp EESSSS-
T ss_pred ECCCCcC
Confidence 4555543
No 292
>PRK00076 recR recombination protein RecR; Reviewed
Probab=20.51 E-value=1.1e+02 Score=18.26 Aligned_cols=14 Identities=29% Similarity=0.472 Sum_probs=9.1
Q ss_pred CCCcccccCcCCCC
Q 035392 3 FDGCCPDCKLPGDD 16 (59)
Q Consensus 3 ~~~~C~IC~~~~~~ 16 (59)
.++.|+||.++..+
T Consensus 64 e~~~C~IC~d~~Rd 77 (196)
T PRK00076 64 EQDPCEICSDPRRD 77 (196)
T ss_pred CCCcCCCCCCCCCC
Confidence 35678888765443
Done!