Query 044807
Match_columns 105
No_of_seqs 167 out of 1335
Neff 9.0
Searched_HMMs 46136
Date Fri Mar 29 06:57:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044807.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044807hhsearch_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 99.8 8.1E-20 1.8E-24 93.9 1.9 44 48-92 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.7 1.3E-18 2.7E-23 122.1 4.3 76 19-97 203-279 (348)
3 PHA02929 N1R/p28-like protein; 99.7 2.7E-17 5.9E-22 110.8 4.4 80 21-100 148-231 (238)
4 PF12678 zf-rbx1: RING-H2 zinc 99.6 3.4E-16 7.4E-21 88.4 4.0 45 47-92 19-73 (73)
5 PF13920 zf-C3HC4_3: Zinc fing 99.5 1.2E-14 2.5E-19 76.4 3.0 47 47-97 2-49 (50)
6 COG5540 RING-finger-containing 99.5 1.5E-14 3.3E-19 99.4 3.7 52 45-97 321-373 (374)
7 COG5243 HRD1 HRD ubiquitin lig 99.5 1.9E-14 4.1E-19 101.3 2.5 51 44-95 284-344 (491)
8 PLN03208 E3 ubiquitin-protein 99.4 8.7E-14 1.9E-18 90.9 4.0 50 44-97 15-80 (193)
9 PF13923 zf-C3HC4_2: Zinc fing 99.4 6.1E-14 1.3E-18 70.1 2.5 39 50-91 1-39 (39)
10 KOG0317 Predicted E3 ubiquitin 99.4 1.1E-13 2.4E-18 94.5 2.9 51 45-99 237-287 (293)
11 cd00162 RING RING-finger (Real 99.4 2.6E-13 5.7E-18 68.9 3.4 44 49-95 1-45 (45)
12 KOG0823 Predicted E3 ubiquitin 99.4 2.7E-13 5.9E-18 90.1 3.3 50 44-97 44-96 (230)
13 KOG0320 Predicted E3 ubiquitin 99.4 5.2E-13 1.1E-17 85.7 3.7 54 44-99 128-181 (187)
14 PHA02926 zinc finger-like prot 99.4 2.8E-13 6E-18 89.8 2.3 56 44-99 167-233 (242)
15 PF15227 zf-C3HC4_4: zinc fing 99.4 7.9E-13 1.7E-17 67.0 3.1 38 50-91 1-42 (42)
16 PF12861 zf-Apc11: Anaphase-pr 99.3 1.5E-12 3.2E-17 74.7 3.4 53 45-97 19-83 (85)
17 PF14634 zf-RING_5: zinc-RING 99.3 3.3E-12 7.1E-17 65.4 3.2 44 49-93 1-44 (44)
18 PF00097 zf-C3HC4: Zinc finger 99.3 3.3E-12 7.2E-17 64.3 2.5 39 50-91 1-41 (41)
19 KOG0802 E3 ubiquitin ligase [P 99.2 2.5E-12 5.5E-17 96.0 1.9 50 45-95 289-340 (543)
20 smart00184 RING Ring finger. E 99.2 1.9E-11 4.1E-16 59.9 3.0 38 50-91 1-39 (39)
21 smart00504 Ubox Modified RING 99.1 5.3E-11 1.1E-15 65.0 3.5 46 48-97 2-47 (63)
22 TIGR00599 rad18 DNA repair pro 99.1 4.7E-11 1E-15 85.9 3.2 49 45-97 24-72 (397)
23 COG5194 APC11 Component of SCF 98.9 1E-09 2.2E-14 61.9 2.9 51 47-97 20-82 (88)
24 PF13445 zf-RING_UBOX: RING-ty 98.9 9.5E-10 2.1E-14 55.8 2.4 33 50-84 1-34 (43)
25 smart00744 RINGv The RING-vari 98.9 2.2E-09 4.7E-14 56.0 2.7 42 49-92 1-49 (49)
26 KOG0287 Postreplication repair 98.8 9.7E-10 2.1E-14 77.1 1.5 49 45-97 21-69 (442)
27 KOG1734 Predicted RING-contain 98.8 7.6E-10 1.7E-14 75.4 0.7 52 44-96 221-281 (328)
28 COG5574 PEX10 RING-finger-cont 98.8 1.6E-09 3.4E-14 73.6 2.1 50 45-98 213-264 (271)
29 PF11793 FANCL_C: FANCL C-term 98.8 5.1E-10 1.1E-14 62.6 -0.7 51 47-97 2-67 (70)
30 TIGR00570 cdk7 CDK-activating 98.8 4.3E-09 9.3E-14 73.4 3.6 51 46-97 2-55 (309)
31 KOG1493 Anaphase-promoting com 98.8 1.3E-09 2.9E-14 60.9 0.5 52 46-97 19-82 (84)
32 KOG2164 Predicted E3 ubiquitin 98.8 2.7E-09 5.8E-14 78.0 2.1 47 47-97 186-237 (513)
33 KOG0827 Predicted E3 ubiquitin 98.8 3E-09 6.5E-14 75.6 1.9 46 47-92 4-52 (465)
34 PF04564 U-box: U-box domain; 98.7 1.2E-08 2.5E-13 57.5 3.4 48 46-97 3-51 (73)
35 KOG2177 Predicted E3 ubiquitin 98.7 4.2E-09 9.1E-14 71.9 1.8 44 45-92 11-54 (386)
36 COG5432 RAD18 RING-finger-cont 98.7 4.9E-09 1.1E-13 72.3 2.0 49 45-97 23-71 (391)
37 COG5219 Uncharacterized conser 98.7 3E-09 6.6E-14 82.6 0.8 54 44-97 1466-1524(1525)
38 KOG0828 Predicted E3 ubiquitin 98.7 6.1E-09 1.3E-13 76.1 1.8 51 46-97 570-635 (636)
39 KOG4172 Predicted E3 ubiquitin 98.7 2.6E-09 5.6E-14 56.1 -0.3 47 47-97 7-55 (62)
40 KOG0804 Cytoplasmic Zn-finger 98.7 9.8E-09 2.1E-13 74.2 1.7 50 44-96 172-222 (493)
41 KOG0311 Predicted E3 ubiquitin 98.6 3.5E-09 7.6E-14 74.5 -1.1 58 45-105 41-99 (381)
42 PF14835 zf-RING_6: zf-RING of 98.6 1.1E-08 2.3E-13 55.7 0.9 46 47-97 7-52 (65)
43 KOG4265 Predicted E3 ubiquitin 98.6 2.3E-08 4.9E-13 70.5 2.7 50 45-98 288-338 (349)
44 KOG2930 SCF ubiquitin ligase, 98.6 3E-08 6.5E-13 58.5 2.1 53 44-96 43-108 (114)
45 KOG1039 Predicted E3 ubiquitin 98.5 7.2E-08 1.6E-12 68.5 2.3 55 44-98 158-223 (344)
46 KOG0825 PHD Zn-finger protein 98.4 4.7E-08 1E-12 74.9 -0.4 54 45-99 121-174 (1134)
47 KOG1785 Tyrosine kinase negati 98.4 1E-07 2.2E-12 68.4 1.2 51 47-101 369-421 (563)
48 KOG4445 Uncharacterized conser 98.3 1.8E-07 3.9E-12 64.9 1.4 53 44-97 112-187 (368)
49 KOG0824 Predicted E3 ubiquitin 98.3 2.1E-07 4.6E-12 64.5 1.7 48 46-97 6-54 (324)
50 KOG1645 RING-finger-containing 98.3 5E-07 1.1E-11 64.9 3.1 51 46-96 3-56 (463)
51 KOG4159 Predicted E3 ubiquitin 98.2 9.5E-07 2.1E-11 63.9 3.2 49 45-97 82-130 (398)
52 KOG3970 Predicted E3 ubiquitin 98.1 2.7E-06 5.8E-11 57.1 3.2 52 44-97 47-106 (299)
53 KOG1952 Transcription factor N 98.0 7E-06 1.5E-10 63.6 4.4 57 44-100 188-251 (950)
54 KOG0297 TNF receptor-associate 98.0 3.1E-06 6.8E-11 61.4 1.9 52 45-99 19-70 (391)
55 KOG0978 E3 ubiquitin ligase in 98.0 2.1E-06 4.6E-11 65.6 0.8 51 46-100 642-693 (698)
56 KOG2660 Locus-specific chromos 97.9 1.8E-06 3.9E-11 60.5 0.0 51 45-98 13-63 (331)
57 PF11789 zf-Nse: Zinc-finger o 97.9 5.5E-06 1.2E-10 44.5 1.7 42 46-90 10-53 (57)
58 KOG0801 Predicted E3 ubiquitin 97.9 3.4E-06 7.4E-11 53.9 0.6 40 35-75 165-204 (205)
59 PF05883 Baculo_RING: Baculovi 97.9 4.9E-06 1.1E-10 51.7 1.2 36 46-82 25-66 (134)
60 KOG1941 Acetylcholine receptor 97.8 3.8E-06 8.2E-11 60.4 0.2 51 45-96 363-416 (518)
61 KOG2879 Predicted E3 ubiquitin 97.7 3.4E-05 7.3E-10 53.1 3.5 53 44-99 236-290 (298)
62 KOG1428 Inhibitor of type V ad 97.7 1.8E-05 4E-10 64.7 2.4 54 44-98 3483-3546(3738)
63 COG5236 Uncharacterized conser 97.7 5.8E-05 1.3E-09 53.7 4.0 56 37-96 51-108 (493)
64 PF12906 RINGv: RING-variant d 97.6 5.4E-05 1.2E-09 39.0 2.2 40 50-91 1-47 (47)
65 PF14570 zf-RING_4: RING/Ubox 97.6 7.4E-05 1.6E-09 38.6 2.4 45 50-95 1-47 (48)
66 KOG1002 Nucleotide excision re 97.4 6.4E-05 1.4E-09 56.2 1.3 49 44-96 533-586 (791)
67 COG5152 Uncharacterized conser 97.4 6.2E-05 1.4E-09 49.8 0.9 45 47-95 196-240 (259)
68 KOG4692 Predicted E3 ubiquitin 97.3 0.0002 4.4E-09 51.1 3.2 53 41-97 416-468 (489)
69 PF10367 Vps39_2: Vacuolar sor 97.3 9.8E-05 2.1E-09 43.9 1.1 34 44-79 75-108 (109)
70 PHA03096 p28-like protein; Pro 97.3 0.00011 2.3E-09 51.4 1.4 45 48-92 179-230 (284)
71 PF04641 Rtf2: Rtf2 RING-finge 97.3 0.00044 9.6E-09 47.7 4.3 60 44-105 110-170 (260)
72 PHA02862 5L protein; Provision 97.2 0.00024 5.2E-09 44.7 2.3 45 47-96 2-53 (156)
73 KOG3268 Predicted E3 ubiquitin 97.1 0.00029 6.2E-09 45.9 2.1 53 47-100 165-232 (234)
74 KOG1814 Predicted E3 ubiquitin 97.1 0.0003 6.4E-09 51.0 2.2 47 46-93 183-237 (445)
75 PF14447 Prok-RING_4: Prokaryo 97.0 0.0003 6.5E-09 37.2 1.2 45 47-97 7-51 (55)
76 COG5175 MOT2 Transcriptional r 97.0 0.00037 8E-09 49.6 1.9 58 45-103 12-71 (480)
77 KOG4739 Uncharacterized protei 97.0 0.00029 6.2E-09 47.7 1.3 46 49-98 5-50 (233)
78 KOG4185 Predicted E3 ubiquitin 97.0 0.00064 1.4E-08 47.5 2.6 48 47-95 3-54 (296)
79 PHA02825 LAP/PHD finger-like p 96.9 0.00098 2.1E-08 42.6 3.0 47 45-96 6-59 (162)
80 KOG1571 Predicted E3 ubiquitin 96.9 0.00061 1.3E-08 48.6 2.3 49 44-99 302-350 (355)
81 KOG1940 Zn-finger protein [Gen 96.9 0.00062 1.3E-08 47.3 1.8 48 45-93 156-204 (276)
82 KOG0826 Predicted E3 ubiquitin 96.8 0.0013 2.9E-08 46.5 3.2 50 44-96 297-346 (357)
83 PF08746 zf-RING-like: RING-li 96.8 0.00081 1.8E-08 33.9 1.6 41 50-91 1-43 (43)
84 KOG1813 Predicted E3 ubiquitin 96.8 0.00052 1.1E-08 47.8 1.0 46 48-97 242-287 (313)
85 KOG3039 Uncharacterized conser 96.7 0.0025 5.3E-08 43.6 3.6 52 46-97 220-271 (303)
86 KOG4275 Predicted E3 ubiquitin 96.6 0.00018 4E-09 50.1 -2.0 43 47-97 300-343 (350)
87 KOG2114 Vacuolar assembly/sort 96.5 0.0013 2.9E-08 51.5 1.7 45 46-96 839-883 (933)
88 PF07800 DUF1644: Protein of u 96.2 0.0061 1.3E-07 39.0 3.2 35 46-82 1-46 (162)
89 PF10272 Tmpp129: Putative tra 96.2 0.0033 7.1E-08 45.3 2.0 34 69-102 311-357 (358)
90 KOG1001 Helicase-like transcri 96.0 0.0026 5.7E-08 49.3 1.1 44 48-96 455-500 (674)
91 KOG0309 Conserved WD40 repeat- 96.0 0.004 8.7E-08 48.6 1.7 28 62-90 1042-1069(1081)
92 KOG3800 Predicted E3 ubiquitin 95.9 0.0076 1.6E-07 42.1 2.8 47 49-95 2-50 (300)
93 KOG2034 Vacuolar sorting prote 95.7 0.0056 1.2E-07 48.3 1.5 37 44-82 814-850 (911)
94 KOG3002 Zn finger protein [Gen 95.6 0.0089 1.9E-07 42.2 2.3 47 44-98 45-93 (299)
95 KOG0827 Predicted E3 ubiquitin 95.6 0.0005 1.1E-08 49.6 -4.1 50 46-96 195-245 (465)
96 KOG3899 Uncharacterized conser 95.5 0.0048 1E-07 43.2 0.6 35 69-103 325-372 (381)
97 PF03854 zf-P11: P-11 zinc fin 95.4 0.0075 1.6E-07 30.9 1.0 29 69-97 18-47 (50)
98 PF14446 Prok-RING_1: Prokaryo 95.3 0.028 6.2E-07 29.6 2.9 34 46-79 4-37 (54)
99 COG5222 Uncharacterized conser 95.2 0.012 2.7E-07 41.4 1.8 43 48-93 275-318 (427)
100 KOG2817 Predicted E3 ubiquitin 95.2 0.019 4E-07 41.7 2.7 49 45-94 332-383 (394)
101 KOG1812 Predicted E3 ubiquitin 95.1 0.0077 1.7E-07 43.9 0.5 39 45-84 144-183 (384)
102 KOG0298 DEAD box-containing he 95.0 0.0071 1.5E-07 49.5 0.3 47 45-94 1151-1197(1394)
103 COG5220 TFB3 Cdk activating ki 95.0 0.0091 2E-07 40.8 0.6 49 45-93 8-61 (314)
104 KOG2932 E3 ubiquitin ligase in 94.4 0.01 2.2E-07 41.9 -0.2 31 64-97 105-135 (389)
105 KOG1100 Predicted E3 ubiquitin 94.0 0.031 6.7E-07 37.5 1.5 40 50-97 161-201 (207)
106 PF05290 Baculo_IE-1: Baculovi 93.9 0.048 1E-06 34.0 2.1 52 46-99 79-135 (140)
107 KOG4367 Predicted Zn-finger pr 93.8 0.037 8.1E-07 41.0 1.7 36 45-84 2-37 (699)
108 KOG1609 Protein involved in mR 93.1 0.064 1.4E-06 37.5 1.9 50 47-97 78-135 (323)
109 KOG3053 Uncharacterized conser 92.7 0.047 1E-06 37.7 0.7 53 45-98 18-84 (293)
110 PF06906 DUF1272: Protein of u 92.3 0.37 8E-06 25.6 3.6 48 48-99 6-55 (57)
111 KOG3161 Predicted E3 ubiquitin 92.1 0.051 1.1E-06 42.0 0.4 40 47-89 11-51 (861)
112 KOG4718 Non-SMC (structural ma 92.0 0.087 1.9E-06 35.4 1.3 43 46-91 180-222 (235)
113 KOG1815 Predicted E3 ubiquitin 91.2 0.12 2.6E-06 38.3 1.5 37 45-84 68-104 (444)
114 KOG4362 Transcriptional regula 91.0 0.059 1.3E-06 41.9 -0.3 47 46-96 20-69 (684)
115 COG5183 SSM4 Protein involved 90.6 0.3 6.4E-06 39.0 3.1 53 44-98 9-68 (1175)
116 KOG0825 PHD Zn-finger protein 90.2 0.19 4.1E-06 39.9 1.8 52 45-96 94-154 (1134)
117 PF07975 C1_4: TFIIH C1-like d 90.2 0.33 7.2E-06 25.3 2.2 43 50-92 2-50 (51)
118 KOG1829 Uncharacterized conser 90.2 0.096 2.1E-06 40.1 0.3 43 45-91 509-556 (580)
119 PF00628 PHD: PHD-finger; Int 89.5 0.18 3.8E-06 25.8 0.9 43 49-92 1-49 (51)
120 KOG0269 WD40 repeat-containing 89.3 0.34 7.4E-06 38.2 2.6 42 47-90 779-820 (839)
121 TIGR00622 ssl1 transcription f 89.3 0.63 1.4E-05 28.3 3.3 46 47-92 55-110 (112)
122 smart00249 PHD PHD zinc finger 89.3 0.22 4.9E-06 24.3 1.2 31 49-80 1-31 (47)
123 PF10571 UPF0547: Uncharacteri 88.7 0.24 5.2E-06 22.1 0.9 23 49-73 2-24 (26)
124 KOG3113 Uncharacterized conser 88.6 0.54 1.2E-05 32.6 2.9 58 45-105 109-167 (293)
125 PF02891 zf-MIZ: MIZ/SP-RING z 88.6 0.41 8.9E-06 24.7 1.9 43 48-94 3-50 (50)
126 KOG1812 Predicted E3 ubiquitin 88.2 0.3 6.5E-06 35.7 1.6 44 47-91 306-351 (384)
127 PF01363 FYVE: FYVE zinc finge 87.8 0.27 5.9E-06 26.8 0.9 38 45-82 7-44 (69)
128 PF13901 DUF4206: Domain of un 87.4 0.45 9.7E-06 31.7 2.0 41 46-92 151-196 (202)
129 KOG2807 RNA polymerase II tran 87.1 0.62 1.4E-05 33.4 2.6 49 44-93 327-375 (378)
130 COG5109 Uncharacterized conser 85.5 0.64 1.4E-05 33.3 2.0 46 46-92 335-383 (396)
131 KOG2066 Vacuolar assembly/sort 85.1 0.35 7.6E-06 38.3 0.6 40 46-86 783-826 (846)
132 PF06844 DUF1244: Protein of u 84.0 0.64 1.4E-05 25.5 1.1 11 73-83 12-22 (68)
133 KOG3579 Predicted E3 ubiquitin 83.6 0.57 1.2E-05 33.0 1.1 39 46-84 267-305 (352)
134 KOG3005 GIY-YIG type nuclease 81.8 0.91 2E-05 31.7 1.5 49 47-95 182-242 (276)
135 KOG0802 E3 ubiquitin ligase [P 81.7 0.88 1.9E-05 34.7 1.6 46 44-97 476-521 (543)
136 KOG2068 MOT2 transcription fac 81.6 1.5 3.2E-05 31.4 2.5 50 46-96 248-298 (327)
137 cd00065 FYVE FYVE domain; Zinc 81.5 1.2 2.6E-05 23.1 1.6 37 47-83 2-38 (57)
138 PF14569 zf-UDP: Zinc-binding 81.3 2.3 4.9E-05 24.2 2.7 51 45-96 7-62 (80)
139 smart00132 LIM Zinc-binding do 81.0 1.2 2.7E-05 20.7 1.5 36 50-95 2-37 (39)
140 KOG0824 Predicted E3 ubiquitin 80.3 1.2 2.5E-05 31.7 1.6 50 45-97 103-152 (324)
141 COG3813 Uncharacterized protei 80.1 2.6 5.7E-05 23.6 2.7 27 70-98 28-54 (84)
142 smart00064 FYVE Protein presen 79.4 2.1 4.6E-05 23.1 2.2 38 46-83 9-46 (68)
143 PF00412 LIM: LIM domain; Int 79.1 1.2 2.5E-05 23.0 1.1 38 50-97 1-38 (58)
144 smart00647 IBR In Between Ring 76.2 0.91 2E-05 23.9 0.1 19 63-81 40-58 (64)
145 KOG3799 Rab3 effector RIM1 and 75.2 1.2 2.5E-05 28.1 0.4 19 42-60 60-79 (169)
146 PF02318 FYVE_2: FYVE-type zin 73.4 2.3 5.1E-05 25.8 1.5 46 46-93 53-102 (118)
147 PF13719 zinc_ribbon_5: zinc-r 73.4 2.3 5E-05 20.4 1.2 13 48-60 3-15 (37)
148 PF07649 C1_3: C1-like domain; 73.4 2.5 5.3E-05 19.1 1.2 29 49-78 2-30 (30)
149 KOG3039 Uncharacterized conser 73.2 2.4 5.2E-05 29.4 1.6 34 45-82 41-74 (303)
150 PLN02189 cellulose synthase 70.5 7.1 0.00015 32.3 3.8 53 44-96 31-87 (1040)
151 PRK05978 hypothetical protein; 70.4 4.4 9.4E-05 25.9 2.2 28 70-102 42-69 (148)
152 PF04423 Rad50_zn_hook: Rad50 70.2 1.4 3E-05 22.9 -0.0 12 86-97 21-32 (54)
153 PF13717 zinc_ribbon_4: zinc-r 70.0 2.7 5.8E-05 20.1 0.9 13 48-60 3-15 (36)
154 PF14311 DUF4379: Domain of un 69.8 3.3 7.3E-05 21.5 1.4 23 68-91 33-55 (55)
155 PLN02436 cellulose synthase A 67.7 8.8 0.00019 32.0 3.8 53 44-96 33-89 (1094)
156 PF04216 FdhE: Protein involve 67.3 0.89 1.9E-05 31.8 -1.5 48 45-94 170-220 (290)
157 PF10497 zf-4CXXC_R1: Zinc-fin 64.4 13 0.00028 22.2 3.3 24 70-93 37-69 (105)
158 PF13240 zinc_ribbon_2: zinc-r 64.1 1.4 2.9E-05 19.0 -0.7 6 88-93 16-21 (23)
159 COG3492 Uncharacterized protei 63.8 3.3 7.2E-05 24.2 0.7 12 72-83 42-53 (104)
160 cd00350 rubredoxin_like Rubred 62.3 5.9 0.00013 18.4 1.3 20 69-94 7-26 (33)
161 PLN02248 cellulose synthase-li 60.5 9.3 0.0002 31.9 2.8 30 69-98 150-179 (1135)
162 KOG1729 FYVE finger containing 58.1 3 6.5E-05 29.5 -0.2 40 45-85 212-251 (288)
163 PF12660 zf-TFIIIC: Putative z 57.6 1.8 3.9E-05 25.6 -1.2 50 47-98 14-68 (99)
164 PF06750 DiS_P_DiS: Bacterial 55.3 14 0.00031 21.4 2.4 40 45-97 31-70 (92)
165 PF07191 zinc-ribbons_6: zinc- 55.0 3.9 8.4E-05 22.8 -0.1 41 48-97 2-42 (70)
166 PF11023 DUF2614: Protein of u 53.7 16 0.00034 22.3 2.4 26 66-97 72-97 (114)
167 PF09723 Zn-ribbon_8: Zinc rib 53.4 3.4 7.4E-05 20.3 -0.4 24 69-93 11-34 (42)
168 PF14169 YdjO: Cold-inducible 52.8 8.7 0.00019 20.6 1.1 14 84-97 38-51 (59)
169 PLN02638 cellulose synthase A 51.4 27 0.00058 29.3 4.0 53 44-96 14-70 (1079)
170 PF05715 zf-piccolo: Piccolo Z 50.8 14 0.0003 19.9 1.6 10 86-95 3-12 (61)
171 PRK11088 rrmA 23S rRNA methylt 50.5 12 0.00025 25.8 1.7 27 48-75 3-29 (272)
172 PRK11827 hypothetical protein; 50.3 4.9 0.00011 21.6 -0.1 18 80-97 3-20 (60)
173 KOG1538 Uncharacterized conser 50.2 9.2 0.0002 30.6 1.3 31 66-96 1047-1077(1081)
174 KOG2979 Protein involved in DN 49.8 18 0.00038 25.3 2.4 45 47-94 176-222 (262)
175 PF00130 C1_1: Phorbol esters/ 49.7 14 0.0003 18.6 1.6 34 46-80 10-45 (53)
176 PF01485 IBR: IBR domain; Int 49.6 2 4.4E-05 22.5 -1.7 34 48-81 19-58 (64)
177 PLN02915 cellulose synthase A 48.1 33 0.00072 28.7 4.1 53 44-96 12-68 (1044)
178 smart00531 TFIIE Transcription 48.1 19 0.00041 22.6 2.3 15 85-99 123-137 (147)
179 PF13832 zf-HC5HC2H_2: PHD-zin 47.4 13 0.00028 21.9 1.4 34 46-81 54-88 (110)
180 PF09943 DUF2175: Uncharacteri 47.4 20 0.00043 21.4 2.1 33 48-82 3-35 (101)
181 KOG2071 mRNA cleavage and poly 47.0 10 0.00022 29.4 1.1 35 45-81 511-556 (579)
182 PF06937 EURL: EURL protein; 45.5 18 0.00038 25.5 2.0 44 46-89 29-74 (285)
183 TIGR01562 FdhE formate dehydro 45.0 7 0.00015 27.9 -0.0 48 46-94 183-233 (305)
184 PF10083 DUF2321: Uncharacteri 44.6 5.7 0.00012 25.6 -0.5 42 52-96 9-50 (158)
185 PF15446 zf-PHD-like: PHD/FYVE 44.5 11 0.00025 24.6 0.9 31 50-81 2-35 (175)
186 PF07282 OrfB_Zn_ribbon: Putat 44.0 23 0.0005 18.9 2.0 34 46-79 27-62 (69)
187 PLN02400 cellulose synthase 42.9 30 0.00065 29.1 3.1 53 44-96 33-89 (1085)
188 PF03119 DNA_ligase_ZBD: NAD-d 42.7 8.9 0.00019 17.2 0.1 11 87-97 1-11 (28)
189 PRK03564 formate dehydrogenase 42.3 11 0.00025 26.9 0.7 46 46-93 186-234 (309)
190 PF15353 HECA: Headcase protei 42.2 16 0.00035 22.0 1.2 13 69-81 40-52 (107)
191 KOG2231 Predicted E3 ubiquitin 41.9 25 0.00053 28.0 2.4 45 49-97 2-53 (669)
192 KOG0955 PHD finger protein BR1 41.6 19 0.00042 30.0 1.9 37 43-79 215-252 (1051)
193 PF06676 DUF1178: Protein of u 41.6 9.3 0.0002 24.4 0.1 21 69-94 10-41 (148)
194 KOG4577 Transcription factor L 41.4 6.1 0.00013 28.1 -0.8 43 48-100 93-135 (383)
195 COG2835 Uncharacterized conser 41.4 14 0.0003 19.9 0.8 11 87-97 10-20 (60)
196 PF03884 DUF329: Domain of unk 40.8 11 0.00025 20.0 0.4 10 88-97 5-14 (57)
197 KOG4218 Nuclear hormone recept 40.8 27 0.00058 25.7 2.3 23 44-67 12-34 (475)
198 PF04710 Pellino: Pellino; In 40.8 9.1 0.0002 28.4 0.0 50 47-97 328-402 (416)
199 PF10146 zf-C4H2: Zinc finger- 40.7 21 0.00045 24.4 1.7 22 73-94 196-217 (230)
200 PF02148 zf-UBP: Zn-finger in 40.6 16 0.00034 19.4 1.0 24 50-76 1-24 (63)
201 PLN02195 cellulose synthase A 40.3 43 0.00094 27.9 3.6 52 45-96 4-59 (977)
202 PF11682 DUF3279: Protein of u 39.5 37 0.0008 21.2 2.5 22 69-99 103-124 (128)
203 KOG4021 Mitochondrial ribosoma 39.1 16 0.00034 24.6 0.9 23 75-97 97-120 (239)
204 KOG1512 PHD Zn-finger protein 39.0 14 0.0003 26.4 0.6 33 46-79 313-345 (381)
205 COG4357 Zinc finger domain con 38.7 37 0.00081 20.1 2.3 30 69-99 65-94 (105)
206 smart00109 C1 Protein kinase C 37.9 27 0.00059 16.8 1.5 33 47-80 11-44 (49)
207 PF13771 zf-HC5HC2H: PHD-like 37.6 22 0.00047 20.0 1.3 33 46-80 35-68 (90)
208 PF09237 GAGA: GAGA factor; I 36.5 11 0.00023 19.8 -0.2 9 87-95 26-34 (54)
209 KOG1245 Chromatin remodeling c 36.4 13 0.00027 32.1 0.2 51 44-95 1105-1159(1404)
210 KOG2041 WD40 repeat protein [G 36.4 37 0.0008 27.6 2.6 28 66-97 1159-1186(1189)
211 smart00734 ZnF_Rad18 Rad18-lik 35.9 19 0.00041 15.7 0.7 9 87-95 3-11 (26)
212 PF06467 zf-FCS: MYM-type Zinc 35.6 54 0.0012 15.6 2.4 34 46-79 5-41 (43)
213 KOG2113 Predicted RNA binding 35.1 53 0.0012 23.9 3.1 45 46-96 342-387 (394)
214 PRK01343 zinc-binding protein; 35.0 35 0.00076 18.2 1.7 10 86-95 10-19 (57)
215 PF03107 C1_2: C1 domain; Int 34.6 27 0.00059 15.6 1.1 28 49-77 2-29 (30)
216 PRK00418 DNA gyrase inhibitor; 34.1 36 0.00078 18.4 1.7 10 87-96 8-17 (62)
217 PF05502 Dynactin_p62: Dynacti 33.9 20 0.00044 27.2 0.9 16 45-60 24-39 (483)
218 PRK06266 transcription initiat 33.9 69 0.0015 20.9 3.3 18 82-99 133-150 (178)
219 cd00029 C1 Protein kinase C co 33.6 26 0.00057 17.1 1.1 33 47-80 11-45 (50)
220 TIGR00627 tfb4 transcription f 33.5 34 0.00073 24.2 1.9 9 86-94 270-278 (279)
221 PF09889 DUF2116: Uncharacteri 33.5 31 0.00067 18.5 1.3 14 84-97 2-15 (59)
222 COG1645 Uncharacterized Zn-fin 32.8 30 0.00064 21.7 1.3 25 47-71 28-52 (131)
223 COG4847 Uncharacterized protei 32.2 46 0.001 19.7 2.0 35 47-83 6-40 (103)
224 KOG4451 Uncharacterized conser 32.0 31 0.00066 23.9 1.4 21 74-94 252-272 (286)
225 PF13453 zf-TFIIB: Transcripti 31.7 18 0.00039 17.5 0.2 10 88-97 2-11 (41)
226 KOG3842 Adaptor protein Pellin 30.8 41 0.00089 24.5 1.9 53 45-98 339-416 (429)
227 PF09356 Phage_BR0599: Phage c 30.8 60 0.0013 18.3 2.3 24 57-81 41-64 (80)
228 TIGR00373 conserved hypothetic 30.5 50 0.0011 21.1 2.2 18 83-100 126-143 (158)
229 PF06677 Auto_anti-p27: Sjogre 30.4 34 0.00074 16.8 1.1 17 81-97 13-29 (41)
230 PF05353 Atracotoxin: Delta At 30.0 2.3 5E-05 20.9 -3.0 14 76-89 19-32 (42)
231 PF01844 HNH: HNH endonuclease 28.3 15 0.00033 17.8 -0.4 8 88-95 1-8 (47)
232 COG5627 MMS21 DNA repair prote 27.9 37 0.0008 23.6 1.3 41 47-90 189-231 (275)
233 PF10764 Gin: Inhibitor of sig 27.4 33 0.00072 17.3 0.8 29 49-82 1-29 (46)
234 PF14353 CpXC: CpXC protein 27.4 64 0.0014 19.5 2.2 12 85-96 38-49 (128)
235 PF08274 PhnA_Zn_Ribbon: PhnA 27.0 33 0.00072 15.7 0.7 24 48-72 3-28 (30)
236 PRK00241 nudC NADH pyrophospha 26.6 55 0.0012 22.6 2.0 21 77-97 91-111 (256)
237 COG1545 Predicted nucleic-acid 26.4 39 0.00084 21.2 1.1 20 68-95 34-53 (140)
238 PF12088 DUF3565: Protein of u 24.8 57 0.0012 17.6 1.4 17 59-76 8-24 (61)
239 TIGR00686 phnA alkylphosphonat 24.5 52 0.0011 19.9 1.3 25 48-73 3-29 (109)
240 smart00507 HNHc HNH nucleases. 24.4 47 0.001 15.8 1.0 8 49-56 12-19 (52)
241 KOG4443 Putative transcription 23.9 42 0.00091 26.6 1.1 46 47-93 18-70 (694)
242 PF10235 Cript: Microtubule-as 23.6 43 0.00094 19.5 0.9 38 47-97 44-81 (90)
243 TIGR02605 CxxC_CxxC_SSSS putat 23.6 37 0.00079 17.0 0.5 24 69-93 11-34 (52)
244 PRK04023 DNA polymerase II lar 23.4 94 0.002 26.3 2.9 54 44-103 623-681 (1121)
245 KOG4323 Polycomb-like PHD Zn-f 23.3 50 0.0011 25.1 1.4 49 47-95 168-225 (464)
246 PHA02565 49 recombination endo 23.1 64 0.0014 20.9 1.6 11 85-95 20-30 (157)
247 KOG2789 Putative Zn-finger pro 22.8 25 0.00054 26.2 -0.3 32 48-81 75-106 (482)
248 PF07503 zf-HYPF: HypF finger; 22.7 75 0.0016 15.0 1.5 9 86-94 22-30 (35)
249 COG2824 PhnA Uncharacterized Z 22.2 60 0.0013 19.6 1.3 29 47-82 3-31 (112)
250 COG3357 Predicted transcriptio 21.2 62 0.0013 19.0 1.2 19 85-103 76-94 (97)
251 PF03966 Trm112p: Trm112p-like 20.9 95 0.0021 16.6 1.9 6 68-73 58-63 (68)
252 COG4647 AcxC Acetone carboxyla 20.8 65 0.0014 20.3 1.3 14 62-76 69-82 (165)
253 KOG1244 Predicted transcriptio 20.5 22 0.00048 25.2 -0.9 48 46-94 280-331 (336)
254 PRK11595 DNA utilization prote 20.5 96 0.0021 20.8 2.2 9 49-57 7-15 (227)
255 PF05810 NinF: NinF protein; 20.1 61 0.0013 17.2 0.9 11 73-83 34-44 (58)
256 PF02132 RecR: RecR protein; 20.1 33 0.0007 16.6 -0.1 12 45-56 27-38 (41)
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=99.77 E-value=8.1e-20 Score=93.87 Aligned_cols=44 Identities=45% Similarity=1.127 Sum_probs=40.2
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCcccc
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCI 92 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 92 (105)
.+|+||++.|..++.++.++ |||.||.+||..|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 37999999999888999999 999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.74 E-value=1.3e-18 Score=122.08 Aligned_cols=76 Identities=26% Similarity=0.625 Sum_probs=63.0
Q ss_pred ccCCCCHHHHhhccchhhccccCCCCCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCC-CccccCCCCC
Q 044807 19 MIMGLDECTIKSFQKLVLEESKCLPGPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDK-CPVCINSATP 97 (105)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~-CP~Cr~~~~~ 97 (105)
....+.+..+.++|...+........ ...|+||||+|..+++++.|| |+|.||..||..||...++ ||+|+.++..
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~~~--~~~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDEDA--TDTCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRT 279 (348)
T ss_pred hhhhhHHHHHhhCCcEEeccccccCC--CceEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCC
Confidence 44567788888888888876654322 269999999999999999999 9999999999999988755 9999997754
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.68 E-value=2.7e-17 Score=110.83 Aligned_cols=80 Identities=25% Similarity=0.539 Sum_probs=60.3
Q ss_pred CCCCHHHHhhccchhhccccCCCCCCcccccccccccccCCc----eeEeCCCCCccchhhHHHHhcCCCCCccccCCCC
Q 044807 21 MGLDECTIKSFQKLVLEESKCLPGPNSSACSICLSEYLSQET----IKCIPECKHCFHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~ICl~~~~~~~~----~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
.+.....+..+|.+..+.........+.+|+||++.+.+... +..++.|+|.||..||.+|+..+.+||+||..+.
T Consensus 148 ~~~~~~~i~~lp~vl~~~e~~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~ 227 (238)
T PHA02929 148 GKNYKKFLKTIPSVLSEYEKLYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFI 227 (238)
T ss_pred cchhHHHHHhcchhhhhhhhhhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEee
Confidence 345667778888876655444344567899999999866431 2344449999999999999999999999999987
Q ss_pred CCCC
Q 044807 97 PVHA 100 (105)
Q Consensus 97 ~~~~ 100 (105)
.+..
T Consensus 228 ~v~~ 231 (238)
T PHA02929 228 SVIK 231 (238)
T ss_pred EEee
Confidence 6543
No 4
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.63 E-value=3.4e-16 Score=88.41 Aligned_cols=45 Identities=36% Similarity=0.877 Sum_probs=35.8
Q ss_pred cccccccccccccC----------CceeEeCCCCCccchhhHHHHhcCCCCCcccc
Q 044807 47 SSACSICLSEYLSQ----------ETIKCIPECKHCFHAECIDEWPRLNDKCPVCI 92 (105)
Q Consensus 47 ~~~C~ICl~~~~~~----------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 92 (105)
+..|+||++.|.+. -.+...+ |||.||..||.+||..+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 45699999999432 2344456 999999999999999999999997
No 5
>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=99.51 E-value=1.2e-14 Score=76.45 Aligned_cols=47 Identities=28% Similarity=0.770 Sum_probs=40.3
Q ss_pred cccccccccccccCCceeEeCCCCCc-cchhhHHHHhcCCCCCccccCCCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHC-FHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
+..|.||++...+ +..+| |||. ||..|+..|+.....||+||.++..
T Consensus 2 ~~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 2 DEECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp HSB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred cCCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 5789999998654 67788 9999 9999999999999999999999865
No 6
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.50 E-value=1.5e-14 Score=99.43 Aligned_cols=52 Identities=35% Similarity=1.030 Sum_probs=47.1
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC-CCCCccccCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-NDKCPVCINSATP 97 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 97 (105)
....+|+|||+.|..++.+..+| |.|.||..|+..|+.. +..||+||+++.+
T Consensus 321 ~~GveCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iPP 373 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIPP 373 (374)
T ss_pred CCCceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCCC
Confidence 34589999999999999999999 9999999999999984 7889999998864
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.47 E-value=1.9e-14 Score=101.31 Aligned_cols=51 Identities=29% Similarity=0.867 Sum_probs=43.7
Q ss_pred CCCcccccccccccccCC----------ceeEeCCCCCccchhhHHHHhcCCCCCccccCCC
Q 044807 44 GPNSSACSICLSEYLSQE----------TIKCIPECKHCFHAECIDEWPRLNDKCPVCINSA 95 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~----------~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 95 (105)
..++..|.||||++...+ +.+.+| |||+||..|++.|++++.+||+||.++
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCcc
Confidence 456889999999954332 456788 999999999999999999999999994
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.44 E-value=8.7e-14 Score=90.86 Aligned_cols=50 Identities=30% Similarity=0.677 Sum_probs=40.7
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC----------------CCCCccccCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL----------------NDKCPVCINSATP 97 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----------------~~~CP~Cr~~~~~ 97 (105)
..++.+|+||++.+.+ .++++ |||.||..||..|+.. ...||+||..+..
T Consensus 15 ~~~~~~CpICld~~~d---PVvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 15 SGGDFDCNICLDQVRD---PVVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred CCCccCCccCCCcCCC---cEEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 4567999999999865 35566 9999999999999842 3479999998864
No 9
>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=99.44 E-value=6.1e-14 Score=70.09 Aligned_cols=39 Identities=46% Similarity=1.088 Sum_probs=32.6
Q ss_pred ccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccc
Q 044807 50 CSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVC 91 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C 91 (105)
|+||++.+.+ .++.++ |||.||.+||..|++.+..||+|
T Consensus 1 C~iC~~~~~~--~~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999866 346677 99999999999999998899987
No 10
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.41 E-value=1.1e-13 Score=94.48 Aligned_cols=51 Identities=31% Similarity=0.742 Sum_probs=44.1
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATPVH 99 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 99 (105)
.....|.|||+...+ ...+| |||+||..||.+|......||+||..+.+..
T Consensus 237 ~a~~kC~LCLe~~~~---pSaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~psk 287 (293)
T KOG0317|consen 237 EATRKCSLCLENRSN---PSATP-CGHIFCWSCILEWCSEKAECPLCREKFQPSK 287 (293)
T ss_pred CCCCceEEEecCCCC---CCcCc-CcchHHHHHHHHHHccccCCCcccccCCCcc
Confidence 456899999999766 46677 9999999999999999999999999887643
No 11
>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=99.40 E-value=2.6e-13 Score=68.86 Aligned_cols=44 Identities=39% Similarity=1.066 Sum_probs=36.3
Q ss_pred cccccccccccCCceeEeCCCCCccchhhHHHHhcC-CCCCccccCCC
Q 044807 49 ACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-NDKCPVCINSA 95 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~ 95 (105)
+|+||++.+. +.+...+ |||.||..|+..|+.. ...||+|+..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999982 3345555 9999999999999987 77899999764
No 12
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.38 E-value=2.7e-13 Score=90.13 Aligned_cols=50 Identities=26% Similarity=0.652 Sum_probs=40.0
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC---CCCCccccCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL---NDKCPVCINSATP 97 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 97 (105)
.....+|.||||.-.+ .|+.+ |||.||+.||.+||.. ...||+|+..+..
T Consensus 44 ~~~~FdCNICLd~akd--PVvTl--CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~ 96 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKD--PVVTL--CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSI 96 (230)
T ss_pred CCCceeeeeeccccCC--CEEee--cccceehHHHHHHHhhcCCCeeCCcccccccc
Confidence 4667999999998544 35444 9999999999999975 4459999998754
No 13
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.37 E-value=5.2e-13 Score=85.65 Aligned_cols=54 Identities=26% Similarity=0.626 Sum_probs=44.0
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATPVH 99 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 99 (105)
..+...|+|||+.+.....+ -.. |||+||..||+..+.....||+|++.|...+
T Consensus 128 ~~~~~~CPiCl~~~sek~~v-sTk-CGHvFC~~Cik~alk~~~~CP~C~kkIt~k~ 181 (187)
T KOG0320|consen 128 KEGTYKCPICLDSVSEKVPV-STK-CGHVFCSQCIKDALKNTNKCPTCRKKITHKQ 181 (187)
T ss_pred cccccCCCceecchhhcccc-ccc-cchhHHHHHHHHHHHhCCCCCCcccccchhh
Confidence 45669999999998764322 234 9999999999999999999999998776543
No 14
>PHA02926 zinc finger-like protein; Provisional
Probab=99.36 E-value=2.8e-13 Score=89.83 Aligned_cols=56 Identities=27% Similarity=0.694 Sum_probs=41.9
Q ss_pred CCCcccccccccccccCC-----ceeEeCCCCCccchhhHHHHhcC------CCCCccccCCCCCCC
Q 044807 44 GPNSSACSICLSEYLSQE-----TIKCIPECKHCFHAECIDEWPRL------NDKCPVCINSATPVH 99 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~-----~~~~lp~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~~~~ 99 (105)
...+.+|+||||...... ...+|+.|+|.||..||..|... ..+||+||..+..+.
T Consensus 167 ~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I~ 233 (242)
T PHA02926 167 VSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNIT 233 (242)
T ss_pred ccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeeec
Confidence 455789999999864421 22345559999999999999864 245999999876543
No 15
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.35 E-value=7.9e-13 Score=67.01 Aligned_cols=38 Identities=32% Similarity=0.838 Sum_probs=29.0
Q ss_pred ccccccccccCCceeEeCCCCCccchhhHHHHhcCC----CCCccc
Q 044807 50 CSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLN----DKCPVC 91 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~----~~CP~C 91 (105)
|+||++.|.+ .+.++ |||.|+..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~---Pv~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKD---PVSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SS---EEE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCC---ccccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 8999999977 57788 99999999999998763 369987
No 16
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.32 E-value=1.5e-12 Score=74.72 Aligned_cols=53 Identities=26% Similarity=0.641 Sum_probs=40.1
Q ss_pred CCccccccccccccc--------CC-ceeEeCCCCCccchhhHHHHhcC---CCCCccccCCCCC
Q 044807 45 PNSSACSICLSEYLS--------QE-TIKCIPECKHCFHAECIDEWPRL---NDKCPVCINSATP 97 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~--------~~-~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 97 (105)
..+..|.||...|.. ++ -..+...|+|.||..||.+||.. +..||+||.+...
T Consensus 19 ~~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 19 ANDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeee
Confidence 347899999988862 22 22334459999999999999975 5679999998653
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.29 E-value=3.3e-12 Score=65.36 Aligned_cols=44 Identities=27% Similarity=0.786 Sum_probs=37.4
Q ss_pred cccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccC
Q 044807 49 ACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCIN 93 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 93 (105)
.|+||++.|.+.....+++ |||+||..|+..+......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~-CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTS-CGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcc-cCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 5899999995555677777 9999999999999866778999984
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=99.26 E-value=3.3e-12 Score=64.26 Aligned_cols=39 Identities=36% Similarity=1.064 Sum_probs=32.8
Q ss_pred ccccccccccCCceeEeCCCCCccchhhHHHHhc--CCCCCccc
Q 044807 50 CSICLSEYLSQETIKCIPECKHCFHAECIDEWPR--LNDKCPVC 91 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~C 91 (105)
|+||++.+... +..++ |||.||..||..|+. ....||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDP--VILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSE--EEETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCC--CEEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 89999998664 34666 999999999999998 46679987
No 19
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=2.5e-12 Score=95.99 Aligned_cols=50 Identities=34% Similarity=0.795 Sum_probs=44.2
Q ss_pred CCcccccccccccccCCc--eeEeCCCCCccchhhHHHHhcCCCCCccccCCC
Q 044807 45 PNSSACSICLSEYLSQET--IKCIPECKHCFHAECIDEWPRLNDKCPVCINSA 95 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~--~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 95 (105)
..+..|.||+|.+..+.. ...++ |+|+||..|+..|+++..+||+||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhh
Confidence 457899999999987654 67788 999999999999999999999999944
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=99.19 E-value=1.9e-11 Score=59.92 Aligned_cols=38 Identities=42% Similarity=1.140 Sum_probs=31.9
Q ss_pred ccccccccccCCceeEeCCCCCccchhhHHHHhc-CCCCCccc
Q 044807 50 CSICLSEYLSQETIKCIPECKHCFHAECIDEWPR-LNDKCPVC 91 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~C 91 (105)
|+||++.. .....++ |||.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~---~~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999983 3366777 999999999999998 56779987
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=99.14 E-value=5.3e-11 Score=64.98 Aligned_cols=46 Identities=20% Similarity=0.338 Sum_probs=40.1
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
..|+||++.+.++ +.++ |||.|+..||..|+..+.+||+|+..+..
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~~ 47 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLTH 47 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCCh
Confidence 5799999998764 5567 99999999999999988899999988743
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=99.11 E-value=4.7e-11 Score=85.87 Aligned_cols=49 Identities=27% Similarity=0.542 Sum_probs=42.4
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
.....|+||++.|... ++++ |||.||..||..|+.....||+|+..+..
T Consensus 24 e~~l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 24 DTSLRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred ccccCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 4578999999998663 4567 99999999999999988899999998754
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.91 E-value=1e-09 Score=61.85 Aligned_cols=51 Identities=24% Similarity=0.564 Sum_probs=37.5
Q ss_pred ccccccccccccc-----------CC-ceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 47 SSACSICLSEYLS-----------QE-TIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~-----------~~-~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
-..|+||...|.. ++ -.+....|.|.||..||.+||..++.||++|.+...
T Consensus 20 id~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~ 82 (88)
T COG5194 20 IDVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVL 82 (88)
T ss_pred cchhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEE
Confidence 3677777665532 22 223333499999999999999999999999987653
No 24
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.91 E-value=9.5e-10 Score=55.81 Aligned_cols=33 Identities=27% Similarity=0.837 Sum_probs=21.3
Q ss_pred ccccccccccCC-ceeEeCCCCCccchhhHHHHhcC
Q 044807 50 CSICLSEYLSQE-TIKCIPECKHCFHAECIDEWPRL 84 (105)
Q Consensus 50 C~ICl~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~ 84 (105)
|+||.+ |...+ ..++|+ |||.|+.+||..++.+
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhc
Confidence 899999 75544 467788 9999999999999874
No 25
>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=98.86 E-value=2.2e-09 Score=56.03 Aligned_cols=42 Identities=29% Similarity=0.779 Sum_probs=32.5
Q ss_pred cccccccccccCCceeEeCCCC-----CccchhhHHHHhcC--CCCCcccc
Q 044807 49 ACSICLSEYLSQETIKCIPECK-----HCFHAECIDEWPRL--NDKCPVCI 92 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr 92 (105)
.|.||++ ....+.....| |. |.||..|+..|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~P-C~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSP-CRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEec-cccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 33445556778 85 88999999999955 45899995
No 26
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.84 E-value=9.7e-10 Score=77.06 Aligned_cols=49 Identities=27% Similarity=0.659 Sum_probs=43.0
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
+.-..|.||.+.|.. ..++| |+|.||.-||..+|..+..||.|+.++..
T Consensus 21 D~lLRC~IC~eyf~i---p~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 21 DDLLRCGICFEYFNI---PMITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHHHhHHHHHhcC---ceecc-ccchHHHHHHHHHhccCCCCCceecccch
Confidence 446799999999976 46677 99999999999999999999999998764
No 27
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=7.6e-10 Score=75.41 Aligned_cols=52 Identities=25% Similarity=0.613 Sum_probs=41.4
Q ss_pred CCCcccccccccccccCC-------ceeEeCCCCCccchhhHHHHh--cCCCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYLSQE-------TIKCIPECKHCFHAECIDEWP--RLNDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~-------~~~~lp~C~H~Fh~~Ci~~wl--~~~~~CP~Cr~~~~ 96 (105)
..++..|+||-..+.... +...|. |+|.||..||..|- .+..+||+|+..+.
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 346789999988775543 566787 99999999999995 45789999987653
No 28
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=1.6e-09 Score=73.59 Aligned_cols=50 Identities=30% Similarity=0.738 Sum_probs=40.6
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHH-HhcCCCC-CccccCCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDE-WPRLNDK-CPVCINSATPV 98 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~-wl~~~~~-CP~Cr~~~~~~ 98 (105)
..+..|.||++.... ...++ |||+||..||.. |-..+.. ||+||+...+.
T Consensus 213 ~~d~kC~lC~e~~~~---ps~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 213 LADYKCFLCLEEPEV---PSCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccccceeeeecccCC---ccccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 347899999998755 46677 999999999999 8766655 99999976653
No 29
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.81 E-value=5.1e-10 Score=62.63 Aligned_cols=51 Identities=29% Similarity=0.608 Sum_probs=24.3
Q ss_pred cccccccccccccCC-c-eeEe--CCCCCccchhhHHHHhcC-----------CCCCccccCCCCC
Q 044807 47 SSACSICLSEYLSQE-T-IKCI--PECKHCFHAECIDEWPRL-----------NDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~-~-~~~l--p~C~H~Fh~~Ci~~wl~~-----------~~~CP~Cr~~~~~ 97 (105)
+.+|.||++.+...+ . ...- +.|+..||..||.+||.. .+.||.|+.+|..
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 468999999876332 2 1222 249999999999999852 1259999998754
No 30
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.81 E-value=4.3e-09 Score=73.41 Aligned_cols=51 Identities=20% Similarity=0.478 Sum_probs=36.9
Q ss_pred Ccccccccccc-cccCCc-eeEeCCCCCccchhhHHHHhc-CCCCCccccCCCCC
Q 044807 46 NSSACSICLSE-YLSQET-IKCIPECKHCFHAECIDEWPR-LNDKCPVCINSATP 97 (105)
Q Consensus 46 ~~~~C~ICl~~-~~~~~~-~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 97 (105)
++..|+||... +..... +.+.+ |||.||..||...+. ....||.|+..+..
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk 55 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRK 55 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccch
Confidence 35789999995 333332 22335 999999999999654 45679999987754
No 31
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.79 E-value=1.3e-09 Score=60.86 Aligned_cols=52 Identities=27% Similarity=0.627 Sum_probs=38.1
Q ss_pred Cccccccccccccc--------CC-ceeEeCCCCCccchhhHHHHhcC---CCCCccccCCCCC
Q 044807 46 NSSACSICLSEYLS--------QE-TIKCIPECKHCFHAECIDEWPRL---NDKCPVCINSATP 97 (105)
Q Consensus 46 ~~~~C~ICl~~~~~--------~~-~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 97 (105)
.+++|.||.-.|.. ++ -..++..|.|.||..||.+|+.. +..||+||.+...
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 45699999888853 22 22233349999999999999965 5569999987643
No 32
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=2.7e-09 Score=78.03 Aligned_cols=47 Identities=28% Similarity=0.557 Sum_probs=37.4
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcC-----CCCCccccCCCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-----NDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~~~~ 97 (105)
+..|+|||+.... ...+. |||+||..||.+++.. ...||+||..|..
T Consensus 186 ~~~CPICL~~~~~---p~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~ 237 (513)
T KOG2164|consen 186 DMQCPICLEPPSV---PVRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITL 237 (513)
T ss_pred CCcCCcccCCCCc---ccccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhccc
Confidence 7899999998654 23344 9999999999987654 3569999998766
No 33
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=3e-09 Score=75.65 Aligned_cols=46 Identities=30% Similarity=0.821 Sum_probs=34.0
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcC---CCCCcccc
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL---NDKCPVCI 92 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr 92 (105)
...|.||.+.+-....+.-+..|||+||..|+..|++. +..||.|+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ 52 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQ 52 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCcee
Confidence 57899995544333333333349999999999999987 45799999
No 34
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.74 E-value=1.2e-08 Score=57.54 Aligned_cols=48 Identities=15% Similarity=0.286 Sum_probs=37.9
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcC-CCCCccccCCCCC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-NDKCPVCINSATP 97 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 97 (105)
+...|+|+.+.+.+ .++++ +||.|.+.+|..|+.. +.+||+++..+..
T Consensus 3 ~~f~CpIt~~lM~d---PVi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~ 51 (73)
T PF04564_consen 3 DEFLCPITGELMRD---PVILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSE 51 (73)
T ss_dssp GGGB-TTTSSB-SS---EEEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SG
T ss_pred cccCCcCcCcHhhC---ceeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCc
Confidence 46789999999977 46788 9999999999999998 8899999988765
No 35
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=4.2e-09 Score=71.91 Aligned_cols=44 Identities=30% Similarity=0.662 Sum_probs=39.0
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCcccc
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCI 92 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 92 (105)
.+...|+||++.|... .+++ |+|.||..||..++.....||.||
T Consensus 11 ~~~~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 4678999999999886 6778 999999999999988556799999
No 36
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.73 E-value=4.9e-09 Score=72.30 Aligned_cols=49 Identities=24% Similarity=0.459 Sum_probs=41.7
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
+.-..|-||-+.|... ...+ |||.||.-||...|..+..||+||.+...
T Consensus 23 Ds~lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~e 71 (391)
T COG5432 23 DSMLRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPCE 71 (391)
T ss_pred hhHHHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHHh
Confidence 3457999999998763 4556 99999999999999999999999997643
No 37
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.72 E-value=3e-09 Score=82.58 Aligned_cols=54 Identities=28% Similarity=0.593 Sum_probs=40.7
Q ss_pred CCCcccccccccccccCCc---eeEeCCCCCccchhhHHHHhcC--CCCCccccCCCCC
Q 044807 44 GPNSSACSICLSEYLSQET---IKCIPECKHCFHAECIDEWPRL--NDKCPVCINSATP 97 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~---~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~ 97 (105)
-.+..+|+||...+..-+. -...+.|.|.||..|+..|+.. +++||+||.++..
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 4678999999987753221 1122239999999999999976 6679999988764
No 38
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=6.1e-09 Score=76.11 Aligned_cols=51 Identities=29% Similarity=0.756 Sum_probs=39.4
Q ss_pred CcccccccccccccCC--------------ceeEeCCCCCccchhhHHHHhcC-CCCCccccCCCCC
Q 044807 46 NSSACSICLSEYLSQE--------------TIKCIPECKHCFHAECIDEWPRL-NDKCPVCINSATP 97 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~--------------~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 97 (105)
....|+|||.++..-. .....| |.|+||..|+.+|... +-.||+||.++..
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLPp 635 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLPP 635 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCCC
Confidence 4579999999764211 122357 9999999999999995 5589999998864
No 39
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.69 E-value=2.6e-09 Score=56.08 Aligned_cols=47 Identities=23% Similarity=0.542 Sum_probs=35.8
Q ss_pred cccccccccccccCCceeEeCCCCCc-cchhhHHH-HhcCCCCCccccCCCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHC-FHAECIDE-WPRLNDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~-wl~~~~~CP~Cr~~~~~ 97 (105)
+.+|.||+|.-.+. +. .. |||+ +|.+|-.+ |-..+..||+||+++..
T Consensus 7 ~dECTICye~pvds--Vl-Yt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~d 55 (62)
T KOG4172|consen 7 SDECTICYEHPVDS--VL-YT-CGHMCMCYACGLRLKKALHGCCPICRAPIKD 55 (62)
T ss_pred ccceeeeccCcchH--HH-HH-cchHHhHHHHHHHHHHccCCcCcchhhHHHH
Confidence 47999999986543 32 33 9999 99999555 54578999999998754
No 40
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.65 E-value=9.8e-09 Score=74.16 Aligned_cols=50 Identities=34% Similarity=0.818 Sum_probs=40.2
Q ss_pred CCCcccccccccccccCCc-eeEeCCCCCccchhhHHHHhcCCCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYLSQET-IKCIPECKHCFHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~-~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
..+..+|+||||.+..... +.... |.|.||..|+..| ...+||+||.-..
T Consensus 172 ~tELPTCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w--~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 172 LTELPTCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKW--WDSSCPVCRYCQS 222 (493)
T ss_pred cccCCCcchhHhhcCccccceeeee-cccccchHHHhhc--ccCcChhhhhhcC
Confidence 3457899999999866543 45555 9999999999999 6678999998655
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.63 E-value=3.5e-09 Score=74.48 Aligned_cols=58 Identities=29% Similarity=0.543 Sum_probs=45.8
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC-CCCCccccCCCCCCCCcCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-NDKCPVCINSATPVHADYVNP 105 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~~~~~ 105 (105)
..+..|+|||+.+... ...+.|.|.||..||..-+.. ++.||.||+.+.+.-...++|
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsLr~Dp 99 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSLRIDP 99 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccCCCCc
Confidence 4578999999998653 333459999999999888765 788999999988766655554
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.62 E-value=1.1e-08 Score=55.68 Aligned_cols=46 Identities=33% Similarity=0.731 Sum_probs=23.4
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
...|++|.+.+..+ +.+.+|.|+||..||..-+. ..||+|+.+...
T Consensus 7 lLrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Paw~ 52 (65)
T PF14835_consen 7 LLRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIG--SECPVCHTPAWI 52 (65)
T ss_dssp TTS-SSS-S--SS----B---SSS--B-TTTGGGGTT--TB-SSS--B-S-
T ss_pred hcCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcC--CCCCCcCChHHH
Confidence 46899999998663 44445999999999988654 349999998644
No 43
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=2.3e-08 Score=70.51 Aligned_cols=50 Identities=26% Similarity=0.691 Sum_probs=42.7
Q ss_pred CCcccccccccccccCCceeEeCCCCCc-cchhhHHHHhcCCCCCccccCCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHC-FHAECIDEWPRLNDKCPVCINSATPV 98 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 98 (105)
+...+|.|||.+..+ +.+|| |.|. .|..|.+..--.++.||+||.++...
T Consensus 288 ~~gkeCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 288 ESGKECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred cCCCeeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 447899999999766 67899 9999 99999998766788999999988653
No 44
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.58 E-value=3e-08 Score=58.54 Aligned_cols=53 Identities=25% Similarity=0.596 Sum_probs=38.9
Q ss_pred CCCccccccccccccc-------------CCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYLS-------------QETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~-------------~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
......|+||...+.+ .+..+.-..|+|.||..||.+||+.++.||+|-.+-.
T Consensus 43 Di~vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~ 108 (114)
T KOG2930|consen 43 DIVVDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWV 108 (114)
T ss_pred eeeechhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCccee
Confidence 3456899999765422 1223333349999999999999999999999977643
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.48 E-value=7.2e-08 Score=68.46 Aligned_cols=55 Identities=25% Similarity=0.731 Sum_probs=41.7
Q ss_pred CCCcccccccccccccCC----ceeEeCCCCCccchhhHHHHh--cC-----CCCCccccCCCCCC
Q 044807 44 GPNSSACSICLSEYLSQE----TIKCIPECKHCFHAECIDEWP--RL-----NDKCPVCINSATPV 98 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~----~~~~lp~C~H~Fh~~Ci~~wl--~~-----~~~CP~Cr~~~~~~ 98 (105)
...+.+|.|||+.+.+.. ...++|+|.|.||..||..|- .. ...||.||.....+
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~v 223 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSFV 223 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccccc
Confidence 356899999999876543 123456699999999999997 33 46799999876543
No 46
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.40 E-value=4.7e-08 Score=74.89 Aligned_cols=54 Identities=26% Similarity=0.466 Sum_probs=45.0
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATPVH 99 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 99 (105)
.....|++||..+.++....-.+ |+|.||..||..|-....+||+||.++..+.
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 45678889988887766555566 9999999999999999999999999886544
No 47
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=98.39 E-value=1e-07 Score=68.41 Aligned_cols=51 Identities=24% Similarity=0.636 Sum_probs=40.3
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcC--CCCCccccCCCCCCCCc
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL--NDKCPVCINSATPVHAD 101 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~~~ 101 (105)
-..|.||-|.- ..+.+-| |||..|..|+..|-.. ..+||.||.+|.-...-
T Consensus 369 FeLCKICaend---KdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v 421 (563)
T KOG1785|consen 369 FELCKICAEND---KDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV 421 (563)
T ss_pred HHHHHHhhccC---CCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence 46899998863 3377788 9999999999999744 67899999998644433
No 48
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=98.34 E-value=1.8e-07 Score=64.87 Aligned_cols=53 Identities=25% Similarity=0.616 Sum_probs=43.8
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC-----------------------CCCCccccCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-----------------------NDKCPVCINSATP 97 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----------------------~~~CP~Cr~~~~~ 97 (105)
......|.|||.-|.+++....++ |.|.||..|+.++|.. ...||+||..|..
T Consensus 112 n~p~gqCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 112 NHPNGQCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCCCCceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 345789999999999999888888 9999999999998721 2259999998753
No 49
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=2.1e-07 Score=64.45 Aligned_cols=48 Identities=23% Similarity=0.395 Sum_probs=39.2
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcC-CCCCccccCCCCC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-NDKCPVCINSATP 97 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 97 (105)
...+|+||+....- ...|+ |+|.||.-||+.-+.+ ..+|++||.+|.+
T Consensus 6 ~~~eC~IC~nt~n~---Pv~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids 54 (324)
T KOG0824|consen 6 KKKECLICYNTGNC---PVNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDS 54 (324)
T ss_pred cCCcceeeeccCCc---Ccccc-ccchhhhhhhcchhhcCCCCCceecCCCCc
Confidence 46799999998644 35677 9999999999987665 5679999999864
No 50
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.31 E-value=5e-07 Score=64.88 Aligned_cols=51 Identities=31% Similarity=0.786 Sum_probs=38.1
Q ss_pred Cccccccccccccc-CCceeEeCCCCCccchhhHHHHhcC--CCCCccccCCCC
Q 044807 46 NSSACSICLSEYLS-QETIKCIPECKHCFHAECIDEWPRL--NDKCPVCINSAT 96 (105)
Q Consensus 46 ~~~~C~ICl~~~~~-~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~ 96 (105)
...+|+|||+.+.. ++.-...+.|||.|...||+.||.+ ...||.|.....
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 46799999998764 3333333449999999999999953 345999987654
No 51
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.23 E-value=9.5e-07 Score=63.94 Aligned_cols=49 Identities=24% Similarity=0.638 Sum_probs=42.6
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
..+.+|.||+..+.. .+.+| |||.||..||.+-+.....||.||..+..
T Consensus 82 ~sef~c~vc~~~l~~---pv~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYP---PVVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCC---Ccccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 568999999998866 45668 99999999999988888889999998874
No 52
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.11 E-value=2.7e-06 Score=57.09 Aligned_cols=52 Identities=27% Similarity=0.673 Sum_probs=43.9
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC--------CCCCccccCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL--------NDKCPVCINSATP 97 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~~ 97 (105)
.+....|..|-..+..++.+++. |-|.||.+|+.+|... ...||.|..+|++
T Consensus 47 sDY~pNC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 47 SDYNPNCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred cCCCCCCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 34578999999999999988765 9999999999999743 4469999999876
No 53
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=98.02 E-value=7e-06 Score=63.62 Aligned_cols=57 Identities=26% Similarity=0.646 Sum_probs=42.1
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC-------CCCCccccCCCCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-------NDKCPVCINSATPVHA 100 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-------~~~CP~Cr~~~~~~~~ 100 (105)
.....+|.||++.+...+.+.--..|-|+||..||..|... .-.||.|......+..
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~~~~~~ 251 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVSKTVPK 251 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchhccCCc
Confidence 45678999999998776655433338999999999999754 1249999865554433
No 54
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.99 E-value=3.1e-06 Score=61.37 Aligned_cols=52 Identities=31% Similarity=0.574 Sum_probs=42.9
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATPVH 99 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 99 (105)
+.+..|+||+..+.+.-.. .. |||.||..|+..|+..+..||.|+..+....
T Consensus 19 ~~~l~C~~C~~vl~~p~~~--~~-cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 19 DENLLCPICMSVLRDPVQT--TT-CGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred cccccCccccccccCCCCC--CC-CCCcccccccchhhccCcCCcccccccchhh
Confidence 4578999999998775322 34 9999999999999999999999998876543
No 55
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.97 E-value=2.1e-06 Score=65.59 Aligned_cols=51 Identities=24% Similarity=0.533 Sum_probs=39.8
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhc-CCCCCccccCCCCCCCC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPR-LNDKCPVCINSATPVHA 100 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~~~~ 100 (105)
+-..|+.|-+-+.+ +++.. |||.||..||..-+. +...||.|-+.+..-+.
T Consensus 642 ~~LkCs~Cn~R~Kd---~vI~k-C~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKD---AVITK-CGHVFCEECVQTRYETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred hceeCCCccCchhh---HHHHh-cchHHHHHHHHHHHHHhcCCCCCCCCCCCcccc
Confidence 45799999977654 33344 999999999999886 47889999888765443
No 56
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.95 E-value=1.8e-06 Score=60.52 Aligned_cols=51 Identities=25% Similarity=0.544 Sum_probs=43.3
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATPV 98 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 98 (105)
....+|.+|-..|.+..++. .|-|.||..||...|....+||.|...+...
T Consensus 13 n~~itC~LC~GYliDATTI~---eCLHTFCkSCivk~l~~~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 13 NPHITCRLCGGYLIDATTIT---ECLHTFCKSCIVKYLEESKYCPTCDIVIHKT 63 (331)
T ss_pred ccceehhhccceeecchhHH---HHHHHHHHHHHHHHHHHhccCCccceeccCc
Confidence 45789999999998865543 4999999999999999999999998877543
No 57
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.93 E-value=5.5e-06 Score=44.45 Aligned_cols=42 Identities=31% Similarity=0.623 Sum_probs=27.6
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcC--CCCCcc
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL--NDKCPV 90 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~ 90 (105)
-...|+|.+..|.++ +.... |||.|-++.|.+||.+ ...||+
T Consensus 10 ~~~~CPiT~~~~~~P--V~s~~-C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDP--VKSKK-CGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSE--EEESS-S--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCC--cCcCC-CCCeecHHHHHHHHHhcCCCCCCC
Confidence 368999999998764 55455 9999999999999944 445998
No 58
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=3.4e-06 Score=53.91 Aligned_cols=40 Identities=25% Similarity=0.526 Sum_probs=33.3
Q ss_pred hhccccCCCCCCcccccccccccccCCceeEeCCCCCccch
Q 044807 35 VLEESKCLPGPNSSACSICLSEYLSQETIKCIPECKHCFHA 75 (105)
Q Consensus 35 ~~~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~ 75 (105)
.++.+.++..++..+|.||||++..++++..|| |-.+||+
T Consensus 165 rlsYNdDVL~ddkGECvICLEdL~~GdtIARLP-CLCIYHK 204 (205)
T KOG0801|consen 165 RLSYNDDVLKDDKGECVICLEDLEAGDTIARLP-CLCIYHK 204 (205)
T ss_pred ccccccchhcccCCcEEEEhhhccCCCceeccc-eEEEeec
Confidence 344445555677899999999999999999999 9999996
No 59
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=97.89 E-value=4.9e-06 Score=51.69 Aligned_cols=36 Identities=19% Similarity=0.552 Sum_probs=30.1
Q ss_pred CcccccccccccccCCceeEeCCCC------CccchhhHHHHh
Q 044807 46 NSSACSICLSEYLSQETIKCIPECK------HCFHAECIDEWP 82 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~------H~Fh~~Ci~~wl 82 (105)
...+|.||++.+.+...++.++ || |+||.+|+.+|-
T Consensus 25 ~~~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 25 CTVECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred cCeeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHH
Confidence 3689999999998855677676 75 899999999994
No 60
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.84 E-value=3.8e-06 Score=60.35 Aligned_cols=51 Identities=25% Similarity=0.643 Sum_probs=40.0
Q ss_pred CCcccccccccccccCC-ceeEeCCCCCccchhhHHHHhcCC--CCCccccCCCC
Q 044807 45 PNSSACSICLSEYLSQE-TIKCIPECKHCFHAECIDEWPRLN--DKCPVCINSAT 96 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~ 96 (105)
..+..|..|-+.+.... ...-+| |.|+||..|+.+.|.++ .+||.||+-..
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~CrklrS 416 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLRS 416 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence 34678999998876543 456688 99999999999999764 46999995443
No 61
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=3.4e-05 Score=53.12 Aligned_cols=53 Identities=21% Similarity=0.466 Sum_probs=40.7
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC--CCCCccccCCCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL--NDKCPVCINSATPVH 99 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 99 (105)
...+.+|++|-+.-..+ ....+ |+|+||..||..-+.- ..+||.|-.+..++.
T Consensus 236 ~t~~~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~lq 290 (298)
T KOG2879|consen 236 GTSDTECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPLQ 290 (298)
T ss_pred ccCCceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCcchh
Confidence 45678999999985443 34455 9999999999986543 578999988877554
No 62
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=97.73 E-value=1.8e-05 Score=64.72 Aligned_cols=54 Identities=28% Similarity=0.608 Sum_probs=42.6
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCC----------CCCccccCCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLN----------DKCPVCINSATPV 98 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~----------~~CP~Cr~~~~~~ 98 (105)
.+.+..|.||+.+-......+.|. |+|+||..|...-|++. -+||+|+.+|..+
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH~ 3546 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINHI 3546 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhhH
Confidence 467889999998865556667787 99999999998877541 2699999987643
No 63
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=97.68 E-value=5.8e-05 Score=53.73 Aligned_cols=56 Identities=20% Similarity=0.411 Sum_probs=42.4
Q ss_pred ccccCCCCCCcccccccccccccCCceeEeCCCCCccchhhHHHH--hcCCCCCccccCCCC
Q 044807 37 EESKCLPGPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEW--PRLNDKCPVCINSAT 96 (105)
Q Consensus 37 ~~~~~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~w--l~~~~~CP~Cr~~~~ 96 (105)
+.+......+...|.||-+.+. ...++| |+|..|--|..+. |-....||+||++-.
T Consensus 51 tsSaddtDEen~~C~ICA~~~T---Ys~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e 108 (493)
T COG5236 51 TSSADDTDEENMNCQICAGSTT---YSARYP-CGHQICHACAVRLRALYMQKGCPLCRTETE 108 (493)
T ss_pred cccccccccccceeEEecCCce---EEEecc-CCchHHHHHHHHHHHHHhccCCCccccccc
Confidence 3344444567789999998753 256788 9999999997664 567889999999754
No 64
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=97.59 E-value=5.4e-05 Score=39.01 Aligned_cols=40 Identities=38% Similarity=0.924 Sum_probs=26.3
Q ss_pred ccccccccccCCceeEeCCCC-----CccchhhHHHHhc--CCCCCccc
Q 044807 50 CSICLSEYLSQETIKCIPECK-----HCFHAECIDEWPR--LNDKCPVC 91 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~--~~~~CP~C 91 (105)
|-||++.-.... ..+.| |+ -..|..||..|+. ++.+|++|
T Consensus 1 CrIC~~~~~~~~-~li~p-C~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISP-CRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-S-SS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecc-cccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679999865544 34456 74 3589999999997 45679887
No 65
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.56 E-value=7.4e-05 Score=38.56 Aligned_cols=45 Identities=22% Similarity=0.509 Sum_probs=22.4
Q ss_pred ccccccccccCCceeEeC-CCCCccchhhHHHHhc-CCCCCccccCCC
Q 044807 50 CSICLSEYLSQETIKCIP-ECKHCFHAECIDEWPR-LNDKCPVCINSA 95 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp-~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~ 95 (105)
|++|.+++...+.- ..| .||+.++..|...-++ ..+.||-||.+.
T Consensus 1 cp~C~e~~d~~d~~-~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKD-FYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT---SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCc-cccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 78999998444322 223 2799999999988886 478899999864
No 66
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.40 E-value=6.4e-05 Score=56.15 Aligned_cols=49 Identities=27% Similarity=0.548 Sum_probs=38.1
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC-----CCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-----NDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~~~ 96 (105)
..+..+|.+|-+.-.+ .+... |.|.||..||.+++.. +-+||+|...+.
T Consensus 533 nk~~~~C~lc~d~aed---~i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Ls 586 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAED---YIESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLS 586 (791)
T ss_pred ccCceeecccCChhhh---hHhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccc
Confidence 5567899999987544 33344 9999999999999753 568999987664
No 67
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.37 E-value=6.2e-05 Score=49.75 Aligned_cols=45 Identities=29% Similarity=0.581 Sum_probs=37.4
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSA 95 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 95 (105)
...|.||-.+|..+ ++.. |||.||..|...-+.....|-+|.+..
T Consensus 196 PF~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 196 PFLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred ceeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence 46899999999764 4455 999999999888888899999997653
No 68
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.35 E-value=0.0002 Score=51.14 Aligned_cols=53 Identities=23% Similarity=0.497 Sum_probs=43.3
Q ss_pred CCCCCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 41 CLPGPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 41 ~~~~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
.....++..|+||...-.. .+..| |+|.=|+.||.+-+-+...|=+|++.+..
T Consensus 416 ~lp~sEd~lCpICyA~pi~---Avf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 416 DLPDSEDNLCPICYAGPIN---AVFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred CCCCcccccCcceecccch---hhccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 3445788999999986433 35567 99999999999999999999999998763
No 69
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=97.30 E-value=9.8e-05 Score=43.90 Aligned_cols=34 Identities=29% Similarity=0.632 Sum_probs=27.7
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHH
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECID 79 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~ 79 (105)
..+...|++|-..+.. ......| |||.||..|+.
T Consensus 75 i~~~~~C~vC~k~l~~-~~f~~~p-~~~v~H~~C~~ 108 (109)
T PF10367_consen 75 ITESTKCSVCGKPLGN-SVFVVFP-CGHVVHYSCIK 108 (109)
T ss_pred ECCCCCccCcCCcCCC-ceEEEeC-CCeEEeccccc
Confidence 4567889999999866 4556678 99999999975
No 70
>PHA03096 p28-like protein; Provisional
Probab=97.30 E-value=0.00011 Score=51.35 Aligned_cols=45 Identities=27% Similarity=0.473 Sum_probs=32.2
Q ss_pred ccccccccccccCC----ceeEeCCCCCccchhhHHHHhcC---CCCCcccc
Q 044807 48 SACSICLSEYLSQE----TIKCIPECKHCFHAECIDEWPRL---NDKCPVCI 92 (105)
Q Consensus 48 ~~C~ICl~~~~~~~----~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr 92 (105)
..|.|||+...... .-..|+.|.|.||..||..|... ..+||.||
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 68999999765432 23457779999999999999743 33444443
No 71
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.28 E-value=0.00044 Score=47.68 Aligned_cols=60 Identities=23% Similarity=0.439 Sum_probs=46.1
Q ss_pred CCCcccccccccccccCCceeE-eCCCCCccchhhHHHHhcCCCCCccccCCCCCCCCcCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKC-IPECKHCFHAECIDEWPRLNDKCPVCINSATPVHADYVNP 105 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~-lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~~~ 105 (105)
......|||...+|......+. .+ |||+|...+|.+.- ....||+|-.++...+.-.|||
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~-cG~V~s~~alke~k-~~~~Cp~c~~~f~~~DiI~Lnp 170 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRP-CGCVFSEKALKELK-KSKKCPVCGKPFTEEDIIPLNP 170 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcC-CCCEeeHHHHHhhc-ccccccccCCccccCCEEEecC
Confidence 4667899999999955554444 46 99999999999972 3567999999988766555554
No 72
>PHA02862 5L protein; Provisional
Probab=97.24 E-value=0.00024 Score=44.69 Aligned_cols=45 Identities=22% Similarity=0.547 Sum_probs=33.3
Q ss_pred cccccccccccccCCceeEeCCCC-----CccchhhHHHHhcC--CCCCccccCCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECK-----HCFHAECIDEWPRL--NDKCPVCINSAT 96 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~ 96 (105)
...|-||.+.-.+. . -| |. ..-|.+|+.+|+.. +.+|++|+.+..
T Consensus 2 ~diCWIC~~~~~e~--~--~P-C~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~ 53 (156)
T PHA02862 2 SDICWICNDVCDER--N--NF-CGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYN 53 (156)
T ss_pred CCEEEEecCcCCCC--c--cc-ccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEE
Confidence 46899999984332 2 34 63 45899999999965 557999998764
No 73
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.14 E-value=0.00029 Score=45.95 Aligned_cols=53 Identities=28% Similarity=0.622 Sum_probs=34.1
Q ss_pred cccccccccccccCCce----eEeCCCCCccchhhHHHHhcC-----------CCCCccccCCCCCCCC
Q 044807 47 SSACSICLSEYLSQETI----KCIPECKHCFHAECIDEWPRL-----------NDKCPVCINSATPVHA 100 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~----~~lp~C~H~Fh~~Ci~~wl~~-----------~~~CP~Cr~~~~~~~~ 100 (105)
...|.||...-.++... -... ||.-||.-|+..||.. -..||+|..++.....
T Consensus 165 ~~~cgicyayqldGTipDqtCdN~q-CgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialKmS 232 (234)
T KOG3268|consen 165 LGACGICYAYQLDGTIPDQTCDNIQ-CGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALKMS 232 (234)
T ss_pred hhcccceeeeecCCccccccccccc-cCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceeecc
Confidence 34566665543333211 1133 9999999999999964 2259999998765443
No 74
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.12 E-value=0.0003 Score=51.02 Aligned_cols=47 Identities=30% Similarity=0.685 Sum_probs=37.0
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcC--------CCCCccccC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL--------NDKCPVCIN 93 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~ 93 (105)
....|.||++...-...++.+| |+|.||..|+..++.. .-.||-+..
T Consensus 183 slf~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hcccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 4689999999975556788899 9999999999999842 224876654
No 75
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=97.04 E-value=0.0003 Score=37.19 Aligned_cols=45 Identities=20% Similarity=0.457 Sum_probs=32.3
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
...|..|...- ..-.++| |||..+..|..- ++-+.||+|.+++..
T Consensus 7 ~~~~~~~~~~~---~~~~~~p-CgH~I~~~~f~~--~rYngCPfC~~~~~~ 51 (55)
T PF14447_consen 7 EQPCVFCGFVG---TKGTVLP-CGHLICDNCFPG--ERYNGCPFCGTPFEF 51 (55)
T ss_pred ceeEEEccccc---ccccccc-ccceeeccccCh--hhccCCCCCCCcccC
Confidence 44555555542 2345678 999999999664 467889999988765
No 76
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.02 E-value=0.00037 Score=49.62 Aligned_cols=58 Identities=19% Similarity=0.434 Sum_probs=41.6
Q ss_pred CCcccccccccccccCCce-eEeCCCCCccchhhHHHHhcC-CCCCccccCCCCCCCCcCC
Q 044807 45 PNSSACSICLSEYLSQETI-KCIPECKHCFHAECIDEWPRL-NDKCPVCINSATPVHADYV 103 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~-~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~~~ 103 (105)
+++.-|+.|++.+...++- .-.| ||-..|.-|...--+. ++.||-||.........|+
T Consensus 12 deed~cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~denv~~~ 71 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDDENVRYV 71 (480)
T ss_pred cccccCcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccccceeEE
Confidence 4556699999998776643 3345 9988888886554333 7789999998877665554
No 77
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.02 E-value=0.00029 Score=47.72 Aligned_cols=46 Identities=26% Similarity=0.615 Sum_probs=32.4
Q ss_pred cccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCCC
Q 044807 49 ACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATPV 98 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 98 (105)
.|.-|.-.-. ++...++. |+|+||..|...- ....||+|+..+-.+
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i 50 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRII 50 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeee
Confidence 5666665543 55566666 9999999998652 233899999986543
No 78
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.95 E-value=0.00064 Score=47.45 Aligned_cols=48 Identities=23% Similarity=0.598 Sum_probs=38.5
Q ss_pred cccccccccccccCC---ceeEeCCCCCccchhhHHHHhcC-CCCCccccCCC
Q 044807 47 SSACSICLSEYLSQE---TIKCIPECKHCFHAECIDEWPRL-NDKCPVCINSA 95 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~ 95 (105)
...|-||-++|+..+ ..+.+. |||.|+..|+...+.. ...||.||...
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 468999999998764 245566 9999999999987765 44589999984
No 79
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.93 E-value=0.00098 Score=42.62 Aligned_cols=47 Identities=30% Similarity=0.694 Sum_probs=34.3
Q ss_pred CCcccccccccccccCCceeEeCCCC--C---ccchhhHHHHhcC--CCCCccccCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECK--H---CFHAECIDEWPRL--NDKCPVCINSAT 96 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~--H---~Fh~~Ci~~wl~~--~~~CP~Cr~~~~ 96 (105)
..+..|-||.++-.. . .-| |. . ..|.+|++.|+.. ...|++|.+++.
T Consensus 6 ~~~~~CRIC~~~~~~--~--~~P-C~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYDV--V--TNY-CNCKNENKIVHKECLEEWINTSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCCC--c--cCC-cccCCCchHHHHHHHHHHHhcCCCCcccccCCeEE
Confidence 457899999988432 1 235 64 3 4699999999975 456999998764
No 80
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.93 E-value=0.00061 Score=48.58 Aligned_cols=49 Identities=31% Similarity=0.621 Sum_probs=35.0
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATPVH 99 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 99 (105)
......|.||+++..+ ...+| |||+-| |..- .+...+||+||..|..+.
T Consensus 302 ~~~p~lcVVcl~e~~~---~~fvp-cGh~cc--ct~c-s~~l~~CPvCR~rI~~~~ 350 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKS---AVFVP-CGHVCC--CTLC-SKHLPQCPVCRQRIRLVR 350 (355)
T ss_pred cCCCCceEEecCCccc---eeeec-CCcEEE--chHH-HhhCCCCchhHHHHHHHH
Confidence 3456899999998765 56778 999955 5443 234555999999876443
No 81
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.85 E-value=0.00062 Score=47.27 Aligned_cols=48 Identities=23% Similarity=0.578 Sum_probs=39.4
Q ss_pred CCcccccccccccccCCc-eeEeCCCCCccchhhHHHHhcCCCCCccccC
Q 044807 45 PNSSACSICLSEYLSQET-IKCIPECKHCFHAECIDEWPRLNDKCPVCIN 93 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~-~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 93 (105)
.....|+||.+.+..... +..++ |||..|..|+.+....+-+||+|..
T Consensus 156 ~~~~ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 156 SSEFNCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cccCCCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 345569999998777654 45567 9999999999999877799999988
No 82
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.81 E-value=0.0013 Score=46.48 Aligned_cols=50 Identities=22% Similarity=0.484 Sum_probs=39.1
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
..+...|+||+....++..+. . =|-+||..||..++.+.+.||+=-.++.
T Consensus 297 ~~~~~~CpvClk~r~Nptvl~-v--SGyVfCY~Ci~~Yv~~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 297 PPDREVCPVCLKKRQNPTVLE-V--SGYVFCYPCIFSYVVNYGHCPVTGYPAS 346 (357)
T ss_pred CCccccChhHHhccCCCceEE-e--cceEEeHHHHHHHHHhcCCCCccCCcch
Confidence 456789999999876642221 1 5899999999999999999998665543
No 83
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=96.80 E-value=0.00081 Score=33.93 Aligned_cols=41 Identities=24% Similarity=0.638 Sum_probs=21.9
Q ss_pred ccccccccccCCceeEeCCCCCccchhhHHHHhcCCC--CCccc
Q 044807 50 CSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLND--KCPVC 91 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~--~CP~C 91 (105)
|.+|.+....|..-.... |+=.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~-C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRD-CNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS---S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCc-cCchHHHHHHHHHHhcCCCCCCcCC
Confidence 567777665542221123 888999999999998755 79987
No 84
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.79 E-value=0.00052 Score=47.85 Aligned_cols=46 Identities=24% Similarity=0.467 Sum_probs=38.4
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
..|-||-..|..+ ++.. |+|.||..|...=+.....|.+|-..+..
T Consensus 242 f~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~g 287 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTHG 287 (313)
T ss_pred ccccccccccccc---hhhc-CCceeehhhhccccccCCcceeccccccc
Confidence 5699999999874 4455 99999999988888888999999876644
No 85
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.67 E-value=0.0025 Score=43.64 Aligned_cols=52 Identities=13% Similarity=0.234 Sum_probs=44.2
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
....|+||.+.+.+......|..|||+|+.+|++..+..-..||+|-.++..
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 4578999999998877666665599999999999999989999999887654
No 86
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.64 E-value=0.00018 Score=50.06 Aligned_cols=43 Identities=21% Similarity=0.582 Sum_probs=32.6
Q ss_pred cccccccccccccCCceeEeCCCCCc-cchhhHHHHhcCCCCCccccCCCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHC-FHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
...|.|||+...+ -+.|+ |||+ -|.+|-.. -+.||+||.-+..
T Consensus 300 ~~LC~ICmDaP~D---CvfLe-CGHmVtCt~CGkr----m~eCPICRqyi~r 343 (350)
T KOG4275|consen 300 RRLCAICMDAPRD---CVFLE-CGHMVTCTKCGKR----MNECPICRQYIVR 343 (350)
T ss_pred HHHHHHHhcCCcc---eEEee-cCcEEeehhhccc----cccCchHHHHHHH
Confidence 6789999998655 46677 9998 67777543 3489999986644
No 87
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.52 E-value=0.0013 Score=51.47 Aligned_cols=45 Identities=29% Similarity=0.701 Sum_probs=34.1
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
....|..|-..+..+ .+.-- |||.||..|+. .+...||-|+.++.
T Consensus 839 q~skCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~~ 883 (933)
T KOG2114|consen 839 QVSKCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPELR 883 (933)
T ss_pred eeeeecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhhh
Confidence 347899998877554 33333 99999999998 46677999988554
No 88
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=96.22 E-value=0.0061 Score=39.01 Aligned_cols=35 Identities=20% Similarity=0.657 Sum_probs=21.4
Q ss_pred CcccccccccccccCCceeEe-----CC-----CC-CccchhhHHHHh
Q 044807 46 NSSACSICLSEYLSQETIKCI-----PE-----CK-HCFHAECIDEWP 82 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~l-----p~-----C~-H~Fh~~Ci~~wl 82 (105)
++..|+||||..-+ .|.++ .+ |+ -.-|..|+.++-
T Consensus 1 ed~~CpICme~PHN--AVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 1 EDVTCPICMEHPHN--AVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred CCccCceeccCCCc--eEEEEeccccCCccccccCCccchhHHHHHHH
Confidence 36799999998543 23222 01 33 225788999874
No 89
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=96.16 E-value=0.0033 Score=45.30 Aligned_cols=34 Identities=24% Similarity=0.651 Sum_probs=25.3
Q ss_pred CCCccchhhHHHHhcC-------------CCCCccccCCCCCCCCcC
Q 044807 69 CKHCFHAECIDEWPRL-------------NDKCPVCINSATPVHADY 102 (105)
Q Consensus 69 C~H~Fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~~~~~~ 102 (105)
|.-++|.+|+.+|+.. +-.||+||+.+...+.-+
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCilDV~~ 357 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCILDVCY 357 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccceeeeeec
Confidence 4466899999999842 336999999987665433
No 90
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.04 E-value=0.0026 Score=49.27 Aligned_cols=44 Identities=30% Similarity=0.659 Sum_probs=34.7
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHHhcC--CCCCccccCCCC
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL--NDKCPVCINSAT 96 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~ 96 (105)
..|.||++ .+.....+ |+|.||.+|+..-+.. ...||.||..+.
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 79999999 23355566 9999999999998765 235999998654
No 91
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=95.96 E-value=0.004 Score=48.59 Aligned_cols=28 Identities=39% Similarity=0.838 Sum_probs=23.5
Q ss_pred ceeEeCCCCCccchhhHHHHhcCCCCCcc
Q 044807 62 TIKCIPECKHCFHAECIDEWPRLNDKCPV 90 (105)
Q Consensus 62 ~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~ 90 (105)
..++.. |+|..|..|+.+|+.....||.
T Consensus 1042 s~~Cg~-C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1042 SNFCGT-CGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred chhhcc-ccccccHHHHHHHHhcCCcCCC
Confidence 344555 9999999999999999988884
No 92
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=95.93 E-value=0.0076 Score=42.05 Aligned_cols=47 Identities=32% Similarity=0.713 Sum_probs=34.1
Q ss_pred cccccccc-cccCCceeEeCCCCCccchhhHHHHhcC-CCCCccccCCC
Q 044807 49 ACSICLSE-YLSQETIKCIPECKHCFHAECIDEWPRL-NDKCPVCINSA 95 (105)
Q Consensus 49 ~C~ICl~~-~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~ 95 (105)
.|++|-.+ |..++.......|+|..|..|+...+.. ...||.|-..+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iL 50 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVIL 50 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchh
Confidence 58899874 4444443333349999999999998866 55699997654
No 93
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.67 E-value=0.0056 Score=48.30 Aligned_cols=37 Identities=27% Similarity=0.674 Sum_probs=28.6
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHh
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWP 82 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 82 (105)
...+..|.+|.-.+... .-.+-| |||.||+.||..-.
T Consensus 814 ~ep~d~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 814 LEPQDSCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred ecCccchHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 35678999999887553 344556 99999999998764
No 94
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.64 E-value=0.0089 Score=42.15 Aligned_cols=47 Identities=21% Similarity=0.578 Sum_probs=36.4
Q ss_pred CCCcccccccccccccCCceeEeCCC--CCccchhhHHHHhcCCCCCccccCCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPEC--KHCFHAECIDEWPRLNDKCPVCINSATPV 98 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C--~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 98 (105)
..+-.+|+||.+.+..+ +. . | ||+-|..|=. +..+.||.||.++..+
T Consensus 45 ~~~lleCPvC~~~l~~P--i~--Q-C~nGHlaCssC~~---~~~~~CP~Cr~~~g~~ 93 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPP--IF--Q-CDNGHLACSSCRT---KVSNKCPTCRLPIGNI 93 (299)
T ss_pred chhhccCchhhccCccc--ce--e-cCCCcEehhhhhh---hhcccCCccccccccH
Confidence 45578999999998775 32 2 6 7999998864 4688899999998753
No 95
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.59 E-value=0.0005 Score=49.63 Aligned_cols=50 Identities=24% Similarity=0.523 Sum_probs=40.8
Q ss_pred CcccccccccccccC-CceeEeCCCCCccchhhHHHHhcCCCCCccccCCCC
Q 044807 46 NSSACSICLSEYLSQ-ETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
-...|+||.+.+... +.+..+- |||.+|..||..||.....||.|+.++.
T Consensus 195 lv~sl~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 195 LVGSLSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HHhhhHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 357899999887654 3444454 9999999999999999889999998764
No 96
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.52 E-value=0.0048 Score=43.24 Aligned_cols=35 Identities=17% Similarity=0.432 Sum_probs=27.1
Q ss_pred CCCccchhhHHHHhc-------------CCCCCccccCCCCCCCCcCC
Q 044807 69 CKHCFHAECIDEWPR-------------LNDKCPVCINSATPVHADYV 103 (105)
Q Consensus 69 C~H~Fh~~Ci~~wl~-------------~~~~CP~Cr~~~~~~~~~~~ 103 (105)
|.-++|.+|+.+|+. ++-+||+||+.+...+..+|
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci~dv~~v 372 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCIRDVHCV 372 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEEeeeeEE
Confidence 567789999999983 34579999999877665554
No 97
>PF03854 zf-P11: P-11 zinc finger; InterPro: IPR003224 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The RING-finger is a specialised type of Zn-finger of 40 to 60 residues that binds two atoms of zinc, and is probably involved in mediating protein-protein interactions [, , ]. There are two different variants, the C3HC4-type and a C3H2C3-type, which is clearly related despite the different cysteine/histidine pattern. The latter type is sometimes referred to as 'RING-H2 finger'. The RING domain is a protein interaction domain which has been implicated in a range of diverse biological processes. Several 3D-structures for RING-fingers are known [, ]. The 3D structure of the zinc ligation system is unique to the RING domain and is referred to as the 'cross-brace' motif. The spacing of the cysteines in such a domain is: C-x(2)-C-x(9 to 39)-C-x(1 to 3)-H-x(2 to 3)-C-x(2)-C-x(4 to 48)-C-x(2)-C Metal ligand pairs one and three co-ordinate to bind one zinc ion, whilst pairs two and four bind the second. This entry represents RING finger protein Z, a small polypeptide found in some negative-strand RNA viruses including Lassa fever virus, which plays a crucial role in virion assembly and budding. RING finger Z has been shown to interact with several host proteins, including promyelocytic leukemia protein and the eukaryotic translation initiation factor 4E [, ]. It is sufficient in the absence of any other viral proteins to release virus-like particles from the infected cell []. This protein is also responsible for arenavirus superinfection exclusion; expression of this protein in a host cell strongly and specifically inhibits areanavirus transcription and replication []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003723 RNA binding, 0008270 zinc ion binding; PDB: 2KO5_A.
Probab=95.45 E-value=0.0075 Score=30.91 Aligned_cols=29 Identities=24% Similarity=0.701 Sum_probs=21.7
Q ss_pred CC-CccchhhHHHHhcCCCCCccccCCCCC
Q 044807 69 CK-HCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 69 C~-H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
|+ |..|..|+...+.+...||+|..++..
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLPT 47 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE---
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCcc
Confidence 85 999999999999999999999988754
No 98
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=95.29 E-value=0.028 Score=29.64 Aligned_cols=34 Identities=24% Similarity=0.727 Sum_probs=29.2
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHH
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECID 79 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~ 79 (105)
....|.+|-+.|.+++.+++-|.||=-+|+.|..
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 4678999999998888787777899999999954
No 99
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.20 E-value=0.012 Score=41.44 Aligned_cols=43 Identities=33% Similarity=0.677 Sum_probs=33.5
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHHh-cCCCCCccccC
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEWP-RLNDKCPVCIN 93 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~ 93 (105)
..|+.|...+... +.. +-|+|.||.+||...| ..-..||.|..
T Consensus 275 LkCplc~~Llrnp--~kT-~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP--MKT-PCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc--ccC-ccccchHHHHHHhhhhhhccccCCCccc
Confidence 7899998877654 333 4489999999999875 45778999965
No 100
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.19 E-value=0.019 Score=41.71 Aligned_cols=49 Identities=14% Similarity=0.354 Sum_probs=39.3
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCC---CCCccccCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLN---DKCPVCINS 94 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~ 94 (105)
.....|||=-+.-.+......|. |||++..+-|.+..++. ..||+|=.+
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred cceeecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 35689999888877777778888 99999999999987664 369999443
No 101
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.05 E-value=0.0077 Score=43.86 Aligned_cols=39 Identities=21% Similarity=0.590 Sum_probs=28.3
Q ss_pred CCcccccccccccccC-CceeEeCCCCCccchhhHHHHhcC
Q 044807 45 PNSSACSICLSEYLSQ-ETIKCIPECKHCFHAECIDEWPRL 84 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~ 84 (105)
....+|.||+.+.... +..... .|+|.||..|+.+.++.
T Consensus 144 ~~~~~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 144 LPKEECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cccccCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 3468999999544444 333334 49999999999998864
No 102
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=95.03 E-value=0.0071 Score=49.48 Aligned_cols=47 Identities=28% Similarity=0.631 Sum_probs=38.3
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINS 94 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~ 94 (105)
.+...|.||++.+.....+. . |||.||..|+..|+..+..||.|+..
T Consensus 1151 ~~~~~c~ic~dil~~~~~I~--~-cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1151 SGHFVCEICLDILRNQGGIA--G-CGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred hcccchHHHHHHHHhcCCee--e-echhHhhhHHHHHHHHhccCcchhhh
Confidence 34579999999987533332 2 99999999999999999999999743
No 103
>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=94.97 E-value=0.0091 Score=40.82 Aligned_cols=49 Identities=29% Similarity=0.626 Sum_probs=35.2
Q ss_pred CCccccccccccc-ccCCc-eeEeCCCCCccchhhHHHHhcCCC-CCc--cccC
Q 044807 45 PNSSACSICLSEY-LSQET-IKCIPECKHCFHAECIDEWPRLND-KCP--VCIN 93 (105)
Q Consensus 45 ~~~~~C~ICl~~~-~~~~~-~~~lp~C~H~Fh~~Ci~~wl~~~~-~CP--~Cr~ 93 (105)
..+..|+||..+. ..++. +.+-|.|-|.+|..|+.+-+.... .|| -|-+
T Consensus 8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~k 61 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGK 61 (314)
T ss_pred hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHH
Confidence 3467999998863 34443 334456999999999999987754 699 6643
No 104
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=94.41 E-value=0.01 Score=41.93 Aligned_cols=31 Identities=35% Similarity=0.868 Sum_probs=23.4
Q ss_pred eEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 64 KCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 64 ~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
+.+| |.|+||.+|... ..-+.||.|-..+..
T Consensus 105 RmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~Vqr 135 (389)
T KOG2932|consen 105 RMIP-CKHVFCLECARS--DSDKICPLCDDRVQR 135 (389)
T ss_pred cccc-cchhhhhhhhhc--CccccCcCcccHHHH
Confidence 4578 999999999753 346689999765543
No 105
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.03 E-value=0.031 Score=37.48 Aligned_cols=40 Identities=28% Similarity=0.737 Sum_probs=29.8
Q ss_pred ccccccccccCCceeEeCCCCCc-cchhhHHHHhcCCCCCccccCCCCC
Q 044807 50 CSICLSEYLSQETIKCIPECKHC-FHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
|-+|-+. ...+.++| |.|. +|..|-.. -..||+|+.....
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhhc
Confidence 8888775 34488899 9987 88888542 4569999987654
No 106
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=93.95 E-value=0.048 Score=34.00 Aligned_cols=52 Identities=23% Similarity=0.459 Sum_probs=37.1
Q ss_pred CcccccccccccccCCceeEeCC--CCCccchhhHHHHhc---CCCCCccccCCCCCCC
Q 044807 46 NSSACSICLSEYLSQETIKCIPE--CKHCFHAECIDEWPR---LNDKCPVCINSATPVH 99 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~--C~H~Fh~~Ci~~wl~---~~~~CP~Cr~~~~~~~ 99 (105)
.-.+|.||.|...+.. .+-|. ||-..|..|....++ ....||+|++++-+..
T Consensus 79 ~lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 79 KLYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCcccccccccc
Confidence 5789999999754432 22221 899999999766443 3678999999986643
No 107
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=93.83 E-value=0.037 Score=41.02 Aligned_cols=36 Identities=22% Similarity=0.453 Sum_probs=29.9
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL 84 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~ 84 (105)
+++..|+||...|.+ .++|| |+|..|..|...-+..
T Consensus 2 eeelkc~vc~~f~~e---piil~-c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 2 EEELKCPVCGSFYRE---PIILP-CSHNLCQACARNILVQ 37 (699)
T ss_pred cccccCceehhhccC---ceEee-cccHHHHHHHHhhccc
Confidence 357899999999977 57888 9999999998876644
No 108
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=93.10 E-value=0.064 Score=37.47 Aligned_cols=50 Identities=24% Similarity=0.578 Sum_probs=36.0
Q ss_pred cccccccccccccCCc-eeEeCCCC-----CccchhhHHHHhc--CCCCCccccCCCCC
Q 044807 47 SSACSICLSEYLSQET-IKCIPECK-----HCFHAECIDEWPR--LNDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~-~~~lp~C~-----H~Fh~~Ci~~wl~--~~~~CP~Cr~~~~~ 97 (105)
+..|-||.++...... ....| |. ...|..|+..|+. +...|.+|......
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~p-C~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~ 135 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISP-CSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFIN 135 (323)
T ss_pred CCcEEEEecccccccccccccC-ccccCcHHHHHHHHHHhhhccccCeeeeccccccee
Confidence 5789999997654322 33445 64 5589999999997 56679999876543
No 109
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.70 E-value=0.047 Score=37.70 Aligned_cols=53 Identities=23% Similarity=0.530 Sum_probs=36.3
Q ss_pred CCcccccccccccccCCce-eEeCCC-----CCccchhhHHHHhcC--------CCCCccccCCCCCC
Q 044807 45 PNSSACSICLSEYLSQETI-KCIPEC-----KHCFHAECIDEWPRL--------NDKCPVCINSATPV 98 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~-~~lp~C-----~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~ 98 (105)
+.+--|-||+..=++.... .+-| | .|-.|..|+..|+.. .-+||.|+++...+
T Consensus 18 e~eR~CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv 84 (293)
T KOG3053|consen 18 ELERCCWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV 84 (293)
T ss_pred ccceeEEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence 4567899999864443222 2345 6 377999999999843 12599999986543
No 110
>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=92.27 E-value=0.37 Score=25.57 Aligned_cols=48 Identities=23% Similarity=0.506 Sum_probs=33.1
Q ss_pred ccccccccccccCCceeEeCCCC--CccchhhHHHHhcCCCCCccccCCCCCCC
Q 044807 48 SACSICLSEYLSQETIKCIPECK--HCFHAECIDEWPRLNDKCPVCINSATPVH 99 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~--H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 99 (105)
..|-.|-.++.....-..+ |. ..||..|....| ++.||.|-.+|....
T Consensus 6 pnCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVRRP 55 (57)
T ss_pred CCccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCccccCC
Confidence 4566777776554322222 65 469999999866 788999999887643
No 111
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.12 E-value=0.051 Score=42.02 Aligned_cols=40 Identities=28% Similarity=0.654 Sum_probs=29.6
Q ss_pred cccccccccccccCCc-eeEeCCCCCccchhhHHHHhcCCCCCc
Q 044807 47 SSACSICLSEYLSQET-IKCIPECKHCFHAECIDEWPRLNDKCP 89 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~-~~~lp~C~H~Fh~~Ci~~wl~~~~~CP 89 (105)
-..|.||+..|..... .+-+. |||..|..|++... +.+||
T Consensus 11 ~l~c~ic~n~f~~~~~~Pvsl~-cghtic~~c~~~ly--n~scp 51 (861)
T KOG3161|consen 11 LLLCDICLNLFVVQRLEPVSLQ-CGHTICGHCVQLLY--NASCP 51 (861)
T ss_pred HhhchHHHHHHHHHhcCccccc-ccchHHHHHHHhHh--hccCC
Confidence 4689999988876543 33444 99999999998753 55677
No 112
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=92.00 E-value=0.087 Score=35.40 Aligned_cols=43 Identities=30% Similarity=0.813 Sum_probs=35.1
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccc
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVC 91 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C 91 (105)
.-..|.+|......+ +..-. |+-.||..|+..++.+...||.|
T Consensus 180 nlk~Cn~Ch~LvIqg--~rCg~-c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG--IRCGS-CNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHHHhHhHHHhhee--eccCc-ccchhhhHHHHHHhcccCcCCch
Confidence 457999999876443 44444 88889999999999999999999
No 113
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.16 E-value=0.12 Score=38.32 Aligned_cols=37 Identities=24% Similarity=0.551 Sum_probs=29.8
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL 84 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~ 84 (105)
.....|.||.+.+.. .+..+. |||.|+..|...++..
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 456899999998855 345566 9999999999998854
No 114
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=90.97 E-value=0.059 Score=41.86 Aligned_cols=47 Identities=21% Similarity=0.582 Sum_probs=36.3
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcCC---CCCccccCCCC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLN---DKCPVCINSAT 96 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~ 96 (105)
...+|+||+..+... ..+. |.|.|+..|+..-|... ..||+|+..+.
T Consensus 20 k~lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hhccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 468999999988775 4455 99999999987766553 35999986543
No 115
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=90.58 E-value=0.3 Score=39.04 Aligned_cols=53 Identities=28% Similarity=0.711 Sum_probs=37.3
Q ss_pred CCCcccccccccccccCCceeEeCCCC-----CccchhhHHHHhcCC--CCCccccCCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECK-----HCFHAECIDEWPRLN--DKCPVCINSATPV 98 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~~~ 98 (105)
.+++..|.||..+=..++.. .-| |. -..|.+|+.+|+.-. ..|-+|+.++...
T Consensus 9 N~d~~~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk 68 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFK 68 (1175)
T ss_pred CccchhceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeee
Confidence 45668999999875443333 334 64 338999999999754 4599999887543
No 116
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=90.23 E-value=0.19 Score=39.94 Aligned_cols=52 Identities=12% Similarity=0.180 Sum_probs=35.9
Q ss_pred CCccccccccccccc---CCceeEeCCCCCccchhhHHHHhcC------CCCCccccCCCC
Q 044807 45 PNSSACSICLSEYLS---QETIKCIPECKHCFHAECIDEWPRL------NDKCPVCINSAT 96 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~---~~~~~~lp~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~ 96 (105)
.+...|.||..++.+ +-.+..+..|+|.||..||..|+.+ +-.|++|..-|.
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 345778888887776 2233333359999999999999854 345888876543
No 117
>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=90.22 E-value=0.33 Score=25.32 Aligned_cols=43 Identities=23% Similarity=0.467 Sum_probs=20.3
Q ss_pred ccccccccccCC------ceeEeCCCCCccchhhHHHHhcCCCCCcccc
Q 044807 50 CSICLSEYLSQE------TIKCIPECKHCFHAECIDEWPRLNDKCPVCI 92 (105)
Q Consensus 50 C~ICl~~~~~~~------~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 92 (105)
|--|+..|..+. ....-|.|++.||.+|=.--=+.-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDCDVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHHHHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCcChhhhccccCCcCCC
Confidence 444555554431 2344556999999999443223455699883
No 118
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=90.19 E-value=0.096 Score=40.10 Aligned_cols=43 Identities=26% Similarity=0.769 Sum_probs=27.4
Q ss_pred CCccccccccc-----ccccCCceeEeCCCCCccchhhHHHHhcCCCCCccc
Q 044807 45 PNSSACSICLS-----EYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVC 91 (105)
Q Consensus 45 ~~~~~C~ICl~-----~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C 91 (105)
.....|.||-. .|.......... |+++||..|+.. ....||-|
T Consensus 509 ~~gfiCe~Cq~~~iiyPF~~~~~~rC~~-C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 509 GKGFICELCQHNDIIYPFETRNTRRCST-CLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred cCeeeeeeccCCCcccccccccceeHHH-HHHHHHHHHHhc---cCCCCCch
Confidence 34577888832 122222344455 999999999764 45559999
No 119
>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=89.52 E-value=0.18 Score=25.76 Aligned_cols=43 Identities=26% Similarity=0.644 Sum_probs=28.6
Q ss_pred cccccccccccCCceeEeCCCCCccchhhHHHHhc------CCCCCcccc
Q 044807 49 ACSICLSEYLSQETIKCIPECKHCFHAECIDEWPR------LNDKCPVCI 92 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~------~~~~CP~Cr 92 (105)
.|.||......++.+..-. |+-.||..|+..-.. ..-.||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~-C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDS-CNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBST-TSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCC-CChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 3788888554445555554 999999999876432 134577764
No 120
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=89.31 E-value=0.34 Score=38.22 Aligned_cols=42 Identities=19% Similarity=0.380 Sum_probs=30.5
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCcc
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPV 90 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~ 90 (105)
...|.+|-..+. +..+ .-++|||.-|..|+..|+..+.-||.
T Consensus 779 ~~~CtVC~~vi~-G~~~-~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIR-GVDV-WCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceee-eeEe-ecccccccccHHHHHHHHhcCCCCcc
Confidence 357888876652 2222 23459999999999999998887765
No 121
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=89.29 E-value=0.63 Score=28.26 Aligned_cols=46 Identities=24% Similarity=0.394 Sum_probs=33.2
Q ss_pred cccccccccccccCC----------ceeEeCCCCCccchhhHHHHhcCCCCCcccc
Q 044807 47 SSACSICLSEYLSQE----------TIKCIPECKHCFHAECIDEWPRLNDKCPVCI 92 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~----------~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 92 (105)
...|--|+..|.... ....-+.|++.||.+|=.-+-+.-..||.|-
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 457999999885431 1222345999999999777767777799985
No 122
>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 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=88.66 E-value=0.24 Score=22.12 Aligned_cols=23 Identities=30% Similarity=0.567 Sum_probs=11.4
Q ss_pred cccccccccccCCceeEeCCCCCcc
Q 044807 49 ACSICLSEYLSQETIKCIPECKHCF 73 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~H~F 73 (105)
.|+-|-..+... ...-|.|||.|
T Consensus 2 ~CP~C~~~V~~~--~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPES--AKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhh--cCcCCCCCCCC
Confidence 466666655332 22234466666
No 124
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.63 E-value=0.54 Score=32.57 Aligned_cols=58 Identities=16% Similarity=0.174 Sum_probs=41.0
Q ss_pred CCcccccccccccccCCce-eEeCCCCCccchhhHHHHhcCCCCCccccCCCCCCCCcCCCC
Q 044807 45 PNSSACSICLSEYLSQETI-KCIPECKHCFHAECIDEWPRLNDKCPVCINSATPVHADYVNP 105 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~-~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~~~ 105 (105)
.....|+|=--++...... .+-+ |||+|-..-+.+. ....|++|...+...+.-.+||
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~-CGcV~SerAlKei--kas~C~~C~a~y~~~dvIvlNg 167 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRC-CGCVFSERALKEI--KASVCHVCGAAYQEDDVIVLNG 167 (293)
T ss_pred cceeecccccceecceEEEEEEec-cceeccHHHHHHh--hhccccccCCcccccCeEeeCC
Confidence 3457888876666544443 3345 9999999887774 4778999999887766655554
No 125
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=88.57 E-value=0.41 Score=24.73 Aligned_cols=43 Identities=19% Similarity=0.485 Sum_probs=19.0
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHHhcC-----CCCCccccCC
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL-----NDKCPVCINS 94 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~ 94 (105)
..|+|-...+..+ ++... |.|.-|.+ +..||.. .-.||+|.++
T Consensus 3 L~CPls~~~i~~P--~Rg~~-C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP--VRGKN-CKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE--EEETT---SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC--ccCCc-CcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 4688877776543 45455 99985443 4555532 2359999763
No 126
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.25 E-value=0.3 Score=35.74 Aligned_cols=44 Identities=23% Similarity=0.421 Sum_probs=31.3
Q ss_pred ccccccccccccc--CCceeEeCCCCCccchhhHHHHhcCCCCCccc
Q 044807 47 SSACSICLSEYLS--QETIKCIPECKHCFHAECIDEWPRLNDKCPVC 91 (105)
Q Consensus 47 ~~~C~ICl~~~~~--~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C 91 (105)
-..|++|.-.+.. |-...+-. |||.||..|...|...+..|..|
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 4678888765433 32344445 99999999999998887777444
No 127
>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=87.81 E-value=0.27 Score=26.76 Aligned_cols=38 Identities=16% Similarity=0.351 Sum_probs=19.2
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHh
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWP 82 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 82 (105)
.+...|.+|...|.....-..-..||++||..|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 34689999999996544333333499999999976543
No 128
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=87.42 E-value=0.45 Score=31.72 Aligned_cols=41 Identities=34% Similarity=0.860 Sum_probs=27.7
Q ss_pred Ccccccccccc-----cccCCceeEeCCCCCccchhhHHHHhcCCCCCcccc
Q 044807 46 NSSACSICLSE-----YLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCI 92 (105)
Q Consensus 46 ~~~~C~ICl~~-----~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 92 (105)
....|-||-+. |.. +.+..-+.|+-.||..|.. ...||-|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~-----~~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFR-----KKSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcC-----CCCCCCcH
Confidence 45788888752 222 2333344599999999976 26799994
No 129
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=87.11 E-value=0.62 Score=33.41 Aligned_cols=49 Identities=29% Similarity=0.524 Sum_probs=34.8
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCIN 93 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 93 (105)
......|-.|.++.........-. |.+.||.+|=.--=+.-..||.|-.
T Consensus 327 ~~~~~~Cf~C~~~~~~~~~y~C~~-Ck~~FCldCDv~iHesLh~CpgCeh 375 (378)
T KOG2807|consen 327 YNGSRFCFACQGELLSSGRYRCES-CKNVFCLDCDVFIHESLHNCPGCEH 375 (378)
T ss_pred cCCCcceeeeccccCCCCcEEchh-ccceeeccchHHHHhhhhcCCCcCC
Confidence 344566999988776666666655 9999999995543344556999964
No 130
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.49 E-value=0.64 Score=33.26 Aligned_cols=46 Identities=17% Similarity=0.360 Sum_probs=33.7
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcC---CCCCcccc
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL---NDKCPVCI 92 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr 92 (105)
.-..||+=-+.-.+......|. |||++-.+-+....++ ...||+|=
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ceeeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 4578888666655555566676 9999999988887654 34599993
No 131
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.08 E-value=0.35 Score=38.28 Aligned_cols=40 Identities=25% Similarity=0.548 Sum_probs=28.9
Q ss_pred CcccccccccccccC----CceeEeCCCCCccchhhHHHHhcCCC
Q 044807 46 NSSACSICLSEYLSQ----ETIKCIPECKHCFHAECIDEWPRLND 86 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~----~~~~~lp~C~H~Fh~~Ci~~wl~~~~ 86 (105)
.+..|.-|.+..... ..+.+.- |||+||..|+..-..++.
T Consensus 783 ~e~rc~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~ 826 (846)
T KOG2066|consen 783 VEERCSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA 826 (846)
T ss_pred ehhhhhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc
Confidence 345899999876532 3466676 999999999887655443
No 132
>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=83.99 E-value=0.64 Score=25.51 Aligned_cols=11 Identities=36% Similarity=1.144 Sum_probs=8.2
Q ss_pred cchhhHHHHhc
Q 044807 73 FHAECIDEWPR 83 (105)
Q Consensus 73 Fh~~Ci~~wl~ 83 (105)
||+.|+..|+.
T Consensus 12 FCRNCLskWy~ 22 (68)
T PF06844_consen 12 FCRNCLSKWYR 22 (68)
T ss_dssp --HHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 99999999984
No 133
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.57 E-value=0.57 Score=33.01 Aligned_cols=39 Identities=18% Similarity=0.375 Sum_probs=28.9
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL 84 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~ 84 (105)
.-..|.+|.|.+++...|.+-..=.|.||+-|-.+-++.
T Consensus 267 apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~ 305 (352)
T KOG3579|consen 267 APLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQ 305 (352)
T ss_pred CceeehhhhhhhccCceeecCCCcccceecccCHHHHHh
Confidence 347899999999876555321112799999999998865
No 134
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=81.81 E-value=0.91 Score=31.66 Aligned_cols=49 Identities=24% Similarity=0.538 Sum_probs=34.1
Q ss_pred cccccccccccccCCceeE---eCCCCCccchhhHHHHhcC---------CCCCccccCCC
Q 044807 47 SSACSICLSEYLSQETIKC---IPECKHCFHAECIDEWPRL---------NDKCPVCINSA 95 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~---lp~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~ 95 (105)
..+|-+|..++...+..+. -+.|+-.+|..|+..-+.. ...||.|+..+
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 3699999999854443322 1248888999999985422 44699998743
No 135
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.71 E-value=0.88 Score=34.70 Aligned_cols=46 Identities=28% Similarity=0.824 Sum_probs=36.2
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
......|.||+.+. .....+ |. |..|+..|+..+..||+|+..+..
T Consensus 476 ~~~~~~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~ 521 (543)
T KOG0802|consen 476 REPNDVCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKE 521 (543)
T ss_pred hcccCcchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhc
Confidence 34568999999987 233344 77 899999999999999999886543
No 136
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=81.59 E-value=1.5 Score=31.43 Aligned_cols=50 Identities=18% Similarity=0.422 Sum_probs=37.1
Q ss_pred CcccccccccccccCCceeE-eCCCCCccchhhHHHHhcCCCCCccccCCCC
Q 044807 46 NSSACSICLSEYLSQETIKC-IPECKHCFHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~-lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
....|+||-+.....+...+ .| |++..|..|...-...+.+||.||++..
T Consensus 248 v~~s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 248 VPPSCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred cCCCCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCccc
Confidence 34789999998744443222 34 7888888888887788999999997654
No 137
>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=81.47 E-value=1.2 Score=23.09 Aligned_cols=37 Identities=16% Similarity=0.346 Sum_probs=24.7
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhc
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPR 83 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~ 83 (105)
...|.+|-..|.....-..-..||++|+..|......
T Consensus 2 ~~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 2 ASSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred cCcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 3578888887765432222224999999999876543
No 138
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=81.29 E-value=2.3 Score=24.15 Aligned_cols=51 Identities=25% Similarity=0.486 Sum_probs=20.6
Q ss_pred CCcccccccccccccC---Cc-eeEeCCCCCccchhhHHHHh-cCCCCCccccCCCC
Q 044807 45 PNSSACSICLSEYLSQ---ET-IKCIPECKHCFHAECIDEWP-RLNDKCPVCINSAT 96 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~---~~-~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~ 96 (105)
.....|-||-+++... +. +... .|+--.|+.|++-=. ..+..||.|++...
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~-eC~fPvCr~CyEYErkeg~q~CpqCkt~yk 62 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACH-ECAFPVCRPCYEYERKEGNQVCPQCKTRYK 62 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-S-SS-----HHHHHHHHHTS-SB-TTT--B--
T ss_pred cCCcccccccCccccCCCCCEEEEEc-ccCCccchhHHHHHhhcCcccccccCCCcc
Confidence 4568999999886543 22 2223 377778999987544 44778999998764
No 139
>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=81.02 E-value=1.2 Score=20.66 Aligned_cols=36 Identities=25% Similarity=0.519 Sum_probs=21.8
Q ss_pred ccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCC
Q 044807 50 CSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSA 95 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 95 (105)
|..|-..+...+..... =+..||..|+ .|..|...|
T Consensus 2 C~~C~~~i~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGELVLRA--LGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcEEEEe--CCccccccCC--------CCcccCCcC
Confidence 67777777554233222 3567888775 377776655
No 140
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.29 E-value=1.2 Score=31.68 Aligned_cols=50 Identities=24% Similarity=0.555 Sum_probs=39.0
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
.....|-||...+...... .+|+|.|+..|...|....+-||.|+.-+..
T Consensus 103 ~~~~~~~~~~g~l~vpt~~---qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 103 QDHDICYICYGKLTVPTRI---QGCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred CCccceeeeeeeEEecccc---cCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 4457888888877654332 3499999999999999999999999886654
No 141
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=80.05 E-value=2.6 Score=23.60 Aligned_cols=27 Identities=26% Similarity=0.590 Sum_probs=21.3
Q ss_pred CCccchhhHHHHhcCCCCCccccCCCCCC
Q 044807 70 KHCFHAECIDEWPRLNDKCPVCINSATPV 98 (105)
Q Consensus 70 ~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 98 (105)
.|.||..|.+.- -+..||.|-.++...
T Consensus 28 EcTFCadCae~~--l~g~CPnCGGelv~R 54 (84)
T COG3813 28 ECTFCADCAENR--LHGLCPNCGGELVAR 54 (84)
T ss_pred eeehhHhHHHHh--hcCcCCCCCchhhcC
Confidence 488999998864 367899998887643
No 142
>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 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=79.15 E-value=1.2 Score=23.03 Aligned_cols=38 Identities=24% Similarity=0.536 Sum_probs=20.1
Q ss_pred ccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 50 CSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
|.-|-..+...+.++.. -+..||..|+ .|-.|...|..
T Consensus 1 C~~C~~~I~~~~~~~~~--~~~~~H~~Cf--------~C~~C~~~l~~ 38 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIKA--MGKFWHPECF--------KCSKCGKPLND 38 (58)
T ss_dssp BTTTSSBESSSSEEEEE--TTEEEETTTS--------BETTTTCBTTT
T ss_pred CCCCCCCccCcEEEEEe--CCcEEEcccc--------ccCCCCCccCC
Confidence 45565655543333212 5566776654 36666666554
No 144
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=76.24 E-value=0.91 Score=23.91 Aligned_cols=19 Identities=26% Similarity=0.658 Sum_probs=14.4
Q ss_pred eeEeCCCCCccchhhHHHH
Q 044807 63 IKCIPECKHCFHAECIDEW 81 (105)
Q Consensus 63 ~~~lp~C~H~Fh~~Ci~~w 81 (105)
.+.-+.|++.||..|...|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 3444349999999998887
No 145
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.21 E-value=1.2 Score=28.09 Aligned_cols=19 Identities=16% Similarity=0.473 Sum_probs=13.8
Q ss_pred CCCCCccccccccc-ccccC
Q 044807 42 LPGPNSSACSICLS-EYLSQ 60 (105)
Q Consensus 42 ~~~~~~~~C~ICl~-~~~~~ 60 (105)
....++.+|.||+. .|.++
T Consensus 60 aGv~ddatC~IC~KTKFADG 79 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFADG 79 (169)
T ss_pred cccCcCcchhhhhhcccccc
Confidence 33567899999997 56554
No 146
>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=73.44 E-value=2.3 Score=25.79 Aligned_cols=46 Identities=22% Similarity=0.490 Sum_probs=27.4
Q ss_pred Cccccccccccccc--CCceeEeCCCCCccchhhHHHHhcCCC--CCccccC
Q 044807 46 NSSACSICLSEYLS--QETIKCIPECKHCFHAECIDEWPRLND--KCPVCIN 93 (105)
Q Consensus 46 ~~~~C~ICl~~~~~--~~~~~~lp~C~H~Fh~~Ci~~wl~~~~--~CP~Cr~ 93 (105)
++..|.+|...|.. +....... |+|.+|..|-.. ..+.. .|-+|..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~-C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVD-CKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETT-TTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCc-CCccccCccCCc-CCCCCCEEChhhHH
Confidence 67899999987532 23455555 999999999543 11122 2666643
No 147
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=73.43 E-value=2.3 Score=20.38 Aligned_cols=13 Identities=15% Similarity=0.549 Sum_probs=8.0
Q ss_pred ccccccccccccC
Q 044807 48 SACSICLSEYLSQ 60 (105)
Q Consensus 48 ~~C~ICl~~~~~~ 60 (105)
..|+-|-..|...
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 3577777666543
No 148
>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=73.36 E-value=2.5 Score=19.14 Aligned_cols=29 Identities=24% Similarity=0.549 Sum_probs=9.5
Q ss_pred cccccccccccCCceeEeCCCCCccchhhH
Q 044807 49 ACSICLSEYLSQETIKCIPECKHCFHAECI 78 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci 78 (105)
.|.+|-............. |.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~-Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSE-CDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TT-T-----HHHH
T ss_pred cCCcCCCcCCCCceEECcc-CCCccChhcC
Confidence 5778877765422233344 8888998885
No 149
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.18 E-value=2.4 Score=29.42 Aligned_cols=34 Identities=24% Similarity=0.258 Sum_probs=27.2
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHh
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWP 82 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 82 (105)
.+-.-|..||..+.++ ++.| =||+|+.+||.+++
T Consensus 41 K~FdcCsLtLqPc~dP---vit~-~GylfdrEaILe~i 74 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDP---VITP-DGYLFDREAILEYI 74 (303)
T ss_pred CCcceeeeecccccCC---ccCC-CCeeeeHHHHHHHH
Confidence 4457899999988763 4555 79999999999986
No 150
>PLN02189 cellulose synthase
Probab=70.45 E-value=7.1 Score=32.32 Aligned_cols=53 Identities=19% Similarity=0.356 Sum_probs=36.0
Q ss_pred CCCccccccccccccc---CCceeEeCCCCCccchhhHHHHh-cCCCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYLS---QETIKCIPECKHCFHAECIDEWP-RLNDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~---~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~ 96 (105)
......|.||-+++.. ++.-+--..|+--.|..|.+-=. +.+..||.|++...
T Consensus 31 ~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 31 NLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYK 87 (1040)
T ss_pred cccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 3456799999998753 33322233477779999985322 34778999998765
No 151
>PRK05978 hypothetical protein; Provisional
Probab=70.39 E-value=4.4 Score=25.87 Aligned_cols=28 Identities=25% Similarity=0.390 Sum_probs=22.0
Q ss_pred CCccchhhHHHHhcCCCCCccccCCCCCCCCcC
Q 044807 70 KHCFHAECIDEWPRLNDKCPVCINSATPVHADY 102 (105)
Q Consensus 70 ~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~ 102 (105)
|+.|. .+|+.+..||.|-.++.....++
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~~~~a~D 69 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFTHHRADD 69 (148)
T ss_pred Ccccc-----cccccCCCccccCCccccCCccc
Confidence 47775 57888999999999888766654
No 152
>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=70.24 E-value=1.4 Score=22.89 Aligned_cols=12 Identities=25% Similarity=0.672 Sum_probs=6.2
Q ss_pred CCCccccCCCCC
Q 044807 86 DKCPVCINSATP 97 (105)
Q Consensus 86 ~~CP~Cr~~~~~ 97 (105)
..||+|..+|..
T Consensus 21 ~~CPlC~r~l~~ 32 (54)
T PF04423_consen 21 GCCPLCGRPLDE 32 (54)
T ss_dssp EE-TTT--EE-H
T ss_pred CcCCCCCCCCCH
Confidence 389999988764
No 153
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=69.95 E-value=2.7 Score=20.09 Aligned_cols=13 Identities=23% Similarity=0.621 Sum_probs=8.2
Q ss_pred ccccccccccccC
Q 044807 48 SACSICLSEYLSQ 60 (105)
Q Consensus 48 ~~C~ICl~~~~~~ 60 (105)
.+|+=|...|...
T Consensus 3 i~Cp~C~~~y~i~ 15 (36)
T PF13717_consen 3 ITCPNCQAKYEID 15 (36)
T ss_pred EECCCCCCEEeCC
Confidence 3677777766543
No 154
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=69.75 E-value=3.3 Score=21.48 Aligned_cols=23 Identities=30% Similarity=0.865 Sum_probs=14.3
Q ss_pred CCCCccchhhHHHHhcCCCCCccc
Q 044807 68 ECKHCFHAECIDEWPRLNDKCPVC 91 (105)
Q Consensus 68 ~C~H~Fh~~Ci~~wl~~~~~CP~C 91 (105)
.|||.|-.. |..-......||.|
T Consensus 33 ~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 33 KCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCeeEcc-HhhhccCCCCCCCC
Confidence 378877654 22223456779988
No 155
>PLN02436 cellulose synthase A
Probab=67.69 E-value=8.8 Score=31.96 Aligned_cols=53 Identities=23% Similarity=0.402 Sum_probs=35.8
Q ss_pred CCCcccccccccccc---cCCceeEeCCCCCccchhhHHHHh-cCCCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYL---SQETIKCIPECKHCFHAECIDEWP-RLNDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~---~~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~ 96 (105)
......|-||-+++. +++.-+--..|+--.|..|.+-=. +.+..||.|++...
T Consensus 33 ~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 33 ELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYK 89 (1094)
T ss_pred ccCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchh
Confidence 345679999999863 334322233477779999985422 34678999998765
No 156
>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=67.26 E-value=0.89 Score=31.84 Aligned_cols=48 Identities=23% Similarity=0.361 Sum_probs=21.6
Q ss_pred CCcccccccccccccCCceeEeC---CCCCccchhhHHHHhcCCCCCccccCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIP---ECKHCFHAECIDEWPRLNDKCPVCINS 94 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp---~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~ 94 (105)
.....||||=..-..+ ++.-. +=.|.+|.-|-..|--....||.|-..
T Consensus 170 w~~g~CPvCGs~P~~s--~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 170 WQRGYCPVCGSPPVLS--VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp TT-SS-TTT---EEEE--EEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred ccCCcCCCCCCcCceE--EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 3457999997764322 11111 124668888999998788899999554
No 157
>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=64.38 E-value=13 Score=22.21 Aligned_cols=24 Identities=29% Similarity=0.542 Sum_probs=18.5
Q ss_pred CCccchhhHHHHhcC---------CCCCccccC
Q 044807 70 KHCFHAECIDEWPRL---------NDKCPVCIN 93 (105)
Q Consensus 70 ~H~Fh~~Ci~~wl~~---------~~~CP~Cr~ 93 (105)
.=.||..||..++.. .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 667999999988742 335999986
No 158
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=64.11 E-value=1.4 Score=18.99 Aligned_cols=6 Identities=50% Similarity=1.353 Sum_probs=2.7
Q ss_pred CccccC
Q 044807 88 CPVCIN 93 (105)
Q Consensus 88 CP~Cr~ 93 (105)
||.|-+
T Consensus 16 C~~CG~ 21 (23)
T PF13240_consen 16 CPNCGT 21 (23)
T ss_pred hhhhCC
Confidence 444433
No 159
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.83 E-value=3.3 Score=24.22 Aligned_cols=12 Identities=33% Similarity=0.985 Sum_probs=10.5
Q ss_pred ccchhhHHHHhc
Q 044807 72 CFHAECIDEWPR 83 (105)
Q Consensus 72 ~Fh~~Ci~~wl~ 83 (105)
-||..|+..|+.
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 399999999984
No 160
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=62.33 E-value=5.9 Score=18.36 Aligned_cols=20 Identities=30% Similarity=0.572 Sum_probs=12.2
Q ss_pred CCCccchhhHHHHhcCCCCCccccCC
Q 044807 69 CKHCFHAECIDEWPRLNDKCPVCINS 94 (105)
Q Consensus 69 C~H~Fh~~Ci~~wl~~~~~CP~Cr~~ 94 (105)
|||++-..- ....||+|...
T Consensus 7 CGy~y~~~~------~~~~CP~Cg~~ 26 (33)
T cd00350 7 CGYIYDGEE------APWVCPVCGAP 26 (33)
T ss_pred CCCEECCCc------CCCcCcCCCCc
Confidence 777655422 34479999664
No 161
>PLN02248 cellulose synthase-like protein
Probab=60.48 E-value=9.3 Score=31.94 Aligned_cols=30 Identities=17% Similarity=0.392 Sum_probs=26.1
Q ss_pred CCCccchhhHHHHhcCCCCCccccCCCCCC
Q 044807 69 CKHCFHAECIDEWPRLNDKCPVCINSATPV 98 (105)
Q Consensus 69 C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 98 (105)
|+..+|.+|...-+.....||-|+.+....
T Consensus 150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 179 (1135)
T PLN02248 150 CGFKICRDCYIDAVKSGGICPGCKEPYKVT 179 (1135)
T ss_pred ccchhHHhHhhhhhhcCCCCCCCccccccc
Confidence 789999999999999889999999887543
No 162
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=58.07 E-value=3 Score=29.50 Aligned_cols=40 Identities=20% Similarity=0.416 Sum_probs=29.5
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLN 85 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~ 85 (105)
.....|.+|+++|..+....... |.-.||..|+..|+...
T Consensus 212 k~~rvC~~CF~el~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 212 KPIRVCDICFEELEKGARGDRED-SLPVFHGKCYPNWLTTG 251 (288)
T ss_pred CCceecHHHHHHHhcccccchhh-ccccccccccccccccc
Confidence 34459999999997644444443 55599999999998653
No 163
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=57.65 E-value=1.8 Score=25.59 Aligned_cols=50 Identities=20% Similarity=0.335 Sum_probs=13.6
Q ss_pred cccccccccccccCC-ceeEeCCCCCccchhhHHHHhcC----CCCCccccCCCCCC
Q 044807 47 SSACSICLSEYLSQE-TIKCIPECKHCFHAECIDEWPRL----NDKCPVCINSATPV 98 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~~~~~ 98 (105)
.+.|+||-+.+...+ ....-. =||.|-+ |....|-- ...|++|...+...
T Consensus 14 ~E~C~~C~~~i~~~~~~~~~C~-~GH~w~R-C~lT~l~i~~~~~r~C~~C~~~~l~~ 68 (99)
T PF12660_consen 14 FEKCPICGAPIPFDDLDEAQCE-NGHVWPR-CALTFLPIQTPGVRVCPVCGRRALDP 68 (99)
T ss_dssp ---------------SSEEE-T-TS-EEEB--SSS-SBS-SS-EEE-TTT--EEE-G
T ss_pred cccccccccccccCCcCEeECC-CCCEEee-eeeeeeeeccCCeeEcCCCCCEEecC
Confidence 379999998765333 222222 3798754 44333321 25699998765543
No 164
>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=55.33 E-value=14 Score=21.43 Aligned_cols=40 Identities=25% Similarity=0.399 Sum_probs=30.2
Q ss_pred CCcccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 45 PNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
.....|.-|...+.--+ .+| |-.|+-.++.|..|+.++..
T Consensus 31 ~~rS~C~~C~~~L~~~~---lIP----------i~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 31 FPRSHCPHCGHPLSWWD---LIP----------ILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCCcCcCCCCcCcccc---cch----------HHHHHHhCCCCcccCCCCCh
Confidence 34578888888775533 345 77899999999999998764
No 165
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=55.03 E-value=3.9 Score=22.75 Aligned_cols=41 Identities=22% Similarity=0.429 Sum_probs=19.3
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
..|+.|..++.... +|.+|..|-.. +.....||-|..+|..
T Consensus 2 ~~CP~C~~~L~~~~--------~~~~C~~C~~~-~~~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 2 NTCPKCQQELEWQG--------GHYHCEACQKD-YKKEAFCPDCGQPLEV 42 (70)
T ss_dssp -B-SSS-SBEEEET--------TEEEETTT--E-EEEEEE-TTT-SB-EE
T ss_pred CcCCCCCCccEEeC--------CEEECcccccc-ceecccCCCcccHHHH
Confidence 46888888764432 44455555443 3445668888777654
No 166
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=53.73 E-value=16 Score=22.30 Aligned_cols=26 Identities=23% Similarity=0.381 Sum_probs=17.9
Q ss_pred eCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 66 IPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 66 lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
-|+|++. ..-+.+...|+.|+.+++-
T Consensus 72 CP~C~K~------TKmLGr~D~CM~C~~pLTL 97 (114)
T PF11023_consen 72 CPNCGKQ------TKMLGRVDACMHCKEPLTL 97 (114)
T ss_pred CCCCCCh------HhhhchhhccCcCCCcCcc
Confidence 4557774 3345666789999998764
No 167
>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=53.36 E-value=3.4 Score=20.34 Aligned_cols=24 Identities=25% Similarity=0.313 Sum_probs=13.7
Q ss_pred CCCccchhhHHHHhcCCCCCccccC
Q 044807 69 CKHCFHAECIDEWPRLNDKCPVCIN 93 (105)
Q Consensus 69 C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 93 (105)
|||.|-..--..= .....||.|..
T Consensus 11 Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 11 CGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 8887765321000 22456999987
No 168
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=52.77 E-value=8.7 Score=20.63 Aligned_cols=14 Identities=21% Similarity=0.643 Sum_probs=10.5
Q ss_pred CCCCCccccCCCCC
Q 044807 84 LNDKCPVCINSATP 97 (105)
Q Consensus 84 ~~~~CP~Cr~~~~~ 97 (105)
....||+|..+...
T Consensus 38 ~~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 38 EEPVCPLCKSPMVS 51 (59)
T ss_pred CCccCCCcCCcccc
Confidence 35679999887654
No 169
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=51.42 E-value=27 Score=29.30 Aligned_cols=53 Identities=19% Similarity=0.350 Sum_probs=35.2
Q ss_pred CCCccccccccccccc---CCceeEeCCCCCccchhhHHH-HhcCCCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYLS---QETIKCIPECKHCFHAECIDE-WPRLNDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~---~~~~~~lp~C~H~Fh~~Ci~~-wl~~~~~CP~Cr~~~~ 96 (105)
......|-||=+++.. ++.-+--..|+-=.|..|.+- .-+.+..||.|++...
T Consensus 14 ~~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYk 70 (1079)
T PLN02638 14 HGGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ccCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3456799999998643 332222233776799999843 2344778999998765
No 170
>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=50.82 E-value=14 Score=19.90 Aligned_cols=10 Identities=30% Similarity=0.982 Sum_probs=5.5
Q ss_pred CCCccccCCC
Q 044807 86 DKCPVCINSA 95 (105)
Q Consensus 86 ~~CP~Cr~~~ 95 (105)
..||+|+..+
T Consensus 3 ~~CPlCkt~~ 12 (61)
T PF05715_consen 3 SLCPLCKTTL 12 (61)
T ss_pred ccCCcccchh
Confidence 3466665554
No 171
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=50.49 E-value=12 Score=25.78 Aligned_cols=27 Identities=22% Similarity=0.425 Sum_probs=18.6
Q ss_pred ccccccccccccCCceeEeCCCCCccch
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHA 75 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~ 75 (105)
..||||-..+...+....-+ .+|.|-.
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~fd~ 29 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQFDC 29 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCCcc
Confidence 57999999986554444344 5898843
No 172
>PRK11827 hypothetical protein; Provisional
Probab=50.35 E-value=4.9 Score=21.63 Aligned_cols=18 Identities=22% Similarity=0.158 Sum_probs=12.7
Q ss_pred HHhcCCCCCccccCCCCC
Q 044807 80 EWPRLNDKCPVCINSATP 97 (105)
Q Consensus 80 ~wl~~~~~CP~Cr~~~~~ 97 (105)
.||...-.||.|+.++.-
T Consensus 3 ~~LLeILaCP~ckg~L~~ 20 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWY 20 (60)
T ss_pred hHHHhheECCCCCCcCeE
Confidence 455556679999988753
No 173
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=50.23 E-value=9.2 Score=30.56 Aligned_cols=31 Identities=29% Similarity=0.607 Sum_probs=22.9
Q ss_pred eCCCCCccchhhHHHHhcCCCCCccccCCCC
Q 044807 66 IPECKHCFHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 66 lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
-|+|.-+||.+=++--.-++..||.||++-.
T Consensus 1047 Cp~C~~~F~~eDFEl~vLqKGHCPFCrTS~d 1077 (1081)
T KOG1538|consen 1047 CPSCFQMFHSEDFELLVLQKGHCPFCRTSKD 1077 (1081)
T ss_pred CchHHhhhccchhhHHHHhcCCCCccccccc
Confidence 3457777777766666667889999998754
No 174
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=49.83 E-value=18 Score=25.29 Aligned_cols=45 Identities=18% Similarity=0.244 Sum_probs=31.8
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcCCC--CCccccCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLND--KCPVCINS 94 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~--~CP~Cr~~ 94 (105)
...|+|=...+..+ ++--. |||+|-++=|...+.... .||+=-.+
T Consensus 176 s~rdPis~~~I~nP--viSkk-C~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVNP--VISKK-CGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhch--hhhcC-cCcchhhhhHHHHhccCceeecccccCC
Confidence 46788876666553 33334 999999999999987743 48875444
No 175
>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=49.69 E-value=14 Score=18.64 Aligned_cols=34 Identities=21% Similarity=0.607 Sum_probs=23.2
Q ss_pred Cccccccccccc--ccCCceeEeCCCCCccchhhHHH
Q 044807 46 NSSACSICLSEY--LSQETIKCIPECKHCFHAECIDE 80 (105)
Q Consensus 46 ~~~~C~ICl~~~--~~~~~~~~lp~C~H~Fh~~Ci~~ 80 (105)
....|.+|-+.+ ...+.....- |+-.+|.+|+..
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~-C~~~~H~~C~~~ 45 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSW-CGLVCHKKCLSK 45 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETT-TT-EEETTGGCT
T ss_pred CCCCCcccCcccCCCCCCeEEECC-CCChHhhhhhhh
Confidence 457899999887 3344455565 999999999754
No 176
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=49.60 E-value=2 Score=22.47 Aligned_cols=34 Identities=21% Similarity=0.455 Sum_probs=17.0
Q ss_pred ccccc--cccccccCCc--e--eEeCCCCCccchhhHHHH
Q 044807 48 SACSI--CLSEYLSQET--I--KCIPECKHCFHAECIDEW 81 (105)
Q Consensus 48 ~~C~I--Cl~~~~~~~~--~--~~lp~C~H~Fh~~Ci~~w 81 (105)
.-|+- |-..+..... . +.-+.|++.||..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 36655 6655543321 1 222348999999988777
No 177
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=48.13 E-value=33 Score=28.68 Aligned_cols=53 Identities=17% Similarity=0.337 Sum_probs=35.5
Q ss_pred CCCccccccccccccc---CCceeEeCCCCCccchhhHHHHh-cCCCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYLS---QETIKCIPECKHCFHAECIDEWP-RLNDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~---~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~ 96 (105)
......|-||-+++.. |+.-+--..|+--.|..|.+-=. +.+..||.|++...
T Consensus 12 ~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 12 SADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CCCcchhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchh
Confidence 3457899999998643 33322223377779999985322 34678999998765
No 178
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=48.10 E-value=19 Score=22.65 Aligned_cols=15 Identities=20% Similarity=0.379 Sum_probs=11.3
Q ss_pred CCCCccccCCCCCCC
Q 044807 85 NDKCPVCINSATPVH 99 (105)
Q Consensus 85 ~~~CP~Cr~~~~~~~ 99 (105)
...||.|...|...+
T Consensus 123 ~f~Cp~Cg~~l~~~d 137 (147)
T smart00531 123 TFTCPRCGEELEEDD 137 (147)
T ss_pred cEECCCCCCEEEEcC
Confidence 367999999886543
No 179
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=47.42 E-value=13 Score=21.87 Aligned_cols=34 Identities=35% Similarity=0.733 Sum_probs=23.1
Q ss_pred CcccccccccccccCCceeE-eCCCCCccchhhHHHH
Q 044807 46 NSSACSICLSEYLSQETIKC-IPECKHCFHAECIDEW 81 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~-lp~C~H~Fh~~Ci~~w 81 (105)
....|.||... .|..+.. -++|...||..|....
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 46899999987 3333322 1237789999998663
No 180
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=47.38 E-value=20 Score=21.43 Aligned_cols=33 Identities=21% Similarity=0.319 Sum_probs=25.8
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHHh
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEWP 82 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 82 (105)
-.|.||-.++..|+....+.. -..|..|+..=.
T Consensus 3 WkC~iCg~~I~~gqlFTF~~k--G~VH~~C~~~~~ 35 (101)
T PF09943_consen 3 WKCYICGKPIYEGQLFTFTKK--GPVHYECFREKA 35 (101)
T ss_pred eEEEecCCeeeecceEEEecC--CcEeHHHHHHHH
Confidence 369999999999887766653 457999988754
No 181
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=47.04 E-value=10 Score=29.42 Aligned_cols=35 Identities=20% Similarity=0.621 Sum_probs=24.3
Q ss_pred CCcccccccccccccC-----------CceeEeCCCCCccchhhHHHH
Q 044807 45 PNSSACSICLSEYLSQ-----------ETIKCIPECKHCFHAECIDEW 81 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~-----------~~~~~lp~C~H~Fh~~Ci~~w 81 (105)
+....|+||-|.|..- +.| .+. =|-+||..|+..-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV-~le-~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAV-YLE-FGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeeccee-eec-cCceeeccccchH
Confidence 5678999999988531 112 222 3789999998764
No 182
>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=45.51 E-value=18 Score=25.48 Aligned_cols=44 Identities=23% Similarity=0.458 Sum_probs=25.6
Q ss_pred CcccccccccccccCCceeEeCCCC-CccchhhHHHH-hcCCCCCc
Q 044807 46 NSSACSICLSEYLSQETIKCIPECK-HCFHAECIDEW-PRLNDKCP 89 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~-H~Fh~~Ci~~w-l~~~~~CP 89 (105)
.-..|.||++....|..-..|..=. =.=|++|++.| |.-+..||
T Consensus 29 tLsfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 29 TLSFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred ceeecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 3467888887654442221111111 12478999999 55677788
No 183
>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=45.03 E-value=7 Score=27.88 Aligned_cols=48 Identities=21% Similarity=0.420 Sum_probs=29.3
Q ss_pred CcccccccccccccCCceeE---eCCCCCccchhhHHHHhcCCCCCccccCC
Q 044807 46 NSSACSICLSEYLSQETIKC---IPECKHCFHAECIDEWPRLNDKCPVCINS 94 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~---lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~ 94 (105)
....|+||-..-.... +.. -.+=.+.+|.-|-.+|--....||.|-..
T Consensus 183 ~~~~CPvCGs~P~~s~-~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~~ 233 (305)
T TIGR01562 183 SRTLCPACGSPPVASM-VRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEES 233 (305)
T ss_pred CCCcCCCCCChhhhhh-hcccCCCCCceEEEcCCCCCcccccCccCCCCCCC
Confidence 3569999987642211 000 00122456777888887778889999653
No 184
>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=44.57 E-value=5.7 Score=25.57 Aligned_cols=42 Identities=24% Similarity=0.493 Sum_probs=25.6
Q ss_pred ccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCC
Q 044807 52 ICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 52 ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
||+.-=...+....-|.=.+.||..|-.+- ...||.|..+|.
T Consensus 9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~t---I~~Cp~C~~~Ir 50 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPELREKFCSKCGAKT---ITSCPNCSTPIR 50 (158)
T ss_pred HccCccccccccccCchHHHHHHHHhhHHH---HHHCcCCCCCCC
Confidence 566543333333333334567999997764 456999988874
No 185
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=44.45 E-value=11 Score=24.58 Aligned_cols=31 Identities=19% Similarity=0.621 Sum_probs=20.1
Q ss_pred ccccc---cccccCCceeEeCCCCCccchhhHHHH
Q 044807 50 CSICL---SEYLSQETIKCIPECKHCFHAECIDEW 81 (105)
Q Consensus 50 C~ICl---~~~~~~~~~~~lp~C~H~Fh~~Ci~~w 81 (105)
|-.|. ++...+..|.... |.-.||+.||-.-
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQG-Cs~sYHk~CLG~R 35 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQG-CSSSYHKACLGPR 35 (175)
T ss_pred cccccCCCCCccCCCeEEcCc-cChHHHhhhcCCc
Confidence 55664 4444454555554 8899999998654
No 186
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=43.95 E-value=23 Score=18.92 Aligned_cols=34 Identities=15% Similarity=0.306 Sum_probs=21.7
Q ss_pred Cccccccccccccc--CCceeEeCCCCCccchhhHH
Q 044807 46 NSSACSICLSEYLS--QETIKCIPECKHCFHAECID 79 (105)
Q Consensus 46 ~~~~C~ICl~~~~~--~~~~~~lp~C~H~Fh~~Ci~ 79 (105)
....|+.|-..... ......-+.||+.++.+-..
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD~na 62 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRDVNA 62 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcHHHH
Confidence 46789888776655 33444445588888776443
No 187
>PLN02400 cellulose synthase
Probab=42.95 E-value=30 Score=29.06 Aligned_cols=53 Identities=19% Similarity=0.345 Sum_probs=34.7
Q ss_pred CCCccccccccccccc---CCceeEeCCCCCccchhhHHHH-hcCCCCCccccCCCC
Q 044807 44 GPNSSACSICLSEYLS---QETIKCIPECKHCFHAECIDEW-PRLNDKCPVCINSAT 96 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~---~~~~~~lp~C~H~Fh~~Ci~~w-l~~~~~CP~Cr~~~~ 96 (105)
......|-||=+++.. ++.-+--..|+--.|+.|.+-= -+.+..||.|++...
T Consensus 33 ~~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 33 NLNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ccCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccc
Confidence 3456799999998643 3322222237777999998421 234678999998765
No 188
>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=42.73 E-value=8.9 Score=17.20 Aligned_cols=11 Identities=36% Similarity=0.863 Sum_probs=5.4
Q ss_pred CCccccCCCCC
Q 044807 87 KCPVCINSATP 97 (105)
Q Consensus 87 ~CP~Cr~~~~~ 97 (105)
.||.|-..+..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 48888777763
No 189
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=42.28 E-value=11 Score=26.91 Aligned_cols=46 Identities=24% Similarity=0.453 Sum_probs=29.9
Q ss_pred CcccccccccccccCCceeEe---CCCCCccchhhHHHHhcCCCCCccccC
Q 044807 46 NSSACSICLSEYLSQETIKCI---PECKHCFHAECIDEWPRLNDKCPVCIN 93 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~l---p~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 93 (105)
....|++|=..-... ++.+ .+=.+.+|.-|-.+|--....||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 468999998764222 1111 112355677788889778888999965
No 190
>PF15353 HECA: Headcase protein family homologue
Probab=42.17 E-value=16 Score=21.99 Aligned_cols=13 Identities=31% Similarity=1.025 Sum_probs=11.7
Q ss_pred CCCccchhhHHHH
Q 044807 69 CKHCFHAECIDEW 81 (105)
Q Consensus 69 C~H~Fh~~Ci~~w 81 (105)
.++.+|.+|++.|
T Consensus 40 ~~~~MH~~CF~~w 52 (107)
T PF15353_consen 40 FGQYMHRECFEKW 52 (107)
T ss_pred CCCchHHHHHHHH
Confidence 4788999999999
No 191
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.86 E-value=25 Score=27.95 Aligned_cols=45 Identities=24% Similarity=0.512 Sum_probs=31.0
Q ss_pred cccccccccccCCceeEeCCCCC-ccchhhHHHHhc--C----CCCCccccCCCCC
Q 044807 49 ACSICLSEYLSQETIKCIPECKH-CFHAECIDEWPR--L----NDKCPVCINSATP 97 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~--~----~~~CP~Cr~~~~~ 97 (105)
.|.||-..+.- +. ...||| ..+..|..+... . ...||+||..+..
T Consensus 2 ~c~ic~~s~~~---~~-~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~ 53 (669)
T KOG2231|consen 2 SCAICAFSPDF---VG-RGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVET 53 (669)
T ss_pred CcceeecCccc---cc-cccccccccchhhhhhhhhhcccccccccCcccccceee
Confidence 58888776532 23 334999 799999887642 2 4468999997654
No 192
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=41.65 E-value=19 Score=30.03 Aligned_cols=37 Identities=24% Similarity=0.483 Sum_probs=25.9
Q ss_pred CCCCccccccccccccc-CCceeEeCCCCCccchhhHH
Q 044807 43 PGPNSSACSICLSEYLS-QETIKCIPECKHCFHAECID 79 (105)
Q Consensus 43 ~~~~~~~C~ICl~~~~~-~~~~~~lp~C~H~Fh~~Ci~ 79 (105)
..+.+..|.||++.=.. ...++.-..|+=..|.+|..
T Consensus 215 ~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg 252 (1051)
T KOG0955|consen 215 LLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG 252 (1051)
T ss_pred ccCCCccceeecccccCCCceEEEcCCCcchhhhhccC
Confidence 35778999999995333 23343344599889999987
No 193
>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=41.61 E-value=9.3 Score=24.40 Aligned_cols=21 Identities=38% Similarity=0.763 Sum_probs=14.3
Q ss_pred CCCccchhhHHHHhcC-----------CCCCccccCC
Q 044807 69 CKHCFHAECIDEWPRL-----------NDKCPVCINS 94 (105)
Q Consensus 69 C~H~Fh~~Ci~~wl~~-----------~~~CP~Cr~~ 94 (105)
+||.| +.||.+ --+||+|-..
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~ 41 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGST 41 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCC
Confidence 47876 459854 2369999654
No 194
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=41.42 E-value=6.1 Score=28.11 Aligned_cols=43 Identities=16% Similarity=0.485 Sum_probs=23.2
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCCCCC
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATPVHA 100 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 100 (105)
..|.-|.+-+-+.+.|+.. =.|+||..|+. |-+|+..|..-+.
T Consensus 93 TKCsaC~~GIpPtqVVRkA--qd~VYHl~CF~--------C~iC~R~L~TGdE 135 (383)
T KOG4577|consen 93 TKCSACQEGIPPTQVVRKA--QDFVYHLHCFA--------CFICKRQLATGDE 135 (383)
T ss_pred CcchhhcCCCChHHHHHHh--hcceeehhhhh--------hHhhhcccccCCe
Confidence 4455555554333333221 45778877764 6677666655443
No 195
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=41.38 E-value=14 Score=19.89 Aligned_cols=11 Identities=36% Similarity=0.848 Sum_probs=8.5
Q ss_pred CCccccCCCCC
Q 044807 87 KCPVCINSATP 97 (105)
Q Consensus 87 ~CP~Cr~~~~~ 97 (105)
.||+||.++.-
T Consensus 10 aCP~~kg~L~~ 20 (60)
T COG2835 10 ACPVCKGPLVY 20 (60)
T ss_pred eccCcCCcceE
Confidence 59999988654
No 196
>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=40.84 E-value=11 Score=19.99 Aligned_cols=10 Identities=30% Similarity=0.846 Sum_probs=3.2
Q ss_pred CccccCCCCC
Q 044807 88 CPVCINSATP 97 (105)
Q Consensus 88 CP~Cr~~~~~ 97 (105)
||.|++.+..
T Consensus 5 CP~C~k~~~~ 14 (57)
T PF03884_consen 5 CPICGKPVEW 14 (57)
T ss_dssp -TTT--EEE-
T ss_pred CCCCCCeecc
Confidence 5666555433
No 197
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=40.81 E-value=27 Score=25.68 Aligned_cols=23 Identities=13% Similarity=0.225 Sum_probs=15.1
Q ss_pred CCCcccccccccccccCCceeEeC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIP 67 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp 67 (105)
++.++.|++|-+.. .|-...++.
T Consensus 12 edl~ElCPVCGDkV-SGYHYGLLT 34 (475)
T KOG4218|consen 12 EDLGELCPVCGDKV-SGYHYGLLT 34 (475)
T ss_pred cccccccccccCcc-ccceeeeee
Confidence 45678999999876 344344444
No 198
>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=40.77 E-value=9.1 Score=28.35 Aligned_cols=50 Identities=22% Similarity=0.547 Sum_probs=0.0
Q ss_pred cccccccccccc--c---C-----------CceeEeCCCCCccchhhHHHHhcC---------CCCCccccCCCCC
Q 044807 47 SSACSICLSEYL--S---Q-----------ETIKCIPECKHCFHAECIDEWPRL---------NDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~--~---~-----------~~~~~lp~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~~~ 97 (105)
.-+|++|+..-. . + -....-| |||+--.+...-|.+. +..||.|-..|..
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 789999986421 0 0 0122356 9999888888889643 3469999887753
No 199
>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=40.71 E-value=21 Score=24.44 Aligned_cols=22 Identities=23% Similarity=0.519 Sum_probs=14.0
Q ss_pred cchhhHHHHhcCCCCCccccCC
Q 044807 73 FHAECIDEWPRLNDKCPVCINS 94 (105)
Q Consensus 73 Fh~~Ci~~wl~~~~~CP~Cr~~ 94 (105)
-|..|-..-=.+...||+|++.
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccc
Confidence 3444544433467889999874
No 200
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=40.60 E-value=16 Score=19.42 Aligned_cols=24 Identities=25% Similarity=0.553 Sum_probs=13.8
Q ss_pred ccccccccccCCceeEeCCCCCccchh
Q 044807 50 CSICLSEYLSQETIKCIPECKHCFHAE 76 (105)
Q Consensus 50 C~ICl~~~~~~~~~~~lp~C~H~Fh~~ 76 (105)
|..|... .....+.|. ||+++|..
T Consensus 1 C~~C~~~--~~~lw~CL~-Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGST--NSNLWLCLT-CGYVGCGR 24 (63)
T ss_dssp -SSSHTC--SSSEEEETT-TS-EEETT
T ss_pred CCCCCCc--CCceEEeCC-CCcccccC
Confidence 4455533 234466777 99998875
No 201
>PLN02195 cellulose synthase A
Probab=40.26 E-value=43 Score=27.86 Aligned_cols=52 Identities=17% Similarity=0.285 Sum_probs=34.7
Q ss_pred CCccccccccccccc---CCceeEeCCCCCccchhhHHHHh-cCCCCCccccCCCC
Q 044807 45 PNSSACSICLSEYLS---QETIKCIPECKHCFHAECIDEWP-RLNDKCPVCINSAT 96 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~---~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~ 96 (105)
.....|.||-+++.. ++.-+--..|+--.|+.|.+-=. +.+..||.|++...
T Consensus 4 ~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 4 SGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred CCCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 345689999987643 33222223488889999984322 34677999998876
No 202
>PF11682 DUF3279: Protein of unknown function (DUF3279); InterPro: IPR021696 This family of proteins with unknown function appears to be restricted to Enterobacteriaceae.
Probab=39.47 E-value=37 Score=21.15 Aligned_cols=22 Identities=23% Similarity=0.649 Sum_probs=16.9
Q ss_pred CCCccchhhHHHHhcCCCCCccccCCCCCCC
Q 044807 69 CKHCFHAECIDEWPRLNDKCPVCINSATPVH 99 (105)
Q Consensus 69 C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 99 (105)
|++.|+ +.+.||.|+.-|.++.
T Consensus 103 C~~~Y~---------GeK~C~~C~tGiYS~e 124 (128)
T PF11682_consen 103 CGNHYH---------GEKYCPKCGTGIYSIE 124 (128)
T ss_pred CCCccC---------cCEecCCCCCccccee
Confidence 888777 4577999998887654
No 203
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=39.12 E-value=16 Score=24.56 Aligned_cols=23 Identities=30% Similarity=0.703 Sum_probs=14.8
Q ss_pred hhhHHHHhc-CCCCCccccCCCCC
Q 044807 75 AECIDEWPR-LNDKCPVCINSATP 97 (105)
Q Consensus 75 ~~Ci~~wl~-~~~~CP~Cr~~~~~ 97 (105)
..||..--. .++.||+||-+...
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL~ 120 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYLY 120 (239)
T ss_pred hHHHhhcCeecCCCCCccccceEE
Confidence 446665322 36679999987544
No 204
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=38.97 E-value=14 Score=26.39 Aligned_cols=33 Identities=27% Similarity=0.675 Sum_probs=24.4
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHH
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECID 79 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~ 79 (105)
+...|.||+..-...+.+..-- |.--||..|+.
T Consensus 313 ~C~lC~IC~~P~~E~E~~FCD~-CDRG~HT~CVG 345 (381)
T KOG1512|consen 313 SCELCRICLGPVIESEHLFCDV-CDRGPHTLCVG 345 (381)
T ss_pred ccHhhhccCCcccchheecccc-ccCCCCccccc
Confidence 4678999998876666666554 88788888864
No 205
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=38.67 E-value=37 Score=20.15 Aligned_cols=30 Identities=23% Similarity=0.535 Sum_probs=18.5
Q ss_pred CCCccchhhHHHHhcCCCCCccccCCCCCCC
Q 044807 69 CKHCFHAECIDEWPRLNDKCPVCINSATPVH 99 (105)
Q Consensus 69 C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 99 (105)
||+--|.-=+.++ ....+||.|+.++.+--
T Consensus 65 CGvC~~~LT~~EY-~~~~~Cp~C~spFNp~C 94 (105)
T COG4357 65 CGVCRKLLTRAEY-GMCGSCPYCQSPFNPGC 94 (105)
T ss_pred hhhhhhhhhHHHH-hhcCCCCCcCCCCCccc
Confidence 6765554444443 22456999999887643
No 206
>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=37.87 E-value=27 Score=16.80 Aligned_cols=33 Identities=21% Similarity=0.614 Sum_probs=23.2
Q ss_pred cccccccccccccCC-ceeEeCCCCCccchhhHHH
Q 044807 47 SSACSICLSEYLSQE-TIKCIPECKHCFHAECIDE 80 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~-~~~~lp~C~H~Fh~~Ci~~ 80 (105)
...|.+|.+.+.... ...... |+=..|..|+..
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~-C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSW-CKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCC-CCchHHHHHHhh
Confidence 467999988775432 344444 888899999875
No 207
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=37.65 E-value=22 Score=20.00 Aligned_cols=33 Identities=33% Similarity=0.771 Sum_probs=22.7
Q ss_pred CcccccccccccccCCceeE-eCCCCCccchhhHHH
Q 044807 46 NSSACSICLSEYLSQETIKC-IPECKHCFHAECIDE 80 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~-lp~C~H~Fh~~Ci~~ 80 (105)
....|.+|-... |..+.. .+.|.-.||..|...
T Consensus 35 ~~~~C~~C~~~~--Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKG--GACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCC--CeEEEEeCCCCCcEEChHHHcc
Confidence 357999999762 333332 334889999999765
No 208
>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=36.45 E-value=11 Score=19.79 Aligned_cols=9 Identities=33% Similarity=1.006 Sum_probs=3.4
Q ss_pred CCccccCCC
Q 044807 87 KCPVCINSA 95 (105)
Q Consensus 87 ~CP~Cr~~~ 95 (105)
+||+|...+
T Consensus 26 tCP~C~a~~ 34 (54)
T PF09237_consen 26 TCPICGAVI 34 (54)
T ss_dssp E-TTT--EE
T ss_pred CCCcchhhc
Confidence 466665544
No 209
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=36.37 E-value=13 Score=32.06 Aligned_cols=51 Identities=20% Similarity=0.489 Sum_probs=38.7
Q ss_pred CCCcccccccccccccCCceeEeCCCCCccchhhHHHHhcC----CCCCccccCCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL----NDKCPVCINSA 95 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~~ 95 (105)
......|.||.........+.... |.-.||..|+..-+.. .=.||-||..-
T Consensus 1105 s~~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1105 SAVNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred ccchhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 345789999999877655555554 8888999999998765 33699998754
No 210
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=36.35 E-value=37 Score=27.64 Aligned_cols=28 Identities=32% Similarity=0.644 Sum_probs=20.0
Q ss_pred eCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 66 IPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 66 lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
.|.|.|.-|..=|. +.+.||+|...+..
T Consensus 1159 C~~CkH~a~~~EIs----~y~~CPLCHs~~~~ 1186 (1189)
T KOG2041|consen 1159 CPRCKHRAHQHEIS----KYNCCPLCHSMESF 1186 (1189)
T ss_pred cccccccccccccc----ccccCccccChhhc
Confidence 34588988876553 46889999876544
No 211
>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=35.91 E-value=19 Score=15.75 Aligned_cols=9 Identities=44% Similarity=1.372 Sum_probs=6.5
Q ss_pred CCccccCCC
Q 044807 87 KCPVCINSA 95 (105)
Q Consensus 87 ~CP~Cr~~~ 95 (105)
.||+|-..+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 588886665
No 212
>PF06467 zf-FCS: MYM-type Zinc finger with FCS sequence motif; InterPro: IPR010507 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. MYM-type zinc fingers were identified in MYM family proteins []. Human protein Q14202 from SWISSPROT is involved in a chromosomal translocation and may be responsible for X-linked retardation in XQ13.1 []. Q9UBW7 from SWISSPROT is also involved in disease. In myeloproliferative disorders it is fused to FGF receptor 1 []; in atypical myeloproliferative disorders it is rearranged []. Members of the family generally are involved in development. This Zn-finger domain functions as a transcriptional trans-activator of late vaccinia viral genes, and orthologues are also found in all nucleocytoplasmic large DNA viruses, NCLDV. This domain is also found fused to the C termini of recombinases from certain prokaryotic transposons []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2L8E_A 2DAS_A.
Probab=35.57 E-value=54 Score=15.55 Aligned_cols=34 Identities=18% Similarity=0.292 Sum_probs=18.6
Q ss_pred CcccccccccccccCCc--eeEeCCCCCccchh-hHH
Q 044807 46 NSSACSICLSEYLSQET--IKCIPECKHCFHAE-CID 79 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~--~~~lp~C~H~Fh~~-Ci~ 79 (105)
....|..|-.++..... +....+-.|.||.. |+.
T Consensus 5 ~~~~C~~C~~~~~~~~~~~~~~~~g~~~~FCS~~C~~ 41 (43)
T PF06467_consen 5 KMKTCSYCKKYIPNKPTMIEVQYDGKMKQFCSQSCLS 41 (43)
T ss_dssp SCEE-TTT--EEECCC----EE-TTTTSCCSSHHHHH
T ss_pred cCCcCcccCCcccCCCccccccccCcccChhCHHHHh
Confidence 35688999988876664 33334467788875 554
No 213
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=35.11 E-value=53 Score=23.85 Aligned_cols=45 Identities=9% Similarity=-0.075 Sum_probs=30.9
Q ss_pred CcccccccccccccCCceeEeCCCCCc-cchhhHHHHhcCCCCCccccCCCC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHC-FHAECIDEWPRLNDKCPVCINSAT 96 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~ 96 (105)
...+|..|-+.+.. .++.+ |+|. |+-+|.. +.-..+||+|-....
T Consensus 342 s~~~~~~~~~~~~s---t~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~~ 387 (394)
T KOG2113|consen 342 SSLKGTSAGFGLLS---TIWSG-GNMNLSPGSLAS--ASASPTSSTCDHNDH 387 (394)
T ss_pred hhcccccccCceee---eEeec-CCcccChhhhhh--cccCCccccccccce
Confidence 34677777665543 34556 9987 8888876 556788999976543
No 214
>PRK01343 zinc-binding protein; Provisional
Probab=35.03 E-value=35 Score=18.16 Aligned_cols=10 Identities=30% Similarity=0.853 Sum_probs=5.4
Q ss_pred CCCccccCCC
Q 044807 86 DKCPVCINSA 95 (105)
Q Consensus 86 ~~CP~Cr~~~ 95 (105)
..||+|++++
T Consensus 10 ~~CP~C~k~~ 19 (57)
T PRK01343 10 RPCPECGKPS 19 (57)
T ss_pred CcCCCCCCcC
Confidence 3466665554
No 215
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=34.56 E-value=27 Score=15.63 Aligned_cols=28 Identities=21% Similarity=0.562 Sum_probs=15.6
Q ss_pred cccccccccccCCceeEeCCCCCccchhh
Q 044807 49 ACSICLSEYLSQETIKCIPECKHCFHAEC 77 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~C 77 (105)
.|.||-..+.....-.... |.-.+|..|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~-c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSE-CCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCEeEEeCC-CCCeEcCcc
Confidence 4778866653322233333 776777766
No 216
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=34.13 E-value=36 Score=18.44 Aligned_cols=10 Identities=30% Similarity=0.936 Sum_probs=6.3
Q ss_pred CCccccCCCC
Q 044807 87 KCPVCINSAT 96 (105)
Q Consensus 87 ~CP~Cr~~~~ 96 (105)
.||.|++.+.
T Consensus 8 ~CP~C~k~~~ 17 (62)
T PRK00418 8 NCPTCGKPVE 17 (62)
T ss_pred cCCCCCCccc
Confidence 4777776653
No 217
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=33.89 E-value=20 Score=27.23 Aligned_cols=16 Identities=38% Similarity=0.461 Sum_probs=9.8
Q ss_pred CCcccccccccccccC
Q 044807 45 PNSSACSICLSEYLSQ 60 (105)
Q Consensus 45 ~~~~~C~ICl~~~~~~ 60 (105)
.+..-|+-||+++...
T Consensus 24 i~~~yCp~CL~~~p~~ 39 (483)
T PF05502_consen 24 IDSYYCPNCLFEVPSS 39 (483)
T ss_pred cceeECccccccCChh
Confidence 4456677777766443
No 218
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=33.88 E-value=69 Score=20.95 Aligned_cols=18 Identities=17% Similarity=0.338 Sum_probs=13.9
Q ss_pred hcCCCCCccccCCCCCCC
Q 044807 82 PRLNDKCPVCINSATPVH 99 (105)
Q Consensus 82 l~~~~~CP~Cr~~~~~~~ 99 (105)
+.....||.|-..+...+
T Consensus 133 ~~~~F~Cp~Cg~~L~~~d 150 (178)
T PRK06266 133 MEYGFRCPQCGEMLEEYD 150 (178)
T ss_pred hhcCCcCCCCCCCCeecc
Confidence 345788999999887654
No 219
>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=33.59 E-value=26 Score=17.06 Aligned_cols=33 Identities=24% Similarity=0.657 Sum_probs=22.6
Q ss_pred cccccccccccccC--CceeEeCCCCCccchhhHHH
Q 044807 47 SSACSICLSEYLSQ--ETIKCIPECKHCFHAECIDE 80 (105)
Q Consensus 47 ~~~C~ICl~~~~~~--~~~~~lp~C~H~Fh~~Ci~~ 80 (105)
...|.+|.+.+... ....... |+=..|..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~-C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSW-CKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCC-CCCchhhhhhcc
Confidence 45799998877542 3344444 888899988764
No 220
>TIGR00627 tfb4 transcription factor tfb4. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.50 E-value=34 Score=24.15 Aligned_cols=9 Identities=22% Similarity=0.707 Sum_probs=6.3
Q ss_pred CCCccccCC
Q 044807 86 DKCPVCINS 94 (105)
Q Consensus 86 ~~CP~Cr~~ 94 (105)
..||.|...
T Consensus 270 ~~C~~Cgt~ 278 (279)
T TIGR00627 270 PICKTCKTA 278 (279)
T ss_pred CCCCCCCCC
Confidence 468888764
No 221
>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=33.46 E-value=31 Score=18.46 Aligned_cols=14 Identities=36% Similarity=0.895 Sum_probs=10.2
Q ss_pred CCCCCccccCCCCC
Q 044807 84 LNDKCPVCINSATP 97 (105)
Q Consensus 84 ~~~~CP~Cr~~~~~ 97 (105)
.+..||+|-.++..
T Consensus 2 ~HkHC~~CG~~Ip~ 15 (59)
T PF09889_consen 2 PHKHCPVCGKPIPP 15 (59)
T ss_pred CCCcCCcCCCcCCc
Confidence 36678999877764
No 222
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=32.75 E-value=30 Score=21.68 Aligned_cols=25 Identities=16% Similarity=0.412 Sum_probs=13.2
Q ss_pred cccccccccccccCCceeEeCCCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKH 71 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H 71 (105)
+..|+.|-..+...+.-+.-|.|+|
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~~ 52 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCGY 52 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCCc
Confidence 4678877776544433333333444
No 223
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=32.20 E-value=46 Score=19.68 Aligned_cols=35 Identities=23% Similarity=0.445 Sum_probs=26.8
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhc
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPR 83 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~ 83 (105)
...|.||-..+..|+.....+ .-..|.+|+.+-..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK--KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee--CCcchHHHHHHHHh
Confidence 568999999998888776665 33479999887543
No 224
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=32.05 E-value=31 Score=23.86 Aligned_cols=21 Identities=24% Similarity=0.563 Sum_probs=13.4
Q ss_pred chhhHHHHhcCCCCCccccCC
Q 044807 74 HAECIDEWPRLNDKCPVCINS 94 (105)
Q Consensus 74 h~~Ci~~wl~~~~~CP~Cr~~ 94 (105)
|..|-..--.+...||+|+..
T Consensus 252 ClsChqqIHRNAPiCPlCKaK 272 (286)
T KOG4451|consen 252 CLSCHQQIHRNAPICPLCKAK 272 (286)
T ss_pred HHHHHHHHhcCCCCCcchhhc
Confidence 344444433467889999875
No 225
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=31.66 E-value=18 Score=17.49 Aligned_cols=10 Identities=40% Similarity=1.036 Sum_probs=6.9
Q ss_pred CccccCCCCC
Q 044807 88 CPVCINSATP 97 (105)
Q Consensus 88 CP~Cr~~~~~ 97 (105)
||.|+..+..
T Consensus 2 CP~C~~~l~~ 11 (41)
T PF13453_consen 2 CPRCGTELEP 11 (41)
T ss_pred cCCCCcccce
Confidence 7888776554
No 226
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=30.79 E-value=41 Score=24.45 Aligned_cols=53 Identities=19% Similarity=0.532 Sum_probs=34.0
Q ss_pred CCccccccccccc--cc---C----------C-ceeEeCCCCCccchhhHHHHhcC---------CCCCccccCCCCCC
Q 044807 45 PNSSACSICLSEY--LS---Q----------E-TIKCIPECKHCFHAECIDEWPRL---------NDKCPVCINSATPV 98 (105)
Q Consensus 45 ~~~~~C~ICl~~~--~~---~----------~-~~~~lp~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~~~~ 98 (105)
..+.+|++|+..- .. + - ....-| |||+--..=..-|... +..||+|-..|.-.
T Consensus 339 ~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~ge 416 (429)
T KOG3842|consen 339 QRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAGE 416 (429)
T ss_pred cccCcCCeeeeecceeeeeccccceeEecCCCcccccCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhccC
Confidence 3468999998742 11 0 0 112345 9998777778888643 34599998776543
No 227
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=30.76 E-value=60 Score=18.29 Aligned_cols=24 Identities=25% Similarity=0.623 Sum_probs=18.5
Q ss_pred cccCCceeEeCCCCCccchhhHHHH
Q 044807 57 YLSQETIKCIPECKHCFHAECIDEW 81 (105)
Q Consensus 57 ~~~~~~~~~lp~C~H~Fh~~Ci~~w 81 (105)
+..++.+.+.++|.|.| ..|..++
T Consensus 41 ~~~G~~v~l~~GCDkt~-~tC~~kF 64 (80)
T PF09356_consen 41 LAVGDTVTLYPGCDKTF-ATCRAKF 64 (80)
T ss_pred CCCCCEEEEEeCCCCCH-HHHHHHh
Confidence 44677788888999987 7787664
No 228
>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=30.51 E-value=50 Score=21.07 Aligned_cols=18 Identities=28% Similarity=0.442 Sum_probs=13.5
Q ss_pred cCCCCCccccCCCCCCCC
Q 044807 83 RLNDKCPVCINSATPVHA 100 (105)
Q Consensus 83 ~~~~~CP~Cr~~~~~~~~ 100 (105)
.....||.|...+...+.
T Consensus 126 ~~~F~Cp~Cg~~L~~~dn 143 (158)
T TIGR00373 126 ELNFTCPRCGAMLDYLDN 143 (158)
T ss_pred HcCCcCCCCCCEeeeccC
Confidence 457889999998766543
No 229
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=30.36 E-value=34 Score=16.84 Aligned_cols=17 Identities=29% Similarity=0.853 Sum_probs=11.3
Q ss_pred HhcCCCCCccccCCCCC
Q 044807 81 WPRLNDKCPVCINSATP 97 (105)
Q Consensus 81 wl~~~~~CP~Cr~~~~~ 97 (105)
|---..+||.|..++..
T Consensus 13 ~~ML~~~Cp~C~~PL~~ 29 (41)
T PF06677_consen 13 WTMLDEHCPDCGTPLMR 29 (41)
T ss_pred HhHhcCccCCCCCeeEE
Confidence 44446678888777665
No 230
>PF05353 Atracotoxin: Delta Atracotoxin; InterPro: IPR008017 Delta atracotoxin produces potentially fatal neurotoxic symptoms in primates by slowing the inactivation of voltage-gated sodium channels []. The structure of atracotoxin comprises a core beta region containing a triple-stranded a thumb-like extension protruding from the beta region and a C-terminal helix. The beta region contains a cystine knot motif, a feature seen in other neurotoxic polypeptides [].; GO: 0019871 sodium channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 2ROO_A 1VTX_A 1QDP_A.
Probab=30.02 E-value=2.3 Score=20.86 Aligned_cols=14 Identities=29% Similarity=0.864 Sum_probs=10.4
Q ss_pred hhHHHHhcCCCCCc
Q 044807 76 ECIDEWPRLNDKCP 89 (105)
Q Consensus 76 ~Ci~~wl~~~~~CP 89 (105)
.||..|++.+.+|-
T Consensus 19 kCiyAWYnqq~sCq 32 (42)
T PF05353_consen 19 KCIYAWYNQQSSCQ 32 (42)
T ss_dssp EEEE-SSGSTEEEE
T ss_pred HHHHHHHccCCchH
Confidence 58889998888774
No 231
>PF01844 HNH: HNH endonuclease; InterPro: IPR002711 HNH endonuclease is found in bacteria and viruses [, , ]. This family includes pyocins, colicins and anaredoxins.; GO: 0003676 nucleic acid binding, 0004519 endonuclease activity; PDB: 2QGP_C.
Probab=28.33 E-value=15 Score=17.76 Aligned_cols=8 Identities=25% Similarity=0.787 Sum_probs=1.8
Q ss_pred CccccCCC
Q 044807 88 CPVCINSA 95 (105)
Q Consensus 88 CP~Cr~~~ 95 (105)
|++|..++
T Consensus 1 C~~C~~~~ 8 (47)
T PF01844_consen 1 CQYCGKPG 8 (47)
T ss_dssp -TTT--B-
T ss_pred CCCCCCcC
Confidence 44444443
No 232
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=27.89 E-value=37 Score=23.57 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=29.4
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCC--Ccc
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDK--CPV 90 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~--CP~ 90 (105)
+..|+|=+..+..+ +.-. .|+|.|-.+=|...+....+ ||.
T Consensus 189 ~nrCpitl~p~~~p--ils~-kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 189 SNRCPITLNPDFYP--ILSS-KCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cccCCcccCcchhH--HHHh-hhcccccHHHHHHHhcCCceeecch
Confidence 57899977665432 3333 39999999999999986544 664
No 233
>PF10764 Gin: Inhibitor of sigma-G Gin; InterPro: IPR019700 Gin allows sigma-F to delay late forespore transcription by preventing sigma-G to take over before the cell has reached a critical stage of development. Gin is also known as CsfB [].
Probab=27.40 E-value=33 Score=17.29 Aligned_cols=29 Identities=28% Similarity=0.438 Sum_probs=19.5
Q ss_pred cccccccccccCCceeEeCCCCCccchhhHHHHh
Q 044807 49 ACSICLSEYLSQETIKCIPECKHCFHAECIDEWP 82 (105)
Q Consensus 49 ~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 82 (105)
.|.||-..-.+| +. + .|..+|.+|-....
T Consensus 1 ~CiiC~~~~~~G--I~-I--~~~fIC~~CE~~iv 29 (46)
T PF10764_consen 1 KCIICGKEKEEG--IH-I--YGKFICSDCEKEIV 29 (46)
T ss_pred CeEeCCCcCCCC--EE-E--ECeEehHHHHHHhc
Confidence 378888876554 22 2 67788888876654
No 234
>PF14353 CpXC: CpXC protein
Probab=27.40 E-value=64 Score=19.49 Aligned_cols=12 Identities=25% Similarity=0.567 Sum_probs=8.2
Q ss_pred CCCCccccCCCC
Q 044807 85 NDKCPVCINSAT 96 (105)
Q Consensus 85 ~~~CP~Cr~~~~ 96 (105)
..+||.|...+.
T Consensus 38 ~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 38 SFTCPSCGHKFR 49 (128)
T ss_pred EEECCCCCCcee
Confidence 346999977653
No 235
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=26.96 E-value=33 Score=15.68 Aligned_cols=24 Identities=42% Similarity=0.863 Sum_probs=7.3
Q ss_pred ccccccccccc--cCCceeEeCCCCCc
Q 044807 48 SACSICLSEYL--SQETIKCIPECKHC 72 (105)
Q Consensus 48 ~~C~ICl~~~~--~~~~~~~lp~C~H~ 72 (105)
..|+.|-.++. ++... +-|.|+|.
T Consensus 3 p~Cp~C~se~~y~D~~~~-vCp~C~~e 28 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELL-VCPECGHE 28 (30)
T ss_dssp ---TTT-----EE-SSSE-EETTTTEE
T ss_pred CCCCCCCCcceeccCCEE-eCCccccc
Confidence 35777766543 22222 23346664
No 236
>PRK00241 nudC NADH pyrophosphatase; Reviewed
Probab=26.56 E-value=55 Score=22.64 Aligned_cols=21 Identities=24% Similarity=0.452 Sum_probs=14.2
Q ss_pred hHHHHhcCCCCCccccCCCCC
Q 044807 77 CIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 77 Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
=+..|...+.-||.|-.++..
T Consensus 91 ~l~~w~~~~~fC~~CG~~~~~ 111 (256)
T PRK00241 91 QLAEFYRSHRFCGYCGHPMHP 111 (256)
T ss_pred HHHHHhhcCccccccCCCCee
Confidence 356677777778877776543
No 237
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=26.42 E-value=39 Score=21.18 Aligned_cols=20 Identities=20% Similarity=0.654 Sum_probs=14.8
Q ss_pred CCCCccchhhHHHHhcCCCCCccccCCC
Q 044807 68 ECKHCFHAECIDEWPRLNDKCPVCINSA 95 (105)
Q Consensus 68 ~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 95 (105)
.|||.|+- -+..||.|..+.
T Consensus 34 ~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 34 KCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred CCCeEEcC--------CcccCCCCCCCC
Confidence 38888875 466699998764
No 238
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=24.80 E-value=57 Score=17.58 Aligned_cols=17 Identities=18% Similarity=0.370 Sum_probs=12.3
Q ss_pred cCCceeEeCCCCCccchh
Q 044807 59 SQETIKCIPECKHCFHAE 76 (105)
Q Consensus 59 ~~~~~~~lp~C~H~Fh~~ 76 (105)
.+..+..|. |||.=|-.
T Consensus 8 e~hWVA~L~-CGH~QHvR 24 (61)
T PF12088_consen 8 EGHWVAELS-CGHTQHVR 24 (61)
T ss_pred cCCEEEEec-cccccccc
Confidence 345678888 99987754
No 239
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=24.50 E-value=52 Score=19.92 Aligned_cols=25 Identities=28% Similarity=0.561 Sum_probs=13.6
Q ss_pred ccccccccccc--cCCceeEeCCCCCcc
Q 044807 48 SACSICLSEYL--SQETIKCIPECKHCF 73 (105)
Q Consensus 48 ~~C~ICl~~~~--~~~~~~~lp~C~H~F 73 (105)
..|+-|-.+|. ++.. .+-|.|+|-|
T Consensus 3 p~CP~C~seytY~dg~~-~iCpeC~~EW 29 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQ-LICPSCLYEW 29 (109)
T ss_pred CcCCcCCCcceEecCCe-eECccccccc
Confidence 46888877653 3332 3334466643
No 240
>smart00507 HNHc HNH nucleases.
Probab=24.36 E-value=47 Score=15.80 Aligned_cols=8 Identities=25% Similarity=0.779 Sum_probs=3.4
Q ss_pred cccccccc
Q 044807 49 ACSICLSE 56 (105)
Q Consensus 49 ~C~ICl~~ 56 (105)
.|.+|...
T Consensus 12 ~C~~C~~~ 19 (52)
T smart00507 12 VCAYCGKP 19 (52)
T ss_pred CCcCCcCC
Confidence 34444443
No 241
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=23.94 E-value=42 Score=26.65 Aligned_cols=46 Identities=24% Similarity=0.686 Sum_probs=27.8
Q ss_pred ccccccccccccc--CCceeEeCCCCCccchhhHHHHhcC-----CCCCccccC
Q 044807 47 SSACSICLSEYLS--QETIKCIPECKHCFHAECIDEWPRL-----NDKCPVCIN 93 (105)
Q Consensus 47 ~~~C~ICl~~~~~--~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~ 93 (105)
...|.||-..-.. +-.+.+-. |+-.||..|+..|+.. .-.||-||.
T Consensus 18 ~~mc~l~~s~G~~~ag~m~ac~~-c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 18 CLMCPLCGSSGKGRAGRLLACSD-CGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhhhccccccccCcchhhhh-hcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 3455555443221 22233444 8999999999999754 234887764
No 242
>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=23.61 E-value=43 Score=19.54 Aligned_cols=38 Identities=21% Similarity=0.419 Sum_probs=27.9
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHhcCCCCCccccCCCCC
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRLNDKCPVCINSATP 97 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 97 (105)
...|.||-..+.. =||.||..|-. ....|.+|-..|..
T Consensus 44 ~~~C~~CK~~v~q---------~g~~YCq~CAY----kkGiCamCGKki~d 81 (90)
T PF10235_consen 44 SSKCKICKTKVHQ---------PGAKYCQTCAY----KKGICAMCGKKILD 81 (90)
T ss_pred Ccccccccccccc---------CCCccChhhhc----ccCcccccCCeecc
Confidence 5689999876422 47789999854 47789999877643
No 243
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=23.57 E-value=37 Score=17.04 Aligned_cols=24 Identities=25% Similarity=0.414 Sum_probs=12.5
Q ss_pred CCCccchhhHHHHhcCCCCCccccC
Q 044807 69 CKHCFHAECIDEWPRLNDKCPVCIN 93 (105)
Q Consensus 69 C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 93 (105)
|||.|-..--.. -.....||.|..
T Consensus 11 Cg~~fe~~~~~~-~~~~~~CP~Cg~ 34 (52)
T TIGR02605 11 CGHRFEVLQKMS-DDPLATCPECGG 34 (52)
T ss_pred CCCEeEEEEecC-CCCCCCCCCCCC
Confidence 788766421000 012336999987
No 244
>PRK04023 DNA polymerase II large subunit; Validated
Probab=23.45 E-value=94 Score=26.28 Aligned_cols=54 Identities=20% Similarity=0.366 Sum_probs=34.4
Q ss_pred CCCcccccccccccccCCceeEeCCCC-----CccchhhHHHHhcCCCCCccccCCCCCCCCcCC
Q 044807 44 GPNSSACSICLSEYLSQETIKCIPECK-----HCFHAECIDEWPRLNDKCPVCINSATPVHADYV 103 (105)
Q Consensus 44 ~~~~~~C~ICl~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~~~ 103 (105)
+.....|+=|=..... ..-|.|| ..||..| .+......||-|..++.......+
T Consensus 623 EVg~RfCpsCG~~t~~----frCP~CG~~Te~i~fCP~C--G~~~~~y~CPKCG~El~~~s~~~i 681 (1121)
T PRK04023 623 EIGRRKCPSCGKETFY----RRCPFCGTHTEPVYRCPRC--GIEVEEDECEKCGREPTPYSKRKI 681 (1121)
T ss_pred cccCccCCCCCCcCCc----ccCCCCCCCCCcceeCccc--cCcCCCCcCCCCCCCCCccceEEe
Confidence 3456788888776422 2334587 3599999 333445679999988776544433
No 245
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=23.29 E-value=50 Score=25.12 Aligned_cols=49 Identities=18% Similarity=0.434 Sum_probs=31.0
Q ss_pred ccccccccc-ccccCCceeEeCCCCCccchhhHHHHhcC--------CCCCccccCCC
Q 044807 47 SSACSICLS-EYLSQETIKCIPECKHCFHAECIDEWPRL--------NDKCPVCINSA 95 (105)
Q Consensus 47 ~~~C~ICl~-~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~ 95 (105)
+..|.+|.. ..-....++.-..|+-.||..|-+..... ...|=+|....
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred cceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 456999985 33334444444458889999998776432 22488886543
No 246
>PHA02565 49 recombination endonuclease VII; Provisional
Probab=23.14 E-value=64 Score=20.85 Aligned_cols=11 Identities=36% Similarity=0.951 Sum_probs=5.3
Q ss_pred CCCCccccCCC
Q 044807 85 NDKCPVCINSA 95 (105)
Q Consensus 85 ~~~CP~Cr~~~ 95 (105)
...||+|..++
T Consensus 20 ~G~CaiC~~~l 30 (157)
T PHA02565 20 NGICPLCKREL 30 (157)
T ss_pred CCcCCCCCCcc
Confidence 44455555443
No 247
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=22.76 E-value=25 Score=26.25 Aligned_cols=32 Identities=25% Similarity=0.664 Sum_probs=21.8
Q ss_pred ccccccccccccCCceeEeCCCCCccchhhHHHH
Q 044807 48 SACSICLSEYLSQETIKCIPECKHCFHAECIDEW 81 (105)
Q Consensus 48 ~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~w 81 (105)
.+|+||+-.+-.......- |.-.+|.+|+.+.
T Consensus 75 ~ecpicflyyps~~n~~rc--C~~~Ic~ecf~~~ 106 (482)
T KOG2789|consen 75 TECPICFLYYPSAKNLVRC--CSETICGECFAPF 106 (482)
T ss_pred ccCceeeeecccccchhhh--hccchhhhheecc
Confidence 5999999987553222211 7777888887765
No 248
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 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. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=22.74 E-value=75 Score=15.00 Aligned_cols=9 Identities=22% Similarity=0.431 Sum_probs=4.1
Q ss_pred CCCccccCC
Q 044807 86 DKCPVCINS 94 (105)
Q Consensus 86 ~~CP~Cr~~ 94 (105)
.+|+.|--.
T Consensus 22 isC~~CGPr 30 (35)
T PF07503_consen 22 ISCTNCGPR 30 (35)
T ss_dssp --BTTCC-S
T ss_pred ccCCCCCCC
Confidence 358888433
No 249
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=22.16 E-value=60 Score=19.65 Aligned_cols=29 Identities=31% Similarity=0.699 Sum_probs=16.4
Q ss_pred cccccccccccccCCceeEeCCCCCccchhhHHHHh
Q 044807 47 SSACSICLSEYLSQETIKCIPECKHCFHAECIDEWP 82 (105)
Q Consensus 47 ~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 82 (105)
-..|+.|-++|.-.+. ++.+|..|..+|-
T Consensus 3 lp~cp~c~sEytYed~-------~~~~cpec~~ew~ 31 (112)
T COG2824 3 LPPCPKCNSEYTYEDG-------GQLICPECAHEWN 31 (112)
T ss_pred CCCCCccCCceEEecC-------ceEeCchhccccc
Confidence 3578888877643222 2334555656664
No 250
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=21.18 E-value=62 Score=19.02 Aligned_cols=19 Identities=16% Similarity=0.342 Sum_probs=12.1
Q ss_pred CCCCccccCCCCCCCCcCC
Q 044807 85 NDKCPVCINSATPVHADYV 103 (105)
Q Consensus 85 ~~~CP~Cr~~~~~~~~~~~ 103 (105)
-+.||.|+.+--.....+|
T Consensus 76 pSRCP~CKSE~Ie~prF~i 94 (97)
T COG3357 76 PSRCPKCKSEWIEEPRFVI 94 (97)
T ss_pred cccCCcchhhcccCCceee
Confidence 4569999887555444443
No 251
>PF03966 Trm112p: Trm112p-like protein; InterPro: IPR005651 This family of short proteins have no known function. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. The entry contains 2 families: Trm112, which is required for tRNA methylation in Saccharomyces cerevisiae (Baker's yeast) and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W []. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast []. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices []. UPF0434, which are proteins that are functionally uncharacterised. ; PDB: 3Q87_A 2KPI_A 2K5R_A 2HF1_A 2JS4_A 2J6A_A 2JR6_A 2PK7_A 2JNY_A.
Probab=20.87 E-value=95 Score=16.63 Aligned_cols=6 Identities=33% Similarity=0.927 Sum_probs=2.9
Q ss_pred CCCCcc
Q 044807 68 ECKHCF 73 (105)
Q Consensus 68 ~C~H~F 73 (105)
.|++.|
T Consensus 58 ~c~r~Y 63 (68)
T PF03966_consen 58 ECGREY 63 (68)
T ss_dssp TTTEEE
T ss_pred CCCCEE
Confidence 355544
No 252
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.76 E-value=65 Score=20.26 Aligned_cols=14 Identities=21% Similarity=0.384 Sum_probs=10.0
Q ss_pred ceeEeCCCCCccchh
Q 044807 62 TIKCIPECKHCFHAE 76 (105)
Q Consensus 62 ~~~~lp~C~H~Fh~~ 76 (105)
.++... |||.|+..
T Consensus 69 rv~rce-cghsf~d~ 82 (165)
T COG4647 69 RVIRCE-CGHSFGDY 82 (165)
T ss_pred cEEEEe-ccccccCh
Confidence 355555 99999964
No 253
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=20.53 E-value=22 Score=25.21 Aligned_cols=48 Identities=21% Similarity=0.499 Sum_probs=31.3
Q ss_pred CcccccccccccccCCceeEeCCCCCccchhhHHHHhcC----CCCCccccCC
Q 044807 46 NSSACSICLSEYLSQETIKCIPECKHCFHAECIDEWPRL----NDKCPVCINS 94 (105)
Q Consensus 46 ~~~~C~ICl~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~ 94 (105)
+..-|.||-..-.+.+-+..-. |.--||-.|+.+=+.. .-+|-+|-..
T Consensus 280 eck~csicgtsenddqllfcdd-cdrgyhmyclsppm~eppegswsc~KOG~~ 331 (336)
T KOG1244|consen 280 ECKYCSICGTSENDDQLLFCDD-CDRGYHMYCLSPPMVEPPEGSWSCHLCLEE 331 (336)
T ss_pred ecceeccccCcCCCceeEeecc-cCCceeeEecCCCcCCCCCCchhHHHHHHH
Confidence 3567888876544444455555 8888999998876532 4467777443
No 254
>PRK11595 DNA utilization protein GntX; Provisional
Probab=20.45 E-value=96 Score=20.84 Aligned_cols=9 Identities=22% Similarity=0.637 Sum_probs=4.7
Q ss_pred ccccccccc
Q 044807 49 ACSICLSEY 57 (105)
Q Consensus 49 ~C~ICl~~~ 57 (105)
.|.+|-..+
T Consensus 7 ~C~~C~~~~ 15 (227)
T PRK11595 7 LCWLCRMPL 15 (227)
T ss_pred cCccCCCcc
Confidence 466665443
No 255
>PF05810 NinF: NinF protein; InterPro: IPR008712 This family consists of several bacteriophage NinF proteins as well as related sequences from Escherichia coli.
Probab=20.10 E-value=61 Score=17.20 Aligned_cols=11 Identities=36% Similarity=0.788 Sum_probs=8.9
Q ss_pred cchhhHHHHhc
Q 044807 73 FHAECIDEWPR 83 (105)
Q Consensus 73 Fh~~Ci~~wl~ 83 (105)
.|..|+.+||.
T Consensus 34 ~Ce~C~~E~l~ 44 (58)
T PF05810_consen 34 VCEECCAEWLV 44 (58)
T ss_pred HHHHHHHHHHh
Confidence 46779999985
No 256
>PF02132 RecR: RecR protein; InterPro: IPR023628 The bacterial protein RecR seems to play a role in a recombinational process of DNA repair []. It may act with RecF and RecO. RecR's structure consists of a N-terminal helix-hairpin-helix (HhH) motif, followed by a Cys4 zinc-finger motif, a Toprim domain and a Walker B motif []. This entry represents the C4-type zinc finger.; PDB: 1VDD_D 2V1C_B.
Probab=20.09 E-value=33 Score=16.65 Aligned_cols=12 Identities=25% Similarity=0.761 Sum_probs=7.2
Q ss_pred CCcccccccccc
Q 044807 45 PNSSACSICLSE 56 (105)
Q Consensus 45 ~~~~~C~ICl~~ 56 (105)
.+...|.||.+.
T Consensus 27 se~~~C~IC~d~ 38 (41)
T PF02132_consen 27 SEEDPCEICSDP 38 (41)
T ss_dssp ESSSS-HHHH-T
T ss_pred CCCCcCcCCCCC
Confidence 346789999875
Done!