Query 043177
Match_columns 113
No_of_seqs 135 out of 1302
Neff 8.8
Searched_HMMs 46136
Date Fri Mar 29 13:40:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043177.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043177hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 5.1E-17 1.1E-21 117.6 6.9 76 6-84 205-281 (348)
2 PF13639 zf-RING_2: Ring finge 99.7 2.9E-17 6.3E-22 86.7 2.3 43 34-77 2-44 (44)
3 PHA02929 N1R/p28-like protein; 99.6 5.7E-15 1.2E-19 102.7 5.2 76 6-81 148-227 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.5 3.7E-14 7.9E-19 82.5 4.0 45 32-77 19-73 (73)
5 COG5243 HRD1 HRD ubiquitin lig 99.4 5.6E-13 1.2E-17 96.9 5.0 52 29-81 284-345 (491)
6 COG5540 RING-finger-containing 99.3 7.1E-13 1.5E-17 94.1 3.8 51 31-82 322-373 (374)
7 PF13920 zf-C3HC4_3: Zinc fing 99.3 1.4E-12 3.1E-17 70.4 3.0 47 31-81 1-48 (50)
8 PLN03208 E3 ubiquitin-protein 99.3 3.3E-12 7.1E-17 86.1 4.5 55 27-85 13-83 (193)
9 KOG0317 Predicted E3 ubiquitin 99.3 4.8E-12 1E-16 89.2 4.1 56 26-85 233-288 (293)
10 PF13923 zf-C3HC4_2: Zinc fing 99.2 7.4E-12 1.6E-16 64.2 3.2 39 35-76 1-39 (39)
11 PF12861 zf-Apc11: Anaphase-pr 99.2 6.2E-12 1.3E-16 74.3 3.2 50 32-81 21-82 (85)
12 KOG0823 Predicted E3 ubiquitin 99.2 1.8E-11 4E-16 84.0 4.3 54 29-86 44-100 (230)
13 PF15227 zf-C3HC4_4: zinc fing 99.2 2.4E-11 5.1E-16 63.3 3.2 38 35-76 1-42 (42)
14 cd00162 RING RING-finger (Real 99.2 3.6E-11 7.8E-16 62.5 3.9 44 34-80 1-45 (45)
15 KOG0320 Predicted E3 ubiquitin 99.2 3.1E-11 6.7E-16 79.9 3.9 59 25-85 124-182 (187)
16 PHA02926 zinc finger-like prot 99.1 1.8E-11 3.9E-16 83.7 1.6 52 30-81 168-230 (242)
17 KOG0802 E3 ubiquitin ligase [P 99.1 7.8E-11 1.7E-15 90.9 2.9 52 29-81 288-341 (543)
18 PF00097 zf-C3HC4: Zinc finger 99.0 2.5E-10 5.5E-15 58.9 3.2 39 35-76 1-41 (41)
19 PF14634 zf-RING_5: zinc-RING 99.0 2.8E-10 6.1E-15 59.8 3.3 44 34-78 1-44 (44)
20 smart00504 Ubox Modified RING 99.0 4.7E-10 1E-14 62.9 4.1 47 33-83 2-48 (63)
21 smart00184 RING Ring finger. E 99.0 6.3E-10 1.4E-14 55.8 3.4 38 35-76 1-39 (39)
22 TIGR00599 rad18 DNA repair pro 98.9 8.4E-10 1.8E-14 81.9 4.3 51 29-83 23-73 (397)
23 KOG1493 Anaphase-promoting com 98.8 8.8E-10 1.9E-14 63.4 0.4 50 32-81 20-81 (84)
24 COG5194 APC11 Component of SCF 98.8 5.3E-09 1.2E-13 60.7 3.0 29 53-81 53-81 (88)
25 COG5574 PEX10 RING-finger-cont 98.8 7.5E-09 1.6E-13 72.4 3.5 52 29-84 212-265 (271)
26 KOG2164 Predicted E3 ubiquitin 98.7 7E-09 1.5E-13 78.2 2.5 51 32-86 186-241 (513)
27 KOG0287 Postreplication repair 98.7 6.6E-09 1.4E-13 75.2 1.5 52 30-85 21-72 (442)
28 smart00744 RINGv The RING-vari 98.7 2.9E-08 6.3E-13 53.3 3.3 42 34-77 1-49 (49)
29 COG5432 RAD18 RING-finger-cont 98.7 1.4E-08 3E-13 72.2 2.5 48 31-82 24-71 (391)
30 KOG1734 Predicted RING-contain 98.7 1.1E-08 2.4E-13 71.9 2.0 58 28-86 220-286 (328)
31 PF13445 zf-RING_UBOX: RING-ty 98.6 2.7E-08 5.8E-13 51.9 2.8 34 35-70 1-35 (43)
32 KOG0804 Cytoplasmic Zn-finger 98.6 2E-08 4.3E-13 74.8 1.8 50 29-81 172-222 (493)
33 TIGR00570 cdk7 CDK-activating 98.5 7.3E-08 1.6E-12 69.4 3.6 52 32-84 3-57 (309)
34 PF04564 U-box: U-box domain; 98.5 5.8E-08 1.3E-12 56.3 2.2 50 31-84 3-53 (73)
35 KOG2177 Predicted E3 ubiquitin 98.5 6.5E-08 1.4E-12 68.0 2.0 46 29-78 10-55 (386)
36 KOG0828 Predicted E3 ubiquitin 98.5 8.9E-08 1.9E-12 72.3 2.7 52 30-82 569-635 (636)
37 COG5219 Uncharacterized conser 98.4 5.2E-08 1.1E-12 78.2 0.5 53 29-81 1466-1523(1525)
38 KOG4265 Predicted E3 ubiquitin 98.4 2.9E-07 6.4E-12 67.0 3.5 51 30-84 288-339 (349)
39 PF11793 FANCL_C: FANCL C-term 98.4 3.9E-08 8.4E-13 56.6 -1.4 50 32-81 2-66 (70)
40 KOG2930 SCF ubiquitin ligase, 98.3 4.6E-07 9.9E-12 55.2 2.8 28 53-80 80-107 (114)
41 PF14835 zf-RING_6: zf-RING of 98.3 4.9E-08 1.1E-12 54.7 -2.3 48 32-84 7-54 (65)
42 KOG4172 Predicted E3 ubiquitin 98.2 3E-07 6.4E-12 49.8 0.6 46 32-81 7-54 (62)
43 KOG0311 Predicted E3 ubiquitin 98.2 1.8E-07 3.9E-12 68.0 -0.6 56 30-88 41-97 (381)
44 KOG0978 E3 ubiquitin ligase in 98.2 6.2E-07 1.3E-11 70.5 1.4 49 32-84 643-692 (698)
45 KOG0827 Predicted E3 ubiquitin 98.2 1E-06 2.2E-11 64.9 2.4 50 33-82 5-57 (465)
46 KOG0824 Predicted E3 ubiquitin 98.1 1.2E-06 2.5E-11 62.7 1.9 49 32-84 7-56 (324)
47 KOG4445 Uncharacterized conser 98.1 1.2E-06 2.5E-11 62.8 1.7 54 31-85 114-190 (368)
48 KOG3970 Predicted E3 ubiquitin 98.1 5.4E-06 1.2E-10 57.3 4.3 72 2-85 30-109 (299)
49 KOG1645 RING-finger-containing 98.0 6.8E-06 1.5E-10 61.0 3.5 53 31-84 3-59 (463)
50 KOG1039 Predicted E3 ubiquitin 97.9 6E-06 1.3E-10 60.6 2.5 52 30-81 159-221 (344)
51 KOG0825 PHD Zn-finger protein 97.9 2.2E-06 4.9E-11 68.0 0.1 53 32-85 123-175 (1134)
52 KOG1785 Tyrosine kinase negati 97.9 3.9E-06 8.5E-11 62.3 1.2 51 32-86 369-421 (563)
53 KOG2660 Locus-specific chromos 97.9 2E-06 4.4E-11 62.1 -0.5 53 31-86 14-66 (331)
54 KOG2879 Predicted E3 ubiquitin 97.8 2.7E-05 5.9E-10 55.2 3.9 55 25-82 232-288 (298)
55 KOG4159 Predicted E3 ubiquitin 97.7 3.9E-05 8.4E-10 57.4 3.1 50 29-82 81-130 (398)
56 PF11789 zf-Nse: Zinc-finger o 97.6 6.5E-05 1.4E-09 41.5 3.0 42 31-75 10-53 (57)
57 PF14570 zf-RING_4: RING/Ubox 97.5 6.5E-05 1.4E-09 39.9 2.0 45 35-80 1-47 (48)
58 KOG0297 TNF receptor-associate 97.5 6.9E-05 1.5E-09 56.1 2.7 55 29-86 18-72 (391)
59 COG5152 Uncharacterized conser 97.4 7.9E-05 1.7E-09 50.7 1.8 47 32-82 196-242 (259)
60 KOG1952 Transcription factor N 97.4 0.00015 3.2E-09 58.2 3.1 51 31-81 190-247 (950)
61 PHA02825 LAP/PHD finger-like p 97.3 0.00031 6.8E-09 46.2 3.5 49 29-81 5-59 (162)
62 KOG4692 Predicted E3 ubiquitin 97.2 0.00029 6.2E-09 51.9 3.0 51 28-82 418-468 (489)
63 PF10367 Vps39_2: Vacuolar sor 97.2 0.00011 2.4E-09 44.9 0.8 35 28-64 74-108 (109)
64 KOG1428 Inhibitor of type V ad 97.2 0.00029 6.2E-09 59.9 3.0 55 28-83 3482-3546(3738)
65 KOG1941 Acetylcholine receptor 97.2 0.00012 2.7E-09 54.4 0.8 48 30-78 363-413 (518)
66 KOG0801 Predicted E3 ubiquitin 97.2 0.00014 3E-09 48.0 0.8 32 28-60 173-204 (205)
67 KOG1002 Nucleotide excision re 97.2 0.0002 4.3E-09 55.2 1.7 50 29-82 533-587 (791)
68 COG5175 MOT2 Transcriptional r 97.1 0.0003 6.5E-09 51.5 2.3 58 28-86 10-69 (480)
69 PF05883 Baculo_RING: Baculovi 96.9 0.0004 8.7E-09 44.5 1.4 35 32-67 26-66 (134)
70 COG5236 Uncharacterized conser 96.9 0.0015 3.3E-08 48.1 4.4 52 26-81 55-108 (493)
71 KOG1813 Predicted E3 ubiquitin 96.9 0.00028 6.1E-09 50.6 0.6 48 32-83 241-288 (313)
72 KOG3039 Uncharacterized conser 96.9 0.0012 2.6E-08 46.5 3.6 57 31-87 220-276 (303)
73 PHA02862 5L protein; Provision 96.9 0.00097 2.1E-08 43.2 2.9 45 32-81 2-53 (156)
74 PF12906 RINGv: RING-variant d 96.9 0.00076 1.6E-08 35.7 1.9 41 35-76 1-47 (47)
75 COG5222 Uncharacterized conser 96.7 0.0011 2.4E-08 47.9 2.3 43 33-78 275-318 (427)
76 PF04641 Rtf2: Rtf2 RING-finge 96.5 0.0045 9.8E-08 44.0 4.4 57 29-86 110-166 (260)
77 KOG1571 Predicted E3 ubiquitin 96.5 0.0018 3.9E-08 47.6 2.2 50 25-81 298-347 (355)
78 KOG0826 Predicted E3 ubiquitin 96.5 0.0039 8.4E-08 45.5 3.8 54 24-80 292-345 (357)
79 KOG1814 Predicted E3 ubiquitin 96.4 0.0022 4.8E-08 48.0 2.4 35 32-67 184-218 (445)
80 KOG1940 Zn-finger protein [Gen 96.4 0.0022 4.8E-08 45.9 2.2 46 32-78 158-204 (276)
81 PHA03096 p28-like protein; Pro 96.3 0.0025 5.5E-08 45.9 2.2 46 33-78 179-231 (284)
82 PF10272 Tmpp129: Putative tra 96.2 0.0072 1.6E-07 44.9 4.1 29 54-82 311-352 (358)
83 PF08746 zf-RING-like: RING-li 96.2 0.0036 7.7E-08 32.5 1.7 41 35-76 1-43 (43)
84 KOG4185 Predicted E3 ubiquitin 96.1 0.0047 1E-07 44.4 2.6 47 33-80 4-54 (296)
85 PF07800 DUF1644: Protein of u 96.1 0.007 1.5E-07 39.9 3.1 34 31-67 1-46 (162)
86 PF14447 Prok-RING_4: Prokaryo 96.1 0.0042 9.1E-08 33.8 1.6 44 34-83 9-52 (55)
87 KOG4739 Uncharacterized protei 96.0 0.0023 4.9E-08 44.7 0.6 44 35-82 6-49 (233)
88 KOG2114 Vacuolar assembly/sort 95.9 0.0044 9.6E-08 50.1 2.0 42 33-80 841-882 (933)
89 PF14446 Prok-RING_1: Prokaryo 95.9 0.014 3E-07 31.7 3.1 35 31-65 4-38 (54)
90 KOG3268 Predicted E3 ubiquitin 95.7 0.011 2.3E-07 39.9 2.7 30 53-82 189-229 (234)
91 KOG4275 Predicted E3 ubiquitin 95.5 0.0038 8.3E-08 45.0 0.1 42 32-81 300-342 (350)
92 KOG2034 Vacuolar sorting prote 94.8 0.015 3.2E-07 47.4 1.4 40 26-67 811-850 (911)
93 KOG3053 Uncharacterized conser 94.8 0.017 3.6E-07 41.0 1.5 55 28-82 16-83 (293)
94 KOG3800 Predicted E3 ubiquitin 94.5 0.041 8.9E-07 39.6 3.0 49 34-82 2-52 (300)
95 COG5183 SSM4 Protein involved 94.5 0.055 1.2E-06 44.1 3.9 61 24-84 4-69 (1175)
96 COG5220 TFB3 Cdk activating ki 94.4 0.018 4E-07 40.5 1.1 48 31-78 9-61 (314)
97 KOG2932 E3 ubiquitin ligase in 94.4 0.016 3.4E-07 42.2 0.7 30 49-81 105-134 (389)
98 KOG2817 Predicted E3 ubiquitin 94.1 0.051 1.1E-06 40.7 2.9 47 32-79 334-383 (394)
99 KOG1001 Helicase-like transcri 94.0 0.02 4.3E-07 45.9 0.6 49 33-86 455-505 (674)
100 KOG4367 Predicted Zn-finger pr 93.8 0.041 8.8E-07 42.0 2.0 35 29-67 1-35 (699)
101 PF05290 Baculo_IE-1: Baculovi 93.8 0.086 1.9E-06 33.9 3.1 52 31-84 79-135 (140)
102 KOG0309 Conserved WD40 repeat- 93.8 0.044 9.6E-07 44.3 2.2 39 35-75 1031-1069(1081)
103 KOG0298 DEAD box-containing he 93.7 0.023 5E-07 48.0 0.6 45 32-79 1153-1197(1394)
104 KOG3002 Zn finger protein [Gen 93.6 0.069 1.5E-06 38.9 2.9 47 30-82 46-92 (299)
105 PF06906 DUF1272: Protein of u 93.2 0.17 3.6E-06 27.6 3.2 49 32-84 5-55 (57)
106 PF03854 zf-P11: P-11 zinc fin 93.0 0.024 5.3E-07 29.9 -0.2 29 54-82 18-47 (50)
107 KOG1100 Predicted E3 ubiquitin 93.0 0.044 9.6E-07 37.8 1.0 40 35-82 161-201 (207)
108 KOG0827 Predicted E3 ubiquitin 93.0 0.0048 1E-07 46.0 -3.9 51 31-82 195-246 (465)
109 KOG1609 Protein involved in mR 92.6 0.11 2.3E-06 37.4 2.6 52 31-83 77-136 (323)
110 KOG1812 Predicted E3 ubiquitin 92.2 0.054 1.2E-06 40.7 0.6 37 32-69 146-183 (384)
111 KOG3899 Uncharacterized conser 91.6 0.11 2.5E-06 37.6 1.7 30 54-83 325-367 (381)
112 TIGR00622 ssl1 transcription f 89.6 0.82 1.8E-05 28.6 4.0 67 11-77 34-110 (112)
113 KOG3113 Uncharacterized conser 89.2 0.83 1.8E-05 32.6 4.3 53 32-86 111-163 (293)
114 PF02891 zf-MIZ: MIZ/SP-RING z 89.1 0.85 1.9E-05 24.2 3.4 42 33-78 3-49 (50)
115 PF07975 C1_4: TFIIH C1-like d 88.6 0.52 1.1E-05 25.3 2.3 43 35-77 2-50 (51)
116 KOG4718 Non-SMC (structural ma 87.2 0.4 8.6E-06 33.3 1.6 47 31-80 180-226 (235)
117 KOG3161 Predicted E3 ubiquitin 87.1 0.26 5.7E-06 39.4 0.8 40 32-74 11-51 (861)
118 KOG2807 RNA polymerase II tran 87.0 0.94 2E-05 33.5 3.5 68 9-77 307-374 (378)
119 KOG1829 Uncharacterized conser 86.3 0.28 6E-06 38.8 0.6 45 30-78 509-558 (580)
120 COG3813 Uncharacterized protei 85.4 1.2 2.6E-05 25.7 2.7 47 34-84 7-55 (84)
121 PF10571 UPF0547: Uncharacteri 85.3 0.48 1E-05 21.7 0.9 23 34-58 2-24 (26)
122 KOG2068 MOT2 transcription fac 85.0 1.2 2.7E-05 32.7 3.3 50 32-82 249-299 (327)
123 PF13901 DUF4206: Domain of un 84.7 0.79 1.7E-05 31.5 2.1 41 32-78 152-197 (202)
124 smart00249 PHD PHD zinc finger 84.3 0.76 1.6E-05 22.9 1.5 29 35-64 2-30 (47)
125 KOG1815 Predicted E3 ubiquitin 84.0 0.79 1.7E-05 35.1 2.1 37 29-68 67-103 (444)
126 KOG4362 Transcriptional regula 83.6 0.33 7.2E-06 39.0 -0.1 52 31-86 20-74 (684)
127 KOG0825 PHD Zn-finger protein 82.2 1.3 2.9E-05 36.5 2.7 54 30-83 94-156 (1134)
128 PF00628 PHD: PHD-finger; Int 81.7 0.57 1.2E-05 24.5 0.4 31 34-65 1-31 (51)
129 KOG0269 WD40 repeat-containing 81.2 1.5 3.1E-05 35.9 2.6 40 34-75 781-820 (839)
130 KOG0802 E3 ubiquitin ligase [P 79.6 1.7 3.6E-05 34.2 2.5 49 29-85 476-524 (543)
131 KOG1812 Predicted E3 ubiquitin 79.5 1.2 2.7E-05 33.5 1.7 44 32-76 306-351 (384)
132 PF01363 FYVE: FYVE zinc finge 78.2 0.77 1.7E-05 25.6 0.2 35 30-64 7-41 (69)
133 smart00132 LIM Zinc-binding do 76.6 1.7 3.7E-05 20.7 1.2 36 35-80 2-37 (39)
134 PF13719 zinc_ribbon_5: zinc-r 76.5 1.8 3.8E-05 21.4 1.2 26 34-59 4-36 (37)
135 KOG2066 Vacuolar assembly/sort 75.4 0.73 1.6E-05 37.6 -0.5 45 30-76 782-830 (846)
136 PF06937 EURL: EURL protein; 73.2 4.6 0.0001 29.1 3.1 45 30-74 28-74 (285)
137 smart00064 FYVE Protein presen 72.7 3.6 7.7E-05 22.8 2.0 36 32-67 10-45 (68)
138 cd00065 FYVE FYVE domain; Zinc 71.9 3.4 7.3E-05 21.9 1.8 34 33-66 3-36 (57)
139 PF00412 LIM: LIM domain; Int 71.4 1.5 3.2E-05 23.3 0.2 39 35-83 1-39 (58)
140 KOG3579 Predicted E3 ubiquitin 69.8 5.3 0.00012 29.1 2.8 41 30-71 266-307 (352)
141 COG5109 Uncharacterized conser 69.4 4.4 9.6E-05 30.0 2.3 46 32-78 336-384 (396)
142 KOG0824 Predicted E3 ubiquitin 69.2 2.5 5.3E-05 31.0 1.0 53 26-81 99-151 (324)
143 PF07649 C1_3: C1-like domain; 68.4 5.8 0.00012 18.4 1.9 29 34-63 2-30 (30)
144 PF10497 zf-4CXXC_R1: Zinc-fin 68.0 9 0.0002 23.6 3.2 49 32-80 7-71 (105)
145 PF06844 DUF1244: Protein of u 66.6 4.4 9.4E-05 22.9 1.5 11 58-68 12-22 (68)
146 PF07191 zinc-ribbons_6: zinc- 65.9 1.8 3.9E-05 24.7 -0.1 40 33-81 2-41 (70)
147 KOG2041 WD40 repeat protein [G 65.6 6.3 0.00014 32.6 2.7 51 27-81 1126-1185(1189)
148 KOG3799 Rab3 effector RIM1 and 64.7 1.6 3.4E-05 28.3 -0.6 43 29-79 62-116 (169)
149 PF13717 zinc_ribbon_4: zinc-r 64.5 5.7 0.00012 19.5 1.5 11 34-44 4-14 (36)
150 KOG3039 Uncharacterized conser 64.0 4.4 9.6E-05 29.0 1.4 33 32-68 43-75 (303)
151 PF14569 zf-UDP: Zinc-binding 62.6 11 0.00025 22.0 2.7 51 31-81 8-62 (80)
152 KOG3005 GIY-YIG type nuclease 61.1 6.5 0.00014 28.3 1.9 48 33-80 183-242 (276)
153 PF06750 DiS_P_DiS: Bacterial 59.5 22 0.00047 21.3 3.7 38 32-82 33-70 (92)
154 PF04710 Pellino: Pellino; In 59.1 3.1 6.7E-05 31.6 0.0 27 53-82 308-340 (416)
155 KOG2789 Putative Zn-finger pro 56.7 7.4 0.00016 29.7 1.6 32 33-66 75-106 (482)
156 PRK11088 rrmA 23S rRNA methylt 56.7 8.1 0.00018 27.3 1.8 26 33-59 3-28 (272)
157 KOG4577 Transcription factor L 54.7 2.6 5.6E-05 30.8 -1.0 45 32-86 92-136 (383)
158 KOG2979 Protein involved in DN 54.3 8.6 0.00019 27.5 1.6 44 32-78 176-221 (262)
159 PLN02189 cellulose synthase 53.8 17 0.00036 31.1 3.3 51 31-81 33-87 (1040)
160 PF13771 zf-HC5HC2H: PHD-like 53.0 9.9 0.00021 22.1 1.5 32 32-65 36-68 (90)
161 PF02318 FYVE_2: FYVE-type zin 52.9 6.8 0.00015 24.4 0.8 33 31-64 53-87 (118)
162 cd00350 rubredoxin_like Rubred 52.9 7.4 0.00016 18.5 0.8 9 70-78 17-25 (33)
163 PF14311 DUF4379: Domain of un 52.4 10 0.00023 20.1 1.4 24 52-76 32-55 (55)
164 PF05605 zf-Di19: Drought indu 52.3 5.7 0.00012 21.1 0.3 36 32-78 2-39 (54)
165 PF13832 zf-HC5HC2H_2: PHD-zin 50.9 14 0.00029 22.4 1.9 32 32-65 55-87 (110)
166 PF04423 Rad50_zn_hook: Rad50 49.1 4.5 9.8E-05 21.5 -0.4 10 72-81 22-31 (54)
167 COG4357 Zinc finger domain con 48.5 19 0.0004 22.0 2.1 29 54-83 65-93 (105)
168 PF04216 FdhE: Protein involve 48.5 1.5 3.3E-05 31.5 -3.0 49 30-80 170-221 (290)
169 PLN02248 cellulose synthase-li 47.0 30 0.00064 30.0 3.8 30 53-82 149-178 (1135)
170 KOG3842 Adaptor protein Pellin 47.0 32 0.00068 25.7 3.5 53 29-82 338-415 (429)
171 smart00647 IBR In Between Ring 47.0 4.2 9.2E-05 21.8 -0.7 19 48-66 40-58 (64)
172 KOG4323 Polycomb-like PHD Zn-f 46.6 14 0.0003 28.8 1.7 50 32-81 168-226 (464)
173 PLN02436 cellulose synthase A 45.5 27 0.00058 30.1 3.3 51 31-81 35-89 (1094)
174 KOG2231 Predicted E3 ubiquitin 45.3 17 0.00038 29.5 2.2 44 34-81 2-52 (669)
175 PF11023 DUF2614: Protein of u 44.9 35 0.00075 21.4 3.0 31 49-85 70-100 (114)
176 PLN02638 cellulose synthase A 44.7 29 0.00062 29.9 3.4 51 31-81 16-70 (1079)
177 KOG0956 PHD finger protein AF1 43.7 10 0.00022 31.1 0.6 49 32-80 117-181 (900)
178 COG3492 Uncharacterized protei 40.9 18 0.00039 21.8 1.3 11 58-68 43-53 (104)
179 PF14169 YdjO: Cold-inducible 40.3 27 0.00058 19.3 1.8 13 32-44 39-51 (59)
180 PF10146 zf-C4H2: Zinc finger- 39.6 31 0.00068 24.3 2.5 27 58-84 196-222 (230)
181 PF06676 DUF1178: Protein of u 39.0 9.2 0.0002 25.1 -0.2 12 72-83 34-45 (148)
182 PF09723 Zn-ribbon_8: Zinc rib 38.0 4.6 0.0001 20.4 -1.4 25 53-78 10-34 (42)
183 COG5627 MMS21 DNA repair prote 37.6 18 0.00039 25.8 1.0 41 32-75 189-231 (275)
184 PF15353 HECA: Headcase protei 37.4 27 0.00058 21.6 1.7 14 54-67 40-53 (107)
185 PLN02400 cellulose synthase 37.3 32 0.00069 29.7 2.6 51 31-81 35-89 (1085)
186 PF09943 DUF2175: Uncharacteri 37.3 39 0.00084 20.7 2.4 32 34-67 4-35 (101)
187 PF05502 Dynactin_p62: Dynacti 36.7 18 0.0004 28.2 1.1 14 32-45 26-39 (483)
188 PF10235 Cript: Microtubule-as 35.5 31 0.00067 20.7 1.7 39 32-83 44-82 (90)
189 PF07282 OrfB_Zn_ribbon: Putat 34.8 53 0.0012 17.9 2.6 33 32-64 28-62 (69)
190 KOG1538 Uncharacterized conser 34.8 18 0.00038 29.9 0.7 31 51-81 1047-1077(1081)
191 KOG4451 Uncharacterized conser 34.5 47 0.001 23.6 2.7 27 58-84 251-277 (286)
192 PLN02915 cellulose synthase A 33.5 76 0.0017 27.4 4.2 51 31-81 14-68 (1044)
193 KOG1140 N-end rule pathway, re 33.5 37 0.00081 30.8 2.5 15 54-68 1151-1165(1738)
194 KOG0955 PHD finger protein BR1 33.5 33 0.00071 29.6 2.1 38 27-64 214-252 (1051)
195 KOG1729 FYVE finger containing 33.2 7 0.00015 28.5 -1.6 37 34-71 216-252 (288)
196 COG5151 SSL1 RNA polymerase II 32.7 95 0.0021 23.2 4.1 65 14-78 344-418 (421)
197 PLN02195 cellulose synthase A 32.7 74 0.0016 27.3 3.9 51 31-81 5-59 (977)
198 PRK03564 formate dehydrogenase 32.6 16 0.00036 26.9 0.2 47 30-78 185-234 (309)
199 smart00734 ZnF_Rad18 Rad18-lik 31.9 24 0.00053 15.8 0.7 9 72-80 3-11 (26)
200 PRK05978 hypothetical protein; 31.0 48 0.001 21.8 2.2 28 52-84 37-66 (148)
201 COG4847 Uncharacterized protei 30.8 81 0.0018 19.2 2.9 34 32-67 6-39 (103)
202 PF07227 DUF1423: Protein of u 30.8 38 0.00082 26.3 1.9 32 34-66 130-164 (446)
203 PF03107 C1_2: C1 domain; Int 30.1 25 0.00055 16.2 0.6 28 34-62 2-29 (30)
204 smart00109 C1 Protein kinase C 29.9 53 0.0011 16.2 1.9 33 32-65 11-44 (49)
205 KOG4021 Mitochondrial ribosoma 29.6 30 0.00065 23.9 1.1 21 60-80 97-118 (239)
206 PF09538 FYDLN_acid: Protein o 29.4 29 0.00063 21.5 0.9 12 72-83 28-39 (108)
207 PF10764 Gin: Inhibitor of sig 28.7 37 0.00079 17.6 1.1 29 34-67 1-29 (46)
208 PRK01343 zinc-binding protein; 28.5 38 0.00082 18.5 1.2 12 70-81 9-20 (57)
209 KOG2071 mRNA cleavage and poly 28.0 28 0.00061 27.9 0.9 36 30-66 511-556 (579)
210 cd04718 BAH_plant_2 BAH, or Br 27.9 21 0.00046 23.5 0.1 28 58-85 2-33 (148)
211 PF09889 DUF2116: Uncharacteri 26.4 49 0.0011 18.2 1.4 14 70-83 3-16 (59)
212 TIGR01562 FdhE formate dehydro 26.3 18 0.00038 26.6 -0.5 49 30-79 182-233 (305)
213 PF10083 DUF2321: Uncharacteri 24.8 49 0.0011 22.0 1.4 26 55-83 27-52 (158)
214 TIGR00686 phnA alkylphosphonat 24.7 46 0.00099 20.7 1.2 11 33-43 3-13 (109)
215 KOG1973 Chromatin remodeling p 24.6 13 0.00029 26.7 -1.4 28 53-80 239-269 (274)
216 COG1545 Predicted nucleic-acid 24.4 39 0.00085 21.8 0.9 21 52-80 33-53 (140)
217 KOG2113 Predicted RNA binding 24.2 84 0.0018 23.5 2.6 43 32-80 343-386 (394)
218 KOG1512 PHD Zn-finger protein 23.9 32 0.00069 25.3 0.4 32 32-64 314-345 (381)
219 KOG4218 Nuclear hormone recept 23.7 86 0.0019 23.8 2.6 15 30-44 13-27 (475)
220 COG2835 Uncharacterized conser 23.6 40 0.00087 18.6 0.7 10 72-81 10-19 (60)
221 PF00130 C1_1: Phorbol esters/ 23.4 52 0.0011 16.9 1.2 34 31-65 10-45 (53)
222 KOG1245 Chromatin remodeling c 23.3 32 0.0007 30.6 0.4 49 31-80 1107-1159(1404)
223 PRK04023 DNA polymerase II lar 22.8 73 0.0016 27.6 2.3 54 25-84 619-677 (1121)
224 PRK11595 DNA utilization prote 22.6 81 0.0017 21.8 2.3 38 34-80 7-44 (227)
225 PRK10220 hypothetical protein; 22.5 69 0.0015 20.0 1.6 10 34-43 5-14 (111)
226 PRK00418 DNA gyrase inhibitor; 22.5 49 0.0011 18.4 0.9 11 71-81 7-17 (62)
227 PF03119 DNA_ligase_ZBD: NAD-d 22.5 24 0.00053 16.2 -0.2 10 72-81 1-10 (28)
228 PF05715 zf-piccolo: Piccolo Z 22.4 56 0.0012 18.1 1.1 12 70-81 2-13 (61)
229 PF08274 PhnA_Zn_Ribbon: PhnA 21.9 44 0.00095 15.7 0.6 24 34-57 4-28 (30)
230 COG4068 Uncharacterized protei 21.7 66 0.0014 17.8 1.3 16 70-85 8-23 (64)
231 PF09237 GAGA: GAGA factor; I 21.2 23 0.00049 19.1 -0.6 9 72-80 26-34 (54)
232 PF11682 DUF3279: Protein of u 21.0 74 0.0016 20.4 1.6 20 54-82 103-122 (128)
233 PF10013 DUF2256: Uncharacteri 20.8 64 0.0014 16.5 1.1 11 70-80 8-18 (42)
234 COG4647 AcxC Acetone carboxyla 20.8 57 0.0012 21.1 1.1 12 48-60 70-81 (165)
235 KOG3896 Dynactin, subunit p62 20.5 43 0.00092 25.3 0.5 14 32-45 45-58 (449)
236 smart00531 TFIIE Transcription 20.3 96 0.0021 19.9 2.1 12 71-82 124-135 (147)
237 cd00029 C1 Protein kinase C co 20.1 67 0.0014 16.0 1.1 33 32-65 11-45 (50)
238 PF01485 IBR: IBR domain; Int 20.1 6.6 0.00014 21.0 -3.0 34 33-66 19-58 (64)
239 PF15446 zf-PHD-like: PHD/FYVE 20.0 63 0.0014 21.8 1.2 29 35-64 2-33 (175)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.69 E-value=5.1e-17 Score=117.59 Aligned_cols=76 Identities=33% Similarity=0.883 Sum_probs=64.4
Q ss_pred CCchHHHHhhcCCccccCCCCCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCC-CCCCCCCCCCCC
Q 043177 6 SSIENSMAQLIPAHKYHKGTGPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSN-CPICRSDATPSP 84 (113)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~-CP~Cr~~~~~~~ 84 (113)
..+.++.++.+|...|+........ .+|+||+|+|..|+.++.|| |+|.||..||..|+...++ ||+|+..+....
T Consensus 205 ~r~~k~~l~~~p~~~f~~~~~~~~~--~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 205 NRLIKRLLKKLPVRTFTKGDDEDAT--DTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred hhhHHHHHhhCCcEEeccccccCCC--ceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 4567889999999999886654333 58999999999999999999 9999999999999977655 999999875443
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.67 E-value=2.9e-17 Score=86.69 Aligned_cols=43 Identities=49% Similarity=1.254 Sum_probs=39.6
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCC
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICR 77 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr 77 (113)
+|+||++.+..+..+..++ |||.||..|+..|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 6999999998888888998 999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.55 E-value=5.7e-15 Score=102.74 Aligned_cols=76 Identities=24% Similarity=0.519 Sum_probs=58.2
Q ss_pred CCchHHHHhhcCCccccCCCCCCCCccccccccccccccCCe----eeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 6 SSIENSMAQLIPAHKYHKGTGPVGDEDGICAVCLSEFEEGEE----LRTLPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~----~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
.+.+..++..+|....+.........+.+|+||++.+..+.. +..++.|+|.||..||..|+..+.+||+||..+.
T Consensus 148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 345677888888887665544445567799999998765431 2344459999999999999999999999999775
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=99.48 E-value=3.7e-14 Score=82.45 Aligned_cols=45 Identities=38% Similarity=0.908 Sum_probs=35.1
Q ss_pred cccccccccccccC----------CeeeecCCCCCcchHHHHHHHHhcCCCCCCCC
Q 043177 32 DGICAVCLSEFEEG----------EELRTLPECLHSYHAPCIDMWLYSHSNCPICR 77 (113)
Q Consensus 32 ~~~C~IC~~~~~~~----------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr 77 (113)
+..|+||++.|.+. ..+...+ |||.||..||.+|++.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 34599999999432 2344445 999999999999999999999997
No 5
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.38 E-value=5.6e-13 Score=96.85 Aligned_cols=52 Identities=35% Similarity=0.880 Sum_probs=44.3
Q ss_pred CCccccccccccc-cccC---------CeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSE-FEEG---------EELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 29 ~~~~~~C~IC~~~-~~~~---------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
..+|..|.||+++ |..+ ..+.++| |||.||.+|++.|+.++.+||+||.++.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccc
Confidence 5678899999998 4443 2456788 9999999999999999999999999953
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=7.1e-13 Score=94.06 Aligned_cols=51 Identities=41% Similarity=1.071 Sum_probs=45.2
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHh-cCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLY-SHSNCPICRSDATP 82 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 82 (113)
.+-+|+|||++|..++..+.+| |+|.||..|+.+|+. -+..||+||.++++
T Consensus 322 ~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3468999999999989999999 999999999999997 45569999998864
No 7
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.32 E-value=1.4e-12 Score=70.42 Aligned_cols=47 Identities=32% Similarity=0.781 Sum_probs=39.1
Q ss_pred ccccccccccccccCCeeeecCCCCCc-chHHHHHHHHhcCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHS-YHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
++..|.||++...+ +..+| |||. |+..|+..|+.....||+||.++.
T Consensus 1 ~~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CcCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 35689999998765 66777 9999 999999999999999999999874
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.29 E-value=3.3e-12 Score=86.06 Aligned_cols=55 Identities=29% Similarity=0.715 Sum_probs=42.5
Q ss_pred CCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhc----------------CCCCCCCCCCCCCCCC
Q 043177 27 PVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYS----------------HSNCPICRSDATPSPQ 85 (113)
Q Consensus 27 ~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~----------------~~~CP~Cr~~~~~~~~ 85 (113)
....++..|+||++.+.++ ..++ |||.||..||..|+.. ...||+||..+.....
T Consensus 13 ~~~~~~~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~L 83 (193)
T PLN03208 13 VDSGGDFDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATL 83 (193)
T ss_pred ccCCCccCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcE
Confidence 3345678999999998763 4555 9999999999999842 2469999999865443
No 9
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.26 E-value=4.8e-12 Score=89.23 Aligned_cols=56 Identities=27% Similarity=0.681 Sum_probs=46.4
Q ss_pred CCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 043177 26 GPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQ 85 (113)
Q Consensus 26 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 85 (113)
....+....|.||++.... +..+| |||+||..||..|...+..||+||..+.+...
T Consensus 233 ~~i~~a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 233 SSIPEATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSKV 288 (293)
T ss_pred ccCCCCCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCcce
Confidence 3445667899999999876 44566 99999999999999988899999998876543
No 10
>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=99.24 E-value=7.4e-12 Score=64.24 Aligned_cols=39 Identities=36% Similarity=1.040 Sum_probs=31.9
Q ss_pred ccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPIC 76 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 76 (113)
|+||++.+.+ .+..++ |||.||..|+..|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999876 335566 99999999999999888889987
No 11
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.24 E-value=6.2e-12 Score=74.30 Aligned_cols=50 Identities=30% Similarity=0.802 Sum_probs=37.7
Q ss_pred cccccccccccccC---------CeeeecCCCCCcchHHHHHHHHhc---CCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEG---------EELRTLPECLHSYHAPCIDMWLYS---HSNCPICRSDAT 81 (113)
Q Consensus 32 ~~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~ 81 (113)
+..|.||+..|... +-......|+|.||.+||.+|+.. ++.||+||.++.
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 66899999988631 112233359999999999999964 467999999764
No 12
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=1.8e-11 Score=83.99 Aligned_cols=54 Identities=26% Similarity=0.681 Sum_probs=42.1
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCC---CCCCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHS---NCPICRSDATPSPQI 86 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~---~CP~Cr~~~~~~~~~ 86 (113)
+.....|.||++.-+++ ++++ |||.||..||.+|+.... .||+|+..+......
T Consensus 44 ~~~~FdCNICLd~akdP--VvTl--CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vv 100 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP--VVTL--CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVV 100 (230)
T ss_pred CCCceeeeeeccccCCC--EEee--cccceehHHHHHHHhhcCCCeeCCccccccccceEE
Confidence 45678899999997763 4333 999999999999996443 489999988665443
No 13
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.18 E-value=2.4e-11 Score=63.34 Aligned_cols=38 Identities=34% Similarity=0.908 Sum_probs=28.7
Q ss_pred ccccccccccCCeeeecCCCCCcchHHHHHHHHhcC----CCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSH----SNCPIC 76 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~----~~CP~C 76 (113)
|+||++.|.+ ++.++ |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999988 56776 99999999999999543 359987
No 14
>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=99.18 E-value=3.6e-11 Score=62.53 Aligned_cols=44 Identities=45% Similarity=1.097 Sum_probs=35.3
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHHHHhc-CCCCCCCCCCC
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYS-HSNCPICRSDA 80 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~ 80 (113)
.|+||++.+.. .....+ |+|.||..|+..|+.. ...||+|+..+
T Consensus 1 ~C~iC~~~~~~--~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--PVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--ceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 49999999833 244444 9999999999999976 67799998753
No 15
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=3.1e-11 Score=79.93 Aligned_cols=59 Identities=24% Similarity=0.472 Sum_probs=46.2
Q ss_pred CCCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 043177 25 TGPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQ 85 (113)
Q Consensus 25 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 85 (113)
.+...++-..|+|||+.+..... +.. +|||+||..||...++....||+|+..+...+.
T Consensus 124 ~~~~~~~~~~CPiCl~~~sek~~-vsT-kCGHvFC~~Cik~alk~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 124 DPLRKEGTYKCPICLDSVSEKVP-VST-KCGHVFCSQCIKDALKNTNKCPTCRKKITHKQF 182 (187)
T ss_pred cccccccccCCCceecchhhccc-ccc-ccchhHHHHHHHHHHHhCCCCCCcccccchhhh
Confidence 34445666789999999986432 223 499999999999999999999999987765543
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=99.13 E-value=1.8e-11 Score=83.73 Aligned_cols=52 Identities=27% Similarity=0.730 Sum_probs=39.0
Q ss_pred CccccccccccccccC-----CeeeecCCCCCcchHHHHHHHHhcC------CCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEG-----EELRTLPECLHSYHAPCIDMWLYSH------SNCPICRSDAT 81 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~-----~~~~~l~~C~H~fh~~Ci~~wl~~~------~~CP~Cr~~~~ 81 (113)
+.+.+|+||++..-.. .....++.|+|.||..||..|.... .+||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4567899999976321 1234565699999999999998642 35999999764
No 17
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=7.8e-11 Score=90.89 Aligned_cols=52 Identities=33% Similarity=0.892 Sum_probs=44.8
Q ss_pred CCccccccccccccccCCe--eeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEE--LRTLPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~--~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
...+..|+||++.+..+.. +.+++ |+|.||..|+..|+.+..+||+||..+.
T Consensus 288 ~~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 288 ALSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred hhcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 3457899999999987654 67787 9999999999999999999999999543
No 18
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.03 E-value=2.5e-10 Score=58.92 Aligned_cols=39 Identities=41% Similarity=1.117 Sum_probs=32.0
Q ss_pred ccccccccccCCeeeecCCCCCcchHHHHHHHHh--cCCCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLY--SHSNCPIC 76 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~C 76 (113)
|+||++.+..+ ...++ |||.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 78999998763 23566 999999999999997 44569987
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.03 E-value=2.8e-10 Score=59.80 Aligned_cols=44 Identities=27% Similarity=0.730 Sum_probs=36.1
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCC
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRS 78 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 78 (113)
.|.||++.+........++ |||+||..|+..+......||+|+.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 3899999995545566676 9999999999998756678999974
No 20
>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=99.01 E-value=4.7e-10 Score=62.93 Aligned_cols=47 Identities=26% Similarity=0.511 Sum_probs=40.2
Q ss_pred ccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPS 83 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 83 (113)
..|+||.+.+.++ ..++ |||+|++.||..|+..+..||+|+..+...
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCChh
Confidence 4699999999874 4566 999999999999998888999999877443
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.98 E-value=6.3e-10 Score=55.84 Aligned_cols=38 Identities=42% Similarity=1.166 Sum_probs=31.3
Q ss_pred ccccccccccCCeeeecCCCCCcchHHHHHHHHh-cCCCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLY-SHSNCPIC 76 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~C 76 (113)
|+||++.... ...++ |+|.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~~~---~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKD---PVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCC---cEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899998433 56666 999999999999997 66679987
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.95 E-value=8.4e-10 Score=81.94 Aligned_cols=51 Identities=27% Similarity=0.630 Sum_probs=43.0
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPS 83 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 83 (113)
.+....|+||++.|..+ +.++ |||.||..||..|+.....||+|+..+...
T Consensus 23 Le~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQES 73 (397)
T ss_pred cccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCccccc
Confidence 34567899999999763 4566 999999999999998888899999988654
No 23
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.81 E-value=8.8e-10 Score=63.40 Aligned_cols=50 Identities=34% Similarity=0.820 Sum_probs=36.3
Q ss_pred cccccccccccccC---------CeeeecCCCCCcchHHHHHHHHhc---CCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEG---------EELRTLPECLHSYHAPCIDMWLYS---HSNCPICRSDAT 81 (113)
Q Consensus 32 ~~~C~IC~~~~~~~---------~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~~~~ 81 (113)
+.+|-||...|... +-+.++..|.|.||.+||.+|+.. +..||+||..+.
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 44899999988632 122223259999999999999954 446999998764
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.79 E-value=5.3e-09 Score=60.69 Aligned_cols=29 Identities=34% Similarity=0.805 Sum_probs=26.9
Q ss_pred CCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 53 ECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 53 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
.|+|.||.+||.+||..++.||++|..+.
T Consensus 53 ~CnHaFH~HCI~rWL~Tk~~CPld~q~w~ 81 (88)
T COG5194 53 VCNHAFHDHCIYRWLDTKGVCPLDRQTWV 81 (88)
T ss_pred ecchHHHHHHHHHHHhhCCCCCCCCceeE
Confidence 49999999999999999999999998764
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.75 E-value=7.5e-09 Score=72.44 Aligned_cols=52 Identities=31% Similarity=0.685 Sum_probs=41.2
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHH-HHhcCCC-CCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDM-WLYSHSN-CPICRSDATPSP 84 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~-wl~~~~~-CP~Cr~~~~~~~ 84 (113)
...+..|+||++.... ...++ |||+||..||.. |-.++.- ||+||+.+....
T Consensus 212 p~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 212 PLADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred cccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 3568889999998766 44555 999999999998 8765554 999999876543
No 26
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.71 E-value=7e-09 Score=78.23 Aligned_cols=51 Identities=31% Similarity=0.610 Sum_probs=39.7
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcC-----CCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSH-----SNCPICRSDATPSPQI 86 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-----~~CP~Cr~~~~~~~~~ 86 (113)
+..||||++.... ...+. |||+||..||.++|... ..||+|+..+..+...
T Consensus 186 ~~~CPICL~~~~~---p~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~ 241 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLL 241 (513)
T ss_pred CCcCCcccCCCCc---ccccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhcccccee
Confidence 6689999998765 33444 99999999999988433 4699999998775443
No 27
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.68 E-value=6.6e-09 Score=75.15 Aligned_cols=52 Identities=29% Similarity=0.623 Sum_probs=44.3
Q ss_pred CccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQ 85 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 85 (113)
+....|.||.+.|.. ....| |+|.||..||..+|..+..||.|+.++....+
T Consensus 21 D~lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTESDL 72 (442)
T ss_pred HHHHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccchhhh
Confidence 345689999999987 45666 99999999999999999999999998865443
No 28
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.66 E-value=2.9e-08 Score=53.27 Aligned_cols=42 Identities=26% Similarity=0.802 Sum_probs=31.6
Q ss_pred cccccccccccCCeeeecCCCC-----CcchHHHHHHHHhcC--CCCCCCC
Q 043177 34 ICAVCLSEFEEGEELRTLPECL-----HSYHAPCIDMWLYSH--SNCPICR 77 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~~--~~CP~Cr 77 (113)
.|.||++ ..++......| |. |.+|..|+.+|+... .+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899998 33344555777 75 889999999999544 4799995
No 29
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.65 E-value=1.4e-08 Score=72.23 Aligned_cols=48 Identities=25% Similarity=0.544 Sum_probs=40.7
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
....|.||.+.|+.+ ...+ |||.||..||..+|..+..||+||.+...
T Consensus 24 s~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 24 SMLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred hHHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence 345799999999863 3444 99999999999999999999999997654
No 30
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.65 E-value=1.1e-08 Score=71.94 Aligned_cols=58 Identities=26% Similarity=0.593 Sum_probs=44.5
Q ss_pred CCCccccccccccccccCC-------eeeecCCCCCcchHHHHHHHH--hcCCCCCCCCCCCCCCCCC
Q 043177 28 VGDEDGICAVCLSEFEEGE-------ELRTLPECLHSYHAPCIDMWL--YSHSNCPICRSDATPSPQI 86 (113)
Q Consensus 28 ~~~~~~~C~IC~~~~~~~~-------~~~~l~~C~H~fh~~Ci~~wl--~~~~~CP~Cr~~~~~~~~~ 86 (113)
...++..|+||-..+.... .+.++. |+|+||..||..|. .++++||.|+..+......
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmf 286 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMF 286 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhhhc
Confidence 3456779999988776543 566776 99999999999997 5677899998877544333
No 31
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.65 E-value=2.7e-08 Score=51.93 Aligned_cols=34 Identities=26% Similarity=0.639 Sum_probs=21.0
Q ss_pred ccccccccccCC-eeeecCCCCCcchHHHHHHHHhcC
Q 043177 35 CAVCLSEFEEGE-ELRTLPECLHSYHAPCIDMWLYSH 70 (113)
Q Consensus 35 C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~ 70 (113)
|+||.+ |.+.+ ....|+ |||+|++.|+.+++..+
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~ 35 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKS 35 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcC
Confidence 899999 75533 566788 99999999999998643
No 32
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.59 E-value=2e-08 Score=74.80 Aligned_cols=50 Identities=34% Similarity=0.796 Sum_probs=39.9
Q ss_pred CCccccccccccccccCC-eeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGE-ELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
..+.++|+||+|.+.... .+.... |.|.||..|+..| ...+||+||....
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 456789999999997644 344454 9999999999999 5567999998665
No 33
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.54 E-value=7.3e-08 Score=69.41 Aligned_cols=52 Identities=21% Similarity=0.491 Sum_probs=37.3
Q ss_pred cccccccccc--cccCCeeeecCCCCCcchHHHHHHHH-hcCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSE--FEEGEELRTLPECLHSYHAPCIDMWL-YSHSNCPICRSDATPSP 84 (113)
Q Consensus 32 ~~~C~IC~~~--~~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~~~~ 84 (113)
+..||+|... +.......+-+ |||.||..|+...+ .....||.|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 3579999994 33322223334 99999999999966 44567999998886654
No 34
>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=98.52 E-value=5.8e-08 Score=56.28 Aligned_cols=50 Identities=22% Similarity=0.428 Sum_probs=38.1
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHhc-CCCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYS-HSNCPICRSDATPSP 84 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~ 84 (113)
+...|+|+.+.|.+ .++++ +||.|.+.+|..|+.. ..+||+++..+....
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 45689999999988 56777 9999999999999987 788999988776543
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=6.5e-08 Score=67.95 Aligned_cols=46 Identities=33% Similarity=0.751 Sum_probs=39.1
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRS 78 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 78 (113)
..+...|+||++.|..+ ..++ |+|.||..|+..++.....||.||.
T Consensus 10 ~~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr~ 55 (386)
T KOG2177|consen 10 LQEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCRP 55 (386)
T ss_pred ccccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccCC
Confidence 45677899999999985 6677 9999999999998885556999993
No 36
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=8.9e-08 Score=72.28 Aligned_cols=52 Identities=25% Similarity=0.766 Sum_probs=38.7
Q ss_pred CccccccccccccccC---C-----------eeeecCCCCCcchHHHHHHHHhcCC-CCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEG---E-----------ELRTLPECLHSYHAPCIDMWLYSHS-NCPICRSDATP 82 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~---~-----------~~~~l~~C~H~fh~~Ci~~wl~~~~-~CP~Cr~~~~~ 82 (113)
.....|+|||.+..-. . .....| |.|+||..|+.+|....+ .||+||.+++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4455799999987421 0 112346 999999999999998555 79999998864
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.43 E-value=5.2e-08 Score=78.24 Aligned_cols=53 Identities=32% Similarity=0.750 Sum_probs=38.9
Q ss_pred CCccccccccccccccCC---eeeecCCCCCcchHHHHHHHHhcC--CCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGE---ELRTLPECLHSYHAPCIDMWLYSH--SNCPICRSDAT 81 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~---~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~Cr~~~~ 81 (113)
.++-.+|+||+..+..-+ .-.+.+.|.|.||..|+.+|++.. .+||+||..++
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 456668999999776211 122334699999999999999654 46999998775
No 38
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=2.9e-07 Score=66.96 Aligned_cols=51 Identities=33% Similarity=0.703 Sum_probs=42.5
Q ss_pred CccccccccccccccCCeeeecCCCCCc-chHHHHHHHHhcCCCCCCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEGEELRTLPECLHS-YHAPCIDMWLYSHSNCPICRSDATPSP 84 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 84 (113)
+...+|.||+.+..+ +.+|| |.|. +|..|....--....||+||.++...-
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ll 339 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEELL 339 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhhh
Confidence 447789999999877 78899 9996 999999877667788999999886543
No 39
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.35 E-value=3.9e-08 Score=56.59 Aligned_cols=50 Identities=30% Similarity=0.705 Sum_probs=22.5
Q ss_pred cccccccccccc-cCCe-eeec--CCCCCcchHHHHHHHHhc---C--------CCCCCCCCCCC
Q 043177 32 DGICAVCLSEFE-EGEE-LRTL--PECLHSYHAPCIDMWLYS---H--------SNCPICRSDAT 81 (113)
Q Consensus 32 ~~~C~IC~~~~~-~~~~-~~~l--~~C~H~fh~~Ci~~wl~~---~--------~~CP~Cr~~~~ 81 (113)
+..|.||+..+. .+.. ...- +.|+..||..|+..|+.. . +.||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 347999999865 3222 2222 268999999999999942 1 14999988763
No 40
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=4.6e-07 Score=55.15 Aligned_cols=28 Identities=32% Similarity=0.842 Sum_probs=25.9
Q ss_pred CCCCcchHHHHHHHHhcCCCCCCCCCCC
Q 043177 53 ECLHSYHAPCIDMWLYSHSNCPICRSDA 80 (113)
Q Consensus 53 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 80 (113)
.|+|.||..||.+|++.+..||+|..+.
T Consensus 80 ~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 5999999999999999999999997765
No 41
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.25 E-value=4.9e-08 Score=54.66 Aligned_cols=48 Identities=27% Similarity=0.575 Sum_probs=23.9
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSP 84 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 84 (113)
...|++|.+.+..+ +.+..|.|.||..|+...+. ..||+|+.+.....
T Consensus 7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~qD 54 (65)
T PF14835_consen 7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWIQD 54 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-SS
T ss_pred hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHHHH
Confidence 45799999999873 34445999999999977543 34999988765443
No 42
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=3e-07 Score=49.78 Aligned_cols=46 Identities=24% Similarity=0.457 Sum_probs=34.2
Q ss_pred cccccccccccccCCeeeecCCCCCc-chHHHHHHHHh-cCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHS-YHAPCIDMWLY-SHSNCPICRSDAT 81 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~-~~~~CP~Cr~~~~ 81 (113)
+.+|.||+|.-.+ .+.. .|||. +|..|..+.++ .++.||+||+++.
T Consensus 7 ~dECTICye~pvd---sVlY-tCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVD---SVLY-TCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcch---HHHH-HcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 3579999997544 2223 39996 88999776554 7778999999874
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.23 E-value=1.8e-07 Score=68.00 Aligned_cols=56 Identities=32% Similarity=0.621 Sum_probs=42.9
Q ss_pred CccccccccccccccCCeeeecCCCCCcchHHHHHHHHh-cCCCCCCCCCCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLY-SHSNCPICRSDATPSPQILR 88 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~~~~~~~~~ 88 (113)
..+..|+||++.++.. ...+.|.|.||.+||...+. .+..||.||..+.+...+..
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~ 97 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRI 97 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCC
Confidence 4467899999998763 33346999999999988875 55679999998876655433
No 44
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=6.2e-07 Score=70.52 Aligned_cols=49 Identities=18% Similarity=0.554 Sum_probs=39.4
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHH-hcCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL-YSHSNCPICRSDATPSP 84 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~~~~ 84 (113)
-..|+.|-..+++ . +++.|+|+||..|+...+ .++..||.|...+....
T Consensus 643 ~LkCs~Cn~R~Kd---~-vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganD 692 (698)
T KOG0978|consen 643 LLKCSVCNTRWKD---A-VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGAND 692 (698)
T ss_pred ceeCCCccCchhh---H-HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCccc
Confidence 4579999999887 2 333599999999999888 56778999998885443
No 45
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=1e-06 Score=64.95 Aligned_cols=50 Identities=26% Similarity=0.767 Sum_probs=34.3
Q ss_pred ccccccccccccCCeeeecCCCCCcchHHHHHHHHhcC---CCCCCCCCCCCC
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSH---SNCPICRSDATP 82 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~Cr~~~~~ 82 (113)
..|.||-+-+.....+.-+..|||+||..|+..|+..- ..||+|+-.+..
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~ 57 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQE 57 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccc
Confidence 46999944443333333333599999999999999543 469999944433
No 46
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=1.2e-06 Score=62.68 Aligned_cols=49 Identities=20% Similarity=0.453 Sum_probs=38.5
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHH-hcCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL-YSHSNCPICRSDATPSP 84 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~~~~ 84 (113)
...|+||+...-- ...++ |+|.||+.||..-. ...++|++||.++.+..
T Consensus 7 ~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 3469999997544 46677 99999999998765 45566999999987653
No 47
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.12 E-value=1.2e-06 Score=62.76 Aligned_cols=54 Identities=26% Similarity=0.683 Sum_probs=42.7
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHhc-----------------------CCCCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYS-----------------------HSNCPICRSDATPSPQ 85 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----------------------~~~CP~Cr~~~~~~~~ 85 (113)
....|.||+.-|.++..+.+.+ |.|.||..|+.+++.. ...||+||..+.....
T Consensus 114 p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~ 190 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEEN 190 (368)
T ss_pred CCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccc
Confidence 3457999999999988888887 9999999999876621 1149999998865443
No 48
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.08 E-value=5.4e-06 Score=57.31 Aligned_cols=72 Identities=24% Similarity=0.573 Sum_probs=57.3
Q ss_pred CCCCCCchHHHHhhcCCccccCCCCCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhc--------CCCC
Q 043177 2 DATPSSIENSMAQLIPAHKYHKGTGPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYS--------HSNC 73 (113)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--------~~~C 73 (113)
+..|..+-++.+++|....|.. .|.+|-..+..++.++.. |-|.||..|+..|... ...|
T Consensus 30 ~nHpkCiVQSYLqWL~DsDY~p----------NC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqC 97 (299)
T KOG3970|consen 30 ANHPKCIVQSYLQWLQDSDYNP----------NCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQC 97 (299)
T ss_pred ccCchhhHHHHHHHHhhcCCCC----------CCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccC
Confidence 4567778888889988877744 699999999988877655 9999999999999732 2259
Q ss_pred CCCCCCCCCCCC
Q 043177 74 PICRSDATPSPQ 85 (113)
Q Consensus 74 P~Cr~~~~~~~~ 85 (113)
|-|..++.....
T Consensus 98 P~Cs~eiFPp~N 109 (299)
T KOG3970|consen 98 PCCSQEIFPPIN 109 (299)
T ss_pred CCCCCccCCCcc
Confidence 999998865443
No 49
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=6.8e-06 Score=60.98 Aligned_cols=53 Identities=28% Similarity=0.789 Sum_probs=38.9
Q ss_pred ccccccccccccccCC--eeeecCCCCCcchHHHHHHHHh--cCCCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGE--ELRTLPECLHSYHAPCIDMWLY--SHSNCPICRSDATPSP 84 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~--~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~Cr~~~~~~~ 84 (113)
...+|+||++.+.... .+..+ .|||.|..+||++|+. ....||.|...-....
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl-~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~ 59 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSL-QCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQ 59 (463)
T ss_pred ccccCceeeeeeeecCceEEeee-cccccccHHHHHHHHhhhhhhhCcccCChhHHHH
Confidence 4568999999887644 23334 5999999999999994 2235999977654433
No 50
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=6e-06 Score=60.60 Aligned_cols=52 Identities=29% Similarity=0.816 Sum_probs=38.8
Q ss_pred CccccccccccccccCC----eeeecCCCCCcchHHHHHHHH--hc-----CCCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEGE----ELRTLPECLHSYHAPCIDMWL--YS-----HSNCPICRSDAT 81 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~----~~~~l~~C~H~fh~~Ci~~wl--~~-----~~~CP~Cr~~~~ 81 (113)
..+.+|.||++...... ....+|.|.|.||..||..|- .+ .+.||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 45778999999875432 122346699999999999997 33 357999998664
No 51
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.92 E-value=2.2e-06 Score=67.96 Aligned_cols=53 Identities=19% Similarity=0.454 Sum_probs=40.5
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQ 85 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 85 (113)
...|++|+..+.++......+ |+|.||..||..|-....+||+||..+-....
T Consensus 123 ~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 123 ENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheeee
Confidence 345777777666554444454 99999999999999999999999998754433
No 52
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.91 E-value=3.9e-06 Score=62.28 Aligned_cols=51 Identities=24% Similarity=0.701 Sum_probs=40.1
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhc--CCCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYS--HSNCPICRSDATPSPQI 86 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~~~ 86 (113)
-..|-||.|.-++ +..-| |||.+|..|+..|-.. ..+||.||..+......
T Consensus 369 FeLCKICaendKd---vkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v 421 (563)
T KOG1785|consen 369 FELCKICAENDKD---VKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV 421 (563)
T ss_pred HHHHHHhhccCCC---ccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence 3469999997555 66667 9999999999999733 56799999998665443
No 53
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.89 E-value=2e-06 Score=62.07 Aligned_cols=53 Identities=25% Similarity=0.580 Sum_probs=43.1
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQI 86 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 86 (113)
...+|.+|-..|-+.. ++..|-|.||+.||..++.....||+|...+......
T Consensus 14 ~~itC~LC~GYliDAT---TI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t~pl 66 (331)
T KOG2660|consen 14 PHITCRLCGGYLIDAT---TITECLHTFCKSCIVKYLEESKYCPTCDIVIHKTHPL 66 (331)
T ss_pred cceehhhccceeecch---hHHHHHHHHHHHHHHHHHHHhccCCccceeccCcccc
Confidence 3457999999998743 3335999999999999999999999999888666533
No 54
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.80 E-value=2.7e-05 Score=55.17 Aligned_cols=55 Identities=25% Similarity=0.478 Sum_probs=41.1
Q ss_pred CCCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHh--cCCCCCCCCCCCCC
Q 043177 25 TGPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLY--SHSNCPICRSDATP 82 (113)
Q Consensus 25 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~Cr~~~~~ 82 (113)
.......+.+|++|-+....+ .... .|+|+||+.|+..-.. ...+||.|..+..+
T Consensus 232 sss~~t~~~~C~~Cg~~PtiP--~~~~-~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~ 288 (298)
T KOG2879|consen 232 SSSTGTSDTECPVCGEPPTIP--HVIG-KCGHIYCYYCIATSRLWDASFTCPLCGENVEP 288 (298)
T ss_pred ccccccCCceeeccCCCCCCC--eeec-cccceeehhhhhhhhcchhhcccCccCCCCcc
Confidence 344567788999999986553 2233 4999999999987663 55789999887754
No 55
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.66 E-value=3.9e-05 Score=57.43 Aligned_cols=50 Identities=28% Similarity=0.606 Sum_probs=42.0
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
...+..|.||+..+-. ++.+| |||.||..||.+-+.....||.||..+..
T Consensus 81 ~~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred ccchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 3567789999998776 45567 99999999999988877889999998875
No 56
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.64 E-value=6.5e-05 Score=41.45 Aligned_cols=42 Identities=21% Similarity=0.574 Sum_probs=26.6
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHhc--CCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYS--HSNCPI 75 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~ 75 (113)
-...|+|.+..|.++ +... .|+|+|-+..|..|++. ...||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~-~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSK-KCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEES-SS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcC-CCCCeecHHHHHHHHHhcCCCCCCC
Confidence 356899999999874 3333 49999999999999943 335998
No 57
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.54 E-value=6.5e-05 Score=39.90 Aligned_cols=45 Identities=24% Similarity=0.533 Sum_probs=22.3
Q ss_pred ccccccccccCC-eeeecCCCCCcchHHHHHHHHh-cCCCCCCCCCCC
Q 043177 35 CAVCLSEFEEGE-ELRTLPECLHSYHAPCIDMWLY-SHSNCPICRSDA 80 (113)
Q Consensus 35 C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~-~~~~CP~Cr~~~ 80 (113)
|++|.+++...+ ...--+ |++.++..|...-+. ..+.||-||.+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~-Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCE-CGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SST-TS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCc-CCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984322 333334 999999999988875 577899999753
No 58
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.51 E-value=6.9e-05 Score=56.13 Aligned_cols=55 Identities=29% Similarity=0.695 Sum_probs=44.4
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQI 86 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 86 (113)
.+++..|+||+..+.++... . .|||.||..|+..|+.....||.|+..+......
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~--~-~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT--T-TCGHRFCAGCLLESLSNHQKCPVCRQELTQAEEL 72 (391)
T ss_pred CcccccCccccccccCCCCC--C-CCCCcccccccchhhccCcCCcccccccchhhcc
Confidence 57778999999999875432 2 3999999999999998888999998877544433
No 59
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.42 E-value=7.9e-05 Score=50.72 Aligned_cols=47 Identities=19% Similarity=0.470 Sum_probs=38.6
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
...|.||-.+|..+ +... |||.||..|...-.+....|-+|......
T Consensus 196 PF~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t~G 242 (259)
T COG5152 196 PFLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKATYG 242 (259)
T ss_pred ceeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhhcc
Confidence 45899999999874 3333 99999999999888888899999776543
No 60
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.37 E-value=0.00015 Score=58.22 Aligned_cols=51 Identities=25% Similarity=0.688 Sum_probs=38.4
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCC-------CCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHS-------NCPICRSDAT 81 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~-------~CP~Cr~~~~ 81 (113)
...+|.||.+.+.....+..-..|-|+||..||..|..... .||.|.....
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~ 247 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSK 247 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhc
Confidence 34579999999887665555445889999999999984321 4999985543
No 61
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=97.30 E-value=0.00031 Score=46.16 Aligned_cols=49 Identities=24% Similarity=0.634 Sum_probs=34.8
Q ss_pred CCccccccccccccccCCeeeecC-CCCC---cchHHHHHHHHhcC--CCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLP-ECLH---SYHAPCIDMWLYSH--SNCPICRSDAT 81 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~-~C~H---~fh~~Ci~~wl~~~--~~CP~Cr~~~~ 81 (113)
...+..|-||++.-.. . .-| .|.. ..|..|+.+|+..+ ..|++|+.+..
T Consensus 5 s~~~~~CRIC~~~~~~--~--~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 5 SLMDKCCWICKDEYDV--V--TNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCCeeEecCCCCCC--c--cCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 4567789999988532 2 234 2444 57999999999544 46999988764
No 62
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.23 E-value=0.00029 Score=51.89 Aligned_cols=51 Identities=24% Similarity=0.532 Sum_probs=42.0
Q ss_pred CCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 28 VGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 28 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
.+.++..|+||+..--. ....| |+|.-|+.||.+++-..+.|=.|+..+..
T Consensus 418 p~sEd~lCpICyA~pi~---Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGPIN---AVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CCcccccCcceecccch---hhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 34788899999986333 44566 99999999999999999999999988764
No 63
>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=97.23 E-value=0.00011 Score=44.90 Aligned_cols=35 Identities=31% Similarity=0.607 Sum_probs=28.3
Q ss_pred CCCccccccccccccccCCeeeecCCCCCcchHHHHH
Q 043177 28 VGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCID 64 (113)
Q Consensus 28 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~ 64 (113)
..+++..|++|...+.. ......| |||+||..|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 34567789999999987 4566777 99999999974
No 64
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.19 E-value=0.00029 Score=59.86 Aligned_cols=55 Identities=27% Similarity=0.625 Sum_probs=39.5
Q ss_pred CCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcC-----C-----CCCCCCCCCCCC
Q 043177 28 VGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSH-----S-----NCPICRSDATPS 83 (113)
Q Consensus 28 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~-----~-----~CP~Cr~~~~~~ 83 (113)
..+.|+.|-||+.+--.......+. |+|.||.+|...-+... - .||+|..++...
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 4567789999998544334455676 99999999987654321 1 599999988643
No 65
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.19 E-value=0.00012 Score=54.36 Aligned_cols=48 Identities=31% Similarity=0.755 Sum_probs=37.1
Q ss_pred CccccccccccccccC-CeeeecCCCCCcchHHHHHHHHhc--CCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEG-EELRTLPECLHSYHAPCIDMWLYS--HSNCPICRS 78 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~--~~~CP~Cr~ 78 (113)
+.+..|-.|=+.+.-. +...-+| |.|+||..|+...+.. ..+||.||.
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 4567899999987643 3455677 9999999999999844 446999983
No 66
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.16 E-value=0.00014 Score=48.02 Aligned_cols=32 Identities=41% Similarity=1.039 Sum_probs=27.7
Q ss_pred CCCccccccccccccccCCeeeecCCCCCcchH
Q 043177 28 VGDEDGICAVCLSEFEEGEELRTLPECLHSYHA 60 (113)
Q Consensus 28 ~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~ 60 (113)
..++..+|.||+|++..++.+.+|| |-.+||+
T Consensus 173 L~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 173 LKDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred hcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 3455668999999999999999999 9988885
No 67
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.16 E-value=0.0002 Score=55.18 Aligned_cols=50 Identities=22% Similarity=0.553 Sum_probs=37.0
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhc-----CCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYS-----HSNCPICRSDATP 82 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~-----~~~CP~Cr~~~~~ 82 (113)
..+...|.+|.+.-.+. ... .|.|.||+.|+..++.+ +-+||+|...+.-
T Consensus 533 nk~~~~C~lc~d~aed~---i~s-~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi 587 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDY---IES-SCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI 587 (791)
T ss_pred ccCceeecccCChhhhh---Hhh-hhhHHHHHHHHHHHHHhhhcccCCCCccccccccc
Confidence 34566899999986653 233 39999999999888732 3469999877643
No 68
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.13 E-value=0.0003 Score=51.54 Aligned_cols=58 Identities=19% Similarity=0.443 Sum_probs=41.7
Q ss_pred CCCccccccccccccccCC-eeeecCCCCCcchHHHHHHHH-hcCCCCCCCCCCCCCCCCC
Q 043177 28 VGDEDGICAVCLSEFEEGE-ELRTLPECLHSYHAPCIDMWL-YSHSNCPICRSDATPSPQI 86 (113)
Q Consensus 28 ~~~~~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~~~~~~ 86 (113)
..++++.|++|++.+...+ ...-.+ ||-.+|+-|....- .-++.||.||+........
T Consensus 10 sedeed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~ 69 (480)
T COG5175 10 SEDEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVR 69 (480)
T ss_pred cccccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhcccccee
Confidence 3455667999999987644 344556 99998888876544 3567899999977655443
No 69
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.94 E-value=0.0004 Score=44.51 Aligned_cols=35 Identities=14% Similarity=0.431 Sum_probs=26.9
Q ss_pred cccccccccccccCCeeeecCCCC------CcchHHHHHHHH
Q 043177 32 DGICAVCLSEFEEGEELRTLPECL------HSYHAPCIDMWL 67 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~------H~fh~~Ci~~wl 67 (113)
..+|.||++.+.+...++.++ || |.||.+|+.+|-
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence 346999999998833455554 65 789999999994
No 70
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.93 E-value=0.0015 Score=48.06 Aligned_cols=52 Identities=25% Similarity=0.609 Sum_probs=40.7
Q ss_pred CCCCCccccccccccccccCCeeeecCCCCCcchHHHHHH--HHhcCCCCCCCCCCCC
Q 043177 26 GPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDM--WLYSHSNCPICRSDAT 81 (113)
Q Consensus 26 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~--wl~~~~~CP~Cr~~~~ 81 (113)
+..+++...|.||.+.+.- ..++| |+|..|-.|..+ .|...+.||+||....
T Consensus 55 ddtDEen~~C~ICA~~~TY---s~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 55 DDTDEENMNCQICAGSTTY---SARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccccccceeEEecCCceE---EEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 3445677789999998764 56778 999999888754 4578889999998763
No 71
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.00028 Score=50.58 Aligned_cols=48 Identities=19% Similarity=0.337 Sum_probs=39.1
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPS 83 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 83 (113)
...|-||..+|..+ ++. .|+|.||..|...-++....|.+|.......
T Consensus 241 Pf~c~icr~~f~~p---Vvt-~c~h~fc~~ca~~~~qk~~~c~vC~~~t~g~ 288 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVT-KCGHYFCEVCALKPYQKGEKCYVCSQQTHGS 288 (313)
T ss_pred Cccccccccccccc---hhh-cCCceeehhhhccccccCCcceecccccccc
Confidence 34599999999874 334 3999999999998888889999998876543
No 72
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.92 E-value=0.0012 Score=46.48 Aligned_cols=57 Identities=14% Similarity=0.166 Sum_probs=48.0
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQIL 87 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 87 (113)
....|++|.+.+.+...-..|..|||+|+..|+.+.+.....||+|-.++.......
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcccceEe
Confidence 466899999999886655555459999999999999999999999999887776653
No 73
>PHA02862 5L protein; Provisional
Probab=96.91 E-value=0.00097 Score=43.23 Aligned_cols=45 Identities=22% Similarity=0.682 Sum_probs=32.7
Q ss_pred cccccccccccccCCeeeecCCCC-----CcchHHHHHHHHhc--CCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECL-----HSYHAPCIDMWLYS--HSNCPICRSDAT 81 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~-----H~fh~~Ci~~wl~~--~~~CP~Cr~~~~ 81 (113)
+..|-||++.-.+. .-| |. ...|..|+.+|++. +..|+.|+.+..
T Consensus 2 ~diCWIC~~~~~e~----~~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDER----NNF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCC----ccc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 35799999975432 234 53 46999999999954 346999998774
No 74
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.88 E-value=0.00076 Score=35.68 Aligned_cols=41 Identities=34% Similarity=0.867 Sum_probs=25.3
Q ss_pred ccccccccccCCeeeecC-CCCC---cchHHHHHHHHh--cCCCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLP-ECLH---SYHAPCIDMWLY--SHSNCPIC 76 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~-~C~H---~fh~~Ci~~wl~--~~~~CP~C 76 (113)
|-||++.-.... ....| .|.- ..|..|+.+|+. ....|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 678999866544 33455 2333 799999999995 44568887
No 75
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.71 E-value=0.0011 Score=47.91 Aligned_cols=43 Identities=28% Similarity=0.586 Sum_probs=35.2
Q ss_pred ccccccccccccCCeeeecCCCCCcchHHHHHHHH-hcCCCCCCCCC
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL-YSHSNCPICRS 78 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~ 78 (113)
..|+.|...+..+ ...+.|+|.||.+||...| .....||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6799999988764 3445699999999999776 57778999965
No 76
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.53 E-value=0.0045 Score=43.99 Aligned_cols=57 Identities=21% Similarity=0.384 Sum_probs=43.8
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQI 86 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 86 (113)
......|||....|......+.+..|||+|...++...- ....||+|-.++.....+
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI 166 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTEEDII 166 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCccccCCEE
Confidence 456778999999996555555554599999999998862 356799999998765543
No 77
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.50 E-value=0.0018 Score=47.63 Aligned_cols=50 Identities=28% Similarity=0.512 Sum_probs=34.2
Q ss_pred CCCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 25 TGPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 25 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
+.........|.||++...+ ...+| |||+-+ |..-. +.-..||+||..+.
T Consensus 298 ~~~~~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 298 TFRELPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred cccccCCCCceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 34445556789999998776 55677 999866 44322 23445999998764
No 78
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.49 E-value=0.0039 Score=45.48 Aligned_cols=54 Identities=20% Similarity=0.427 Sum_probs=40.5
Q ss_pred CCCCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCC
Q 043177 24 GTGPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDA 80 (113)
Q Consensus 24 ~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 80 (113)
..+........|++|+..-.++.... .-|-+||+.|+..++...+.||+=..+.
T Consensus 292 e~e~l~~~~~~CpvClk~r~Nptvl~---vSGyVfCY~Ci~~Yv~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 292 ESELLPPDREVCPVCLKKRQNPTVLE---VSGYVFCYPCIFSYVVNYGHCPVTGYPA 345 (357)
T ss_pred ccccCCCccccChhHHhccCCCceEE---ecceEEeHHHHHHHHHhcCCCCccCCcc
Confidence 33444556678999999877643222 2689999999999999999999876544
No 79
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.43 E-value=0.0022 Score=47.99 Aligned_cols=35 Identities=23% Similarity=0.578 Sum_probs=30.2
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHH
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL 67 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 67 (113)
...|.||++.......+..+| |+|+||+.|+..++
T Consensus 184 lf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~ 218 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYF 218 (445)
T ss_pred cccceeeehhhcCcceeeecc-cchHHHHHHHHHHH
Confidence 456999999877657788888 99999999999887
No 80
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.42 E-value=0.0022 Score=45.91 Aligned_cols=46 Identities=24% Similarity=0.550 Sum_probs=37.1
Q ss_pred cccccccccccccCC-eeeecCCCCCcchHHHHHHHHhcCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGE-ELRTLPECLHSYHAPCIDMWLYSHSNCPICRS 78 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 78 (113)
...|+||.+.+.... .+..++ |||..|..|+......+-+||+|..
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 445999999876654 344555 9999999999999877789999988
No 81
>PHA03096 p28-like protein; Provisional
Probab=96.34 E-value=0.0025 Score=45.89 Aligned_cols=46 Identities=26% Similarity=0.616 Sum_probs=32.1
Q ss_pred ccccccccccccC----CeeeecCCCCCcchHHHHHHHHhc---CCCCCCCCC
Q 043177 33 GICAVCLSEFEEG----EELRTLPECLHSYHAPCIDMWLYS---HSNCPICRS 78 (113)
Q Consensus 33 ~~C~IC~~~~~~~----~~~~~l~~C~H~fh~~Ci~~wl~~---~~~CP~Cr~ 78 (113)
..|.||++..... .....++.|.|.||..|+..|-.. ..+||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 4799999976532 233456689999999999999843 234555544
No 82
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=96.23 E-value=0.0072 Score=44.87 Aligned_cols=29 Identities=28% Similarity=0.777 Sum_probs=21.4
Q ss_pred CCCcchHHHHHHHHhcCC-------------CCCCCCCCCCC
Q 043177 54 CLHSYHAPCIDMWLYSHS-------------NCPICRSDATP 82 (113)
Q Consensus 54 C~H~fh~~Ci~~wl~~~~-------------~CP~Cr~~~~~ 82 (113)
|....|.+|+.+|+..+. .||+||+.+.-
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 345578999999984332 59999998754
No 83
>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=96.17 E-value=0.0036 Score=32.47 Aligned_cols=41 Identities=24% Similarity=0.704 Sum_probs=20.8
Q ss_pred ccccccccccCCeeeecCCCCCcchHHHHHHHHhcCC--CCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHS--NCPIC 76 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~CP~C 76 (113)
|.+|.+....|..=... .|+=.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~-~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNR-DCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCC-ccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 55677765543211111 3777899999999996555 69987
No 84
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.11 E-value=0.0047 Score=44.41 Aligned_cols=47 Identities=26% Similarity=0.622 Sum_probs=36.1
Q ss_pred ccccccccccccCC---eeeecCCCCCcchHHHHHHHHhcC-CCCCCCCCCC
Q 043177 33 GICAVCLSEFEEGE---ELRTLPECLHSYHAPCIDMWLYSH-SNCPICRSDA 80 (113)
Q Consensus 33 ~~C~IC~~~~~~~~---~~~~l~~C~H~fh~~Ci~~wl~~~-~~CP~Cr~~~ 80 (113)
..|-||-++|+..+ .++.+ .|||.|+..|+...+... ..||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l-~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVL-KCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCccc-ccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 46999999998753 33444 599999999998776443 3599999985
No 85
>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=96.08 E-value=0.007 Score=39.87 Aligned_cols=34 Identities=26% Similarity=0.567 Sum_probs=21.6
Q ss_pred ccccccccccccccCCeeeecC-----------CCCC-cchHHHHHHHH
Q 043177 31 EDGICAVCLSEFEEGEELRTLP-----------ECLH-SYHAPCIDMWL 67 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~-----------~C~H-~fh~~Ci~~wl 67 (113)
++..|+||||.-.+. ++|. -|+- .-|.-|+.++.
T Consensus 1 ed~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 1 EDVTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CCccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHH
Confidence 356899999987653 2322 1332 35677998876
No 86
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.06 E-value=0.0042 Score=33.80 Aligned_cols=44 Identities=23% Similarity=0.386 Sum_probs=29.5
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPS 83 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 83 (113)
.|..|...-.. -.++| |+|..+..|+..+ +-..||+|..++...
T Consensus 9 ~~~~~~~~~~~---~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 9 PCVFCGFVGTK---GTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD 52 (55)
T ss_pred eEEEccccccc---ccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence 45555544222 34666 9999999987543 556799998887543
No 87
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.00 E-value=0.0023 Score=44.73 Aligned_cols=44 Identities=23% Similarity=0.621 Sum_probs=30.7
Q ss_pred ccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
|-.|...-. +...+++. |+|+||..|...- ....||+|+..+..
T Consensus 6 Cn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 6 CNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRI 49 (233)
T ss_pred eccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeee
Confidence 555655443 55666665 9999999998652 23389999998643
No 88
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.95 E-value=0.0044 Score=50.14 Aligned_cols=42 Identities=26% Similarity=0.681 Sum_probs=31.9
Q ss_pred ccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCC
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDA 80 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 80 (113)
..|..|-..+.-+. +.-. |||.||.+|+. .....||.|+...
T Consensus 841 skCs~C~~~LdlP~--VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPF--VHFL-CGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccce--eeee-cccHHHHHhhc---cCcccCCccchhh
Confidence 57999999887643 2333 99999999998 3455799998743
No 89
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.87 E-value=0.014 Score=31.74 Aligned_cols=35 Identities=34% Similarity=0.826 Sum_probs=29.8
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHH
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDM 65 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~ 65 (113)
....|.+|-+.|.+++.+++-|.||-.+|+.|...
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 45679999999987788888888999999999753
No 90
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.68 E-value=0.011 Score=39.87 Aligned_cols=30 Identities=27% Similarity=0.803 Sum_probs=23.9
Q ss_pred CCCCcchHHHHHHHHhcC-----------CCCCCCCCCCCC
Q 043177 53 ECLHSYHAPCIDMWLYSH-----------SNCPICRSDATP 82 (113)
Q Consensus 53 ~C~H~fh~~Ci~~wl~~~-----------~~CP~Cr~~~~~ 82 (113)
+||.-||.-|+..|+.+- +.||.|..++..
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pial 229 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIAL 229 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCccee
Confidence 599999999999999431 259999887743
No 91
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.51 E-value=0.0038 Score=44.96 Aligned_cols=42 Identities=29% Similarity=0.644 Sum_probs=30.9
Q ss_pred cccccccccccccCCeeeecCCCCCc-chHHHHHHHHhcCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHS-YHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
+..|.||++...+ -+.|+ |||. -|..|..+ -..||+||..+.
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKR----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhccc----cccCchHHHHHH
Confidence 7789999997655 45676 9995 66777643 337999997653
No 92
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.78 E-value=0.015 Score=47.44 Aligned_cols=40 Identities=20% Similarity=0.406 Sum_probs=30.1
Q ss_pred CCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHH
Q 043177 26 GPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL 67 (113)
Q Consensus 26 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 67 (113)
....+.+..|.+|...+-.. ...+-| |||.||+.|+.+..
T Consensus 811 y~v~ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 811 YRVLEPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred eEEecCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 33456677899999988653 445566 99999999998765
No 93
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.77 E-value=0.017 Score=41.00 Aligned_cols=55 Identities=20% Similarity=0.604 Sum_probs=36.4
Q ss_pred CCCccccccccccccccCC-eeeecC-CC---CCcchHHHHHHHHhcCC--------CCCCCCCCCCC
Q 043177 28 VGDEDGICAVCLSEFEEGE-ELRTLP-EC---LHSYHAPCIDMWLYSHS--------NCPICRSDATP 82 (113)
Q Consensus 28 ~~~~~~~C~IC~~~~~~~~-~~~~l~-~C---~H~fh~~Ci~~wl~~~~--------~CP~Cr~~~~~ 82 (113)
..+.+..|-||+..-++.. ...+-| .| .|..|..|+..|+..+. +||.|+.+...
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYii 83 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYII 83 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchhee
Confidence 3456778999998655432 212334 13 37899999999993221 49999887643
No 94
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=94.47 E-value=0.041 Score=39.62 Aligned_cols=49 Identities=20% Similarity=0.513 Sum_probs=33.3
Q ss_pred cccccccc-cccCCeeeecCCCCCcchHHHHHHHH-hcCCCCCCCCCCCCC
Q 043177 34 ICAVCLSE-FEEGEELRTLPECLHSYHAPCIDMWL-YSHSNCPICRSDATP 82 (113)
Q Consensus 34 ~C~IC~~~-~~~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~~ 82 (113)
.|++|..+ +-.+........|+|..|..|+...+ .+...||.|...+..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhh
Confidence 48888773 23333222222499999999999887 456679999776643
No 95
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=94.47 E-value=0.055 Score=44.13 Aligned_cols=61 Identities=20% Similarity=0.489 Sum_probs=41.5
Q ss_pred CCCCCCCccccccccccccccCCeeeecCCCC---CcchHHHHHHHHhc--CCCCCCCCCCCCCCC
Q 043177 24 GTGPVGDEDGICAVCLSEFEEGEELRTLPECL---HSYHAPCIDMWLYS--HSNCPICRSDATPSP 84 (113)
Q Consensus 24 ~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~---H~fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 84 (113)
.+....+++..|.||..+-..++....--+|. ...|++|+..|+.- ...|-+|+.++.-+.
T Consensus 4 ~~~~mN~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~ 69 (1175)
T COG5183 4 ENTPMNEDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKD 69 (1175)
T ss_pred CCCCCCccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeee
Confidence 34455677789999998765544433221233 24899999999954 445999999886544
No 96
>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=94.43 E-value=0.018 Score=40.52 Aligned_cols=48 Identities=31% Similarity=0.697 Sum_probs=34.7
Q ss_pred ccccccccccc--cccCCeeeecCCCCCcchHHHHHHHHhcCC-CCC--CCCC
Q 043177 31 EDGICAVCLSE--FEEGEELRTLPECLHSYHAPCIDMWLYSHS-NCP--ICRS 78 (113)
Q Consensus 31 ~~~~C~IC~~~--~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~-~CP--~Cr~ 78 (113)
.+..||||..+ +.+...+..-|.|-|..|.+|+.+-+...+ .|| -|..
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 45689999984 333344545567999999999999886544 598 6743
No 97
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.40 E-value=0.016 Score=42.24 Aligned_cols=30 Identities=30% Similarity=0.783 Sum_probs=23.0
Q ss_pred eecCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 49 RTLPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 49 ~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
+.+| |+|+||.+|... ...+.||.|-..+.
T Consensus 105 RmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 105 RMIP-CKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred cccc-cchhhhhhhhhc--CccccCcCcccHHH
Confidence 4567 999999999764 34668999977654
No 98
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.07 E-value=0.051 Score=40.66 Aligned_cols=47 Identities=21% Similarity=0.347 Sum_probs=36.7
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCC---CCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHS---NCPICRSD 79 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~---~CP~Cr~~ 79 (113)
-..|||=.+.-++...+..|. |||++..+-+.+..+... .||.|-..
T Consensus 334 vF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 334 VFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred eeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 467999888777766777887 999999999998875443 59999543
No 99
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=93.98 E-value=0.02 Score=45.90 Aligned_cols=49 Identities=18% Similarity=0.583 Sum_probs=35.5
Q ss_pred ccccccccccccCCeeeecCCCCCcchHHHHHHHHhcC--CCCCCCCCCCCCCCCC
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSH--SNCPICRSDATPSPQI 86 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~--~~CP~Cr~~~~~~~~~ 86 (113)
..|.||++ . +.....+ |+|.||..|+...+... ..||.||..+......
T Consensus 455 ~~c~ic~~-~---~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~ 505 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL 505 (674)
T ss_pred cccccccc-c---ccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence 57999999 2 2244444 99999999998887432 2599999987554433
No 100
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.82 E-value=0.041 Score=41.99 Aligned_cols=35 Identities=34% Similarity=0.577 Sum_probs=29.1
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHH
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL 67 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 67 (113)
++++..|+||-.-|.+ +..++ |+|.+|+.|...-+
T Consensus 1 meeelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYRE---PIILP-CSHNLCQACARNIL 35 (699)
T ss_pred CcccccCceehhhccC---ceEee-cccHHHHHHHHhhc
Confidence 3577899999999887 56777 99999999987655
No 101
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.81 E-value=0.086 Score=33.85 Aligned_cols=52 Identities=21% Similarity=0.358 Sum_probs=36.5
Q ss_pred ccccccccccccccCCeeeecC--CCCCcchHHHHHHHHh---cCCCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLP--ECLHSYHAPCIDMWLY---SHSNCPICRSDATPSP 84 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~--~C~H~fh~~Ci~~wl~---~~~~CP~Cr~~~~~~~ 84 (113)
.--+|-||.|...+.. ..-| .||-.+|..|....|+ ..+.||+|+.++.+..
T Consensus 79 ~lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 3457999999865422 2222 5899999998776554 4557999999886544
No 102
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=93.80 E-value=0.044 Score=44.33 Aligned_cols=39 Identities=28% Similarity=0.643 Sum_probs=27.2
Q ss_pred ccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPI 75 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~ 75 (113)
|.||.-.+. +...+... |+|+.|.+|...|+..+..||.
T Consensus 1031 C~~C~l~V~-gss~~Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1031 CAICHLAVR-GSSNFCGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeEeeEee-ccchhhcc-ccccccHHHHHHHHhcCCcCCC
Confidence 555544332 22333444 9999999999999998888874
No 103
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.74 E-value=0.023 Score=48.05 Aligned_cols=45 Identities=33% Similarity=0.852 Sum_probs=37.0
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSD 79 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~ 79 (113)
-..|.||++.+..-..+. .|||.++..|...|+..+..||+|...
T Consensus 1153 ~~~c~ic~dil~~~~~I~---~cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1153 HFVCEICLDILRNQGGIA---GCGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred ccchHHHHHHHHhcCCee---eechhHhhhHHHHHHHHhccCcchhhh
Confidence 448999999988533333 399999999999999999999999743
No 104
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=93.65 E-value=0.069 Score=38.87 Aligned_cols=47 Identities=19% Similarity=0.323 Sum_probs=34.3
Q ss_pred CccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
.+-..||||.+.+..+ +...+ =||..|..|-. +....||.||.++..
T Consensus 46 ~~lleCPvC~~~l~~P--i~QC~-nGHlaCssC~~---~~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPP--IFQCD-NGHLACSSCRT---KVSNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCccc--ceecC-CCcEehhhhhh---hhcccCCcccccccc
Confidence 4456799999998864 33221 36999999865 356679999998863
No 105
>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=93.21 E-value=0.17 Score=27.65 Aligned_cols=49 Identities=20% Similarity=0.559 Sum_probs=34.3
Q ss_pred cccccccccccccCCeeeecCCCCC--cchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLH--SYHAPCIDMWLYSHSNCPICRSDATPSP 84 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H--~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 84 (113)
...|-.|-.++..+..-..+ |.+ .||..|....+ ...||.|...+...+
T Consensus 5 rpnCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 5 RPNCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CCCccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 34677888888765422222 664 69999998865 678999988876543
No 106
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=93.05 E-value=0.024 Score=29.87 Aligned_cols=29 Identities=28% Similarity=0.698 Sum_probs=21.5
Q ss_pred CC-CcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 54 CL-HSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 54 C~-H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
|+ |.+|..|+...+.....||+|..+++.
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 75 999999999999999999999987754
No 107
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.02 E-value=0.044 Score=37.82 Aligned_cols=40 Identities=35% Similarity=0.667 Sum_probs=29.1
Q ss_pred ccccccccccCCeeeecCCCCCc-chHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHS-YHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
|-.|-+.- ..+..+| |.|. +|..|-.. -..||+|+.....
T Consensus 161 Cr~C~~~~---~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLP-CRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcCC---ceEEeec-ccceEeccccccc----CccCCCCcChhhc
Confidence 88888763 3488888 9985 77888532 4569999886644
No 108
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.01 E-value=0.0048 Score=46.03 Aligned_cols=51 Identities=22% Similarity=0.595 Sum_probs=40.0
Q ss_pred ccccccccccccccC-CeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEG-EELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
-...|+||.+.++.. +.+..+- |||.+|..|+.+|+.....||.|++.+..
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 345799999988753 2333343 99999999999999888889999988753
No 109
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.64 E-value=0.11 Score=37.42 Aligned_cols=52 Identities=31% Similarity=0.665 Sum_probs=36.1
Q ss_pred ccccccccccccccCCe-eeecCCCC-----CcchHHHHHHHHh--cCCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEE-LRTLPECL-----HSYHAPCIDMWLY--SHSNCPICRSDATPS 83 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~-~~~l~~C~-----H~fh~~Ci~~wl~--~~~~CP~Cr~~~~~~ 83 (113)
++..|-||.+....... ....| |. ...|+.|+..|+. ....|-+|.......
T Consensus 77 ~~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 77 SGPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred CCCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 35689999997654321 23444 54 4589999999996 555699998866544
No 110
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.21 E-value=0.054 Score=40.72 Aligned_cols=37 Identities=19% Similarity=0.528 Sum_probs=26.3
Q ss_pred cccccccccccccC-CeeeecCCCCCcchHHHHHHHHhc
Q 043177 32 DGICAVCLSEFEEG-EELRTLPECLHSYHAPCIDMWLYS 69 (113)
Q Consensus 32 ~~~C~IC~~~~~~~-~~~~~l~~C~H~fh~~Ci~~wl~~ 69 (113)
..+|.||....... .... ...|+|.||.+|+.+++..
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 55899999444333 3333 3359999999999988853
No 111
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.64 E-value=0.11 Score=37.62 Aligned_cols=30 Identities=20% Similarity=0.616 Sum_probs=22.7
Q ss_pred CCCcchHHHHHHHHhcC-------------CCCCCCCCCCCCC
Q 043177 54 CLHSYHAPCIDMWLYSH-------------SNCPICRSDATPS 83 (113)
Q Consensus 54 C~H~fh~~Ci~~wl~~~-------------~~CP~Cr~~~~~~ 83 (113)
|....|.+|+.+|+.+. -+||+||+.+.-.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~ 367 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIR 367 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEe
Confidence 56678899999988433 2699999987543
No 112
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.57 E-value=0.82 Score=28.58 Aligned_cols=67 Identities=18% Similarity=0.284 Sum_probs=39.9
Q ss_pred HHHhhcCCccccCCCCCCCCccccccccccccccCC----------eeeecCCCCCcchHHHHHHHHhcCCCCCCCC
Q 043177 11 SMAQLIPAHKYHKGTGPVGDEDGICAVCLSEFEEGE----------ELRTLPECLHSYHAPCIDMWLYSHSNCPICR 77 (113)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~----------~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr 77 (113)
+.-+.+|...|..-.-........|--|+..|.... ....-+.|++.|+.+|-.-+-..=..||-|.
T Consensus 34 SyHHLfPl~~f~ev~~~~~~~~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 34 SYHHLFPLKAFQEIPLEEYNGSRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred hhhccCCCcccccccccccCCCCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 333444444453322112223456999999886431 1233456999999999766555555699885
No 113
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.22 E-value=0.83 Score=32.58 Aligned_cols=53 Identities=19% Similarity=0.263 Sum_probs=37.1
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQI 86 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 86 (113)
...|+|---.|...-....+..|||+|-..-+... ...+|++|.+.+......
T Consensus 111 ~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~dvI 163 (293)
T KOG3113|consen 111 RFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQEDDVI 163 (293)
T ss_pred eeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcccccCeE
Confidence 45688866666543444555569999988777663 467899999988765543
No 114
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=89.06 E-value=0.85 Score=24.19 Aligned_cols=42 Identities=21% Similarity=0.507 Sum_probs=17.8
Q ss_pred ccccccccccccCCeeeecCCCCCcchHHHHHHHH---hcCC--CCCCCCC
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL---YSHS--NCPICRS 78 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl---~~~~--~CP~Cr~ 78 (113)
..|+|-...+..+ ++.. .|.|.-+.+ +..|+ ...+ .||+|..
T Consensus 3 L~CPls~~~i~~P--~Rg~-~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGK-NCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SSE--EEET-T--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEEeC--ccCC-cCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 4688888877652 4444 499973322 22333 2222 5999975
No 115
>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=88.56 E-value=0.52 Score=25.29 Aligned_cols=43 Identities=26% Similarity=0.598 Sum_probs=20.8
Q ss_pred ccccccccccC------CeeeecCCCCCcchHHHHHHHHhcCCCCCCCC
Q 043177 35 CAVCLSEFEEG------EELRTLPECLHSYHAPCIDMWLYSHSNCPICR 77 (113)
Q Consensus 35 C~IC~~~~~~~------~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr 77 (113)
|--|+..|..+ .....-+.|++.|+.+|=.--=..=-.||-|.
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 55566766654 23455667999999999532112223588873
No 116
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=87.15 E-value=0.4 Score=33.26 Aligned_cols=47 Identities=28% Similarity=0.569 Sum_probs=35.4
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDA 80 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 80 (113)
.-..|.+|....-.+ ++.- .|+-.+|..|+..++++...||-|..-+
T Consensus 180 nlk~Cn~Ch~LvIqg--~rCg-~c~i~~h~~c~qty~q~~~~cphc~d~w 226 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG--IRCG-SCNIQYHRGCIQTYLQRRDICPHCGDLW 226 (235)
T ss_pred HHHHHhHhHHHhhee--eccC-cccchhhhHHHHHHhcccCcCCchhccc
Confidence 445799999976543 2222 3777899999999999988999995544
No 117
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.12 E-value=0.26 Score=39.39 Aligned_cols=40 Identities=28% Similarity=0.678 Sum_probs=28.0
Q ss_pred cccccccccccccCC-eeeecCCCCCcchHHHHHHHHhcCCCCC
Q 043177 32 DGICAVCLSEFEEGE-ELRTLPECLHSYHAPCIDMWLYSHSNCP 74 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP 74 (113)
-..|.||+..|.... ..+.+ .|||+.|..|+..- -+.+||
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl-~cghtic~~c~~~l--yn~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSL-QCGHTICGHCVQLL--YNASCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCcccc-cccchHHHHHHHhH--hhccCC
Confidence 446999988776532 23344 49999999999875 345677
No 118
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=86.97 E-value=0.94 Score=33.45 Aligned_cols=68 Identities=21% Similarity=0.371 Sum_probs=42.2
Q ss_pred hHHHHhhcCCccccCCCCCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCC
Q 043177 9 ENSMAQLIPAHKYHKGTGPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICR 77 (113)
Q Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr 77 (113)
..+.-...|...|.............|-.|.+........+.- .|.++||.+|-.---..=-.||-|.
T Consensus 307 ARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~-~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 307 ARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCE-SCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred HHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEch-hccceeeccchHHHHhhhhcCCCcC
Confidence 3444455565556554444445566799997777665444433 4999999999543222333599996
No 119
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=86.32 E-value=0.28 Score=38.78 Aligned_cols=45 Identities=29% Similarity=0.747 Sum_probs=26.9
Q ss_pred Cccccccccccc-----cccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCC
Q 043177 30 DEDGICAVCLSE-----FEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRS 78 (113)
Q Consensus 30 ~~~~~C~IC~~~-----~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 78 (113)
.....|.||... |.. ..+.....|+++||..|+.. ....||.|-+
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~-~~~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFET-RNTRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred cCeeeeeeccCCCccccccc-ccceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 335567788331 111 12223335999999999764 4555999943
No 120
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=85.42 E-value=1.2 Score=25.68 Aligned_cols=47 Identities=21% Similarity=0.565 Sum_probs=31.4
Q ss_pred cccccccccccCCeeeecCCC--CCcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 043177 34 ICAVCLSEFEEGEELRTLPEC--LHSYHAPCIDMWLYSHSNCPICRSDATPSP 84 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C--~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 84 (113)
.|--|-.++..+..-..+ | .|.||.+|...- -.+.||.|-..+...+
T Consensus 7 nCECCDrDLpp~s~dA~I--CtfEcTFCadCae~~--l~g~CPnCGGelv~RP 55 (84)
T COG3813 7 NCECCDRDLPPDSTDARI--CTFECTFCADCAENR--LHGLCPNCGGELVARP 55 (84)
T ss_pred CCcccCCCCCCCCCceeE--EEEeeehhHhHHHHh--hcCcCCCCCchhhcCc
Confidence 466677777654322222 4 478999998863 4678999988775444
No 121
>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=85.30 E-value=0.48 Score=21.74 Aligned_cols=23 Identities=26% Similarity=0.595 Sum_probs=11.3
Q ss_pred cccccccccccCCeeeecCCCCCcc
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSY 58 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~f 58 (113)
.|+-|...+... ...-|.|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 366666655432 22334466655
No 122
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=84.95 E-value=1.2 Score=32.75 Aligned_cols=50 Identities=18% Similarity=0.448 Sum_probs=37.0
Q ss_pred cccccccccccccCC-eeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGE-ELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
...|+||.++..... ...-.+ |++..|..|+..-.....+||.||.+...
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCcccc
Confidence 357999999874333 233334 89888888888877888899999976543
No 123
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=84.71 E-value=0.79 Score=31.46 Aligned_cols=41 Identities=29% Similarity=0.813 Sum_probs=27.8
Q ss_pred cccccccccc-----cccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCC
Q 043177 32 DGICAVCLSE-----FEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRS 78 (113)
Q Consensus 32 ~~~C~IC~~~-----~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 78 (113)
+..|-+|.++ |.. +.+..-+.|+-+||..|+. ...||.|.+
T Consensus 152 GfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcHh
Confidence 4578888752 222 2344555799999999975 367999943
No 124
>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 KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.96 E-value=0.79 Score=35.08 Aligned_cols=37 Identities=27% Similarity=0.673 Sum_probs=28.8
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHHh
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLY 68 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 68 (113)
......|-||.+.+.. .+..+. |+|.|+..|+..++.
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLG 103 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhh
Confidence 3456789999998765 344555 999999999998884
No 126
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=83.63 E-value=0.33 Score=38.99 Aligned_cols=52 Identities=23% Similarity=0.534 Sum_probs=37.6
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHh---cCCCCCCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLY---SHSNCPICRSDATPSPQI 86 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~---~~~~CP~Cr~~~~~~~~~ 86 (113)
...+|+||...+..+ ..+ .|.|.|+..|+..-+. ....||+|++.+......
T Consensus 20 k~lEc~ic~~~~~~p---~~~-kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~~ 74 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLL-KCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSLR 74 (684)
T ss_pred hhccCCceeEEeecc---chh-hhhHHHHhhhhhceeeccCccccchhhhhhhhhhhcc
Confidence 356799999998774 344 4999999999876553 244699999877554433
No 127
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=82.21 E-value=1.3 Score=36.45 Aligned_cols=54 Identities=13% Similarity=0.226 Sum_probs=36.5
Q ss_pred CccccccccccccccC---CeeeecCCCCCcchHHHHHHHHhc------CCCCCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEG---EELRTLPECLHSYHAPCIDMWLYS------HSNCPICRSDATPS 83 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~---~~~~~l~~C~H~fh~~Ci~~wl~~------~~~CP~Cr~~~~~~ 83 (113)
.+..+|.+|...++++ -.+..+..|+|.||..||..|..+ .-.|++|..-+...
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW 156 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSW 156 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhh
Confidence 4456788888887762 233333359999999999999832 22478887766443
No 128
>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=81.69 E-value=0.57 Score=24.48 Aligned_cols=31 Identities=26% Similarity=0.685 Sum_probs=20.8
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHH
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDM 65 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~ 65 (113)
.|.||......+..+. -..|+..||..|+..
T Consensus 1 ~C~vC~~~~~~~~~i~-C~~C~~~~H~~C~~~ 31 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQ-CDSCNRWYHQECVGP 31 (51)
T ss_dssp EBTTTTSSCTTSSEEE-BSTTSCEEETTTSTS
T ss_pred eCcCCCCcCCCCCeEE-cCCCChhhCcccCCC
Confidence 4788888444433443 335899999999754
No 129
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=81.20 E-value=1.5 Score=35.87 Aligned_cols=40 Identities=23% Similarity=0.476 Sum_probs=28.2
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCC
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPI 75 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~ 75 (113)
.|.+|.-.+.. .. ...+.|+|.-|.+|+..|+.....||.
T Consensus 781 ~CtVC~~vi~G-~~-~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRG-VD-VWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred Cceeecceeee-eE-eecccccccccHHHHHHHHhcCCCCcc
Confidence 46666655432 11 222359999999999999988888866
No 130
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.56 E-value=1.7 Score=34.23 Aligned_cols=49 Identities=33% Similarity=0.891 Sum_probs=37.0
Q ss_pred CCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQ 85 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 85 (113)
.+....|.||+..+ . .+..+ |. |..|+..|+..+..||.|+..+.....
T Consensus 476 ~~~~~~~~~~~~~~-~---~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 476 REPNDVCAICYQEM-S---ARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDDF 524 (543)
T ss_pred hcccCcchHHHHHH-H---hcccc-cc---chhHHHhhhhhccccCCCchhhhcccc
Confidence 34566899999988 2 23333 77 788999999999999999887755443
No 131
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.53 E-value=1.2 Score=33.55 Aligned_cols=44 Identities=27% Similarity=0.471 Sum_probs=30.9
Q ss_pred cccccccccccc--cCCeeeecCCCCCcchHHHHHHHHhcCCCCCCC
Q 043177 32 DGICAVCLSEFE--EGEELRTLPECLHSYHAPCIDMWLYSHSNCPIC 76 (113)
Q Consensus 32 ~~~C~IC~~~~~--~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 76 (113)
-..|++|.-.+. .|-...+-. |||.|++.|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 346888877543 333344445 99999999999998777766544
No 132
>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=78.17 E-value=0.77 Score=25.62 Aligned_cols=35 Identities=17% Similarity=0.347 Sum_probs=16.0
Q ss_pred CccccccccccccccCCeeeecCCCCCcchHHHHH
Q 043177 30 DEDGICAVCLSEFEEGEELRTLPECLHSYHAPCID 64 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~ 64 (113)
.+...|.+|...|..-..-..-..||++|+..|..
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~ 41 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSS 41 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhC
Confidence 34568999999996532222223589999877754
No 133
>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=76.63 E-value=1.7 Score=20.75 Aligned_cols=36 Identities=25% Similarity=0.546 Sum_probs=22.3
Q ss_pred ccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDA 80 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 80 (113)
|..|...+......... =+..||..|+ .|..|...+
T Consensus 2 C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcC
Confidence 67777777654222222 4677888776 377776655
No 134
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=76.53 E-value=1.8 Score=21.42 Aligned_cols=26 Identities=23% Similarity=0.653 Sum_probs=13.8
Q ss_pred cccccccccccCCe-------eeecCCCCCcch
Q 043177 34 ICAVCLSEFEEGEE-------LRTLPECLHSYH 59 (113)
Q Consensus 34 ~C~IC~~~~~~~~~-------~~~l~~C~H~fh 59 (113)
.|+-|...|..++. ...-+.|+|.|.
T Consensus 4 ~CP~C~~~f~v~~~~l~~~~~~vrC~~C~~~f~ 36 (37)
T PF13719_consen 4 TCPNCQTRFRVPDDKLPAGGRKVRCPKCGHVFR 36 (37)
T ss_pred ECCCCCceEEcCHHHcccCCcEEECCCCCcEee
Confidence 57777776654321 223345666653
No 135
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.38 E-value=0.73 Score=37.64 Aligned_cols=45 Identities=24% Similarity=0.550 Sum_probs=29.6
Q ss_pred Ccccccccccccccc-C---CeeeecCCCCCcchHHHHHHHHhcCCCCCCC
Q 043177 30 DEDGICAVCLSEFEE-G---EELRTLPECLHSYHAPCIDMWLYSHSNCPIC 76 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~-~---~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~C 76 (113)
..+..|.-|.+.... + ..+.+.- |+|.||..|+..-.-++. |-.|
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 344589999986642 2 2455554 999999999876553333 5444
No 136
>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=73.19 E-value=4.6 Score=29.08 Aligned_cols=45 Identities=22% Similarity=0.519 Sum_probs=26.7
Q ss_pred CccccccccccccccCCeeeecCCCCC-cchHHHHHHH-HhcCCCCC
Q 043177 30 DEDGICAVCLSEFEEGEELRTLPECLH-SYHAPCIDMW-LYSHSNCP 74 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~w-l~~~~~CP 74 (113)
+.-..|.||++....|..-..|.+=.- .=|++|+.+| +..+..||
T Consensus 28 ~tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 28 ETLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred cceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 334568888876655433222221111 3679999998 46777787
No 137
>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 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=71.90 E-value=3.4 Score=21.93 Aligned_cols=34 Identities=15% Similarity=0.294 Sum_probs=22.4
Q ss_pred ccccccccccccCCeeeecCCCCCcchHHHHHHH
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYHAPCIDMW 66 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w 66 (113)
..|.+|...|..-..-.....||++|+..|....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~ 36 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNR 36 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCe
Confidence 4688998888753222222359999999887544
No 139
>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=71.39 E-value=1.5 Score=23.32 Aligned_cols=39 Identities=21% Similarity=0.416 Sum_probs=24.1
Q ss_pred ccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 043177 35 CAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPS 83 (113)
Q Consensus 35 C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 83 (113)
|..|...+.....+... -+..||..|+ .|-.|+..+...
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEcccc--------ccCCCCCccCCC
Confidence 55666766654433222 6677887775 478887776544
No 140
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.81 E-value=5.3 Score=29.12 Aligned_cols=41 Identities=17% Similarity=0.382 Sum_probs=28.2
Q ss_pred CccccccccccccccCCeeeecC-CCCCcchHHHHHHHHhcCC
Q 043177 30 DEDGICAVCLSEFEEGEELRTLP-ECLHSYHAPCIDMWLYSHS 71 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l~-~C~H~fh~~Ci~~wl~~~~ 71 (113)
.....|.+|.|.+.+.- .+..| .=.|.||.-|-...++.+.
T Consensus 266 ~apLcCTLC~ERLEDTH-FVQCPSVp~HKFCFPCSResIK~Qg 307 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTH-FVQCPSVPSHKFCFPCSRESIKQQG 307 (352)
T ss_pred CCceeehhhhhhhccCc-eeecCCCcccceecccCHHHHHhhc
Confidence 44577999999998732 22211 1259999999988886554
No 141
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=69.43 E-value=4.4 Score=29.97 Aligned_cols=46 Identities=20% Similarity=0.304 Sum_probs=30.4
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcC---CCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSH---SNCPICRS 78 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~---~~CP~Cr~ 78 (113)
-..||+=-+.-.+...+..+. |||++-..-+...-+.+ ..||.|-.
T Consensus 336 ~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 336 LFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred eeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 456887666555444555665 99999888877654322 24999944
No 142
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.18 E-value=2.5 Score=30.96 Aligned_cols=53 Identities=19% Similarity=0.541 Sum_probs=39.7
Q ss_pred CCCCCccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 26 GPVGDEDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 26 ~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
.........|-||...+..+. +...|.|.|+..|...|....+.||.|+....
T Consensus 99 A~~~~~~~~~~~~~g~l~vpt---~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~ 151 (324)
T KOG0824|consen 99 AGFQQDHDICYICYGKLTVPT---RIQGCWHQFCYVCPKSNFAMGNDCPDCRGKIS 151 (324)
T ss_pred ccccCCccceeeeeeeEEecc---cccCceeeeeecCCchhhhhhhccchhhcCcC
Confidence 334455668999999886532 22248999999999999998888999877553
No 143
>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=68.45 E-value=5.8 Score=18.38 Aligned_cols=29 Identities=21% Similarity=0.461 Sum_probs=10.0
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHH
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCI 63 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci 63 (113)
.|.+|...... .....-..|.-.+|..|+
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 47788887665 233444458888998885
No 144
>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=68.04 E-value=9 Score=23.55 Aligned_cols=49 Identities=16% Similarity=0.384 Sum_probs=28.1
Q ss_pred cccccccccccccCCeee----ecCCC---CCcchHHHHHHHHhcC---------CCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELR----TLPEC---LHSYHAPCIDMWLYSH---------SNCPICRSDA 80 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~----~l~~C---~H~fh~~Ci~~wl~~~---------~~CP~Cr~~~ 80 (113)
...|..|...-.+....- ..+.| .-.||..|+..+.... -.||.||.--
T Consensus 7 g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 7 GKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred CCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 446777776433211111 11235 5579999998776321 2499998844
No 145
>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=66.56 E-value=4.4 Score=22.90 Aligned_cols=11 Identities=18% Similarity=0.851 Sum_probs=8.1
Q ss_pred chHHHHHHHHh
Q 043177 58 YHAPCIDMWLY 68 (113)
Q Consensus 58 fh~~Ci~~wl~ 68 (113)
||+-|+.+|..
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999983
No 146
>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=65.93 E-value=1.8 Score=24.74 Aligned_cols=40 Identities=23% Similarity=0.394 Sum_probs=17.2
Q ss_pred ccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
..||.|...+.... +|.+|..|-.. +.....||-|..++.
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHH
Confidence 36888888875422 33333334322 134445888877653
No 147
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=65.61 E-value=6.3 Score=32.55 Aligned_cols=51 Identities=25% Similarity=0.509 Sum_probs=33.7
Q ss_pred CCCCccccccccccccccC----C-----eeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 27 PVGDEDGICAVCLSEFEEG----E-----ELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 27 ~~~~~~~~C~IC~~~~~~~----~-----~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
.++..+..|+-|...|... . .....+.|.|..|.+=|. ....||+|.....
T Consensus 1126 ~i~~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs----~y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1126 KIDPYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEIS----KYNCCPLCHSMES 1185 (1189)
T ss_pred cCCccCCCChhhcCcCceeeccCCccccceEEEcccccccccccccc----ccccCccccChhh
Confidence 3456678899888888532 1 222345699988876553 3567999987653
No 148
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=64.66 E-value=1.6 Score=28.27 Aligned_cols=43 Identities=30% Similarity=0.748 Sum_probs=25.2
Q ss_pred CCcccccccccc-ccccCCeeeecCCCCCc-------chHHHHHHHH-hcCC---CCCCCCCC
Q 043177 29 GDEDGICAVCLS-EFEEGEELRTLPECLHS-------YHAPCIDMWL-YSHS---NCPICRSD 79 (113)
Q Consensus 29 ~~~~~~C~IC~~-~~~~~~~~~~l~~C~H~-------fh~~Ci~~wl-~~~~---~CP~Cr~~ 79 (113)
...+.+|.||+. .|.+| |||. ||..|..+.- .+++ .|-.|+..
T Consensus 62 v~ddatC~IC~KTKFADG--------~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 62 VGDDATCGICHKTKFADG--------CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cCcCcchhhhhhcccccc--------cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 356779999998 55554 6664 4455543322 2222 37777654
No 149
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=64.50 E-value=5.7 Score=19.47 Aligned_cols=11 Identities=27% Similarity=0.824 Sum_probs=7.1
Q ss_pred ccccccccccc
Q 043177 34 ICAVCLSEFEE 44 (113)
Q Consensus 34 ~C~IC~~~~~~ 44 (113)
+|+=|...|..
T Consensus 4 ~Cp~C~~~y~i 14 (36)
T PF13717_consen 4 TCPNCQAKYEI 14 (36)
T ss_pred ECCCCCCEEeC
Confidence 57777776654
No 150
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.98 E-value=4.4 Score=28.95 Aligned_cols=33 Identities=12% Similarity=0.140 Sum_probs=25.5
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHh
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLY 68 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~ 68 (113)
-.-|++|+..+.+ +...+ =||+|++.||..++.
T Consensus 43 FdcCsLtLqPc~d---Pvit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 43 FDCCSLTLQPCRD---PVITP-DGYLFDREAILEYIL 75 (303)
T ss_pred cceeeeecccccC---CccCC-CCeeeeHHHHHHHHH
Confidence 3468999999887 34444 789999999988763
No 151
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=62.64 E-value=11 Score=21.97 Aligned_cols=51 Identities=24% Similarity=0.528 Sum_probs=19.5
Q ss_pred ccccccccccccccCC--eeeec-CCCCCcchHHHHHHHH-hcCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGE--ELRTL-PECLHSYHAPCIDMWL-YSHSNCPICRSDAT 81 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~--~~~~l-~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~ 81 (113)
....|.||=+++.... .+++. ..|+--.|+.|..-=. ...+.||.|+....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 3457999999875321 23322 2466668889986444 45667999987664
No 152
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=61.12 E-value=6.5 Score=28.33 Aligned_cols=48 Identities=27% Similarity=0.503 Sum_probs=32.3
Q ss_pred ccccccccccccCCeeeec---CCCCCcchHHHHHHHHh-c--------CCCCCCCCCCC
Q 043177 33 GICAVCLSEFEEGEELRTL---PECLHSYHAPCIDMWLY-S--------HSNCPICRSDA 80 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l---~~C~H~fh~~Ci~~wl~-~--------~~~CP~Cr~~~ 80 (113)
..|-+|...+...+..+.. +.|+-++|..|+...+. . .+.||.|+..+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 5799999998443333222 25778899999988442 1 23699998744
No 153
>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=59.55 E-value=22 Score=21.25 Aligned_cols=38 Identities=21% Similarity=0.469 Sum_probs=26.8
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
...|.-|...++--+ .+| +-.|+..++.|..|+.++..
T Consensus 33 rS~C~~C~~~L~~~~---lIP----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 33 RSHCPHCGHPLSWWD---LIP----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCcCcCCCCcCcccc---cch----------HHHHHHhCCCCcccCCCCCh
Confidence 446777777765422 333 56799999999999988753
No 154
>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=59.09 E-value=3.1 Score=31.56 Aligned_cols=27 Identities=26% Similarity=0.554 Sum_probs=0.0
Q ss_pred CCCCcchHHHHHHHHh------cCCCCCCCCCCCCC
Q 043177 53 ECLHSYHAPCIDMWLY------SHSNCPICRSDATP 82 (113)
Q Consensus 53 ~C~H~fh~~Ci~~wl~------~~~~CP~Cr~~~~~ 82 (113)
.|||++..+ .|.. ....||+||..-..
T Consensus 308 ~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 308 NCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVGPY 340 (416)
T ss_dssp ------------------------------------
T ss_pred cccceeeec---ccccccccccccccCCCccccCCc
Confidence 499987643 4642 24569999876544
No 155
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=56.65 E-value=7.4 Score=29.69 Aligned_cols=32 Identities=16% Similarity=0.508 Sum_probs=21.9
Q ss_pred ccccccccccccCCeeeecCCCCCcchHHHHHHH
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYHAPCIDMW 66 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~w 66 (113)
.+|+||+-.+...-...+ .|.-.+|..|+...
T Consensus 75 ~ecpicflyyps~~n~~r--cC~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 75 TECPICFLYYPSAKNLVR--CCSETICGECFAPF 106 (482)
T ss_pred ccCceeeeecccccchhh--hhccchhhhheecc
Confidence 479999998765332222 38888888887653
No 156
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=56.65 E-value=8.1 Score=27.34 Aligned_cols=26 Identities=19% Similarity=0.359 Sum_probs=18.0
Q ss_pred ccccccccccccCCeeeecCCCCCcch
Q 043177 33 GICAVCLSEFEEGEELRTLPECLHSYH 59 (113)
Q Consensus 33 ~~C~IC~~~~~~~~~~~~l~~C~H~fh 59 (113)
..||+|...+.........+ .+|.|-
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd 28 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFD 28 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCc
Confidence 47999999997544444444 578773
No 157
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=54.66 E-value=2.6 Score=30.76 Aligned_cols=45 Identities=20% Similarity=0.502 Sum_probs=28.0
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQI 86 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 86 (113)
.+.|.-|.+.+.....++.. =.|+||.+|+. |-+|++.+......
T Consensus 92 GTKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L~TGdEF 136 (383)
T KOG4577|consen 92 GTKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQLATGDEF 136 (383)
T ss_pred CCcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhcccccCCee
Confidence 34577777766543333322 67899999975 67777766554443
No 158
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=54.32 E-value=8.6 Score=27.53 Aligned_cols=44 Identities=16% Similarity=0.264 Sum_probs=29.4
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCC--CCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHS--NCPICRS 78 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~--~CP~Cr~ 78 (113)
+..|+|=...+..+ ++.. .|||+|-++-+...+.... .||+=..
T Consensus 176 s~rdPis~~~I~nP--viSk-kC~HvydrDsI~~~l~~~~~i~CPv~gC 221 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP--VISK-KCGHVYDRDSIMQILCDEITIRCPVLGC 221 (262)
T ss_pred cccCchhhhhhhch--hhhc-CcCcchhhhhHHHHhccCceeecccccC
Confidence 44687765555543 2222 5999999999999986643 4887543
No 159
>PLN02189 cellulose synthase
Probab=53.79 E-value=17 Score=31.15 Aligned_cols=51 Identities=24% Similarity=0.570 Sum_probs=34.2
Q ss_pred cccccccccccccc---CCeeeecCCCCCcchHHHHHHHH-hcCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEE---GEELRTLPECLHSYHAPCIDMWL-YSHSNCPICRSDAT 81 (113)
Q Consensus 31 ~~~~C~IC~~~~~~---~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~ 81 (113)
....|.||-+++.. |+..+-...|+--.|+.|.+-=. ..++.||.|+....
T Consensus 33 ~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 33 DGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 34589999998762 33333333466668999984322 45567999988775
No 160
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=52.97 E-value=9.9 Score=22.08 Aligned_cols=32 Identities=25% Similarity=0.621 Sum_probs=21.3
Q ss_pred cccccccccccccCCeee-ecCCCCCcchHHHHHH
Q 043177 32 DGICAVCLSEFEEGEELR-TLPECLHSYHAPCIDM 65 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~-~l~~C~H~fh~~Ci~~ 65 (113)
...|.+|...... .+. ..+.|.-.||..|...
T Consensus 36 ~~~C~~C~~~~Ga--~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGA--CIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCe--EEEEeCCCCCcEEChHHHcc
Confidence 4579999987332 222 1235888999999754
No 161
>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=52.90 E-value=6.8 Score=24.43 Aligned_cols=33 Identities=21% Similarity=0.358 Sum_probs=20.2
Q ss_pred cccccccccccccc--CCeeeecCCCCCcchHHHHH
Q 043177 31 EDGICAVCLSEFEE--GEELRTLPECLHSYHAPCID 64 (113)
Q Consensus 31 ~~~~C~IC~~~~~~--~~~~~~l~~C~H~fh~~Ci~ 64 (113)
++..|.+|...|.. +....-. .|+|.+|..|-.
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~-~C~~~VC~~C~~ 87 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCV-DCKHRVCKKCGV 87 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEET-TTTEEEETTSEE
T ss_pred CCcchhhhCCcccccCCCCCcCC-cCCccccCccCC
Confidence 56689999998753 2233333 499988887753
No 162
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=52.87 E-value=7.4 Score=18.54 Aligned_cols=9 Identities=33% Similarity=1.006 Sum_probs=6.5
Q ss_pred CCCCCCCCC
Q 043177 70 HSNCPICRS 78 (113)
Q Consensus 70 ~~~CP~Cr~ 78 (113)
...||+|.+
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 446999965
No 163
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=52.44 E-value=10 Score=20.12 Aligned_cols=24 Identities=29% Similarity=0.778 Sum_probs=13.9
Q ss_pred CCCCCcchHHHHHHHHhcCCCCCCC
Q 043177 52 PECLHSYHAPCIDMWLYSHSNCPIC 76 (113)
Q Consensus 52 ~~C~H~fh~~Ci~~wl~~~~~CP~C 76 (113)
+.|||.|-.. +..-......||.|
T Consensus 32 ~~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 32 PKCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCCeeEcc-HhhhccCCCCCCCC
Confidence 4578877543 22222455669987
No 164
>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=52.32 E-value=5.7 Score=21.08 Aligned_cols=36 Identities=36% Similarity=0.671 Sum_probs=19.5
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHh--cCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLY--SHSNCPICRS 78 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~--~~~~CP~Cr~ 78 (113)
...||.|-+.+.. ..| +.| +...... ..-.||+|..
T Consensus 2 ~f~CP~C~~~~~~----~~L--~~H-----~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGKGFSE----SSL--VEH-----CEDEHRSESKNVVCPICSS 39 (54)
T ss_pred CcCCCCCCCccCH----HHH--HHH-----HHhHCcCCCCCccCCCchh
Confidence 3579999886543 122 223 3333322 2345999975
No 165
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=50.92 E-value=14 Score=22.43 Aligned_cols=32 Identities=19% Similarity=0.506 Sum_probs=21.2
Q ss_pred cccccccccccccCCeeeec-CCCCCcchHHHHHH
Q 043177 32 DGICAVCLSEFEEGEELRTL-PECLHSYHAPCIDM 65 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l-~~C~H~fh~~Ci~~ 65 (113)
...|.||...... .+.-. +.|...||..|...
T Consensus 55 ~~~C~iC~~~~G~--~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKSGGA--CIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCCCce--eEEcCCCCCCcCCCHHHHHH
Confidence 5689999998332 22211 13777899999865
No 166
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=49.09 E-value=4.5 Score=21.51 Aligned_cols=10 Identities=30% Similarity=0.949 Sum_probs=5.0
Q ss_pred CCCCCCCCCC
Q 043177 72 NCPICRSDAT 81 (113)
Q Consensus 72 ~CP~Cr~~~~ 81 (113)
.||+|.+++.
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 7999988764
No 167
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=48.49 E-value=19 Score=21.99 Aligned_cols=29 Identities=21% Similarity=0.382 Sum_probs=17.7
Q ss_pred CCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 043177 54 CLHSYHAPCIDMWLYSHSNCPICRSDATPS 83 (113)
Q Consensus 54 C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 83 (113)
||+.-|..-+..+ .....||.|+.++++.
T Consensus 65 CGvC~~~LT~~EY-~~~~~Cp~C~spFNp~ 93 (105)
T COG4357 65 CGVCRKLLTRAEY-GMCGSCPYCQSPFNPG 93 (105)
T ss_pred hhhhhhhhhHHHH-hhcCCCCCcCCCCCcc
Confidence 6654444333333 3345699999998764
No 168
>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=48.47 E-value=1.5 Score=31.55 Aligned_cols=49 Identities=20% Similarity=0.320 Sum_probs=20.5
Q ss_pred CccccccccccccccCCeeeecC---CCCCcchHHHHHHHHhcCCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEGEELRTLP---ECLHSYHAPCIDMWLYSHSNCPICRSDA 80 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l~---~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 80 (113)
.....||||=..-.-+ ...-. .=.|.+|..|-..|-.....||.|-..-
T Consensus 170 w~~g~CPvCGs~P~~s--~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~ 221 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLS--VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTD 221 (290)
T ss_dssp TT-SS-TTT---EEEE--EEE------EEEEEETTT--EEE--TTS-TTT---S
T ss_pred ccCCcCCCCCCcCceE--EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCC
Confidence 3456899998864321 11111 0134567778888877777899996654
No 169
>PLN02248 cellulose synthase-like protein
Probab=47.01 E-value=30 Score=29.98 Aligned_cols=30 Identities=23% Similarity=0.338 Sum_probs=26.1
Q ss_pred CCCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 53 ECLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 53 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
.|++.+|++|..-.++..+.||-|+.+...
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 488999999999988888999999887743
No 170
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=46.96 E-value=32 Score=25.71 Aligned_cols=53 Identities=23% Similarity=0.530 Sum_probs=31.9
Q ss_pred CCcccccccccccccc---------------CCe-eeecCCCCCcchHHHHHHHHhc---C------CCCCCCCCCCCC
Q 043177 29 GDEDGICAVCLSEFEE---------------GEE-LRTLPECLHSYHAPCIDMWLYS---H------SNCPICRSDATP 82 (113)
Q Consensus 29 ~~~~~~C~IC~~~~~~---------------~~~-~~~l~~C~H~fh~~Ci~~wl~~---~------~~CP~Cr~~~~~ 82 (113)
+..+..|++|+..-.. +.. ..--| |||+--..-..-|-+. + ..||.|-..+..
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 3457789999985321 110 11134 9998777777777532 1 249999776543
No 171
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=46.96 E-value=4.2 Score=21.84 Aligned_cols=19 Identities=32% Similarity=0.592 Sum_probs=13.0
Q ss_pred eeecCCCCCcchHHHHHHH
Q 043177 48 LRTLPECLHSYHAPCIDMW 66 (113)
Q Consensus 48 ~~~l~~C~H~fh~~Ci~~w 66 (113)
.+.-+.|++.||..|...|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3444458999988777665
No 172
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=46.63 E-value=14 Score=28.79 Aligned_cols=50 Identities=20% Similarity=0.517 Sum_probs=31.2
Q ss_pred cccccccccccc-cCCeeeecCCCCCcchHHHHHHHHh----cCC----CCCCCCCCCC
Q 043177 32 DGICAVCLSEFE-EGEELRTLPECLHSYHAPCIDMWLY----SHS----NCPICRSDAT 81 (113)
Q Consensus 32 ~~~C~IC~~~~~-~~~~~~~l~~C~H~fh~~Ci~~wl~----~~~----~CP~Cr~~~~ 81 (113)
+..|.+|+.... ....+.....|+-.||..|...... ... -|-+|.....
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~ 226 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPK 226 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchh
Confidence 445999996543 3333444446888999999875541 111 3888866543
No 173
>PLN02436 cellulose synthase A
Probab=45.48 E-value=27 Score=30.13 Aligned_cols=51 Identities=25% Similarity=0.617 Sum_probs=33.8
Q ss_pred ccccccccccccc---cCCeeeecCCCCCcchHHHHHHHH-hcCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFE---EGEELRTLPECLHSYHAPCIDMWL-YSHSNCPICRSDAT 81 (113)
Q Consensus 31 ~~~~C~IC~~~~~---~~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~ 81 (113)
....|.||-+++. +|+..+-...|+--.|+.|.+-=. ..++.||.|+....
T Consensus 35 ~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 35 SGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred CCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3448999999874 344333333466668999985322 35567999988775
No 174
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.26 E-value=17 Score=29.54 Aligned_cols=44 Identities=25% Similarity=0.598 Sum_probs=30.9
Q ss_pred cccccccccccCCeeeecCCCCC-cchHHHHHHHH--hc----CCCCCCCCCCCC
Q 043177 34 ICAVCLSEFEEGEELRTLPECLH-SYHAPCIDMWL--YS----HSNCPICRSDAT 81 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H-~fh~~Ci~~wl--~~----~~~CP~Cr~~~~ 81 (113)
.|+||-....- + ....||| ..+..|..+.. .. ...||+||..+.
T Consensus 2 ~c~ic~~s~~~---~-~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~ 52 (669)
T KOG2231|consen 2 SCAICAFSPDF---V-GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVE 52 (669)
T ss_pred CcceeecCccc---c-ccccccccccchhhhhhhhhhcccccccccCccccccee
Confidence 58999887653 2 3335999 89999988765 23 234799998664
No 175
>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=44.93 E-value=35 Score=21.40 Aligned_cols=31 Identities=23% Similarity=0.371 Sum_probs=19.6
Q ss_pred eecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCCCC
Q 043177 49 RTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPSPQ 85 (113)
Q Consensus 49 ~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 85 (113)
...|.|++.. ..+.+...|+.|+.++...+.
T Consensus 70 V~CP~C~K~T------KmLGr~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 70 VECPNCGKQT------KMLGRVDACMHCKEPLTLDPS 100 (114)
T ss_pred eECCCCCChH------hhhchhhccCcCCCcCccCch
Confidence 3455677732 334555679999998865543
No 176
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=44.74 E-value=29 Score=29.93 Aligned_cols=51 Identities=20% Similarity=0.569 Sum_probs=33.1
Q ss_pred cccccccccccccc---CCeeeecCCCCCcchHHHHHH-HHhcCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEE---GEELRTLPECLHSYHAPCIDM-WLYSHSNCPICRSDAT 81 (113)
Q Consensus 31 ~~~~C~IC~~~~~~---~~~~~~l~~C~H~fh~~Ci~~-wl~~~~~CP~Cr~~~~ 81 (113)
....|.||=+++.. |+..+-...|+-=.|+.|.+- .-..++.||.|+....
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 34489999998753 333332234555589999842 2245667999988775
No 177
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=43.71 E-value=10 Score=31.10 Aligned_cols=49 Identities=16% Similarity=0.392 Sum_probs=28.8
Q ss_pred cccccccccccccCCe--eeecC----CCCCcchHHHHHHHH----------hcCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEE--LRTLP----ECLHSYHAPCIDMWL----------YSHSNCPICRSDA 80 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~--~~~l~----~C~H~fh~~Ci~~wl----------~~~~~CP~Cr~~~ 80 (113)
..+|-||.|.-..... =..|. .|...||..|....- ..-+.|-.|..-+
T Consensus 117 nKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~Hf 181 (900)
T KOG0956|consen 117 NKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHF 181 (900)
T ss_pred cceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccccccccceechhHHHHH
Confidence 4489999997543211 11121 366779999986532 1123488886644
No 178
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.87 E-value=18 Score=21.81 Aligned_cols=11 Identities=18% Similarity=0.827 Sum_probs=10.0
Q ss_pred chHHHHHHHHh
Q 043177 58 YHAPCIDMWLY 68 (113)
Q Consensus 58 fh~~Ci~~wl~ 68 (113)
||+.|+..|..
T Consensus 43 FCRNCLs~Wy~ 53 (104)
T COG3492 43 FCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHH
Confidence 99999999984
No 179
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=40.34 E-value=27 Score=19.28 Aligned_cols=13 Identities=23% Similarity=0.738 Sum_probs=6.1
Q ss_pred ccccccccccccc
Q 043177 32 DGICAVCLSEFEE 44 (113)
Q Consensus 32 ~~~C~IC~~~~~~ 44 (113)
...|++|...+..
T Consensus 39 ~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 39 EPVCPLCKSPMVS 51 (59)
T ss_pred CccCCCcCCcccc
Confidence 3445555554443
No 180
>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=39.62 E-value=31 Score=24.27 Aligned_cols=27 Identities=15% Similarity=0.449 Sum_probs=17.5
Q ss_pred chHHHHHHHHhcCCCCCCCCCCCCCCC
Q 043177 58 YHAPCIDMWLYSHSNCPICRSDATPSP 84 (113)
Q Consensus 58 fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 84 (113)
-|..|...-=...+.||+|++.-.+..
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrn 222 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRN 222 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCC
Confidence 345565544356778999988765544
No 181
>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=38.95 E-value=9.2 Score=25.11 Aligned_cols=12 Identities=33% Similarity=1.007 Sum_probs=8.4
Q ss_pred CCCCCCCCCCCC
Q 043177 72 NCPICRSDATPS 83 (113)
Q Consensus 72 ~CP~Cr~~~~~~ 83 (113)
+||+|...-..+
T Consensus 34 ~CP~Cgs~~V~K 45 (148)
T PF06676_consen 34 SCPVCGSTEVSK 45 (148)
T ss_pred cCCCCCCCeEee
Confidence 699997755443
No 182
>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=38.00 E-value=4.6 Score=20.44 Aligned_cols=25 Identities=28% Similarity=0.405 Sum_probs=13.1
Q ss_pred CCCCcchHHHHHHHHhcCCCCCCCCC
Q 043177 53 ECLHSYHAPCIDMWLYSHSNCPICRS 78 (113)
Q Consensus 53 ~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 78 (113)
.|||.|-..--..- .....||.|..
T Consensus 10 ~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 47777653211100 12345999987
No 183
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=37.62 E-value=18 Score=25.77 Aligned_cols=41 Identities=20% Similarity=0.287 Sum_probs=28.3
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCC--CCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSN--CPI 75 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~--CP~ 75 (113)
+..|+|-+.....+ +... +|+|.|-.+-|...++...+ ||.
T Consensus 189 ~nrCpitl~p~~~p--ils~-kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP--ILSS-KCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH--HHHh-hhcccccHHHHHHHhcCCceeecch
Confidence 55799966654432 2222 59999999999999886655 553
No 184
>PF15353 HECA: Headcase protein family homologue
Probab=37.38 E-value=27 Score=21.64 Aligned_cols=14 Identities=21% Similarity=0.572 Sum_probs=11.9
Q ss_pred CCCcchHHHHHHHH
Q 043177 54 CLHSYHAPCIDMWL 67 (113)
Q Consensus 54 C~H~fh~~Ci~~wl 67 (113)
.++..|.+|+..|=
T Consensus 40 ~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 40 FGQYMHRECFEKWE 53 (107)
T ss_pred CCCchHHHHHHHHH
Confidence 46889999999884
No 185
>PLN02400 cellulose synthase
Probab=37.31 E-value=32 Score=29.71 Aligned_cols=51 Identities=22% Similarity=0.563 Sum_probs=32.8
Q ss_pred cccccccccccccc---CCeeeecCCCCCcchHHHHHH-HHhcCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEE---GEELRTLPECLHSYHAPCIDM-WLYSHSNCPICRSDAT 81 (113)
Q Consensus 31 ~~~~C~IC~~~~~~---~~~~~~l~~C~H~fh~~Ci~~-wl~~~~~CP~Cr~~~~ 81 (113)
....|.||=+++.. |+..+-...|+-=.|+.|.+- .-..++.||.|+....
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 34489999998753 333332223555589999842 1235567999988775
No 186
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=37.27 E-value=39 Score=20.74 Aligned_cols=32 Identities=19% Similarity=0.280 Sum_probs=24.5
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHHHH
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL 67 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 67 (113)
.|.||-.++-.|+...-+. +-..|..|+..-.
T Consensus 4 kC~iCg~~I~~gqlFTF~~--kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTK--KGPVHYECFREKA 35 (101)
T ss_pred EEEecCCeeeecceEEEec--CCcEeHHHHHHHH
Confidence 6999999998877665554 3568999997754
No 187
>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=36.69 E-value=18 Score=28.21 Aligned_cols=14 Identities=29% Similarity=0.522 Sum_probs=9.7
Q ss_pred cccccccccccccC
Q 043177 32 DGICAVCLSEFEEG 45 (113)
Q Consensus 32 ~~~C~IC~~~~~~~ 45 (113)
-..|+-|++.+...
T Consensus 26 ~~yCp~CL~~~p~~ 39 (483)
T PF05502_consen 26 SYYCPNCLFEVPSS 39 (483)
T ss_pred eeECccccccCChh
Confidence 44688888877653
No 188
>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=35.53 E-value=31 Score=20.73 Aligned_cols=39 Identities=15% Similarity=0.478 Sum_probs=28.0
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDATPS 83 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 83 (113)
...|-||-..+.. =||.||..|.. ..+.|.+|-..+.+.
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CAY----kkGiCamCGKki~dt 82 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCAY----KKGICAMCGKKILDT 82 (90)
T ss_pred Ccccccccccccc---------CCCccChhhhc----ccCcccccCCeeccc
Confidence 4578888876432 47789999964 577899998877443
No 189
>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=34.82 E-value=53 Score=17.95 Aligned_cols=33 Identities=15% Similarity=0.268 Sum_probs=19.8
Q ss_pred ccccccccccccc--CCeeeecCCCCCcchHHHHH
Q 043177 32 DGICAVCLSEFEE--GEELRTLPECLHSYHAPCID 64 (113)
Q Consensus 32 ~~~C~IC~~~~~~--~~~~~~l~~C~H~fh~~Ci~ 64 (113)
...|+.|-..... .......+.||+.++++-..
T Consensus 28 Sq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~na 62 (69)
T PF07282_consen 28 SQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNA 62 (69)
T ss_pred ccCccCcccccccccccceEEcCCCCCEECcHHHH
Confidence 3468888776655 33344445577777766543
No 190
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=34.79 E-value=18 Score=29.85 Aligned_cols=31 Identities=23% Similarity=0.817 Sum_probs=21.7
Q ss_pred cCCCCCcchHHHHHHHHhcCCCCCCCCCCCC
Q 043177 51 LPECLHSYHAPCIDMWLYSHSNCPICRSDAT 81 (113)
Q Consensus 51 l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~ 81 (113)
.|.|.-.||.+=++-...+++.||.||....
T Consensus 1047 Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1047 CPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred CchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 3456667776656555567889999987653
No 191
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=34.53 E-value=47 Score=23.59 Aligned_cols=27 Identities=15% Similarity=0.447 Sum_probs=17.5
Q ss_pred chHHHHHHHHhcCCCCCCCCCCCCCCC
Q 043177 58 YHAPCIDMWLYSHSNCPICRSDATPSP 84 (113)
Q Consensus 58 fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 84 (113)
.|..|..+--...+.||+|+....+..
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSrN 277 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSRN 277 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccCC
Confidence 445565554456778999987665443
No 192
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=33.52 E-value=76 Score=27.44 Aligned_cols=51 Identities=22% Similarity=0.471 Sum_probs=33.5
Q ss_pred cccccccccccccc---CCeeeecCCCCCcchHHHHHHHH-hcCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEE---GEELRTLPECLHSYHAPCIDMWL-YSHSNCPICRSDAT 81 (113)
Q Consensus 31 ~~~~C~IC~~~~~~---~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~ 81 (113)
....|.||=++... |+..+-...|+--.|+.|.+-=. ..+..||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 45589999998753 33333223466569999984322 45567999988775
No 193
>KOG1140 consensus N-end rule pathway, recognition component UBR1 [Posttranslational modification, protein turnover, chaperones]
Probab=33.50 E-value=37 Score=30.78 Aligned_cols=15 Identities=27% Similarity=0.676 Sum_probs=13.5
Q ss_pred CCCcchHHHHHHHHh
Q 043177 54 CLHSYHAPCIDMWLY 68 (113)
Q Consensus 54 C~H~fh~~Ci~~wl~ 68 (113)
|||..|..|+....+
T Consensus 1151 c~h~mh~~c~~~~~~ 1165 (1738)
T KOG1140|consen 1151 CGHHMHYGCFKRYVQ 1165 (1738)
T ss_pred cCCcchHHHHHHHHH
Confidence 999999999988773
No 194
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=33.45 E-value=33 Score=29.57 Aligned_cols=38 Identities=21% Similarity=0.485 Sum_probs=26.1
Q ss_pred CCCCcccccccccccccc-CCeeeecCCCCCcchHHHHH
Q 043177 27 PVGDEDGICAVCLSEFEE-GEELRTLPECLHSYHAPCID 64 (113)
Q Consensus 27 ~~~~~~~~C~IC~~~~~~-~~~~~~l~~C~H~fh~~Ci~ 64 (113)
...+++..|.||++.=.. ...++....|+=.+|..|..
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 445788899999995433 23344444588888888876
No 195
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=33.17 E-value=7 Score=28.48 Aligned_cols=37 Identities=27% Similarity=0.707 Sum_probs=25.6
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHHHHhcCC
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHS 71 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~ 71 (113)
+|.+|++.|..+....... |.-+||..|+..|+....
T Consensus 216 vC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred ecHHHHHHHhcccccchhh-cccccccccccccccccc
Confidence 8999999997533333333 555889999988875433
No 196
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=32.68 E-value=95 Score=23.24 Aligned_cols=65 Identities=15% Similarity=0.277 Sum_probs=36.6
Q ss_pred hhcCCccccCCCCCCCCccccccccccccccCC----------eeeecCCCCCcchHHHHHHHHhcCCCCCCCCC
Q 043177 14 QLIPAHKYHKGTGPVGDEDGICAVCLSEFEEGE----------ELRTLPECLHSYHAPCIDMWLYSHSNCPICRS 78 (113)
Q Consensus 14 ~~~~~~~~~~~~~~~~~~~~~C~IC~~~~~~~~----------~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~ 78 (113)
..+|...+............-|-.|+..|.... .-...+.|...||.+|-...-..--.|+.|..
T Consensus 344 hL~PLk~f~E~p~~~~~ks~~Cf~CQ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdvfiHe~Lh~C~gCe~ 418 (421)
T COG5151 344 HLYPLKPFVEKPEGTNPKSTHCFVCQGPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDVFIHETLHFCIGCEL 418 (421)
T ss_pred hhccCcccccccCCCCCCCccceeccCCCCCCCCCcccccccccceechhhhhhhhhhhHHHHHHHHhhCCCCcC
Confidence 444544454444444445567999999875321 11222348888999995432222334888843
No 197
>PLN02195 cellulose synthase A
Probab=32.68 E-value=74 Score=27.31 Aligned_cols=51 Identities=24% Similarity=0.444 Sum_probs=33.6
Q ss_pred cccccccccccccc---CCeeeecCCCCCcchHHHHHHHH-hcCCCCCCCCCCCC
Q 043177 31 EDGICAVCLSEFEE---GEELRTLPECLHSYHAPCIDMWL-YSHSNCPICRSDAT 81 (113)
Q Consensus 31 ~~~~C~IC~~~~~~---~~~~~~l~~C~H~fh~~Ci~~wl-~~~~~CP~Cr~~~~ 81 (113)
....|.||=+.+.. |+..+-...|+--.|+.|.+-=- ..++.||.|+....
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 34579999997653 33333333477779999984222 34557999988776
No 198
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=32.62 E-value=16 Score=26.86 Aligned_cols=47 Identities=17% Similarity=0.343 Sum_probs=28.4
Q ss_pred CccccccccccccccCCeeeec-CCC--CCcchHHHHHHHHhcCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEGEELRTL-PEC--LHSYHAPCIDMWLYSHSNCPICRS 78 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l-~~C--~H~fh~~Ci~~wl~~~~~CP~Cr~ 78 (113)
.....||+|=..-..+ +..+ ..= .+.+|..|-..|-.....||.|..
T Consensus 185 ~~~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 185 EQRQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred cCCCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 4567899998864321 1111 001 234556677788777778999965
No 199
>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=31.95 E-value=24 Score=15.85 Aligned_cols=9 Identities=33% Similarity=1.250 Sum_probs=6.6
Q ss_pred CCCCCCCCC
Q 043177 72 NCPICRSDA 80 (113)
Q Consensus 72 ~CP~Cr~~~ 80 (113)
.||+|...+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 488887665
No 200
>PRK05978 hypothetical protein; Provisional
Probab=31.05 E-value=48 Score=21.76 Aligned_cols=28 Identities=25% Similarity=0.574 Sum_probs=19.9
Q ss_pred CCCC--CcchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 043177 52 PECL--HSYHAPCIDMWLYSHSNCPICRSDATPSP 84 (113)
Q Consensus 52 ~~C~--H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 84 (113)
|.|| +.|. .+++.+..||.|...+....
T Consensus 37 P~CG~G~LF~-----g~Lkv~~~C~~CG~~~~~~~ 66 (148)
T PRK05978 37 PACGEGKLFR-----AFLKPVDHCAACGEDFTHHR 66 (148)
T ss_pred CCCCCCcccc-----cccccCCCccccCCccccCC
Confidence 4565 5665 57788889999988775443
No 201
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.83 E-value=81 Score=19.21 Aligned_cols=34 Identities=24% Similarity=0.328 Sum_probs=25.6
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHHHHH
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL 67 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 67 (113)
.-.|.||-.....|+...-.+ .-..|++|+..-.
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~ 39 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESK 39 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHH
Confidence 346999999999888765554 4458999997754
No 202
>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=30.77 E-value=38 Score=26.30 Aligned_cols=32 Identities=22% Similarity=0.469 Sum_probs=19.2
Q ss_pred ccccccccccc---CCeeeecCCCCCcchHHHHHHH
Q 043177 34 ICAVCLSEFEE---GEELRTLPECLHSYHAPCIDMW 66 (113)
Q Consensus 34 ~C~IC~~~~~~---~~~~~~l~~C~H~fh~~Ci~~w 66 (113)
.|.||.. |.. +-.......|||+-|.+|..+-
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 3667755 322 1222333459999999997653
No 203
>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=30.07 E-value=25 Score=16.20 Aligned_cols=28 Identities=25% Similarity=0.579 Sum_probs=14.9
Q ss_pred cccccccccccCCeeeecCCCCCcchHHH
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPC 62 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~C 62 (113)
.|.+|.+.+.... ...-..|.-.+|..|
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 4778877665431 222223565666555
No 204
>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=29.88 E-value=53 Score=16.16 Aligned_cols=33 Identities=24% Similarity=0.390 Sum_probs=21.7
Q ss_pred cccccccccccccCC-eeeecCCCCCcchHHHHHH
Q 043177 32 DGICAVCLSEFEEGE-ELRTLPECLHSYHAPCIDM 65 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~-~~~~l~~C~H~fh~~Ci~~ 65 (113)
...|.+|.+.+.... ...-. .|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~-~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCS-WCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCC-CCCchHHHHHHhh
Confidence 446999999876432 22222 3777889988765
No 205
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=29.59 E-value=30 Score=23.94 Aligned_cols=21 Identities=33% Similarity=0.643 Sum_probs=13.5
Q ss_pred HHHHHHHHh-cCCCCCCCCCCC
Q 043177 60 APCIDMWLY-SHSNCPICRSDA 80 (113)
Q Consensus 60 ~~Ci~~wl~-~~~~CP~Cr~~~ 80 (113)
..||.+.-. .+..||+||...
T Consensus 97 ktCIrkn~~~~gnpCPICRDey 118 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEY 118 (239)
T ss_pred hHHHhhcCeecCCCCCccccce
Confidence 457766433 344599999864
No 206
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=29.43 E-value=29 Score=21.48 Aligned_cols=12 Identities=33% Similarity=0.974 Sum_probs=9.4
Q ss_pred CCCCCCCCCCCC
Q 043177 72 NCPICRSDATPS 83 (113)
Q Consensus 72 ~CP~Cr~~~~~~ 83 (113)
+||.|...+...
T Consensus 28 vCP~CG~~~~~~ 39 (108)
T PF09538_consen 28 VCPKCGTEFPPE 39 (108)
T ss_pred cCCCCCCccCcc
Confidence 499998877665
No 207
>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=28.72 E-value=37 Score=17.64 Aligned_cols=29 Identities=24% Similarity=0.370 Sum_probs=19.9
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHHHH
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWL 67 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl 67 (113)
.|.||-..-..|..+ .|..+|..|-...+
T Consensus 1 ~CiiC~~~~~~GI~I-----~~~fIC~~CE~~iv 29 (46)
T PF10764_consen 1 KCIICGKEKEEGIHI-----YGKFICSDCEKEIV 29 (46)
T ss_pred CeEeCCCcCCCCEEE-----ECeEehHHHHHHhc
Confidence 388888887665333 67778888866544
No 208
>PRK01343 zinc-binding protein; Provisional
Probab=28.55 E-value=38 Score=18.54 Aligned_cols=12 Identities=33% Similarity=0.791 Sum_probs=9.1
Q ss_pred CCCCCCCCCCCC
Q 043177 70 HSNCPICRSDAT 81 (113)
Q Consensus 70 ~~~CP~Cr~~~~ 81 (113)
...||+|+.++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 446999988764
No 209
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=27.98 E-value=28 Score=27.85 Aligned_cols=36 Identities=19% Similarity=0.373 Sum_probs=23.4
Q ss_pred CccccccccccccccC------Ce----eeecCCCCCcchHHHHHHH
Q 043177 30 DEDGICAVCLSEFEEG------EE----LRTLPECLHSYHAPCIDMW 66 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~------~~----~~~l~~C~H~fh~~Ci~~w 66 (113)
+....|+||.|.|..- .+ .+.+. =|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeec-cCceeeccccchH
Confidence 4566899999999631 11 11221 4789999998653
No 210
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=27.85 E-value=21 Score=23.46 Aligned_cols=28 Identities=21% Similarity=0.533 Sum_probs=15.9
Q ss_pred chHHHHHHHHhcCC----CCCCCCCCCCCCCC
Q 043177 58 YHAPCIDMWLYSHS----NCPICRSDATPSPQ 85 (113)
Q Consensus 58 fh~~Ci~~wl~~~~----~CP~Cr~~~~~~~~ 85 (113)
||..|+..=|..-+ .||.|...-.....
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~~ 33 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKSGQSA 33 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCCCCcc
Confidence 56666655443222 49999876544433
No 211
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=26.35 E-value=49 Score=18.18 Aligned_cols=14 Identities=36% Similarity=1.113 Sum_probs=10.7
Q ss_pred CCCCCCCCCCCCCC
Q 043177 70 HSNCPICRSDATPS 83 (113)
Q Consensus 70 ~~~CP~Cr~~~~~~ 83 (113)
++.||+|..+++..
T Consensus 3 HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 3 HKHCPVCGKPIPPD 16 (59)
T ss_pred CCcCCcCCCcCCcc
Confidence 45699998888654
No 212
>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=26.32 E-value=18 Score=26.63 Aligned_cols=49 Identities=20% Similarity=0.422 Sum_probs=28.0
Q ss_pred CccccccccccccccCCeeeec-CCC--CCcchHHHHHHHHhcCCCCCCCCCC
Q 043177 30 DEDGICAVCLSEFEEGEELRTL-PEC--LHSYHAPCIDMWLYSHSNCPICRSD 79 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~~~~~~~l-~~C--~H~fh~~Ci~~wl~~~~~CP~Cr~~ 79 (113)
.....||+|=..-..+. +... ..= .+.+|..|-..|-.....||.|...
T Consensus 182 ~~~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 182 ESRTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 34558999988642211 1000 001 1345556777787777789999653
No 213
>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=24.81 E-value=49 Score=21.96 Aligned_cols=26 Identities=15% Similarity=0.461 Sum_probs=18.2
Q ss_pred CCcchHHHHHHHHhcCCCCCCCCCCCCCC
Q 043177 55 LHSYHAPCIDMWLYSHSNCPICRSDATPS 83 (113)
Q Consensus 55 ~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 83 (113)
.+-||..|...-+ ..||.|..++...
T Consensus 27 ~~~fC~kCG~~tI---~~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 27 REKFCSKCGAKTI---TSCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHHhhHHHH---HHCcCCCCCCCCc
Confidence 3568888877643 2599998887543
No 214
>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=24.66 E-value=46 Score=20.71 Aligned_cols=11 Identities=36% Similarity=0.764 Sum_probs=7.3
Q ss_pred ccccccccccc
Q 043177 33 GICAVCLSEFE 43 (113)
Q Consensus 33 ~~C~IC~~~~~ 43 (113)
..||-|...|.
T Consensus 3 p~CP~C~seyt 13 (109)
T TIGR00686 3 PPCPKCNSEYT 13 (109)
T ss_pred CcCCcCCCcce
Confidence 35777777664
No 215
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=24.63 E-value=13 Score=26.68 Aligned_cols=28 Identities=21% Similarity=0.663 Sum_probs=18.4
Q ss_pred CCC-CcchHHHHHHHHhcC--CCCCCCCCCC
Q 043177 53 ECL-HSYHAPCIDMWLYSH--SNCPICRSDA 80 (113)
Q Consensus 53 ~C~-H~fh~~Ci~~wl~~~--~~CP~Cr~~~ 80 (113)
.|. -+||..|+.--..-. =.||.|+...
T Consensus 239 ~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 239 GCPIEWFHFTCVGLKTKPKGKWYCPRCKAEN 269 (274)
T ss_pred CCCcceEEEeccccccCCCCcccchhhhhhh
Confidence 377 789999986432112 2499997754
No 216
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=24.39 E-value=39 Score=21.76 Aligned_cols=21 Identities=29% Similarity=0.778 Sum_probs=15.3
Q ss_pred CCCCCcchHHHHHHHHhcCCCCCCCCCCC
Q 043177 52 PECLHSYHAPCIDMWLYSHSNCPICRSDA 80 (113)
Q Consensus 52 ~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 80 (113)
+.|||+|+- -+..||.|.+..
T Consensus 33 ~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 33 KKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred CCCCeEEcC--------CcccCCCCCCCC
Confidence 359998873 445699998874
No 217
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=24.21 E-value=84 Score=23.51 Aligned_cols=43 Identities=2% Similarity=-0.192 Sum_probs=27.9
Q ss_pred cccccccccccccCCeeeecCCCCCc-chHHHHHHHHhcCCCCCCCCCCC
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHS-YHAPCIDMWLYSHSNCPICRSDA 80 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~-fh~~Ci~~wl~~~~~CP~Cr~~~ 80 (113)
...|..|-+.+-. ....+ |+|. |+..|.. +....+||+|....
T Consensus 343 ~~~~~~~~~~~~s---t~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 343 SLKGTSAGFGLLS---TIWSG-GNMNLSPGSLAS--ASASPTSSTCDHND 386 (394)
T ss_pred hcccccccCceee---eEeec-CCcccChhhhhh--cccCCccccccccc
Confidence 3456666665433 23344 9985 8888876 46777899996644
No 218
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=23.87 E-value=32 Score=25.29 Aligned_cols=32 Identities=28% Similarity=0.547 Sum_probs=21.6
Q ss_pred cccccccccccccCCeeeecCCCCCcchHHHHH
Q 043177 32 DGICAVCLSEFEEGEELRTLPECLHSYHAPCID 64 (113)
Q Consensus 32 ~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~ 64 (113)
-..|.||...-...+.++.-- |..-||-.|+.
T Consensus 314 C~lC~IC~~P~~E~E~~FCD~-CDRG~HT~CVG 345 (381)
T KOG1512|consen 314 CELCRICLGPVIESEHLFCDV-CDRGPHTLCVG 345 (381)
T ss_pred cHhhhccCCcccchheecccc-ccCCCCccccc
Confidence 346888988877655555443 77777777764
No 219
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=23.68 E-value=86 Score=23.82 Aligned_cols=15 Identities=27% Similarity=0.612 Sum_probs=11.3
Q ss_pred Ccccccccccccccc
Q 043177 30 DEDGICAVCLSEFEE 44 (113)
Q Consensus 30 ~~~~~C~IC~~~~~~ 44 (113)
+.+..|++|-+..+.
T Consensus 13 dl~ElCPVCGDkVSG 27 (475)
T KOG4218|consen 13 DLGELCPVCGDKVSG 27 (475)
T ss_pred ccccccccccCcccc
Confidence 456689999998753
No 220
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=23.62 E-value=40 Score=18.65 Aligned_cols=10 Identities=30% Similarity=1.152 Sum_probs=8.1
Q ss_pred CCCCCCCCCC
Q 043177 72 NCPICRSDAT 81 (113)
Q Consensus 72 ~CP~Cr~~~~ 81 (113)
.||+|+.++.
T Consensus 10 aCP~~kg~L~ 19 (60)
T COG2835 10 ACPVCKGPLV 19 (60)
T ss_pred eccCcCCcce
Confidence 4999999864
No 221
>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=23.41 E-value=52 Score=16.86 Aligned_cols=34 Identities=21% Similarity=0.332 Sum_probs=20.7
Q ss_pred cccccccccccc--ccCCeeeecCCCCCcchHHHHHH
Q 043177 31 EDGICAVCLSEF--EEGEELRTLPECLHSYHAPCIDM 65 (113)
Q Consensus 31 ~~~~C~IC~~~~--~~~~~~~~l~~C~H~fh~~Ci~~ 65 (113)
....|.+|.+.+ .......-. .|+-.+|..|+..
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~-~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCS-WCGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEET-TTT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEEC-CCCChHhhhhhhh
Confidence 345799999987 222334334 4898999988753
No 222
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=23.25 E-value=32 Score=30.57 Aligned_cols=49 Identities=31% Similarity=0.644 Sum_probs=34.4
Q ss_pred ccccccccccccccCCeeeecCCCCCcchHHHHHHHHhcCC----CCCCCCCCC
Q 043177 31 EDGICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHS----NCPICRSDA 80 (113)
Q Consensus 31 ~~~~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~----~CP~Cr~~~ 80 (113)
....|.+|.....+...+... .|.-.||..|+..-+.... .||-|+..-
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 355799999987663333222 4778899999988774433 599998765
No 223
>PRK04023 DNA polymerase II large subunit; Validated
Probab=22.77 E-value=73 Score=27.59 Aligned_cols=54 Identities=24% Similarity=0.300 Sum_probs=34.0
Q ss_pred CCCCCCccccccccccccccCCeeeecCCCCC-----cchHHHHHHHHhcCCCCCCCCCCCCCCC
Q 043177 25 TGPVGDEDGICAVCLSEFEEGEELRTLPECLH-----SYHAPCIDMWLYSHSNCPICRSDATPSP 84 (113)
Q Consensus 25 ~~~~~~~~~~C~IC~~~~~~~~~~~~l~~C~H-----~fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 84 (113)
...+......|+-|=.... ....|.||. .||..|-.. .....||.|........
T Consensus 619 ~~eVEVg~RfCpsCG~~t~----~frCP~CG~~Te~i~fCP~CG~~--~~~y~CPKCG~El~~~s 677 (1121)
T PRK04023 619 TIEVEIGRRKCPSCGKETF----YRRCPFCGTHTEPVYRCPRCGIE--VEEDECEKCGREPTPYS 677 (1121)
T ss_pred ceeecccCccCCCCCCcCC----cccCCCCCCCCCcceeCccccCc--CCCCcCCCCCCCCCccc
Confidence 3344556778888877642 245556873 588888432 34456999988775443
No 224
>PRK11595 DNA utilization protein GntX; Provisional
Probab=22.60 E-value=81 Score=21.80 Aligned_cols=38 Identities=18% Similarity=0.386 Sum_probs=20.3
Q ss_pred cccccccccccCCeeeecCCCCCcchHHHHHHHHhcCCCCCCCCCCC
Q 043177 34 ICAVCLSEFEEGEELRTLPECLHSYHAPCIDMWLYSHSNCPICRSDA 80 (113)
Q Consensus 34 ~C~IC~~~~~~~~~~~~l~~C~H~fh~~Ci~~wl~~~~~CP~Cr~~~ 80 (113)
.|.+|-..+... ...+|..|...+-.....||.|..+.
T Consensus 7 ~C~~C~~~~~~~---------~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPLALS---------HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCccCCC---------CCcccHHHHhhCCcccCcCccCCCcC
Confidence 588887665321 11245566655432234688886553
No 225
>PRK10220 hypothetical protein; Provisional
Probab=22.53 E-value=69 Score=19.99 Aligned_cols=10 Identities=40% Similarity=0.906 Sum_probs=6.5
Q ss_pred cccccccccc
Q 043177 34 ICAVCLSEFE 43 (113)
Q Consensus 34 ~C~IC~~~~~ 43 (113)
.||-|...|.
T Consensus 5 ~CP~C~seyt 14 (111)
T PRK10220 5 HCPKCNSEYT 14 (111)
T ss_pred cCCCCCCcce
Confidence 4777776654
No 226
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=22.52 E-value=49 Score=18.44 Aligned_cols=11 Identities=36% Similarity=0.945 Sum_probs=8.5
Q ss_pred CCCCCCCCCCC
Q 043177 71 SNCPICRSDAT 81 (113)
Q Consensus 71 ~~CP~Cr~~~~ 81 (113)
..||+|+..+.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 35999998763
No 227
>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=22.52 E-value=24 Score=16.18 Aligned_cols=10 Identities=40% Similarity=1.155 Sum_probs=5.0
Q ss_pred CCCCCCCCCC
Q 043177 72 NCPICRSDAT 81 (113)
Q Consensus 72 ~CP~Cr~~~~ 81 (113)
.||.|...+.
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 3899977764
No 228
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=22.37 E-value=56 Score=18.08 Aligned_cols=12 Identities=33% Similarity=1.018 Sum_probs=8.3
Q ss_pred CCCCCCCCCCCC
Q 043177 70 HSNCPICRSDAT 81 (113)
Q Consensus 70 ~~~CP~Cr~~~~ 81 (113)
+..||+|+..+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 346888887763
No 229
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=21.86 E-value=44 Score=15.72 Aligned_cols=24 Identities=42% Similarity=0.755 Sum_probs=7.2
Q ss_pred ccccccccccc-CCeeeecCCCCCc
Q 043177 34 ICAVCLSEFEE-GEELRTLPECLHS 57 (113)
Q Consensus 34 ~C~IC~~~~~~-~~~~~~l~~C~H~ 57 (113)
.|+.|...+.- +..+.+-+.|+|.
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp~C~~e 28 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCPECGHE 28 (30)
T ss_dssp --TTT-----EE-SSSEEETTTTEE
T ss_pred CCCCCCCcceeccCCEEeCCccccc
Confidence 46777665432 1123333446553
No 230
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=21.70 E-value=66 Score=17.78 Aligned_cols=16 Identities=31% Similarity=0.827 Sum_probs=11.8
Q ss_pred CCCCCCCCCCCCCCCC
Q 043177 70 HSNCPICRSDATPSPQ 85 (113)
Q Consensus 70 ~~~CP~Cr~~~~~~~~ 85 (113)
++.|++|...++....
T Consensus 8 H~HC~VCg~aIp~de~ 23 (64)
T COG4068 8 HRHCVVCGKAIPPDEQ 23 (64)
T ss_pred CccccccCCcCCCccc
Confidence 3459999998876554
No 231
>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=21.24 E-value=23 Score=19.09 Aligned_cols=9 Identities=44% Similarity=1.165 Sum_probs=3.9
Q ss_pred CCCCCCCCC
Q 043177 72 NCPICRSDA 80 (113)
Q Consensus 72 ~CP~Cr~~~ 80 (113)
+||+|.+.+
T Consensus 26 tCP~C~a~~ 34 (54)
T PF09237_consen 26 TCPICGAVI 34 (54)
T ss_dssp E-TTT--EE
T ss_pred CCCcchhhc
Confidence 478876654
No 232
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=21.01 E-value=74 Score=20.40 Aligned_cols=20 Identities=30% Similarity=0.803 Sum_probs=14.2
Q ss_pred CCCcchHHHHHHHHhcCCCCCCCCCCCCC
Q 043177 54 CLHSYHAPCIDMWLYSHSNCPICRSDATP 82 (113)
Q Consensus 54 C~H~fh~~Ci~~wl~~~~~CP~Cr~~~~~ 82 (113)
|++.|| +.+.||.|+.-+.+
T Consensus 103 C~~~Y~---------GeK~C~~C~tGiYS 122 (128)
T PF11682_consen 103 CGNHYH---------GEKYCPKCGTGIYS 122 (128)
T ss_pred CCCccC---------cCEecCCCCCcccc
Confidence 777665 45679999876654
No 233
>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=20.77 E-value=64 Score=16.50 Aligned_cols=11 Identities=27% Similarity=0.806 Sum_probs=7.8
Q ss_pred CCCCCCCCCCC
Q 043177 70 HSNCPICRSDA 80 (113)
Q Consensus 70 ~~~CP~Cr~~~ 80 (113)
.+.||+|..++
T Consensus 8 ~K~C~~C~rpf 18 (42)
T PF10013_consen 8 SKICPVCGRPF 18 (42)
T ss_pred CCcCcccCCcc
Confidence 45688887766
No 234
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.75 E-value=57 Score=21.10 Aligned_cols=12 Identities=25% Similarity=0.443 Sum_probs=8.7
Q ss_pred eeecCCCCCcchH
Q 043177 48 LRTLPECLHSYHA 60 (113)
Q Consensus 48 ~~~l~~C~H~fh~ 60 (113)
+.... |||.|+.
T Consensus 70 v~rce-cghsf~d 81 (165)
T COG4647 70 VIRCE-CGHSFGD 81 (165)
T ss_pred EEEEe-ccccccC
Confidence 55554 9999974
No 235
>KOG3896 consensus Dynactin, subunit p62 [Cell motility]
Probab=20.51 E-value=43 Score=25.28 Aligned_cols=14 Identities=21% Similarity=0.520 Sum_probs=8.6
Q ss_pred cccccccccccccC
Q 043177 32 DGICAVCLSEFEEG 45 (113)
Q Consensus 32 ~~~C~IC~~~~~~~ 45 (113)
.-.|+-|+|.+...
T Consensus 45 shfCp~CLEn~ps~ 58 (449)
T KOG3896|consen 45 SHFCPRCLENSPSP 58 (449)
T ss_pred cccchhhccCCCch
Confidence 34577777776543
No 236
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=20.28 E-value=96 Score=19.95 Aligned_cols=12 Identities=25% Similarity=0.722 Sum_probs=9.2
Q ss_pred CCCCCCCCCCCC
Q 043177 71 SNCPICRSDATP 82 (113)
Q Consensus 71 ~~CP~Cr~~~~~ 82 (113)
..||.|...+..
T Consensus 124 f~Cp~Cg~~l~~ 135 (147)
T smart00531 124 FTCPRCGEELEE 135 (147)
T ss_pred EECCCCCCEEEE
Confidence 569999887754
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=20.10 E-value=67 Score=15.95 Aligned_cols=33 Identities=27% Similarity=0.442 Sum_probs=20.5
Q ss_pred cccccccccccccC--CeeeecCCCCCcchHHHHHH
Q 043177 32 DGICAVCLSEFEEG--EELRTLPECLHSYHAPCIDM 65 (113)
Q Consensus 32 ~~~C~IC~~~~~~~--~~~~~l~~C~H~fh~~Ci~~ 65 (113)
...|.+|.+.+... ....-. .|+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~-~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCS-WCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcC-CCCCchhhhhhcc
Confidence 44699998877642 222222 3777888888653
No 238
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=20.06 E-value=6.6 Score=21.00 Aligned_cols=34 Identities=24% Similarity=0.535 Sum_probs=15.5
Q ss_pred ccccc--cccccccCC--ee--eecCCCCCcchHHHHHHH
Q 043177 33 GICAV--CLSEFEEGE--EL--RTLPECLHSYHAPCIDMW 66 (113)
Q Consensus 33 ~~C~I--C~~~~~~~~--~~--~~l~~C~H~fh~~Ci~~w 66 (113)
..|+- |-..+.... .. ..-+.|++.||..|...|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 36766 776654322 11 333458888876665444
No 239
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=20.05 E-value=63 Score=21.82 Aligned_cols=29 Identities=28% Similarity=0.684 Sum_probs=16.2
Q ss_pred ccccc---cccccCCeeeecCCCCCcchHHHHH
Q 043177 35 CAVCL---SEFEEGEELRTLPECLHSYHAPCID 64 (113)
Q Consensus 35 C~IC~---~~~~~~~~~~~l~~C~H~fh~~Ci~ 64 (113)
|-.|. ++...|..+.-.. |.-.||+.||.
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQG-Cs~sYHk~CLG 33 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQG-CSSSYHKACLG 33 (175)
T ss_pred cccccCCCCCccCCCeEEcCc-cChHHHhhhcC
Confidence 55553 3333344444443 77778888874
Done!