Query 048466
Match_columns 128
No_of_seqs 146 out of 1377
Neff 8.7
Searched_HMMs 46136
Date Fri Mar 29 09:46:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048466.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048466hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 2E-16 4.3E-21 86.1 2.7 44 51-95 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.6 3.4E-16 7.4E-21 117.3 4.5 53 51-103 230-282 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.4 1.9E-13 4.1E-18 82.0 4.3 47 48-95 17-73 (73)
4 KOG0317 Predicted E3 ubiquitin 99.4 3.5E-13 7.5E-18 98.1 5.4 55 44-102 233-287 (293)
5 COG5540 RING-finger-containing 99.4 3.2E-13 6.9E-18 98.9 3.6 55 46-100 319-373 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.4 8.5E-13 1.8E-17 99.1 4.8 55 47-102 284-348 (491)
7 PHA02929 N1R/p28-like protein; 99.4 8.7E-13 1.9E-17 95.0 4.7 55 47-102 171-230 (238)
8 PLN03208 E3 ubiquitin-protein 99.3 3.3E-12 7.1E-17 88.9 3.7 54 46-102 14-82 (193)
9 KOG0823 Predicted E3 ubiquitin 99.2 9.1E-12 2E-16 88.3 3.7 54 46-102 43-98 (230)
10 PF13920 zf-C3HC4_3: Zinc fing 99.2 1.2E-11 2.7E-16 68.8 3.2 47 50-100 2-49 (50)
11 PF15227 zf-C3HC4_4: zinc fing 99.2 1.9E-11 4.1E-16 65.6 3.0 39 53-94 1-42 (42)
12 KOG0320 Predicted E3 ubiquitin 99.2 1.9E-11 4.1E-16 83.5 2.7 58 44-103 125-182 (187)
13 cd00162 RING RING-finger (Real 99.1 4.7E-11 1E-15 64.0 3.5 45 52-98 1-45 (45)
14 PF12861 zf-Apc11: Anaphase-pr 99.1 4.5E-11 9.8E-16 72.8 3.7 53 49-101 20-84 (85)
15 PF13923 zf-C3HC4_2: Zinc fing 99.1 4.1E-11 8.9E-16 63.3 3.0 39 53-94 1-39 (39)
16 PHA02926 zinc finger-like prot 99.1 7E-11 1.5E-15 83.5 4.2 63 40-102 160-233 (242)
17 KOG0802 E3 ubiquitin ligase [P 99.1 7.4E-11 1.6E-15 94.4 2.8 53 48-101 289-343 (543)
18 PF00097 zf-C3HC4: Zinc finger 99.0 2E-10 4.4E-15 61.1 2.6 40 53-94 1-41 (41)
19 PF14634 zf-RING_5: zinc-RING 99.0 6.2E-10 1.3E-14 60.3 3.1 44 52-96 1-44 (44)
20 smart00184 RING Ring finger. E 98.9 9.1E-10 2E-14 57.0 3.3 39 53-94 1-39 (39)
21 smart00504 Ubox Modified RING 98.9 1.2E-09 2.7E-14 63.2 4.0 47 51-101 2-48 (63)
22 TIGR00599 rad18 DNA repair pro 98.9 6.1E-10 1.3E-14 85.6 1.5 52 46-101 22-73 (397)
23 KOG0828 Predicted E3 ubiquitin 98.8 1.8E-09 3.8E-14 83.9 2.5 96 2-100 526-635 (636)
24 KOG2164 Predicted E3 ubiquitin 98.8 4E-09 8.6E-14 82.2 2.9 50 50-102 186-239 (513)
25 COG5574 PEX10 RING-finger-cont 98.7 8.2E-09 1.8E-13 74.6 2.6 52 48-102 213-265 (271)
26 COG5194 APC11 Component of SCF 98.7 2.4E-08 5.1E-13 59.7 3.4 51 50-101 20-83 (88)
27 PF13445 zf-RING_UBOX: RING-ty 98.7 1.5E-08 3.2E-13 54.5 2.1 39 53-92 1-43 (43)
28 KOG0287 Postreplication repair 98.5 1.3E-08 2.8E-13 76.0 -0.1 50 49-102 22-71 (442)
29 KOG0804 Cytoplasmic Zn-finger 98.5 3E-08 6.5E-13 76.3 1.8 54 43-99 168-222 (493)
30 PF04564 U-box: U-box domain; 98.5 8.7E-08 1.9E-12 57.3 3.4 51 49-102 3-53 (73)
31 KOG1734 Predicted RING-contain 98.5 3.8E-08 8.2E-13 71.5 1.1 57 46-102 220-284 (328)
32 TIGR00570 cdk7 CDK-activating 98.5 1.4E-07 3E-12 70.3 3.7 53 50-102 3-57 (309)
33 KOG1493 Anaphase-promoting com 98.5 2.2E-08 4.8E-13 59.4 -0.4 53 48-100 18-82 (84)
34 COG5219 Uncharacterized conser 98.4 5.4E-08 1.2E-12 80.8 0.4 54 47-100 1466-1524(1525)
35 smart00744 RINGv The RING-vari 98.4 3E-07 6.5E-12 50.8 3.3 43 52-95 1-49 (49)
36 PF11793 FANCL_C: FANCL C-term 98.4 7.2E-08 1.6E-12 57.2 0.7 52 50-101 2-68 (70)
37 COG5432 RAD18 RING-finger-cont 98.4 1.4E-07 3.1E-12 69.3 2.3 48 49-100 24-71 (391)
38 KOG0824 Predicted E3 ubiquitin 98.4 1.8E-07 3.9E-12 68.9 2.2 54 48-104 5-58 (324)
39 KOG2177 Predicted E3 ubiquitin 98.3 2.1E-07 4.6E-12 67.8 1.6 47 46-96 9-55 (386)
40 KOG0311 Predicted E3 ubiquitin 98.3 1.1E-07 2.5E-12 71.3 -0.8 58 46-106 39-97 (381)
41 KOG4172 Predicted E3 ubiquitin 98.2 2.2E-07 4.7E-12 51.8 0.1 49 50-101 7-56 (62)
42 KOG4265 Predicted E3 ubiquitin 98.2 9.8E-07 2.1E-11 66.5 3.2 53 48-104 288-341 (349)
43 KOG2930 SCF ubiquitin ligase, 98.2 9.6E-07 2.1E-11 55.4 2.3 55 45-100 41-109 (114)
44 KOG0827 Predicted E3 ubiquitin 98.2 9.4E-07 2E-11 67.2 1.8 52 50-101 4-58 (465)
45 KOG0978 E3 ubiquitin ligase in 98.1 5.8E-07 1.2E-11 73.2 0.4 52 49-103 642-693 (698)
46 KOG4445 Uncharacterized conser 98.0 2.7E-06 5.9E-11 62.9 1.6 57 46-102 111-189 (368)
47 PF14835 zf-RING_6: zf-RING of 97.9 2.3E-06 5E-11 49.4 -0.2 48 49-101 6-53 (65)
48 KOG2660 Locus-specific chromos 97.9 2.7E-06 5.9E-11 63.5 -0.3 67 45-115 10-77 (331)
49 KOG1039 Predicted E3 ubiquitin 97.8 1.1E-05 2.3E-10 61.3 2.5 54 47-100 158-222 (344)
50 KOG0825 PHD Zn-finger protein 97.8 5.4E-06 1.2E-10 68.0 0.1 52 51-103 124-175 (1134)
51 KOG1645 RING-finger-containing 97.8 2.2E-05 4.7E-10 60.3 3.1 51 49-99 3-56 (463)
52 KOG1941 Acetylcholine receptor 97.7 1.5E-05 3.2E-10 61.1 1.6 53 45-97 360-414 (518)
53 PF11789 zf-Nse: Zinc-finger o 97.6 6.2E-05 1.3E-09 42.8 2.8 45 47-93 8-53 (57)
54 KOG4159 Predicted E3 ubiquitin 97.6 4.5E-05 9.7E-10 59.1 2.6 53 45-101 79-131 (398)
55 KOG3970 Predicted E3 ubiquitin 97.5 3.6E-05 7.8E-10 55.0 1.2 59 45-104 45-110 (299)
56 PF14570 zf-RING_4: RING/Ubox 97.5 0.0001 2.2E-09 40.3 2.4 45 53-98 1-47 (48)
57 KOG2879 Predicted E3 ubiquitin 97.4 0.00013 2.8E-09 53.5 3.2 55 45-101 234-289 (298)
58 KOG1785 Tyrosine kinase negati 97.4 7.1E-05 1.5E-09 57.6 1.7 48 51-101 370-418 (563)
59 KOG0297 TNF receptor-associate 97.4 6.8E-05 1.5E-09 58.2 1.6 54 47-104 18-72 (391)
60 KOG0826 Predicted E3 ubiquitin 97.2 0.00081 1.8E-08 50.5 4.9 54 41-98 291-345 (357)
61 COG5152 Uncharacterized conser 97.2 0.00015 3.2E-09 51.0 1.0 45 51-99 197-241 (259)
62 KOG4692 Predicted E3 ubiquitin 97.1 0.00061 1.3E-08 51.8 3.8 50 47-100 419-468 (489)
63 COG5175 MOT2 Transcriptional r 97.1 0.00041 8.9E-09 52.5 2.5 56 47-102 11-67 (480)
64 KOG1002 Nucleotide excision re 97.0 0.00049 1.1E-08 54.8 2.6 54 46-102 532-589 (791)
65 PHA02825 LAP/PHD finger-like p 97.0 0.00099 2.2E-08 45.2 3.6 53 46-102 4-62 (162)
66 KOG1814 Predicted E3 ubiquitin 96.9 0.00037 8E-09 53.8 1.1 39 48-86 182-220 (445)
67 KOG1813 Predicted E3 ubiquitin 96.9 0.00037 8E-09 51.6 0.8 47 50-100 241-287 (313)
68 KOG1952 Transcription factor N 96.8 0.00098 2.1E-08 55.5 2.8 54 44-97 185-245 (950)
69 PF12906 RINGv: RING-variant d 96.7 0.0012 2.5E-08 36.0 2.1 41 53-94 1-47 (47)
70 PF10367 Vps39_2: Vacuolar sor 96.7 0.00068 1.5E-08 42.8 1.2 35 46-81 74-108 (109)
71 KOG1571 Predicted E3 ubiquitin 96.7 0.00086 1.9E-08 50.9 1.8 53 44-103 299-351 (355)
72 KOG1428 Inhibitor of type V ad 96.6 0.0013 2.9E-08 57.9 2.7 54 47-100 3483-3545(3738)
73 PHA02862 5L protein; Provision 96.6 0.002 4.3E-08 43.1 2.7 50 50-103 2-57 (156)
74 COG5236 Uncharacterized conser 96.6 0.0022 4.7E-08 48.8 3.1 56 42-101 53-110 (493)
75 PF05883 Baculo_RING: Baculovi 96.5 0.0011 2.3E-08 44.0 1.1 39 46-84 22-66 (134)
76 COG5222 Uncharacterized conser 96.4 0.0018 3.9E-08 48.3 1.7 43 51-96 275-318 (427)
77 KOG4739 Uncharacterized protei 96.3 0.0013 2.8E-08 47.5 0.7 46 52-101 5-50 (233)
78 KOG0801 Predicted E3 ubiquitin 96.3 0.00088 1.9E-08 45.7 -0.2 32 46-77 173-204 (205)
79 KOG4185 Predicted E3 ubiquitin 96.3 0.0031 6.7E-08 47.0 2.5 48 51-98 4-54 (296)
80 PF08746 zf-RING-like: RING-li 96.2 0.0022 4.7E-08 34.3 1.1 42 53-94 1-43 (43)
81 PF14447 Prok-RING_4: Prokaryo 96.2 0.0024 5.2E-08 35.8 1.3 45 51-101 8-52 (55)
82 PF03854 zf-P11: P-11 zinc fin 96.1 0.0029 6.3E-08 34.3 1.0 34 67-101 14-48 (50)
83 KOG3039 Uncharacterized conser 96.0 0.0079 1.7E-07 43.8 3.3 53 49-102 220-273 (303)
84 PHA03096 p28-like protein; Pro 95.9 0.0042 9.1E-08 46.3 1.6 48 51-98 179-236 (284)
85 KOG3268 Predicted E3 ubiquitin 95.9 0.0062 1.4E-07 42.3 2.2 34 69-102 188-231 (234)
86 KOG3002 Zn finger protein [Gen 95.8 0.006 1.3E-07 45.8 2.0 47 46-100 44-92 (299)
87 KOG4275 Predicted E3 ubiquitin 95.7 0.0027 6E-08 47.1 0.0 42 50-99 300-342 (350)
88 PF04641 Rtf2: Rtf2 RING-finge 95.7 0.016 3.5E-07 42.6 3.9 54 47-102 110-164 (260)
89 KOG1940 Zn-finger protein [Gen 95.5 0.007 1.5E-07 44.9 1.5 46 50-96 158-204 (276)
90 KOG2817 Predicted E3 ubiquitin 95.5 0.013 2.8E-07 45.2 2.9 49 48-96 332-382 (394)
91 PF07800 DUF1644: Protein of u 95.3 0.022 4.8E-07 38.7 3.2 37 49-85 1-47 (162)
92 PF10272 Tmpp129: Putative tra 95.3 0.02 4.3E-07 44.0 3.3 56 46-101 267-353 (358)
93 PF14446 Prok-RING_1: Prokaryo 95.3 0.043 9.4E-07 30.7 3.8 34 49-82 4-38 (54)
94 PF05290 Baculo_IE-1: Baculovi 95.1 0.023 5E-07 37.6 2.8 50 49-101 79-134 (140)
95 KOG1001 Helicase-like transcri 95.0 0.0096 2.1E-07 49.3 1.1 51 51-105 455-506 (674)
96 KOG2034 Vacuolar sorting prote 94.8 0.017 3.6E-07 48.7 1.8 39 46-85 813-851 (911)
97 KOG2114 Vacuolar assembly/sort 94.7 0.025 5.4E-07 47.5 2.6 46 48-99 838-883 (933)
98 COG5220 TFB3 Cdk activating ki 94.4 0.015 3.2E-07 42.3 0.6 51 49-99 9-64 (314)
99 KOG3800 Predicted E3 ubiquitin 94.3 0.042 9.2E-07 40.8 2.8 48 52-99 2-51 (300)
100 KOG0298 DEAD box-containing he 94.1 0.011 2.4E-07 51.5 -0.5 49 48-99 1151-1199(1394)
101 KOG0827 Predicted E3 ubiquitin 93.6 0.0042 9E-08 47.8 -3.7 52 48-100 194-246 (465)
102 KOG3899 Uncharacterized conser 93.6 0.043 9.3E-07 41.0 1.7 34 71-104 325-370 (381)
103 KOG1812 Predicted E3 ubiquitin 93.3 0.13 2.9E-06 40.0 4.2 41 46-86 142-183 (384)
104 PF14569 zf-UDP: Zinc-binding 92.0 0.29 6.2E-06 29.4 3.4 55 48-102 7-65 (80)
105 KOG3053 Uncharacterized conser 90.8 0.13 2.8E-06 37.8 1.3 58 45-102 15-85 (293)
106 KOG0309 Conserved WD40 repeat- 90.7 0.15 3.3E-06 42.7 1.8 40 52-93 1030-1069(1081)
107 KOG2932 E3 ubiquitin ligase in 90.4 0.11 2.3E-06 39.2 0.7 47 50-101 90-136 (389)
108 KOG4362 Transcriptional regula 89.5 0.086 1.9E-06 43.6 -0.5 53 46-101 17-71 (684)
109 KOG4367 Predicted Zn-finger pr 87.6 0.37 8E-06 38.2 1.8 36 48-86 2-37 (699)
110 KOG3161 Predicted E3 ubiquitin 87.0 0.2 4.4E-06 41.3 0.1 42 51-96 12-54 (861)
111 KOG0802 E3 ubiquitin ligase [P 86.9 0.31 6.6E-06 39.6 1.1 53 43-103 472-524 (543)
112 KOG1609 Protein involved in mR 85.6 0.42 9E-06 35.6 1.2 53 48-100 76-135 (323)
113 KOG4718 Non-SMC (structural ma 85.6 0.45 9.7E-06 34.0 1.3 50 48-100 179-228 (235)
114 PLN02189 cellulose synthase 85.2 1.5 3.2E-05 38.3 4.3 52 48-99 32-87 (1040)
115 COG5183 SSM4 Protein involved 84.7 1 2.2E-05 38.4 3.1 56 49-105 11-72 (1175)
116 KOG1829 Uncharacterized conser 84.5 0.4 8.6E-06 39.2 0.7 25 68-96 534-558 (580)
117 COG5109 Uncharacterized conser 84.0 0.88 1.9E-05 34.6 2.3 48 48-95 334-383 (396)
118 PF02891 zf-MIZ: MIZ/SP-RING z 83.2 1 2.2E-05 24.7 1.8 43 51-96 3-49 (50)
119 PF13901 DUF4206: Domain of un 83.0 0.91 2E-05 32.2 2.0 42 48-96 150-197 (202)
120 KOG1100 Predicted E3 ubiquitin 82.8 0.68 1.5E-05 33.1 1.2 40 53-100 161-201 (207)
121 KOG0269 WD40 repeat-containing 82.7 1.3 2.8E-05 37.3 2.9 40 51-93 780-820 (839)
122 PLN02436 cellulose synthase A 82.3 2.3 4.9E-05 37.3 4.3 51 49-99 35-89 (1094)
123 KOG1815 Predicted E3 ubiquitin 79.8 1.3 2.8E-05 35.1 2.0 38 47-86 67-104 (444)
124 KOG3113 Uncharacterized conser 79.0 2.4 5.3E-05 31.2 3.0 52 49-103 110-162 (293)
125 PLN02638 cellulose synthase A 78.8 3.6 7.9E-05 36.2 4.4 51 49-99 16-70 (1079)
126 smart00249 PHD PHD zinc finger 78.0 0.82 1.8E-05 23.6 0.3 31 52-82 1-31 (47)
127 PLN02400 cellulose synthase 77.3 3.1 6.8E-05 36.5 3.6 51 49-99 35-89 (1085)
128 KOG3579 Predicted E3 ubiquitin 76.3 1.6 3.5E-05 32.7 1.5 37 49-86 267-305 (352)
129 PF07975 C1_4: TFIIH C1-like d 74.7 1.6 3.6E-05 24.1 0.9 42 53-95 2-50 (51)
130 KOG0825 PHD Zn-finger protein 74.5 1.7 3.8E-05 36.9 1.4 56 48-103 94-158 (1134)
131 PLN02195 cellulose synthase A 74.1 4.6 9.9E-05 35.2 3.8 52 49-100 5-60 (977)
132 KOG3039 Uncharacterized conser 72.7 4.2 9E-05 30.0 2.8 35 48-85 41-75 (303)
133 KOG1812 Predicted E3 ubiquitin 72.3 1.9 4.2E-05 33.6 1.1 46 48-94 304-351 (384)
134 KOG2066 Vacuolar assembly/sort 71.6 2.3 4.9E-05 36.1 1.4 39 48-86 782-824 (846)
135 PLN02915 cellulose synthase A 70.9 6.8 0.00015 34.5 4.1 51 49-99 14-68 (1044)
136 KOG3005 GIY-YIG type nuclease 70.3 2.7 5.8E-05 31.2 1.4 48 51-98 183-242 (276)
137 KOG2068 MOT2 transcription fac 70.2 5.6 0.00012 30.4 3.1 50 51-102 250-301 (327)
138 PF07191 zinc-ribbons_6: zinc- 69.9 0.32 7E-06 28.7 -2.8 41 51-100 2-42 (70)
139 PF04710 Pellino: Pellino; In 68.7 1.6 3.5E-05 34.1 0.0 50 46-98 273-338 (416)
140 PF06844 DUF1244: Protein of u 68.6 3.5 7.5E-05 24.0 1.3 12 75-86 12-23 (68)
141 PF04423 Rad50_zn_hook: Rad50 67.8 1.5 3.2E-05 24.2 -0.2 15 89-103 21-35 (54)
142 PF01363 FYVE: FYVE zinc finge 67.4 2.8 6E-05 24.1 0.8 37 47-83 6-43 (69)
143 PF06906 DUF1272: Protein of u 67.0 15 0.00033 20.6 3.7 48 50-101 5-54 (57)
144 smart00132 LIM Zinc-binding do 66.3 5.8 0.00012 19.4 1.9 36 53-98 2-37 (39)
145 TIGR00622 ssl1 transcription f 66.2 6.7 0.00015 25.3 2.5 44 51-95 56-110 (112)
146 PF00628 PHD: PHD-finger; Int 65.0 3.1 6.8E-05 22.2 0.7 44 52-95 1-49 (51)
147 PF00412 LIM: LIM domain; Int 65.0 4.3 9.3E-05 22.1 1.3 40 53-102 1-40 (58)
148 KOG3842 Adaptor protein Pellin 64.0 8.6 0.00019 29.4 3.0 58 45-102 336-417 (429)
149 KOG2807 RNA polymerase II tran 63.2 7 0.00015 30.0 2.5 47 49-96 329-375 (378)
150 KOG3799 Rab3 effector RIM1 and 62.5 2.9 6.3E-05 27.9 0.3 19 41-59 56-74 (169)
151 COG4847 Uncharacterized protei 62.4 7.7 0.00017 24.3 2.1 36 50-86 6-41 (103)
152 PF10497 zf-4CXXC_R1: Zinc-fin 59.3 12 0.00026 23.7 2.7 50 48-98 5-71 (105)
153 PF10571 UPF0547: Uncharacteri 58.9 4.8 0.0001 18.9 0.6 11 88-98 14-24 (26)
154 PF04710 Pellino: Pellino; In 55.5 3.9 8.4E-05 32.1 0.0 53 49-101 327-403 (416)
155 PF10235 Cript: Microtubule-as 54.5 9.9 0.00022 23.5 1.7 39 50-101 44-82 (90)
156 PF07649 C1_3: C1-like domain; 53.3 11 0.00023 18.0 1.4 29 52-80 2-30 (30)
157 smart00064 FYVE Protein presen 53.2 14 0.0003 21.0 2.1 38 48-85 8-46 (68)
158 cd00065 FYVE FYVE domain; Zinc 50.6 14 0.0003 20.1 1.8 34 51-84 3-37 (57)
159 PF02318 FYVE_2: FYVE-type zin 45.6 17 0.00036 23.4 1.8 47 48-96 52-102 (118)
160 PF14353 CpXC: CpXC protein 45.4 21 0.00045 23.1 2.3 49 51-102 2-52 (128)
161 PF09889 DUF2116: Uncharacteri 45.2 12 0.00026 21.3 1.0 15 88-102 3-17 (59)
162 PF13717 zinc_ribbon_4: zinc-r 45.0 12 0.00026 18.9 0.8 12 52-63 4-15 (36)
163 PF13771 zf-HC5HC2H: PHD-like 44.7 11 0.00025 22.5 0.9 38 45-82 31-68 (90)
164 PF09943 DUF2175: Uncharacteri 43.4 26 0.00056 22.2 2.3 35 51-86 3-37 (101)
165 COG3492 Uncharacterized protei 42.9 14 0.0003 23.0 1.0 13 74-86 42-54 (104)
166 PF13832 zf-HC5HC2H_2: PHD-zin 42.7 17 0.00037 22.7 1.5 32 49-82 54-87 (110)
167 PRK11088 rrmA 23S rRNA methylt 42.1 19 0.00042 26.3 1.9 25 51-75 3-27 (272)
168 KOG1815 Predicted E3 ubiquitin 41.9 7 0.00015 31.0 -0.5 38 50-87 226-268 (444)
169 PF04216 FdhE: Protein involve 41.5 3.4 7.3E-05 30.8 -2.2 44 50-99 172-222 (290)
170 COG3813 Uncharacterized protei 40.5 19 0.00041 21.4 1.3 46 52-101 7-54 (84)
171 KOG1729 FYVE finger containing 40.2 5.3 0.00011 30.1 -1.3 38 51-88 215-252 (288)
172 PRK03564 formate dehydrogenase 38.1 16 0.00035 27.8 1.0 42 49-96 186-234 (309)
173 COG4068 Uncharacterized protei 37.3 20 0.00044 20.4 1.1 17 88-104 8-24 (64)
174 PF13719 zinc_ribbon_5: zinc-r 37.0 18 0.0004 18.2 0.8 12 52-63 4-15 (37)
175 KOG4218 Nuclear hormone recept 36.5 18 0.00038 28.2 0.9 25 46-71 11-35 (475)
176 KOG0824 Predicted E3 ubiquitin 36.0 14 0.0003 28.1 0.3 50 48-100 103-152 (324)
177 PF14169 YdjO: Cold-inducible 34.1 22 0.00048 20.2 0.9 15 88-102 39-53 (59)
178 PF14311 DUF4379: Domain of un 33.8 25 0.00054 19.2 1.1 22 71-94 34-55 (55)
179 KOG2113 Predicted RNA binding 33.7 32 0.00069 26.4 1.9 44 49-98 342-386 (394)
180 PF10083 DUF2321: Uncharacteri 33.6 22 0.00048 24.3 1.0 26 72-101 27-52 (158)
181 PF09538 FYDLN_acid: Protein o 32.8 35 0.00077 21.8 1.8 17 85-101 23-39 (108)
182 PF09237 GAGA: GAGA factor; I 32.1 10 0.00023 21.0 -0.6 15 88-102 24-38 (54)
183 PF10146 zf-C4H2: Zinc finger- 32.1 31 0.00068 25.1 1.6 28 73-101 194-221 (230)
184 COG4357 Zinc finger domain con 31.8 37 0.00079 21.4 1.6 34 70-105 64-97 (105)
185 PF00130 C1_1: Phorbol esters/ 31.5 37 0.0008 18.1 1.5 34 48-81 9-44 (53)
186 KOG2231 Predicted E3 ubiquitin 30.4 48 0.001 28.0 2.6 48 52-102 2-55 (669)
187 PRK01343 zinc-binding protein; 30.4 29 0.00062 19.6 0.9 12 88-99 9-20 (57)
188 KOG3726 Uncharacterized conser 30.3 28 0.0006 29.4 1.2 41 51-95 655-696 (717)
189 COG5627 MMS21 DNA repair prote 30.3 24 0.00052 25.9 0.8 43 49-93 188-231 (275)
190 TIGR01562 FdhE formate dehydro 29.7 20 0.00044 27.2 0.3 41 50-96 184-232 (305)
191 TIGR00373 conserved hypothetic 29.0 46 0.00099 22.6 1.9 40 44-102 103-142 (158)
192 KOG2071 mRNA cleavage and poly 28.9 33 0.0007 28.4 1.4 36 48-83 511-556 (579)
193 PF03119 DNA_ligase_ZBD: NAD-d 28.6 22 0.00049 16.8 0.3 12 90-101 1-12 (28)
194 KOG1842 FYVE finger-containing 28.6 38 0.00082 27.2 1.6 41 42-82 172-213 (505)
195 KOG1245 Chromatin remodeling c 28.1 30 0.00065 31.8 1.1 56 43-98 1101-1159(1404)
196 PF04805 Pox_E10: E10-like pro 27.9 4 8.8E-05 23.8 -2.8 31 90-120 17-47 (70)
197 smart00734 ZnF_Rad18 Rad18-lik 27.7 26 0.00057 16.2 0.4 9 90-98 3-11 (26)
198 COG5242 TFB4 RNA polymerase II 27.6 33 0.00071 25.2 1.0 13 49-61 259-271 (296)
199 KOG2041 WD40 repeat protein [G 27.2 47 0.001 28.7 2.0 47 48-99 1129-1185(1189)
200 PF15616 TerY-C: TerY-C metal 27.2 38 0.00082 22.5 1.2 47 45-101 72-118 (131)
201 smart00647 IBR In Between Ring 26.9 35 0.00077 18.6 1.0 32 52-83 20-58 (64)
202 KOG2979 Protein involved in DN 26.5 35 0.00075 25.3 1.0 45 51-97 177-222 (262)
203 PF13240 zinc_ribbon_2: zinc-r 26.2 38 0.00082 15.2 0.8 7 90-96 15-21 (23)
204 KOG4451 Uncharacterized conser 25.8 51 0.0011 24.2 1.7 30 71-101 247-276 (286)
205 PF06750 DiS_P_DiS: Bacterial 25.7 56 0.0012 20.1 1.7 41 49-102 32-72 (92)
206 PF06937 EURL: EURL protein; 25.3 70 0.0015 24.0 2.4 47 47-93 27-75 (285)
207 KOG1512 PHD Zn-finger protein 24.9 30 0.00066 26.2 0.5 31 51-81 315-345 (381)
208 KOG3476 Microtubule-associated 24.3 51 0.0011 20.3 1.3 37 51-100 55-91 (100)
209 PRK00418 DNA gyrase inhibitor; 23.7 37 0.0008 19.5 0.6 12 88-99 6-17 (62)
210 PF05715 zf-piccolo: Piccolo Z 23.7 36 0.00078 19.4 0.5 12 88-99 2-13 (61)
211 PRK11595 DNA utilization prote 23.4 64 0.0014 23.0 1.9 38 51-97 6-43 (227)
212 PF00096 zf-C2H2: Zinc finger, 22.8 26 0.00057 15.0 -0.1 12 90-101 2-13 (23)
213 cd04718 BAH_plant_2 BAH, or Br 22.8 17 0.00036 24.7 -1.1 25 75-99 2-29 (148)
214 PF07227 DUF1423: Protein of u 22.7 64 0.0014 25.9 1.9 30 53-82 131-163 (446)
215 PRK06266 transcription initiat 22.6 71 0.0015 22.2 2.0 39 45-102 112-150 (178)
216 PF09723 Zn-ribbon_8: Zinc rib 22.6 19 0.00041 18.7 -0.7 25 70-96 10-34 (42)
217 PF03884 DUF329: Domain of unk 22.4 32 0.00069 19.4 0.2 11 90-100 4-14 (57)
218 PF13248 zf-ribbon_3: zinc-rib 22.1 56 0.0012 14.9 1.0 6 91-96 5-10 (26)
219 PF13913 zf-C2HC_2: zinc-finge 21.8 32 0.0007 15.7 0.1 11 90-100 4-14 (25)
220 KOG2462 C2H2-type Zn-finger pr 21.6 30 0.00065 25.9 -0.1 38 69-106 186-233 (279)
221 PF13894 zf-C2H2_4: C2H2-type 21.5 33 0.00072 14.3 0.1 12 90-101 2-13 (24)
222 COG4306 Uncharacterized protei 21.4 49 0.0011 21.9 0.9 22 74-99 29-50 (160)
223 PF09297 zf-NADH-PPase: NADH p 21.4 9 0.00019 18.6 -2.0 6 90-95 23-28 (32)
224 COG1545 Predicted nucleic-acid 21.2 63 0.0014 21.5 1.4 20 70-98 34-53 (140)
225 PF10013 DUF2256: Uncharacteri 21.1 52 0.0011 17.3 0.8 12 88-99 8-19 (42)
226 PF06676 DUF1178: Protein of u 21.0 60 0.0013 22.0 1.3 29 68-101 5-45 (148)
227 PLN02248 cellulose synthase-li 21.0 90 0.002 28.1 2.6 29 70-99 149-177 (1135)
228 smart00109 C1 Protein kinase C 21.0 82 0.0018 15.9 1.6 33 50-82 11-44 (49)
229 TIGR02652 conserved hypothetic 20.9 36 0.00077 23.0 0.2 14 88-101 9-22 (163)
230 cd00029 C1 Protein kinase C co 20.9 51 0.0011 17.0 0.8 33 50-82 11-45 (50)
231 PF05605 zf-Di19: Drought indu 20.7 56 0.0012 17.7 0.9 8 89-96 3-10 (54)
232 PF09654 DUF2396: Protein of u 20.6 37 0.0008 22.9 0.2 14 88-101 6-19 (161)
233 PF12292 DUF3624: Protein of u 20.6 36 0.00079 20.4 0.2 22 76-97 3-24 (77)
234 PRK11827 hypothetical protein; 20.5 44 0.00095 19.0 0.5 14 88-101 8-21 (60)
235 PF13453 zf-TFIIB: Transcripti 20.3 45 0.00097 17.0 0.5 12 90-101 1-12 (41)
236 COG5216 Uncharacterized conser 20.2 56 0.0012 18.6 0.9 27 70-98 26-54 (67)
237 PF11290 DUF3090: Protein of u 20.1 92 0.002 21.7 2.1 16 86-101 152-167 (171)
No 1
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.62 E-value=2e-16 Score=86.06 Aligned_cols=44 Identities=39% Similarity=1.190 Sum_probs=39.6
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCR 95 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr 95 (128)
++|+||++.+..++.+..++|+|.||.+|+.+|+++ +.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~-~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKR-NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHH-SSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHh-CCcCCccC
Confidence 479999999988888899999999999999999999 78999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.62 E-value=3.4e-16 Score=117.26 Aligned_cols=53 Identities=34% Similarity=1.042 Sum_probs=48.0
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMK 103 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 103 (128)
..|+||+|++..++.++.|||+|.||..||++||.+.+..||+|+.++.....
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 69999999999999999999999999999999999855679999998876543
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.42 E-value=1.9e-13 Score=82.00 Aligned_cols=47 Identities=34% Similarity=0.910 Sum_probs=36.7
Q ss_pred CCCcccccccccccCC----------CceEEeCCCCcccHHhHHHHHhcCCccccccc
Q 048466 48 FEGESCCVCLSRLKQG----------DEMRVLPCLHRFHRACVDRWFNEWTKTCPLCR 95 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~----------~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr 95 (128)
..+..|+||++.+..+ -.+...+|+|.||..||.+|+.. +.+||+||
T Consensus 17 ~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-~~~CP~CR 73 (73)
T PF12678_consen 17 IADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-NNTCPLCR 73 (73)
T ss_dssp SCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-SSB-TTSS
T ss_pred CcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-CCcCCCCC
Confidence 3455699999999432 24555679999999999999998 77999997
No 4
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.41 E-value=3.5e-13 Score=98.08 Aligned_cols=55 Identities=27% Similarity=0.636 Sum_probs=47.4
Q ss_pred hcCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 44 EANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 44 ~~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
....+....|.+|++...++ ..+||||.||++||..|... ..-||+||..+.+..
T Consensus 233 ~~i~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~e-k~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 233 SSIPEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSE-KAECPLCREKFQPSK 287 (293)
T ss_pred ccCCCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHcc-ccCCCcccccCCCcc
Confidence 34445567899999999888 88999999999999999998 778999999887664
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=3.2e-13 Score=98.94 Aligned_cols=55 Identities=40% Similarity=1.036 Sum_probs=48.8
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
+...+-+|+|||+.|...+.+..+||.|.||..|+.+|+..-+..||+||..+++
T Consensus 319 ea~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 319 EADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred hcCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 3345689999999999999999999999999999999998447789999999875
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.35 E-value=8.5e-13 Score=99.09 Aligned_cols=55 Identities=27% Similarity=0.748 Sum_probs=44.9
Q ss_pred CCCCcccccccccccCCC----------ceEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 47 EFEGESCCVCLSRLKQGD----------EMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~----------~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
...+..|.||++++-.++ ..+++||||.+|.+|+..|+++ +++||.||.++...+
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCPICr~p~ifd~ 348 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCPICRRPVIFDQ 348 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCCcccCcccccc
Confidence 556788999999954322 3478999999999999999999 889999999854433
No 7
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.35 E-value=8.7e-13 Score=95.00 Aligned_cols=55 Identities=25% Similarity=0.695 Sum_probs=43.6
Q ss_pred CCCCcccccccccccCCCc----e-EEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 47 EFEGESCCVCLSRLKQGDE----M-RVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~----~-~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
...+.+|+||++.+..++. + ..++|+|.||..||.+|+.. +.+||+||..+....
T Consensus 171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~~v~ 230 (238)
T PHA02929 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFISVI 230 (238)
T ss_pred CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEeeEEe
Confidence 3456899999999875431 2 33469999999999999998 889999999887543
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.27 E-value=3.3e-12 Score=88.92 Aligned_cols=54 Identities=24% Similarity=0.628 Sum_probs=43.7
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc---------------CCcccccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE---------------WTKTCPLCRFSMGEEM 102 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~---------------~~~~CP~Cr~~~~~~~ 102 (128)
+..+..+|+||++.+.++ ..++|||.||+.||..|+.. ....||+||..+....
T Consensus 14 ~~~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~ 82 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEAT 82 (193)
T ss_pred cCCCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhc
Confidence 444568999999998876 67889999999999999853 1347999999886543
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=9.1e-12 Score=88.31 Aligned_cols=54 Identities=26% Similarity=0.591 Sum_probs=45.3
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcC--Ccccccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEW--TKTCPLCRFSMGEEM 102 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~--~~~CP~Cr~~~~~~~ 102 (128)
.+....+|.|||+.-.++ .++.|||.||+.||.+|+... +..||+|+..+..+.
T Consensus 43 ~~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~ 98 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDT 98 (230)
T ss_pred CCCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccccce
Confidence 356678999999998877 777899999999999999973 457899999887554
No 10
>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=99.21 E-value=1.2e-11 Score=68.81 Aligned_cols=47 Identities=32% Similarity=0.875 Sum_probs=39.3
Q ss_pred CcccccccccccCCCceEEeCCCCc-ccHHhHHHHHhcCCcccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCLHR-FHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~H~-f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
+..|.||++...+ ...+||||. ||..|+..|+.. ...||+||+.+..
T Consensus 2 ~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~-~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLPCGHLCFCEECAERLLKR-KKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHT-TSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc---eEEeCCCChHHHHHHhHHhccc-CCCCCcCChhhcC
Confidence 4689999998765 477899999 999999999997 8899999998753
No 11
>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=1.9e-11 Score=65.63 Aligned_cols=39 Identities=41% Similarity=0.967 Sum_probs=30.7
Q ss_pred cccccccccCCCceEEeCCCCcccHHhHHHHHhcCC---cccccc
Q 048466 53 CCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWT---KTCPLC 94 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~---~~CP~C 94 (128)
|+||++.|.++ ..++|||.|+..||..|++... ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999988 8899999999999999998732 369987
No 12
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.15 E-value=1.9e-11 Score=83.50 Aligned_cols=58 Identities=21% Similarity=0.433 Sum_probs=46.9
Q ss_pred hcCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccccc
Q 048466 44 EANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMK 103 (128)
Q Consensus 44 ~~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 103 (128)
+...+..+.|+|||+.+.... ...+.|||+||..||...+.. ...||+|++.+..++-
T Consensus 125 ~~~~~~~~~CPiCl~~~sek~-~vsTkCGHvFC~~Cik~alk~-~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 125 PLRKEGTYKCPICLDSVSEKV-PVSTKCGHVFCSQCIKDALKN-TNKCPTCRKKITHKQF 182 (187)
T ss_pred ccccccccCCCceecchhhcc-ccccccchhHHHHHHHHHHHh-CCCCCCcccccchhhh
Confidence 445556688999999998642 234679999999999999998 7899999998877653
No 13
>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=99.14 E-value=4.7e-11 Score=64.05 Aligned_cols=45 Identities=40% Similarity=1.094 Sum_probs=36.4
Q ss_pred ccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccc
Q 048466 52 SCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSM 98 (128)
Q Consensus 52 ~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~ 98 (128)
.|+||++.+.. .....+|+|.||..|+..|+...+..||.||..+
T Consensus 1 ~C~iC~~~~~~--~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--PVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--ceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 58999999843 3344459999999999999987567899998753
No 14
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.14 E-value=4.5e-11 Score=72.84 Aligned_cols=53 Identities=26% Similarity=0.703 Sum_probs=41.3
Q ss_pred CCcccccccccccC--------CC--ceEEeCCCCcccHHhHHHHHhcC--Cccccccccccccc
Q 048466 49 EGESCCVCLSRLKQ--------GD--EMRVLPCLHRFHRACVDRWFNEW--TKTCPLCRFSMGEE 101 (128)
Q Consensus 49 ~~~~C~ICl~~~~~--------~~--~~~~l~C~H~f~~~Ci~~wl~~~--~~~CP~Cr~~~~~~ 101 (128)
.++.|.||...|.. ++ ++..-.|+|.||..||.+|+... +..||+||+.+..+
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 37789999999872 11 34444699999999999999963 56899999987654
No 15
>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=99.14 E-value=4.1e-11 Score=63.32 Aligned_cols=39 Identities=33% Similarity=1.077 Sum_probs=32.8
Q ss_pred cccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccc
Q 048466 53 CCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLC 94 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~C 94 (128)
|+||++.+.+ ++..++|||.||.+|+.+|++. +..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 8999999886 4456789999999999999999 7899987
No 16
>PHA02926 zinc finger-like protein; Provisional
Probab=99.12 E-value=7e-11 Score=83.52 Aligned_cols=63 Identities=19% Similarity=0.500 Sum_probs=44.8
Q ss_pred hhhhhcCCCCCcccccccccccCC-----CceEEe-CCCCcccHHhHHHHHhcC-----Ccccccccccccccc
Q 048466 40 NRLKEANEFEGESCCVCLSRLKQG-----DEMRVL-PCLHRFHRACVDRWFNEW-----TKTCPLCRFSMGEEM 102 (128)
Q Consensus 40 ~~~~~~~~~~~~~C~ICl~~~~~~-----~~~~~l-~C~H~f~~~Ci~~wl~~~-----~~~CP~Cr~~~~~~~ 102 (128)
..........+.+|+||+|..-.+ .....+ +|+|.||..||..|.... ..+||+||..+..-.
T Consensus 160 ~ye~~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~ 233 (242)
T PHA02926 160 KYEDVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNIT 233 (242)
T ss_pred HHHHHHhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence 334444556668999999986432 122344 599999999999999852 246999999876443
No 17
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.06 E-value=7.4e-11 Score=94.36 Aligned_cols=53 Identities=38% Similarity=0.939 Sum_probs=44.9
Q ss_pred CCCcccccccccccCCCc--eEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDE--MRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~--~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
..+..|+||+|.+..+.. ..+++|+|.||..|+..|+++ ..+||+||..+...
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLYDY 343 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhhcc
Confidence 447889999999988543 488999999999999999999 88999999955433
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=99.02 E-value=2e-10 Score=61.13 Aligned_cols=40 Identities=38% Similarity=1.065 Sum_probs=34.1
Q ss_pred cccccccccCCCceEEeCCCCcccHHhHHHHHh-cCCcccccc
Q 048466 53 CCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFN-EWTKTCPLC 94 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~-~~~~~CP~C 94 (128)
|+||++.+..+ ...++|+|.||..|+.+|+. .....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998865 24778999999999999999 446789987
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.96 E-value=6.2e-10 Score=60.29 Aligned_cols=44 Identities=25% Similarity=0.746 Sum_probs=36.9
Q ss_pred ccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccc
Q 048466 52 SCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 52 ~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
.|++|++.+........++|||.||..|+..+... ...||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~-~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGK-SVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCC-CCCCcCCCC
Confidence 48999999955556778889999999999998833 678999985
No 20
>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=98.94 E-value=9.1e-10 Score=56.99 Aligned_cols=39 Identities=46% Similarity=1.179 Sum_probs=32.7
Q ss_pred cccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccc
Q 048466 53 CCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLC 94 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~C 94 (128)
|+||++.... ...++|+|.||..|+..|+......||+|
T Consensus 1 C~iC~~~~~~---~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKD---PVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCC---cEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 7899998544 37789999999999999998546789987
No 21
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.94 E-value=1.2e-09 Score=63.20 Aligned_cols=47 Identities=21% Similarity=0.453 Sum_probs=41.7
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
..|+||.+.+.++ ..++|||.|+..||.+|+.. ..+||.|+..+..+
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~ 48 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHE 48 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChh
Confidence 5799999999987 77899999999999999998 78999999887543
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=98.88 E-value=6.1e-10 Score=85.57 Aligned_cols=52 Identities=25% Similarity=0.547 Sum_probs=44.5
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
.......|+||++.+..+ ..++|+|.||..|+..|+.. ...||+||..+...
T Consensus 22 ~Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~-~~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 22 PLDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSN-QPKCPLCRAEDQES 73 (397)
T ss_pred ccccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhC-CCCCCCCCCccccc
Confidence 445668999999999876 57899999999999999988 66899999987654
No 23
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=1.8e-09 Score=83.92 Aligned_cols=96 Identities=22% Similarity=0.478 Sum_probs=57.9
Q ss_pred chHHHHHHHHHHhHhhhhhcccCCCCCCcccchhhHHHhhhhhcCCCCCcccccccccccCC--------------CceE
Q 048466 2 VLSKLATFLCDSIILRGQLRLRNKASPSYEVIASDVVLNRLKEANEFEGESCCVCLSRLKQG--------------DEMR 67 (128)
Q Consensus 2 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~--------------~~~~ 67 (128)
++..++..+-+.+|-|.+..+.--.. ++... +...+...+.--....+|+||+.++.-. ....
T Consensus 526 lFQv~vLl~Qd~lGsR~FlPkk~lpe-~YsY~--r~l~~dh~~~~~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm 602 (636)
T KOG0828|consen 526 LFQVLVLLVQDYLGSRCFLPKKFLPE-KYSYH--RRLQQDHLEAFVRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYM 602 (636)
T ss_pred HHHHHHHHHHhhcccccccchhhCcc-ccccc--cccccccccchhhccccceEeccccceeeccCcchhhhhhhhcccc
Confidence 34444555556666665554432111 11111 1111112233345567899999987521 1244
Q ss_pred EeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 68 VLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 68 ~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
.+||.|.||..|+.+|+..-+-.||+||..+++
T Consensus 603 ~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 603 LTPCHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccchHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 569999999999999999635589999998864
No 24
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=4e-09 Score=82.25 Aligned_cols=50 Identities=24% Similarity=0.526 Sum_probs=42.2
Q ss_pred CcccccccccccCCCceEEeCCCCcccHHhHHHHHhcC----Ccccccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEW----TKTCPLCRFSMGEEM 102 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~----~~~CP~Cr~~~~~~~ 102 (128)
+..||||+++...+ ..+.|||+||..||.+++... ...||+||..+..+.
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 78899999998876 666799999999999998862 347999999887743
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=8.2e-09 Score=74.64 Aligned_cols=52 Identities=27% Similarity=0.603 Sum_probs=43.5
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHH-HHhcCCcccccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDR-WFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~-wl~~~~~~CP~Cr~~~~~~~ 102 (128)
..+..|+||++....+ ..++|||+||..||.. |-.+....||+||+...++.
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 4578899999999887 8889999999999998 77764446999999776553
No 26
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.67 E-value=2.4e-08 Score=59.75 Aligned_cols=51 Identities=29% Similarity=0.666 Sum_probs=38.3
Q ss_pred Cccccccccccc-----------CCC--ceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 50 GESCCVCLSRLK-----------QGD--EMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 50 ~~~C~ICl~~~~-----------~~~--~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
-+.|+||...+. .++ ++..-.|.|.||..||.+||.+ +..||++|+.+...
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~~~ 83 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWVLA 83 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeEEe
Confidence 356777776653 222 2344459999999999999999 88999999987544
No 27
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.66 E-value=1.5e-08 Score=54.50 Aligned_cols=39 Identities=28% Similarity=0.705 Sum_probs=22.4
Q ss_pred cccccccccCCC-ceEEeCCCCcccHHhHHHHHhcC---Ccccc
Q 048466 53 CCVCLSRLKQGD-EMRVLPCLHRFHRACVDRWFNEW---TKTCP 92 (128)
Q Consensus 53 C~ICl~~~~~~~-~~~~l~C~H~f~~~Ci~~wl~~~---~~~CP 92 (128)
|+||.+ +.+++ ....|+|||.|+..|+.+++.++ ...||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 76633 34778999999999999999863 33566
No 28
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.55 E-value=1.3e-08 Score=76.04 Aligned_cols=50 Identities=22% Similarity=0.644 Sum_probs=44.5
Q ss_pred CCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
....|-||.+.|..+ ..+||+|.||.-||..+|.. +..||.|+..+....
T Consensus 22 ~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~-~p~CP~C~~~~~Es~ 71 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSY-KPQCPTCCVTVTESD 71 (442)
T ss_pred HHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhcc-CCCCCceecccchhh
Confidence 346899999999988 88899999999999999999 889999998886654
No 29
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.54 E-value=3e-08 Score=76.33 Aligned_cols=54 Identities=30% Similarity=0.826 Sum_probs=42.9
Q ss_pred hhcCCCCCcccccccccccCCC-ceEEeCCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 43 KEANEFEGESCCVCLSRLKQGD-EMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 43 ~~~~~~~~~~C~ICl~~~~~~~-~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
......+..+||+|||.+.... .+....|.|.||.+|+..|... +||+||....
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~q~ 222 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS---SCPVCRYCQS 222 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC---cChhhhhhcC
Confidence 3445567789999999987643 3445569999999999999865 8999998665
No 30
>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=98.54 E-value=8.7e-08 Score=57.31 Aligned_cols=51 Identities=22% Similarity=0.457 Sum_probs=40.7
Q ss_pred CCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
+...|+|+.+.+.++ ..+++||.|...+|..|+..+..+||.++..+....
T Consensus 3 ~~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~ 53 (73)
T PF04564_consen 3 DEFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESD 53 (73)
T ss_dssp GGGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGG
T ss_pred cccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCccc
Confidence 457899999999988 788999999999999999987789999998887654
No 31
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=3.8e-08 Score=71.53 Aligned_cols=57 Identities=25% Similarity=0.591 Sum_probs=45.2
Q ss_pred CCCCCcccccccccccCCC-------ceEEeCCCCcccHHhHHHHHhcC-Ccccccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGD-------EMRVLPCLHRFHRACVDRWFNEW-TKTCPLCRFSMGEEM 102 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~-------~~~~l~C~H~f~~~Ci~~wl~~~-~~~CP~Cr~~~~~~~ 102 (128)
...++..|++|-..+.... ...++.|+|+||.-||.-|-..+ .++||.|+..+..+.
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~r 284 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKR 284 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhh
Confidence 3456678999998876543 56789999999999999997653 569999998876553
No 32
>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=98.47 E-value=1.4e-07 Score=70.31 Aligned_cols=53 Identities=23% Similarity=0.496 Sum_probs=39.3
Q ss_pred Ccccccccccc-cCCCc-eEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 50 GESCCVCLSRL-KQGDE-MRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 50 ~~~C~ICl~~~-~~~~~-~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
+..||+|.... .+++. +...+|||.||.+|+...+..+...||.|+..+....
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhh
Confidence 46899999952 23321 2222699999999999977766779999998887654
No 33
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=2.2e-08 Score=59.41 Aligned_cols=53 Identities=32% Similarity=0.738 Sum_probs=38.9
Q ss_pred CCCcccccccccccC--------CC--ceEEeCCCCcccHHhHHHHHhc--CCcccccccccccc
Q 048466 48 FEGESCCVCLSRLKQ--------GD--EMRVLPCLHRFHRACVDRWFNE--WTKTCPLCRFSMGE 100 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~--------~~--~~~~l~C~H~f~~~Ci~~wl~~--~~~~CP~Cr~~~~~ 100 (128)
..+.+|-||.-.|.. +| ++..-.|.|.||..||.+|+.. .+..||+||..+..
T Consensus 18 ~~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 18 APDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 445589999998863 12 2222249999999999999986 24579999998754
No 34
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.42 E-value=5.4e-08 Score=80.78 Aligned_cols=54 Identities=30% Similarity=0.702 Sum_probs=40.1
Q ss_pred CCCCccccccccccc-CC-C-ceEEeC-CCCcccHHhHHHHHhc-CCcccccccccccc
Q 048466 47 EFEGESCCVCLSRLK-QG-D-EMRVLP-CLHRFHRACVDRWFNE-WTKTCPLCRFSMGE 100 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~-~~-~-~~~~l~-C~H~f~~~Ci~~wl~~-~~~~CP~Cr~~~~~ 100 (128)
.....+|+||+..+. .+ . +-.+.+ |.|.||..|+.+|++. ++.+||+||..++.
T Consensus 1466 fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseitf 1524 (1525)
T COG5219 1466 FSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEITF 1524 (1525)
T ss_pred cCCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCcccccccc
Confidence 355678999999876 11 0 112333 9999999999999996 46689999987753
No 35
>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=98.42 E-value=3e-07 Score=50.82 Aligned_cols=43 Identities=35% Similarity=0.882 Sum_probs=32.3
Q ss_pred ccccccccccCCCceEEeCCC-----CcccHHhHHHHHhcC-Cccccccc
Q 048466 52 SCCVCLSRLKQGDEMRVLPCL-----HRFHRACVDRWFNEW-TKTCPLCR 95 (128)
Q Consensus 52 ~C~ICl~~~~~~~~~~~l~C~-----H~f~~~Ci~~wl~~~-~~~CP~Cr 95 (128)
.|.||++.. .++.....||. +.+|.+|+..|+... ..+||+|+
T Consensus 1 ~CrIC~~~~-~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEG-DEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCC-CCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 488999833 33444567874 789999999999863 45899995
No 36
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.41 E-value=7.2e-08 Score=57.24 Aligned_cols=52 Identities=27% Similarity=0.639 Sum_probs=25.1
Q ss_pred CcccccccccccCCCce--EEe---CCCCcccHHhHHHHHhcC----------Cccccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEM--RVL---PCLHRFHRACVDRWFNEW----------TKTCPLCRFSMGEE 101 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~--~~l---~C~H~f~~~Ci~~wl~~~----------~~~CP~Cr~~~~~~ 101 (128)
+.+|.||++.+...+.. ..- .|+..||..||.+|+... ...||.|+..+.-+
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~~ 68 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISWS 68 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEGG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeEe
Confidence 46899999987632222 222 489999999999999851 12599999987654
No 37
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.41 E-value=1.4e-07 Score=69.34 Aligned_cols=48 Identities=27% Similarity=0.558 Sum_probs=42.5
Q ss_pred CCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
....|.||-+.+..+ ..++|||.||.-||...|.. +..||+||.+...
T Consensus 24 s~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~-qp~CP~Cr~~~~e 71 (391)
T COG5432 24 SMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGT-QPFCPVCREDPCE 71 (391)
T ss_pred hHHHhhhhhheeecc---eecccccchhHHHHHHHhcC-CCCCccccccHHh
Confidence 346799999999987 77899999999999999999 8899999987644
No 38
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.37 E-value=1.8e-07 Score=68.92 Aligned_cols=54 Identities=24% Similarity=0.631 Sum_probs=45.6
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMKL 104 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~ 104 (128)
....+|+||+.....+ ..++|+|.||..||..-..+...+|++||.+++.....
T Consensus 5 ~~~~eC~IC~nt~n~P---v~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 5 TKKKECLICYNTGNCP---VNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF 58 (324)
T ss_pred ccCCcceeeeccCCcC---ccccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence 4567999999998776 77899999999999987777677899999999876533
No 39
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.32 E-value=2.1e-07 Score=67.82 Aligned_cols=47 Identities=36% Similarity=0.778 Sum_probs=40.8
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
...+...|+||++.|..+ ..++|+|.||..|+..++. ....||.||.
T Consensus 9 ~~~~~~~C~iC~~~~~~p---~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr~ 55 (386)
T KOG2177|consen 9 VLQEELTCPICLEYFREP---VLLPCGHNFCRACLTRSWE-GPLSCPVCRP 55 (386)
T ss_pred hccccccChhhHHHhhcC---ccccccchHhHHHHHHhcC-CCcCCcccCC
Confidence 445668999999999987 8889999999999999887 4678999993
No 40
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=1.1e-07 Score=71.31 Aligned_cols=58 Identities=29% Similarity=0.481 Sum_probs=46.9
Q ss_pred CCCCCcccccccccccCCCceEEeC-CCCcccHHhHHHHHhcCCcccccccccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLP-CLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMKLHA 106 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~-C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~ 106 (128)
....+..|+||++.+... ..++ |.|.||.+||...+..+...||.||+.+..+.....
T Consensus 39 ~~~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~ 97 (381)
T KOG0311|consen 39 MFDIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRI 97 (381)
T ss_pred HhhhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCC
Confidence 345567899999998864 4444 999999999999898888899999999887654443
No 41
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=2.2e-07 Score=51.75 Aligned_cols=49 Identities=22% Similarity=0.550 Sum_probs=38.6
Q ss_pred CcccccccccccCCCceEEeCCCCc-ccHHhHHHHHhcCCccccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCLHR-FHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~H~-f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
+++|.||+|...+. ....|||. .|..|-.+.++.....||.||+++...
T Consensus 7 ~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~dv 56 (62)
T KOG4172|consen 7 SDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIKDV 56 (62)
T ss_pred ccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHHHH
Confidence 37999999986653 34469997 899998876665588999999987544
No 42
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.22 E-value=9.8e-07 Score=66.46 Aligned_cols=53 Identities=32% Similarity=0.766 Sum_probs=42.8
Q ss_pred CCCcccccccccccCCCceEEeCCCCc-ccHHhHHHHHhcCCcccccccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHR-FHRACVDRWFNEWTKTCPLCRFSMGEEMKL 104 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~-f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~ 104 (128)
+.+.+|.||+.+..+- ..|||.|. .|..|.+..--+ +..||+||..+..-...
T Consensus 288 ~~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q-~n~CPICRqpi~~ll~i 341 (349)
T KOG4265|consen 288 ESGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQ-TNNCPICRQPIEELLEI 341 (349)
T ss_pred cCCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHh-hcCCCccccchHhhhee
Confidence 5578999999997765 88999997 999998765544 77899999998765443
No 43
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=9.6e-07 Score=55.40 Aligned_cols=55 Identities=24% Similarity=0.559 Sum_probs=40.9
Q ss_pred cCCCCCcccccccccccC-------------CC-ceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 45 ANEFEGESCCVCLSRLKQ-------------GD-EMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~-------------~~-~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
+-+...+.|+||...+-+ ++ .+..-.|+|.||..||.+|+++ +..||+|.+....
T Consensus 41 aWDi~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt-r~vCPLdn~eW~~ 109 (114)
T KOG2930|consen 41 AWDIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT-RNVCPLDNKEWVF 109 (114)
T ss_pred eeeeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh-cCcCCCcCcceeE
Confidence 445667889999876421 11 2344469999999999999999 8899999876643
No 44
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.15 E-value=9.4e-07 Score=67.25 Aligned_cols=52 Identities=27% Similarity=0.807 Sum_probs=37.9
Q ss_pred CcccccccccccCCCceEEeC-CCCcccHHhHHHHHhcC--Cccccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLP-CLHRFHRACVDRWFNEW--TKTCPLCRFSMGEE 101 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~-C~H~f~~~Ci~~wl~~~--~~~CP~Cr~~~~~~ 101 (128)
...|.||-+-+.+...+..+. |||.||..|+.+|+... +.+||.|+-.++..
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~~~r 58 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKLQER 58 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecccce
Confidence 357999955555544454454 99999999999999973 24899999444443
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=5.8e-07 Score=73.16 Aligned_cols=52 Identities=29% Similarity=0.639 Sum_probs=43.4
Q ss_pred CCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMK 103 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 103 (128)
.-..|++|-..+.+. ..+.|+|.||..|+...+..++..||.|.+.|+..+-
T Consensus 642 ~~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred hceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence 346899999877653 4556999999999999999878899999999987753
No 46
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.99 E-value=2.7e-06 Score=62.88 Aligned_cols=57 Identities=30% Similarity=0.661 Sum_probs=46.7
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc----------------------CCcccccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE----------------------WTKTCPLCRFSMGEEM 102 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~----------------------~~~~CP~Cr~~~~~~~ 102 (128)
.......|.|||--|..++.+.+++|.|.||..|+..+|.. ....||+||..+....
T Consensus 111 nn~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~ 189 (368)
T KOG4445|consen 111 NNHPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEE 189 (368)
T ss_pred CCCCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccccc
Confidence 33455789999999999888999999999999999988742 1236999999887654
No 47
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.89 E-value=2.3e-06 Score=49.40 Aligned_cols=48 Identities=25% Similarity=0.583 Sum_probs=24.2
Q ss_pred CCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
....|++|.+.+..+ +....|.|.||..|+..-+.. .||+|+.+.-..
T Consensus 6 ~lLrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw~q 53 (65)
T PF14835_consen 6 ELLRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAWIQ 53 (65)
T ss_dssp HTTS-SSS-S--SS---B---SSS--B-TTTGGGGTTT---B-SSS--B-S-S
T ss_pred HhcCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcCC---CCCCcCChHHHH
Confidence 346899999998865 344569999999999875543 599998876443
No 48
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.86 E-value=2.7e-06 Score=63.47 Aligned_cols=67 Identities=21% Similarity=0.497 Sum_probs=50.7
Q ss_pred cCCCCCcccccccccccCCCceEEe-CCCCcccHHhHHHHHhcCCccccccccccccccccccCcccccccc
Q 048466 45 ANEFEGESCCVCLSRLKQGDEMRVL-PCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMKLHAGLGEVLTDE 115 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~~~~~~~l-~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~~~~~~~~~~~ 115 (128)
.+......|.+|-..|.+. .++ -|-|.||.+||...+.. ...||.|...+....+..+-.-+...++
T Consensus 10 ~~~n~~itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t~pl~ni~~Drtlqd 77 (331)
T KOG2660|consen 10 TELNPHITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKTHPLLNIRSDRTLQD 77 (331)
T ss_pred hhcccceehhhccceeecc---hhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCccccccCCcchHHHH
Confidence 3445667899999999876 444 49999999999999999 8999999998877665444343433333
No 49
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=1.1e-05 Score=61.33 Aligned_cols=54 Identities=26% Similarity=0.787 Sum_probs=40.4
Q ss_pred CCCCcccccccccccCCC----ceEEeC-CCCcccHHhHHHHHhcC------Ccccccccccccc
Q 048466 47 EFEGESCCVCLSRLKQGD----EMRVLP-CLHRFHRACVDRWFNEW------TKTCPLCRFSMGE 100 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~----~~~~l~-C~H~f~~~Ci~~wl~~~------~~~CP~Cr~~~~~ 100 (128)
...+..|.||++...... ....+| |.|.||..|+..|-... .+.||.||.....
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 356789999999876542 122345 99999999999999642 3689999986543
No 50
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.77 E-value=5.4e-06 Score=68.04 Aligned_cols=52 Identities=29% Similarity=0.482 Sum_probs=39.9
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMK 103 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 103 (128)
..|++|+..+.++......+|+|.||..|+..|-+. ..+||+||..+.....
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhheeee
Confidence 346666666655434455679999999999999998 7899999998876543
No 51
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.76 E-value=2.2e-05 Score=60.31 Aligned_cols=51 Identities=27% Similarity=0.740 Sum_probs=39.1
Q ss_pred CCcccccccccccCCC--ceEEeCCCCcccHHhHHHHHhcC-Cccccccccccc
Q 048466 49 EGESCCVCLSRLKQGD--EMRVLPCLHRFHRACVDRWFNEW-TKTCPLCRFSMG 99 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~--~~~~l~C~H~f~~~Ci~~wl~~~-~~~CP~Cr~~~~ 99 (128)
.+.+|+||++.+..+. .+..+.|+|.|..+||..|+.+. ...||.|.....
T Consensus 3 ~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~kat 56 (463)
T KOG1645|consen 3 CGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKAT 56 (463)
T ss_pred ccccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhH
Confidence 4578999999887543 34456699999999999999741 347999976443
No 52
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.72 E-value=1.5e-05 Score=61.06 Aligned_cols=53 Identities=28% Similarity=0.619 Sum_probs=42.3
Q ss_pred cCCCCCcccccccccccCC-CceEEeCCCCcccHHhHHHHHhc-CCccccccccc
Q 048466 45 ANEFEGESCCVCLSRLKQG-DEMRVLPCLHRFHRACVDRWFNE-WTKTCPLCRFS 97 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~~-~~~~~l~C~H~f~~~Ci~~wl~~-~~~~CP~Cr~~ 97 (128)
-..+.+..|..|-+.+... +....+||.|+||..|+...+.+ ...+||.||+-
T Consensus 360 ~~~e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crkl 414 (518)
T KOG1941|consen 360 CVEETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKL 414 (518)
T ss_pred HHHHHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence 3445668899999987653 46677899999999999999976 45689999953
No 53
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.61 E-value=6.2e-05 Score=42.83 Aligned_cols=45 Identities=18% Similarity=0.453 Sum_probs=29.6
Q ss_pred CCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc-CCccccc
Q 048466 47 EFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE-WTKTCPL 93 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~-~~~~CP~ 93 (128)
......|||.+..|.+| ++...|+|.|-.+.|.+|+++ +...||+
T Consensus 8 ~~~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 8 GTISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB--SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cEeccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 34557899999999865 555579999999999999943 3558998
No 54
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.58 E-value=4.5e-05 Score=59.08 Aligned_cols=53 Identities=36% Similarity=0.694 Sum_probs=44.9
Q ss_pred cCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 45 ANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
.....+..|.||+..+..+ ..+||||.||..|+.+-+.. ..-||.||..+..-
T Consensus 79 ~~~~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~-~~~cp~Cr~~l~e~ 131 (398)
T KOG4159|consen 79 EEIRSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQ-ETECPLCRDELVEL 131 (398)
T ss_pred ccccchhhhhhhHhhcCCC---ccccccccccHHHHHHHhcc-CCCCcccccccccc
Confidence 3346778999999999887 77899999999999997776 77899999998763
No 55
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.52 E-value=3.6e-05 Score=54.99 Aligned_cols=59 Identities=27% Similarity=0.579 Sum_probs=46.2
Q ss_pred cCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcC-------Ccccccccccccccccc
Q 048466 45 ANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEW-------TKTCPLCRFSMGEEMKL 104 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~-------~~~CP~Cr~~~~~~~~~ 104 (128)
.+.+....|..|-..+..++.++ +-|-|.||+.|+.+|-.+- ...||-|..++.+....
T Consensus 45 ~DsDY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp~Nl 110 (299)
T KOG3970|consen 45 QDSDYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPPINL 110 (299)
T ss_pred hhcCCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCCccc
Confidence 34556678999999999876554 7799999999999998751 23699999888765443
No 56
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.47 E-value=0.0001 Score=40.29 Aligned_cols=45 Identities=27% Similarity=0.576 Sum_probs=23.0
Q ss_pred cccccccccCCCceEEeC--CCCcccHHhHHHHHhcCCcccccccccc
Q 048466 53 CCVCLSRLKQGDEMRVLP--CLHRFHRACVDRWFNEWTKTCPLCRFSM 98 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~--C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~ 98 (128)
|++|.+++...+ ....| |+..++..|+...+......||-||.++
T Consensus 1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984332 23344 8999999999988875578999999865
No 57
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.43 E-value=0.00013 Score=53.45 Aligned_cols=55 Identities=20% Similarity=0.258 Sum_probs=41.2
Q ss_pred cCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc-CCccccccccccccc
Q 048466 45 ANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE-WTKTCPLCRFSMGEE 101 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~-~~~~CP~Cr~~~~~~ 101 (128)
+....+.+|++|-+....| ....+|+|.||..|+..-... -+.+||.|.....+-
T Consensus 234 s~~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred ccccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence 3445678999999998776 233459999999999875543 246999998877643
No 58
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.41 E-value=7.1e-05 Score=57.58 Aligned_cols=48 Identities=27% Similarity=0.759 Sum_probs=37.7
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcC-Cccccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEW-TKTCPLCRFSMGEE 101 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~-~~~CP~Cr~~~~~~ 101 (128)
..|-||-|.- +.+..-||||..|..|+..|-... ..+||.||..+...
T Consensus 370 eLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccc
Confidence 3588998863 344666899999999999998653 67999999987543
No 59
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.41 E-value=6.8e-05 Score=58.15 Aligned_cols=54 Identities=28% Similarity=0.589 Sum_probs=45.5
Q ss_pred CCCCcccccccccccCCCceEE-eCCCCcccHHhHHHHHhcCCcccccccccccccccc
Q 048466 47 EFEGESCCVCLSRLKQGDEMRV-LPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMKL 104 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~-l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~ 104 (128)
...+..|++|...+.++ .. +.|+|.||..|+..|+.. +..||.|+..+......
T Consensus 18 ~~~~l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~ 72 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEEL 72 (391)
T ss_pred CcccccCccccccccCC---CCCCCCCCcccccccchhhcc-CcCCcccccccchhhcc
Confidence 46668999999999876 44 579999999999999999 88999998877665433
No 60
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=97.17 E-value=0.00081 Score=50.52 Aligned_cols=54 Identities=22% Similarity=0.378 Sum_probs=42.0
Q ss_pred hhhhcCCCCCcccccccccccCCCceEEeC-CCCcccHHhHHHHHhcCCcccccccccc
Q 048466 41 RLKEANEFEGESCCVCLSRLKQGDEMRVLP-CLHRFHRACVDRWFNEWTKTCPLCRFSM 98 (128)
Q Consensus 41 ~~~~~~~~~~~~C~ICl~~~~~~~~~~~l~-C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~ 98 (128)
+..+........|++|+....++ ..+. -|-+||..|+..++.+ .+.||+=..+.
T Consensus 291 se~e~l~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~-~~~CPVT~~p~ 345 (357)
T KOG0826|consen 291 SESELLPPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVN-YGHCPVTGYPA 345 (357)
T ss_pred cccccCCCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHh-cCCCCccCCcc
Confidence 33444555667899999998887 5555 6899999999999998 88999865544
No 61
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.17 E-value=0.00015 Score=50.99 Aligned_cols=45 Identities=22% Similarity=0.468 Sum_probs=38.5
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
..|.||-.++..+ ..+.|||.||..|...-++. ...|-+|.+..-
T Consensus 197 F~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~k-g~~C~~Cgk~t~ 241 (259)
T COG5152 197 FLCGICKKDYESP---VVTECGHSFCSLCAIRKYQK-GDECGVCGKATY 241 (259)
T ss_pred eeehhchhhccch---hhhhcchhHHHHHHHHHhcc-CCcceecchhhc
Confidence 5799999999987 77889999999999887777 678999976543
No 62
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.10 E-value=0.00061 Score=51.82 Aligned_cols=50 Identities=22% Similarity=0.554 Sum_probs=42.7
Q ss_pred CCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 47 EFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
..++..|+||.....+. ...||+|.-|+.||.+.+-+ .+.|=.|++.+..
T Consensus 419 ~sEd~lCpICyA~pi~A---vf~PC~H~SC~~CI~qHlmN-~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPINA---VFAPCSHRSCYGCITQHLMN-CKRCFFCKTTVID 468 (489)
T ss_pred CcccccCcceecccchh---hccCCCCchHHHHHHHHHhc-CCeeeEecceeee
Confidence 36778999999876654 66789999999999999998 8899999988764
No 63
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.06 E-value=0.00041 Score=52.47 Aligned_cols=56 Identities=23% Similarity=0.497 Sum_probs=42.5
Q ss_pred CCCCcccccccccccCCC-ceEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 47 EFEGESCCVCLSRLKQGD-EMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~-~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
+++++-|++|+|++...| ...-.+||-..|.-|+...-+..+.+||-||..+..+.
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~den 67 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDEN 67 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccc
Confidence 334455999999987654 34445799999999988766666789999999887654
No 64
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.00 E-value=0.00049 Score=54.82 Aligned_cols=54 Identities=20% Similarity=0.575 Sum_probs=41.8
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc----CCcccccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE----WTKTCPLCRFSMGEEM 102 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~----~~~~CP~Cr~~~~~~~ 102 (128)
+......|-+|.++-.+. ....|.|.||..|+..+... .+-+||.|...+....
T Consensus 532 enk~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDl 589 (791)
T KOG1002|consen 532 ENKGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDL 589 (791)
T ss_pred cccCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccc
Confidence 334556899999987664 66789999999999888764 3468999988776553
No 65
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.98 E-value=0.00099 Score=45.24 Aligned_cols=53 Identities=19% Similarity=0.543 Sum_probs=38.7
Q ss_pred CCCCCcccccccccccCCCceEEeCC--CC---cccHHhHHHHHhc-CCcccccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPC--LH---RFHRACVDRWFNE-WTKTCPLCRFSMGEEM 102 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C--~H---~f~~~Ci~~wl~~-~~~~CP~Cr~~~~~~~ 102 (128)
....+..|-||.+.-.. ...|| .. ..|.+|+..|+.. +..+|+.|+..+....
T Consensus 4 ~s~~~~~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~~ 62 (162)
T PHA02825 4 VSLMDKCCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIKK 62 (162)
T ss_pred cCCCCCeeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEEE
Confidence 34566799999988432 22465 33 4699999999986 3568999999887653
No 66
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.00037 Score=53.75 Aligned_cols=39 Identities=26% Similarity=0.711 Sum_probs=33.6
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE 86 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~ 86 (128)
.....|.||++...-...+..+||+|+||..|+..++..
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~ 220 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTI 220 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHH
Confidence 566899999999765577888999999999999998864
No 67
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.85 E-value=0.00037 Score=51.60 Aligned_cols=47 Identities=19% Similarity=0.438 Sum_probs=39.9
Q ss_pred CcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
...|-||..+|..+ .++.|+|.||..|...-+++ ...|++|.+....
T Consensus 241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk-~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQK-GEKCYVCSQQTHG 287 (313)
T ss_pred Cccccccccccccc---hhhcCCceeehhhhcccccc-CCcceeccccccc
Confidence 35699999999988 77889999999999887777 6789999776543
No 68
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=96.79 E-value=0.00098 Score=55.53 Aligned_cols=54 Identities=26% Similarity=0.635 Sum_probs=40.9
Q ss_pred hcCCCCCcccccccccccCCCceEEe-CCCCcccHHhHHHHHhcCC------ccccccccc
Q 048466 44 EANEFEGESCCVCLSRLKQGDEMRVL-PCLHRFHRACVDRWFNEWT------KTCPLCRFS 97 (128)
Q Consensus 44 ~~~~~~~~~C~ICl~~~~~~~~~~~l-~C~H~f~~~Ci~~wl~~~~------~~CP~Cr~~ 97 (128)
+......++|.||.+.+.....+-.- .|-|+||..||..|..... -+||.|+..
T Consensus 185 ~~l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 185 EQLSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSV 245 (950)
T ss_pred HHHhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccch
Confidence 34456678999999998876554433 4999999999999987621 269999843
No 69
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.75 E-value=0.0012 Score=36.02 Aligned_cols=41 Identities=32% Similarity=0.946 Sum_probs=26.7
Q ss_pred cccccccccCCCceEEeCC--CC---cccHHhHHHHHhc-CCcccccc
Q 048466 53 CCVCLSRLKQGDEMRVLPC--LH---RFHRACVDRWFNE-WTKTCPLC 94 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~C--~H---~f~~~Ci~~wl~~-~~~~CP~C 94 (128)
|-||++.-...+ ....|| .- ..|..|+..|+.. ++.+|++|
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 679999866543 234565 43 6899999999985 35578877
No 70
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.73 E-value=0.00068 Score=42.80 Aligned_cols=35 Identities=31% Similarity=0.616 Sum_probs=29.3
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHH
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVD 81 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~ 81 (128)
...++..|++|-..+.+ ..+...||||.||..|+.
T Consensus 74 ~i~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 74 VITESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EECCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 33566789999999988 577888999999999974
No 71
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.70 E-value=0.00086 Score=50.90 Aligned_cols=53 Identities=26% Similarity=0.444 Sum_probs=37.8
Q ss_pred hcCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccccc
Q 048466 44 EANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMK 103 (128)
Q Consensus 44 ~~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 103 (128)
..+......|.||+++..+. ..+||||.-| |..-... ...||+||..+....+
T Consensus 299 ~~~~~~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~~~~k 351 (355)
T KOG1571|consen 299 FRELPQPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCSKH--LPQCPVCRQRIRLVRK 351 (355)
T ss_pred ccccCCCCceEEecCCccce---eeecCCcEEE--chHHHhh--CCCCchhHHHHHHHHH
Confidence 44555667899999997764 7889999855 5544333 3469999998865543
No 72
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.65 E-value=0.0013 Score=57.88 Aligned_cols=54 Identities=22% Similarity=0.591 Sum_probs=41.7
Q ss_pred CCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcC---------Ccccccccccccc
Q 048466 47 EFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEW---------TKTCPLCRFSMGE 100 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~---------~~~CP~Cr~~~~~ 100 (128)
.+.++.|-||+.+--...+..++.|+|.||.+|....|+++ --.||.|+..+..
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 34567899999875555567889999999999999888762 1269999887753
No 73
>PHA02862 5L protein; Provisional
Probab=96.60 E-value=0.002 Score=43.11 Aligned_cols=50 Identities=22% Similarity=0.491 Sum_probs=36.5
Q ss_pred CcccccccccccCCCceEEeCCC-----CcccHHhHHHHHhc-CCccccccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCL-----HRFHRACVDRWFNE-WTKTCPLCRFSMGEEMK 103 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~-----H~f~~~Ci~~wl~~-~~~~CP~Cr~~~~~~~~ 103 (128)
+..|-||++.-..+ .-||. ...|.+|+.+|+.. ++..|++|+.++..+..
T Consensus 2 ~diCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~~ 57 (156)
T PHA02862 2 SDICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKKT 57 (156)
T ss_pred CCEEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEEc
Confidence 46799999984332 34542 35899999999985 35589999998865443
No 74
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.56 E-value=0.0022 Score=48.79 Aligned_cols=56 Identities=27% Similarity=0.531 Sum_probs=41.0
Q ss_pred hhhcCCCCCcccccccccccCCCceEEeCCCCcccHHhHHH--HHhcCCccccccccccccc
Q 048466 42 LKEANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDR--WFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 42 ~~~~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~--wl~~~~~~CP~Cr~~~~~~ 101 (128)
..+..+++...|.||-+.+.-. ..+||+|..|--|... .|-. .+.||+||......
T Consensus 53 SaddtDEen~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~-~K~C~~CrTE~e~V 110 (493)
T COG5236 53 SADDTDEENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYM-QKGCPLCRTETEAV 110 (493)
T ss_pred cccccccccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHh-ccCCCccccccceE
Confidence 3445556667899999987543 7789999988888763 2334 67899999976543
No 75
>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=96.53 E-value=0.0011 Score=43.97 Aligned_cols=39 Identities=21% Similarity=0.420 Sum_probs=30.2
Q ss_pred CCCCCcccccccccccCCCceEEeCC------CCcccHHhHHHHH
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPC------LHRFHRACVDRWF 84 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C------~H~f~~~Ci~~wl 84 (128)
-.....+|.||++.+.+.+.+..++| .|.||.+|+.+|-
T Consensus 22 w~~~~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 22 WPRCTVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred ccccCeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 34446799999999988555666666 4789999999994
No 76
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.39 E-value=0.0018 Score=48.31 Aligned_cols=43 Identities=26% Similarity=0.561 Sum_probs=36.8
Q ss_pred cccccccccccCCCceEEeC-CCCcccHHhHHHHHhcCCcccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLP-CLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~-C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
..|+.|...+.++ ..++ |+|.||.+||...|...-..||.|..
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 6799999998887 6667 89999999999887765779999954
No 77
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.35 E-value=0.0013 Score=47.46 Aligned_cols=46 Identities=26% Similarity=0.564 Sum_probs=34.1
Q ss_pred ccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 52 SCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 52 ~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
.|-.|.---. +++...+.|.|+||..|...-. ...||.|++.+-..
T Consensus 5 hCn~C~~~~~-~~~f~LTaC~HvfC~~C~k~~~---~~~C~lCkk~ir~i 50 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTACRHVFCEPCLKASS---PDVCPLCKKSIRII 50 (233)
T ss_pred EeccccccCC-CCceeeeechhhhhhhhcccCC---ccccccccceeeee
Confidence 4777776555 6788889999999999975322 23899999985433
No 78
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.33 E-value=0.00088 Score=45.69 Aligned_cols=32 Identities=34% Similarity=0.812 Sum_probs=27.7
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccH
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHR 77 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~ 77 (128)
.....-+|.||+|++..++.+.+|||-.+||+
T Consensus 173 L~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 173 LKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred hcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 33455789999999999999999999988886
No 79
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.28 E-value=0.0031 Score=46.98 Aligned_cols=48 Identities=27% Similarity=0.618 Sum_probs=39.9
Q ss_pred cccccccccccCCC---ceEEeCCCCcccHHhHHHHHhcCCcccccccccc
Q 048466 51 ESCCVCLSRLKQGD---EMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSM 98 (128)
Q Consensus 51 ~~C~ICl~~~~~~~---~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~ 98 (128)
..|-||-+++...+ ..+.+.|||.++..|+.+.+......||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 57999999998763 2355679999999999988887677899999984
No 80
>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=96.24 E-value=0.0022 Score=34.32 Aligned_cols=42 Identities=29% Similarity=0.759 Sum_probs=23.1
Q ss_pred cccccccccCCCceEEeCCCCcccHHhHHHHHhcCCc-ccccc
Q 048466 53 CCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTK-TCPLC 94 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~-~CP~C 94 (128)
|.+|.+....+..-....|+-.+|..|+..+++..+. .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 6788888777622222238889999999999987333 69987
No 81
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.23 E-value=0.0024 Score=35.78 Aligned_cols=45 Identities=27% Similarity=0.577 Sum_probs=32.5
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
..|..|...-..+ ..++|+|..+..|+.-+ + -+.||.|.+++...
T Consensus 8 ~~~~~~~~~~~~~---~~~pCgH~I~~~~f~~~--r-YngCPfC~~~~~~~ 52 (55)
T PF14447_consen 8 QPCVFCGFVGTKG---TVLPCGHLICDNCFPGE--R-YNGCPFCGTPFEFD 52 (55)
T ss_pred eeEEEcccccccc---ccccccceeeccccChh--h-ccCCCCCCCcccCC
Confidence 3455666554444 77899999999998653 3 55899999887654
No 82
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=96.06 E-value=0.0029 Score=34.32 Aligned_cols=34 Identities=18% Similarity=0.588 Sum_probs=23.6
Q ss_pred EEeCC-CCcccHHhHHHHHhcCCccccccccccccc
Q 048466 67 RVLPC-LHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 67 ~~l~C-~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
..+.| .|..|..|+...+.+ +..||.|..+++.+
T Consensus 14 ~Li~C~dHYLCl~CLt~ml~~-s~~C~iC~~~LPtk 48 (50)
T PF03854_consen 14 GLIKCSDHYLCLNCLTLMLSR-SDRCPICGKPLPTK 48 (50)
T ss_dssp SEEE-SS-EEEHHHHHHT-SS-SSEETTTTEE----
T ss_pred CeeeecchhHHHHHHHHHhcc-ccCCCcccCcCccc
Confidence 45678 588999999999988 88999999998865
No 83
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.00 E-value=0.0079 Score=43.77 Aligned_cols=53 Identities=17% Similarity=0.256 Sum_probs=45.1
Q ss_pred CCcccccccccccCCCceEEeC-CCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLP-CLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~-C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
..+.|++|.+.+.+.-+...|. |||+++..|....+.. -..||+|-..+....
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~-D~v~pv~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRK-DMVDPVTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccc-cccccCCCCcCcccc
Confidence 5678999999999887777775 9999999999998877 779999988776554
No 84
>PHA03096 p28-like protein; Provisional
Probab=95.90 E-value=0.0042 Score=46.31 Aligned_cols=48 Identities=21% Similarity=0.468 Sum_probs=33.8
Q ss_pred cccccccccccCC----CceEEeC-CCCcccHHhHHHHHhcC--Cc---ccccccccc
Q 048466 51 ESCCVCLSRLKQG----DEMRVLP-CLHRFHRACVDRWFNEW--TK---TCPLCRFSM 98 (128)
Q Consensus 51 ~~C~ICl~~~~~~----~~~~~l~-C~H~f~~~Ci~~wl~~~--~~---~CP~Cr~~~ 98 (128)
..|.||++..... .....++ |.|.||..|+..|.... .. .||.|+..+
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~~~~~~ 236 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRRLNTVI 236 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccchhhHH
Confidence 7899999986642 1334555 99999999999998752 22 455555544
No 85
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.85 E-value=0.0062 Score=42.26 Aligned_cols=34 Identities=26% Similarity=0.798 Sum_probs=27.0
Q ss_pred eCCCCcccHHhHHHHHhc-----CC-----cccccccccccccc
Q 048466 69 LPCLHRFHRACVDRWFNE-----WT-----KTCPLCRFSMGEEM 102 (128)
Q Consensus 69 l~C~H~f~~~Ci~~wl~~-----~~-----~~CP~Cr~~~~~~~ 102 (128)
..|+..||.-|+..||+. ++ ..||.|..++..+.
T Consensus 188 ~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKm 231 (234)
T KOG3268|consen 188 IQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKM 231 (234)
T ss_pred cccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeec
Confidence 459999999999999974 11 15999999887664
No 86
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.77 E-value=0.006 Score=45.82 Aligned_cols=47 Identities=26% Similarity=0.687 Sum_probs=36.2
Q ss_pred CCCCCcccccccccccCCCceEEeCC--CCcccHHhHHHHHhcCCcccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPC--LHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C--~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
....-.+||||.+.+..+ ...| ||..|.+|-.+ .+..||.||.+++.
T Consensus 44 ~~~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~~----~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRTK----VSNKCPTCRLPIGN 92 (299)
T ss_pred cchhhccCchhhccCccc----ceecCCCcEehhhhhhh----hcccCCcccccccc
Confidence 344557899999999875 3455 89999999653 25689999999983
No 87
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.72 E-value=0.0027 Score=47.13 Aligned_cols=42 Identities=26% Similarity=0.644 Sum_probs=32.4
Q ss_pred CcccccccccccCCCceEEeCCCCc-ccHHhHHHHHhcCCccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCLHR-FHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~H~-f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
...|.||++...+- ..|+|||. -|..|-.. -..||+||+-+.
T Consensus 300 ~~LC~ICmDaP~DC---vfLeCGHmVtCt~CGkr-----m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDC---VFLECGHMVTCTKCGKR-----MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcce---EEeecCcEEeehhhccc-----cccCchHHHHHH
Confidence 56799999986654 77899996 78888533 458999998654
No 88
>PF04641 Rtf2: Rtf2 RING-finger
Probab=95.69 E-value=0.016 Score=42.65 Aligned_cols=54 Identities=22% Similarity=0.357 Sum_probs=42.0
Q ss_pred CCCCcccccccccccCCCceEEe-CCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 47 EFEGESCCVCLSRLKQGDEMRVL-PCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~l-~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
....+.|||....|.....+..+ +|||+|...++...- . ...||+|-.++....
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~-~~~Cp~c~~~f~~~D 164 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-K-SKKCPVCGKPFTEED 164 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-c-cccccccCCccccCC
Confidence 46668899999999654445445 699999999999863 2 557999999887554
No 89
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.53 E-value=0.007 Score=44.85 Aligned_cols=46 Identities=30% Similarity=0.574 Sum_probs=37.2
Q ss_pred CcccccccccccCCC-ceEEeCCCCcccHHhHHHHHhcCCcccccccc
Q 048466 50 GESCCVCLSRLKQGD-EMRVLPCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~-~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
...||||.+.+.... ....++|+|..|..|+......+ -+||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~-y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEG-YTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHhccC-CCCCcccc
Confidence 345999999876543 34567899999999999888874 89999988
No 90
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.48 E-value=0.013 Score=45.19 Aligned_cols=49 Identities=18% Similarity=0.316 Sum_probs=40.6
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCC--cccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWT--KTCPLCRF 96 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~--~~CP~Cr~ 96 (128)
.....|||=.+.-.+..+...+.|||+...+.+.+..+.+. ..||+|-.
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~ 382 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPV 382 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCc
Confidence 34567999888877767778999999999999999888765 68999944
No 91
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=95.28 E-value=0.022 Score=38.74 Aligned_cols=37 Identities=22% Similarity=0.484 Sum_probs=24.1
Q ss_pred CCcccccccccccCCC---------ceEEeCCCC-cccHHhHHHHHh
Q 048466 49 EGESCCVCLSRLKQGD---------EMRVLPCLH-RFHRACVDRWFN 85 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~---------~~~~l~C~H-~f~~~Ci~~wl~ 85 (128)
++..|+||||...+.- ..+-.-|+. .-|..|++++.+
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkk 47 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKK 47 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHH
Confidence 3578999999987641 111122543 368899998865
No 92
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=95.27 E-value=0.02 Score=44.02 Aligned_cols=56 Identities=21% Similarity=0.458 Sum_probs=36.3
Q ss_pred CCCCCcccccccccccCCC-------------------ceEEeCCCCcccHHhHHHHHhcC------------Ccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGD-------------------EMRVLPCLHRFHRACVDRWFNEW------------TKTCPLC 94 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~-------------------~~~~l~C~H~f~~~Ci~~wl~~~------------~~~CP~C 94 (128)
...+.+.|--|+..-.+=+ .....-|...+|.+|+.+|+..+ +..||+|
T Consensus 267 ~~~e~e~CigC~~~~~~vkl~k~C~~~~~~g~~~~~~~~C~~C~CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtC 346 (358)
T PF10272_consen 267 SGQELEPCIGCMQAQPNVKLVKRCADEEQEGSPLPNEPPCQQCYCRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTC 346 (358)
T ss_pred CccccCCccccccCCCCcEEEeccCCcccCCcccccCCCCccccccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCC
Confidence 3456677888998643200 00111256678999999999752 2369999
Q ss_pred ccccccc
Q 048466 95 RFSMGEE 101 (128)
Q Consensus 95 r~~~~~~ 101 (128)
|+.+...
T Consensus 347 Ra~FCil 353 (358)
T PF10272_consen 347 RAKFCIL 353 (358)
T ss_pred cccceee
Confidence 9987644
No 93
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.25 E-value=0.043 Score=30.69 Aligned_cols=34 Identities=41% Similarity=0.924 Sum_probs=28.1
Q ss_pred CCcccccccccccCCCceEEeC-CCCcccHHhHHH
Q 048466 49 EGESCCVCLSRLKQGDEMRVLP-CLHRFHRACVDR 82 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~-C~H~f~~~Ci~~ 82 (128)
....|++|-+.|..++.+.+-+ |+-.+|..|+..
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 4567999999998777777666 999999999754
No 94
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.10 E-value=0.023 Score=37.58 Aligned_cols=50 Identities=24% Similarity=0.543 Sum_probs=39.1
Q ss_pred CCcccccccccccCCCceEEe-C---CCCcccHHhHHHHHhc--CCccccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVL-P---CLHRFHRACVDRWFNE--WTKTCPLCRFSMGEE 101 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l-~---C~H~f~~~Ci~~wl~~--~~~~CP~Cr~~~~~~ 101 (128)
...+|.||.|...++ +.+ | ||-..|..|....++. ....||.|++++-..
T Consensus 79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 778999999987664 333 2 8999999999877764 356899999988655
No 95
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=95.05 E-value=0.0096 Score=49.34 Aligned_cols=51 Identities=29% Similarity=0.665 Sum_probs=39.8
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCc-cccccccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTK-TCPLCRFSMGEEMKLH 105 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~-~CP~Cr~~~~~~~~~~ 105 (128)
..|.+|++ . +....++|+|.||.+|+...+..... .||.||..+..+....
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s 506 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLS 506 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhh
Confidence 89999999 2 44477889999999999988876333 5999999877655433
No 96
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.76 E-value=0.017 Score=48.69 Aligned_cols=39 Identities=33% Similarity=0.500 Sum_probs=32.4
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHh
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFN 85 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~ 85 (128)
..+.+..|.+|...+.. .+....+|||.||..|+.....
T Consensus 813 v~ep~d~C~~C~~~ll~-~pF~vf~CgH~FH~~Cl~~~v~ 851 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLI-KPFYVFPCGHCFHRDCLIRHVL 851 (911)
T ss_pred EecCccchHHhcchhhc-CcceeeeccchHHHHHHHHHHH
Confidence 44678899999999876 3677789999999999987654
No 97
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.70 E-value=0.025 Score=47.54 Aligned_cols=46 Identities=24% Similarity=0.651 Sum_probs=35.9
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
.....|..|-..+..| .....|+|.||..|+. .....||.|+..+.
T Consensus 838 ~q~skCs~C~~~LdlP--~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 838 FQVSKCSACEGTLDLP--FVHFLCGHSYHQHCLE----DKEDKCPKCLPELR 883 (933)
T ss_pred eeeeeecccCCccccc--eeeeecccHHHHHhhc----cCcccCCccchhhh
Confidence 4446899999988765 4556799999999997 33678999988544
No 98
>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=94.40 E-value=0.015 Score=42.26 Aligned_cols=51 Identities=35% Similarity=0.654 Sum_probs=38.0
Q ss_pred CCcccccccccc-cCCCceE-EeC-CCCcccHHhHHHHHhcCCcccc--ccccccc
Q 048466 49 EGESCCVCLSRL-KQGDEMR-VLP-CLHRFHRACVDRWFNEWTKTCP--LCRFSMG 99 (128)
Q Consensus 49 ~~~~C~ICl~~~-~~~~~~~-~l~-C~H~f~~~Ci~~wl~~~~~~CP--~Cr~~~~ 99 (128)
.+..||+|..+. -+|+... .-| |-|..|.+|...-+.++...|| -|.+.+.
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 445899999863 3444322 335 9999999999999999888999 7866443
No 99
>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=94.29 E-value=0.042 Score=40.83 Aligned_cols=48 Identities=29% Similarity=0.575 Sum_probs=35.9
Q ss_pred cccccccc-ccCCCceE-EeCCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 52 SCCVCLSR-LKQGDEMR-VLPCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 52 ~C~ICl~~-~~~~~~~~-~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
.|++|-.. +.+++-.. .-+|+|..|.+|....+..+...||.|...+-
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 58888875 33443222 22699999999999999888889999976543
No 100
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=94.14 E-value=0.011 Score=51.52 Aligned_cols=49 Identities=24% Similarity=0.604 Sum_probs=39.3
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
.....|.||++.+.+.. ....|+|.+|..|...|+.. +..||.|+....
T Consensus 1151 ~~~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~-~s~~~~~ksi~~ 1199 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYA-SSRCPICKSIKG 1199 (1394)
T ss_pred hcccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHH-hccCcchhhhhh
Confidence 34459999999988421 45579999999999999999 889999986443
No 101
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.55 E-value=0.0042 Score=47.85 Aligned_cols=52 Identities=25% Similarity=0.582 Sum_probs=42.7
Q ss_pred CCCcccccccccccCC-CceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 48 FEGESCCVCLSRLKQG-DEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~-~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
.....|+||.+.+... +.+..+.|||.+|..|+.+|+.. ...||.|+..++.
T Consensus 194 slv~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~-~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 194 SLVGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLAT-KRKLPSCRRELPK 246 (465)
T ss_pred HHHhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHH-HHHhHHHHhhhhh
Confidence 3446799999988754 45566789999999999999998 7789999998864
No 102
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.55 E-value=0.043 Score=40.98 Aligned_cols=34 Identities=24% Similarity=0.487 Sum_probs=26.4
Q ss_pred CCCcccHHhHHHHHhc------------CCcccccccccccccccc
Q 048466 71 CLHRFHRACVDRWFNE------------WTKTCPLCRFSMGEEMKL 104 (128)
Q Consensus 71 C~H~f~~~Ci~~wl~~------------~~~~CP~Cr~~~~~~~~~ 104 (128)
|...+|.+|+.+|+.. ++.+||+||+.+...+..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~ 370 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVH 370 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeee
Confidence 5678999999999864 245799999988765543
No 103
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.34 E-value=0.13 Score=39.98 Aligned_cols=41 Identities=29% Similarity=0.676 Sum_probs=29.6
Q ss_pred CCCCCccccccc-ccccCCCceEEeCCCCcccHHhHHHHHhc
Q 048466 46 NEFEGESCCVCL-SRLKQGDEMRVLPCLHRFHRACVDRWFNE 86 (128)
Q Consensus 46 ~~~~~~~C~ICl-~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~ 86 (128)
......+|.||. +.....+......|+|.||.+|+.+.+..
T Consensus 142 ~~~~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 142 SKLPKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 334567899999 44443334444569999999999988874
No 104
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=91.95 E-value=0.29 Score=29.41 Aligned_cols=55 Identities=20% Similarity=0.484 Sum_probs=22.2
Q ss_pred CCCcccccccccccC---CCceEEe-CCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 48 FEGESCCVCLSRLKQ---GDEMRVL-PCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~---~~~~~~l-~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
.....|-||-+.+.. ++..... .|+--.|..|..-=.+.+++.||.|++.+....
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~k 65 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHK 65 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----T
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccccc
Confidence 345689999998753 3322222 377778999987555556889999998776443
No 105
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.76 E-value=0.13 Score=37.77 Aligned_cols=58 Identities=26% Similarity=0.606 Sum_probs=37.9
Q ss_pred cCCCCCcccccccccccCCCce-EEeCC-----CCcccHHhHHHHHhcC-------Ccccccccccccccc
Q 048466 45 ANEFEGESCCVCLSRLKQGDEM-RVLPC-----LHRFHRACVDRWFNEW-------TKTCPLCRFSMGEEM 102 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~~~~~-~~l~C-----~H~f~~~Ci~~wl~~~-------~~~CP~Cr~~~~~~~ 102 (128)
.+.+.+..|=||+..-++...- -+-|| .|-.|.+|+..|+... ...||.|++.+....
T Consensus 15 ~~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv~ 85 (293)
T KOG3053|consen 15 DNQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIVF 85 (293)
T ss_pred CccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheeec
Confidence 3445556799999875443111 12255 3669999999999751 236999999776443
No 106
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=90.72 E-value=0.15 Score=42.72 Aligned_cols=40 Identities=25% Similarity=0.649 Sum_probs=27.3
Q ss_pred ccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccc
Q 048466 52 SCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPL 93 (128)
Q Consensus 52 ~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~ 93 (128)
.|+||.-.+.- .......|+|+.|.+|...|+.. ...||.
T Consensus 1030 ~C~~C~l~V~g-ss~~Cg~C~Hv~H~sc~~eWf~~-gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRG-SSNFCGTCGHVGHTSCMMEWFRT-GDVCPS 1069 (1081)
T ss_pred eeeeEeeEeec-cchhhccccccccHHHHHHHHhc-CCcCCC
Confidence 35555444321 22344569999999999999999 567774
No 107
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.42 E-value=0.11 Score=39.23 Aligned_cols=47 Identities=28% Similarity=0.542 Sum_probs=30.8
Q ss_pred CcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
...|.-|=-.+.. .-+.++|+|+||.+|... .. -+.||.|-..+...
T Consensus 90 VHfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~-dK~Cp~C~d~VqrI 136 (389)
T KOG2932|consen 90 VHFCDRCDFPIAI--YGRMIPCKHVFCLECARS--DS-DKICPLCDDRVQRI 136 (389)
T ss_pred eEeecccCCccee--eecccccchhhhhhhhhc--Cc-cccCcCcccHHHHH
Confidence 3456667655442 225568999999999753 22 45899996655443
No 108
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=89.50 E-value=0.086 Score=43.60 Aligned_cols=53 Identities=26% Similarity=0.627 Sum_probs=40.9
Q ss_pred CCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc--CCccccccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE--WTKTCPLCRFSMGEE 101 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~--~~~~CP~Cr~~~~~~ 101 (128)
......+|+||.+.+..+ ..+.|.|.|+..|+..-+.. ....||+|+..+...
T Consensus 17 ~~~k~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~ 71 (684)
T KOG4362|consen 17 AMQKILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKR 71 (684)
T ss_pred HHhhhccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhhhh
Confidence 334557999999998877 77889999999999865544 245799999766544
No 109
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=87.55 E-value=0.37 Score=38.16 Aligned_cols=36 Identities=31% Similarity=0.563 Sum_probs=30.6
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE 86 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~ 86 (128)
+++..|+||-.-+.++ ..++|+|..|..|...-+..
T Consensus 2 eeelkc~vc~~f~~ep---iil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYREP---IILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccCc---eEeecccHHHHHHHHhhccc
Confidence 4567899999999988 88999999999998866544
No 110
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.97 E-value=0.2 Score=41.29 Aligned_cols=42 Identities=26% Similarity=0.546 Sum_probs=30.0
Q ss_pred cccccccccccCCC-ceEEeCCCCcccHHhHHHHHhcCCcccccccc
Q 048466 51 ESCCVCLSRLKQGD-EMRVLPCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 51 ~~C~ICl~~~~~~~-~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
..|+||+..|.... ....+.|||..|..|+..-. +.+|| |+.
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly---n~scp-~~~ 54 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY---NASCP-TKR 54 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhHh---hccCC-CCc
Confidence 57999988876542 12445699999999998655 34798 543
No 111
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.87 E-value=0.31 Score=39.61 Aligned_cols=53 Identities=26% Similarity=0.736 Sum_probs=40.1
Q ss_pred hhcCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccccc
Q 048466 43 KEANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMK 103 (128)
Q Consensus 43 ~~~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 103 (128)
.+........|.+|++.. .. +..+|. |..|+..|+.. +..||+|+..+.....
T Consensus 472 ~~~l~~~~~~~~~~~~~~-~~---~~~~~~---~~~~l~~~~~~-~~~~pl~~~~~~~~~~ 524 (543)
T KOG0802|consen 472 PSQLREPNDVCAICYQEM-SA---RITPCS---HALCLRKWLYV-QEVCPLCHTYMKEDDF 524 (543)
T ss_pred hhhhhcccCcchHHHHHH-Hh---cccccc---chhHHHhhhhh-ccccCCCchhhhcccc
Confidence 334455667899999998 22 555677 78999999998 7899999887765544
No 112
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=85.59 E-value=0.42 Score=35.57 Aligned_cols=53 Identities=25% Similarity=0.681 Sum_probs=36.5
Q ss_pred CCCcccccccccccCCCc-eEEeCC--C---CcccHHhHHHHHhc-CCcccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDE-MRVLPC--L---HRFHRACVDRWFNE-WTKTCPLCRFSMGE 100 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~-~~~l~C--~---H~f~~~Ci~~wl~~-~~~~CP~Cr~~~~~ 100 (128)
..+..|-||.++...... ....|| . ...|..|+..|+.. +...|..|...+..
T Consensus 76 ~~~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 76 SSGPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCCCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 335789999997654321 244565 2 34799999999984 36689999875543
No 113
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=85.55 E-value=0.45 Score=34.05 Aligned_cols=50 Identities=24% Similarity=0.607 Sum_probs=37.7
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
.....|.+|..-...+ ++.-.|+-.+|..|+..++++ ...||.|..-++.
T Consensus 179 dnlk~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~-~~~cphc~d~w~h 228 (235)
T KOG4718|consen 179 DNLKNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQR-RDICPHCGDLWTH 228 (235)
T ss_pred HHHHHHhHhHHHhhee--eccCcccchhhhHHHHHHhcc-cCcCCchhcccCc
Confidence 4457899999987755 222347777999999999999 8899999554443
No 114
>PLN02189 cellulose synthase
Probab=85.24 E-value=1.5 Score=38.34 Aligned_cols=52 Identities=25% Similarity=0.537 Sum_probs=37.2
Q ss_pred CCCcccccccccccC---CCceEEeC-CCCcccHHhHHHHHhcCCccccccccccc
Q 048466 48 FEGESCCVCLSRLKQ---GDEMRVLP-CLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~---~~~~~~l~-C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
.....|.||-+++.. ++...... |+--.|..|..-=-+.+++.||.|++.+.
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 344589999999763 33333333 77779999996444456889999999886
No 115
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=84.66 E-value=1 Score=38.36 Aligned_cols=56 Identities=25% Similarity=0.604 Sum_probs=39.6
Q ss_pred CCcccccccccccCCCceEEeCC--C---CcccHHhHHHHHhc-CCccccccccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPC--L---HRFHRACVDRWFNE-WTKTCPLCRFSMGEEMKLH 105 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C--~---H~f~~~Ci~~wl~~-~~~~CP~Cr~~~~~~~~~~ 105 (128)
++..|.||..+=..+++.. -|| . ...|.+|+.+|+.- +...|-.|+.++..+.--.
T Consensus 11 d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~ 72 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYK 72 (1175)
T ss_pred cchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecc
Confidence 4478999998765544433 344 2 24899999999985 3457999999887665333
No 116
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=84.46 E-value=0.4 Score=39.22 Aligned_cols=25 Identities=36% Similarity=0.882 Sum_probs=18.4
Q ss_pred EeCCCCcccHHhHHHHHhcCCcccccccc
Q 048466 68 VLPCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 68 ~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
...|++.||..|+.. .+..||.|-.
T Consensus 534 C~~C~avfH~~C~~r----~s~~CPrC~R 558 (580)
T KOG1829|consen 534 CSTCLAVFHKKCLRR----KSPCCPRCER 558 (580)
T ss_pred HHHHHHHHHHHHHhc----cCCCCCchHH
Confidence 345999999999753 2456999944
No 117
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=83.98 E-value=0.88 Score=34.56 Aligned_cols=48 Identities=17% Similarity=0.243 Sum_probs=36.4
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcC--Cccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEW--TKTCPLCR 95 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~--~~~CP~Cr 95 (128)
.....||+=-+.-.+..+...+.|||+.-...+....+++ +..||.|-
T Consensus 334 Hs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 334 HSLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred cceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 3456788877766655566778999999999998877764 45799993
No 118
>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=83.16 E-value=1 Score=24.65 Aligned_cols=43 Identities=19% Similarity=0.428 Sum_probs=19.5
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhc----CCcccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE----WTKTCPLCRF 96 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~----~~~~CP~Cr~ 96 (128)
..|++-...+..+ ++...|.|.-|.+ +..|+.. ..-.||.|.+
T Consensus 3 L~CPls~~~i~~P--~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~ 49 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNK 49 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT--SS--EE-HHHHHHHHHHS---B-TTT--
T ss_pred eeCCCCCCEEEeC--ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcC
Confidence 4688988888765 4445699984432 2244443 2336999975
No 119
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=83.02 E-value=0.91 Score=32.19 Aligned_cols=42 Identities=29% Similarity=0.645 Sum_probs=27.4
Q ss_pred CCCccccccccc-----ccCCCceEEe-CCCCcccHHhHHHHHhcCCcccccccc
Q 048466 48 FEGESCCVCLSR-----LKQGDEMRVL-PCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 48 ~~~~~C~ICl~~-----~~~~~~~~~l-~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
..+..|-+|-++ |... .+..- .|+..||..|+. ...||-|..
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~-~~~~C~~C~~v~H~~C~~------~~~CpkC~R 197 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQID-TTVRCPKCKSVFHKSCFR------KKSCPKCAR 197 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCC-CeeeCCcCccccchhhcC------CCCCCCcHh
Confidence 456778888753 2221 23333 499999999975 246999943
No 120
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.78 E-value=0.68 Score=33.06 Aligned_cols=40 Identities=30% Similarity=0.721 Sum_probs=29.0
Q ss_pred cccccccccCCCceEEeCCCCc-ccHHhHHHHHhcCCcccccccccccc
Q 048466 53 CCVCLSRLKQGDEMRVLPCLHR-FHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~C~H~-f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
|-.|-+.- ..+..+||.|. +|..|-.. -..||+|+.....
T Consensus 161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLPCRHLCLCGICDES-----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcCC---ceEEeecccceEeccccccc-----CccCCCCcChhhc
Confidence 88888763 34677899987 88888543 3469999876543
No 121
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=82.73 E-value=1.3 Score=37.33 Aligned_cols=40 Identities=23% Similarity=0.463 Sum_probs=28.0
Q ss_pred cccccccccccCCCceEEeC-CCCcccHHhHHHHHhcCCccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLP-CLHRFHRACVDRWFNEWTKTCPL 93 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~-C~H~f~~~Ci~~wl~~~~~~CP~ 93 (128)
..|.+|-..+.- ....-+ |+|.-|.+|+.+|+.. ..-||.
T Consensus 780 ~~CtVC~~vi~G--~~~~c~~C~H~gH~sh~~sw~~~-~s~ca~ 820 (839)
T KOG0269|consen 780 AKCTVCDLVIRG--VDVWCQVCGHGGHDSHLKSWFFK-ASPCAK 820 (839)
T ss_pred cCceeecceeee--eEeecccccccccHHHHHHHHhc-CCCCcc
Confidence 356677665432 122233 9999999999999998 666766
No 122
>PLN02436 cellulose synthase A
Probab=82.32 E-value=2.3 Score=37.34 Aligned_cols=51 Identities=22% Similarity=0.580 Sum_probs=36.8
Q ss_pred CCccccccccccc---CCCceEEeC-CCCcccHHhHHHHHhcCCccccccccccc
Q 048466 49 EGESCCVCLSRLK---QGDEMRVLP-CLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 49 ~~~~C~ICl~~~~---~~~~~~~l~-C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
....|.||-+++. +++...... |+--.|..|..-=-+.+++.||.|++.+.
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 4458999999964 344443333 77779999996444456889999999886
No 123
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.79 E-value=1.3 Score=35.09 Aligned_cols=38 Identities=21% Similarity=0.486 Sum_probs=30.7
Q ss_pred CCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc
Q 048466 47 EFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE 86 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~ 86 (128)
......|-||.+.... .+..+.|+|.|+..|+..++.+
T Consensus 67 ~~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CCccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 3455789999998764 3466779999999999998876
No 124
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=79.03 E-value=2.4 Score=31.25 Aligned_cols=52 Identities=15% Similarity=0.188 Sum_probs=37.3
Q ss_pred CCcccccccccccCCCceEEe-CCCCcccHHhHHHHHhcCCccccccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVL-PCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMK 103 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l-~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~ 103 (128)
....|+|---++...-....+ .|||+|-...+.+.- ..+|++|.+.+.....
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~~dv 162 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQEDDV 162 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcccccCe
Confidence 346699887777654333444 599999998887644 5689999998876543
No 125
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=78.81 E-value=3.6 Score=36.15 Aligned_cols=51 Identities=20% Similarity=0.538 Sum_probs=35.8
Q ss_pred CCcccccccccccC---CCceEEe-CCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 49 EGESCCVCLSRLKQ---GDEMRVL-PCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 49 ~~~~C~ICl~~~~~---~~~~~~l-~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
....|-||-+++.. ++..... .|+--.|..|..-=-+.+++.||.|++.+.
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 34589999999764 3333333 377679999986433446889999999876
No 126
>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 PLN02400 cellulose synthase
Probab=77.29 E-value=3.1 Score=36.55 Aligned_cols=51 Identities=24% Similarity=0.531 Sum_probs=35.3
Q ss_pred CCcccccccccccC---CCceEEe-CCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 49 EGESCCVCLSRLKQ---GDEMRVL-PCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 49 ~~~~C~ICl~~~~~---~~~~~~l-~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
....|-||-+++.. ++..... .|+--.|..|..-=-+.+++.||.|++.+.
T Consensus 35 ~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 35 NGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 44589999999764 3333333 377778999985322336789999999876
No 128
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.32 E-value=1.6 Score=32.72 Aligned_cols=37 Identities=22% Similarity=0.449 Sum_probs=27.9
Q ss_pred CCcccccccccccCCCceEEeC--CCCcccHHhHHHHHhc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLP--CLHRFHRACVDRWFNE 86 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~--C~H~f~~~Ci~~wl~~ 86 (128)
....|.+|.|.+++. ...+.| =.|.||+.|-.+-++.
T Consensus 267 apLcCTLC~ERLEDT-HFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDT-HFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccC-ceeecCCCcccceecccCHHHHHh
Confidence 337899999999874 333333 2799999999988876
No 129
>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=74.74 E-value=1.6 Score=24.07 Aligned_cols=42 Identities=26% Similarity=0.617 Sum_probs=20.2
Q ss_pred cccccccccCCC------ceEEeC-CCCcccHHhHHHHHhcCCccccccc
Q 048466 53 CCVCLSRLKQGD------EMRVLP-CLHRFHRACVDRWFNEWTKTCPLCR 95 (128)
Q Consensus 53 C~ICl~~~~~~~------~~~~l~-C~H~f~~~Ci~~wl~~~~~~CP~Cr 95 (128)
|--|+..|..+. ....-+ |++.||.+|=. ++...-.+||-|.
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~-fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDV-FIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHH-TTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcCh-hhhccccCCcCCC
Confidence 556777776542 122334 99999999953 2222244799883
No 130
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=74.52 E-value=1.7 Score=36.94 Aligned_cols=56 Identities=13% Similarity=0.236 Sum_probs=38.8
Q ss_pred CCCcccccccccccCCC-ceEEeC---CCCcccHHhHHHHHhcC-----Cccccccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGD-EMRVLP---CLHRFHRACVDRWFNEW-----TKTCPLCRFSMGEEMK 103 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~-~~~~l~---C~H~f~~~Ci~~wl~~~-----~~~CP~Cr~~~~~~~~ 103 (128)
.....|.+|...+..++ .....+ |.|.+|..||..|..+. ...|++|..-+...-.
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR 158 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSR 158 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhh
Confidence 34567888888877632 223334 99999999999998751 3357888776665543
No 131
>PLN02195 cellulose synthase A
Probab=74.05 E-value=4.6 Score=35.20 Aligned_cols=52 Identities=19% Similarity=0.401 Sum_probs=36.7
Q ss_pred CCcccccccccccC---CCceEEe-CCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 49 EGESCCVCLSRLKQ---GDEMRVL-PCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 49 ~~~~C~ICl~~~~~---~~~~~~l-~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
....|.||-+.+.. ++..... .|+--.|..|..-=-+.+++.||.|++.+..
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccc
Confidence 34579999998754 3333333 3787799999854334468899999998873
No 132
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=72.65 E-value=4.2 Score=29.99 Aligned_cols=35 Identities=14% Similarity=0.193 Sum_probs=29.4
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHh
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFN 85 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~ 85 (128)
.+=+.|+.||.++.++ ...+=||.|+.+||.+++.
T Consensus 41 K~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDP---VITPDGYLFDREAILEYIL 75 (303)
T ss_pred CCcceeeeecccccCC---ccCCCCeeeeHHHHHHHHH
Confidence 3446699999999988 7778899999999998864
No 133
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.30 E-value=1.9 Score=33.63 Aligned_cols=46 Identities=20% Similarity=0.426 Sum_probs=32.2
Q ss_pred CCCcccccccccccCCCc--eEEeCCCCcccHHhHHHHHhcCCcccccc
Q 048466 48 FEGESCCVCLSRLKQGDE--MRVLPCLHRFHRACVDRWFNEWTKTCPLC 94 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~--~~~l~C~H~f~~~Ci~~wl~~~~~~CP~C 94 (128)
..-..|+.|.-.+..... ..+-.|+|.||..|...|... +..|..|
T Consensus 304 ~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~-~~~~~~~ 351 (384)
T KOG1812|consen 304 KRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTH-NGECYEC 351 (384)
T ss_pred HhcCcCcccceeeeecCCcceEEeeccccchhhcCcchhhC-CccccCc
Confidence 445689999987654432 233359999999999999876 5555443
No 134
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.59 E-value=2.3 Score=36.06 Aligned_cols=39 Identities=23% Similarity=0.423 Sum_probs=29.3
Q ss_pred CCCcccccccccccCC----CceEEeCCCCcccHHhHHHHHhc
Q 048466 48 FEGESCCVCLSRLKQG----DEMRVLPCLHRFHRACVDRWFNE 86 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~----~~~~~l~C~H~f~~~Ci~~wl~~ 86 (128)
..+..|.-|.+..... +.+..+.|+|.||..|+.....+
T Consensus 782 ~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~ 824 (846)
T KOG2066|consen 782 SVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLR 824 (846)
T ss_pred eehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHh
Confidence 3445799999986532 35677889999999999866555
No 135
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=70.90 E-value=6.8 Score=34.45 Aligned_cols=51 Identities=20% Similarity=0.449 Sum_probs=36.8
Q ss_pred CCcccccccccccC---CCceEEe-CCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 49 EGESCCVCLSRLKQ---GDEMRVL-PCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 49 ~~~~C~ICl~~~~~---~~~~~~l-~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
....|-||-+++.. ++..... .|+--.|..|..-=.+.+++.||.|++.+.
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 45679999998764 3333333 377779999996444456889999999886
No 136
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=70.26 E-value=2.7 Score=31.21 Aligned_cols=48 Identities=23% Similarity=0.432 Sum_probs=33.4
Q ss_pred cccccccccccCCCceEEe----CCCCcccHHhHHHHHhc--------CCcccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVL----PCLHRFHRACVDRWFNE--------WTKTCPLCRFSM 98 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l----~C~H~f~~~Ci~~wl~~--------~~~~CP~Cr~~~ 98 (128)
..|-+|.+.+.+.+..+.. .|.-.+|..|+...+.. ....||.|++.+
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 5899999999543433222 38889999999984432 134699998854
No 137
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=70.24 E-value=5.6 Score=30.36 Aligned_cols=50 Identities=28% Similarity=0.551 Sum_probs=33.8
Q ss_pred cccccccccccCCCceEEeC--CCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLP--CLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~--C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
..|+||.++....+ ...+| |++..|..|+..-... ..+||.||++.....
T Consensus 250 ~s~p~~~~~~~~~d-~~~lP~~~~~~~~l~~~~t~~~~-~~~~~~~rk~~~~~t 301 (327)
T KOG2068|consen 250 PSCPICYEDLDLTD-SNFLPCPCGFRLCLFCHKTISDG-DGRCPGCRKPYERNT 301 (327)
T ss_pred CCCCCCCCcccccc-cccccccccccchhhhhhccccc-CCCCCccCCccccCc
Confidence 67999999874322 12344 7777777776654444 779999997766543
No 138
>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=69.90 E-value=0.32 Score=28.67 Aligned_cols=41 Identities=22% Similarity=0.448 Sum_probs=21.2
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
..||.|..++.... ++.+|..|-..+.. ...||-|..++..
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~~~~--~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKDYKK--EAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--EEEE--EEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC-------CEEECcccccccee--cccCCCcccHHHH
Confidence 57999999876431 55566667554222 4589999887754
No 139
>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=68.73 E-value=1.6 Score=34.11 Aligned_cols=50 Identities=28% Similarity=0.418 Sum_probs=0.8
Q ss_pred CCCCCcccccccccccCC-----------CceEEeCCCCcccHHhHHHHHhc-----CCcccccccccc
Q 048466 46 NEFEGESCCVCLSRLKQG-----------DEMRVLPCLHRFHRACVDRWFNE-----WTKTCPLCRFSM 98 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~-----------~~~~~l~C~H~f~~~Ci~~wl~~-----~~~~CP~Cr~~~ 98 (128)
-......|++=+..+.-+ .+...+.|||++... .|-.. ....||+||..-
T Consensus 273 lNa~rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~g 338 (416)
T PF04710_consen 273 LNAGRPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGYH---NWGQDSDRDPRSRTCPLCRQVG 338 (416)
T ss_dssp SS-------------------------------------------------------------------
T ss_pred HhhcCCCCCcCCCccccccccccccccccCceeeccccceeeec---ccccccccccccccCCCccccC
Confidence 334456788877665422 244567899986654 46442 245899998743
No 140
>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=68.58 E-value=3.5 Score=24.01 Aligned_cols=12 Identities=42% Similarity=1.381 Sum_probs=9.0
Q ss_pred ccHHhHHHHHhc
Q 048466 75 FHRACVDRWFNE 86 (128)
Q Consensus 75 f~~~Ci~~wl~~ 86 (128)
||..|+.+|+..
T Consensus 12 FCRNCLskWy~~ 23 (68)
T PF06844_consen 12 FCRNCLSKWYRE 23 (68)
T ss_dssp --HHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 999999999974
No 141
>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=67.85 E-value=1.5 Score=24.19 Aligned_cols=15 Identities=40% Similarity=0.904 Sum_probs=8.1
Q ss_pred ccccccccccccccc
Q 048466 89 KTCPLCRFSMGEEMK 103 (128)
Q Consensus 89 ~~CP~Cr~~~~~~~~ 103 (128)
..||+|.++++....
T Consensus 21 ~~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 21 GCCPLCGRPLDEEHR 35 (54)
T ss_dssp EE-TTT--EE-HHHH
T ss_pred CcCCCCCCCCCHHHH
Confidence 389999999886643
No 142
>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=67.40 E-value=2.8 Score=24.08 Aligned_cols=37 Identities=14% Similarity=0.316 Sum_probs=17.6
Q ss_pred CCCCcccccccccccCCCceEEe-CCCCcccHHhHHHH
Q 048466 47 EFEGESCCVCLSRLKQGDEMRVL-PCLHRFHRACVDRW 83 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~l-~C~H~f~~~Ci~~w 83 (128)
+.+...|.+|...|..-..-..- .||+.||..|....
T Consensus 6 d~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 6 DSEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp GGG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 34557899999999653222222 38999998887543
No 143
>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=67.02 E-value=15 Score=20.63 Aligned_cols=48 Identities=21% Similarity=0.462 Sum_probs=31.9
Q ss_pred CcccccccccccCCCceEEeCCC--CcccHHhHHHHHhcCCccccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCL--HRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~--H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
...|-.|-.++.....- ..-|. ..||..|....+. ..||.|...+...
T Consensus 5 rpnCE~C~~dLp~~s~~-A~ICSfECTFC~~C~e~~l~---~~CPNCgGelv~R 54 (57)
T PF06906_consen 5 RPNCECCDKDLPPDSPE-AYICSFECTFCADCAETMLN---GVCPNCGGELVRR 54 (57)
T ss_pred CCCccccCCCCCCCCCc-ceEEeEeCcccHHHHHHHhc---CcCcCCCCccccC
Confidence 34677777777654211 22253 3599999998774 4899998877544
No 144
>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=66.33 E-value=5.8 Score=19.36 Aligned_cols=36 Identities=19% Similarity=0.530 Sum_probs=21.9
Q ss_pred cccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccc
Q 048466 53 CCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSM 98 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~ 98 (128)
|..|.+.+...+. ....=+..||..|+ .|..|+..+
T Consensus 2 C~~C~~~i~~~~~-~~~~~~~~~H~~Cf---------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGEL-VLRALGKVWHPECF---------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcE-EEEeCCccccccCC---------CCcccCCcC
Confidence 7778887765311 22224667887774 577776655
No 145
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=66.20 E-value=6.7 Score=25.30 Aligned_cols=44 Identities=18% Similarity=0.347 Sum_probs=31.0
Q ss_pred cccccccccccCCC-----------ceEEeCCCCcccHHhHHHHHhcCCccccccc
Q 048466 51 ESCCVCLSRLKQGD-----------EMRVLPCLHRFHRACVDRWFNEWTKTCPLCR 95 (128)
Q Consensus 51 ~~C~ICl~~~~~~~-----------~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr 95 (128)
..|--|+..|..+. ...-..|++.||.+|=.-+-.. -.+||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~-Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHES-LHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhh-ccCCcCCC
Confidence 56999999886431 1223359999999997665555 45799985
No 146
>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=65.00 E-value=3.1 Score=22.24 Aligned_cols=44 Identities=30% Similarity=0.554 Sum_probs=26.9
Q ss_pred ccccccccccCCCceEEeCCCCcccHHhHHHHHhc-----CCccccccc
Q 048466 52 SCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE-----WTKTCPLCR 95 (128)
Q Consensus 52 ~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~-----~~~~CP~Cr 95 (128)
.|.||...-..++.+.--.|+..||..|+..-... ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 37889884433322222248999999998754331 134688775
No 147
>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=64.97 E-value=4.3 Score=22.12 Aligned_cols=40 Identities=15% Similarity=0.429 Sum_probs=27.3
Q ss_pred cccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 53 CCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
|..|...+...+ .....-+..||..|+ +|-.|+..+....
T Consensus 1 C~~C~~~I~~~~-~~~~~~~~~~H~~Cf---------~C~~C~~~l~~~~ 40 (58)
T PF00412_consen 1 CARCGKPIYGTE-IVIKAMGKFWHPECF---------KCSKCGKPLNDGD 40 (58)
T ss_dssp BTTTSSBESSSS-EEEEETTEEEETTTS---------BETTTTCBTTTSS
T ss_pred CCCCCCCccCcE-EEEEeCCcEEEcccc---------ccCCCCCccCCCe
Confidence 677888877542 222346778998774 6899988886653
No 148
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=64.04 E-value=8.6 Score=29.44 Aligned_cols=58 Identities=21% Similarity=0.391 Sum_probs=37.4
Q ss_pred cCCCCCccccccccccc---------------CC-CceEEeCCCCcccHHhHHHHHhcC--------Ccccccccccccc
Q 048466 45 ANEFEGESCCVCLSRLK---------------QG-DEMRVLPCLHRFHRACVDRWFNEW--------TKTCPLCRFSMGE 100 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~---------------~~-~~~~~l~C~H~f~~~Ci~~wl~~~--------~~~CP~Cr~~~~~ 100 (128)
+......+|++|+..=. .+ ......||||+--..-..-|.+.. +..||.|-..+..
T Consensus 336 ~~g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 336 NTGQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred ccCcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 44445678999998621 01 122345899987777777777651 3469999777655
Q ss_pred cc
Q 048466 101 EM 102 (128)
Q Consensus 101 ~~ 102 (128)
+.
T Consensus 416 e~ 417 (429)
T KOG3842|consen 416 EQ 417 (429)
T ss_pred CC
Confidence 44
No 149
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=63.21 E-value=7 Score=29.95 Aligned_cols=47 Identities=23% Similarity=0.475 Sum_probs=31.7
Q ss_pred CCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
....|-.|.+.......++.-.|.+.||.+|-.- +...-..||.|..
T Consensus 329 ~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv~-iHesLh~CpgCeh 375 (378)
T KOG2807|consen 329 GSRFCFACQGELLSSGRYRCESCKNVFCLDCDVF-IHESLHNCPGCEH 375 (378)
T ss_pred CCcceeeeccccCCCCcEEchhccceeeccchHH-HHhhhhcCCCcCC
Confidence 3345999977766554555556999999999543 3222457999963
No 150
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=62.53 E-value=2.9 Score=27.92 Aligned_cols=19 Identities=21% Similarity=0.464 Sum_probs=14.2
Q ss_pred hhhhcCCCCCccccccccc
Q 048466 41 RLKEANEFEGESCCVCLSR 59 (128)
Q Consensus 41 ~~~~~~~~~~~~C~ICl~~ 59 (128)
..+...-..+..|-||+..
T Consensus 56 qqKKaGv~ddatC~IC~KT 74 (169)
T KOG3799|consen 56 QQKKAGVGDDATCGICHKT 74 (169)
T ss_pred HhhccccCcCcchhhhhhc
Confidence 3445666788999999985
No 151
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=62.39 E-value=7.7 Score=24.26 Aligned_cols=36 Identities=17% Similarity=0.337 Sum_probs=29.1
Q ss_pred CcccccccccccCCCceEEeCCCCcccHHhHHHHHhc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE 86 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~ 86 (128)
...|.+|-..+..++....++ .-..|++|+..-..+
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~~ 41 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKRK 41 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHhc
Confidence 467999999999998888788 556899999875543
No 152
>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=59.27 E-value=12 Score=23.73 Aligned_cols=50 Identities=22% Similarity=0.494 Sum_probs=29.7
Q ss_pred CCCcccccccccccCCCceEE------eCC---CCcccHHhHHHHHhc--------CCcccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRV------LPC---LHRFHRACVDRWFNE--------WTKTCPLCRFSM 98 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~------l~C---~H~f~~~Ci~~wl~~--------~~~~CP~Cr~~~ 98 (128)
..+..|--|...-.+. .+.- ..| .-.||..||..++.. ..-.||.||..-
T Consensus 5 ~~g~~CHqCrqKt~~~-~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiC 71 (105)
T PF10497_consen 5 VNGKTCHQCRQKTLDF-KTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGIC 71 (105)
T ss_pred CCCCCchhhcCCCCCC-ceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCCee
Confidence 3445677777643321 1111 235 667999999877653 233699998743
No 153
>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=58.92 E-value=4.8 Score=18.91 Aligned_cols=11 Identities=36% Similarity=1.105 Sum_probs=5.7
Q ss_pred Ccccccccccc
Q 048466 88 TKTCPLCRFSM 98 (128)
Q Consensus 88 ~~~CP~Cr~~~ 98 (128)
...||.|...+
T Consensus 14 ~~~Cp~CG~~F 24 (26)
T PF10571_consen 14 AKFCPHCGYDF 24 (26)
T ss_pred cCcCCCCCCCC
Confidence 34566665443
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=55.47 E-value=3.9 Score=32.05 Aligned_cols=53 Identities=19% Similarity=0.403 Sum_probs=0.0
Q ss_pred CCccccccccccc-------------C---CCceEEeCCCCcccHHhHHHHHhc----C----Cccccccccccccc
Q 048466 49 EGESCCVCLSRLK-------------Q---GDEMRVLPCLHRFHRACVDRWFNE----W----TKTCPLCRFSMGEE 101 (128)
Q Consensus 49 ~~~~C~ICl~~~~-------------~---~~~~~~l~C~H~f~~~Ci~~wl~~----~----~~~CP~Cr~~~~~~ 101 (128)
...+|++|+..=. . +......||||+.-.....-|.+. + +..||.|-..+..+
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g~ 403 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDGE 403 (416)
T ss_dssp -----------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcccCC
Confidence 3688999997621 0 012344589999888888888764 1 24799998777643
No 155
>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=54.47 E-value=9.9 Score=23.54 Aligned_cols=39 Identities=15% Similarity=0.548 Sum_probs=28.1
Q ss_pred CcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 50 GESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
...|.||-..+.. =+|.||..|-.. ...|.+|...+.+.
T Consensus 44 ~~~C~~CK~~v~q--------~g~~YCq~CAYk-----kGiCamCGKki~dt 82 (90)
T PF10235_consen 44 SSKCKICKTKVHQ--------PGAKYCQTCAYK-----KGICAMCGKKILDT 82 (90)
T ss_pred Ccccccccccccc--------CCCccChhhhcc-----cCcccccCCeeccc
Confidence 3479999887654 256788889543 66899998877443
No 156
>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=53.28 E-value=11 Score=18.00 Aligned_cols=29 Identities=24% Similarity=0.498 Sum_probs=9.7
Q ss_pred ccccccccccCCCceEEeCCCCcccHHhH
Q 048466 52 SCCVCLSRLKQGDEMRVLPCLHRFHRACV 80 (128)
Q Consensus 52 ~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci 80 (128)
.|.+|.......-...-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 57788887765223344458888888874
No 157
>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=50.57 E-value=14 Score=20.10 Aligned_cols=34 Identities=18% Similarity=0.300 Sum_probs=22.5
Q ss_pred cccccccccccCCCceEE-eCCCCcccHHhHHHHH
Q 048466 51 ESCCVCLSRLKQGDEMRV-LPCLHRFHRACVDRWF 84 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~-l~C~H~f~~~Ci~~wl 84 (128)
..|.+|...|..-..-.. ..||+.|+..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 468888887765321122 2489999999976543
No 159
>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=45.62 E-value=17 Score=23.37 Aligned_cols=47 Identities=17% Similarity=0.349 Sum_probs=28.1
Q ss_pred CCCcccccccccccCC--CceEEeCCCCcccHHhHHHHHhc--CCcccccccc
Q 048466 48 FEGESCCVCLSRLKQG--DEMRVLPCLHRFHRACVDRWFNE--WTKTCPLCRF 96 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~--~~~~~l~C~H~f~~~Ci~~wl~~--~~~~CP~Cr~ 96 (128)
.....|.+|..+|.-- ....-..|.|.+|..|-.. .. ..-.|-+|..
T Consensus 52 ~~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~--~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 52 YGERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY--SKKEPIWLCKVCQK 102 (118)
T ss_dssp HCCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE--TSSSCCEEEHHHHH
T ss_pred cCCcchhhhCCcccccCCCCCcCCcCCccccCccCCc--CCCCCCEEChhhHH
Confidence 3667899999986432 2333445999999998643 11 1125888865
No 160
>PF14353 CpXC: CpXC protein
Probab=45.37 E-value=21 Score=23.06 Aligned_cols=49 Identities=14% Similarity=0.233 Sum_probs=24.9
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhc--CCcccccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE--WTKTCPLCRFSMGEEM 102 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~--~~~~CP~Cr~~~~~~~ 102 (128)
.+||-|...+... ....-.-.....-...-+.. ...+||.|...+....
T Consensus 2 itCP~C~~~~~~~---v~~~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~ 52 (128)
T PF14353_consen 2 ITCPHCGHEFEFE---VWTSINADEDPELKEKILDGSLFSFTCPSCGHKFRLEY 52 (128)
T ss_pred cCCCCCCCeeEEE---EEeEEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCC
Confidence 4788888887653 21112211222222222221 1348999988775443
No 161
>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=45.21 E-value=12 Score=21.25 Aligned_cols=15 Identities=27% Similarity=0.716 Sum_probs=10.9
Q ss_pred Ccccccccccccccc
Q 048466 88 TKTCPLCRFSMGEEM 102 (128)
Q Consensus 88 ~~~CP~Cr~~~~~~~ 102 (128)
++.||.|..+++.++
T Consensus 3 HkHC~~CG~~Ip~~~ 17 (59)
T PF09889_consen 3 HKHCPVCGKPIPPDE 17 (59)
T ss_pred CCcCCcCCCcCCcch
Confidence 567888888777653
No 162
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=45.03 E-value=12 Score=18.87 Aligned_cols=12 Identities=17% Similarity=0.578 Sum_probs=7.6
Q ss_pred ccccccccccCC
Q 048466 52 SCCVCLSRLKQG 63 (128)
Q Consensus 52 ~C~ICl~~~~~~ 63 (128)
+|+-|...+..+
T Consensus 4 ~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 4 TCPNCQAKYEID 15 (36)
T ss_pred ECCCCCCEEeCC
Confidence 567777666544
No 163
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=44.66 E-value=11 Score=22.54 Aligned_cols=38 Identities=16% Similarity=0.322 Sum_probs=23.4
Q ss_pred cCCCCCcccccccccccCCCceEEeCCCCcccHHhHHH
Q 048466 45 ANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDR 82 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~ 82 (128)
........|.+|.......-.-..-.|...||..|...
T Consensus 31 ~~~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 31 IKRRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred HHHHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 34445578999997733211111224888999999753
No 164
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=43.39 E-value=26 Score=22.19 Aligned_cols=35 Identities=14% Similarity=0.288 Sum_probs=26.6
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE 86 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~ 86 (128)
..|.||-.++..++....++= -..|+.|+..-...
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k-G~VH~~C~~~~~~~ 37 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK-GPVHYECFREKASK 37 (101)
T ss_pred eEEEecCCeeeecceEEEecC-CcEeHHHHHHHHhh
Confidence 579999999998866665554 56899999875543
No 165
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.88 E-value=14 Score=22.95 Aligned_cols=13 Identities=38% Similarity=1.188 Sum_probs=11.3
Q ss_pred cccHHhHHHHHhc
Q 048466 74 RFHRACVDRWFNE 86 (128)
Q Consensus 74 ~f~~~Ci~~wl~~ 86 (128)
-||..|+..|+..
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 3999999999975
No 166
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=42.74 E-value=17 Score=22.72 Aligned_cols=32 Identities=22% Similarity=0.553 Sum_probs=21.7
Q ss_pred CCcccccccccccCCCceEEe--CCCCcccHHhHHH
Q 048466 49 EGESCCVCLSRLKQGDEMRVL--PCLHRFHRACVDR 82 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l--~C~H~f~~~Ci~~ 82 (128)
....|.||... .+..+.-. .|...||..|...
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHH
Confidence 45789999998 33222222 2788999999754
No 167
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=42.11 E-value=19 Score=26.28 Aligned_cols=25 Identities=24% Similarity=0.497 Sum_probs=16.7
Q ss_pred cccccccccccCCCceEEeCCCCcc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRF 75 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f 75 (128)
..||+|...+...+.-...+.+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 5799999999754433333447777
No 168
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.87 E-value=7 Score=31.02 Aligned_cols=38 Identities=16% Similarity=0.391 Sum_probs=27.3
Q ss_pred CcccccccccccCCCce---E--EeCCCCcccHHhHHHHHhcC
Q 048466 50 GESCCVCLSRLKQGDEM---R--VLPCLHRFHRACVDRWFNEW 87 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~~~---~--~l~C~H~f~~~Ci~~wl~~~ 87 (128)
...||.|...+.....- . ..+|.|.||..|+..|...+
T Consensus 226 tk~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h~ 268 (444)
T KOG1815|consen 226 TKECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDHG 268 (444)
T ss_pred CccCCCcccchhccCCccccccccCCcCCeeceeeeccccccc
Confidence 34599999998865411 1 12499999999988887653
No 169
>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=41.47 E-value=3.4 Score=30.81 Aligned_cols=44 Identities=25% Similarity=0.391 Sum_probs=18.7
Q ss_pred CcccccccccccC-----CC--ceEEeCCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 50 GESCCVCLSRLKQ-----GD--EMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 50 ~~~C~ICl~~~~~-----~~--~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
...||+|=..... ++ ..+ +.+|..|-..|-.. +..||.|...-.
T Consensus 172 ~g~CPvCGs~P~~s~l~~~~~~G~R-----~L~Cs~C~t~W~~~-R~~Cp~Cg~~~~ 222 (290)
T PF04216_consen 172 RGYCPVCGSPPVLSVLRGGEREGKR-----YLHCSLCGTEWRFV-RIKCPYCGNTDH 222 (290)
T ss_dssp -SS-TTT---EEEEEEE------EE-----EEEETTT--EEE---TTS-TTT---SS
T ss_pred CCcCCCCCCcCceEEEecCCCCccE-----EEEcCCCCCeeeec-CCCCcCCCCCCC
Confidence 3689999887432 11 122 34666788888766 678999966433
No 170
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.55 E-value=19 Score=21.40 Aligned_cols=46 Identities=20% Similarity=0.437 Sum_probs=28.7
Q ss_pred ccccccccccCCCceEEeCC--CCcccHHhHHHHHhcCCccccccccccccc
Q 048466 52 SCCVCLSRLKQGDEMRVLPC--LHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 52 ~C~ICl~~~~~~~~~~~l~C--~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
.|--|-.++..+ ....+-| .+.||..|...-| ...||.|...+...
T Consensus 7 nCECCDrDLpp~-s~dA~ICtfEcTFCadCae~~l---~g~CPnCGGelv~R 54 (84)
T COG3813 7 NCECCDRDLPPD-STDARICTFECTFCADCAENRL---HGLCPNCGGELVAR 54 (84)
T ss_pred CCcccCCCCCCC-CCceeEEEEeeehhHhHHHHhh---cCcCCCCCchhhcC
Confidence 455555555432 1122335 4789999998766 45899998776543
No 171
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=40.23 E-value=5.3 Score=30.05 Aligned_cols=38 Identities=24% Similarity=0.569 Sum_probs=28.1
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCC
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWT 88 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~ 88 (128)
..|.+|++.+..+.......|...+|..|+-.|+..+.
T Consensus 215 rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (288)
T KOG1729|consen 215 RVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTGA 252 (288)
T ss_pred eecHHHHHHHhcccccchhhcccccccccccccccccc
Confidence 38999999997644445555666889999999988743
No 172
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=38.08 E-value=16 Score=27.79 Aligned_cols=42 Identities=24% Similarity=0.471 Sum_probs=27.4
Q ss_pred CCcccccccccccC-------CCceEEeCCCCcccHHhHHHHHhcCCcccccccc
Q 048466 49 EGESCCVCLSRLKQ-------GDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 49 ~~~~C~ICl~~~~~-------~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
....||+|-..-.. .+..+.+ +|..|-..|-.. +..||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL-----~CslC~teW~~~-R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYL-----HCNLCESEWHVV-RVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEE-----EcCCCCCccccc-CccCCCCCC
Confidence 45789999887421 1223333 455577777776 678999965
No 173
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=37.33 E-value=20 Score=20.36 Aligned_cols=17 Identities=12% Similarity=0.516 Sum_probs=13.3
Q ss_pred Ccccccccccccccccc
Q 048466 88 TKTCPLCRFSMGEEMKL 104 (128)
Q Consensus 88 ~~~CP~Cr~~~~~~~~~ 104 (128)
+..|++|.+.++..++.
T Consensus 8 H~HC~VCg~aIp~de~~ 24 (64)
T COG4068 8 HRHCVVCGKAIPPDEQV 24 (64)
T ss_pred CccccccCCcCCCccch
Confidence 56899999999876643
No 174
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=36.96 E-value=18 Score=18.19 Aligned_cols=12 Identities=25% Similarity=0.705 Sum_probs=7.3
Q ss_pred ccccccccccCC
Q 048466 52 SCCVCLSRLKQG 63 (128)
Q Consensus 52 ~C~ICl~~~~~~ 63 (128)
.|+-|...|..+
T Consensus 4 ~CP~C~~~f~v~ 15 (37)
T PF13719_consen 4 TCPNCQTRFRVP 15 (37)
T ss_pred ECCCCCceEEcC
Confidence 566666666543
No 175
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=36.52 E-value=18 Score=28.17 Aligned_cols=25 Identities=32% Similarity=0.579 Sum_probs=15.3
Q ss_pred CCCCCcccccccccccCCCceEEeCC
Q 048466 46 NEFEGESCCVCLSRLKQGDEMRVLPC 71 (128)
Q Consensus 46 ~~~~~~~C~ICl~~~~~~~~~~~l~C 71 (128)
++..+..|++|-+...- =.+..+.|
T Consensus 11 dedl~ElCPVCGDkVSG-YHYGLLTC 35 (475)
T KOG4218|consen 11 DEDLGELCPVCGDKVSG-YHYGLLTC 35 (475)
T ss_pred ccccccccccccCcccc-ceeeeeeh
Confidence 34455689999988652 23444444
No 176
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.03 E-value=14 Score=28.07 Aligned_cols=50 Identities=26% Similarity=0.638 Sum_probs=37.2
Q ss_pred CCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 48 FEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
.....|-+|...+..++ ..-.|.|.|+..|...|... ...||-|+....+
T Consensus 103 ~~~~~~~~~~g~l~vpt--~~qg~w~qf~~~~p~~~~~~-~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPT--RIQGCWHQFCYVCPKSNFAM-GNDCPDCRGKISP 152 (324)
T ss_pred CCccceeeeeeeEEecc--cccCceeeeeecCCchhhhh-hhccchhhcCcCc
Confidence 44567889998877652 11239999999999999988 6678888775544
No 177
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=34.12 E-value=22 Score=20.21 Aligned_cols=15 Identities=33% Similarity=0.755 Sum_probs=10.9
Q ss_pred Ccccccccccccccc
Q 048466 88 TKTCPLCRFSMGEEM 102 (128)
Q Consensus 88 ~~~CP~Cr~~~~~~~ 102 (128)
...||+|........
T Consensus 39 ~p~CPlC~s~M~~~~ 53 (59)
T PF14169_consen 39 EPVCPLCKSPMVSGT 53 (59)
T ss_pred CccCCCcCCccccce
Confidence 468999988776543
No 178
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=33.78 E-value=25 Score=19.19 Aligned_cols=22 Identities=32% Similarity=0.758 Sum_probs=11.3
Q ss_pred CCCcccHHhHHHHHhcCCcccccc
Q 048466 71 CLHRFHRACVDRWFNEWTKTCPLC 94 (128)
Q Consensus 71 C~H~f~~~Ci~~wl~~~~~~CP~C 94 (128)
|+|.|-.. +..-.. ....||.|
T Consensus 34 Cgh~w~~~-v~~R~~-~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKAS-VNDRTR-RGKGCPYC 55 (55)
T ss_pred CCCeeEcc-Hhhhcc-CCCCCCCC
Confidence 66665443 222122 25678887
No 179
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=33.69 E-value=32 Score=26.42 Aligned_cols=44 Identities=7% Similarity=-0.160 Sum_probs=30.5
Q ss_pred CCcccccccccccCCCceEEeCCCCc-ccHHhHHHHHhcCCcccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPCLHR-FHRACVDRWFNEWTKTCPLCRFSM 98 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C~H~-f~~~Ci~~wl~~~~~~CP~Cr~~~ 98 (128)
....|..|-+..-.. .+.+|+|. |+-+|.. +.. ..+||+|....
T Consensus 342 s~~~~~~~~~~~~st---~~~~~~~n~~~~~~a~--~s~-~~~~~~c~~~~ 386 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLST---IWSGGNMNLSPGSLAS--ASA-SPTSSTCDHND 386 (394)
T ss_pred hhcccccccCceeee---EeecCCcccChhhhhh--ccc-CCccccccccc
Confidence 345677777765543 66789987 8888876 333 67899996543
No 180
>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=33.57 E-value=22 Score=24.29 Aligned_cols=26 Identities=19% Similarity=0.579 Sum_probs=18.6
Q ss_pred CCcccHHhHHHHHhcCCccccccccccccc
Q 048466 72 LHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 72 ~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
.+.||..|-.+.+. .||.|..++.-.
T Consensus 27 ~~~fC~kCG~~tI~----~Cp~C~~~IrG~ 52 (158)
T PF10083_consen 27 REKFCSKCGAKTIT----SCPNCSTPIRGD 52 (158)
T ss_pred HHHHHHHhhHHHHH----HCcCCCCCCCCc
Confidence 45688888876554 488888877544
No 181
>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=32.82 E-value=35 Score=21.77 Aligned_cols=17 Identities=29% Similarity=0.519 Sum_probs=11.9
Q ss_pred hcCCccccccccccccc
Q 048466 85 NEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 85 ~~~~~~CP~Cr~~~~~~ 101 (128)
.+...+||.|...+...
T Consensus 23 nk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 23 NKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CCCCccCCCCCCccCcc
Confidence 33345799998888766
No 182
>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=32.12 E-value=10 Score=20.98 Aligned_cols=15 Identities=27% Similarity=0.733 Sum_probs=7.2
Q ss_pred Ccccccccccccccc
Q 048466 88 TKTCPLCRFSMGEEM 102 (128)
Q Consensus 88 ~~~CP~Cr~~~~~~~ 102 (128)
..+||.|...+....
T Consensus 24 PatCP~C~a~~~~sr 38 (54)
T PF09237_consen 24 PATCPICGAVIRQSR 38 (54)
T ss_dssp -EE-TTT--EESSHH
T ss_pred CCCCCcchhhccchh
Confidence 347888877766543
No 183
>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=32.10 E-value=31 Score=25.08 Aligned_cols=28 Identities=18% Similarity=0.529 Sum_probs=17.8
Q ss_pred CcccHHhHHHHHhcCCccccccccccccc
Q 048466 73 HRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 73 H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
..-|.+|...-=++ ...||+|++.--.+
T Consensus 194 MK~C~sC~qqIHRN-APiCPlCK~KsRSr 221 (230)
T PF10146_consen 194 MKTCQSCHQQIHRN-APICPLCKAKSRSR 221 (230)
T ss_pred cchhHhHHHHHhcC-CCCCcccccccccC
Confidence 34567776553334 77999998754433
No 184
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=31.84 E-value=37 Score=21.37 Aligned_cols=34 Identities=18% Similarity=0.214 Sum_probs=21.1
Q ss_pred CCCCcccHHhHHHHHhcCCccccccccccccccccc
Q 048466 70 PCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEMKLH 105 (128)
Q Consensus 70 ~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~~~~ 105 (128)
-||+--|..-..++... .+||.|+.++.+.=+++
T Consensus 64 iCGvC~~~LT~~EY~~~--~~Cp~C~spFNp~Ck~H 97 (105)
T COG4357 64 ICGVCRKLLTRAEYGMC--GSCPYCQSPFNPGCKNH 97 (105)
T ss_pred EhhhhhhhhhHHHHhhc--CCCCCcCCCCCcccccc
Confidence 36665555555554433 46999999987765443
No 185
>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=31.47 E-value=37 Score=18.05 Aligned_cols=34 Identities=21% Similarity=0.306 Sum_probs=22.7
Q ss_pred CCCcccccccccc--cCCCceEEeCCCCcccHHhHH
Q 048466 48 FEGESCCVCLSRL--KQGDEMRVLPCLHRFHRACVD 81 (128)
Q Consensus 48 ~~~~~C~ICl~~~--~~~~~~~~l~C~H~f~~~Ci~ 81 (128)
.....|.+|.+.+ .....+.-..|+-..|..|+.
T Consensus 9 ~~~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~ 44 (53)
T PF00130_consen 9 SKPTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLS 44 (53)
T ss_dssp SSTEB-TTSSSBECSSSSCEEEETTTT-EEETTGGC
T ss_pred CCCCCCcccCcccCCCCCCeEEECCCCChHhhhhhh
Confidence 3456899999998 333344555699999999974
No 186
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.40 E-value=48 Score=28.03 Aligned_cols=48 Identities=27% Similarity=0.498 Sum_probs=33.9
Q ss_pred ccccccccccCCCceEEeCCCC-cccHHhHHHHHhcC-----Ccccccccccccccc
Q 048466 52 SCCVCLSRLKQGDEMRVLPCLH-RFHRACVDRWFNEW-----TKTCPLCRFSMGEEM 102 (128)
Q Consensus 52 ~C~ICl~~~~~~~~~~~l~C~H-~f~~~Ci~~wl~~~-----~~~CP~Cr~~~~~~~ 102 (128)
.|+||-...... ..-.|+| ..+..|........ ...||+||..+..+.
T Consensus 2 ~c~ic~~s~~~~---~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s 55 (669)
T KOG2231|consen 2 SCAICAFSPDFV---GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKS 55 (669)
T ss_pred CcceeecCcccc---ccccccccccchhhhhhhhhhcccccccccCcccccceeeec
Confidence 588998876543 4556999 69999988765431 345799999776543
No 187
>PRK01343 zinc-binding protein; Provisional
Probab=30.37 E-value=29 Score=19.60 Aligned_cols=12 Identities=33% Similarity=0.742 Sum_probs=9.0
Q ss_pred Cccccccccccc
Q 048466 88 TKTCPLCRFSMG 99 (128)
Q Consensus 88 ~~~CP~Cr~~~~ 99 (128)
...||.|++.+.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 457999988754
No 188
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.31 E-value=28 Score=29.38 Aligned_cols=41 Identities=22% Similarity=0.413 Sum_probs=26.7
Q ss_pred ccccccccccc-CCCceEEeCCCCcccHHhHHHHHhcCCccccccc
Q 048466 51 ESCCVCLSRLK-QGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCR 95 (128)
Q Consensus 51 ~~C~ICl~~~~-~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr 95 (128)
..|-+|..+-. ..+..+.+.|+..||..|... - ++.||+|-
T Consensus 655 r~C~vcq~pedse~~v~rt~~C~~~~C~~c~~~---~-~~~~~vC~ 696 (717)
T KOG3726|consen 655 RTCKVCQLPEDSETDVCRTTFCYTPYCVACSLD---Y-ASISEVCG 696 (717)
T ss_pred HHHHHhcCCcCccccccCccccCCcchHhhhhh---h-hccCcccC
Confidence 46778877533 222334556999999988554 3 45699993
No 189
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=30.29 E-value=24 Score=25.91 Aligned_cols=43 Identities=16% Similarity=0.281 Sum_probs=30.3
Q ss_pred CCcccccccccccCCCceEEeCCCCcccHHhHHHHHhc-CCccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE-WTKTCPL 93 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~-~~~~CP~ 93 (128)
-+..|+|-+.+...+ +....|+|.|-.+-|...++. ....||.
T Consensus 188 ~~nrCpitl~p~~~p--ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 188 LSNRCPITLNPDFYP--ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred hcccCCcccCcchhH--HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 346899988876643 233459999999999998874 1345654
No 190
>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=29.70 E-value=20 Score=27.18 Aligned_cols=41 Identities=22% Similarity=0.422 Sum_probs=26.6
Q ss_pred CcccccccccccC--------CCceEEeCCCCcccHHhHHHHHhcCCcccccccc
Q 048466 50 GESCCVCLSRLKQ--------GDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 50 ~~~C~ICl~~~~~--------~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
...||+|-..-.. .+..+.+ +|..|-..|-.. +..||.|..
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL-----~CslC~teW~~~-R~~C~~Cg~ 232 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYL-----SCSLCATEWHYV-RVKCSHCEE 232 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEE-----EcCCCCCccccc-CccCCCCCC
Confidence 4589999887421 1233444 444577777766 678999965
No 191
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=28.97 E-value=46 Score=22.60 Aligned_cols=40 Identities=15% Similarity=0.029 Sum_probs=24.8
Q ss_pred hcCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 44 EANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 44 ~~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
.......+.|+.|...++.. ..+.. .+.||.|...+...+
T Consensus 103 ~e~~~~~Y~Cp~c~~r~tf~------------------eA~~~-~F~Cp~Cg~~L~~~d 142 (158)
T TIGR00373 103 FETNNMFFICPNMCVRFTFN------------------EAMEL-NFTCPRCGAMLDYLD 142 (158)
T ss_pred hccCCCeEECCCCCcEeeHH------------------HHHHc-CCcCCCCCCEeeecc
Confidence 34445556787777655432 22233 789999998876554
No 192
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=28.94 E-value=33 Score=28.42 Aligned_cols=36 Identities=22% Similarity=0.354 Sum_probs=24.1
Q ss_pred CCCcccccccccccCC-----Cc-----eEEeCCCCcccHHhHHHH
Q 048466 48 FEGESCCVCLSRLKQG-----DE-----MRVLPCLHRFHRACVDRW 83 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~~-----~~-----~~~l~C~H~f~~~Ci~~w 83 (128)
+....|+||.|.|..- +. ...+.=|-.||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVYLEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceeeeccCceeeccccchH
Confidence 6667899999998730 10 112224788999998754
No 193
>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=28.59 E-value=22 Score=16.81 Aligned_cols=12 Identities=42% Similarity=0.963 Sum_probs=5.7
Q ss_pred cccccccccccc
Q 048466 90 TCPLCRFSMGEE 101 (128)
Q Consensus 90 ~CP~Cr~~~~~~ 101 (128)
.||.|...+...
T Consensus 1 ~CP~C~s~l~~~ 12 (28)
T PF03119_consen 1 TCPVCGSKLVRE 12 (28)
T ss_dssp B-TTT--BEEE-
T ss_pred CcCCCCCEeEcC
Confidence 489998777633
No 194
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=28.58 E-value=38 Score=27.23 Aligned_cols=41 Identities=12% Similarity=0.182 Sum_probs=28.3
Q ss_pred hhhcCCCCCcccccccccccCCCceEEeC-CCCcccHHhHHH
Q 048466 42 LKEANEFEGESCCVCLSRLKQGDEMRVLP-CLHRFHRACVDR 82 (128)
Q Consensus 42 ~~~~~~~~~~~C~ICl~~~~~~~~~~~l~-C~H~f~~~Ci~~ 82 (128)
....++.....||+|-..|...-.--... ||.+.|..|-..
T Consensus 172 VpW~DDs~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~ 213 (505)
T KOG1842|consen 172 VPWLDDSSVQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKF 213 (505)
T ss_pred ccccCCCcccccccccchhhhHHHhhhhhhcchHHHHHHHHh
Confidence 34566677788999999997532112223 899999999653
No 195
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=28.09 E-value=30 Score=31.78 Aligned_cols=56 Identities=23% Similarity=0.404 Sum_probs=40.4
Q ss_pred hhcCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcC---Ccccccccccc
Q 048466 43 KEANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEW---TKTCPLCRFSM 98 (128)
Q Consensus 43 ~~~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~---~~~CP~Cr~~~ 98 (128)
..........|.+|.......+.+....|...||..|+.+-+... .=.||-||..-
T Consensus 1101 ~w~~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1101 KWDRSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hhccccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 345666778899999987764333333488889999999988762 22699998765
No 196
>PF04805 Pox_E10: E10-like protein conserved region; InterPro: IPR006890 This entry represents a family of probable FAD-linked sulphydryl oxidases found in poxviruses.; GO: 0016972 thiol oxidase activity, 0055114 oxidation-reduction process
Probab=27.87 E-value=4 Score=23.80 Aligned_cols=31 Identities=19% Similarity=0.459 Sum_probs=17.3
Q ss_pred cccccccccccccccccCcccccccceeeee
Q 048466 90 TCPLCRFSMGEEMKLHAGLGEVLTDEMVIWF 120 (128)
Q Consensus 90 ~CP~Cr~~~~~~~~~~~~~~~~~~~~~~~~~ 120 (128)
-||.||.-.....+.++.+.....+-+...|
T Consensus 17 PC~~Cr~HA~~ai~kNNiMSs~DiNyIy~FF 47 (70)
T PF04805_consen 17 PCPECRIHAKEAIQKNNIMSSNDINYIYFFF 47 (70)
T ss_pred CCHHHHHHHHHHHHhcCccccCCccchHHHH
Confidence 5999988666555555444444333333333
No 197
>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=27.73 E-value=26 Score=16.23 Aligned_cols=9 Identities=33% Similarity=1.028 Sum_probs=7.3
Q ss_pred ccccccccc
Q 048466 90 TCPLCRFSM 98 (128)
Q Consensus 90 ~CP~Cr~~~ 98 (128)
.||+|.+.+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 599997776
No 198
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=27.59 E-value=33 Score=25.17 Aligned_cols=13 Identities=46% Similarity=0.738 Sum_probs=7.4
Q ss_pred CCccccccccccc
Q 048466 49 EGESCCVCLSRLK 61 (128)
Q Consensus 49 ~~~~C~ICl~~~~ 61 (128)
-+..|++|+..|.
T Consensus 259 ~GfvCsVCLsvfc 271 (296)
T COG5242 259 LGFVCSVCLSVFC 271 (296)
T ss_pred Eeeehhhhheeec
Confidence 3455666666553
No 199
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=27.24 E-value=47 Score=28.65 Aligned_cols=47 Identities=28% Similarity=0.584 Sum_probs=26.6
Q ss_pred CCCcccccccccccC----C----CceEEe--CCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 48 FEGESCCVCLSRLKQ----G----DEMRVL--PCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 48 ~~~~~C~ICl~~~~~----~----~~~~~l--~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
..+..|+-|...|.. + +.+..+ .|.|..|..=|.. ...||+|.....
T Consensus 1129 ~~~~~c~ec~~kfP~CiasG~pIt~~~fWlC~~CkH~a~~~EIs~-----y~~CPLCHs~~~ 1185 (1189)
T KOG2041|consen 1129 PYDLQCSECQTKFPVCIASGRPITDNIFWLCPRCKHRAHQHEISK-----YNCCPLCHSMES 1185 (1189)
T ss_pred ccCCCChhhcCcCceeeccCCccccceEEEccccccccccccccc-----cccCccccChhh
Confidence 344556666665542 1 122232 3888777655432 568999976544
No 200
>PF15616 TerY-C: TerY-C metal binding domain
Probab=27.19 E-value=38 Score=22.48 Aligned_cols=47 Identities=21% Similarity=0.267 Sum_probs=32.2
Q ss_pred cCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 45 ANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
++......||-|-..+.- ..-.|+..||..= ....+||-|.......
T Consensus 72 seL~g~PgCP~CGn~~~f----a~C~CGkl~Ci~g------~~~~~CPwCg~~g~~~ 118 (131)
T PF15616_consen 72 SELIGAPGCPHCGNQYAF----AVCGCGKLFCIDG------EGEVTCPWCGNEGSFG 118 (131)
T ss_pred HHhcCCCCCCCCcChhcE----EEecCCCEEEeCC------CCCEECCCCCCeeeec
Confidence 344566899999988543 4557999887432 2256899998766544
No 201
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=26.85 E-value=35 Score=18.62 Aligned_cols=32 Identities=22% Similarity=0.404 Sum_probs=19.3
Q ss_pred ccc--cccccccC----CCceEEe-CCCCcccHHhHHHH
Q 048466 52 SCC--VCLSRLKQ----GDEMRVL-PCLHRFHRACVDRW 83 (128)
Q Consensus 52 ~C~--ICl~~~~~----~~~~~~l-~C~H~f~~~Ci~~w 83 (128)
-|+ -|...+.. +.....- .|++.||..|..+|
T Consensus 20 ~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 20 WCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred CCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 466 55444332 2233444 48999999997776
No 202
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=26.49 E-value=35 Score=25.32 Aligned_cols=45 Identities=13% Similarity=0.227 Sum_probs=31.3
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhc-CCccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNE-WTKTCPLCRFS 97 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~-~~~~CP~Cr~~ 97 (128)
..|||=..++.+| +....|+|+|-..-+.+.+.. ..-.||+=...
T Consensus 177 ~rdPis~~~I~nP--viSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 177 NRDPISKKPIVNP--VISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred ccCchhhhhhhch--hhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 5688877777665 333459999999999988865 13367775443
No 203
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=26.20 E-value=38 Score=15.20 Aligned_cols=7 Identities=43% Similarity=1.056 Sum_probs=3.6
Q ss_pred ccccccc
Q 048466 90 TCPLCRF 96 (128)
Q Consensus 90 ~CP~Cr~ 96 (128)
-||.|.+
T Consensus 15 fC~~CG~ 21 (23)
T PF13240_consen 15 FCPNCGT 21 (23)
T ss_pred chhhhCC
Confidence 4555544
No 204
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=25.76 E-value=51 Score=24.16 Aligned_cols=30 Identities=17% Similarity=0.419 Sum_probs=19.3
Q ss_pred CCCcccHHhHHHHHhcCCccccccccccccc
Q 048466 71 CLHRFHRACVDRWFNEWTKTCPLCRFSMGEE 101 (128)
Q Consensus 71 C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~ 101 (128)
=....|.+|..+--++ ...||+|+..-..+
T Consensus 247 ppMK~ClsChqqIHRN-APiCPlCKaKsRSr 276 (286)
T KOG4451|consen 247 PPMKVCLSCHQQIHRN-APICPLCKAKSRSR 276 (286)
T ss_pred CcchHHHHHHHHHhcC-CCCCcchhhccccC
Confidence 3345667777664444 77999998754433
No 205
>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=25.74 E-value=56 Score=20.10 Aligned_cols=41 Identities=15% Similarity=0.240 Sum_probs=28.0
Q ss_pred CCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 49 EGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 49 ~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
....|+-|...+.--|.+- +..|+.. +.+|..|++.++...
T Consensus 32 ~rS~C~~C~~~L~~~~lIP------------i~S~l~l-rGrCr~C~~~I~~~y 72 (92)
T PF06750_consen 32 PRSHCPHCGHPLSWWDLIP------------ILSYLLL-RGRCRYCGAPIPPRY 72 (92)
T ss_pred CCCcCcCCCCcCcccccch------------HHHHHHh-CCCCcccCCCCChHH
Confidence 3457888888776543222 3367776 789999999987654
No 206
>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=25.30 E-value=70 Score=23.95 Aligned_cols=47 Identities=21% Similarity=0.344 Sum_probs=26.8
Q ss_pred CCCCcccccccccccCCCceEEeC-C-CCcccHHhHHHHHhcCCccccc
Q 048466 47 EFEGESCCVCLSRLKQGDEMRVLP-C-LHRFHRACVDRWFNEWTKTCPL 93 (128)
Q Consensus 47 ~~~~~~C~ICl~~~~~~~~~~~l~-C-~H~f~~~Ci~~wl~~~~~~CP~ 93 (128)
......|.||++.-..+.+-..+. = .-.-|..|..+|=..-+..||.
T Consensus 27 ~~tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~pr 75 (285)
T PF06937_consen 27 TETLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPR 75 (285)
T ss_pred ccceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCc
Confidence 344456888888755443222221 1 1135689999885443667873
No 207
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=24.90 E-value=30 Score=26.18 Aligned_cols=31 Identities=26% Similarity=0.544 Sum_probs=21.1
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHH
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVD 81 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~ 81 (128)
..|.||..+....+.+..=.|..-||..|.-
T Consensus 315 ~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVG 345 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHLFCDVCDRGPHTLCVG 345 (381)
T ss_pred HhhhccCCcccchheeccccccCCCCccccc
Confidence 4578888887665444433488888888864
No 208
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=24.30 E-value=51 Score=20.29 Aligned_cols=37 Identities=16% Similarity=0.506 Sum_probs=26.4
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGE 100 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~ 100 (128)
..|-||-..+..+ |.+||..|..+ ...|.+|.+.+..
T Consensus 55 ~kC~iCk~~vHQ~--------GshYC~tCAY~-----KgiCAMCGKki~n 91 (100)
T KOG3476|consen 55 AKCRICKQLVHQP--------GSHYCQTCAYK-----KGICAMCGKKILN 91 (100)
T ss_pred chhHHHHHHhcCC--------cchhHhHhhhh-----hhHHHHhhhHhhc
Confidence 6799999887654 33477788654 5689999776644
No 209
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=23.75 E-value=37 Score=19.52 Aligned_cols=12 Identities=33% Similarity=0.764 Sum_probs=9.3
Q ss_pred Cccccccccccc
Q 048466 88 TKTCPLCRFSMG 99 (128)
Q Consensus 88 ~~~CP~Cr~~~~ 99 (128)
...||.|++.+.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 347999999764
No 210
>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=23.70 E-value=36 Score=19.40 Aligned_cols=12 Identities=33% Similarity=1.074 Sum_probs=9.3
Q ss_pred Cccccccccccc
Q 048466 88 TKTCPLCRFSMG 99 (128)
Q Consensus 88 ~~~CP~Cr~~~~ 99 (128)
+..||+|+..+.
T Consensus 2 k~~CPlCkt~~n 13 (61)
T PF05715_consen 2 KSLCPLCKTTLN 13 (61)
T ss_pred CccCCcccchhh
Confidence 457999988773
No 211
>PRK11595 DNA utilization protein GntX; Provisional
Probab=23.36 E-value=64 Score=23.05 Aligned_cols=38 Identities=18% Similarity=0.424 Sum_probs=20.4
Q ss_pred cccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCccccccccc
Q 048466 51 ESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFS 97 (128)
Q Consensus 51 ~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~ 97 (128)
..|.+|-..+..+ ....|..|...+-.. ...||.|..+
T Consensus 6 ~~C~~C~~~~~~~--------~~~lC~~C~~~l~~~-~~~C~~Cg~~ 43 (227)
T PRK11595 6 GLCWLCRMPLALS--------HWGICSVCSRALRTL-KTCCPQCGLP 43 (227)
T ss_pred CcCccCCCccCCC--------CCcccHHHHhhCCcc-cCcCccCCCc
Confidence 3588887765322 112566676654322 3467777654
No 212
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=22.80 E-value=26 Score=15.00 Aligned_cols=12 Identities=33% Similarity=0.966 Sum_probs=8.0
Q ss_pred cccccccccccc
Q 048466 90 TCPLCRFSMGEE 101 (128)
Q Consensus 90 ~CP~Cr~~~~~~ 101 (128)
.||.|.+.+..+
T Consensus 2 ~C~~C~~~f~~~ 13 (23)
T PF00096_consen 2 KCPICGKSFSSK 13 (23)
T ss_dssp EETTTTEEESSH
T ss_pred CCCCCCCccCCH
Confidence 477787766554
No 213
>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=22.77 E-value=17 Score=24.70 Aligned_cols=25 Identities=28% Similarity=0.654 Sum_probs=16.3
Q ss_pred ccHHhHHHHHhc---CCccccccccccc
Q 048466 75 FHRACVDRWFNE---WTKTCPLCRFSMG 99 (128)
Q Consensus 75 f~~~Ci~~wl~~---~~~~CP~Cr~~~~ 99 (128)
||..|+.+=|.. +.=.||.|...-.
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~ 29 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEKS 29 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCCC
Confidence 677888776654 2226999976443
No 214
>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=22.67 E-value=64 Score=25.88 Aligned_cols=30 Identities=27% Similarity=0.607 Sum_probs=19.0
Q ss_pred cccccccccCCCceEEeC---CCCcccHHhHHH
Q 048466 53 CCVCLSRLKQGDEMRVLP---CLHRFHRACVDR 82 (128)
Q Consensus 53 C~ICl~~~~~~~~~~~l~---C~H~f~~~Ci~~ 82 (128)
|.||..-=.+.++..++. |+|.-|..|..+
T Consensus 131 C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCALr 163 (446)
T PF07227_consen 131 CCICSKFDDNKNTCSWIGCDVCGHWCHLDCALR 163 (446)
T ss_pred ccccCCcccCCCCeeEEeccCCCceehhhhhcc
Confidence 556755212234555553 899999999765
No 215
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=22.65 E-value=71 Score=22.17 Aligned_cols=39 Identities=18% Similarity=0.153 Sum_probs=24.6
Q ss_pred cCCCCCcccccccccccCCCceEEeCCCCcccHHhHHHHHhcCCcccccccccccccc
Q 048466 45 ANEFEGESCCVCLSRLKQGDEMRVLPCLHRFHRACVDRWFNEWTKTCPLCRFSMGEEM 102 (128)
Q Consensus 45 ~~~~~~~~C~ICl~~~~~~~~~~~l~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~~~~ 102 (128)
......+.|+.|...+... ..+.. .+.||.|...+...+
T Consensus 112 e~~~~~Y~Cp~C~~rytf~------------------eA~~~-~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 112 EENNMFFFCPNCHIRFTFD------------------EAMEY-GFRCPQCGEMLEEYD 150 (178)
T ss_pred ccCCCEEECCCCCcEEeHH------------------HHhhc-CCcCCCCCCCCeecc
Confidence 3344556688777655432 12233 789999999887653
No 216
>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=22.57 E-value=19 Score=18.66 Aligned_cols=25 Identities=24% Similarity=0.376 Sum_probs=13.6
Q ss_pred CCCCcccHHhHHHHHhcCCcccccccc
Q 048466 70 PCLHRFHRACVDRWFNEWTKTCPLCRF 96 (128)
Q Consensus 70 ~C~H~f~~~Ci~~wl~~~~~~CP~Cr~ 96 (128)
.|||.|-...-. .......||.|..
T Consensus 10 ~Cg~~fe~~~~~--~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 10 ECGHEFEVLQSI--SEDDPVPCPECGS 34 (42)
T ss_pred CCCCEEEEEEEc--CCCCCCcCCCCCC
Confidence 477766543211 1112457999977
No 217
>PF03884 DUF329: Domain of unknown function (DUF329); InterPro: IPR005584 The biological function of these short proteins is unknown, but they contain four conserved cysteines, suggesting that they all bind zinc. YacG (Q5X8H6 from SWISSPROT) from Escherichia coli has been shown to bind zinc and contains the structural motifs typical of zinc-binding proteins []. The conserved four cysteine motif in these proteins (-C-X(2)-C-X(15)-C-X(3)-C-) is not found in other zinc-binding proteins with known structures.; GO: 0008270 zinc ion binding; PDB: 1LV3_A.
Probab=22.39 E-value=32 Score=19.41 Aligned_cols=11 Identities=27% Similarity=0.791 Sum_probs=4.5
Q ss_pred ccccccccccc
Q 048466 90 TCPLCRFSMGE 100 (128)
Q Consensus 90 ~CP~Cr~~~~~ 100 (128)
.||.|++.+..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 57777766554
No 218
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=22.13 E-value=56 Score=14.91 Aligned_cols=6 Identities=50% Similarity=1.348 Sum_probs=2.7
Q ss_pred cccccc
Q 048466 91 CPLCRF 96 (128)
Q Consensus 91 CP~Cr~ 96 (128)
||.|.+
T Consensus 5 Cp~Cg~ 10 (26)
T PF13248_consen 5 CPNCGA 10 (26)
T ss_pred CcccCC
Confidence 444444
No 219
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=21.82 E-value=32 Score=15.68 Aligned_cols=11 Identities=27% Similarity=0.936 Sum_probs=7.1
Q ss_pred ccccccccccc
Q 048466 90 TCPLCRFSMGE 100 (128)
Q Consensus 90 ~CP~Cr~~~~~ 100 (128)
.||.|...+..
T Consensus 4 ~C~~CgR~F~~ 14 (25)
T PF13913_consen 4 PCPICGRKFNP 14 (25)
T ss_pred cCCCCCCEECH
Confidence 57888666643
No 220
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=21.63 E-value=30 Score=25.91 Aligned_cols=38 Identities=24% Similarity=0.552 Sum_probs=23.9
Q ss_pred eCCCCcccHHhHH-HHHhcC---------Ccccccccccccccccccc
Q 048466 69 LPCLHRFHRACVD-RWFNEW---------TKTCPLCRFSMGEEMKLHA 106 (128)
Q Consensus 69 l~C~H~f~~~Ci~-~wl~~~---------~~~CP~Cr~~~~~~~~~~~ 106 (128)
++|.-.+|-.-.. +||.++ ...||.|++.+-+..+.++
T Consensus 186 l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFADRSNLRA 233 (279)
T KOG2462|consen 186 LPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFADRSNLRA 233 (279)
T ss_pred CCcccccccccccchHHhhcccccccCCCCccCCcccchhcchHHHHH
Confidence 4444444433333 898763 3479999998887765554
No 221
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=21.51 E-value=33 Score=14.34 Aligned_cols=12 Identities=33% Similarity=0.924 Sum_probs=6.0
Q ss_pred cccccccccccc
Q 048466 90 TCPLCRFSMGEE 101 (128)
Q Consensus 90 ~CP~Cr~~~~~~ 101 (128)
.||.|...+...
T Consensus 2 ~C~~C~~~~~~~ 13 (24)
T PF13894_consen 2 QCPICGKSFRSK 13 (24)
T ss_dssp E-SSTS-EESSH
T ss_pred CCcCCCCcCCcH
Confidence 477776665544
No 222
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.44 E-value=49 Score=21.94 Aligned_cols=22 Identities=27% Similarity=0.718 Sum_probs=11.9
Q ss_pred cccHHhHHHHHhcCCccccccccccc
Q 048466 74 RFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 74 ~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
.||..|-..-+. .||.|..++.
T Consensus 29 afcskcgeati~----qcp~csasir 50 (160)
T COG4306 29 AFCSKCGEATIT----QCPICSASIR 50 (160)
T ss_pred HHHhhhchHHHh----cCCccCCccc
Confidence 466666554332 3677766553
No 223
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=21.40 E-value=9 Score=18.59 Aligned_cols=6 Identities=50% Similarity=1.514 Sum_probs=3.0
Q ss_pred cccccc
Q 048466 90 TCPLCR 95 (128)
Q Consensus 90 ~CP~Cr 95 (128)
.||.|.
T Consensus 23 ~C~~Cg 28 (32)
T PF09297_consen 23 RCPSCG 28 (32)
T ss_dssp EESSSS
T ss_pred ECCCCc
Confidence 455554
No 224
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=21.22 E-value=63 Score=21.48 Aligned_cols=20 Identities=20% Similarity=0.434 Sum_probs=14.7
Q ss_pred CCCCcccHHhHHHHHhcCCcccccccccc
Q 048466 70 PCLHRFHRACVDRWFNEWTKTCPLCRFSM 98 (128)
Q Consensus 70 ~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~ 98 (128)
.|||.|+- .+..||.|....
T Consensus 34 ~CG~v~~P---------Pr~~Cp~C~~~~ 53 (140)
T COG1545 34 KCGRVYFP---------PRAYCPKCGSET 53 (140)
T ss_pred CCCeEEcC---------CcccCCCCCCCC
Confidence 48888764 256899998764
No 225
>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=21.14 E-value=52 Score=17.35 Aligned_cols=12 Identities=33% Similarity=0.922 Sum_probs=8.7
Q ss_pred Cccccccccccc
Q 048466 88 TKTCPLCRFSMG 99 (128)
Q Consensus 88 ~~~CP~Cr~~~~ 99 (128)
...||+|..++.
T Consensus 8 ~K~C~~C~rpf~ 19 (42)
T PF10013_consen 8 SKICPVCGRPFT 19 (42)
T ss_pred CCcCcccCCcch
Confidence 457888877765
No 226
>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=20.98 E-value=60 Score=22.00 Aligned_cols=29 Identities=31% Similarity=0.718 Sum_probs=17.4
Q ss_pred EeCC--CCcccHHhHHHHHhc----------CCccccccccccccc
Q 048466 68 VLPC--LHRFHRACVDRWFNE----------WTKTCPLCRFSMGEE 101 (128)
Q Consensus 68 ~l~C--~H~f~~~Ci~~wl~~----------~~~~CP~Cr~~~~~~ 101 (128)
.|.| +|.|- .|+.. +--+||+|...-..+
T Consensus 5 ~L~C~~gH~FE-----gWF~ss~~fd~Q~~~glv~CP~Cgs~~V~K 45 (148)
T PF06676_consen 5 DLRCENGHEFE-----GWFRSSAAFDRQQARGLVSCPVCGSTEVSK 45 (148)
T ss_pred EEecCCCCccc-----eecCCHHHHHHHHHcCCccCCCCCCCeEee
Confidence 3455 67663 57754 234799997654433
No 227
>PLN02248 cellulose synthase-like protein
Probab=20.97 E-value=90 Score=28.12 Aligned_cols=29 Identities=21% Similarity=0.442 Sum_probs=25.1
Q ss_pred CCCCcccHHhHHHHHhcCCccccccccccc
Q 048466 70 PCLHRFHRACVDRWFNEWTKTCPLCRFSMG 99 (128)
Q Consensus 70 ~C~H~f~~~Ci~~wl~~~~~~CP~Cr~~~~ 99 (128)
.|+...|.+|....+.. ...||-|+.++.
T Consensus 149 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 177 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKS-GGICPGCKEPYK 177 (1135)
T ss_pred cccchhHHhHhhhhhhc-CCCCCCCccccc
Confidence 37889999999998888 779999998874
No 228
>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=20.97 E-value=82 Score=15.92 Aligned_cols=33 Identities=24% Similarity=0.631 Sum_probs=22.2
Q ss_pred CcccccccccccCCC-ceEEeCCCCcccHHhHHH
Q 048466 50 GESCCVCLSRLKQGD-EMRVLPCLHRFHRACVDR 82 (128)
Q Consensus 50 ~~~C~ICl~~~~~~~-~~~~l~C~H~f~~~Ci~~ 82 (128)
...|.+|.+.+.... .+.-..|+-..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 456999999876432 223334788899999764
No 229
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=20.90 E-value=36 Score=22.98 Aligned_cols=14 Identities=29% Similarity=0.653 Sum_probs=10.9
Q ss_pred Cccccccccccccc
Q 048466 88 TKTCPLCRFSMGEE 101 (128)
Q Consensus 88 ~~~CP~Cr~~~~~~ 101 (128)
.-.||.||..++.-
T Consensus 9 ei~CPhCRQ~ipAL 22 (163)
T TIGR02652 9 EIRCPHCRQNIPAL 22 (163)
T ss_pred cCcCchhhcccchh
Confidence 45799999988753
No 230
>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=20.87 E-value=51 Score=16.97 Aligned_cols=33 Identities=24% Similarity=0.480 Sum_probs=21.7
Q ss_pred CcccccccccccCC--CceEEeCCCCcccHHhHHH
Q 048466 50 GESCCVCLSRLKQG--DEMRVLPCLHRFHRACVDR 82 (128)
Q Consensus 50 ~~~C~ICl~~~~~~--~~~~~l~C~H~f~~~Ci~~ 82 (128)
...|.+|.+.+... ..+.-..|+-..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 45699998887642 2333334888888888653
No 231
>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=20.72 E-value=56 Score=17.68 Aligned_cols=8 Identities=50% Similarity=1.061 Sum_probs=4.6
Q ss_pred cccccccc
Q 048466 89 KTCPLCRF 96 (128)
Q Consensus 89 ~~CP~Cr~ 96 (128)
..||.|.+
T Consensus 3 f~CP~C~~ 10 (54)
T PF05605_consen 3 FTCPYCGK 10 (54)
T ss_pred cCCCCCCC
Confidence 45666655
No 232
>PF09654 DUF2396: Protein of unknown function (DUF2396); InterPro: IPR013472 These conserved hypothetical proteins have so far been found only in the Cyanobacteria. They are about 170 amino acids long and contain a CxxCx(14)CxxH motif near the N terminus.
Probab=20.64 E-value=37 Score=22.88 Aligned_cols=14 Identities=29% Similarity=0.672 Sum_probs=10.7
Q ss_pred Cccccccccccccc
Q 048466 88 TKTCPLCRFSMGEE 101 (128)
Q Consensus 88 ~~~CP~Cr~~~~~~ 101 (128)
.-.||.||..++.-
T Consensus 6 ei~CPhCRq~ipAL 19 (161)
T PF09654_consen 6 EIQCPHCRQTIPAL 19 (161)
T ss_pred cCcCchhhcccchh
Confidence 45799999987653
No 233
>PF12292 DUF3624: Protein of unknown function (DUF3624); InterPro: IPR022072 This family of proteins is found in bacteria. Proteins in this family are approximately 90 amino acids in length. There is a conserved GRC sequence motif.
Probab=20.63 E-value=36 Score=20.41 Aligned_cols=22 Identities=23% Similarity=0.725 Sum_probs=16.3
Q ss_pred cHHhHHHHHhcCCccccccccc
Q 048466 76 HRACVDRWFNEWTKTCPLCRFS 97 (128)
Q Consensus 76 ~~~Ci~~wl~~~~~~CP~Cr~~ 97 (128)
|..|-..|+.+.-.+|..|-..
T Consensus 3 C~~C~~~~F~~KiGRC~rCM~Q 24 (77)
T PF12292_consen 3 CNDCQESWFWQKIGRCQRCMWQ 24 (77)
T ss_pred hhhHHHHHHHHHhccHHHHHHH
Confidence 5568888888756789888543
No 234
>PRK11827 hypothetical protein; Provisional
Probab=20.53 E-value=44 Score=19.04 Aligned_cols=14 Identities=21% Similarity=0.536 Sum_probs=10.6
Q ss_pred Cccccccccccccc
Q 048466 88 TKTCPLCRFSMGEE 101 (128)
Q Consensus 88 ~~~CP~Cr~~~~~~ 101 (128)
--.||.|+..+...
T Consensus 8 ILaCP~ckg~L~~~ 21 (60)
T PRK11827 8 IIACPVCNGKLWYN 21 (60)
T ss_pred heECCCCCCcCeEc
Confidence 34799999988653
No 235
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=20.32 E-value=45 Score=17.00 Aligned_cols=12 Identities=25% Similarity=0.697 Sum_probs=8.1
Q ss_pred cccccccccccc
Q 048466 90 TCPLCRFSMGEE 101 (128)
Q Consensus 90 ~CP~Cr~~~~~~ 101 (128)
.||.|+..+...
T Consensus 1 ~CP~C~~~l~~~ 12 (41)
T PF13453_consen 1 KCPRCGTELEPV 12 (41)
T ss_pred CcCCCCcccceE
Confidence 489998765533
No 236
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=20.18 E-value=56 Score=18.60 Aligned_cols=27 Identities=30% Similarity=0.690 Sum_probs=15.3
Q ss_pred CCCCcccHHhHHHHHhcC--Ccccccccccc
Q 048466 70 PCLHRFHRACVDRWFNEW--TKTCPLCRFSM 98 (128)
Q Consensus 70 ~C~H~f~~~Ci~~wl~~~--~~~CP~Cr~~~ 98 (128)
|||..|-.+--. ++.+ -.+||.|.-.+
T Consensus 26 PCGDRFeIsLeD--l~~GE~VArCPSCSLiv 54 (67)
T COG5216 26 PCGDRFEISLED--LRNGEVVARCPSCSLIV 54 (67)
T ss_pred CCCCEeEEEHHH--hhCCceEEEcCCceEEE
Confidence 478887654322 2222 34799996544
No 237
>PF11290 DUF3090: Protein of unknown function (DUF3090); InterPro: IPR021441 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=20.10 E-value=92 Score=21.66 Aligned_cols=16 Identities=31% Similarity=0.654 Sum_probs=12.6
Q ss_pred cCCccccccccccccc
Q 048466 86 EWTKTCPLCRFSMGEE 101 (128)
Q Consensus 86 ~~~~~CP~Cr~~~~~~ 101 (128)
.++..||+|..++.+.
T Consensus 152 AGRP~CPlCg~PlDP~ 167 (171)
T PF11290_consen 152 AGRPPCPLCGEPLDPE 167 (171)
T ss_pred CCCCCCCCCCCCCCCC
Confidence 3678999999887654
Done!