Query 045184
Match_columns 91
No_of_seqs 167 out of 1444
Neff 9.7
Searched_HMMs 46136
Date Fri Mar 29 10:39:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045184.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045184hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.7 6.1E-18 1.3E-22 81.0 1.7 43 42-85 2-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.7 4.2E-17 9.2E-22 106.1 5.1 49 41-90 230-279 (348)
3 PHA02929 N1R/p28-like protein; 99.6 2E-15 4.4E-20 94.4 4.5 53 37-89 171-227 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.5 4.8E-15 1E-19 77.9 3.4 45 41-85 20-73 (73)
5 PLN03208 E3 ubiquitin-protein 99.5 2.9E-14 6.2E-19 86.4 4.6 50 37-90 15-80 (193)
6 PF13920 zf-C3HC4_3: Zinc fing 99.5 1.5E-14 3.3E-19 70.9 2.1 46 40-89 2-48 (50)
7 COG5540 RING-finger-containing 99.5 4.2E-14 9.1E-19 90.3 2.8 51 39-90 322-373 (374)
8 COG5243 HRD1 HRD ubiquitin lig 99.4 1.8E-13 3.9E-18 89.6 4.5 53 37-89 284-345 (491)
9 KOG0317 Predicted E3 ubiquitin 99.4 8.2E-14 1.8E-18 88.3 2.3 50 36-89 235-284 (293)
10 PF15227 zf-C3HC4_4: zinc fing 99.4 1.6E-13 3.5E-18 64.8 2.4 38 43-84 1-42 (42)
11 PF13923 zf-C3HC4_2: Zinc fing 99.4 3.4E-13 7.5E-18 62.8 3.0 39 43-84 1-39 (39)
12 PHA02926 zinc finger-like prot 99.4 3.7E-13 8E-18 82.9 3.5 52 37-88 167-229 (242)
13 KOG0823 Predicted E3 ubiquitin 99.4 4E-13 8.7E-18 82.9 3.4 50 37-90 44-96 (230)
14 KOG0320 Predicted E3 ubiquitin 99.3 8.5E-13 1.8E-17 78.7 3.5 50 38-89 129-178 (187)
15 cd00162 RING RING-finger (Real 99.3 1.5E-12 3.4E-17 61.6 3.4 44 42-88 1-45 (45)
16 PF14634 zf-RING_5: zinc-RING 99.3 2.9E-12 6.3E-17 61.1 3.4 44 42-86 1-44 (44)
17 PF00097 zf-C3HC4: Zinc finger 99.3 2.1E-12 4.7E-17 60.6 2.6 39 43-84 1-41 (41)
18 PF12861 zf-Apc11: Anaphase-pr 99.3 4.8E-12 1E-16 67.5 3.7 50 40-89 21-82 (85)
19 smart00504 Ubox Modified RING 99.2 1.2E-11 2.6E-16 63.0 3.6 45 41-89 2-46 (63)
20 TIGR00599 rad18 DNA repair pro 99.2 1.3E-11 2.8E-16 82.3 4.2 51 35-89 21-71 (397)
21 KOG0802 E3 ubiquitin ligase [P 99.2 9.8E-12 2.1E-16 86.1 2.1 52 38-89 289-341 (543)
22 smart00184 RING Ring finger. E 99.2 3.4E-11 7.3E-16 55.1 3.3 38 43-84 1-39 (39)
23 PF13445 zf-RING_UBOX: RING-ty 99.1 3.4E-11 7.3E-16 57.0 2.3 34 43-77 1-34 (43)
24 KOG0287 Postreplication repair 99.0 8.5E-11 1.8E-15 76.5 2.0 49 38-90 21-69 (442)
25 COG5574 PEX10 RING-finger-cont 99.0 2.1E-10 4.5E-15 72.2 2.3 46 39-88 214-261 (271)
26 COG5432 RAD18 RING-finger-cont 98.9 4.6E-10 9.9E-15 71.9 2.1 48 38-89 23-70 (391)
27 KOG2164 Predicted E3 ubiquitin 98.9 5.1E-10 1.1E-14 75.9 2.1 46 40-89 186-236 (513)
28 TIGR00570 cdk7 CDK-activating 98.9 1.7E-09 3.7E-14 70.0 3.5 51 39-89 2-54 (309)
29 COG5194 APC11 Component of SCF 98.9 1.8E-09 3.9E-14 56.6 2.9 49 41-89 21-81 (88)
30 KOG0828 Predicted E3 ubiquitin 98.9 1.3E-09 2.9E-14 73.9 2.8 54 37-90 568-635 (636)
31 KOG0804 Cytoplasmic Zn-finger 98.8 2.6E-09 5.6E-14 71.6 2.2 50 37-88 172-221 (493)
32 KOG4265 Predicted E3 ubiquitin 98.8 2.9E-09 6.4E-14 69.6 2.4 49 37-89 287-336 (349)
33 PF04564 U-box: U-box domain; 98.8 3.6E-09 7.9E-14 55.5 2.2 47 39-89 3-50 (73)
34 KOG2177 Predicted E3 ubiquitin 98.7 5.5E-09 1.2E-13 66.5 2.1 46 37-86 10-55 (386)
35 KOG2930 SCF ubiquitin ligase, 98.7 1E-08 2.2E-13 56.3 2.5 47 41-87 47-106 (114)
36 KOG4172 Predicted E3 ubiquitin 98.7 5.1E-09 1.1E-13 51.2 0.7 46 40-89 7-54 (62)
37 KOG1493 Anaphase-promoting com 98.7 4E-09 8.7E-14 54.9 0.3 49 40-88 20-80 (84)
38 PF11793 FANCL_C: FANCL C-term 98.7 2.8E-09 6.1E-14 55.5 -0.4 49 40-88 2-65 (70)
39 smart00744 RINGv The RING-vari 98.7 2.9E-08 6.3E-13 48.2 3.2 42 42-85 1-49 (49)
40 KOG1734 Predicted RING-contain 98.6 1.3E-08 2.7E-13 64.7 1.3 52 36-88 220-280 (328)
41 KOG1039 Predicted E3 ubiquitin 98.6 3.7E-08 8E-13 64.9 3.0 52 37-88 158-220 (344)
42 KOG0824 Predicted E3 ubiquitin 98.6 4.8E-08 1E-12 62.8 2.7 48 39-90 6-54 (324)
43 COG5219 Uncharacterized conser 98.6 2.3E-08 5E-13 72.4 1.3 64 26-89 1455-1523(1525)
44 KOG0827 Predicted E3 ubiquitin 98.5 5.9E-08 1.3E-12 64.3 2.2 45 41-85 5-52 (465)
45 KOG0978 E3 ubiquitin ligase in 98.4 8.3E-08 1.8E-12 67.8 1.4 45 41-89 644-689 (698)
46 PF14835 zf-RING_6: zf-RING of 98.4 4.3E-08 9.3E-13 49.7 -0.1 43 41-88 8-50 (65)
47 KOG4159 Predicted E3 ubiquitin 98.4 2.1E-07 4.5E-12 62.5 2.8 49 38-90 82-130 (398)
48 COG5152 Uncharacterized conser 98.4 2.1E-07 4.6E-12 56.9 2.4 45 39-87 195-239 (259)
49 KOG2879 Predicted E3 ubiquitin 98.4 1.1E-06 2.4E-11 56.0 5.3 54 33-89 232-287 (298)
50 KOG1645 RING-finger-containing 98.3 7.6E-07 1.6E-11 59.5 3.1 48 39-86 3-53 (463)
51 KOG0297 TNF receptor-associate 98.2 7.8E-07 1.7E-11 59.9 1.9 49 37-89 18-67 (391)
52 KOG0311 Predicted E3 ubiquitin 98.2 2.6E-07 5.6E-12 60.7 -0.7 49 38-89 41-90 (381)
53 KOG4445 Uncharacterized conser 98.0 1.2E-06 2.5E-11 56.7 0.5 52 37-89 112-186 (368)
54 KOG4692 Predicted E3 ubiquitin 98.0 1E-05 2.3E-10 53.5 4.3 51 35-89 417-467 (489)
55 KOG3039 Uncharacterized conser 97.9 1E-05 2.2E-10 51.1 3.2 52 39-90 220-271 (303)
56 KOG0825 PHD Zn-finger protein 97.9 2.5E-06 5.4E-11 61.2 0.2 47 42-89 125-171 (1134)
57 KOG1941 Acetylcholine receptor 97.9 5.1E-06 1.1E-10 55.6 1.6 46 40-85 365-412 (518)
58 KOG1002 Nucleotide excision re 97.9 1.1E-05 2.4E-10 55.9 2.8 49 36-88 532-585 (791)
59 KOG1785 Tyrosine kinase negati 97.8 7.2E-06 1.6E-10 55.1 1.4 43 43-89 372-416 (563)
60 PF04641 Rtf2: Rtf2 RING-finge 97.8 3.5E-05 7.7E-10 49.4 4.0 52 37-89 110-161 (260)
61 PF11789 zf-Nse: Zinc-finger o 97.8 1.2E-05 2.5E-10 40.2 1.4 43 38-83 9-53 (57)
62 KOG4275 Predicted E3 ubiquitin 97.7 4.1E-06 8.9E-11 54.0 -1.3 42 40-89 300-342 (350)
63 KOG1571 Predicted E3 ubiquitin 97.7 4.3E-05 9.4E-10 50.5 3.3 44 38-88 303-346 (355)
64 PF14570 zf-RING_4: RING/Ubox 97.7 4.5E-05 9.9E-10 36.7 2.5 46 43-88 1-47 (48)
65 KOG3970 Predicted E3 ubiquitin 97.7 4.8E-05 1E-09 47.6 3.0 48 40-89 50-105 (299)
66 KOG1952 Transcription factor N 97.7 3.3E-05 7.1E-10 55.9 2.5 49 38-86 189-244 (950)
67 KOG2660 Locus-specific chromos 97.7 1.4E-05 3E-10 52.2 0.6 46 40-88 15-60 (331)
68 KOG1813 Predicted E3 ubiquitin 97.6 1.5E-05 3.2E-10 51.5 0.5 44 41-88 242-285 (313)
69 PF10367 Vps39_2: Vacuolar sor 97.6 2.7E-05 5.9E-10 43.2 1.5 33 38-72 76-108 (109)
70 KOG1940 Zn-finger protein [Gen 97.5 5.2E-05 1.1E-09 48.9 2.0 48 39-86 157-204 (276)
71 PF12906 RINGv: RING-variant d 97.5 0.00011 2.3E-09 35.3 2.1 40 43-84 1-47 (47)
72 PF05883 Baculo_RING: Baculovi 97.5 8.5E-05 1.8E-09 43.0 2.0 42 40-82 26-73 (134)
73 PHA02825 LAP/PHD finger-like p 97.3 0.00044 9.6E-09 41.1 3.6 48 36-88 4-58 (162)
74 PF07800 DUF1644: Protein of u 97.3 0.00024 5.3E-09 42.2 2.4 32 40-75 2-46 (162)
75 COG5236 Uncharacterized conser 97.2 0.0004 8.7E-09 46.2 3.3 48 36-87 57-106 (493)
76 KOG1814 Predicted E3 ubiquitin 97.2 0.00027 5.9E-09 47.7 2.5 36 40-76 184-219 (445)
77 COG5175 MOT2 Transcriptional r 97.2 0.00036 7.7E-09 46.3 2.9 48 42-89 16-64 (480)
78 PHA02862 5L protein; Provision 97.2 0.00045 9.8E-09 40.5 2.9 43 41-88 3-52 (156)
79 KOG4185 Predicted E3 ubiquitin 97.2 0.00029 6.3E-09 45.7 2.3 47 41-87 4-53 (296)
80 KOG4739 Uncharacterized protei 97.2 0.00013 2.8E-09 45.9 0.6 43 42-88 5-47 (233)
81 PHA03096 p28-like protein; Pro 97.2 0.00031 6.7E-09 45.7 2.3 45 41-85 179-230 (284)
82 PF14447 Prok-RING_4: Prokaryo 97.1 0.00031 6.7E-09 34.6 1.4 42 42-89 9-50 (55)
83 KOG0826 Predicted E3 ubiquitin 97.0 0.00061 1.3E-08 44.8 2.9 47 38-87 298-344 (357)
84 KOG2114 Vacuolar assembly/sort 97.0 0.00092 2E-08 48.8 4.0 41 40-86 840-880 (933)
85 COG5222 Uncharacterized conser 96.9 0.0019 4.1E-08 42.3 4.4 43 41-86 275-318 (427)
86 KOG3002 Zn finger protein [Gen 96.8 0.00068 1.5E-08 44.4 1.8 43 39-89 47-91 (299)
87 PF08746 zf-RING-like: RING-li 96.7 0.001 2.2E-08 31.3 1.5 41 43-84 1-43 (43)
88 KOG3800 Predicted E3 ubiquitin 96.6 0.0025 5.3E-08 41.4 3.0 47 42-88 2-50 (300)
89 KOG1428 Inhibitor of type V ad 96.6 0.0017 3.6E-08 50.5 2.5 53 36-89 3482-3544(3738)
90 KOG2034 Vacuolar sorting prote 96.5 0.0024 5.2E-08 46.8 2.9 39 35-75 812-850 (911)
91 PF03854 zf-P11: P-11 zinc fin 96.5 0.00047 1E-08 32.9 -0.5 31 60-90 16-47 (50)
92 PF14446 Prok-RING_1: Prokaryo 96.1 0.0073 1.6E-07 29.7 2.6 34 40-73 5-38 (54)
93 PF05290 Baculo_IE-1: Baculovi 96.1 0.028 6.2E-07 32.6 5.2 51 39-89 79-132 (140)
94 KOG3268 Predicted E3 ubiquitin 96.1 0.0078 1.7E-07 36.7 3.0 30 60-89 188-228 (234)
95 KOG1001 Helicase-like transcri 96.0 0.0028 6.2E-08 45.7 0.9 43 41-88 455-499 (674)
96 KOG0801 Predicted E3 ubiquitin 95.8 0.003 6.4E-08 37.9 0.5 31 37-68 174-204 (205)
97 KOG2932 E3 ubiquitin ligase in 95.8 0.004 8.7E-08 40.9 0.9 42 42-88 92-133 (389)
98 KOG3113 Uncharacterized conser 95.7 0.013 2.9E-07 37.5 3.1 48 40-89 111-158 (293)
99 KOG4367 Predicted Zn-finger pr 95.7 0.0062 1.3E-07 41.9 1.7 34 38-75 2-35 (699)
100 PF10272 Tmpp129: Putative tra 95.4 0.012 2.6E-07 39.6 2.2 27 62-88 311-350 (358)
101 KOG1100 Predicted E3 ubiquitin 95.3 0.0061 1.3E-07 38.0 0.5 39 43-89 161-200 (207)
102 COG5220 TFB3 Cdk activating ki 95.0 0.014 3E-07 37.2 1.5 47 39-85 9-60 (314)
103 KOG0309 Conserved WD40 repeat- 94.9 0.02 4.3E-07 41.9 2.1 26 58-83 1044-1069(1081)
104 KOG0298 DEAD box-containing he 94.6 0.0096 2.1E-07 45.5 0.1 43 41-86 1154-1196(1394)
105 KOG2817 Predicted E3 ubiquitin 94.6 0.03 6.5E-07 37.9 2.3 45 40-85 334-381 (394)
106 KOG0827 Predicted E3 ubiquitin 94.1 0.0035 7.5E-08 42.3 -2.8 50 40-89 196-245 (465)
107 KOG4362 Transcriptional regula 94.1 0.015 3.2E-07 42.0 0.1 45 40-88 21-68 (684)
108 KOG3899 Uncharacterized conser 94.1 0.036 7.8E-07 36.4 1.9 27 62-88 325-364 (381)
109 KOG1812 Predicted E3 ubiquitin 93.8 0.03 6.4E-07 38.1 1.1 37 40-77 146-183 (384)
110 KOG1609 Protein involved in mR 93.5 0.082 1.8E-06 34.4 2.8 48 40-87 78-132 (323)
111 KOG3053 Uncharacterized conser 93.5 0.052 1.1E-06 35.0 1.7 53 35-87 15-80 (293)
112 KOG1815 Predicted E3 ubiquitin 93.5 0.097 2.1E-06 36.2 3.2 37 38-77 68-104 (444)
113 PF02318 FYVE_2: FYVE-type zin 93.0 0.096 2.1E-06 29.8 2.3 36 38-73 52-88 (118)
114 TIGR00622 ssl1 transcription f 92.7 0.22 4.9E-06 28.2 3.3 46 40-85 55-110 (112)
115 KOG3161 Predicted E3 ubiquitin 92.5 0.056 1.2E-06 39.0 0.9 40 41-82 12-51 (861)
116 PF07975 C1_4: TFIIH C1-like d 92.3 0.14 2.9E-06 25.0 1.9 43 43-85 2-50 (51)
117 PF06906 DUF1272: Protein of u 91.8 0.31 6.8E-06 24.1 2.8 45 41-89 6-52 (57)
118 KOG2807 RNA polymerase II tran 91.4 0.42 9.1E-06 32.0 3.9 62 25-87 315-376 (378)
119 PF01363 FYVE: FYVE zinc finge 90.4 0.13 2.9E-06 26.1 0.8 36 39-74 8-43 (69)
120 KOG0825 PHD Zn-finger protein 90.3 0.18 3.8E-06 37.5 1.6 48 41-88 97-153 (1134)
121 PF14569 zf-UDP: Zinc-binding 89.3 0.74 1.6E-05 24.4 3.1 50 39-88 8-61 (80)
122 KOG2068 MOT2 transcription fac 89.2 0.35 7.6E-06 32.2 2.2 49 41-89 250-298 (327)
123 PF02891 zf-MIZ: MIZ/SP-RING z 88.7 0.42 9E-06 23.0 1.8 43 41-87 3-50 (50)
124 KOG3799 Rab3 effector RIM1 and 88.5 0.11 2.3E-06 30.4 -0.4 15 35-49 60-74 (169)
125 COG5183 SSM4 Protein involved 87.7 0.79 1.7E-05 34.4 3.4 51 36-88 8-65 (1175)
126 PF06844 DUF1244: Protein of u 87.2 0.4 8.6E-06 24.5 1.2 12 65-76 11-22 (68)
127 PF00628 PHD: PHD-finger; Int 87.1 0.34 7.5E-06 23.0 1.0 42 43-85 2-49 (51)
128 KOG1812 Predicted E3 ubiquitin 86.9 0.35 7.5E-06 33.0 1.2 42 41-83 307-350 (384)
129 cd00065 FYVE FYVE domain; Zinc 86.5 0.49 1.1E-05 23.0 1.4 35 41-75 3-37 (57)
130 PF13901 DUF4206: Domain of un 86.3 0.57 1.2E-05 29.1 1.9 41 40-85 152-196 (202)
131 PF10571 UPF0547: Uncharacteri 86.3 0.41 8.9E-06 19.9 0.8 23 42-66 2-24 (26)
132 smart00249 PHD PHD zinc finger 85.6 0.7 1.5E-05 20.9 1.6 30 43-73 2-31 (47)
133 smart00064 FYVE Protein presen 85.3 0.78 1.7E-05 23.1 1.8 36 40-75 10-45 (68)
134 COG5109 Uncharacterized conser 85.0 0.7 1.5E-05 30.9 1.9 44 41-85 337-383 (396)
135 KOG1829 Uncharacterized conser 85.0 0.34 7.3E-06 34.8 0.4 25 57-84 532-556 (580)
136 PF10497 zf-4CXXC_R1: Zinc-fin 85.0 1.4 3.1E-05 24.6 2.9 48 39-86 6-69 (105)
137 PF04216 FdhE: Protein involve 82.2 0.18 3.8E-06 32.9 -1.7 49 38-86 170-219 (290)
138 PF00412 LIM: LIM domain; Int 80.3 0.7 1.5E-05 22.3 0.4 10 62-71 18-27 (58)
139 KOG4185 Predicted E3 ubiquitin 80.1 0.42 9.1E-06 31.1 -0.5 49 39-87 206-265 (296)
140 KOG4718 Non-SMC (structural ma 79.4 1.1 2.4E-05 28.2 1.2 43 40-85 181-223 (235)
141 smart00132 LIM Zinc-binding do 78.4 1.7 3.6E-05 18.8 1.4 37 43-89 2-38 (39)
142 KOG3842 Adaptor protein Pellin 78.2 3.2 6.8E-05 28.0 3.0 30 59-88 375-413 (429)
143 KOG0269 WD40 repeat-containing 78.2 2.1 4.6E-05 31.8 2.4 40 42-83 781-820 (839)
144 KOG2066 Vacuolar assembly/sort 77.6 0.98 2.1E-05 33.6 0.6 36 41-76 785-823 (846)
145 KOG3005 GIY-YIG type nuclease 75.6 2.4 5.2E-05 27.7 1.9 47 41-87 183-241 (276)
146 PLN02189 cellulose synthase 75.6 3.5 7.7E-05 31.8 3.0 50 39-88 33-86 (1040)
147 PF14169 YdjO: Cold-inducible 74.9 1.9 4.1E-05 21.6 1.1 13 78-90 39-51 (59)
148 KOG3039 Uncharacterized conser 74.6 2.5 5.4E-05 27.4 1.8 30 42-75 45-74 (303)
149 PF04423 Rad50_zn_hook: Rad50 74.2 0.95 2.1E-05 22.0 -0.1 10 80-89 22-31 (54)
150 COG4847 Uncharacterized protei 73.8 3.1 6.8E-05 22.9 1.8 34 40-75 6-39 (103)
151 COG3492 Uncharacterized protei 73.8 2.2 4.7E-05 23.3 1.2 12 65-76 42-53 (104)
152 PF13719 zinc_ribbon_5: zinc-r 73.6 2.1 4.6E-05 19.1 1.0 13 42-54 4-16 (37)
153 PLN02638 cellulose synthase A 73.2 4.7 0.0001 31.3 3.1 50 39-88 16-69 (1079)
154 PF07282 OrfB_Zn_ribbon: Putat 72.2 8.3 0.00018 19.3 3.2 33 39-71 27-61 (69)
155 KOG2113 Predicted RNA binding 72.1 5 0.00011 27.0 2.8 46 36-87 339-385 (394)
156 KOG3579 Predicted E3 ubiquitin 71.4 5.2 0.00011 26.6 2.7 39 39-77 267-305 (352)
157 PLN02915 cellulose synthase A 71.4 7.5 0.00016 30.2 3.8 52 37-88 12-67 (1044)
158 PLN02436 cellulose synthase A 70.7 5.4 0.00012 31.0 3.0 50 39-88 35-88 (1094)
159 PLN02400 cellulose synthase 70.6 4.1 8.9E-05 31.6 2.4 50 39-88 35-88 (1085)
160 PF07649 C1_3: C1-like domain; 69.7 4.8 0.0001 16.9 1.6 29 42-71 2-30 (30)
161 COG3813 Uncharacterized protei 69.2 5.5 0.00012 20.9 2.0 44 42-89 7-52 (84)
162 PF05605 zf-Di19: Drought indu 69.1 0.38 8.2E-06 23.4 -2.2 13 40-52 2-14 (54)
163 PRK03564 formate dehydrogenase 68.7 1.5 3.2E-05 29.3 -0.2 47 39-86 186-234 (309)
164 PF07191 zinc-ribbons_6: zinc- 68.4 1.7 3.7E-05 22.5 0.1 12 42-53 3-14 (70)
165 PF09943 DUF2175: Uncharacteri 68.2 5.1 0.00011 22.3 1.9 33 41-75 3-35 (101)
166 PF13717 zinc_ribbon_4: zinc-r 67.7 3.9 8.4E-05 18.2 1.2 13 42-54 4-16 (36)
167 TIGR01562 FdhE formate dehydro 66.2 1.6 3.6E-05 29.0 -0.3 47 39-86 183-232 (305)
168 KOG2231 Predicted E3 ubiquitin 65.8 5.2 0.00011 29.5 2.1 44 42-89 2-52 (669)
169 KOG2979 Protein involved in DN 65.3 4.7 0.0001 26.2 1.6 40 41-83 177-218 (262)
170 PF10083 DUF2321: Uncharacteri 65.2 5.2 0.00011 24.0 1.7 24 63-89 27-50 (158)
171 KOG1814 Predicted E3 ubiquitin 63.2 4 8.7E-05 28.3 1.1 39 37-75 365-405 (445)
172 KOG0824 Predicted E3 ubiquitin 61.0 3.3 7.3E-05 27.5 0.4 47 38-87 103-149 (324)
173 PF14311 DUF4379: Domain of un 60.2 5.6 0.00012 19.2 1.1 24 60-84 32-55 (55)
174 COG5151 SSL1 RNA polymerase II 60.2 23 0.00049 24.0 4.0 63 24-86 346-418 (421)
175 cd00350 rubredoxin_like Rubred 59.9 7.6 0.00016 16.8 1.3 9 78-86 17-25 (33)
176 PF10235 Cript: Microtubule-as 59.3 6.7 0.00014 21.4 1.3 38 40-90 44-81 (90)
177 smart00647 IBR In Between Ring 59.2 2.4 5.1E-05 20.7 -0.4 16 60-75 44-59 (64)
178 smart00734 ZnF_Rad18 Rad18-lik 58.1 4.4 9.6E-05 16.6 0.4 9 80-88 3-11 (26)
179 KOG0802 E3 ubiquitin ligase [P 58.0 5.5 0.00012 28.5 1.1 42 40-89 479-520 (543)
180 KOG2041 WD40 repeat protein [G 57.0 23 0.0005 27.0 3.9 46 39-88 1130-1184(1189)
181 PF10146 zf-C4H2: Zinc finger- 56.7 9.3 0.0002 24.4 1.8 22 65-86 195-216 (230)
182 PF13832 zf-HC5HC2H_2: PHD-zin 55.9 9.9 0.00021 20.9 1.7 35 39-74 54-88 (110)
183 PLN02195 cellulose synthase A 55.8 19 0.00042 27.9 3.5 51 39-89 5-59 (977)
184 PF06677 Auto_anti-p27: Sjogre 55.0 7.3 0.00016 18.0 0.9 18 72-89 11-28 (41)
185 COG4306 Uncharacterized protei 54.8 9.4 0.0002 22.3 1.5 21 65-88 29-49 (160)
186 PF04710 Pellino: Pellino; In 53.2 4.5 9.7E-05 28.0 0.0 49 40-88 328-400 (416)
187 PF06676 DUF1178: Protein of u 52.2 6.6 0.00014 23.4 0.6 22 61-87 9-41 (148)
188 PF13771 zf-HC5HC2H: PHD-like 51.6 8.6 0.00019 20.3 1.0 33 40-73 36-68 (90)
189 smart00109 C1 Protein kinase C 51.1 18 0.00039 16.3 2.0 34 40-73 11-44 (49)
190 PF03119 DNA_ligase_ZBD: NAD-d 50.0 5 0.00011 16.8 -0.1 10 80-89 1-10 (28)
191 PRK11088 rrmA 23S rRNA methylt 50.0 11 0.00025 24.2 1.5 25 41-66 3-27 (272)
192 KOG4451 Uncharacterized conser 50.0 13 0.00028 24.0 1.7 22 65-86 250-271 (286)
193 KOG1244 Predicted transcriptio 49.4 3 6.6E-05 27.4 -1.2 43 43-86 284-330 (336)
194 PRK01343 zinc-binding protein; 49.0 12 0.00026 18.6 1.2 11 78-88 9-19 (57)
195 COG2835 Uncharacterized conser 47.6 9.3 0.0002 19.2 0.6 9 80-88 10-18 (60)
196 PF03107 C1_2: C1 domain; Int 47.1 11 0.00024 15.8 0.8 28 42-70 2-29 (30)
197 COG5627 MMS21 DNA repair prote 47.0 9.6 0.00021 24.6 0.8 40 41-83 190-231 (275)
198 PF06937 EURL: EURL protein; 46.9 21 0.00046 23.5 2.3 41 42-82 32-74 (285)
199 PF09237 GAGA: GAGA factor; I 45.4 4.2 9.1E-05 19.9 -0.8 7 41-47 25-31 (54)
200 PLN02248 cellulose synthase-li 45.4 57 0.0012 26.0 4.6 28 61-88 149-176 (1135)
201 PF14369 zf-RING_3: zinc-finge 45.0 10 0.00022 16.8 0.5 11 80-90 23-33 (35)
202 KOG1842 FYVE finger-containing 44.7 7.9 0.00017 27.3 0.2 37 38-74 178-214 (505)
203 PF09723 Zn-ribbon_8: Zinc rib 44.3 4.2 9E-05 18.7 -0.9 9 78-86 26-34 (42)
204 KOG1729 FYVE finger containing 44.2 18 0.00039 24.0 1.7 35 39-73 167-202 (288)
205 KOG4218 Nuclear hormone recept 42.7 21 0.00046 24.5 1.9 14 39-52 14-27 (475)
206 PRK11827 hypothetical protein; 42.7 8.6 0.00019 19.3 0.1 12 78-89 8-19 (60)
207 KOG1818 Membrane trafficking a 42.3 13 0.00029 27.3 1.0 36 40-75 165-200 (634)
208 PRK06266 transcription initiat 41.9 41 0.00088 20.6 2.9 15 76-90 134-148 (178)
209 PRK00420 hypothetical protein; 41.7 24 0.00051 20.1 1.7 11 78-88 40-50 (112)
210 PF05191 ADK_lid: Adenylate ki 41.2 8.6 0.00019 17.1 -0.0 28 60-89 5-32 (36)
211 KOG2079 Vacuolar assembly/sort 39.9 30 0.00066 27.3 2.5 39 37-75 1130-1168(1206)
212 PF01485 IBR: IBR domain; Int 38.8 2.1 4.5E-05 20.9 -2.6 33 42-74 20-58 (64)
213 PRK12495 hypothetical protein; 38.4 60 0.0013 20.8 3.3 12 40-51 42-53 (226)
214 PF05502 Dynactin_p62: Dynacti 37.9 20 0.00043 25.5 1.3 16 38-53 24-39 (483)
215 KOG1245 Chromatin remodeling c 37.8 30 0.00066 28.1 2.3 48 39-87 1107-1158(1404)
216 PF15353 HECA: Headcase protei 37.8 26 0.00056 19.8 1.5 15 61-75 39-53 (107)
217 KOG4323 Polycomb-like PHD Zn-f 37.0 27 0.00057 24.9 1.7 46 41-86 169-223 (464)
218 PF02148 zf-UBP: Zn-finger in 36.8 24 0.00052 17.5 1.2 15 55-69 10-24 (63)
219 TIGR00373 conserved hypothetic 36.1 42 0.00091 20.1 2.3 13 77-89 127-139 (158)
220 COG1645 Uncharacterized Zn-fin 35.0 23 0.00049 20.7 1.0 24 41-64 29-52 (131)
221 KOG2462 C2H2-type Zn-finger pr 34.2 26 0.00057 23.1 1.3 52 39-90 160-227 (279)
222 KOG4443 Putative transcription 34.0 23 0.00049 26.3 1.1 46 41-86 19-70 (694)
223 PF00130 C1_1: Phorbol esters/ 33.6 39 0.00085 15.7 1.6 35 38-73 9-45 (53)
224 PRK11595 DNA utilization prote 33.1 37 0.0008 21.4 1.9 9 42-50 7-15 (227)
225 smart00531 TFIIE Transcription 32.1 36 0.00078 20.0 1.6 11 79-89 124-134 (147)
226 PF10013 DUF2256: Uncharacteri 32.0 30 0.00065 16.1 1.0 11 78-88 8-18 (42)
227 KOG1701 Focal adhesion adaptor 31.6 4 8.7E-05 28.5 -2.7 11 79-89 395-405 (468)
228 PF14353 CpXC: CpXC protein 31.0 32 0.00069 19.5 1.2 12 42-53 3-14 (128)
229 PF12773 DZR: Double zinc ribb 30.9 49 0.0011 15.3 1.7 8 80-87 31-38 (50)
230 PF01396 zf-C4_Topoisom: Topoi 30.2 24 0.00053 15.8 0.5 10 80-89 3-12 (39)
231 COG2093 DNA-directed RNA polym 29.3 18 0.00039 18.4 -0.0 10 78-87 18-27 (64)
232 COG2816 NPY1 NTP pyrophosphohy 29.2 11 0.00023 25.0 -1.1 25 62-86 109-137 (279)
233 COG0675 Transposase and inacti 28.6 1.1E+02 0.0024 19.8 3.6 32 37-71 306-337 (364)
234 PF06750 DiS_P_DiS: Bacterial 28.2 63 0.0014 17.5 2.0 37 40-89 33-69 (92)
235 KOG0955 PHD finger protein BR1 28.1 1.2E+02 0.0025 24.2 3.9 38 35-72 214-252 (1051)
236 cd00730 rubredoxin Rubredoxin; 27.7 34 0.00073 16.4 0.8 12 41-52 2-13 (50)
237 cd00029 C1 Protein kinase C co 27.7 38 0.00082 15.3 1.0 33 40-73 11-45 (50)
238 PF07227 DUF1423: Protein of u 27.7 41 0.0009 23.8 1.5 32 42-74 130-164 (446)
239 PF00096 zf-C2H2: Zinc finger, 27.3 28 0.0006 13.0 0.4 12 42-53 2-13 (23)
240 KOG4021 Mitochondrial ribosoma 26.6 34 0.00074 21.6 0.8 19 69-87 98-117 (239)
241 KOG0396 Uncharacterized conser 25.9 1.2E+02 0.0026 21.1 3.3 49 36-84 300-374 (389)
242 PF08599 Nbs1_C: DNA damage re 25.9 96 0.0021 15.8 2.2 20 2-21 38-57 (65)
243 COG4098 comFA Superfamily II D 25.7 44 0.00095 23.3 1.3 34 35-72 34-68 (441)
244 KOG1819 FYVE finger-containing 25.6 15 0.00033 26.5 -0.8 32 41-72 902-933 (990)
245 KOG1538 Uncharacterized conser 25.4 37 0.0008 25.7 0.9 27 62-88 1050-1076(1081)
246 KOG2071 mRNA cleavage and poly 25.3 41 0.00088 24.7 1.1 38 38-75 511-557 (579)
247 smart00290 ZnF_UBP Ubiquitin C 25.3 59 0.0013 14.9 1.4 13 56-68 11-23 (50)
248 COG3809 Uncharacterized protei 24.9 29 0.00064 18.5 0.3 12 42-53 3-14 (88)
249 COG4357 Zinc finger domain con 24.5 91 0.002 17.3 2.2 12 78-89 80-91 (105)
250 PF13894 zf-C2H2_4: C2H2-type 24.0 34 0.00074 12.4 0.4 11 42-52 2-12 (24)
251 KOG2169 Zn-finger transcriptio 23.7 95 0.0021 23.0 2.8 42 41-88 307-355 (636)
252 PF10764 Gin: Inhibitor of sig 23.5 96 0.0021 14.6 1.9 31 43-78 2-32 (46)
253 KOG1140 N-end rule pathway, re 23.5 55 0.0012 27.3 1.6 18 59-76 1148-1165(1738)
254 PF00301 Rubredoxin: Rubredoxi 22.3 44 0.00095 15.8 0.6 13 41-53 2-14 (47)
255 KOG3816 Cell differentiation r 22.2 63 0.0014 22.7 1.5 28 44-75 92-119 (526)
256 PTZ00303 phosphatidylinositol 22.2 63 0.0014 25.1 1.6 35 41-75 461-500 (1374)
257 PRK00398 rpoP DNA-directed RNA 22.1 34 0.00074 15.7 0.2 11 79-89 22-32 (46)
258 PF11682 DUF3279: Protein of u 21.8 54 0.0012 19.1 1.0 11 78-88 110-120 (128)
259 COG4647 AcxC Acetone carboxyla 21.3 49 0.0011 19.5 0.8 16 58-74 71-86 (165)
260 TIGR00686 phnA alkylphosphonat 21.2 53 0.0011 18.6 0.9 25 42-66 4-29 (109)
261 PF11023 DUF2614: Protein of u 21.2 31 0.00068 19.7 -0.0 15 75-89 82-96 (114)
262 PRK04023 DNA polymerase II lar 21.1 75 0.0016 25.2 1.8 45 39-89 625-674 (1121)
263 KOG0883 Cyclophilin type, U bo 21.1 89 0.0019 22.1 2.1 42 36-77 97-138 (518)
264 COG4338 Uncharacterized protei 21.1 36 0.00077 16.4 0.2 7 81-87 15-21 (54)
265 KOG2272 Focal adhesion protein 21.0 59 0.0013 21.5 1.2 46 40-89 183-232 (332)
266 KOG3726 Uncharacterized conser 20.3 68 0.0015 24.1 1.5 41 41-84 655-695 (717)
267 KOG2789 Putative Zn-finger pro 20.3 38 0.00081 23.8 0.2 33 40-74 74-106 (482)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.69 E-value=6.1e-18 Score=80.97 Aligned_cols=43 Identities=51% Similarity=1.176 Sum_probs=37.8
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCC
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCR 85 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr 85 (91)
+|+||++.+..++.+.. ++|+|.||.+|+..|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~-l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVK-LPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEE-ETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEE-ccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 69999999988776655 67999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.68 E-value=4.2e-17 Score=106.10 Aligned_cols=49 Identities=49% Similarity=1.079 Sum_probs=44.1
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCC-CccCCCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLT-CPLCRNCILD 90 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~-CP~Cr~~i~~ 90 (91)
..|+||+++|..++.+++ |||+|.||..|+++|+....+ ||+|+.++..
T Consensus 230 ~~CaIClEdY~~GdklRi-LPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRI-LPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeE-ecCCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 589999999999999988 899999999999999987654 9999987753
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.58 E-value=2e-15 Score=94.44 Aligned_cols=53 Identities=42% Similarity=0.887 Sum_probs=43.3
Q ss_pred CCcccccccccccccCCc----ceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 37 SSSSSGCAICLETFADDE----TCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~----~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
...+.+|+||++.+..+. .+.++++|+|.||..|+..|+..+.+||+||.++.
T Consensus 171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 345678999999876543 23456789999999999999999999999998764
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=99.55 E-value=4.8e-15 Score=77.91 Aligned_cols=45 Identities=51% Similarity=1.103 Sum_probs=35.6
Q ss_pred cccccccccccCC---------cceeeeCCCCchhhHhhHHHHHhcCCCCccCC
Q 045184 41 SGCAICLETFADD---------ETCRIFLVCNHIFHLNCIDGWLEINLTCPLCR 85 (91)
Q Consensus 41 ~~C~IC~~~~~~~---------~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr 85 (91)
..|+||++.+..+ +...++.+|||.||..||.+|+..+.+||+||
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 3499999999432 12334468999999999999999999999997
No 5
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.50 E-value=2.9e-14 Score=86.43 Aligned_cols=50 Identities=30% Similarity=0.825 Sum_probs=41.2
Q ss_pred CCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc----------------CCCCccCCCCCCC
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI----------------NLTCPLCRNCILD 90 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~----------------~~~CP~Cr~~i~~ 90 (91)
..++.+|+||++.+..+ ++++|||.||..||..|+.. ...||+||..+..
T Consensus 15 ~~~~~~CpICld~~~dP----VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 15 SGGDFDCNICLDQVRDP----VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCCccCCccCCCcCCCc----EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 34567899999998877 66899999999999999742 3479999998753
No 6
>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=99.48 E-value=1.5e-14 Score=70.86 Aligned_cols=46 Identities=35% Similarity=0.816 Sum_probs=38.8
Q ss_pred ccccccccccccCCcceeeeCCCCch-hhHhhHHHHHhcCCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHI-FHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~-f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
+..|.||++..... +++||||. ||..|+..|+.....||+||+++.
T Consensus 2 ~~~C~iC~~~~~~~----~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDV----VLLPCGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSE----EEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCce----EEeCCCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 56799999986654 66899998 999999999999999999999875
No 7
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.45 E-value=4.2e-14 Score=90.32 Aligned_cols=51 Identities=39% Similarity=1.006 Sum_probs=44.7
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHHHh-cCCCCccCCCCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLE-INLTCPLCRNCILD 90 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~-~~~~CP~Cr~~i~~ 90 (91)
..-+|+||+++|...+++.+ +||.|.||..|+..|+. .+..||+||.+++.
T Consensus 322 ~GveCaICms~fiK~d~~~v-lPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRV-LPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEE-eccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 34679999999988888655 89999999999999998 57789999999874
No 8
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.43 E-value=1.8e-13 Score=89.58 Aligned_cols=53 Identities=36% Similarity=0.917 Sum_probs=42.8
Q ss_pred CCcccccccccccccCCc---------ceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 37 SSSSSGCAICLETFADDE---------TCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~---------~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
..+|..|.||++.+-.+. .....+||||.+|..|++.|..++.+||+||.++.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCccc
Confidence 567889999999953322 11234899999999999999999999999999853
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.41 E-value=8.2e-14 Score=88.28 Aligned_cols=50 Identities=32% Similarity=0.757 Sum_probs=43.3
Q ss_pred CCCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 36 TSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
....+..|.+|++....| ..+||||.||..||..|...+..||+||..+.
T Consensus 235 i~~a~~kC~LCLe~~~~p----SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 235 IPEATRKCSLCLENRSNP----SATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CCCCCCceEEEecCCCCC----CcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 344457799999999888 55899999999999999999889999998764
No 10
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.40 E-value=1.6e-13 Score=64.84 Aligned_cols=38 Identities=37% Similarity=0.962 Sum_probs=29.9
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHhcC----CCCccC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLEIN----LTCPLC 84 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~----~~CP~C 84 (91)
|+||++.|.+| +.++|||+||..||..|.... ..||.|
T Consensus 1 CpiC~~~~~~P----v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP----VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE----EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc----cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999 779999999999999998652 469987
No 11
>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=99.39 E-value=3.4e-13 Score=62.78 Aligned_cols=39 Identities=41% Similarity=1.014 Sum_probs=32.4
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLC 84 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~C 84 (91)
|+||++.+.++ .++++|||.||..|+..|+..+..||+|
T Consensus 1 C~iC~~~~~~~---~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP---VVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE---EEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCc---CEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 89999988774 2458999999999999999988899987
No 12
>PHA02926 zinc finger-like protein; Provisional
Probab=99.38 E-value=3.7e-13 Score=82.87 Aligned_cols=52 Identities=35% Similarity=0.803 Sum_probs=40.2
Q ss_pred CCcccccccccccccC-----CcceeeeCCCCchhhHhhHHHHHhcC------CCCccCCCCC
Q 045184 37 SSSSSGCAICLETFAD-----DETCRIFLVCNHIFHLNCIDGWLEIN------LTCPLCRNCI 88 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~-----~~~~~~~~~C~H~f~~~C~~~w~~~~------~~CP~Cr~~i 88 (91)
.+.+.+|+||++.... +....++.+|+|.||..||..|...+ .+||+||..+
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 3446789999998633 22355778999999999999999742 4599999865
No 13
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=4e-13 Score=82.94 Aligned_cols=50 Identities=28% Similarity=0.768 Sum_probs=42.8
Q ss_pred CCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc---CCCCccCCCCCCC
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI---NLTCPLCRNCILD 90 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~---~~~CP~Cr~~i~~ 90 (91)
.....+|.||++.-+++ +++.|||.||.-||.+|+.. .+.||+|+..+..
T Consensus 44 ~~~~FdCNICLd~akdP----VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP----VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeeccccCCC----EEeecccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 45668899999999888 77899999999999999965 4569999987653
No 14
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=8.5e-13 Score=78.68 Aligned_cols=50 Identities=30% Similarity=0.713 Sum_probs=41.9
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
+..+.|||||+.+..... +.+.|||+||..||+..++....||+|+..|.
T Consensus 129 ~~~~~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 344679999999877633 33789999999999999999999999997664
No 15
>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=99.33 E-value=1.5e-12 Score=61.62 Aligned_cols=44 Identities=50% Similarity=1.141 Sum_probs=35.7
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-CCCCccCCCCC
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-NLTCPLCRNCI 88 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-~~~CP~Cr~~i 88 (91)
.|+||++.+..+ ..+++|+|.||..|+..|+.. ...||+|+..+
T Consensus 1 ~C~iC~~~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFREP---VVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhCc---eEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 489999998333 234669999999999999987 77899998764
No 16
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.30 E-value=2.9e-12 Score=61.10 Aligned_cols=44 Identities=30% Similarity=0.867 Sum_probs=35.6
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCC
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
.|+||++.|..... ..+++|||.||..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~-~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERR-PRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCC-eEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 48999999933333 456899999999999998866778999974
No 17
>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=99.29 E-value=2.1e-12 Score=60.60 Aligned_cols=39 Identities=51% Similarity=1.209 Sum_probs=33.7
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHh--cCCCCccC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLE--INLTCPLC 84 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~--~~~~CP~C 84 (91)
|+||++.+..+. .+++|||.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC---EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988873 2689999999999999998 46679987
No 18
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.28 E-value=4.8e-12 Score=67.52 Aligned_cols=50 Identities=32% Similarity=0.767 Sum_probs=38.1
Q ss_pred ccccccccccccC--------Ccc-eeeeCCCCchhhHhhHHHHHhc---CCCCccCCCCCC
Q 045184 40 SSGCAICLETFAD--------DET-CRIFLVCNHIFHLNCIDGWLEI---NLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~--------~~~-~~~~~~C~H~f~~~C~~~w~~~---~~~CP~Cr~~i~ 89 (91)
+..|+||...|.. ++. ..+.-.|+|.||..||..|+.. +..||+||++..
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 6779999999863 111 2233579999999999999975 467999998753
No 19
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.23 E-value=1.2e-11 Score=62.96 Aligned_cols=45 Identities=24% Similarity=0.411 Sum_probs=40.6
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
..|+||.+.+..| ++++|||+|+..|+..|+..+..||+|+.++.
T Consensus 2 ~~Cpi~~~~~~~P----v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP----VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC----EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 4699999999998 66899999999999999988889999998764
No 20
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.22 E-value=1.3e-11 Score=82.26 Aligned_cols=51 Identities=31% Similarity=0.587 Sum_probs=44.2
Q ss_pred CCCCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 35 TTSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 35 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
........|+||.+.|..+ ++++|||.||..|+..|+.....||+|+..+.
T Consensus 21 ~~Le~~l~C~IC~d~~~~P----vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVP----VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred cccccccCCCcCchhhhCc----cCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 4455677899999999888 56899999999999999988888999998764
No 21
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=9.8e-12 Score=86.05 Aligned_cols=52 Identities=38% Similarity=0.838 Sum_probs=42.6
Q ss_pred CcccccccccccccCCcc-eeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 38 SSSSGCAICLETFADDET-CRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~-~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
..+..|+||++.+..+.. ....++|+|.||..|+..|+....+||+||..+.
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 446789999999987432 1134899999999999999999999999998543
No 22
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=99.17 E-value=3.4e-11 Score=55.13 Aligned_cols=38 Identities=50% Similarity=1.167 Sum_probs=31.3
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHh-cCCCCccC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLE-INLTCPLC 84 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~-~~~~CP~C 84 (91)
|+||++..... +.++|+|.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~~~~----~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDP----VVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCc----EEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78998884443 5579999999999999998 56679987
No 23
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.14 E-value=3.4e-11 Score=56.99 Aligned_cols=34 Identities=32% Similarity=0.801 Sum_probs=22.5
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHhc
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI 77 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~ 77 (91)
|+||.+ +..++...++|+|||+|+.+|+..+.+.
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 899999 8776665577899999999999999874
No 24
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=99.04 E-value=8.5e-11 Score=76.47 Aligned_cols=49 Identities=29% Similarity=0.657 Sum_probs=43.8
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCILD 90 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~~ 90 (91)
++-..|.||.+.|..+ +++||+|.||.-||..++..+..||.|+..+.+
T Consensus 21 D~lLRC~IC~eyf~ip----~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNIP----MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHHHhHHHHHhcCc----eeccccchHHHHHHHHHhccCCCCCceecccch
Confidence 3446799999999999 778999999999999999999999999987754
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=2.1e-10 Score=72.24 Aligned_cols=46 Identities=33% Similarity=0.765 Sum_probs=39.8
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHH-HHhcCCC-CccCCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDG-WLEINLT-CPLCRNCI 88 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~-w~~~~~~-CP~Cr~~i 88 (91)
.++.|+||++....+ ..++|||+||..||.. |-.++.. ||+||+..
T Consensus 214 ~d~kC~lC~e~~~~p----s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 214 ADYKCFLCLEEPEVP----SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred cccceeeeecccCCc----ccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 467899999998888 6689999999999999 8777666 99999754
No 26
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.93 E-value=4.6e-10 Score=71.87 Aligned_cols=48 Identities=29% Similarity=0.483 Sum_probs=42.4
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
..-..|.||-+.+..+ ..++|||.||.-||...+..+..||+||.+.-
T Consensus 23 Ds~lrC~IC~~~i~ip----~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 23 DSMLRCRICDCRISIP----CETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred hhHHHhhhhhheeecc----eecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 3345699999999998 77899999999999999999999999998653
No 27
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=5.1e-10 Score=75.90 Aligned_cols=46 Identities=35% Similarity=0.724 Sum_probs=38.2
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-----CCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-----NLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-----~~~CP~Cr~~i~ 89 (91)
+..||||++....+ ..+.|||+||..||-+++.. -..||+|+..|.
T Consensus 186 ~~~CPICL~~~~~p----~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~ 236 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP----VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTIT 236 (513)
T ss_pred CCcCCcccCCCCcc----cccccCceeeHHHHHHHHhhhcccCCccCCchhhhcc
Confidence 67899999988777 55779999999999988865 356999997653
No 28
>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=98.88 E-value=1.7e-09 Score=70.00 Aligned_cols=51 Identities=24% Similarity=0.532 Sum_probs=36.4
Q ss_pred ccccccccccc-ccCCcceeeeCCCCchhhHhhHHHHHh-cCCCCccCCCCCC
Q 045184 39 SSSGCAICLET-FADDETCRIFLVCNHIFHLNCIDGWLE-INLTCPLCRNCIL 89 (91)
Q Consensus 39 ~~~~C~IC~~~-~~~~~~~~~~~~C~H~f~~~C~~~w~~-~~~~CP~Cr~~i~ 89 (91)
++..||+|... +-.+.....+.+|||.||..|+...+. ....||.|+.++.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lr 54 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLR 54 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccc
Confidence 35689999995 334432112237999999999999664 4567999987664
No 29
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.88 E-value=1.8e-09 Score=56.63 Aligned_cols=49 Identities=39% Similarity=0.867 Sum_probs=36.2
Q ss_pred ccccccccccc-----------CCccee-eeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 41 SGCAICLETFA-----------DDETCR-IFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 41 ~~C~IC~~~~~-----------~~~~~~-~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
..|+||...+. +++... +.-.|.|.||..||.+|+..+..||++|+...
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 45777777663 223222 22359999999999999999999999998653
No 30
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.87 E-value=1.3e-09 Score=73.87 Aligned_cols=54 Identities=28% Similarity=0.765 Sum_probs=41.4
Q ss_pred CCcccccccccccccCCc-------------ceeeeCCCCchhhHhhHHHHHhc-CCCCccCCCCCCC
Q 045184 37 SSSSSGCAICLETFADDE-------------TCRIFLVCNHIFHLNCIDGWLEI-NLTCPLCRNCILD 90 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~-------------~~~~~~~C~H~f~~~C~~~w~~~-~~~CP~Cr~~i~~ 90 (91)
......|+||+.++.-.. +-.+++||.|.||..|+.+|... +..||+||.+++.
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 344567999999875211 01245799999999999999984 5589999999874
No 31
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.80 E-value=2.6e-09 Score=71.63 Aligned_cols=50 Identities=34% Similarity=0.916 Sum_probs=40.1
Q ss_pred CCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
..+-.+||||++.+.....-++...|.|.||..|+..| ...+||+||...
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--~~~scpvcR~~q 221 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--WDSSCPVCRYCQ 221 (493)
T ss_pred cccCCCcchhHhhcCccccceeeeecccccchHHHhhc--ccCcChhhhhhc
Confidence 34456799999999877654455689999999999999 567899999753
No 32
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=2.9e-09 Score=69.57 Aligned_cols=49 Identities=33% Similarity=0.659 Sum_probs=41.4
Q ss_pred CCcccccccccccccCCcceeeeCCCCc-hhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNH-IFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H-~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
.++..+|.||+....+- +++||.| ..|..|.+...-+.+.||+||+++.
T Consensus 287 ~~~gkeCVIClse~rdt----~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 287 SESGKECVICLSESRDT----VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIE 336 (349)
T ss_pred ccCCCeeEEEecCCcce----EEecchhhehhHhHHHHHHHhhcCCCccccchH
Confidence 35578899999986655 6699999 8999999988777889999999875
No 33
>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=98.79 E-value=3.6e-09 Score=55.50 Aligned_cols=47 Identities=28% Similarity=0.438 Sum_probs=37.9
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-CCCCccCCCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-NLTCPLCRNCIL 89 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-~~~CP~Cr~~i~ 89 (91)
+...|+|+.+.|.+| +++++||+|...+|..|+.. ...||+++.++.
T Consensus 3 ~~f~CpIt~~lM~dP----Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 3 DEFLCPITGELMRDP----VILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp GGGB-TTTSSB-SSE----EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred cccCCcCcCcHhhCc----eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 457899999999999 77899999999999999988 888999988765
No 34
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=5.5e-09 Score=66.49 Aligned_cols=46 Identities=37% Similarity=0.808 Sum_probs=39.4
Q ss_pred CCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCC
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
..+...|+||++.|..+ .+++|+|.||..|+..+......||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC----ccccccchHhHHHHHHhcCCCcCCcccCC
Confidence 34567899999999999 55899999999999998875567999983
No 35
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=1e-08 Score=56.28 Aligned_cols=47 Identities=40% Similarity=0.870 Sum_probs=35.5
Q ss_pred cccccccccccC------------Ccc-eeeeCCCCchhhHhhHHHHHhcCCCCccCCCC
Q 045184 41 SGCAICLETFAD------------DET-CRIFLVCNHIFHLNCIDGWLEINLTCPLCRNC 87 (91)
Q Consensus 41 ~~C~IC~~~~~~------------~~~-~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~ 87 (91)
..|+||...+.+ .+. ...--.|.|.||..||.+|++++..||++...
T Consensus 47 DnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 47 DNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred chhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 459999887631 112 22224699999999999999999999999764
No 36
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=5.1e-09 Score=51.22 Aligned_cols=46 Identities=30% Similarity=0.669 Sum_probs=36.7
Q ss_pred ccccccccccccCCcceeeeCCCCc-hhhHhhHHHHHh-cCCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNH-IFHLNCIDGWLE-INLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H-~f~~~C~~~w~~-~~~~CP~Cr~~i~ 89 (91)
+.+|.||++..-+. ++..||| ..|+.|..+..+ .+..||+||+++.
T Consensus 7 ~dECTICye~pvds----VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDS----VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchH----HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 36799999986655 6678999 788999876555 6788999999874
No 37
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.68 E-value=4e-09 Score=54.89 Aligned_cols=49 Identities=35% Similarity=0.894 Sum_probs=35.7
Q ss_pred ccccccccccccC--------Ccce-eeeCCCCchhhHhhHHHHHhc---CCCCccCCCCC
Q 045184 40 SSGCAICLETFAD--------DETC-RIFLVCNHIFHLNCIDGWLEI---NLTCPLCRNCI 88 (91)
Q Consensus 40 ~~~C~IC~~~~~~--------~~~~-~~~~~C~H~f~~~C~~~w~~~---~~~CP~Cr~~i 88 (91)
+..|.||..+|.. ++.. .+.-.|.|.||..||..|+.. +..||+||+..
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 3479999999853 2221 122249999999999999965 44699999864
No 38
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.67 E-value=2.8e-09 Score=55.50 Aligned_cols=49 Identities=31% Similarity=0.664 Sum_probs=22.6
Q ss_pred cccccccccccc-CCcceeee---CCCCchhhHhhHHHHHhc-----------CCCCccCCCCC
Q 045184 40 SSGCAICLETFA-DDETCRIF---LVCNHIFHLNCIDGWLEI-----------NLTCPLCRNCI 88 (91)
Q Consensus 40 ~~~C~IC~~~~~-~~~~~~~~---~~C~H~f~~~C~~~w~~~-----------~~~CP~Cr~~i 88 (91)
+.+|+||+..+. .+....++ ..|+..||..||..|+.. ...||.|+.+|
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 457999999876 33222222 369999999999999853 12599999876
No 39
>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=98.67 E-value=2.9e-08 Score=48.22 Aligned_cols=42 Identities=29% Similarity=0.812 Sum_probs=30.8
Q ss_pred ccccccccccCCcceeeeCCCC-----chhhHhhHHHHHhc--CCCCccCC
Q 045184 42 GCAICLETFADDETCRIFLVCN-----HIFHLNCIDGWLEI--NLTCPLCR 85 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~C~~~w~~~--~~~CP~Cr 85 (91)
.|.||++ ...++.. ...||. |.+|..|+..|+.. +.+||+|.
T Consensus 1 ~CrIC~~-~~~~~~~-l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDP-LVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCe-eEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3889998 3333333 337885 88999999999955 45899984
No 40
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=1.3e-08 Score=64.67 Aligned_cols=52 Identities=37% Similarity=0.761 Sum_probs=39.7
Q ss_pred CCCcccccccccccccCCc-------ceeeeCCCCchhhHhhHHHHH--hcCCCCccCCCCC
Q 045184 36 TSSSSSGCAICLETFADDE-------TCRIFLVCNHIFHLNCIDGWL--EINLTCPLCRNCI 88 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~~-------~~~~~~~C~H~f~~~C~~~w~--~~~~~CP~Cr~~i 88 (91)
...++..|+||-..+.... ... .+.|+|+||..||+.|- .++.+||.|+..+
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty-~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTY-KLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhhe-eeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 4456778999999886543 222 37899999999999997 4577899997643
No 41
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.59 E-value=3.7e-08 Score=64.91 Aligned_cols=52 Identities=40% Similarity=0.853 Sum_probs=40.4
Q ss_pred CCcccccccccccccCCc----ceeeeCCCCchhhHhhHHHHHh--c-----CCCCccCCCCC
Q 045184 37 SSSSSGCAICLETFADDE----TCRIFLVCNHIFHLNCIDGWLE--I-----NLTCPLCRNCI 88 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~----~~~~~~~C~H~f~~~C~~~w~~--~-----~~~CP~Cr~~i 88 (91)
...+..|.||++...... ...++++|.|.||..|+..|.. + .+.||.||...
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 356788999999876543 2345578999999999999983 3 46899999753
No 42
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.56 E-value=4.8e-08 Score=62.81 Aligned_cols=48 Identities=33% Similarity=0.559 Sum_probs=39.9
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-CCCCccCCCCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-NLTCPLCRNCILD 90 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-~~~CP~Cr~~i~~ 90 (91)
-+.+|+||+.....| +.++|+|.||.-||+..... ..+|++||.+|.+
T Consensus 6 ~~~eC~IC~nt~n~P----v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 6 KKKECLICYNTGNCP----VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred cCCcceeeeccCCcC----ccccccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 456799999998777 55899999999999977655 5669999998864
No 43
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.55 E-value=2.3e-08 Score=72.43 Aligned_cols=64 Identities=28% Similarity=0.606 Sum_probs=45.2
Q ss_pred cccccccccCCCCcccccccccccccCCcc-e--eeeCCCCchhhHhhHHHHHhc--CCCCccCCCCCC
Q 045184 26 LVNYKRQETTTSSSSSGCAICLETFADDET-C--RIFLVCNHIFHLNCIDGWLEI--NLTCPLCRNCIL 89 (91)
Q Consensus 26 ~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~-~--~~~~~C~H~f~~~C~~~w~~~--~~~CP~Cr~~i~ 89 (91)
+.-++.......++-.+|+||+..+..-++ . .....|.|.||..|+-.|+.. +.+||+||..++
T Consensus 1455 l~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1455 LGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred HHHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 334455555556667789999998862111 0 022469999999999999975 567999998764
No 44
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=5.9e-08 Score=64.34 Aligned_cols=45 Identities=36% Similarity=0.924 Sum_probs=34.9
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhc---CCCCccCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI---NLTCPLCR 85 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~---~~~CP~Cr 85 (91)
..|.||.+-+.....+...-.|||+||..|+..|+.. ..+||+|+
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 5699996655555455444569999999999999976 35799998
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.42 E-value=8.3e-08 Score=67.81 Aligned_cols=45 Identities=24% Similarity=0.698 Sum_probs=37.1
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-CCCCccCCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-NLTCPLCRNCIL 89 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-~~~CP~Cr~~i~ 89 (91)
..|++|.+...+. +++.|+|+||..|+..-+.. ...||.|..++.
T Consensus 644 LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFg 689 (698)
T KOG0978|consen 644 LKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFG 689 (698)
T ss_pred eeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCC
Confidence 3599999776665 55789999999999988754 678999998875
No 46
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.42 E-value=4.3e-08 Score=49.67 Aligned_cols=43 Identities=28% Similarity=0.733 Sum_probs=22.2
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
..|++|.+.+..|. .+..|.|.||..|+..-+. ..||+|+.+.
T Consensus 8 LrCs~C~~~l~~pv---~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 8 LRCSICFDILKEPV---CLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp TS-SSS-S--SS-B------SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred cCCcHHHHHhcCCc---eeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 46999999999882 1357999999999987443 4599998764
No 47
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=2.1e-07 Score=62.51 Aligned_cols=49 Identities=31% Similarity=0.776 Sum_probs=43.3
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCILD 90 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~~ 90 (91)
..++.|.||+..+..+ +.+||||.||..|+.+.+.....||.||..+.+
T Consensus 82 ~sef~c~vc~~~l~~p----v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPP----VVTPCGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCC----ccccccccccHHHHHHHhccCCCCccccccccc
Confidence 6678999999999998 668999999999999987778889999988763
No 48
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.39 E-value=2.1e-07 Score=56.91 Aligned_cols=45 Identities=20% Similarity=0.456 Sum_probs=38.4
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNC 87 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~ 87 (91)
-...|.||..+|..| +++.|||.||..|...-.+....|-+|-..
T Consensus 195 IPF~C~iCKkdy~sp----vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 195 IPFLCGICKKDYESP----VVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred Cceeehhchhhccch----hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 346799999999999 778999999999998877778889998643
No 49
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=1.1e-06 Score=56.03 Aligned_cols=54 Identities=28% Similarity=0.562 Sum_probs=41.3
Q ss_pred ccCCCCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc--CCCCccCCCCCC
Q 045184 33 ETTTSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI--NLTCPLCRNCIL 89 (91)
Q Consensus 33 ~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~--~~~CP~Cr~~i~ 89 (91)
+.....++.+|++|-+....|.. ..+|+|+||+.|+..-... ..+||.|..+..
T Consensus 232 sss~~t~~~~C~~Cg~~PtiP~~---~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 232 SSSTGTSDTECPVCGEPPTIPHV---IGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccccCCceeeccCCCCCCCee---eccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 34455667899999998877733 2579999999999876643 578999987654
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=7.6e-07 Score=59.51 Aligned_cols=48 Identities=33% Similarity=0.934 Sum_probs=37.8
Q ss_pred cccccccccccccCCc-ceeeeCCCCchhhHhhHHHHHhc--CCCCccCCC
Q 045184 39 SSSGCAICLETFADDE-TCRIFLVCNHIFHLNCIDGWLEI--NLTCPLCRN 86 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~C~~~w~~~--~~~CP~Cr~ 86 (91)
....||||++.+..+. ...+.+.|||.|...|++.|+.+ ...||.|..
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ 53 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSG 53 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCC
Confidence 3568999999997654 33345789999999999999953 446999964
No 51
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=98.19 E-value=7.8e-07 Score=59.85 Aligned_cols=49 Identities=27% Similarity=0.625 Sum_probs=42.7
Q ss_pred CCcccccccccccccCCcceeee-CCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 37 SSSSSGCAICLETFADDETCRIF-LVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~-~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
...+..|++|...+..+ +. +.|||.||..|+..|+..+..||.|+..+.
T Consensus 18 ~~~~l~C~~C~~vl~~p----~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~ 67 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDP----VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELT 67 (391)
T ss_pred CcccccCccccccccCC----CCCCCCCCcccccccchhhccCcCCcccccccc
Confidence 45678899999999998 44 489999999999999999899999987665
No 52
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.17 E-value=2.6e-07 Score=60.67 Aligned_cols=49 Identities=33% Similarity=0.596 Sum_probs=38.1
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-CCCCccCCCCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-NLTCPLCRNCIL 89 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-~~~CP~Cr~~i~ 89 (91)
..+..|+||++-+..... ...|.|.||.+||...+.. .+.||.||..+.
T Consensus 41 ~~~v~c~icl~llk~tmt---tkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKTMT---TKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhhhccHHHHHHHHhhcc---cHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 445679999999876521 2469999999999877654 678999998764
No 53
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.05 E-value=1.2e-06 Score=56.67 Aligned_cols=52 Identities=31% Similarity=0.795 Sum_probs=41.1
Q ss_pred CCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-----------------------CCCCccCCCCCC
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-----------------------NLTCPLCRNCIL 89 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-----------------------~~~CP~Cr~~i~ 89 (91)
.-....|.||+--|.....+.+ ++|.|.||..|+.+++.. .-.||+||..|.
T Consensus 112 n~p~gqCvICLygfa~~~~ft~-T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~ 186 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPAFTV-TACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIK 186 (368)
T ss_pred CCCCCceEEEEEeecCCCceee-ehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcc
Confidence 3345679999999988876655 799999999999988631 225999998875
No 54
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.01 E-value=1e-05 Score=53.54 Aligned_cols=51 Identities=24% Similarity=0.525 Sum_probs=41.9
Q ss_pred CCCCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 35 TTSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 35 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
...+++..|+||+...... +..||+|.-|+.||.+-+.+.+.|=.|+..+.
T Consensus 417 lp~sEd~lCpICyA~pi~A----vf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAGPINA----VFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CCCcccccCcceecccchh----hccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 3446678899998765554 56899999999999999999999999987654
No 55
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.93 E-value=1e-05 Score=51.14 Aligned_cols=52 Identities=13% Similarity=0.424 Sum_probs=46.7
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCILD 90 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~~ 90 (91)
..+.||+|.+.+.+.....++.||||+|+.+|....+.....||+|-.++.+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 4578999999999988888889999999999999999999999999887754
No 56
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.91 E-value=2.5e-06 Score=61.20 Aligned_cols=47 Identities=26% Similarity=0.486 Sum_probs=35.6
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
.|++|+..+....... -.+|+|.||..|+..|-....+||+||..+.
T Consensus 125 ~CP~Ci~s~~DqL~~~-~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEES-EKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhHHHHHHHHHhhcc-ccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 4777776665443221 2579999999999999999999999997553
No 57
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.91 E-value=5.1e-06 Score=55.57 Aligned_cols=46 Identities=37% Similarity=0.744 Sum_probs=36.4
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc--CCCCccCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI--NLTCPLCR 85 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~--~~~CP~Cr 85 (91)
+..|..|-+.+.-...-...+||.|+||..|+...+.+ ..+||.||
T Consensus 365 ~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Cr 412 (518)
T KOG1941|consen 365 ELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCR 412 (518)
T ss_pred hhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHH
Confidence 34599999998754433334899999999999998855 56799998
No 58
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.87 E-value=1.1e-05 Score=55.87 Aligned_cols=49 Identities=31% Similarity=0.698 Sum_probs=38.5
Q ss_pred CCCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-----CCCCccCCCCC
Q 045184 36 TSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-----NLTCPLCRNCI 88 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-----~~~CP~Cr~~i 88 (91)
...+..+|.+|.++-... +...|.|.||.-|+..++.. +.+||+|.-.+
T Consensus 532 enk~~~~C~lc~d~aed~----i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDY----IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred cccCceeecccCChhhhh----HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 344567899999987766 55789999999999888743 57899996543
No 59
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.84 E-value=7.2e-06 Score=55.05 Aligned_cols=43 Identities=35% Similarity=0.817 Sum_probs=33.5
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHhc--CCCCccCCCCCC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI--NLTCPLCRNCIL 89 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~--~~~CP~Cr~~i~ 89 (91)
|-||-+.-.+- ..-||||..|..|+..|... ..+||.||..|.
T Consensus 372 CKICaendKdv----kIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 372 CKICAENDKDV----KIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHhhccCCCc----ccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 99998763332 33699999999999999743 568999997653
No 60
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.79 E-value=3.5e-05 Score=49.36 Aligned_cols=52 Identities=15% Similarity=0.341 Sum_probs=42.5
Q ss_pred CCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
....+.|||....|.....+..+.+|||+|...++...- ....||+|-.++.
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFT 161 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccc
Confidence 455678999999997766777778999999999999873 3567999988764
No 61
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.79 E-value=1.2e-05 Score=40.22 Aligned_cols=43 Identities=28% Similarity=0.552 Sum_probs=28.0
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc--CCCCcc
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI--NLTCPL 83 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~--~~~CP~ 83 (91)
.-...|||.+..|.+|.. ...|+|.|-.+.|..|++. ...||+
T Consensus 9 ~~~~~CPiT~~~~~~PV~---s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVK---SKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEEE---ESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCCcC---cCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 345679999999998822 2579999999999999943 456998
No 62
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=4.1e-06 Score=54.02 Aligned_cols=42 Identities=36% Similarity=0.821 Sum_probs=33.2
Q ss_pred ccccccccccccCCcceeeeCCCCc-hhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNH-IFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H-~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
+.-|.||++....- ++|+||| +-|.+|-.+. ..||+||+.|.
T Consensus 300 ~~LC~ICmDaP~DC----vfLeCGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDC----VFLECGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcce----EEeecCcEEeehhhcccc----ccCchHHHHHH
Confidence 67799999986655 6799999 7788887654 37999997654
No 63
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=4.3e-05 Score=50.51 Aligned_cols=44 Identities=27% Similarity=0.680 Sum_probs=30.6
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
.....|.||.+...+- +.+||||.-| |..-. +....||+||..|
T Consensus 303 ~~p~lcVVcl~e~~~~----~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI 346 (355)
T KOG1571|consen 303 PQPDLCVVCLDEPKSA----VFVPCGHVCC--CTLCS-KHLPQCPVCRQRI 346 (355)
T ss_pred CCCCceEEecCCccce----eeecCCcEEE--chHHH-hhCCCCchhHHHH
Confidence 3345699999987774 6689999765 44332 2234599999865
No 64
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.68 E-value=4.5e-05 Score=36.66 Aligned_cols=46 Identities=24% Similarity=0.443 Sum_probs=22.5
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHh-cCCCCccCCCCC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLE-INLTCPLCRNCI 88 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~-~~~~CP~Cr~~i 88 (91)
|++|.+++...+.-..--+|+..+|..|....+. ....||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999854432211135889999999988876 477899999864
No 65
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=4.8e-05 Score=47.64 Aligned_cols=48 Identities=33% Similarity=0.839 Sum_probs=39.5
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc--------CCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI--------NLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~--------~~~CP~Cr~~i~ 89 (91)
...|..|...+..++.++ +.|.|.||.+|+..|..+ ...||-|...|.
T Consensus 50 ~pNC~LC~t~La~gdt~R--LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGDTTR--LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCceeCCccccCccee--ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccC
Confidence 456999999999988754 579999999999999754 346999988765
No 66
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.66 E-value=3.3e-05 Score=55.88 Aligned_cols=49 Identities=33% Similarity=0.798 Sum_probs=39.8
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-------CCCCccCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-------NLTCPLCRN 86 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-------~~~CP~Cr~ 86 (91)
...++|.||++.+.....++....|.|+||..||..|... .-.||.|..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 4467899999999888777666779999999999999854 125999974
No 67
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.65 E-value=1.4e-05 Score=52.25 Aligned_cols=46 Identities=33% Similarity=0.614 Sum_probs=38.4
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
-..|.+|-..|.....+ .-|-|.||.+||-..+...+.||.|.-.+
T Consensus 15 ~itC~LC~GYliDATTI---~eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 15 HITCRLCGGYLIDATTI---TECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred ceehhhccceeecchhH---HHHHHHHHHHHHHHHHHHhccCCccceec
Confidence 45699999988776432 56999999999999999999999997654
No 68
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.64 E-value=1.5e-05 Score=51.50 Aligned_cols=44 Identities=23% Similarity=0.432 Sum_probs=38.2
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
..|.||...|..| +.+.|+|.||..|...-++....|++|...+
T Consensus 242 f~c~icr~~f~~p----Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 242 FKCFICRKYFYRP----VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred ccccccccccccc----hhhcCCceeehhhhccccccCCcceeccccc
Confidence 4599999999999 7789999999999988777778899997654
No 69
>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=97.64 E-value=2.7e-05 Score=43.19 Aligned_cols=33 Identities=24% Similarity=0.786 Sum_probs=26.2
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHH
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCID 72 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~ 72 (91)
.++..|++|...+..+ ..+..||||.||..|+.
T Consensus 76 ~~~~~C~vC~k~l~~~--~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNS--VFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCc--eEEEeCCCeEEeccccc
Confidence 4466799999999774 23447999999999975
No 70
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=97.54 E-value=5.2e-05 Score=48.87 Aligned_cols=48 Identities=29% Similarity=0.581 Sum_probs=40.5
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
....||||.+.+.........++|||..|..|+........+||+|..
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 344599999998877766666899999999999998877789999976
No 71
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.47 E-value=0.00011 Score=35.30 Aligned_cols=40 Identities=35% Similarity=0.951 Sum_probs=26.3
Q ss_pred cccccccccCCcceeeeCCCC-----chhhHhhHHHHHhc--CCCCccC
Q 045184 43 CAICLETFADDETCRIFLVCN-----HIFHLNCIDGWLEI--NLTCPLC 84 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~-----H~f~~~C~~~w~~~--~~~CP~C 84 (91)
|-||++.-..... ...||+ ...|.+|+..|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~~--li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEP--LISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS---EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCc--eecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 6789888666542 336766 27899999999964 5678887
No 72
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=97.46 E-value=8.5e-05 Score=43.02 Aligned_cols=42 Identities=17% Similarity=0.494 Sum_probs=30.7
Q ss_pred ccccccccccccCCcceeeeCCCC------chhhHhhHHHHHhcCCCCc
Q 045184 40 SSGCAICLETFADDETCRIFLVCN------HIFHLNCIDGWLEINLTCP 82 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~------H~f~~~C~~~w~~~~~~CP 82 (91)
..+|.||++.+....+++. ++|| |.||.+|+.+|......=|
T Consensus 26 ~~EC~IC~~~I~~~~GvV~-vt~~g~lnLEkmfc~~C~~rw~~~~~rDP 73 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVY-VTDGGTLNLEKMFCADCDKRWRRERNRDP 73 (134)
T ss_pred CeeehhhhhhhhcCCCEEE-EecCCeehHHHHHHHHHHHHHHhhccCCC
Confidence 5679999999988555544 3565 8999999999954433333
No 73
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.27 E-value=0.00044 Score=41.14 Aligned_cols=48 Identities=27% Similarity=0.675 Sum_probs=34.2
Q ss_pred CCCcccccccccccccCCcceeeeCCCCc-----hhhHhhHHHHHhc--CCCCccCCCCC
Q 045184 36 TSSSSSGCAICLETFADDETCRIFLVCNH-----IFHLNCIDGWLEI--NLTCPLCRNCI 88 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H-----~f~~~C~~~w~~~--~~~CP~Cr~~i 88 (91)
.+..+..|-||.+..... . .||.- ..|.+|+..|+.. ...|++|+.+.
T Consensus 4 ~s~~~~~CRIC~~~~~~~----~-~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 4 VSLMDKCCWICKDEYDVV----T-NYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred cCCCCCeeEecCCCCCCc----c-CCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 345567899999874321 2 46653 5699999999965 45699998653
No 74
>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=97.26 E-value=0.00024 Score=42.17 Aligned_cols=32 Identities=31% Similarity=0.799 Sum_probs=22.2
Q ss_pred ccccccccccccCCcceeeeCC------------CCc-hhhHhhHHHHH
Q 045184 40 SSGCAICLETFADDETCRIFLV------------CNH-IFHLNCIDGWL 75 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~------------C~H-~f~~~C~~~w~ 75 (91)
+..|+|||+...+. ++|- |+. .-|..|++++.
T Consensus 2 d~~CpICme~PHNA----VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 2 DVTCPICMEHPHNA----VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CccCceeccCCCce----EEEEeccccCCccccccCCccchhHHHHHHH
Confidence 56799999987665 3332 443 34678999875
No 75
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.23 E-value=0.0004 Score=46.19 Aligned_cols=48 Identities=27% Similarity=0.540 Sum_probs=36.7
Q ss_pred CCCcccccccccccccCCcceeeeCCCCchhhHhhHHHH--HhcCCCCccCCCC
Q 045184 36 TSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGW--LEINLTCPLCRNC 87 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w--~~~~~~CP~Cr~~ 87 (91)
..++...|.||-+.+.-. .++||+|..|.-|.-+. +...+.||+||..
T Consensus 57 tDEen~~C~ICA~~~TYs----~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE 106 (493)
T COG5236 57 TDEENMNCQICAGSTTYS----ARYPCGHQICHACAVRLRALYMQKGCPLCRTE 106 (493)
T ss_pred cccccceeEEecCCceEE----EeccCCchHHHHHHHHHHHHHhccCCCccccc
Confidence 344556799998876554 56899999999998654 3468899999863
No 76
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.21 E-value=0.00027 Score=47.68 Aligned_cols=36 Identities=28% Similarity=0.731 Sum_probs=28.5
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHh
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLE 76 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~ 76 (91)
-..|.||++........ +.+||+|+||..|+..++.
T Consensus 184 lf~C~ICf~e~~G~~c~-~~lpC~Hv~Ck~C~kdY~~ 219 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCF-KFLPCSHVFCKSCLKDYFT 219 (445)
T ss_pred cccceeeehhhcCccee-eecccchHHHHHHHHHHHH
Confidence 45699999986544443 5589999999999999874
No 77
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.20 E-value=0.00036 Score=46.30 Aligned_cols=48 Identities=21% Similarity=0.383 Sum_probs=34.9
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-CCCCccCCCCCC
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-NLTCPLCRNCIL 89 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-~~~CP~Cr~~i~ 89 (91)
-||.|++++...+.-..--+||-..|.-|....... +..||-||....
T Consensus 16 ~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 16 YCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred cCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 399999999876543333578988888887665433 678999997654
No 78
>PHA02862 5L protein; Provisional
Probab=97.19 E-value=0.00045 Score=40.50 Aligned_cols=43 Identities=23% Similarity=0.714 Sum_probs=32.3
Q ss_pred cccccccccccCCcceeeeCCCC-----chhhHhhHHHHHhc--CCCCccCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCN-----HIFHLNCIDGWLEI--NLTCPLCRNCI 88 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~C~~~w~~~--~~~CP~Cr~~i 88 (91)
..|-||.+.-.+. . -||. ...|.+|+.+|++. +..|++|+.+.
T Consensus 3 diCWIC~~~~~e~----~-~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 3 DICWICNDVCDER----N-NFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred CEEEEecCcCCCC----c-ccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 4699999985443 2 4655 47899999999965 55799998753
No 79
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=0.00029 Score=45.73 Aligned_cols=47 Identities=30% Similarity=0.748 Sum_probs=37.0
Q ss_pred cccccccccccCC--cceeeeCCCCchhhHhhHHHHHhc-CCCCccCCCC
Q 045184 41 SGCAICLETFADD--ETCRIFLVCNHIFHLNCIDGWLEI-NLTCPLCRNC 87 (91)
Q Consensus 41 ~~C~IC~~~~~~~--~~~~~~~~C~H~f~~~C~~~w~~~-~~~CP~Cr~~ 87 (91)
..|.||-++|+.. ......+.|||.+|..|+...+.. ...||.||.+
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~ 53 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRET 53 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCc
Confidence 4699999999865 333345789999999999887755 4469999987
No 80
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.15 E-value=0.00013 Score=45.92 Aligned_cols=43 Identities=26% Similarity=0.709 Sum_probs=29.7
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
-|..|...-. +... .++.|+|+||..|...-. ...||+|+.++
T Consensus 5 hCn~C~~~~~-~~~f-~LTaC~HvfC~~C~k~~~--~~~C~lCkk~i 47 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPF-FLTACRHVFCEPCLKASS--PDVCPLCKKSI 47 (233)
T ss_pred EeccccccCC-CCce-eeeechhhhhhhhcccCC--cccccccccee
Confidence 3666766544 3333 447899999999986522 23899999874
No 81
>PHA03096 p28-like protein; Provisional
Probab=97.15 E-value=0.00031 Score=45.66 Aligned_cols=45 Identities=31% Similarity=0.546 Sum_probs=32.6
Q ss_pred cccccccccccCC----cceeeeCCCCchhhHhhHHHHHhc---CCCCccCC
Q 045184 41 SGCAICLETFADD----ETCRIFLVCNHIFHLNCIDGWLEI---NLTCPLCR 85 (91)
Q Consensus 41 ~~C~IC~~~~~~~----~~~~~~~~C~H~f~~~C~~~w~~~---~~~CP~Cr 85 (91)
..|.||++..... ....++..|.|.||..|+..|... ..+||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 6799999977542 234466789999999999999854 33454443
No 82
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.09 E-value=0.00031 Score=34.61 Aligned_cols=42 Identities=26% Similarity=0.521 Sum_probs=29.1
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
.|..|...-..+ .++||+|..+..|..-+ +-+.||+|-.++-
T Consensus 9 ~~~~~~~~~~~~----~~~pCgH~I~~~~f~~~--rYngCPfC~~~~~ 50 (55)
T PF14447_consen 9 PCVFCGFVGTKG----TVLPCGHLICDNCFPGE--RYNGCPFCGTPFE 50 (55)
T ss_pred eEEEcccccccc----ccccccceeeccccChh--hccCCCCCCCccc
Confidence 355555443333 56899999999998754 3456999987764
No 83
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.05 E-value=0.00061 Score=44.83 Aligned_cols=47 Identities=19% Similarity=0.384 Sum_probs=37.3
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNC 87 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~ 87 (91)
.+...||+|+....+|..+ ..-|-+||+.|+..++.+.+.||+=..+
T Consensus 298 ~~~~~CpvClk~r~Nptvl---~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVL---EVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred CccccChhHHhccCCCceE---EecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 4456799999998887432 3368899999999999999999985443
No 84
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.05 E-value=0.00092 Score=48.76 Aligned_cols=41 Identities=27% Similarity=0.724 Sum_probs=32.8
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
...|..|-..+.-|. +..-|||.||..|+. .+...||.|+.
T Consensus 840 ~skCs~C~~~LdlP~---VhF~CgHsyHqhC~e---~~~~~CP~C~~ 880 (933)
T KOG2114|consen 840 VSKCSACEGTLDLPF---VHFLCGHSYHQHCLE---DKEDKCPKCLP 880 (933)
T ss_pred eeeecccCCccccce---eeeecccHHHHHhhc---cCcccCCccch
Confidence 357999999998883 235699999999998 35667999975
No 85
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.95 E-value=0.0019 Score=42.33 Aligned_cols=43 Identities=26% Similarity=0.598 Sum_probs=34.0
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHh-cCCCCccCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLE-INLTCPLCRN 86 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~-~~~~CP~Cr~ 86 (91)
..|+.|..-+.++-.. .-|+|.||..||...+. ..+.||.|..
T Consensus 275 LkCplc~~Llrnp~kT---~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKT---PCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccC---ccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799999998887331 35899999999987664 4778999943
No 86
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=96.84 E-value=0.00068 Score=44.38 Aligned_cols=43 Identities=26% Similarity=0.655 Sum_probs=34.0
Q ss_pred cccccccccccccCCcceeeeCCC--CchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVC--NHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C--~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
+-.+||||.+.+..| + ..| ||..|..|-.. ....||.||.++.
T Consensus 47 ~lleCPvC~~~l~~P----i-~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSPP----I-FQCDNGHLACSSCRTK---VSNKCPTCRLPIG 91 (299)
T ss_pred hhccCchhhccCccc----c-eecCCCcEehhhhhhh---hcccCCccccccc
Confidence 346799999999998 4 456 58888888753 5678999999876
No 87
>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=96.74 E-value=0.001 Score=31.26 Aligned_cols=41 Identities=27% Similarity=0.723 Sum_probs=22.2
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHhcCC--CCccC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINL--TCPLC 84 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~--~CP~C 84 (91)
|.+|.+....+..-.- ..|+-.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~-~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSN-RDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCC-CccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 5677777766633211 25888999999999987644 69987
No 88
>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=96.60 E-value=0.0025 Score=41.38 Aligned_cols=47 Identities=19% Similarity=0.562 Sum_probs=35.1
Q ss_pred cccccccc-ccCCcceeeeCCCCchhhHhhHHHHHhc-CCCCccCCCCC
Q 045184 42 GCAICLET-FADDETCRIFLVCNHIFHLNCIDGWLEI-NLTCPLCRNCI 88 (91)
Q Consensus 42 ~C~IC~~~-~~~~~~~~~~~~C~H~f~~~C~~~w~~~-~~~CP~Cr~~i 88 (91)
.||+|... |-+|+-....-+|+|..|.+|....+.. ...||.|...+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 48999874 4455544344589999999999998865 56799997554
No 89
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.60 E-value=0.0017 Score=50.49 Aligned_cols=53 Identities=36% Similarity=0.736 Sum_probs=37.3
Q ss_pred CCCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcC----------CCCccCCCCCC
Q 045184 36 TSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEIN----------LTCPLCRNCIL 89 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~----------~~CP~Cr~~i~ 89 (91)
..+.+..|.||+..--... ..+.+.|+|.||..|....+.+. -+||+|..+|-
T Consensus 3482 kQD~DDmCmICFTE~L~AA-P~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAA-PAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccCceEEEEehhhhCCC-cceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 3345667999988643332 23558999999999998766441 26999987763
No 90
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.53 E-value=0.0024 Score=46.82 Aligned_cols=39 Identities=18% Similarity=0.434 Sum_probs=29.1
Q ss_pred CCCCcccccccccccccCCcceeeeCCCCchhhHhhHHHHH
Q 045184 35 TTSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 35 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~ 75 (91)
...+.+..|.+|..++..... .+-||||.||.+|+..-.
T Consensus 812 ~v~ep~d~C~~C~~~ll~~pF--~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 812 RVLEPQDSCDHCGRPLLIKPF--YVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred EEecCccchHHhcchhhcCcc--eeeeccchHHHHHHHHHH
Confidence 344556679999998866532 336899999999998654
No 91
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=96.51 E-value=0.00047 Score=32.90 Aligned_cols=31 Identities=29% Similarity=0.702 Sum_probs=22.6
Q ss_pred CCCC-chhhHhhHHHHHhcCCCCccCCCCCCC
Q 045184 60 LVCN-HIFHLNCIDGWLEINLTCPLCRNCILD 90 (91)
Q Consensus 60 ~~C~-H~f~~~C~~~w~~~~~~CP~Cr~~i~~ 90 (91)
..|+ |..|..|+...+..+..||+|..+++.
T Consensus 16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp EE-SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred eeecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 4577 899999999999999999999988864
No 92
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=96.15 E-value=0.0073 Score=29.73 Aligned_cols=34 Identities=21% Similarity=0.615 Sum_probs=28.7
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHH
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDG 73 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~ 73 (91)
...|++|-+.|...+.+++...|+-.+|+.|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 4569999999987777777788999999999754
No 93
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=96.11 E-value=0.028 Score=32.64 Aligned_cols=51 Identities=22% Similarity=0.451 Sum_probs=34.7
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc---CCCCccCCCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI---NLTCPLCRNCIL 89 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~---~~~CP~Cr~~i~ 89 (91)
.-++|.||.+...+...+.----||-..|.-|-....+. ...||+|+.++.
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFK 132 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFK 132 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccc
Confidence 568899999986554221100128988888887665543 567999998764
No 94
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.08 E-value=0.0078 Score=36.72 Aligned_cols=30 Identities=33% Similarity=0.811 Sum_probs=24.2
Q ss_pred CCCCchhhHhhHHHHHhc-----------CCCCccCCCCCC
Q 045184 60 LVCNHIFHLNCIDGWLEI-----------NLTCPLCRNCIL 89 (91)
Q Consensus 60 ~~C~H~f~~~C~~~w~~~-----------~~~CP~Cr~~i~ 89 (91)
..||..||.-|+..|+.. -..||.|..++.
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pia 228 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIA 228 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcce
Confidence 469999999999999954 125999988763
No 95
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.98 E-value=0.0028 Score=45.68 Aligned_cols=43 Identities=33% Similarity=0.804 Sum_probs=32.8
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhc--CCCCccCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI--NLTCPLCRNCI 88 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~--~~~CP~Cr~~i 88 (91)
..|.+|.+ .... +..+|+|.||..|+...+.. ...||.||..+
T Consensus 455 ~~c~ic~~-~~~~----~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l 499 (674)
T KOG1001|consen 455 HWCHICCD-LDSF----FITRCGHDFCVECLKKSIQQSENAPCPLCRNVL 499 (674)
T ss_pred cccccccc-cccc----eeecccchHHHHHHHhccccccCCCCcHHHHHH
Confidence 78999999 2222 44789999999999887754 33599998754
No 96
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.85 E-value=0.003 Score=37.90 Aligned_cols=31 Identities=32% Similarity=0.654 Sum_probs=25.1
Q ss_pred CCcccccccccccccCCcceeeeCCCCchhhH
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNHIFHL 68 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~ 68 (91)
..+..+|.||++++..++.+.. +||-.+||.
T Consensus 174 ~ddkGECvICLEdL~~GdtIAR-LPCLCIYHK 204 (205)
T KOG0801|consen 174 KDDKGECVICLEDLEAGDTIAR-LPCLCIYHK 204 (205)
T ss_pred cccCCcEEEEhhhccCCCceec-cceEEEeec
Confidence 3455689999999999988755 899888874
No 97
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=95.77 E-value=0.004 Score=40.94 Aligned_cols=42 Identities=29% Similarity=0.666 Sum_probs=28.0
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
.|.-|--.+..- ..+.||.|+||.+|... ...+.||.|-..+
T Consensus 92 fCd~Cd~PI~IY---GRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 92 FCDRCDFPIAIY---GRMIPCKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred eecccCCcceee---ecccccchhhhhhhhhc--CccccCcCcccHH
Confidence 466664444321 13479999999999864 3367899996543
No 98
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.74 E-value=0.013 Score=37.51 Aligned_cols=48 Identities=10% Similarity=0.209 Sum_probs=39.6
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
.+.|||-.-.|........+.+|||+|-..-+... ...+|++|.+++-
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~ 158 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQ 158 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccc
Confidence 45799999898888887788899999998888774 4778999987654
No 99
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=95.71 E-value=0.0062 Score=41.92 Aligned_cols=34 Identities=24% Similarity=0.574 Sum_probs=29.3
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHH
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~ 75 (91)
+++..|+||..-|.+| +.+||+|..|..|....+
T Consensus 2 eeelkc~vc~~f~~ep----iil~c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREP----IILPCSHNLCQACARNIL 35 (699)
T ss_pred cccccCceehhhccCc----eEeecccHHHHHHHHhhc
Confidence 3466799999999999 779999999999988654
No 100
>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=95.44 E-value=0.012 Score=39.56 Aligned_cols=27 Identities=30% Similarity=0.976 Sum_probs=20.8
Q ss_pred CCchhhHhhHHHHHhc-------------CCCCccCCCCC
Q 045184 62 CNHIFHLNCIDGWLEI-------------NLTCPLCRNCI 88 (91)
Q Consensus 62 C~H~f~~~C~~~w~~~-------------~~~CP~Cr~~i 88 (91)
|...+|.+|+.+|+.. +-.||+||+.+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 4457799999999843 34699999875
No 101
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.28 E-value=0.0061 Score=38.04 Aligned_cols=39 Identities=31% Similarity=0.599 Sum_probs=27.0
Q ss_pred cccccccccCCcceeeeCCCCc-hhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 43 CAICLETFADDETCRIFLVCNH-IFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H-~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
|-.|.+.-. ...++||.| .+|..|-.. -..||+|+.+..
T Consensus 161 Cr~C~~~~~----~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREA----TVLLLPCRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcCCc----eEEeecccceEeccccccc----CccCCCCcChhh
Confidence 777766522 235689998 888888653 346999987653
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=95.02 E-value=0.014 Score=37.25 Aligned_cols=47 Identities=19% Similarity=0.496 Sum_probs=33.3
Q ss_pred cccccccccccc-cCCcceeeeCC-CCchhhHhhHHHHHhcC-CCCc--cCC
Q 045184 39 SSSGCAICLETF-ADDETCRIFLV-CNHIFHLNCIDGWLEIN-LTCP--LCR 85 (91)
Q Consensus 39 ~~~~C~IC~~~~-~~~~~~~~~~~-C~H~f~~~C~~~w~~~~-~~CP--~Cr 85 (91)
.+..||+|..+. -+|+.....-| |.|..|.+|..+.+... -.|| -|.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~ 60 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCG 60 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHH
Confidence 455799998753 45554333344 99999999999998764 4698 563
No 103
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=94.86 E-value=0.02 Score=41.94 Aligned_cols=26 Identities=27% Similarity=0.728 Sum_probs=22.6
Q ss_pred eeCCCCchhhHhhHHHHHhcCCCCcc
Q 045184 58 IFLVCNHIFHLNCIDGWLEINLTCPL 83 (91)
Q Consensus 58 ~~~~C~H~f~~~C~~~w~~~~~~CP~ 83 (91)
+...|+|+.|.+|...|+...-.||.
T Consensus 1044 ~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1044 FCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred hhccccccccHHHHHHHHhcCCcCCC
Confidence 34679999999999999999888884
No 104
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.63 E-value=0.0096 Score=45.49 Aligned_cols=43 Identities=28% Similarity=0.708 Sum_probs=36.1
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
..|.||.+.+.+-.. ...|||.+|..|...|+..+..||.|..
T Consensus 1154 ~~c~ic~dil~~~~~---I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1154 FVCEICLDILRNQGG---IAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cchHHHHHHHHhcCC---eeeechhHhhhHHHHHHHHhccCcchhh
Confidence 469999999874332 2569999999999999999999999974
No 105
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.56 E-value=0.03 Score=37.91 Aligned_cols=45 Identities=20% Similarity=0.558 Sum_probs=33.2
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcC---CCCccCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEIN---LTCPLCR 85 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~---~~CP~Cr 85 (91)
...|||=.+.-.+.. ..+.+.|||+...+-+.+..++. ..||.|-
T Consensus 334 vF~CPVlKeqtsdeN-PPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 334 VFICPVLKEQTSDEN-PPMMLICGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred eeecccchhhccCCC-CCeeeeccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 356999877654432 23668999999999999987653 4699993
No 106
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.13 E-value=0.0035 Score=42.33 Aligned_cols=50 Identities=26% Similarity=0.575 Sum_probs=39.4
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
...|+||...+.....-...+-|||.+|..|+..|+.....||.|+..+.
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 45699999999775221122569999999999999988888999987665
No 107
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=94.12 E-value=0.015 Score=41.96 Aligned_cols=45 Identities=36% Similarity=0.777 Sum_probs=36.0
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc---CCCCccCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI---NLTCPLCRNCI 88 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~---~~~CP~Cr~~i 88 (91)
..+|+||...+..+ ..+.|.|.|+..|+..-+.. ...||+|+..+
T Consensus 21 ~lEc~ic~~~~~~p----~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 21 ILECPICLEHVKEP----SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred hccCCceeEEeecc----chhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 45799999999998 66899999999998755533 45799998654
No 108
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.12 E-value=0.036 Score=36.37 Aligned_cols=27 Identities=22% Similarity=0.669 Sum_probs=21.2
Q ss_pred CCchhhHhhHHHHHhc-------------CCCCccCCCCC
Q 045184 62 CNHIFHLNCIDGWLEI-------------NLTCPLCRNCI 88 (91)
Q Consensus 62 C~H~f~~~C~~~w~~~-------------~~~CP~Cr~~i 88 (91)
|...+|.+|+.+|+.. +-+||+||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 4568899999999843 44799999865
No 109
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.80 E-value=0.03 Score=38.06 Aligned_cols=37 Identities=24% Similarity=0.656 Sum_probs=27.2
Q ss_pred ccccccccccccCC-cceeeeCCCCchhhHhhHHHHHhc
Q 045184 40 SSGCAICLETFADD-ETCRIFLVCNHIFHLNCIDGWLEI 77 (91)
Q Consensus 40 ~~~C~IC~~~~~~~-~~~~~~~~C~H~f~~~C~~~w~~~ 77 (91)
..+|.||+...... .... ...|+|.||..|+.+.+..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~-~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFS-VLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccCccCccccccHhhhHH-HhcccchhhhHHhHHHhhh
Confidence 56799999544443 3333 4789999999999988753
No 110
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.52 E-value=0.082 Score=34.41 Aligned_cols=48 Identities=25% Similarity=0.692 Sum_probs=33.9
Q ss_pred ccccccccccccCCcceeeeCCCC-----chhhHhhHHHHHh--cCCCCccCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCN-----HIFHLNCIDGWLE--INLTCPLCRNC 87 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~C~~~w~~--~~~~CP~Cr~~ 87 (91)
+..|-||..............||. ...|..|+..|+. ....|.+|...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~ 132 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF 132 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence 467999999765443212335665 4779999999997 45679999764
No 111
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.49 E-value=0.052 Score=34.96 Aligned_cols=53 Identities=23% Similarity=0.625 Sum_probs=35.7
Q ss_pred CCCCcccccccccccccCCcceeeeCCCC-----chhhHhhHHHHHhc--------CCCCccCCCC
Q 045184 35 TTSSSSSGCAICLETFADDETCRIFLVCN-----HIFHLNCIDGWLEI--------NLTCPLCRNC 87 (91)
Q Consensus 35 ~~~~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~C~~~w~~~--------~~~CP~Cr~~ 87 (91)
++.+.+..|=||+..-++.....-+-||. |..|..|+..|+.. ..+||.|+..
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 34455667999998755543321224664 78999999999843 2359999764
No 112
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.48 E-value=0.097 Score=36.18 Aligned_cols=37 Identities=32% Similarity=0.686 Sum_probs=29.1
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI 77 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~ 77 (91)
.....|.||.+.+.. . .+.+.|+|.||..|....+.+
T Consensus 68 ~~~~~c~ic~~~~~~--~-~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--E-IIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--h-hhhcCCCcHHHHHHHHHHhhh
Confidence 445789999999866 1 244789999999999988754
No 113
>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=93.05 E-value=0.096 Score=29.76 Aligned_cols=36 Identities=22% Similarity=0.273 Sum_probs=23.1
Q ss_pred CcccccccccccccCCc-ceeeeCCCCchhhHhhHHH
Q 045184 38 SSSSGCAICLETFADDE-TCRIFLVCNHIFHLNCIDG 73 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~-~~~~~~~C~H~f~~~C~~~ 73 (91)
.++..|.+|..+|.--. .-.....|+|.+|..|-..
T Consensus 52 ~~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 52 YGERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY 88 (118)
T ss_dssp HCCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred cCCcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence 35678999998875322 1134478999999998643
No 114
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=92.65 E-value=0.22 Score=28.17 Aligned_cols=46 Identities=26% Similarity=0.429 Sum_probs=33.8
Q ss_pred ccccccccccccCCc----------ceeeeCCCCchhhHhhHHHHHhcCCCCccCC
Q 045184 40 SSGCAICLETFADDE----------TCRIFLVCNHIFHLNCIDGWLEINLTCPLCR 85 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~----------~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr 85 (91)
...|.-|...|..+. .......|++.||.+|-.-+...-.+||.|.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 356999999886431 1122467999999999887777777899995
No 115
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.50 E-value=0.056 Score=39.02 Aligned_cols=40 Identities=30% Similarity=0.620 Sum_probs=30.6
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCc
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCP 82 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP 82 (91)
..|.||+..|.......+.+.|||..|..|+.... +.+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly--n~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY--NASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh--hccCC
Confidence 45999988887655444668899999999998764 45566
No 116
>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=92.26 E-value=0.14 Score=24.97 Aligned_cols=43 Identities=26% Similarity=0.473 Sum_probs=21.5
Q ss_pred cccccccccCCc------ceeeeCCCCchhhHhhHHHHHhcCCCCccCC
Q 045184 43 CAICLETFADDE------TCRIFLVCNHIFHLNCIDGWLEINLTCPLCR 85 (91)
Q Consensus 43 C~IC~~~~~~~~------~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr 85 (91)
|.-|...+..+. .......|++.||.+|=.-.-..-.+||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 455666665541 2223467999999999654334455799884
No 117
>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=91.80 E-value=0.31 Score=24.12 Aligned_cols=45 Identities=24% Similarity=0.650 Sum_probs=31.1
Q ss_pred cccccccccccCCcceeeeCCCCc--hhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNH--IFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H--~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
..|-.|-.++.....-. .-|++ .||.+|....+ ...||.|...++
T Consensus 6 pnCE~C~~dLp~~s~~A--~ICSfECTFC~~C~e~~l--~~~CPNCgGelv 52 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEA--YICSFECTFCADCAETML--NGVCPNCGGELV 52 (57)
T ss_pred CCccccCCCCCCCCCcc--eEEeEeCcccHHHHHHHh--cCcCcCCCCccc
Confidence 35777777776654211 22663 89999998865 678999987765
No 118
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=91.39 E-value=0.42 Score=31.99 Aligned_cols=62 Identities=21% Similarity=0.312 Sum_probs=39.4
Q ss_pred hcccccccccCCCCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCC
Q 045184 25 HLVNYKRQETTTSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNC 87 (91)
Q Consensus 25 ~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~ 87 (91)
.+..+.............|..|.+........ ..-.|.+.||.+|-.-....-..||.|...
T Consensus 315 PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y-~C~~Ck~~FCldCDv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 315 PLKPFVEIPETEYNGSRFCFACQGELLSSGRY-RCESCKNVFCLDCDVFIHESLHNCPGCEHK 376 (378)
T ss_pred CCcchhhccccccCCCcceeeeccccCCCCcE-EchhccceeeccchHHHHhhhhcCCCcCCC
Confidence 34444444444444555699996666554443 336799999999976544445579999754
No 119
>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=90.35 E-value=0.13 Score=26.12 Aligned_cols=36 Identities=19% Similarity=0.360 Sum_probs=18.6
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHH
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGW 74 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w 74 (91)
+...|.+|...|.--..--....||++||.+|....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 346799999999654433344679999999998643
No 120
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.27 E-value=0.18 Score=37.46 Aligned_cols=48 Identities=15% Similarity=0.334 Sum_probs=32.3
Q ss_pred cccccccccccCCcc-eee--eCCCCchhhHhhHHHHHhc------CCCCccCCCCC
Q 045184 41 SGCAICLETFADDET-CRI--FLVCNHIFHLNCIDGWLEI------NLTCPLCRNCI 88 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~-~~~--~~~C~H~f~~~C~~~w~~~------~~~CP~Cr~~i 88 (91)
..|.+|...+..+.. ..+ +-.|+|.||..||..|..+ .-.|++|..-|
T Consensus 97 ~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 97 DTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 458888877776432 112 2349999999999999853 33578886544
No 121
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=89.34 E-value=0.74 Score=24.36 Aligned_cols=50 Identities=20% Similarity=0.332 Sum_probs=20.1
Q ss_pred cccccccccccccC---CcceeeeCCCCchhhHhhHHHHHh-cCCCCccCCCCC
Q 045184 39 SSSGCAICLETFAD---DETCRIFLVCNHIFHLNCIDGWLE-INLTCPLCRNCI 88 (91)
Q Consensus 39 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~f~~~C~~~w~~-~~~~CP~Cr~~i 88 (91)
+...|.||-+.+.. ++..+..-.|+-..|..|..-=.+ .++.||.|+.+.
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 45679999998853 333333346777888888864333 467899998654
No 122
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=89.16 E-value=0.35 Score=32.24 Aligned_cols=49 Identities=22% Similarity=0.416 Sum_probs=34.9
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
..|+||.++....+...+=.||++..|..|+......+.+||.||.+..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 5699999988544432222467887777787776677889999997643
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=88.65 E-value=0.42 Score=23.03 Aligned_cols=43 Identities=19% Similarity=0.526 Sum_probs=18.8
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhc-----CCCCccCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI-----NLTCPLCRNC 87 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~-----~~~CP~Cr~~ 87 (91)
..|+|-...+..|.+ ...|.|.-|.+ +..|+.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~P~R---g~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVR---GKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEE---ETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCcc---CCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 468888888877733 25799975433 2334322 2369999764
No 124
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.49 E-value=0.11 Score=30.43 Aligned_cols=15 Identities=27% Similarity=0.649 Sum_probs=11.6
Q ss_pred CCCCccccccccccc
Q 045184 35 TTSSSSSGCAICLET 49 (91)
Q Consensus 35 ~~~~~~~~C~IC~~~ 49 (91)
....++.+|.||...
T Consensus 60 aGv~ddatC~IC~KT 74 (169)
T KOG3799|consen 60 AGVGDDATCGICHKT 74 (169)
T ss_pred cccCcCcchhhhhhc
Confidence 455678899999864
No 125
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=87.72 E-value=0.79 Score=34.40 Aligned_cols=51 Identities=24% Similarity=0.628 Sum_probs=35.6
Q ss_pred CCCcccccccccccccCCcceeeeCCCC-----chhhHhhHHHHHhc--CCCCccCCCCC
Q 045184 36 TSSSSSGCAICLETFADDETCRIFLVCN-----HIFHLNCIDGWLEI--NLTCPLCRNCI 88 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~-----H~f~~~C~~~w~~~--~~~CP~Cr~~i 88 (91)
-.+++..|.||...-.+++.. .-||. ...|.+|+..|+.- ...|-+|..++
T Consensus 8 mN~d~~~CRICr~e~~~d~pL--fhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 8 MNEDKRSCRICRTEDIRDDPL--FHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred CCccchhceeecCCCCCCCcC--cccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 344567899999875554432 23555 36899999999964 45699997654
No 126
>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=87.16 E-value=0.4 Score=24.54 Aligned_cols=12 Identities=33% Similarity=0.863 Sum_probs=8.7
Q ss_pred hhhHhhHHHHHh
Q 045184 65 IFHLNCIDGWLE 76 (91)
Q Consensus 65 ~f~~~C~~~w~~ 76 (91)
.||+.|+..|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 599999999984
No 127
>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=87.08 E-value=0.34 Score=22.97 Aligned_cols=42 Identities=29% Similarity=0.642 Sum_probs=26.9
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHh------cCCCCccCC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLE------INLTCPLCR 85 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~------~~~~CP~Cr 85 (91)
|.||... .....++.--.|+..||..|+..-.. ..-.||.|+
T Consensus 2 C~vC~~~-~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 2 CPVCGQS-DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp BTTTTSS-CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred CcCCCCc-CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 7888883 33334444467899999999865432 134577764
No 128
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.92 E-value=0.35 Score=33.02 Aligned_cols=42 Identities=26% Similarity=0.485 Sum_probs=29.2
Q ss_pred cccccccccccCCcce--eeeCCCCchhhHhhHHHHHhcCCCCcc
Q 045184 41 SGCAICLETFADDETC--RIFLVCNHIFHLNCIDGWLEINLTCPL 83 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~--~~~~~C~H~f~~~C~~~w~~~~~~CP~ 83 (91)
..|+.|.-.+.-..+. .... |||.||+.|...|...+..|..
T Consensus 307 r~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~ 350 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYE 350 (384)
T ss_pred CcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccC
Confidence 4588888776544322 2234 9999999999999877666543
No 129
>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=86.51 E-value=0.49 Score=22.95 Aligned_cols=35 Identities=23% Similarity=0.428 Sum_probs=24.7
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHH
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~ 75 (91)
..|.+|...|..-..-.....||++||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 46888888776543322346799999999987654
No 130
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=86.33 E-value=0.57 Score=29.12 Aligned_cols=41 Identities=27% Similarity=0.611 Sum_probs=26.4
Q ss_pred cccccccccc-ccCC---cceeeeCCCCchhhHhhHHHHHhcCCCCccCC
Q 045184 40 SSGCAICLET-FADD---ETCRIFLVCNHIFHLNCIDGWLEINLTCPLCR 85 (91)
Q Consensus 40 ~~~C~IC~~~-~~~~---~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr 85 (91)
+..|.+|.++ +--| +.+.....|+.+||..|.. ...||.|.
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 3457778652 1111 2333446799999999986 26799994
No 131
>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=86.28 E-value=0.41 Score=19.91 Aligned_cols=23 Identities=17% Similarity=0.400 Sum_probs=10.3
Q ss_pred ccccccccccCCcceeeeCCCCchh
Q 045184 42 GCAICLETFADDETCRIFLVCNHIF 66 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f 66 (91)
.||-|...+..... ....|||.|
T Consensus 2 ~CP~C~~~V~~~~~--~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAK--FCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcC--cCCCCCCCC
Confidence 35556555433211 223366555
No 132
>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 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 COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.05 E-value=0.7 Score=30.89 Aligned_cols=44 Identities=23% Similarity=0.513 Sum_probs=30.9
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhc---CCCCccCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI---NLTCPLCR 85 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~---~~~CP~Cr 85 (91)
..||+=.+.-.. +...+++.|||+.-.+-++...++ ...||.|-
T Consensus 337 FiCPVlKe~~t~-ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 337 FICPVLKELCTD-ENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeccccHhhhcc-cCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 468886665432 233366899999999999887654 44699993
No 135
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=85.02 E-value=0.34 Score=34.78 Aligned_cols=25 Identities=32% Similarity=0.790 Sum_probs=19.2
Q ss_pred eeeCCCCchhhHhhHHHHHhcCCCCccC
Q 045184 57 RIFLVCNHIFHLNCIDGWLEINLTCPLC 84 (91)
Q Consensus 57 ~~~~~C~H~f~~~C~~~w~~~~~~CP~C 84 (91)
.....|+++||..|+.. ....||.|
T Consensus 532 ~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 532 RRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred eeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 34467999999999865 44459999
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=84.98 E-value=1.4 Score=24.59 Aligned_cols=48 Identities=25% Similarity=0.454 Sum_probs=28.7
Q ss_pred cccccccccccccCCccee----eeCCC---CchhhHhhHHHHHhc---------CCCCccCCC
Q 045184 39 SSSGCAICLETFADDETCR----IFLVC---NHIFHLNCIDGWLEI---------NLTCPLCRN 86 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~----~~~~C---~H~f~~~C~~~w~~~---------~~~CP~Cr~ 86 (91)
....|..|...-.+....- ....| .-.||..||...... .-.||.||.
T Consensus 6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 3456787877543221100 11445 568999999877642 235999975
No 137
>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=82.23 E-value=0.18 Score=32.95 Aligned_cols=49 Identities=16% Similarity=0.230 Sum_probs=21.0
Q ss_pred CcccccccccccccCCcceeeeC-CCCchhhHhhHHHHHhcCCCCccCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFL-VCNHIFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~-~C~H~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
+....||||-....-..-...-. .=.+.+|.-|-..|......||.|-.
T Consensus 170 w~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp TT-SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred ccCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 44568999988653321000000 01356777888899878889999954
No 138
>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=80.30 E-value=0.7 Score=22.30 Aligned_cols=10 Identities=20% Similarity=0.727 Sum_probs=4.7
Q ss_pred CCchhhHhhH
Q 045184 62 CNHIFHLNCI 71 (91)
Q Consensus 62 C~H~f~~~C~ 71 (91)
-+..||..|+
T Consensus 18 ~~~~~H~~Cf 27 (58)
T PF00412_consen 18 MGKFWHPECF 27 (58)
T ss_dssp TTEEEETTTS
T ss_pred CCcEEEcccc
Confidence 3445555443
No 139
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.11 E-value=0.42 Score=31.11 Aligned_cols=49 Identities=24% Similarity=0.594 Sum_probs=35.7
Q ss_pred cccccccccccccCCc--ceeeeCC--------CCchhhHhhHHHHHhc-CCCCccCCCC
Q 045184 39 SSSGCAICLETFADDE--TCRIFLV--------CNHIFHLNCIDGWLEI-NLTCPLCRNC 87 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~--~~~~~~~--------C~H~f~~~C~~~w~~~-~~~CP~Cr~~ 87 (91)
.+..|.||...+.... .+..++. |+|..|..|+..-+.. ...||.|+..
T Consensus 206 ~~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 206 IEKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccce
Confidence 3466999999998432 2223355 9999999999988754 3579999753
No 140
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=79.37 E-value=1.1 Score=28.25 Aligned_cols=43 Identities=28% Similarity=0.681 Sum_probs=33.6
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCR 85 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr 85 (91)
-..|.+|..-.-.+.+. -.|+=.+|..|+...+.....||.|.
T Consensus 181 lk~Cn~Ch~LvIqg~rC---g~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRC---GSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHHhHhHHHhheeecc---CcccchhhhHHHHHHhcccCcCCchh
Confidence 34699999877666322 35777899999999999888899994
No 141
>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=78.43 E-value=1.7 Score=18.82 Aligned_cols=37 Identities=22% Similarity=0.552 Sum_probs=22.3
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
|..|...+...... + ..=+..||..|+ .|..|..+|.
T Consensus 2 C~~C~~~i~~~~~~-~-~~~~~~~H~~Cf--------~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELV-L-RALGKVWHPECF--------KCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEE-E-EeCCccccccCC--------CCcccCCcCc
Confidence 67777776654222 1 223567887775 4777776653
No 142
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=78.21 E-value=3.2 Score=27.97 Aligned_cols=30 Identities=27% Similarity=0.784 Sum_probs=22.1
Q ss_pred eCCCCchhhHhhHHHHHhc---------CCCCccCCCCC
Q 045184 59 FLVCNHIFHLNCIDGWLEI---------NLTCPLCRNCI 88 (91)
Q Consensus 59 ~~~C~H~f~~~C~~~w~~~---------~~~CP~Cr~~i 88 (91)
..||||+.-.+-..-|.+. +..||+|-..+
T Consensus 375 F~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 375 FNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred cCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 4689998877777778653 34699996654
No 143
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=78.17 E-value=2.1 Score=31.82 Aligned_cols=40 Identities=20% Similarity=0.413 Sum_probs=27.5
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCcc
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPL 83 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~ 83 (91)
.|.+|-..+..-.. -.-.|+|.-|.+++..|+....-||.
T Consensus 781 ~CtVC~~vi~G~~~--~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGVDV--WCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred CceeecceeeeeEe--ecccccccccHHHHHHHHhcCCCCcc
Confidence 47777665433211 11359999999999999988776654
No 144
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.57 E-value=0.98 Score=33.59 Aligned_cols=36 Identities=19% Similarity=0.483 Sum_probs=25.2
Q ss_pred cccccccccccCCc---ceeeeCCCCchhhHhhHHHHHh
Q 045184 41 SGCAICLETFADDE---TCRIFLVCNHIFHLNCIDGWLE 76 (91)
Q Consensus 41 ~~C~IC~~~~~~~~---~~~~~~~C~H~f~~~C~~~w~~ 76 (91)
..|.-|.+...... ...+...|+|.||..|+..-.-
T Consensus 785 ~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~ 823 (846)
T KOG2066|consen 785 ERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESL 823 (846)
T ss_pred hhhhhhcccccccCcccceeeEEEccchhhhcccccHHH
Confidence 36888888765332 2224478999999999976543
No 145
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=75.64 E-value=2.4 Score=27.68 Aligned_cols=47 Identities=23% Similarity=0.543 Sum_probs=32.5
Q ss_pred cccccccccccCCcceeee---CCCCchhhHhhHHHHHhc---------CCCCccCCCC
Q 045184 41 SGCAICLETFADDETCRIF---LVCNHIFHLNCIDGWLEI---------NLTCPLCRNC 87 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~---~~C~H~f~~~C~~~w~~~---------~~~CP~Cr~~ 87 (91)
.+|.+|...+.+.+..++. ..|+-.+|..|+..-+.. ...||.|+..
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 4799999998554433221 348889999999884321 4569999764
No 146
>PLN02189 cellulose synthase
Probab=75.57 E-value=3.5 Score=31.79 Aligned_cols=50 Identities=16% Similarity=0.303 Sum_probs=33.6
Q ss_pred cccccccccccccC---CcceeeeCCCCchhhHhhHHHHHh-cCCCCccCCCCC
Q 045184 39 SSSGCAICLETFAD---DETCRIFLVCNHIFHLNCIDGWLE-INLTCPLCRNCI 88 (91)
Q Consensus 39 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~f~~~C~~~w~~-~~~~CP~Cr~~i 88 (91)
....|.||-+.+.. ++..+..-.|+-..|..|.+-=.+ .++.||.|+...
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y 86 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRY 86 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 34589999999763 333333345777789999853322 367899998654
No 147
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=74.86 E-value=1.9 Score=21.63 Aligned_cols=13 Identities=31% Similarity=0.986 Sum_probs=10.2
Q ss_pred CCCCccCCCCCCC
Q 045184 78 NLTCPLCRNCILD 90 (91)
Q Consensus 78 ~~~CP~Cr~~i~~ 90 (91)
...||+|.+++.+
T Consensus 39 ~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 39 EPVCPLCKSPMVS 51 (59)
T ss_pred CccCCCcCCcccc
Confidence 4579999988764
No 148
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=74.60 E-value=2.5 Score=27.42 Aligned_cols=30 Identities=17% Similarity=0.366 Sum_probs=26.8
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhHHHHH
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~ 75 (91)
.|..|+.++.+| +..+=||.|+.+||-.++
T Consensus 45 cCsLtLqPc~dP----vit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 45 CCSLTLQPCRDP----VITPDGYLFDREAILEYI 74 (303)
T ss_pred eeeeecccccCC----ccCCCCeeeeHHHHHHHH
Confidence 499999999998 778999999999998776
No 149
>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=74.17 E-value=0.95 Score=21.96 Aligned_cols=10 Identities=40% Similarity=0.969 Sum_probs=4.9
Q ss_pred CCccCCCCCC
Q 045184 80 TCPLCRNCIL 89 (91)
Q Consensus 80 ~CP~Cr~~i~ 89 (91)
.||+|.++|.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 7999987764
No 150
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=73.80 E-value=3.1 Score=22.89 Aligned_cols=34 Identities=15% Similarity=0.307 Sum_probs=26.9
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHH
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~ 75 (91)
...|.||-..+..++.... ++ .-..|++|+..-.
T Consensus 6 ewkC~VCg~~iieGqkFTF-~~-kGsVH~eCl~~s~ 39 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTF-TK-KGSVHYECLAESK 39 (103)
T ss_pred eeeEeeeCCEeeeccEEEE-ee-CCcchHHHHHHHH
Confidence 4579999999999988766 55 5578999997654
No 151
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.77 E-value=2.2 Score=23.31 Aligned_cols=12 Identities=33% Similarity=0.905 Sum_probs=10.7
Q ss_pred hhhHhhHHHHHh
Q 045184 65 IFHLNCIDGWLE 76 (91)
Q Consensus 65 ~f~~~C~~~w~~ 76 (91)
.||+.|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 599999999985
No 152
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=73.62 E-value=2.1 Score=19.12 Aligned_cols=13 Identities=23% Similarity=0.590 Sum_probs=9.2
Q ss_pred ccccccccccCCc
Q 045184 42 GCAICLETFADDE 54 (91)
Q Consensus 42 ~C~IC~~~~~~~~ 54 (91)
.||-|...|..++
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 5788888776554
No 153
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=73.17 E-value=4.7 Score=31.31 Aligned_cols=50 Identities=22% Similarity=0.408 Sum_probs=33.3
Q ss_pred cccccccccccccC---CcceeeeCCCCchhhHhhHHHHH-hcCCCCccCCCCC
Q 045184 39 SSSGCAICLETFAD---DETCRIFLVCNHIFHLNCIDGWL-EINLTCPLCRNCI 88 (91)
Q Consensus 39 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~f~~~C~~~w~-~~~~~CP~Cr~~i 88 (91)
+...|.||-+++.. ++-.+..-.|+--.|+.|.+-=. ..++.||.|+...
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrY 69 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKY 69 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence 34589999998754 33333334577779999985222 3367899998654
No 154
>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=72.25 E-value=8.3 Score=19.35 Aligned_cols=33 Identities=12% Similarity=0.155 Sum_probs=21.7
Q ss_pred cccccccccccccC--CcceeeeCCCCchhhHhhH
Q 045184 39 SSSGCAICLETFAD--DETCRIFLVCNHIFHLNCI 71 (91)
Q Consensus 39 ~~~~C~IC~~~~~~--~~~~~~~~~C~H~f~~~C~ 71 (91)
....|+.|-..... .........||+.++.+--
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~n 61 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVN 61 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHH
Confidence 45679999888776 3333344558887776544
No 155
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=72.06 E-value=5 Score=27.01 Aligned_cols=46 Identities=13% Similarity=-0.061 Sum_probs=31.9
Q ss_pred CCCcccccccccccccCCcceeeeCCCCc-hhhHhhHHHHHhcCCCCccCCCC
Q 045184 36 TSSSSSGCAICLETFADDETCRIFLVCNH-IFHLNCIDGWLEINLTCPLCRNC 87 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H-~f~~~C~~~w~~~~~~CP~Cr~~ 87 (91)
..-....|..|-..+-.. ++.+|+| .|+.+|.. +....+||+|...
T Consensus 339 ~~~s~~~~~~~~~~~~st----~~~~~~~n~~~~~~a~--~s~~~~~~~c~~~ 385 (394)
T KOG2113|consen 339 GLMSSLKGTSAGFGLLST----IWSGGNMNLSPGSLAS--ASASPTSSTCDHN 385 (394)
T ss_pred cchhhcccccccCceeee----EeecCCcccChhhhhh--cccCCcccccccc
Confidence 334455687776655443 6679998 78888876 4557789999764
No 156
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.42 E-value=5.2 Score=26.57 Aligned_cols=39 Identities=21% Similarity=0.377 Sum_probs=27.4
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI 77 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~ 77 (91)
....|.+|.+.+++...+..-.-=.|.||.-|-+..++.
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 346799999999876432111113599999999988865
No 157
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=71.37 E-value=7.5 Score=30.17 Aligned_cols=52 Identities=21% Similarity=0.388 Sum_probs=34.4
Q ss_pred CCcccccccccccccCC---cceeeeCCCCchhhHhhHHHHH-hcCCCCccCCCCC
Q 045184 37 SSSSSGCAICLETFADD---ETCRIFLVCNHIFHLNCIDGWL-EINLTCPLCRNCI 88 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~C~~~w~-~~~~~CP~Cr~~i 88 (91)
.-+...|.||-+.+... +-.+..-.|+-..|..|.+-=. ..+..||.|+...
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y 67 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRY 67 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCch
Confidence 33567899999987543 3333334577779999985322 2367799998654
No 158
>PLN02436 cellulose synthase A
Probab=70.71 E-value=5.4 Score=31.00 Aligned_cols=50 Identities=22% Similarity=0.357 Sum_probs=33.3
Q ss_pred cccccccccccccC---CcceeeeCCCCchhhHhhHHHHHh-cCCCCccCCCCC
Q 045184 39 SSSGCAICLETFAD---DETCRIFLVCNHIFHLNCIDGWLE-INLTCPLCRNCI 88 (91)
Q Consensus 39 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~f~~~C~~~w~~-~~~~CP~Cr~~i 88 (91)
....|.||-+++.. ++-.+..-.|+-..|..|.+-=.+ .++.||.|+...
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y 88 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRY 88 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 34589999999753 333333345777789999853332 367799998654
No 159
>PLN02400 cellulose synthase
Probab=70.64 E-value=4.1 Score=31.61 Aligned_cols=50 Identities=16% Similarity=0.311 Sum_probs=33.3
Q ss_pred cccccccccccccC---CcceeeeCCCCchhhHhhHHHH-HhcCCCCccCCCCC
Q 045184 39 SSSGCAICLETFAD---DETCRIFLVCNHIFHLNCIDGW-LEINLTCPLCRNCI 88 (91)
Q Consensus 39 ~~~~C~IC~~~~~~---~~~~~~~~~C~H~f~~~C~~~w-~~~~~~CP~Cr~~i 88 (91)
....|.||-+++.. ++-.+..-.|+-..|+.|.+-= ...++.||.|+...
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrY 88 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRY 88 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcc
Confidence 34589999999754 3333344567777899998421 12367899998654
No 160
>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=69.72 E-value=4.8 Score=16.91 Aligned_cols=29 Identities=17% Similarity=0.359 Sum_probs=9.7
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhhH
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNCI 71 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~ 71 (91)
.|.+|...... .....-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 47778777665 223344678878887774
No 161
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=69.22 E-value=5.5 Score=20.85 Aligned_cols=44 Identities=23% Similarity=0.612 Sum_probs=28.2
Q ss_pred ccccccccccCCcceeeeCCCC--chhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 42 GCAICLETFADDETCRIFLVCN--HIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~--H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
.|--|-.++.....-. +-|. +.||.+|...- -+..||.|-..++
T Consensus 7 nCECCDrDLpp~s~dA--~ICtfEcTFCadCae~~--l~g~CPnCGGelv 52 (84)
T COG3813 7 NCECCDRDLPPDSTDA--RICTFECTFCADCAENR--LHGLCPNCGGELV 52 (84)
T ss_pred CCcccCCCCCCCCCce--eEEEEeeehhHhHHHHh--hcCcCCCCCchhh
Confidence 4666666665443322 2355 78999999864 3578999976554
No 162
>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=69.14 E-value=0.38 Score=23.37 Aligned_cols=13 Identities=31% Similarity=0.703 Sum_probs=8.5
Q ss_pred ccccccccccccC
Q 045184 40 SSGCAICLETFAD 52 (91)
Q Consensus 40 ~~~C~IC~~~~~~ 52 (91)
.+.||.|...+..
T Consensus 2 ~f~CP~C~~~~~~ 14 (54)
T PF05605_consen 2 SFTCPYCGKGFSE 14 (54)
T ss_pred CcCCCCCCCccCH
Confidence 4568888875443
No 163
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=68.74 E-value=1.5 Score=29.26 Aligned_cols=47 Identities=15% Similarity=0.340 Sum_probs=29.0
Q ss_pred cccccccccccccCCcceeeeCCC--CchhhHhhHHHHHhcCCCCccCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVC--NHIFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C--~H~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
....||+|-..-.... +..-..= .+.+|.-|-..|.-....||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~-v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSV-VQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhhe-eeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4578999988642220 0000011 245666788889888888999964
No 164
>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=68.41 E-value=1.7 Score=22.54 Aligned_cols=12 Identities=17% Similarity=0.495 Sum_probs=5.8
Q ss_pred ccccccccccCC
Q 045184 42 GCAICLETFADD 53 (91)
Q Consensus 42 ~C~IC~~~~~~~ 53 (91)
.||.|..++...
T Consensus 3 ~CP~C~~~L~~~ 14 (70)
T PF07191_consen 3 TCPKCQQELEWQ 14 (70)
T ss_dssp B-SSS-SBEEEE
T ss_pred cCCCCCCccEEe
Confidence 477776665443
No 165
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=68.18 E-value=5.1 Score=22.34 Aligned_cols=33 Identities=15% Similarity=0.234 Sum_probs=25.4
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHH
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~ 75 (91)
..|.||-.++..++.....-. -..|..|+..-.
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHH
Confidence 469999999999987766333 578999997644
No 166
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=67.68 E-value=3.9 Score=18.18 Aligned_cols=13 Identities=23% Similarity=0.682 Sum_probs=9.3
Q ss_pred ccccccccccCCc
Q 045184 42 GCAICLETFADDE 54 (91)
Q Consensus 42 ~C~IC~~~~~~~~ 54 (91)
+|+-|...|..++
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5788888876554
No 167
>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=66.23 E-value=1.6 Score=28.96 Aligned_cols=47 Identities=17% Similarity=0.317 Sum_probs=28.5
Q ss_pred cccccccccccccCCcceeee-CCCC--chhhHhhHHHHHhcCCCCccCCC
Q 045184 39 SSSGCAICLETFADDETCRIF-LVCN--HIFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~-~~C~--H~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
....||||-..-.... +... ..=| +.+|.-|-..|......||.|..
T Consensus 183 ~~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 3458999988642210 0000 0111 45566788899888888999964
No 168
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.76 E-value=5.2 Score=29.47 Aligned_cols=44 Identities=25% Similarity=0.369 Sum_probs=32.0
Q ss_pred ccccccccccCCcceeeeCCCCc-hhhHhhHHHHHh--c----CCCCccCCCCCC
Q 045184 42 GCAICLETFADDETCRIFLVCNH-IFHLNCIDGWLE--I----NLTCPLCRNCIL 89 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H-~f~~~C~~~w~~--~----~~~CP~Cr~~i~ 89 (91)
.|+||-..+.-. ..-.||| ..|..|..+... . ...||+||..+.
T Consensus 2 ~c~ic~~s~~~~----~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDFV----GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCcccc----ccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 488998876554 4467999 999999987752 2 445799987543
No 169
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=65.28 E-value=4.7 Score=26.21 Aligned_cols=40 Identities=20% Similarity=0.371 Sum_probs=29.7
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhc--CCCCcc
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI--NLTCPL 83 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~--~~~CP~ 83 (91)
..|||=.-++..|. +-..|||+|-++-+...+.. ...||+
T Consensus 177 ~rdPis~~~I~nPv---iSkkC~HvydrDsI~~~l~~~~~i~CPv 218 (262)
T KOG2979|consen 177 NRDPISKKPIVNPV---ISKKCGHVYDRDSIMQILCDEITIRCPV 218 (262)
T ss_pred ccCchhhhhhhchh---hhcCcCcchhhhhHHHHhccCceeeccc
Confidence 34888877777762 23579999999999998866 335886
No 170
>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=65.24 E-value=5.2 Score=24.05 Aligned_cols=24 Identities=25% Similarity=0.499 Sum_probs=18.1
Q ss_pred CchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 63 NHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 63 ~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
.+.||.+|-...+. .||.|..+|.
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 36899999877543 6999988764
No 171
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=63.19 E-value=4 Score=28.33 Aligned_cols=39 Identities=23% Similarity=0.452 Sum_probs=28.3
Q ss_pred CCcccccccccccccCCcceee--eCCCCchhhHhhHHHHH
Q 045184 37 SSSSSGCAICLETFADDETCRI--FLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~--~~~C~H~f~~~C~~~w~ 75 (91)
..+...||-|...+...++.-. .+.|+|.||.-|.....
T Consensus 365 ~~N~krCP~C~v~IEr~eGCnKM~C~~c~~~fc~~c~~~l~ 405 (445)
T KOG1814|consen 365 ESNSKRCPKCKVVIERSEGCNKMHCTKCGTYFCWICAELLY 405 (445)
T ss_pred HhcCCCCCcccceeecCCCccceeeccccccceeehhhhcC
Confidence 3445679999999887764332 36799999998887654
No 172
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.01 E-value=3.3 Score=27.54 Aligned_cols=47 Identities=23% Similarity=0.468 Sum_probs=36.7
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCC
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNC 87 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~ 87 (91)
.....|.+|...+..+... -.|.|.|++.|...|....+.||.|+..
T Consensus 103 ~~~~~~~~~~g~l~vpt~~---qg~w~qf~~~~p~~~~~~~~~~~d~~~~ 149 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRI---QGCWHQFCYVCPKSNFAMGNDCPDCRGK 149 (324)
T ss_pred CCccceeeeeeeEEecccc---cCceeeeeecCCchhhhhhhccchhhcC
Confidence 3445799999988776432 3499999999999999888888888653
No 173
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=60.23 E-value=5.6 Score=19.21 Aligned_cols=24 Identities=25% Similarity=0.533 Sum_probs=11.9
Q ss_pred CCCCchhhHhhHHHHHhcCCCCccC
Q 045184 60 LVCNHIFHLNCIDGWLEINLTCPLC 84 (91)
Q Consensus 60 ~~C~H~f~~~C~~~w~~~~~~CP~C 84 (91)
..|||.|-..=-.+. .....||.|
T Consensus 32 ~~Cgh~w~~~v~~R~-~~~~~CP~C 55 (55)
T PF14311_consen 32 PKCGHEWKASVNDRT-RRGKGCPYC 55 (55)
T ss_pred CCCCCeeEccHhhhc-cCCCCCCCC
Confidence 346665543222221 345678887
No 174
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=60.17 E-value=23 Score=24.02 Aligned_cols=63 Identities=19% Similarity=0.272 Sum_probs=39.4
Q ss_pred hhcccccccccCCCCcccccccccccccCCcc----------eeeeCCCCchhhHhhHHHHHhcCCCCccCCC
Q 045184 24 THLVNYKRQETTTSSSSSGCAICLETFADDET----------CRIFLVCNHIFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~----------~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
..+..+.............|-+|..+|..+.. ....-.|...||.+|-......-..|+.|..
T Consensus 346 ~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~ 418 (421)
T COG5151 346 YPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred ccCcccccccCCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 34444544444444556679999998864321 1122358889999997655455556888854
No 175
>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=59.93 E-value=7.6 Score=16.76 Aligned_cols=9 Identities=33% Similarity=1.091 Sum_probs=6.0
Q ss_pred CCCCccCCC
Q 045184 78 NLTCPLCRN 86 (91)
Q Consensus 78 ~~~CP~Cr~ 86 (91)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 346888865
No 176
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=59.31 E-value=6.7 Score=21.41 Aligned_cols=38 Identities=29% Similarity=0.549 Sum_probs=26.4
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCILD 90 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~~ 90 (91)
...|-||...+.. =||.||..|.- ....|.+|-..|++
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CAY----kkGiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCAY----KKGICAMCGKKILD 81 (90)
T ss_pred Ccccccccccccc---------CCCccChhhhc----ccCcccccCCeecc
Confidence 3469999877544 25678877853 46689999877754
No 177
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=59.19 E-value=2.4 Score=20.75 Aligned_cols=16 Identities=25% Similarity=0.650 Sum_probs=13.4
Q ss_pred CCCCchhhHhhHHHHH
Q 045184 60 LVCNHIFHLNCIDGWL 75 (91)
Q Consensus 60 ~~C~H~f~~~C~~~w~ 75 (91)
..|++.||..|...|.
T Consensus 44 ~~C~~~fC~~C~~~~H 59 (64)
T smart00647 44 PKCGFSFCFRCKVPWH 59 (64)
T ss_pred CCCCCeECCCCCCcCC
Confidence 3689999999988874
No 178
>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=58.12 E-value=4.4 Score=16.65 Aligned_cols=9 Identities=33% Similarity=1.095 Sum_probs=4.9
Q ss_pred CCccCCCCC
Q 045184 80 TCPLCRNCI 88 (91)
Q Consensus 80 ~CP~Cr~~i 88 (91)
.||+|...+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 466665443
No 179
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.97 E-value=5.5 Score=28.48 Aligned_cols=42 Identities=31% Similarity=0.844 Sum_probs=31.6
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
...|.+|+... . . ...+|. |..|+..|...+..||.|+..+.
T Consensus 479 ~~~~~~~~~~~-~---~-~~~~~~---~~~~l~~~~~~~~~~pl~~~~~~ 520 (543)
T KOG0802|consen 479 NDVCAICYQEM-S---A-RITPCS---HALCLRKWLYVQEVCPLCHTYMK 520 (543)
T ss_pred cCcchHHHHHH-H---h-cccccc---chhHHHhhhhhccccCCCchhhh
Confidence 34699999887 1 1 225677 78899999988999999976543
No 180
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=56.99 E-value=23 Score=26.98 Aligned_cols=46 Identities=26% Similarity=0.481 Sum_probs=26.9
Q ss_pred cccccccccccccC---------CcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 39 SSSGCAICLETFAD---------DETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 39 ~~~~C~IC~~~~~~---------~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
.+..|+-|...|.. .....+...|.|..|..=|. ....||+|...+
T Consensus 1130 ~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs----~y~~CPLCHs~~ 1184 (1189)
T KOG2041|consen 1130 YDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS----KYNCCPLCHSME 1184 (1189)
T ss_pred cCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc----ccccCccccChh
Confidence 34557666666632 11233446688877754443 346799997654
No 181
>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=56.75 E-value=9.3 Score=24.44 Aligned_cols=22 Identities=23% Similarity=0.465 Sum_probs=17.1
Q ss_pred hhhHhhHHHHHhcCCCCccCCC
Q 045184 65 IFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 65 ~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
.-|.+|......+...||+|+.
T Consensus 195 K~C~sC~qqIHRNAPiCPlCK~ 216 (230)
T PF10146_consen 195 KTCQSCHQQIHRNAPICPLCKA 216 (230)
T ss_pred chhHhHHHHHhcCCCCCccccc
Confidence 4577788777777888999975
No 182
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=55.89 E-value=9.9 Score=20.92 Aligned_cols=35 Identities=23% Similarity=0.415 Sum_probs=21.9
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHH
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGW 74 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w 74 (91)
....|.||......--... ...|...||..|....
T Consensus 54 ~~~~C~iC~~~~G~~i~C~-~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCS-HPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCCceeEEcC-CCCCCcCCCHHHHHHC
Confidence 4567999988732211110 1348889999998653
No 183
>PLN02195 cellulose synthase A
Probab=55.82 E-value=19 Score=27.88 Aligned_cols=51 Identities=22% Similarity=0.292 Sum_probs=34.0
Q ss_pred cccccccccccccCC---cceeeeCCCCchhhHhhHHHHH-hcCCCCccCCCCCC
Q 045184 39 SSSGCAICLETFADD---ETCRIFLVCNHIFHLNCIDGWL-EINLTCPLCRNCIL 89 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~---~~~~~~~~C~H~f~~~C~~~w~-~~~~~CP~Cr~~i~ 89 (91)
....|.||-+.+... +..+..-.|+-..|+.|.+-=. ..++.||.|+....
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 345799999977543 3333445688889999984222 23667999987654
No 184
>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=54.99 E-value=7.3 Score=17.97 Aligned_cols=18 Identities=28% Similarity=0.905 Sum_probs=10.7
Q ss_pred HHHHhcCCCCccCCCCCC
Q 045184 72 DGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 72 ~~w~~~~~~CP~Cr~~i~ 89 (91)
.-|.-....||.|..++.
T Consensus 11 ~G~~ML~~~Cp~C~~PL~ 28 (41)
T PF06677_consen 11 QGWTMLDEHCPDCGTPLM 28 (41)
T ss_pred HhHhHhcCccCCCCCeeE
Confidence 344444667777766654
No 185
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.79 E-value=9.4 Score=22.26 Aligned_cols=21 Identities=29% Similarity=0.774 Sum_probs=14.6
Q ss_pred hhhHhhHHHHHhcCCCCccCCCCC
Q 045184 65 IFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 65 ~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
.||.+|-...+ ..||.|..+|
T Consensus 29 afcskcgeati---~qcp~csasi 49 (160)
T COG4306 29 AFCSKCGEATI---TQCPICSASI 49 (160)
T ss_pred HHHhhhchHHH---hcCCccCCcc
Confidence 67777776533 3689887765
No 186
>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=53.15 E-value=4.5 Score=27.97 Aligned_cols=49 Identities=22% Similarity=0.570 Sum_probs=0.0
Q ss_pred ccccccccccccC--------C-----c--ceeeeCCCCchhhHhhHHHHHhc---------CCCCccCCCCC
Q 045184 40 SSGCAICLETFAD--------D-----E--TCRIFLVCNHIFHLNCIDGWLEI---------NLTCPLCRNCI 88 (91)
Q Consensus 40 ~~~C~IC~~~~~~--------~-----~--~~~~~~~C~H~f~~~C~~~w~~~---------~~~CP~Cr~~i 88 (91)
..+||+|+..-.- + . -.-..-||||..-.+...-|.+. +..||+|-.+|
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L 400 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPL 400 (416)
T ss_dssp -------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcc
Confidence 5679999975321 0 0 01123689999888888888753 34699997665
No 187
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=52.15 E-value=6.6 Score=23.41 Aligned_cols=22 Identities=32% Similarity=0.957 Sum_probs=15.0
Q ss_pred CCCchhhHhhHHHHHhc-----------CCCCccCCCC
Q 045184 61 VCNHIFHLNCIDGWLEI-----------NLTCPLCRNC 87 (91)
Q Consensus 61 ~C~H~f~~~C~~~w~~~-----------~~~CP~Cr~~ 87 (91)
.++|.| ..|+.. -.+||+|...
T Consensus 9 ~~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~ 41 (148)
T PF06676_consen 9 ENGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGST 41 (148)
T ss_pred CCCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCC
Confidence 456777 578753 3479999764
No 188
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=51.57 E-value=8.6 Score=20.27 Aligned_cols=33 Identities=24% Similarity=0.528 Sum_probs=21.2
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHH
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDG 73 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~ 73 (91)
...|.+|.......-... ...|...||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~-~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCS-HPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEe-CCCCCcEEChHHHcc
Confidence 356999987633221111 246889999999864
No 189
>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=51.15 E-value=18 Score=16.30 Aligned_cols=34 Identities=15% Similarity=0.338 Sum_probs=23.2
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHH
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDG 73 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~ 73 (91)
...|.+|.+.+...........|+-..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 4569999998875321112356888999999875
No 190
>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=49.99 E-value=5 Score=16.80 Aligned_cols=10 Identities=40% Similarity=1.218 Sum_probs=4.5
Q ss_pred CCccCCCCCC
Q 045184 80 TCPLCRNCIL 89 (91)
Q Consensus 80 ~CP~Cr~~i~ 89 (91)
.||.|.+.+.
T Consensus 1 ~CP~C~s~l~ 10 (28)
T PF03119_consen 1 TCPVCGSKLV 10 (28)
T ss_dssp B-TTT--BEE
T ss_pred CcCCCCCEeE
Confidence 3788876654
No 191
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=49.99 E-value=11 Score=24.16 Aligned_cols=25 Identities=28% Similarity=0.537 Sum_probs=17.2
Q ss_pred cccccccccccCCcceeeeCCCCchh
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIF 66 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f 66 (91)
..||+|...+........ -+.+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~-C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWI-CPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEE-cCCCCCC
Confidence 469999999975444333 3557877
No 192
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=49.98 E-value=13 Score=23.96 Aligned_cols=22 Identities=27% Similarity=0.584 Sum_probs=16.6
Q ss_pred hhhHhhHHHHHhcCCCCccCCC
Q 045184 65 IFHLNCIDGWLEINLTCPLCRN 86 (91)
Q Consensus 65 ~f~~~C~~~w~~~~~~CP~Cr~ 86 (91)
..|.+|..+...+...||+|+.
T Consensus 250 K~ClsChqqIHRNAPiCPlCKa 271 (286)
T KOG4451|consen 250 KVCLSCHQQIHRNAPICPLCKA 271 (286)
T ss_pred hHHHHHHHHHhcCCCCCcchhh
Confidence 4566777777677888999964
No 193
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=49.43 E-value=3 Score=27.43 Aligned_cols=43 Identities=23% Similarity=0.585 Sum_probs=29.0
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHhc----CCCCccCCC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI----NLTCPLCRN 86 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~----~~~CP~Cr~ 86 (91)
|.||-..- +.+.+...-.|...||..|+.+-+.. +-+|.+|-.
T Consensus 284 csicgtse-nddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~ 330 (336)
T KOG1244|consen 284 CSICGTSE-NDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLE 330 (336)
T ss_pred eccccCcC-CCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHH
Confidence 78887763 44454455679999999999875533 335777743
No 194
>PRK01343 zinc-binding protein; Provisional
Probab=49.03 E-value=12 Score=18.62 Aligned_cols=11 Identities=27% Similarity=0.640 Sum_probs=7.0
Q ss_pred CCCCccCCCCC
Q 045184 78 NLTCPLCRNCI 88 (91)
Q Consensus 78 ~~~CP~Cr~~i 88 (91)
...||+|+.++
T Consensus 9 ~~~CP~C~k~~ 19 (57)
T PRK01343 9 TRPCPECGKPS 19 (57)
T ss_pred CCcCCCCCCcC
Confidence 34577777654
No 195
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=47.62 E-value=9.3 Score=19.23 Aligned_cols=9 Identities=33% Similarity=1.324 Sum_probs=7.0
Q ss_pred CCccCCCCC
Q 045184 80 TCPLCRNCI 88 (91)
Q Consensus 80 ~CP~Cr~~i 88 (91)
.||+|+.++
T Consensus 10 aCP~~kg~L 18 (60)
T COG2835 10 ACPVCKGPL 18 (60)
T ss_pred eccCcCCcc
Confidence 588888775
No 196
>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=47.13 E-value=11 Score=15.83 Aligned_cols=28 Identities=18% Similarity=0.414 Sum_probs=14.8
Q ss_pred ccccccccccCCcceeeeCCCCchhhHhh
Q 045184 42 GCAICLETFADDETCRIFLVCNHIFHLNC 70 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~H~f~~~C 70 (91)
.|.+|........ ...-..|.-.+|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 4778866654442 222245555555554
No 197
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=47.00 E-value=9.6 Score=24.63 Aligned_cols=40 Identities=25% Similarity=0.406 Sum_probs=29.5
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhc--CCCCcc
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI--NLTCPL 83 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~--~~~CP~ 83 (91)
..|||-+.++..| .+...|.|.|-.+-|...++. ...||.
T Consensus 190 nrCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 190 NRCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred ccCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 4699988887666 122579999999999888874 445763
No 198
>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=46.92 E-value=21 Score=23.50 Aligned_cols=41 Identities=24% Similarity=0.421 Sum_probs=23.6
Q ss_pred ccccccccccCCcceeeeCCCC-chhhHhhHHHHHh-cCCCCc
Q 045184 42 GCAICLETFADDETCRIFLVCN-HIFHLNCIDGWLE-INLTCP 82 (91)
Q Consensus 42 ~C~IC~~~~~~~~~~~~~~~C~-H~f~~~C~~~w~~-~~~~CP 82 (91)
.|+||++--..+..-..++.=. -.-|.+|+..|.. .+..||
T Consensus 32 fChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 32 FCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred ecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 4888887654442111112111 1567899999964 466687
No 199
>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=45.40 E-value=4.2 Score=19.86 Aligned_cols=7 Identities=43% Similarity=1.089 Sum_probs=2.4
Q ss_pred ccccccc
Q 045184 41 SGCAICL 47 (91)
Q Consensus 41 ~~C~IC~ 47 (91)
..||+|.
T Consensus 25 atCP~C~ 31 (54)
T PF09237_consen 25 ATCPICG 31 (54)
T ss_dssp EE-TTT-
T ss_pred CCCCcch
Confidence 4455554
No 200
>PLN02248 cellulose synthase-like protein
Probab=45.39 E-value=57 Score=25.96 Aligned_cols=28 Identities=18% Similarity=0.401 Sum_probs=24.1
Q ss_pred CCCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 61 VCNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 61 ~C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
.|+...|.+|....++....||-|+.+.
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 176 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPY 176 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccc
Confidence 3668999999999988888999998765
No 201
>PF14369 zf-RING_3: zinc-finger
Probab=45.00 E-value=10 Score=16.76 Aligned_cols=11 Identities=27% Similarity=1.014 Sum_probs=7.0
Q ss_pred CCccCCCCCCC
Q 045184 80 TCPLCRNCILD 90 (91)
Q Consensus 80 ~CP~Cr~~i~~ 90 (91)
.||.|...++|
T Consensus 23 ~CP~C~~gFvE 33 (35)
T PF14369_consen 23 ACPRCHGGFVE 33 (35)
T ss_pred CCcCCCCcEeE
Confidence 37777766554
No 202
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=44.68 E-value=7.9 Score=27.28 Aligned_cols=37 Identities=19% Similarity=0.344 Sum_probs=26.4
Q ss_pred CcccccccccccccCCcceeeeCCCCchhhHhhHHHH
Q 045184 38 SSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGW 74 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w 74 (91)
.+...||+|-..|.-..+--...-||-+.|.+|....
T Consensus 178 s~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~i 214 (505)
T KOG1842|consen 178 SSVQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKFI 214 (505)
T ss_pred CcccccccccchhhhHHHhhhhhhcchHHHHHHHHhc
Confidence 3445699999999765432233459999999998653
No 203
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=44.31 E-value=4.2 Score=18.67 Aligned_cols=9 Identities=33% Similarity=1.062 Sum_probs=6.6
Q ss_pred CCCCccCCC
Q 045184 78 NLTCPLCRN 86 (91)
Q Consensus 78 ~~~CP~Cr~ 86 (91)
...||.|..
T Consensus 26 ~~~CP~Cg~ 34 (42)
T PF09723_consen 26 PVPCPECGS 34 (42)
T ss_pred CCcCCCCCC
Confidence 446998876
No 204
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=44.16 E-value=18 Score=24.00 Aligned_cols=35 Identities=20% Similarity=0.394 Sum_probs=23.6
Q ss_pred cccccccccc-cccCCcceeeeCCCCchhhHhhHHH
Q 045184 39 SSSGCAICLE-TFADDETCRIFLVCNHIFHLNCIDG 73 (91)
Q Consensus 39 ~~~~C~IC~~-~~~~~~~~~~~~~C~H~f~~~C~~~ 73 (91)
+...|.+|.- .|..-.+--....||++||..|-..
T Consensus 167 ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n 202 (288)
T KOG1729|consen 167 EATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRN 202 (288)
T ss_pred cceecccCCCccccHHHHHHHHHhcchHhhhhhhcC
Confidence 4567999988 5543322112367999999988764
No 205
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=42.68 E-value=21 Score=24.55 Aligned_cols=14 Identities=14% Similarity=0.482 Sum_probs=10.1
Q ss_pred cccccccccccccC
Q 045184 39 SSSGCAICLETFAD 52 (91)
Q Consensus 39 ~~~~C~IC~~~~~~ 52 (91)
.+.-||+|-+..+.
T Consensus 14 l~ElCPVCGDkVSG 27 (475)
T KOG4218|consen 14 LGELCPVCGDKVSG 27 (475)
T ss_pred cccccccccCcccc
Confidence 34569999988643
No 206
>PRK11827 hypothetical protein; Provisional
Probab=42.68 E-value=8.6 Score=19.33 Aligned_cols=12 Identities=25% Similarity=0.916 Sum_probs=7.4
Q ss_pred CCCCccCCCCCC
Q 045184 78 NLTCPLCRNCIL 89 (91)
Q Consensus 78 ~~~CP~Cr~~i~ 89 (91)
-..||+|++++.
T Consensus 8 ILaCP~ckg~L~ 19 (60)
T PRK11827 8 IIACPVCNGKLW 19 (60)
T ss_pred heECCCCCCcCe
Confidence 345777776653
No 207
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=42.30 E-value=13 Score=27.29 Aligned_cols=36 Identities=22% Similarity=0.368 Sum_probs=25.9
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHH
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~ 75 (91)
..+|-.|...|..-.+--....||-+||..|...-+
T Consensus 165 ~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~ 200 (634)
T KOG1818|consen 165 SEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSL 200 (634)
T ss_pred ccccceeeeeeeeccccccccccchhhccCcccccc
Confidence 367999999987543222346799999999986543
No 208
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=41.86 E-value=41 Score=20.59 Aligned_cols=15 Identities=27% Similarity=0.795 Sum_probs=11.2
Q ss_pred hcCCCCccCCCCCCC
Q 045184 76 EINLTCPLCRNCILD 90 (91)
Q Consensus 76 ~~~~~CP~Cr~~i~~ 90 (91)
...+.||.|...+.+
T Consensus 134 ~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 134 EYGFRCPQCGEMLEE 148 (178)
T ss_pred hcCCcCCCCCCCCee
Confidence 357789999887753
No 209
>PRK00420 hypothetical protein; Validated
Probab=41.71 E-value=24 Score=20.09 Aligned_cols=11 Identities=18% Similarity=0.649 Sum_probs=6.4
Q ss_pred CCCCccCCCCC
Q 045184 78 NLTCPLCRNCI 88 (91)
Q Consensus 78 ~~~CP~Cr~~i 88 (91)
...||.|...+
T Consensus 40 ~~~Cp~Cg~~~ 50 (112)
T PRK00420 40 EVVCPVHGKVY 50 (112)
T ss_pred ceECCCCCCee
Confidence 34578776543
No 210
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=41.24 E-value=8.6 Score=17.13 Aligned_cols=28 Identities=18% Similarity=0.507 Sum_probs=14.8
Q ss_pred CCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 60 LVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 60 ~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
..||.+||..-.-+ +....|..|...|.
T Consensus 5 ~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 5 PKCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp TTTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred CCCCCccccccCCC--CCCCccCCCCCeeE
Confidence 56777777432211 23455777766554
No 211
>KOG2079 consensus Vacuolar assembly/sorting protein VPS8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.88 E-value=30 Score=27.30 Aligned_cols=39 Identities=23% Similarity=0.383 Sum_probs=28.9
Q ss_pred CCcccccccccccccCCcceeeeCCCCchhhHhhHHHHH
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~ 75 (91)
......|.+|...+.......+.+.|||.-|..|.....
T Consensus 1130 ~iht~~c~~c~q~~~~h~~~~~Fl~wgh~qh~qc~~~~d 1168 (1206)
T KOG2079|consen 1130 SIHTDDCEICGQKIWAHLDPLLFLAWGHVQHHQCMISVD 1168 (1206)
T ss_pred eecCcchHhhhhhhhccCcchheeeccchhhHHHHHHHh
Confidence 334567999999996444444557899999999998754
No 212
>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=38.84 E-value=2.1 Score=20.92 Aligned_cols=33 Identities=24% Similarity=0.634 Sum_probs=17.5
Q ss_pred cccc--ccccccCCcce----eeeCCCCchhhHhhHHHH
Q 045184 42 GCAI--CLETFADDETC----RIFLVCNHIFHLNCIDGW 74 (91)
Q Consensus 42 ~C~I--C~~~~~~~~~~----~~~~~C~H~f~~~C~~~w 74 (91)
-||- |-..+...... .....|++.||..|...|
T Consensus 20 ~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 20 WCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp --TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred CCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 5766 77666543321 222449999999998777
No 213
>PRK12495 hypothetical protein; Provisional
Probab=38.41 E-value=60 Score=20.83 Aligned_cols=12 Identities=17% Similarity=0.492 Sum_probs=7.7
Q ss_pred cccccccccccc
Q 045184 40 SSGCAICLETFA 51 (91)
Q Consensus 40 ~~~C~IC~~~~~ 51 (91)
...|..|-.++.
T Consensus 42 a~hC~~CG~PIp 53 (226)
T PRK12495 42 NAHCDECGDPIF 53 (226)
T ss_pred hhhcccccCccc
Confidence 345777777654
No 214
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=37.90 E-value=20 Score=25.50 Aligned_cols=16 Identities=25% Similarity=0.353 Sum_probs=10.2
Q ss_pred CcccccccccccccCC
Q 045184 38 SSSSGCAICLETFADD 53 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~ 53 (91)
.+.+-|+-|++.+...
T Consensus 24 i~~~yCp~CL~~~p~~ 39 (483)
T PF05502_consen 24 IDSYYCPNCLFEVPSS 39 (483)
T ss_pred cceeECccccccCChh
Confidence 3445688888776554
No 215
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=37.85 E-value=30 Score=28.05 Aligned_cols=48 Identities=27% Similarity=0.524 Sum_probs=33.6
Q ss_pred cccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcC----CCCccCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEIN----LTCPLCRNC 87 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~----~~CP~Cr~~ 87 (91)
....|.+|......... .....|.-.||..|+.+-+... =.||-||..
T Consensus 1107 ~~~~c~~cr~k~~~~~m-~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKM-LLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred chhhhhhhhhcccchhh-hhhHhhhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 34569999998766422 2335677899999999887542 359999753
No 216
>PF15353 HECA: Headcase protein family homologue
Probab=37.82 E-value=26 Score=19.75 Aligned_cols=15 Identities=20% Similarity=0.669 Sum_probs=12.8
Q ss_pred CCCchhhHhhHHHHH
Q 045184 61 VCNHIFHLNCIDGWL 75 (91)
Q Consensus 61 ~C~H~f~~~C~~~w~ 75 (91)
|.++..|.+|+..|-
T Consensus 39 p~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 39 PFGQYMHRECFEKWE 53 (107)
T ss_pred CCCCchHHHHHHHHH
Confidence 567899999999994
No 217
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=37.01 E-value=27 Score=24.85 Aligned_cols=46 Identities=15% Similarity=0.413 Sum_probs=30.0
Q ss_pred ccccccccc-ccCCcceeeeCCCCchhhHhhHHHHHhc--------CCCCccCCC
Q 045184 41 SGCAICLET-FADDETCRIFLVCNHIFHLNCIDGWLEI--------NLTCPLCRN 86 (91)
Q Consensus 41 ~~C~IC~~~-~~~~~~~~~~~~C~H~f~~~C~~~w~~~--------~~~CP~Cr~ 86 (91)
..|.+|+.- .....++.....|+..||..|....... ..-|-+|..
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 459999953 3333454455678899999998876532 224777754
No 218
>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=36.77 E-value=24 Score=17.47 Aligned_cols=15 Identities=13% Similarity=0.126 Sum_probs=9.8
Q ss_pred ceeeeCCCCchhhHh
Q 045184 55 TCRIFLVCNHIFHLN 69 (91)
Q Consensus 55 ~~~~~~~C~H~f~~~ 69 (91)
.+.+.|.|++.+|..
T Consensus 10 ~lw~CL~Cg~~~C~~ 24 (63)
T PF02148_consen 10 NLWLCLTCGYVGCGR 24 (63)
T ss_dssp SEEEETTTS-EEETT
T ss_pred ceEEeCCCCcccccC
Confidence 345668899988864
No 219
>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=36.09 E-value=42 Score=20.05 Aligned_cols=13 Identities=38% Similarity=0.925 Sum_probs=10.0
Q ss_pred cCCCCccCCCCCC
Q 045184 77 INLTCPLCRNCIL 89 (91)
Q Consensus 77 ~~~~CP~Cr~~i~ 89 (91)
..+.||.|...+.
T Consensus 127 ~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 127 LNFTCPRCGAMLD 139 (158)
T ss_pred cCCcCCCCCCEee
Confidence 4678999987764
No 220
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=35.04 E-value=23 Score=20.74 Aligned_cols=24 Identities=17% Similarity=0.321 Sum_probs=11.8
Q ss_pred cccccccccccCCcceeeeCCCCc
Q 045184 41 SGCAICLETFADDETCRIFLVCNH 64 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H 64 (91)
..|+.|-.++-..++-++...|+|
T Consensus 29 ~hCp~Cg~PLF~KdG~v~CPvC~~ 52 (131)
T COG1645 29 KHCPKCGTPLFRKDGEVFCPVCGY 52 (131)
T ss_pred hhCcccCCcceeeCCeEECCCCCc
Confidence 447777766544333333333443
No 221
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=34.23 E-value=26 Score=23.13 Aligned_cols=52 Identities=19% Similarity=0.441 Sum_probs=29.8
Q ss_pred cccccccccccccCCcc----e-eeeCCCCchhhHhhH-HHHHhc----------CCCCccCCCCCCC
Q 045184 39 SSSGCAICLETFADDET----C-RIFLVCNHIFHLNCI-DGWLEI----------NLTCPLCRNCILD 90 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~----~-~~~~~C~H~f~~~C~-~~w~~~----------~~~CP~Cr~~i~~ 90 (91)
....|.+|-..|..--. + .-.++|...+|.+-+ .+|+.+ .+.||.|...+-|
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFAD 227 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFAD 227 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcc
Confidence 34568888777643110 0 012566665555444 488843 3579999876543
No 222
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=33.98 E-value=23 Score=26.31 Aligned_cols=46 Identities=22% Similarity=0.559 Sum_probs=27.9
Q ss_pred cccccccccccCCcc-eeeeCCCCchhhHhhHHHHHhc-----CCCCccCCC
Q 045184 41 SGCAICLETFADDET-CRIFLVCNHIFHLNCIDGWLEI-----NLTCPLCRN 86 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~-~~~~~~C~H~f~~~C~~~w~~~-----~~~CP~Cr~ 86 (91)
..|++|-..=..... ..+.-.|+-.+|..|...|+.. .-.||-||.
T Consensus 19 ~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 19 LMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 346666543332222 2233468889999999999854 235887763
No 223
>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=33.57 E-value=39 Score=15.74 Aligned_cols=35 Identities=17% Similarity=0.396 Sum_probs=22.0
Q ss_pred CcccccccccccccC--CcceeeeCCCCchhhHhhHHH
Q 045184 38 SSSSGCAICLETFAD--DETCRIFLVCNHIFHLNCIDG 73 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~--~~~~~~~~~C~H~f~~~C~~~ 73 (91)
.....|.+|...+.. .+.. ....|+-.+|.+|+..
T Consensus 9 ~~~~~C~~C~~~i~g~~~~g~-~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 9 SKPTYCDVCGKFIWGLGKQGY-RCSWCGLVCHKKCLSK 45 (53)
T ss_dssp SSTEB-TTSSSBECSSSSCEE-EETTTT-EEETTGGCT
T ss_pred CCCCCCcccCcccCCCCCCeE-EECCCCChHhhhhhhh
Confidence 345679999998832 2222 3367999999999764
No 224
>PRK11595 DNA utilization protein GntX; Provisional
Probab=33.11 E-value=37 Score=21.38 Aligned_cols=9 Identities=22% Similarity=0.582 Sum_probs=4.6
Q ss_pred ccccccccc
Q 045184 42 GCAICLETF 50 (91)
Q Consensus 42 ~C~IC~~~~ 50 (91)
.|.+|-..+
T Consensus 7 ~C~~C~~~~ 15 (227)
T PRK11595 7 LCWLCRMPL 15 (227)
T ss_pred cCccCCCcc
Confidence 366665443
No 225
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=32.12 E-value=36 Score=19.97 Aligned_cols=11 Identities=36% Similarity=0.902 Sum_probs=8.6
Q ss_pred CCCccCCCCCC
Q 045184 79 LTCPLCRNCIL 89 (91)
Q Consensus 79 ~~CP~Cr~~i~ 89 (91)
..||.|...+.
T Consensus 124 f~Cp~Cg~~l~ 134 (147)
T smart00531 124 FTCPRCGEELE 134 (147)
T ss_pred EECCCCCCEEE
Confidence 67999987764
No 226
>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=32.00 E-value=30 Score=16.08 Aligned_cols=11 Identities=27% Similarity=0.842 Sum_probs=6.7
Q ss_pred CCCCccCCCCC
Q 045184 78 NLTCPLCRNCI 88 (91)
Q Consensus 78 ~~~CP~Cr~~i 88 (91)
.+.||+|..++
T Consensus 8 ~K~C~~C~rpf 18 (42)
T PF10013_consen 8 SKICPVCGRPF 18 (42)
T ss_pred CCcCcccCCcc
Confidence 34677776554
No 227
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=31.59 E-value=4 Score=28.46 Aligned_cols=11 Identities=45% Similarity=0.920 Sum_probs=6.9
Q ss_pred CCCccCCCCCC
Q 045184 79 LTCPLCRNCIL 89 (91)
Q Consensus 79 ~~CP~Cr~~i~ 89 (91)
..|.+|..+|+
T Consensus 395 PrCs~C~~PI~ 405 (468)
T KOG1701|consen 395 PRCSVCGNPIL 405 (468)
T ss_pred cchhhccCCcc
Confidence 35777766665
No 228
>PF14353 CpXC: CpXC protein
Probab=31.01 E-value=32 Score=19.51 Aligned_cols=12 Identities=25% Similarity=0.587 Sum_probs=7.8
Q ss_pred ccccccccccCC
Q 045184 42 GCAICLETFADD 53 (91)
Q Consensus 42 ~C~IC~~~~~~~ 53 (91)
+||-|...+...
T Consensus 3 tCP~C~~~~~~~ 14 (128)
T PF14353_consen 3 TCPHCGHEFEFE 14 (128)
T ss_pred CCCCCCCeeEEE
Confidence 577777776543
No 229
>PF12773 DZR: Double zinc ribbon
Probab=30.90 E-value=49 Score=15.25 Aligned_cols=8 Identities=38% Similarity=0.945 Sum_probs=3.9
Q ss_pred CCccCCCC
Q 045184 80 TCPLCRNC 87 (91)
Q Consensus 80 ~CP~Cr~~ 87 (91)
.||.|...
T Consensus 31 ~C~~Cg~~ 38 (50)
T PF12773_consen 31 ICPNCGAE 38 (50)
T ss_pred CCcCCcCC
Confidence 35555443
No 230
>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=30.19 E-value=24 Score=15.82 Aligned_cols=10 Identities=30% Similarity=0.982 Sum_probs=6.4
Q ss_pred CCccCCCCCC
Q 045184 80 TCPLCRNCIL 89 (91)
Q Consensus 80 ~CP~Cr~~i~ 89 (91)
.||.|...|+
T Consensus 3 ~CP~Cg~~lv 12 (39)
T PF01396_consen 3 KCPKCGGPLV 12 (39)
T ss_pred CCCCCCceeE
Confidence 5777766553
No 231
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=29.31 E-value=18 Score=18.38 Aligned_cols=10 Identities=30% Similarity=0.963 Sum_probs=6.7
Q ss_pred CCCCccCCCC
Q 045184 78 NLTCPLCRNC 87 (91)
Q Consensus 78 ~~~CP~Cr~~ 87 (91)
...||+|.++
T Consensus 18 ~e~CP~Cgs~ 27 (64)
T COG2093 18 TEICPVCGST 27 (64)
T ss_pred CccCCCCCCc
Confidence 3458888665
No 232
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=29.17 E-value=11 Score=24.95 Aligned_cols=25 Identities=24% Similarity=0.396 Sum_probs=12.5
Q ss_pred CCchhhHhhHHHHHhc----CCCCccCCC
Q 045184 62 CNHIFHLNCIDGWLEI----NLTCPLCRN 86 (91)
Q Consensus 62 C~H~f~~~C~~~w~~~----~~~CP~Cr~ 86 (91)
=.|.||..|-.+.... ...||.|+.
T Consensus 109 ~~~RFCg~CG~~~~~~~~g~~~~C~~cg~ 137 (279)
T COG2816 109 RSHRFCGRCGTKTYPREGGWARVCPKCGH 137 (279)
T ss_pred hhCcCCCCCCCcCccccCceeeeCCCCCC
Confidence 3455666665544322 234666654
No 233
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.56 E-value=1.1e+02 Score=19.78 Aligned_cols=32 Identities=13% Similarity=0.207 Sum_probs=20.1
Q ss_pred CCcccccccccccccCCcceeeeCCCCchhhHhhH
Q 045184 37 SSSSSGCAICLETFADDETCRIFLVCNHIFHLNCI 71 (91)
Q Consensus 37 ~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~ 71 (91)
......|+.|-. +. .+......||+.+|.+=-
T Consensus 306 ~~tS~~C~~cg~-~~--~r~~~C~~cg~~~~rD~n 337 (364)
T COG0675 306 YYTSKTCPCCGH-LS--GRLFKCPRCGFVHDRDVN 337 (364)
T ss_pred CCCcccccccCC-cc--ceeEECCCCCCeehhhHH
Confidence 344567999988 22 223344669988887543
No 234
>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=28.18 E-value=63 Score=17.47 Aligned_cols=37 Identities=22% Similarity=0.303 Sum_probs=25.3
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
...|+-|...+.--+.+.+ -.|+..+..|..|+.+|.
T Consensus 33 rS~C~~C~~~L~~~~lIPi-------------~S~l~lrGrCr~C~~~I~ 69 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWDLIPI-------------LSYLLLRGRCRYCGAPIP 69 (92)
T ss_pred CCcCcCCCCcCcccccchH-------------HHHHHhCCCCcccCCCCC
Confidence 3458877777665543322 357778889999998875
No 235
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=28.07 E-value=1.2e+02 Score=24.24 Aligned_cols=38 Identities=21% Similarity=0.429 Sum_probs=25.6
Q ss_pred CCCCcccccccccccccCCccee-eeCCCCchhhHhhHH
Q 045184 35 TTSSSSSGCAICLETFADDETCR-IFLVCNHIFHLNCID 72 (91)
Q Consensus 35 ~~~~~~~~C~IC~~~~~~~~~~~-~~~~C~H~f~~~C~~ 72 (91)
...+.+..|.||++--..+..++ ..-.|+=.+|.+|..
T Consensus 214 ~~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 214 ALLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG 252 (1051)
T ss_pred cccCCCccceeecccccCCCceEEEcCCCcchhhhhccC
Confidence 55667888999999765543333 335677777777765
No 236
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=27.74 E-value=34 Score=16.43 Aligned_cols=12 Identities=25% Similarity=0.559 Sum_probs=7.9
Q ss_pred cccccccccccC
Q 045184 41 SGCAICLETFAD 52 (91)
Q Consensus 41 ~~C~IC~~~~~~ 52 (91)
+.|.+|.-.|..
T Consensus 2 y~C~~CgyiYd~ 13 (50)
T cd00730 2 YECRICGYIYDP 13 (50)
T ss_pred cCCCCCCeEECC
Confidence 457777766654
No 237
>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=27.70 E-value=38 Score=15.33 Aligned_cols=33 Identities=18% Similarity=0.346 Sum_probs=22.5
Q ss_pred ccccccccccccCC--cceeeeCCCCchhhHhhHHH
Q 045184 40 SSGCAICLETFADD--ETCRIFLVCNHIFHLNCIDG 73 (91)
Q Consensus 40 ~~~C~IC~~~~~~~--~~~~~~~~C~H~f~~~C~~~ 73 (91)
...|.+|...+... ... ....|+-..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~-~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGL-RCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhcccccee-EcCCCCCchhhhhhcc
Confidence 45699998888653 222 2356888889888764
No 238
>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=27.67 E-value=41 Score=23.80 Aligned_cols=32 Identities=34% Similarity=0.585 Sum_probs=20.7
Q ss_pred ccccccccccC---CcceeeeCCCCchhhHhhHHHH
Q 045184 42 GCAICLETFAD---DETCRIFLVCNHIFHLNCIDGW 74 (91)
Q Consensus 42 ~C~IC~~~~~~---~~~~~~~~~C~H~f~~~C~~~w 74 (91)
.|.||.. |.. +..++..-.|||.-|.+|.-+-
T Consensus 130 ~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr~ 164 (446)
T PF07227_consen 130 MCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALRH 164 (446)
T ss_pred CccccCC-cccCCCCeeEEeccCCCceehhhhhccc
Confidence 4778855 433 2233344569999999998653
No 239
>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=27.28 E-value=28 Score=13.03 Aligned_cols=12 Identities=33% Similarity=0.933 Sum_probs=7.3
Q ss_pred ccccccccccCC
Q 045184 42 GCAICLETFADD 53 (91)
Q Consensus 42 ~C~IC~~~~~~~ 53 (91)
.|++|-..|...
T Consensus 2 ~C~~C~~~f~~~ 13 (23)
T PF00096_consen 2 KCPICGKSFSSK 13 (23)
T ss_dssp EETTTTEEESSH
T ss_pred CCCCCCCccCCH
Confidence 466776666543
No 240
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=26.62 E-value=34 Score=21.57 Aligned_cols=19 Identities=32% Similarity=0.782 Sum_probs=11.6
Q ss_pred hhHHHHHh-cCCCCccCCCC
Q 045184 69 NCIDGWLE-INLTCPLCRNC 87 (91)
Q Consensus 69 ~C~~~w~~-~~~~CP~Cr~~ 87 (91)
.||.+--. ..+-||+||..
T Consensus 98 tCIrkn~~~~gnpCPICRDe 117 (239)
T KOG4021|consen 98 TCIRKNGRFLGNPCPICRDE 117 (239)
T ss_pred HHHhhcCeecCCCCCccccc
Confidence 46665322 24569999964
No 241
>KOG0396 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.91 E-value=1.2e+02 Score=21.12 Aligned_cols=49 Identities=12% Similarity=0.319 Sum_probs=32.4
Q ss_pred CCCcccccccccccccCC-------------------------cceeeeCCCCchhhHhhHHHHHhcC-CCCccC
Q 045184 36 TSSSSSGCAICLETFADD-------------------------ETCRIFLVCNHIFHLNCIDGWLEIN-LTCPLC 84 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~-------------------------~~~~~~~~C~H~f~~~C~~~w~~~~-~~CP~C 84 (91)
....+..|++|.+.|..- +....+.|=||++...-+..|-... -.||.=
T Consensus 300 ~~~~~~~CpvC~~~f~~ia~~LPfah~~~S~Lvc~isge~md~~N~P~lfpnG~Vyg~~~L~s~~~~~~i~dP~~ 374 (389)
T KOG0396|consen 300 SDNNPNNCPVCCEAFKPIAQALPFAHHAQSRLVCSISGELMDDDNPPHLFPNGYVYGTKALESLNEDDGIGDPRT 374 (389)
T ss_pred cCCCCCCCCCcccccchhhhcCCchhhhhhHHHhhccccccCCCCCcccccCceeehhHHHHhhcccCCCcCCCC
Confidence 334455799999988532 1123457788888888888886554 557654
No 242
>PF08599 Nbs1_C: DNA damage repair protein Nbs1; InterPro: IPR013908 This C-terminal region of the DNA damage repair protein Nbs1 has been identified to be necessary for the binding of Mre11 and Tel1 [].
Probab=25.90 E-value=96 Score=15.78 Aligned_cols=20 Identities=25% Similarity=0.426 Sum_probs=10.6
Q ss_pred hhhhhcchHHHHHHHHHHHh
Q 045184 2 LNRFVQTSEERQRQREQTLN 21 (91)
Q Consensus 2 l~~~~~~~~~~~~~~~~~~~ 21 (91)
|..|++...+.+++++...+
T Consensus 38 leeWl~~e~E~~~q~~reEs 57 (65)
T PF08599_consen 38 LEEWLRQEMEEQRQQAREES 57 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44566655555555544443
No 243
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=25.69 E-value=44 Score=23.26 Aligned_cols=34 Identities=21% Similarity=0.369 Sum_probs=23.1
Q ss_pred CCCCccccccccccc-ccCCcceeeeCCCCchhhHhhHH
Q 045184 35 TTSSSSSGCAICLET-FADDETCRIFLVCNHIFHLNCID 72 (91)
Q Consensus 35 ~~~~~~~~C~IC~~~-~~~~~~~~~~~~C~H~f~~~C~~ 72 (91)
......+.|.-|-.. ...- ..+|||-.||..|+.
T Consensus 34 ~~~~gk~~C~RC~~~~~~~~----~~lp~~~~YCr~Cl~ 68 (441)
T COG4098 34 IIENGKYRCNRCGNTHIELF----AKLPCGCLYCRNCLM 68 (441)
T ss_pred ecccCcEEehhcCCcchhhh----cccccceEeehhhhh
Confidence 344456779988743 2222 348999999999985
No 244
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=25.62 E-value=15 Score=26.53 Aligned_cols=32 Identities=22% Similarity=0.349 Sum_probs=21.6
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHH
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCID 72 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~ 72 (91)
..|-.|..+|..-.+.-....||-+||..|-.
T Consensus 902 ~~cmacq~pf~afrrrhhcrncggifcg~cs~ 933 (990)
T KOG1819|consen 902 EQCMACQMPFNAFRRRHHCRNCGGIFCGKCSC 933 (990)
T ss_pred hhhhhccCcHHHHHHhhhhcccCceeeccccc
Confidence 34888888876433222346899999998864
No 245
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=25.37 E-value=37 Score=25.72 Aligned_cols=27 Identities=26% Similarity=0.597 Sum_probs=17.5
Q ss_pred CCchhhHhhHHHHHhcCCCCccCCCCC
Q 045184 62 CNHIFHLNCIDGWLEINLTCPLCRNCI 88 (91)
Q Consensus 62 C~H~f~~~C~~~w~~~~~~CP~Cr~~i 88 (91)
|.-.|+.+=++-...++..||.||.+.
T Consensus 1050 C~~~F~~eDFEl~vLqKGHCPFCrTS~ 1076 (1081)
T KOG1538|consen 1050 CFQMFHSEDFELLVLQKGHCPFCRTSK 1076 (1081)
T ss_pred HHhhhccchhhHHHHhcCCCCcccccc
Confidence 445555554444445678899999764
No 246
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=25.31 E-value=41 Score=24.65 Aligned_cols=38 Identities=29% Similarity=0.591 Sum_probs=24.4
Q ss_pred CcccccccccccccCC----ccee-----eeCCCCchhhHhhHHHHH
Q 045184 38 SSSSGCAICLETFADD----ETCR-----IFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 38 ~~~~~C~IC~~~~~~~----~~~~-----~~~~C~H~f~~~C~~~w~ 75 (91)
.....|+||.++|..- ...+ +-+.=|-.||..|+..-.
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEKR 557 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchHH
Confidence 4456799999999641 1111 223347899999987543
No 247
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=25.29 E-value=59 Score=14.91 Aligned_cols=13 Identities=15% Similarity=0.212 Sum_probs=8.8
Q ss_pred eeeeCCCCchhhH
Q 045184 56 CRIFLVCNHIFHL 68 (91)
Q Consensus 56 ~~~~~~C~H~f~~ 68 (91)
+.+.+.|++++|.
T Consensus 11 l~~CL~C~~~~c~ 23 (50)
T smart00290 11 LWLCLTCGQVGCG 23 (50)
T ss_pred eEEecCCCCcccC
Confidence 4455778887773
No 248
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.92 E-value=29 Score=18.51 Aligned_cols=12 Identities=25% Similarity=0.448 Sum_probs=8.1
Q ss_pred ccccccccccCC
Q 045184 42 GCAICLETFADD 53 (91)
Q Consensus 42 ~C~IC~~~~~~~ 53 (91)
.||||--.+...
T Consensus 3 lCP~C~v~l~~~ 14 (88)
T COG3809 3 LCPICGVELVMS 14 (88)
T ss_pred ccCcCCceeeee
Confidence 488887766543
No 249
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=24.48 E-value=91 Score=17.35 Aligned_cols=12 Identities=25% Similarity=0.645 Sum_probs=9.2
Q ss_pred CCCCccCCCCCC
Q 045184 78 NLTCPLCRNCIL 89 (91)
Q Consensus 78 ~~~CP~Cr~~i~ 89 (91)
..+||.|++++.
T Consensus 80 ~~~Cp~C~spFN 91 (105)
T COG4357 80 CGSCPYCQSPFN 91 (105)
T ss_pred cCCCCCcCCCCC
Confidence 456999998875
No 250
>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=23.98 E-value=34 Score=12.45 Aligned_cols=11 Identities=36% Similarity=0.954 Sum_probs=4.5
Q ss_pred ccccccccccC
Q 045184 42 GCAICLETFAD 52 (91)
Q Consensus 42 ~C~IC~~~~~~ 52 (91)
.|++|...+..
T Consensus 2 ~C~~C~~~~~~ 12 (24)
T PF13894_consen 2 QCPICGKSFRS 12 (24)
T ss_dssp E-SSTS-EESS
T ss_pred CCcCCCCcCCc
Confidence 35555555443
No 251
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=23.69 E-value=95 Score=23.04 Aligned_cols=42 Identities=19% Similarity=0.540 Sum_probs=23.7
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHH-h--c--C--CCCccCCCCC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWL-E--I--N--LTCPLCRNCI 88 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~-~--~--~--~~CP~Cr~~i 88 (91)
..|+|....+.-+.+. ..|+|. .|++... . + . -.||+|....
T Consensus 307 L~CPl~~~Rm~~P~r~---~~CkHl---QcFD~~~~lq~n~~~pTW~CPVC~~~~ 355 (636)
T KOG2169|consen 307 LNCPLSKMRMSLPARG---HTCKHL---QCFDALSYLQMNEQKPTWRCPVCQKAA 355 (636)
T ss_pred ecCCcccceeecCCcc---cccccc---eecchhhhHHhccCCCeeeCccCCccc
Confidence 4588888776655331 346664 4554332 1 1 1 2499997654
No 252
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=23.55 E-value=96 Score=14.56 Aligned_cols=31 Identities=16% Similarity=0.435 Sum_probs=21.7
Q ss_pred cccccccccCCcceeeeCCCCchhhHhhHHHHHhcC
Q 045184 43 CAICLETFADDETCRIFLVCNHIFHLNCIDGWLEIN 78 (91)
Q Consensus 43 C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~ 78 (91)
|.||-..-..+ +. --|.-+|.+|-...++..
T Consensus 2 CiiC~~~~~~G----I~-I~~~fIC~~CE~~iv~~~ 32 (46)
T PF10764_consen 2 CIICGKEKEEG----IH-IYGKFICSDCEKEIVNTE 32 (46)
T ss_pred eEeCCCcCCCC----EE-EECeEehHHHHHHhccCC
Confidence 78888776654 32 267788888988776543
No 253
>KOG1140 consensus N-end rule pathway, recognition component UBR1 [Posttranslational modification, protein turnover, chaperones]
Probab=23.55 E-value=55 Score=27.30 Aligned_cols=18 Identities=22% Similarity=0.781 Sum_probs=15.2
Q ss_pred eCCCCchhhHhhHHHHHh
Q 045184 59 FLVCNHIFHLNCIDGWLE 76 (91)
Q Consensus 59 ~~~C~H~f~~~C~~~w~~ 76 (91)
+..|||..|..|....+.
T Consensus 1148 ~s~c~h~mh~~c~~~~~~ 1165 (1738)
T KOG1140|consen 1148 LSSCGHHMHYGCFKRYVQ 1165 (1738)
T ss_pred eeccCCcchHHHHHHHHH
Confidence 457999999999998863
No 254
>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=22.26 E-value=44 Score=15.81 Aligned_cols=13 Identities=15% Similarity=0.595 Sum_probs=8.2
Q ss_pred cccccccccccCC
Q 045184 41 SGCAICLETFADD 53 (91)
Q Consensus 41 ~~C~IC~~~~~~~ 53 (91)
+.|.+|.-.|...
T Consensus 2 y~C~~CgyvYd~~ 14 (47)
T PF00301_consen 2 YQCPVCGYVYDPE 14 (47)
T ss_dssp EEETTTSBEEETT
T ss_pred cCCCCCCEEEcCC
Confidence 4577777666543
No 255
>KOG3816 consensus Cell differentiation regulator of the Headcase family [Signal transduction mechanisms]
Probab=22.21 E-value=63 Score=22.72 Aligned_cols=28 Identities=29% Similarity=0.669 Sum_probs=20.5
Q ss_pred ccccccccCCcceeeeCCCCchhhHhhHHHHH
Q 045184 44 AICLETFADDETCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 44 ~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~ 75 (91)
.||.-.+-+.+. -||+...|..|+..|-
T Consensus 92 ~~C~~VvCNNE~----C~~~~~MH~qCF~~WE 119 (526)
T KOG3816|consen 92 LICSFVVCNNEH----CPCSTWMHLQCFYEWE 119 (526)
T ss_pred hhceEEeecCCC----CChhhHHHHHHHHHHH
Confidence 355555555533 5899999999999995
No 256
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=22.21 E-value=63 Score=25.07 Aligned_cols=35 Identities=17% Similarity=0.334 Sum_probs=24.4
Q ss_pred cccccccccccCCc-----ceeeeCCCCchhhHhhHHHHH
Q 045184 41 SGCAICLETFADDE-----TCRIFLVCNHIFHLNCIDGWL 75 (91)
Q Consensus 41 ~~C~IC~~~~~~~~-----~~~~~~~C~H~f~~~C~~~w~ 75 (91)
..|..|...|..-. +.-....||.+||..|-....
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs 500 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRA 500 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCcc
Confidence 46999999995321 111246799999999987553
No 257
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=22.10 E-value=34 Score=15.73 Aligned_cols=11 Identities=45% Similarity=1.077 Sum_probs=7.1
Q ss_pred CCCccCCCCCC
Q 045184 79 LTCPLCRNCIL 89 (91)
Q Consensus 79 ~~CP~Cr~~i~ 89 (91)
..||.|..++.
T Consensus 22 ~~Cp~CG~~~~ 32 (46)
T PRK00398 22 VRCPYCGYRIL 32 (46)
T ss_pred eECCCCCCeEE
Confidence 45888876543
No 258
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=21.81 E-value=54 Score=19.10 Aligned_cols=11 Identities=36% Similarity=0.815 Sum_probs=6.6
Q ss_pred CCCCccCCCCC
Q 045184 78 NLTCPLCRNCI 88 (91)
Q Consensus 78 ~~~CP~Cr~~i 88 (91)
.+.||.|+.-|
T Consensus 110 eK~C~~C~tGi 120 (128)
T PF11682_consen 110 EKYCPKCGTGI 120 (128)
T ss_pred CEecCCCCCcc
Confidence 45577776543
No 259
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.34 E-value=49 Score=19.45 Aligned_cols=16 Identities=31% Similarity=0.596 Sum_probs=10.5
Q ss_pred eeCCCCchhhHhhHHHH
Q 045184 58 IFLVCNHIFHLNCIDGW 74 (91)
Q Consensus 58 ~~~~C~H~f~~~C~~~w 74 (91)
+.-.|||.|+.. -..|
T Consensus 71 ~rcecghsf~d~-r~nw 86 (165)
T COG4647 71 IRCECGHSFGDY-RENW 86 (165)
T ss_pred EEEeccccccCh-hhCc
Confidence 335799999853 3445
No 260
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=21.22 E-value=53 Score=18.60 Aligned_cols=25 Identities=20% Similarity=0.371 Sum_probs=14.5
Q ss_pred ccccccccccCCc-ceeeeCCCCchh
Q 045184 42 GCAICLETFADDE-TCRIFLVCNHIF 66 (91)
Q Consensus 42 ~C~IC~~~~~~~~-~~~~~~~C~H~f 66 (91)
.||-|...|.-.+ ...+...|+|-+
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW 29 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEW 29 (109)
T ss_pred cCCcCCCcceEecCCeeECccccccc
Confidence 5888888775433 223445566643
No 261
>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=21.22 E-value=31 Score=19.66 Aligned_cols=15 Identities=20% Similarity=0.354 Sum_probs=10.2
Q ss_pred HhcCCCCccCCCCCC
Q 045184 75 LEINLTCPLCRNCIL 89 (91)
Q Consensus 75 ~~~~~~CP~Cr~~i~ 89 (91)
+.+...|+.|+.++.
T Consensus 82 LGr~D~CM~C~~pLT 96 (114)
T PF11023_consen 82 LGRVDACMHCKEPLT 96 (114)
T ss_pred hchhhccCcCCCcCc
Confidence 334456999988764
No 262
>PRK04023 DNA polymerase II large subunit; Validated
Probab=21.15 E-value=75 Score=25.19 Aligned_cols=45 Identities=13% Similarity=0.120 Sum_probs=27.3
Q ss_pred cccccccccccccCCcceeeeCCCCc-----hhhHhhHHHHHhcCCCCccCCCCCC
Q 045184 39 SSSGCAICLETFADDETCRIFLVCNH-----IFHLNCIDGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 39 ~~~~C~IC~~~~~~~~~~~~~~~C~H-----~f~~~C~~~w~~~~~~CP~Cr~~i~ 89 (91)
....|+-|-...... ....||. .||..|-.. .....||.|...+.
T Consensus 625 g~RfCpsCG~~t~~f----rCP~CG~~Te~i~fCP~CG~~--~~~y~CPKCG~El~ 674 (1121)
T PRK04023 625 GRRKCPSCGKETFYR----RCPFCGTHTEPVYRCPRCGIE--VEEDECEKCGREPT 674 (1121)
T ss_pred cCccCCCCCCcCCcc----cCCCCCCCCCcceeCccccCc--CCCCcCCCCCCCCC
Confidence 344688887764222 3345873 588888432 34456999976543
No 263
>KOG0883 consensus Cyclophilin type, U box-containing peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=21.14 E-value=89 Score=22.07 Aligned_cols=42 Identities=10% Similarity=0.166 Sum_probs=34.0
Q ss_pred CCCcccccccccccccCCcceeeeCCCCchhhHhhHHHHHhc
Q 045184 36 TSSSSSGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEI 77 (91)
Q Consensus 36 ~~~~~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~ 77 (91)
.+.+.+.||+-+..|.....+..+..-|.+|+.+-+.+.-..
T Consensus 97 ns~geyhcPvlfk~FT~~sHIvAv~TTGNvy~~eai~~LNiK 138 (518)
T KOG0883|consen 97 NSEGEYHCPVLFKVFTRFSHIVAVRTTGNVYSWEAIEELNIK 138 (518)
T ss_pred CCCCcccCceeeeeecccceEEEEEecCceeeHHHHHHhCcc
Confidence 456678899999999988877666778999999999876433
No 264
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.06 E-value=36 Score=16.38 Aligned_cols=7 Identities=43% Similarity=1.478 Sum_probs=3.5
Q ss_pred CccCCCC
Q 045184 81 CPLCRNC 87 (91)
Q Consensus 81 CP~Cr~~ 87 (91)
||+|..+
T Consensus 15 CpvCqRP 21 (54)
T COG4338 15 CPVCQRP 21 (54)
T ss_pred hhhhcCc
Confidence 5555444
No 265
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=21.02 E-value=59 Score=21.46 Aligned_cols=46 Identities=20% Similarity=0.421 Sum_probs=20.8
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhH----HHHHhcCCCCccCCCCCC
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCI----DGWLEINLTCPLCRNCIL 89 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~----~~w~~~~~~CP~Cr~~i~ 89 (91)
+.-|+-|.+.+..| +.-.|....-..-+ ..|...+..|..|..|++
T Consensus 183 eLyClrChD~mgip----iCgaC~rpIeervi~amgKhWHveHFvCa~CekPFl 232 (332)
T KOG2272|consen 183 ELYCLRCHDKMGIP----ICGACRRPIEERVIFAMGKHWHVEHFVCAKCEKPFL 232 (332)
T ss_pred ceeccccccccCCc----ccccccCchHHHHHHHhccccchhheeehhcCCccc
Confidence 44466666666554 32233322222112 233334556666665543
No 266
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.34 E-value=68 Score=24.12 Aligned_cols=41 Identities=12% Similarity=0.353 Sum_probs=25.6
Q ss_pred cccccccccccCCcceeeeCCCCchhhHhhHHHHHhcCCCCccC
Q 045184 41 SGCAICLETFADDETCRIFLVCNHIFHLNCIDGWLEINLTCPLC 84 (91)
Q Consensus 41 ~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w~~~~~~CP~C 84 (91)
..|-+|..+-.....+...+.|+-.||..|.... ...||+|
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~~---~~~~~vC 695 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVACSLDY---ASISEVC 695 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhhhhhh---hccCccc
Confidence 3588887654322222234679999988876554 4568887
No 267
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=20.26 E-value=38 Score=23.78 Aligned_cols=33 Identities=15% Similarity=0.502 Sum_probs=23.7
Q ss_pred ccccccccccccCCcceeeeCCCCchhhHhhHHHH
Q 045184 40 SSGCAICLETFADDETCRIFLVCNHIFHLNCIDGW 74 (91)
Q Consensus 40 ~~~C~IC~~~~~~~~~~~~~~~C~H~f~~~C~~~w 74 (91)
..+|+||+-.|....... .-|.-..|..|+.+.
T Consensus 74 ~~ecpicflyyps~~n~~--rcC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 74 KTECPICFLYYPSAKNLV--RCCSETICGECFAPF 106 (482)
T ss_pred cccCceeeeecccccchh--hhhccchhhhheecc
Confidence 468999999887643322 347888888888765
Done!