Query 033041
Match_columns 129
No_of_seqs 210 out of 1823
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 09:05:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033041.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033041hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13639 zf-RING_2: Ring finge 99.6 2.3E-16 4.9E-21 89.5 1.8 43 2-45 2-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.6 9.1E-15 2E-19 114.5 7.3 50 2-52 231-281 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.4 2.3E-13 4.9E-18 85.2 3.3 43 2-45 21-73 (73)
4 COG5243 HRD1 HRD ubiquitin lig 99.4 5.3E-13 1.1E-17 104.8 5.8 51 2-53 289-349 (491)
5 COG5540 RING-finger-containing 99.3 4.6E-13 9.9E-18 102.7 2.8 48 1-49 324-372 (374)
6 PHA02929 N1R/p28-like protein; 99.3 2.2E-12 4.7E-17 97.0 4.0 51 1-51 175-229 (238)
7 PLN03208 E3 ubiquitin-protein 99.2 9.6E-12 2.1E-16 90.5 5.2 46 1-50 19-80 (193)
8 KOG0823 Predicted E3 ubiquitin 99.2 4.7E-12 1E-16 93.9 2.6 47 1-51 48-97 (230)
9 PF12861 zf-Apc11: Anaphase-pr 99.2 1.8E-11 3.9E-16 78.2 3.3 50 2-51 23-84 (85)
10 cd00162 RING RING-finger (Real 99.2 3.1E-11 6.6E-16 67.2 3.6 44 2-48 1-45 (45)
11 PF13923 zf-C3HC4_2: Zinc fing 99.2 2.3E-11 5.1E-16 67.1 2.5 39 3-44 1-39 (39)
12 PF15227 zf-C3HC4_4: zinc fing 99.1 2.3E-11 5E-16 68.3 2.5 38 3-44 1-42 (42)
13 PF13920 zf-C3HC4_3: Zinc fing 99.1 3.1E-11 6.8E-16 70.0 3.2 45 1-49 3-48 (50)
14 KOG0317 Predicted E3 ubiquitin 99.1 4.4E-11 9.5E-16 91.2 2.7 46 2-51 241-286 (293)
15 PHA02926 zinc finger-like prot 99.1 1.2E-10 2.7E-15 86.1 3.8 51 1-51 171-232 (242)
16 KOG0320 Predicted E3 ubiquitin 99.0 1.2E-10 2.6E-15 83.4 2.7 48 2-51 133-180 (187)
17 PF14634 zf-RING_5: zinc-RING 99.0 3.7E-10 8.1E-15 63.9 3.6 44 2-46 1-44 (44)
18 smart00504 Ubox Modified RING 99.0 3.8E-10 8.1E-15 67.9 3.5 45 1-49 2-46 (63)
19 PF00097 zf-C3HC4: Zinc finger 99.0 2.2E-10 4.9E-15 63.5 2.3 39 3-44 1-41 (41)
20 KOG0802 E3 ubiquitin ligase [P 99.0 2.6E-10 5.7E-15 94.8 2.7 47 2-49 293-341 (543)
21 smart00184 RING Ring finger. E 98.9 1.2E-09 2.6E-14 58.6 3.7 38 3-44 1-39 (39)
22 KOG2930 SCF ubiquitin ligase, 98.9 6.3E-10 1.4E-14 73.1 2.3 36 16-51 75-110 (114)
23 COG5194 APC11 Component of SCF 98.9 1.4E-09 3.1E-14 68.3 3.8 51 2-52 22-84 (88)
24 TIGR00599 rad18 DNA repair pro 98.9 7.8E-10 1.7E-14 88.6 3.1 46 1-50 27-72 (397)
25 KOG0287 Postreplication repair 98.8 1.4E-09 2.9E-14 84.9 1.6 46 1-50 24-69 (442)
26 KOG1493 Anaphase-promoting com 98.8 1.8E-09 3.8E-14 67.3 1.4 49 2-50 22-82 (84)
27 COG5574 PEX10 RING-finger-cont 98.6 1.7E-08 3.7E-13 76.3 2.3 46 2-51 217-264 (271)
28 COG5432 RAD18 RING-finger-cont 98.6 1.8E-08 3.8E-13 77.5 2.2 45 1-49 26-70 (391)
29 PF13445 zf-RING_UBOX: RING-ty 98.6 3.5E-08 7.6E-13 55.6 2.4 38 3-42 1-43 (43)
30 KOG2164 Predicted E3 ubiquitin 98.5 3.4E-08 7.3E-13 80.5 2.4 47 1-51 187-238 (513)
31 PF04564 U-box: U-box domain; 98.5 5.6E-08 1.2E-12 60.6 2.6 47 1-51 5-52 (73)
32 PF11793 FANCL_C: FANCL C-term 98.5 1.9E-08 4E-13 62.4 -0.1 50 1-50 3-67 (70)
33 smart00744 RINGv The RING-vari 98.5 1.6E-07 3.5E-12 54.3 3.5 42 2-45 1-49 (49)
34 KOG2177 Predicted E3 ubiquitin 98.5 6.1E-08 1.3E-12 72.4 1.8 41 1-45 14-54 (386)
35 COG5219 Uncharacterized conser 98.4 5E-08 1.1E-12 84.4 0.4 48 2-49 1471-1523(1525)
36 KOG0828 Predicted E3 ubiquitin 98.4 1.2E-07 2.7E-12 77.2 2.1 48 1-49 572-634 (636)
37 KOG1734 Predicted RING-contain 98.4 8.2E-08 1.8E-12 73.0 0.9 52 2-54 226-286 (328)
38 PF14835 zf-RING_6: zf-RING of 98.4 9.3E-08 2E-12 57.9 0.5 43 1-48 8-50 (65)
39 TIGR00570 cdk7 CDK-activating 98.3 4.1E-07 8.8E-12 70.8 3.3 49 2-51 5-56 (309)
40 KOG0311 Predicted E3 ubiquitin 98.3 1.1E-07 2.3E-12 74.7 -0.7 51 1-54 44-95 (381)
41 KOG0804 Cytoplasmic Zn-finger 98.2 3.7E-07 8E-12 73.6 1.5 44 2-48 177-221 (493)
42 KOG0827 Predicted E3 ubiquitin 98.2 5.5E-07 1.2E-11 71.5 2.3 47 2-48 6-55 (465)
43 KOG1039 Predicted E3 ubiquitin 98.1 1.3E-06 2.8E-11 69.1 2.5 49 2-50 163-222 (344)
44 KOG0824 Predicted E3 ubiquitin 98.1 1.6E-06 3.4E-11 67.0 1.8 47 2-52 9-56 (324)
45 KOG0978 E3 ubiquitin ligase in 98.1 1.1E-06 2.4E-11 74.5 1.1 46 1-50 644-690 (698)
46 KOG1645 RING-finger-containing 98.0 3.8E-06 8.3E-11 67.2 2.5 48 1-48 5-55 (463)
47 KOG4172 Predicted E3 ubiquitin 98.0 2E-06 4.3E-11 50.4 0.3 44 2-49 9-54 (62)
48 KOG4265 Predicted E3 ubiquitin 97.9 4.4E-06 9.5E-11 65.8 2.1 46 2-51 292-338 (349)
49 KOG2660 Locus-specific chromos 97.9 3.7E-06 8.1E-11 65.5 0.3 47 1-50 16-62 (331)
50 KOG0825 PHD Zn-finger protein 97.9 2.9E-06 6.3E-11 72.6 -0.3 50 2-52 125-174 (1134)
51 KOG1785 Tyrosine kinase negati 97.8 7.9E-06 1.7E-10 65.5 1.8 43 3-49 372-416 (563)
52 KOG4445 Uncharacterized conser 97.8 8.2E-06 1.8E-10 63.1 1.6 49 2-51 117-188 (368)
53 KOG4159 Predicted E3 ubiquitin 97.7 1.4E-05 3.1E-10 64.3 2.1 46 1-50 85-130 (398)
54 PF11789 zf-Nse: Zinc-finger o 97.7 2.1E-05 4.7E-10 46.8 1.7 40 1-43 12-53 (57)
55 COG5152 Uncharacterized conser 97.5 4.4E-05 9.5E-10 56.1 1.4 44 1-48 197-240 (259)
56 KOG1941 Acetylcholine receptor 97.5 7.8E-05 1.7E-09 59.7 2.7 48 1-49 366-416 (518)
57 KOG0297 TNF receptor-associate 97.5 5.6E-05 1.2E-09 60.9 1.9 49 1-52 22-70 (391)
58 PF05883 Baculo_RING: Baculovi 97.4 6.4E-05 1.4E-09 51.9 1.6 35 1-36 27-67 (134)
59 KOG2879 Predicted E3 ubiquitin 97.4 0.00013 2.9E-09 55.8 2.9 48 1-51 240-289 (298)
60 PF14570 zf-RING_4: RING/Ubox 97.4 0.00022 4.7E-09 41.0 3.0 45 3-48 1-47 (48)
61 KOG3970 Predicted E3 ubiquitin 97.4 0.00015 3.2E-09 54.3 3.0 48 2-51 52-107 (299)
62 KOG1002 Nucleotide excision re 97.2 0.00018 3.9E-09 59.7 1.5 46 2-51 538-588 (791)
63 KOG1952 Transcription factor N 97.2 0.00023 4.9E-09 61.6 2.1 48 1-48 192-246 (950)
64 KOG1813 Predicted E3 ubiquitin 97.0 0.00024 5.2E-09 54.9 0.6 45 1-49 242-286 (313)
65 KOG1814 Predicted E3 ubiquitin 96.9 0.00054 1.2E-08 55.1 2.0 45 1-46 185-237 (445)
66 KOG1428 Inhibitor of type V ad 96.7 0.00089 1.9E-08 61.3 2.2 46 3-49 3489-3544(3738)
67 KOG3268 Predicted E3 ubiquitin 96.7 0.0012 2.7E-08 47.8 2.5 31 21-51 189-230 (234)
68 KOG3039 Uncharacterized conser 96.7 0.0015 3.2E-08 49.6 3.1 49 2-50 223-271 (303)
69 PHA02862 5L protein; Provision 96.7 0.0017 3.7E-08 45.5 3.0 47 2-52 4-56 (156)
70 PHA03096 p28-like protein; Pro 96.7 0.0011 2.5E-08 51.3 2.2 44 2-45 180-230 (284)
71 PF08746 zf-RING-like: RING-li 96.7 0.00094 2E-08 37.4 1.3 39 3-44 1-43 (43)
72 COG5222 Uncharacterized conser 96.6 0.0016 3.5E-08 50.8 2.8 43 1-46 275-318 (427)
73 PF12906 RINGv: RING-variant d 96.4 0.0024 5.2E-08 36.4 1.8 41 3-44 1-47 (47)
74 PHA02825 LAP/PHD finger-like p 96.3 0.0037 8E-08 44.4 3.0 46 2-51 10-61 (162)
75 KOG4275 Predicted E3 ubiquitin 96.3 0.00067 1.4E-08 52.5 -1.0 39 3-49 303-342 (350)
76 KOG4739 Uncharacterized protei 96.3 0.0022 4.7E-08 48.3 1.6 48 2-53 5-52 (233)
77 PF14447 Prok-RING_4: Prokaryo 96.2 0.0024 5.3E-08 37.5 1.1 34 15-51 19-52 (55)
78 PF04641 Rtf2: Rtf2 RING-finge 96.2 0.0048 1E-07 47.1 3.0 49 1-50 114-162 (260)
79 KOG4185 Predicted E3 ubiquitin 96.1 0.0043 9.3E-08 47.9 2.5 47 1-48 4-54 (296)
80 KOG1940 Zn-finger protein [Gen 96.1 0.0038 8.3E-08 48.2 2.1 44 2-46 160-204 (276)
81 KOG4692 Predicted E3 ubiquitin 96.0 0.006 1.3E-07 48.6 2.9 45 2-50 424-468 (489)
82 COG5236 Uncharacterized conser 95.6 0.01 2.2E-07 47.3 2.8 48 2-53 63-112 (493)
83 KOG3002 Zn finger protein [Gen 95.6 0.0084 1.8E-07 46.9 2.3 44 1-50 49-92 (299)
84 KOG2114 Vacuolar assembly/sort 95.4 0.0092 2E-07 52.0 2.1 41 2-48 842-882 (933)
85 COG5175 MOT2 Transcriptional r 95.3 0.014 3E-07 46.4 2.6 47 3-50 17-65 (480)
86 KOG0826 Predicted E3 ubiquitin 95.2 0.0093 2E-07 46.9 1.4 43 2-47 302-344 (357)
87 KOG2932 E3 ubiquitin ligase in 95.2 0.0083 1.8E-07 47.0 1.1 30 16-48 104-133 (389)
88 PF05290 Baculo_IE-1: Baculovi 95.1 0.025 5.4E-07 39.2 3.2 48 2-51 82-134 (140)
89 KOG2817 Predicted E3 ubiquitin 95.0 0.019 4.2E-07 46.1 2.8 44 1-45 335-381 (394)
90 PF14446 Prok-RING_1: Prokaryo 95.0 0.023 5.1E-07 33.3 2.3 32 2-33 7-38 (54)
91 KOG1001 Helicase-like transcri 94.9 0.015 3.2E-07 50.1 1.9 49 1-54 455-505 (674)
92 KOG1571 Predicted E3 ubiquitin 94.9 0.012 2.5E-07 46.8 1.2 41 2-49 307-347 (355)
93 KOG0309 Conserved WD40 repeat- 94.3 0.024 5.2E-07 49.2 1.8 23 21-43 1047-1069(1081)
94 KOG2034 Vacuolar sorting prote 93.7 0.04 8.6E-07 48.4 1.9 32 2-35 819-850 (911)
95 KOG1812 Predicted E3 ubiquitin 93.4 0.033 7.1E-07 45.0 0.9 35 2-37 148-183 (384)
96 PF02891 zf-MIZ: MIZ/SP-RING z 93.4 0.045 9.8E-07 31.5 1.3 43 1-47 3-50 (50)
97 KOG3053 Uncharacterized conser 93.2 0.042 9.2E-07 42.0 1.2 48 3-51 23-84 (293)
98 KOG0298 DEAD box-containing he 93.0 0.031 6.7E-07 50.8 0.3 43 2-47 1155-1197(1394)
99 KOG0827 Predicted E3 ubiquitin 92.9 0.0057 1.2E-07 49.2 -4.0 46 3-49 199-245 (465)
100 KOG4718 Non-SMC (structural ma 92.9 0.068 1.5E-06 39.8 1.9 45 2-49 183-227 (235)
101 PF10272 Tmpp129: Putative tra 92.8 0.077 1.7E-06 42.5 2.2 29 22-50 311-352 (358)
102 PF03854 zf-P11: P-11 zinc fin 92.4 0.049 1.1E-06 31.1 0.4 28 22-49 18-46 (50)
103 KOG3800 Predicted E3 ubiquitin 92.3 0.15 3.2E-06 39.6 3.2 47 2-49 2-51 (300)
104 KOG4362 Transcriptional regula 92.0 0.044 9.6E-07 47.0 -0.0 45 1-49 22-69 (684)
105 PF07800 DUF1644: Protein of u 92.0 0.15 3.3E-06 36.3 2.6 32 1-35 3-46 (162)
106 KOG3161 Predicted E3 ubiquitin 91.7 0.064 1.4E-06 45.9 0.6 40 1-42 12-51 (861)
107 COG5220 TFB3 Cdk activating ki 91.4 0.064 1.4E-06 40.8 0.3 48 2-49 12-64 (314)
108 PF07975 C1_4: TFIIH C1-like d 90.9 0.21 4.5E-06 29.0 2.0 43 3-45 2-50 (51)
109 KOG4367 Predicted Zn-finger pr 90.8 0.16 3.4E-06 41.9 2.0 32 1-36 5-36 (699)
110 KOG1100 Predicted E3 ubiquitin 89.0 0.17 3.7E-06 37.5 0.8 39 3-49 161-200 (207)
111 PF06906 DUF1272: Protein of u 88.6 0.69 1.5E-05 27.3 3.0 44 3-50 8-53 (57)
112 PF14569 zf-UDP: Zinc-binding 87.7 0.81 1.8E-05 28.8 3.1 52 2-53 11-66 (80)
113 KOG3899 Uncharacterized conser 87.4 0.38 8.3E-06 37.7 1.8 29 22-50 325-366 (381)
114 smart00249 PHD PHD zinc finger 87.2 0.51 1.1E-05 25.3 1.8 31 2-33 1-31 (47)
115 COG5183 SSM4 Protein involved 87.1 0.69 1.5E-05 40.9 3.3 52 2-55 14-72 (1175)
116 PF10571 UPF0547: Uncharacteri 86.9 0.32 7E-06 24.2 0.8 23 2-26 2-24 (26)
117 KOG1609 Protein involved in mR 86.8 0.38 8.3E-06 36.9 1.6 50 2-51 80-136 (323)
118 KOG1815 Predicted E3 ubiquitin 86.5 0.46 1E-05 39.0 2.0 33 2-37 72-104 (444)
119 KOG0825 PHD Zn-finger protein 85.6 0.41 9E-06 42.1 1.3 48 2-49 98-154 (1134)
120 COG5109 Uncharacterized conser 85.3 0.59 1.3E-05 37.0 2.0 44 1-45 337-383 (396)
121 KOG1812 Predicted E3 ubiquitin 84.7 0.48 1E-05 38.3 1.3 42 2-44 308-351 (384)
122 KOG0269 WD40 repeat-containing 84.6 0.59 1.3E-05 40.8 1.8 40 2-43 781-820 (839)
123 KOG1829 Uncharacterized conser 84.4 0.45 9.8E-06 40.4 1.0 28 16-46 531-558 (580)
124 PF00628 PHD: PHD-finger; Int 84.3 0.53 1.2E-05 26.5 1.0 43 2-45 1-49 (51)
125 KOG2068 MOT2 transcription fac 83.7 1.3 2.8E-05 35.1 3.2 48 2-50 251-299 (327)
126 PF13901 DUF4206: Domain of un 83.3 0.95 2.1E-05 33.3 2.2 38 2-45 154-196 (202)
127 PF13719 zinc_ribbon_5: zinc-r 82.2 0.59 1.3E-05 25.0 0.6 13 2-14 4-16 (37)
128 KOG0802 E3 ubiquitin ligase [P 81.3 0.88 1.9E-05 38.3 1.6 43 2-52 481-523 (543)
129 KOG3113 Uncharacterized conser 81.1 1.4 3E-05 33.9 2.4 48 2-51 113-160 (293)
130 TIGR00622 ssl1 transcription f 79.1 1.9 4E-05 29.1 2.3 43 3-45 58-110 (112)
131 KOG3579 Predicted E3 ubiquitin 77.4 0.95 2.1E-05 35.4 0.6 37 1-38 269-306 (352)
132 PF13717 zinc_ribbon_4: zinc-r 77.4 1.1 2.5E-05 23.8 0.7 27 1-27 3-36 (36)
133 PLN02638 cellulose synthase A 76.5 3.6 7.9E-05 37.5 4.0 50 2-51 19-72 (1079)
134 smart00132 LIM Zinc-binding do 76.2 2 4.3E-05 22.0 1.5 36 3-48 2-37 (39)
135 PLN02189 cellulose synthase 75.4 4 8.7E-05 37.1 3.9 50 2-51 36-89 (1040)
136 PLN02436 cellulose synthase A 73.7 4.6 0.0001 36.8 3.9 50 2-51 38-91 (1094)
137 PLN02400 cellulose synthase 73.7 4 8.6E-05 37.3 3.5 50 2-51 38-91 (1085)
138 KOG3005 GIY-YIG type nuclease 72.5 2.5 5.5E-05 32.6 1.8 47 2-48 184-242 (276)
139 PF00412 LIM: LIM domain; Int 70.1 2.4 5.2E-05 24.1 1.0 39 3-51 1-39 (58)
140 KOG2066 Vacuolar assembly/sort 70.0 2 4.3E-05 37.8 0.8 40 3-44 787-830 (846)
141 KOG0824 Predicted E3 ubiquitin 69.2 1.2 2.6E-05 35.0 -0.6 45 3-50 108-152 (324)
142 PF05605 zf-Di19: Drought indu 68.7 3.2 6.8E-05 23.8 1.3 36 1-47 3-40 (54)
143 PF04710 Pellino: Pellino; In 68.6 1.6 3.5E-05 35.5 0.0 33 17-50 361-402 (416)
144 PF07649 C1_3: C1-like domain; 68.3 4.9 0.00011 20.1 1.8 29 2-31 2-30 (30)
145 KOG3842 Adaptor protein Pellin 67.8 5.1 0.00011 31.9 2.6 32 18-50 375-415 (429)
146 KOG2807 RNA polymerase II tran 67.4 3.2 6.9E-05 33.1 1.4 42 3-45 333-374 (378)
147 COG3813 Uncharacterized protei 67.3 7.7 0.00017 24.2 2.8 47 3-51 8-54 (84)
148 PF01363 FYVE: FYVE zinc finge 66.4 2.4 5.2E-05 25.3 0.5 34 2-35 11-44 (69)
149 PF07191 zinc-ribbons_6: zinc- 66.3 0.46 1E-05 29.3 -2.7 42 1-51 2-43 (70)
150 PF06844 DUF1244: Protein of u 65.5 3.9 8.5E-05 24.9 1.2 12 25-36 11-22 (68)
151 KOG2789 Putative Zn-finger pro 63.9 2.9 6.3E-05 34.2 0.6 32 1-34 75-106 (482)
152 smart00647 IBR In Between Ring 63.7 1.8 4E-05 25.1 -0.4 19 16-34 40-58 (64)
153 cd00065 FYVE FYVE domain; Zinc 63.2 4.9 0.00011 22.9 1.4 34 2-35 4-37 (57)
154 PRK05978 hypothetical protein; 62.7 6 0.00013 27.9 1.9 32 18-54 35-68 (148)
155 PF04216 FdhE: Protein involve 62.4 1.1 2.4E-05 34.6 -1.9 42 2-46 174-219 (290)
156 PLN02915 cellulose synthase A 61.4 7.5 0.00016 35.5 2.7 49 2-50 17-69 (1044)
157 PF04710 Pellino: Pellino; In 60.2 2.9 6.3E-05 34.1 0.0 28 16-47 304-337 (416)
158 PLN02248 cellulose synthase-li 60.0 12 0.00027 34.4 3.8 30 21-50 149-178 (1135)
159 PF11023 DUF2614: Protein of u 60.0 8.4 0.00018 26.0 2.2 32 16-53 69-100 (114)
160 PLN02195 cellulose synthase A 59.0 9.6 0.00021 34.6 2.9 48 2-49 8-59 (977)
161 PRK11088 rrmA 23S rRNA methylt 59.0 6.3 0.00014 29.9 1.7 25 1-26 3-27 (272)
162 KOG3039 Uncharacterized conser 58.5 4.9 0.00011 30.9 0.9 30 3-36 46-75 (303)
163 PF14311 DUF4379: Domain of un 55.4 8.4 0.00018 22.1 1.4 24 20-44 32-55 (55)
164 KOG4323 Polycomb-like PHD Zn-f 55.0 5.4 0.00012 33.2 0.8 50 1-50 169-227 (464)
165 PF14353 CpXC: CpXC protein 54.0 14 0.00031 24.7 2.7 46 1-50 2-50 (128)
166 smart00064 FYVE Protein presen 53.5 9.2 0.0002 22.6 1.4 34 2-35 12-45 (68)
167 PF04423 Rad50_zn_hook: Rad50 52.0 5.6 0.00012 22.8 0.3 11 40-50 22-32 (54)
168 KOG2979 Protein involved in DN 51.6 7.8 0.00017 29.8 1.1 40 2-44 178-219 (262)
169 KOG2041 WD40 repeat protein [G 50.9 9.3 0.0002 33.9 1.5 29 18-50 1158-1186(1189)
170 PF10083 DUF2321: Uncharacteri 48.4 10 0.00023 27.0 1.2 43 5-50 9-51 (158)
171 PF10497 zf-4CXXC_R1: Zinc-fin 47.3 18 0.00039 23.9 2.2 24 23-46 37-69 (105)
172 PF13832 zf-HC5HC2H_2: PHD-zin 46.6 11 0.00024 24.5 1.1 29 2-33 57-87 (110)
173 KOG2231 Predicted E3 ubiquitin 46.6 24 0.00052 30.8 3.3 47 2-52 2-55 (669)
174 KOG3799 Rab3 effector RIM1 and 46.5 9.7 0.00021 26.6 0.8 39 2-48 67-117 (169)
175 KOG1815 Predicted E3 ubiquitin 46.4 5.4 0.00012 32.7 -0.5 36 2-37 228-267 (444)
176 PF09943 DUF2175: Uncharacteri 46.1 16 0.00035 24.1 1.8 32 2-35 4-35 (101)
177 PRK03564 formate dehydrogenase 45.1 12 0.00026 29.6 1.2 43 2-46 189-234 (309)
178 PF02318 FYVE_2: FYVE-type zin 45.1 12 0.00026 25.0 1.1 44 2-46 56-102 (118)
179 PF07282 OrfB_Zn_ribbon: Putat 45.1 15 0.00031 21.8 1.4 10 39-48 47-56 (69)
180 TIGR01562 FdhE formate dehydro 44.2 4.9 0.00011 31.6 -1.0 44 2-46 186-232 (305)
181 COG3492 Uncharacterized protei 43.2 15 0.00032 23.9 1.2 13 25-37 42-54 (104)
182 PF06937 EURL: EURL protein; 42.9 21 0.00046 27.7 2.3 43 2-44 32-76 (285)
183 TIGR02098 MJ0042_CXXC MJ0042 f 41.1 17 0.00038 18.9 1.2 9 40-48 27-35 (38)
184 PF03107 C1_2: C1 domain; Int 40.6 17 0.00036 18.2 1.0 28 2-30 2-29 (30)
185 PF09723 Zn-ribbon_8: Zinc rib 40.4 5.5 0.00012 21.7 -0.9 26 20-46 9-34 (42)
186 PF03966 Trm112p: Trm112p-like 39.9 19 0.00041 21.6 1.3 9 40-48 55-63 (68)
187 PF05191 ADK_lid: Adenylate ki 39.9 13 0.00027 19.8 0.5 30 18-49 3-32 (36)
188 PF13771 zf-HC5HC2H: PHD-like 39.7 14 0.0003 23.0 0.7 31 2-33 38-68 (90)
189 PRK11827 hypothetical protein; 39.7 12 0.00027 22.3 0.5 19 33-51 3-21 (60)
190 smart00531 TFIIE Transcription 39.6 28 0.0006 24.1 2.3 37 15-51 98-136 (147)
191 COG5627 MMS21 DNA repair prote 39.2 13 0.00029 28.4 0.6 39 2-43 191-231 (275)
192 KOG2113 Predicted RNA binding 38.0 28 0.0006 27.8 2.3 30 17-49 357-387 (394)
193 KOG1245 Chromatin remodeling c 37.9 13 0.00028 35.2 0.5 46 2-48 1110-1159(1404)
194 PF14169 YdjO: Cold-inducible 36.4 18 0.0004 21.5 0.8 13 38-50 39-51 (59)
195 PF01485 IBR: IBR domain; Int 34.5 4.7 0.0001 23.2 -2.0 14 21-34 45-58 (64)
196 PF09889 DUF2116: Uncharacteri 34.2 25 0.00054 20.9 1.2 14 37-50 2-15 (59)
197 PF06750 DiS_P_DiS: Bacterial 33.9 44 0.00095 21.4 2.4 30 21-50 38-70 (92)
198 PF03832 WSK: WSK motif; Inte 33.8 39 0.00085 17.4 1.7 19 95-113 6-24 (31)
199 COG4847 Uncharacterized protei 33.8 33 0.00071 22.5 1.7 32 2-35 8-39 (103)
200 PF10146 zf-C4H2: Zinc finger- 33.3 38 0.00083 25.5 2.3 27 26-52 196-222 (230)
201 cd00350 rubredoxin_like Rubred 33.2 30 0.00064 17.7 1.2 10 38-47 17-26 (33)
202 KOG1729 FYVE finger containing 32.9 7.1 0.00015 30.5 -1.7 11 26-36 216-226 (288)
203 COG1645 Uncharacterized Zn-fin 32.7 25 0.00055 24.3 1.2 20 29-48 33-54 (131)
204 PF08274 PhnA_Zn_Ribbon: PhnA 32.5 24 0.00052 18.0 0.8 8 3-10 5-12 (30)
205 TIGR00686 phnA alkylphosphonat 32.2 25 0.00053 23.6 1.0 13 39-51 20-32 (109)
206 cd00729 rubredoxin_SM Rubredox 31.5 31 0.00067 17.9 1.1 9 39-47 19-27 (34)
207 COG2816 NPY1 NTP pyrophosphohy 31.4 12 0.00027 29.1 -0.6 29 23-51 110-142 (279)
208 smart00734 ZnF_Rad18 Rad18-lik 31.1 23 0.00049 17.3 0.6 9 2-10 3-11 (26)
209 PRK02935 hypothetical protein; 30.5 68 0.0015 21.4 2.9 31 17-53 71-101 (110)
210 PF09986 DUF2225: Uncharacteri 30.3 13 0.00028 27.6 -0.6 13 1-13 6-18 (214)
211 PRK06266 transcription initiat 30.2 65 0.0014 23.2 3.0 33 16-51 117-149 (178)
212 KOG1973 Chromatin remodeling p 30.0 10 0.00022 29.2 -1.2 28 21-48 239-269 (274)
213 KOG4451 Uncharacterized conser 29.9 45 0.00097 25.5 2.1 26 26-51 251-276 (286)
214 PRK04023 DNA polymerase II lar 29.7 31 0.00067 31.7 1.5 42 2-49 628-674 (1121)
215 KOG3816 Cell differentiation r 29.7 25 0.00055 28.9 0.9 26 5-34 93-118 (526)
216 KOG2071 mRNA cleavage and poly 29.5 20 0.00043 30.7 0.2 33 2-35 515-557 (579)
217 KOG2846 Predicted membrane pro 29.3 65 0.0014 25.7 3.1 14 38-51 242-255 (328)
218 PF09538 FYDLN_acid: Protein o 29.3 31 0.00067 23.0 1.1 28 18-51 11-39 (108)
219 cd04718 BAH_plant_2 BAH, or Br 29.0 19 0.0004 25.5 0.0 23 26-48 2-28 (148)
220 PF05715 zf-piccolo: Piccolo Z 28.4 44 0.00096 19.9 1.5 10 39-48 3-12 (61)
221 COG1592 Rubrerythrin [Energy p 28.3 19 0.00041 25.9 -0.1 25 16-47 134-158 (166)
222 COG4357 Zinc finger domain con 28.0 65 0.0014 21.2 2.4 28 22-50 65-92 (105)
223 COG1545 Predicted nucleic-acid 27.9 32 0.0007 23.8 1.1 23 18-48 31-53 (140)
224 PF03884 DUF329: Domain of unk 27.7 32 0.00068 20.3 0.8 11 40-50 4-14 (57)
225 PRK00418 DNA gyrase inhibitor; 27.7 48 0.001 19.9 1.6 11 39-49 7-17 (62)
226 PRK10220 hypothetical protein; 27.6 39 0.00086 22.6 1.4 13 39-51 21-33 (111)
227 PF10235 Cript: Microtubule-as 27.5 49 0.0011 21.4 1.8 24 23-50 58-81 (90)
228 PRK01343 zinc-binding protein; 27.3 35 0.00076 20.1 1.0 12 38-49 9-20 (57)
229 TIGR00373 conserved hypothetic 26.9 75 0.0016 22.3 2.8 32 17-51 110-141 (158)
230 KOG2907 RNA polymerase I trans 26.8 31 0.00067 23.3 0.8 32 18-49 76-113 (116)
231 PF03119 DNA_ligase_ZBD: NAD-d 26.7 33 0.00071 17.0 0.7 11 40-50 1-11 (28)
232 KOG4021 Mitochondrial ribosoma 26.4 36 0.00079 25.3 1.1 23 28-50 97-120 (239)
233 COG3357 Predicted transcriptio 26.4 31 0.00066 22.5 0.7 29 21-53 63-91 (97)
234 smart00109 C1 Protein kinase C 26.4 64 0.0014 17.0 2.0 32 2-33 13-44 (49)
235 PRK00420 hypothetical protein; 26.1 48 0.001 22.3 1.6 13 38-50 40-52 (112)
236 KOG4443 Putative transcription 25.6 35 0.00075 29.8 1.0 26 21-46 40-70 (694)
237 KOG3726 Uncharacterized conser 25.3 40 0.00087 29.6 1.4 40 2-45 656-696 (717)
238 COG4306 Uncharacterized protei 25.1 47 0.001 23.0 1.4 22 25-49 29-50 (160)
239 PRK11595 DNA utilization prote 25.0 60 0.0013 24.0 2.1 38 2-48 7-44 (227)
240 PF15353 HECA: Headcase protei 24.7 51 0.0011 22.0 1.5 14 22-35 40-53 (107)
241 KOG2462 C2H2-type Zn-finger pr 24.5 30 0.00064 26.9 0.4 11 39-49 216-226 (279)
242 PF15446 zf-PHD-like: PHD/FYVE 24.1 49 0.0011 24.0 1.4 32 2-34 1-35 (175)
243 COG0675 Transposase and inacti 24.0 46 0.00099 25.2 1.4 11 38-48 322-332 (364)
244 PF06676 DUF1178: Protein of u 24.0 23 0.00051 24.9 -0.2 23 22-49 10-43 (148)
245 KOG1244 Predicted transcriptio 23.8 17 0.00036 28.4 -1.0 45 3-48 284-332 (336)
246 KOG0956 PHD finger protein AF1 23.5 64 0.0014 28.6 2.2 28 18-46 43-70 (900)
247 PRK14559 putative protein seri 23.3 55 0.0012 28.5 1.8 9 2-10 3-11 (645)
248 COG0777 AccD Acetyl-CoA carbox 22.8 29 0.00062 27.2 0.0 31 15-48 27-57 (294)
249 smart00661 RPOL9 RNA polymeras 22.5 69 0.0015 17.6 1.6 9 39-47 21-29 (52)
250 PF06467 zf-FCS: MYM-type Zinc 22.4 71 0.0015 16.8 1.6 32 2-33 8-42 (43)
251 PF06170 DUF983: Protein of un 22.0 60 0.0013 20.6 1.4 21 33-53 3-23 (86)
252 TIGR01206 lysW lysine biosynth 21.5 67 0.0015 18.6 1.4 13 40-52 24-36 (54)
253 COG2835 Uncharacterized conser 21.3 53 0.0011 19.6 1.0 12 40-51 10-21 (60)
254 PF09237 GAGA: GAGA factor; I 21.2 30 0.00065 20.1 -0.1 10 40-49 26-35 (54)
255 KOG4430 Topoisomerase I-bindin 21.1 45 0.00099 28.5 0.9 52 2-53 262-313 (553)
256 PF13248 zf-ribbon_3: zinc-rib 20.8 16 0.00035 17.7 -1.1 7 40-46 18-24 (26)
257 PF09297 zf-NADH-PPase: NADH p 20.8 12 0.00027 18.9 -1.6 6 40-45 23-28 (32)
258 PF12773 DZR: Double zinc ribb 20.8 91 0.002 17.0 1.9 12 38-49 29-40 (50)
259 PF07227 DUF1423: Protein of u 20.5 67 0.0014 26.8 1.7 30 3-33 131-163 (446)
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=99.60 E-value=2.3e-16 Score=89.51 Aligned_cols=43 Identities=47% Similarity=1.224 Sum_probs=39.8
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 45 (129)
+|+||++.|...+.+..++ |+|.||..||..|++.+.+||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhCCcCCccC
Confidence 6999999999888889999 999999999999999999999997
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.56 E-value=9.1e-15 Score=114.53 Aligned_cols=50 Identities=38% Similarity=1.097 Sum_probs=45.1
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCC-CCCccCccccccC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS-TCPLCRTPVELVT 52 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~-~CP~Cr~~~~~~~ 52 (129)
+|+||+|+|..++++++|| |+|.||..||++||.... .||+|+..+....
T Consensus 231 ~CaIClEdY~~GdklRiLP-C~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~ 281 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILP-CSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDS 281 (348)
T ss_pred eEEEeecccccCCeeeEec-CCCchhhccchhhHhhcCccCCCCCCcCCCCC
Confidence 7999999999999999999 999999999999998875 5999998765443
No 3
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=99.39 E-value=2.3e-13 Score=85.22 Aligned_cols=43 Identities=42% Similarity=1.020 Sum_probs=34.1
Q ss_pred ccccccccccCC----------CcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041 2 DCAVCLSEFEEN----------ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45 (129)
Q Consensus 2 ~C~IC~~~~~~~----------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 45 (129)
.|+||++.|..+ ..+...+ |||.||..||..||+.+.+||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~-C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGP-CGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEET-TSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecc-cCCCEEHHHHHHHHhcCCcCCCCC
Confidence 599999999432 1233445 999999999999999999999997
No 4
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.39 E-value=5.3e-13 Score=104.80 Aligned_cols=51 Identities=33% Similarity=0.952 Sum_probs=42.3
Q ss_pred ccccccccccCC----------CcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccCC
Q 033041 2 DCAVCLSEFEEN----------ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTA 53 (129)
Q Consensus 2 ~C~IC~~~~~~~----------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 53 (129)
.|.||++++-.+ ...+.+| |||.||.+|++.|++++.+||+||.++.....
T Consensus 289 ~C~ICmde~~h~~~~~~~~~~~~~pKrLp-CGHilHl~CLknW~ERqQTCPICr~p~ifd~~ 349 (491)
T COG5243 289 TCTICMDEMFHPDHEPLPRGLDMTPKRLP-CGHILHLHCLKNWLERQQTCPICRRPVIFDQS 349 (491)
T ss_pred eEEEecccccCCCCccCcccccCCccccc-ccceeeHHHHHHHHHhccCCCcccCccccccC
Confidence 699999995432 2356788 99999999999999999999999999765443
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.34 E-value=4.6e-13 Score=102.72 Aligned_cols=48 Identities=48% Similarity=1.259 Sum_probs=43.9
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHh-CCCCCCccCcccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-SHSTCPLCRTPVE 49 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~ 49 (129)
.+|+|||+.|...+.++++| |+|.||..|+.+|+. ....||+||.++.
T Consensus 324 veCaICms~fiK~d~~~vlP-C~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLP-CDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred ceEEEEhhhhcccceEEEec-cCceechhHHHHHHhhhcccCCccCCCCC
Confidence 48999999999999999999 999999999999998 4678999998874
No 6
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.29 E-value=2.2e-12 Score=97.01 Aligned_cols=51 Identities=43% Similarity=0.992 Sum_probs=41.0
Q ss_pred CccccccccccCCCc----ceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 1 MDCAVCLSEFEENES----GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~----~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
.+|+||++.+..+.. ..+++.|+|.||..||..|+..+.+||+||..+...
T Consensus 175 ~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~~~v 229 (238)
T PHA02929 175 KECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPFISV 229 (238)
T ss_pred CCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEeeEE
Confidence 379999998765431 234445999999999999999999999999987643
No 7
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.25 E-value=9.6e-12 Score=90.51 Aligned_cols=46 Identities=33% Similarity=0.855 Sum_probs=38.5
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----------------CCCCCccCccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----------------HSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----------------~~~CP~Cr~~~~~ 50 (129)
++|+||++.+..+ .+++ |||.||..||..|+.. ...||+||..+..
T Consensus 19 ~~CpICld~~~dP---VvT~-CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~ 80 (193)
T PLN03208 19 FDCNICLDQVRDP---VVTL-CGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSE 80 (193)
T ss_pred cCCccCCCcCCCc---EEcC-CCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCCh
Confidence 5799999998776 6666 9999999999999852 2479999998854
No 8
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=4.7e-12 Score=93.87 Aligned_cols=47 Identities=30% Similarity=0.839 Sum_probs=39.3
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC---CCCCCccCcccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRTPVELV 51 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~ 51 (129)
++|.|||+.-.++ ++.. |||.||+.||.+||+. .+.||+|+..+...
T Consensus 48 FdCNICLd~akdP---VvTl-CGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~ 97 (230)
T KOG0823|consen 48 FDCNICLDLAKDP---VVTL-CGHLFCWPCLYQWLQTRPNSKECPVCKAEVSID 97 (230)
T ss_pred eeeeeeccccCCC---EEee-cccceehHHHHHHHhhcCCCeeCCccccccccc
Confidence 5899999997776 6666 9999999999999976 34689999987543
No 9
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=99.18 E-value=1.8e-11 Score=78.17 Aligned_cols=50 Identities=32% Similarity=0.881 Sum_probs=37.7
Q ss_pred ccccccccccCC---------CcceEeCCCCChhhHHhHHHHHhC---CCCCCccCcccccc
Q 033041 2 DCAVCLSEFEEN---------ESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~---------~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~ 51 (129)
.|+||+..|+.. +...++..|+|.||.+||.+||.+ +..||+||.++...
T Consensus 23 ~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~~k 84 (85)
T PF12861_consen 23 VCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWKFK 84 (85)
T ss_pred ceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeeeeC
Confidence 588999888621 112233359999999999999975 46899999988653
No 10
>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=99.17 E-value=3.1e-11 Score=67.16 Aligned_cols=44 Identities=55% Similarity=1.296 Sum_probs=35.5
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPV 48 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~ 48 (129)
+|+||++.+.. .....+ |+|.||..|+..|+.. ...||+|+..+
T Consensus 1 ~C~iC~~~~~~--~~~~~~-C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFRE--PVVLLP-CGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhhC--ceEecC-CCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 59999999833 334444 9999999999999987 67899998753
No 11
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.15 E-value=2.3e-11 Score=67.09 Aligned_cols=39 Identities=38% Similarity=1.054 Sum_probs=31.9
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCcc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC 44 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C 44 (129)
|+||++.+.++ +..++ |||.||..|+..|++.+..||+|
T Consensus 1 C~iC~~~~~~~--~~~~~-CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDP--VVVTP-CGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSE--EEECT-TSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccCc--CEECC-CCCchhHHHHHHHHHCcCCCcCC
Confidence 89999998773 34555 99999999999999998899998
No 12
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.15 E-value=2.3e-11 Score=68.34 Aligned_cols=38 Identities=37% Similarity=1.007 Sum_probs=29.7
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhCC----CCCCcc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH----STCPLC 44 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~----~~CP~C 44 (129)
|+||++.|..+ +.++ |||.||..||..|++.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~-CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLP-CGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-S-SSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccC-CcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999998 7777 99999999999999753 369987
No 13
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.15 E-value=3.1e-11 Score=70.03 Aligned_cols=45 Identities=31% Similarity=0.905 Sum_probs=37.9
Q ss_pred CccccccccccCCCcceEeCCCCCh-hhHHhHHHHHhCCCCCCccCcccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHS-FHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~-Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
..|.||++.+.. +..+| |||. ||..|+..|+.....||+||+++.
T Consensus 3 ~~C~iC~~~~~~---~~~~p-CgH~~~C~~C~~~~~~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 3 EECPICFENPRD---VVLLP-CGHLCFCEECAERLLKRKKKCPICRQPIE 48 (50)
T ss_dssp SB-TTTSSSBSS---EEEET-TCEEEEEHHHHHHHHHTTSBBTTTTBB-S
T ss_pred CCCccCCccCCc---eEEeC-CCChHHHHHHhHHhcccCCCCCcCChhhc
Confidence 369999998654 47788 9999 999999999999999999999875
No 14
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=4.4e-11 Score=91.19 Aligned_cols=46 Identities=33% Similarity=0.845 Sum_probs=40.5
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
-|.+|++....+ ..+| |||+||..||..|......||+||..+.+.
T Consensus 241 kC~LCLe~~~~p---SaTp-CGHiFCWsCI~~w~~ek~eCPlCR~~~~ps 286 (293)
T KOG0317|consen 241 KCSLCLENRSNP---SATP-CGHIFCWSCILEWCSEKAECPLCREKFQPS 286 (293)
T ss_pred ceEEEecCCCCC---CcCc-CcchHHHHHHHHHHccccCCCcccccCCCc
Confidence 499999998777 6778 999999999999999988999999987643
No 15
>PHA02926 zinc finger-like protein; Provisional
Probab=99.06 E-value=1.2e-10 Score=86.12 Aligned_cols=51 Identities=31% Similarity=0.841 Sum_probs=38.6
Q ss_pred CccccccccccCC-----CcceEeCCCCChhhHHhHHHHHhCC------CCCCccCcccccc
Q 033041 1 MDCAVCLSEFEEN-----ESGRVLPGCNHSFHIGCIDMWFHSH------STCPLCRTPVELV 51 (129)
Q Consensus 1 ~~C~IC~~~~~~~-----~~~~~lp~C~H~Fh~~Ci~~wl~~~------~~CP~Cr~~~~~~ 51 (129)
.+|+||++.+..+ ....+++.|+|.||..||..|...+ ..||+||..+...
T Consensus 171 ~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~~I 232 (242)
T PHA02926 171 KECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFRNI 232 (242)
T ss_pred CCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceeeee
Confidence 3799999986432 1234565699999999999999752 3599999987654
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.03 E-value=1.2e-10 Score=83.42 Aligned_cols=48 Identities=29% Similarity=0.704 Sum_probs=39.9
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
-|+|||+.+..... +-.+|||+||..||+..++....||+|++.+..+
T Consensus 133 ~CPiCl~~~sek~~--vsTkCGHvFC~~Cik~alk~~~~CP~C~kkIt~k 180 (187)
T KOG0320|consen 133 KCPICLDSVSEKVP--VSTKCGHVFCSQCIKDALKNTNKCPTCRKKITHK 180 (187)
T ss_pred CCCceecchhhccc--cccccchhHHHHHHHHHHHhCCCCCCcccccchh
Confidence 59999999876522 3235999999999999999999999999877654
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.01 E-value=3.7e-10 Score=63.87 Aligned_cols=44 Identities=27% Similarity=0.809 Sum_probs=36.2
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT 46 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 46 (129)
.|+||++.|.......+++ |||+||..|+..+......||+|++
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 5999999995444556666 9999999999998855678999974
No 18
>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=99.00 E-value=3.8e-10 Score=67.95 Aligned_cols=45 Identities=24% Similarity=0.613 Sum_probs=40.3
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
+.|+||++.|..+ .+++ |||+|+..||..|+..+..||+|+.++.
T Consensus 2 ~~Cpi~~~~~~~P---v~~~-~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP---VILP-SGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC---EECC-CCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 4699999999887 6777 9999999999999988889999998774
No 19
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.00 E-value=2.2e-10 Score=63.53 Aligned_cols=39 Identities=44% Similarity=1.180 Sum_probs=32.9
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHh--CCCCCCcc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH--SHSTCPLC 44 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~C 44 (129)
|+||++.+..+. ..++ |||.||..||..|+. ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~-C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLP-CGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETT-TSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEec-CCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999987762 3566 999999999999998 45679988
No 20
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.97 E-value=2.6e-10 Score=94.81 Aligned_cols=47 Identities=40% Similarity=1.003 Sum_probs=41.3
Q ss_pred ccccccccccCCCc--ceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041 2 DCAVCLSEFEENES--GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~~~~~~--~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
.|+||++.+..+.. .+.++ |+|+||..|+..|+++..+||+||..+.
T Consensus 293 ~C~IC~e~l~~~~~~~~~rL~-C~Hifh~~CL~~W~er~qtCP~CR~~~~ 341 (543)
T KOG0802|consen 293 LCIICLEELHSGHNITPKRLP-CGHIFHDSCLRSWFERQQTCPTCRTVLY 341 (543)
T ss_pred eeeeechhhccccccccceee-cccchHHHHHHHHHHHhCcCCcchhhhh
Confidence 69999999987543 57888 9999999999999999999999999543
No 21
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=98.94 E-value=1.2e-09 Score=58.62 Aligned_cols=38 Identities=45% Similarity=1.239 Sum_probs=31.7
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHh-CCCCCCcc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-SHSTCPLC 44 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~C 44 (129)
|+||++... ....++ |+|.||..|+..|+. ....||+|
T Consensus 1 C~iC~~~~~---~~~~~~-C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELK---DPVVLP-CGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCC---CcEEec-CCChHHHHHHHHHHHhCcCCCCCC
Confidence 789999843 346777 999999999999998 56679987
No 22
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=6.3e-10 Score=73.05 Aligned_cols=36 Identities=31% Similarity=0.707 Sum_probs=30.7
Q ss_pred ceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 16 GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 16 ~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
+.....|+|.||.+||..||+.+..||+|.+++...
T Consensus 75 ~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW~~q 110 (114)
T KOG2930|consen 75 TVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEWVFQ 110 (114)
T ss_pred EEEeeecchHHHHHHHHHHHhhcCcCCCcCcceeEe
Confidence 333445999999999999999999999999988764
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=1.4e-09 Score=68.27 Aligned_cols=51 Identities=33% Similarity=0.688 Sum_probs=37.9
Q ss_pred cccccccccc-----------CCCc-ceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccC
Q 033041 2 DCAVCLSEFE-----------ENES-GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT 52 (129)
Q Consensus 2 ~C~IC~~~~~-----------~~~~-~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 52 (129)
.|+||...|. .++. ......|+|.||.+||.+||..+..||+++..+....
T Consensus 22 ~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w~~~~ 84 (88)
T COG5194 22 VCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTWVLAD 84 (88)
T ss_pred hhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCceeEEec
Confidence 4777777653 2222 2223349999999999999999999999999987643
No 24
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.90 E-value=7.8e-10 Score=88.61 Aligned_cols=46 Identities=28% Similarity=0.723 Sum_probs=40.4
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
+.|+||++.|..+ ++++ |||.||..||..|+.....||+|+..+..
T Consensus 27 l~C~IC~d~~~~P---vitp-CgH~FCs~CI~~~l~~~~~CP~Cr~~~~~ 72 (397)
T TIGR00599 27 LRCHICKDFFDVP---VLTS-CSHTFCSLCIRRCLSNQPKCPLCRAEDQE 72 (397)
T ss_pred cCCCcCchhhhCc---cCCC-CCCchhHHHHHHHHhCCCCCCCCCCcccc
Confidence 5799999999877 5667 99999999999999888889999997743
No 25
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.82 E-value=1.4e-09 Score=84.95 Aligned_cols=46 Identities=28% Similarity=0.768 Sum_probs=41.9
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
+.|.||++.|..+ .+.| |+|.||..||..+|..+..||.|+.++.+
T Consensus 24 LRC~IC~eyf~ip---~itp-CsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 24 LRCGICFEYFNIP---MITP-CSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHhHHHHHhcCc---eecc-ccchHHHHHHHHHhccCCCCCceecccch
Confidence 4699999999998 7888 99999999999999999999999987743
No 26
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.80 E-value=1.8e-09 Score=67.30 Aligned_cols=49 Identities=31% Similarity=0.793 Sum_probs=36.3
Q ss_pred ccccccccccCCCc---------ceEeCCCCChhhHHhHHHHHhC---CCCCCccCccccc
Q 033041 2 DCAVCLSEFEENES---------GRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRTPVEL 50 (129)
Q Consensus 2 ~C~IC~~~~~~~~~---------~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 50 (129)
+|.||.-.|+.--. ..++..|.|.||.+||.+|+.. +..||+||..+..
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQF 82 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeEe
Confidence 68999988864221 1122239999999999999965 4579999998764
No 27
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.62 E-value=1.7e-08 Score=76.34 Aligned_cols=46 Identities=37% Similarity=0.860 Sum_probs=38.2
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHH-HHhCCCC-CCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDM-WFHSHST-CPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~-wl~~~~~-CP~Cr~~~~~~ 51 (129)
.|.||++....+ ..++ |||+||..||.. |-..... ||+||+.+.+.
T Consensus 217 kC~lC~e~~~~p---s~t~-CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk 264 (271)
T COG5574 217 KCFLCLEEPEVP---SCTP-CGHLFCLSCLLISWTKKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ceeeeecccCCc---cccc-ccchhhHHHHHHHHHhhccccCchhhhhccch
Confidence 599999997776 6677 999999999998 8666554 99999987654
No 28
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.61 E-value=1.8e-08 Score=77.46 Aligned_cols=45 Identities=24% Similarity=0.603 Sum_probs=40.0
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
+.|-||.+.|..+ ...+ |||.||..||..+|..+..||+||.+..
T Consensus 26 lrC~IC~~~i~ip---~~Tt-CgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 26 LRCRICDCRISIP---CETT-CGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred HHhhhhhheeecc---eecc-cccchhHHHHHHHhcCCCCCccccccHH
Confidence 3599999999888 5666 9999999999999999999999998753
No 29
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.58 E-value=3.5e-08 Score=55.59 Aligned_cols=38 Identities=34% Similarity=0.842 Sum_probs=22.0
Q ss_pred cccccccccCCC-cceEeCCCCChhhHHhHHHHHhCC----CCCC
Q 033041 3 CAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHSH----STCP 42 (129)
Q Consensus 3 C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~----~~CP 42 (129)
|+||++ |...+ ..++|+ |||+|+..||.+|+... ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~-CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLP-CGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-S-SS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEe-CccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 76543 447788 99999999999998743 3576
No 30
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.55 E-value=3.4e-08 Score=80.53 Aligned_cols=47 Identities=30% Similarity=0.725 Sum_probs=37.4
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC-----CCCCccCcccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH-----STCPLCRTPVELV 51 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~-----~~CP~Cr~~~~~~ 51 (129)
..||||++....+ ..+. |||+||..||..+|... ..||+|+..+...
T Consensus 187 ~~CPICL~~~~~p---~~t~-CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 187 MQCPICLEPPSVP---VRTN-CGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLK 238 (513)
T ss_pred CcCCcccCCCCcc---cccc-cCceeeHHHHHHHHhhhcccCCccCCchhhhcccc
Confidence 3699999987666 4444 99999999999888543 4799999988663
No 31
>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=98.53 E-value=5.6e-08 Score=60.62 Aligned_cols=47 Identities=21% Similarity=0.520 Sum_probs=37.5
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELV 51 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~ 51 (129)
|.|+|+.+.|.++ ++++ +||.|...+|..|+.. +.+||+|+.++...
T Consensus 5 f~CpIt~~lM~dP---Vi~~-~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~ 52 (73)
T PF04564_consen 5 FLCPITGELMRDP---VILP-SGHTYERSAIERWLEQNGGTDPFTRQPLSES 52 (73)
T ss_dssp GB-TTTSSB-SSE---EEET-TSEEEEHHHHHHHHCTTSSB-TTT-SB-SGG
T ss_pred cCCcCcCcHhhCc---eeCC-cCCEEcHHHHHHHHHcCCCCCCCCCCcCCcc
Confidence 4699999999998 7888 9999999999999998 78999999887653
No 32
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.51 E-value=1.9e-08 Score=62.43 Aligned_cols=50 Identities=34% Similarity=0.941 Sum_probs=24.0
Q ss_pred Ccccccccccc-CCC-cceEeC--CCCChhhHHhHHHHHhC---C--------CCCCccCccccc
Q 033041 1 MDCAVCLSEFE-ENE-SGRVLP--GCNHSFHIGCIDMWFHS---H--------STCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~-~~~-~~~~lp--~C~H~Fh~~Ci~~wl~~---~--------~~CP~Cr~~~~~ 50 (129)
++|+||+..+. .+. ...+.+ .|+..||..||..||.. . ..||.|+.++..
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 47999999865 322 223333 59999999999999953 1 159999998754
No 33
>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=98.48 E-value=1.6e-07 Score=54.29 Aligned_cols=42 Identities=26% Similarity=0.806 Sum_probs=32.3
Q ss_pred ccccccccccCCCcceEeCCCC-----ChhhHHhHHHHHhC--CCCCCccC
Q 033041 2 DCAVCLSEFEENESGRVLPGCN-----HSFHIGCIDMWFHS--HSTCPLCR 45 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr 45 (129)
.|-||++ ...++...+.| |. |.||..|+.+|+.. ...||+|+
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 4889998 33444556778 75 89999999999965 44899995
No 34
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.47 E-value=6.1e-08 Score=72.38 Aligned_cols=41 Identities=37% Similarity=1.006 Sum_probs=36.9
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 45 (129)
++|+||++.|..+ .+++ |+|.||..||..++.....||.||
T Consensus 14 ~~C~iC~~~~~~p---~~l~-C~H~~c~~C~~~~~~~~~~Cp~cr 54 (386)
T KOG2177|consen 14 LTCPICLEYFREP---VLLP-CGHNFCRACLTRSWEGPLSCPVCR 54 (386)
T ss_pred ccChhhHHHhhcC---cccc-ccchHhHHHHHHhcCCCcCCcccC
Confidence 5799999999998 7888 999999999999988556899999
No 35
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.43 E-value=5e-08 Score=84.40 Aligned_cols=48 Identities=35% Similarity=0.952 Sum_probs=36.9
Q ss_pred cccccccccc-CC--CcceEeCCCCChhhHHhHHHHHhC--CCCCCccCcccc
Q 033041 2 DCAVCLSEFE-EN--ESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~~-~~--~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~ 49 (129)
+|+||+..+. .. -+-...+.|+|.||..|+.+|+++ +.+||+||..+.
T Consensus 1471 ECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1471 ECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred hhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 7999999875 11 122344469999999999999987 558999997764
No 36
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.40 E-value=1.2e-07 Score=77.18 Aligned_cols=48 Identities=31% Similarity=0.932 Sum_probs=37.3
Q ss_pred CccccccccccCC--------------CcceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccc
Q 033041 1 MDCAVCLSEFEEN--------------ESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVE 49 (129)
Q Consensus 1 ~~C~IC~~~~~~~--------------~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~ 49 (129)
.+|+||+..++.- ....+.| |.|+||..|+..|+.. +-.||+||.++.
T Consensus 572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tP-C~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTP-CHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred ccceEeccccceeeccCcchhhhhhhhccccccc-hHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 3799999987421 1133457 9999999999999985 448999998874
No 37
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.39 E-value=8.2e-08 Score=73.04 Aligned_cols=52 Identities=37% Similarity=0.731 Sum_probs=40.9
Q ss_pred ccccccccccCCC-------cceEeCCCCChhhHHhHHHHHh--CCCCCCccCccccccCCC
Q 033041 2 DCAVCLSEFEENE-------SGRVLPGCNHSFHIGCIDMWFH--SHSTCPLCRTPVELVTAQ 54 (129)
Q Consensus 2 ~C~IC~~~~~~~~-------~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~Cr~~~~~~~~~ 54 (129)
.|+||-..+.... ++-.+. |+|.||..||..|-. ...+||.|+..+....-.
T Consensus 226 vCaVCg~~~~~s~~eegvienty~Ls-CnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmf 286 (328)
T KOG1734|consen 226 VCAVCGQQIDVSVDEEGVIENTYKLS-CNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMF 286 (328)
T ss_pred hhHhhcchheeecchhhhhhhheeee-cccchHHHhhhhheeecCCCCCchHHHHhhHhhhc
Confidence 4999998876543 556777 999999999999974 456899999988765433
No 38
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=98.37 E-value=9.3e-08 Score=57.91 Aligned_cols=43 Identities=37% Similarity=0.925 Sum_probs=22.6
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 48 (129)
+.|.+|.+.|..+ ..+.+|.|+||..||..-+.. .||+|+.+.
T Consensus 8 LrCs~C~~~l~~p---v~l~~CeH~fCs~Ci~~~~~~--~CPvC~~Pa 50 (65)
T PF14835_consen 8 LRCSICFDILKEP---VCLGGCEHIFCSSCIRDCIGS--ECPVCHTPA 50 (65)
T ss_dssp TS-SSS-S--SS----B---SSS--B-TTTGGGGTTT--B-SSS--B-
T ss_pred cCCcHHHHHhcCC---ceeccCccHHHHHHhHHhcCC--CCCCcCChH
Confidence 4699999999887 555569999999999886543 599998765
No 39
>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=98.32 E-value=4.1e-07 Score=70.77 Aligned_cols=49 Identities=27% Similarity=0.625 Sum_probs=35.8
Q ss_pred ccccccccc-cCCC-cceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccccc
Q 033041 2 DCAVCLSEF-EENE-SGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~-~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~ 51 (129)
.||||+... ..++ ...+.+ |||.||..|+...+.. ...||.|+.++...
T Consensus 5 ~CP~Ck~~~y~np~~kl~i~~-CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~ 56 (309)
T TIGR00570 5 GCPRCKTTKYRNPSLKLMVNV-CGHTLCESCVDLLFVRGSGSCPECDTPLRKN 56 (309)
T ss_pred CCCcCCCCCccCcccccccCC-CCCcccHHHHHHHhcCCCCCCCCCCCccchh
Confidence 599999953 3332 233334 9999999999996644 55899999887654
No 40
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=1.1e-07 Score=74.67 Aligned_cols=51 Identities=27% Similarity=0.590 Sum_probs=40.8
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccccCCC
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELVTAQ 54 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~~~ 54 (129)
+-|+||++.+... +..+.|.|.||..||..-+.. ++.||.||+.+......
T Consensus 44 v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~SkrsL 95 (381)
T KOG0311|consen 44 VICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKLVSKRSL 95 (381)
T ss_pred hccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhccccccC
Confidence 4699999998766 555679999999999887765 77999999987655433
No 41
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.24 E-value=3.7e-07 Score=73.58 Aligned_cols=44 Identities=39% Similarity=0.976 Sum_probs=35.2
Q ss_pred ccccccccccCCC-cceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041 2 DCAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48 (129)
Q Consensus 2 ~C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 48 (129)
+|+|||+.|+... .+.... |.|.||..|+..|. ..+||+||.-.
T Consensus 177 TCpVCLERMD~s~~gi~t~~-c~Hsfh~~cl~~w~--~~scpvcR~~q 221 (493)
T KOG0804|consen 177 TCPVCLERMDSSTTGILTIL-CNHSFHCSCLMKWW--DSSCPVCRYCQ 221 (493)
T ss_pred CcchhHhhcCccccceeeee-cccccchHHHhhcc--cCcChhhhhhc
Confidence 7999999998754 344455 99999999999995 45899998643
No 42
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.24 E-value=5.5e-07 Score=71.53 Aligned_cols=47 Identities=26% Similarity=0.861 Sum_probs=35.3
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC---CCCCCccCccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRTPV 48 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~ 48 (129)
.|.||.+.+.....+.-+..|||+||..|+..|+.. +..||+|+-.+
T Consensus 6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred eeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 699996655544444444459999999999999986 45899998443
No 43
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.14 E-value=1.3e-06 Score=69.06 Aligned_cols=49 Identities=37% Similarity=1.032 Sum_probs=37.5
Q ss_pred ccccccccccCCC----cceEeCCCCChhhHHhHHHHH--hC-----CCCCCccCccccc
Q 033041 2 DCAVCLSEFEENE----SGRVLPGCNHSFHIGCIDMWF--HS-----HSTCPLCRTPVEL 50 (129)
Q Consensus 2 ~C~IC~~~~~~~~----~~~~lp~C~H~Fh~~Ci~~wl--~~-----~~~CP~Cr~~~~~ 50 (129)
+|.||++.+.... ...++|+|.|.||..||..|- .+ .+.||.||.....
T Consensus 163 ~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 163 ECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcccc
Confidence 6999999876542 123457799999999999998 33 4689999986544
No 44
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=1.6e-06 Score=66.95 Aligned_cols=47 Identities=28% Similarity=0.633 Sum_probs=38.4
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccccC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVELVT 52 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~~~ 52 (129)
+|+||+....-+ ..++ |+|.||..||+.-... ..+|++||.++...-
T Consensus 9 eC~IC~nt~n~P---v~l~-C~HkFCyiCiKGsy~ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 9 ECLICYNTGNCP---VNLY-CFHKFCYICIKGSYKNDKKTCAVCRFPIDSTI 56 (324)
T ss_pred cceeeeccCCcC---cccc-ccchhhhhhhcchhhcCCCCCceecCCCCcch
Confidence 799999997776 6677 9999999999876654 456999999986543
No 45
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=1.1e-06 Score=74.50 Aligned_cols=46 Identities=24% Similarity=0.788 Sum_probs=37.0
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHh-CCCCCCccCccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH-SHSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~ 50 (129)
+.|++|-..+.+. ++++|+|.||..|+...+. ++..||.|.+.|..
T Consensus 644 LkCs~Cn~R~Kd~----vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 644 LKCSVCNTRWKDA----VITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred eeCCCccCchhhH----HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 5799998665553 4455999999999999885 47799999988864
No 46
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.99 E-value=3.8e-06 Score=67.18 Aligned_cols=48 Identities=29% Similarity=0.771 Sum_probs=37.1
Q ss_pred CccccccccccCCC-cceEeCCCCChhhHHhHHHHHhC--CCCCCccCccc
Q 033041 1 MDCAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPV 48 (129)
Q Consensus 1 ~~C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~ 48 (129)
++|+||++.+..+. .....+.|||.|...||..||.+ ...||.|...-
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~ka 55 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKA 55 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChh
Confidence 47999999987543 34445569999999999999953 34799997743
No 47
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.95 E-value=2e-06 Score=50.45 Aligned_cols=44 Identities=25% Similarity=0.744 Sum_probs=33.2
Q ss_pred ccccccccccCCCcceEeCCCCC-hhhHHhHHHHHh-CCCCCCccCcccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWFH-SHSTCPLCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~-~~~~CP~Cr~~~~ 49 (129)
+|.||++.-.+. ++.. ||| -+|..|-.+.++ .+..||+||+++.
T Consensus 9 ECTICye~pvds---VlYt-CGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 9 ECTICYEHPVDS---VLYT-CGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ceeeeccCcchH---HHHH-cchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 799999975443 3444 999 578889766555 5779999999874
No 48
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=4.4e-06 Score=65.75 Aligned_cols=46 Identities=39% Similarity=0.946 Sum_probs=38.6
Q ss_pred ccccccccccCCCcceEeCCCCC-hhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
+|.||+.+..+ +.++| |.| -+|..|.+...-+++.||+||.++...
T Consensus 292 eCVIClse~rd---t~vLP-CRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~l 338 (349)
T KOG4265|consen 292 ECVICLSESRD---TVVLP-CRHLCLCSGCAKSLRYQTNNCPICRQPIEEL 338 (349)
T ss_pred eeEEEecCCcc---eEEec-chhhehhHhHHHHHHHhhcCCCccccchHhh
Confidence 79999998544 48999 999 689999988777788999999988653
No 49
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=97.85 E-value=3.7e-06 Score=65.53 Aligned_cols=47 Identities=21% Similarity=0.621 Sum_probs=39.4
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
++|.+|..+|.++ .++..|-|.||..||..+|...+.||.|...+..
T Consensus 16 itC~LC~GYliDA---TTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ih~ 62 (331)
T KOG2660|consen 16 ITCRLCGGYLIDA---TTITECLHTFCKSCIVKYLEESKYCPTCDIVIHK 62 (331)
T ss_pred eehhhccceeecc---hhHHHHHHHHHHHHHHHHHHHhccCCccceeccC
Confidence 4799999999877 3333499999999999999999999999876643
No 50
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.85 E-value=2.9e-06 Score=72.56 Aligned_cols=50 Identities=24% Similarity=0.499 Sum_probs=38.9
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT 52 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 52 (129)
.|++|+..+.+.......+ |+|.||.+||..|-+...+||+||..|....
T Consensus 125 ~CP~Ci~s~~DqL~~~~k~-c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 125 QCPNCLKSCNDQLEESEKH-TAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred hhhHHHHHHHHHhhccccc-cccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 4777777665544334455 9999999999999998999999999876543
No 51
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.83 E-value=7.9e-06 Score=65.47 Aligned_cols=43 Identities=30% Similarity=0.949 Sum_probs=35.2
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCccCcccc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVE 49 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~ 49 (129)
|.||-+. ...+++-| |||.+|..|+..|-.. ..+||.||.++.
T Consensus 372 CKICaen---dKdvkIEP-CGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 372 CKICAEN---DKDVKIEP-CGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHhhcc---CCCccccc-ccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 8888775 34567788 9999999999999754 568999999764
No 52
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.81 E-value=8.2e-06 Score=63.13 Aligned_cols=49 Identities=27% Similarity=0.830 Sum_probs=40.3
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-----------------------CCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-----------------------HSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----------------------~~~CP~Cr~~~~~~ 51 (129)
.|.|||.-|.......+.+ |.|.||..|+..+|.. ..+||+||..+...
T Consensus 117 qCvICLygfa~~~~ft~T~-C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e 188 (368)
T KOG4445|consen 117 QCVICLYGFASSPAFTVTA-CDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKIE 188 (368)
T ss_pred ceEEEEEeecCCCceeeeh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccc
Confidence 6999999999888788888 9999999999887621 12699999987543
No 53
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.75 E-value=1.4e-05 Score=64.32 Aligned_cols=46 Identities=35% Similarity=0.844 Sum_probs=40.1
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
++|.||+..+..+ +.+| |||.||..||.+-+....-||.||..+..
T Consensus 85 f~c~vc~~~l~~p---v~tp-cghs~c~~Cl~r~ld~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 85 FECCVCSRALYPP---VVTP-CGHSFCLECLDRSLDQETECPLCRDELVE 130 (398)
T ss_pred hhhhhhHhhcCCC---cccc-ccccccHHHHHHHhccCCCCccccccccc
Confidence 4799999998887 6778 99999999999977777789999998864
No 54
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.68 E-value=2.1e-05 Score=46.78 Aligned_cols=40 Identities=25% Similarity=0.637 Sum_probs=27.4
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPL 43 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~ 43 (129)
+.|+|.+..|.+| .....|+|.|-...|..|+.. ...||+
T Consensus 12 ~~CPiT~~~~~~P---V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 12 LKCPITLQPFEDP---VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp SB-TTTSSB-SSE---EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred cCCCCcCChhhCC---cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 4699999999887 454459999999999999944 447998
No 55
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=97.49 E-value=4.4e-05 Score=56.09 Aligned_cols=44 Identities=25% Similarity=0.620 Sum_probs=37.2
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 48 (129)
+-|.||..+|..+ ++.. |||.||..|...-++....|-+|.+..
T Consensus 197 F~C~iCKkdy~sp---vvt~-CGH~FC~~Cai~~y~kg~~C~~Cgk~t 240 (259)
T COG5152 197 FLCGICKKDYESP---VVTE-CGHSFCSLCAIRKYQKGDECGVCGKAT 240 (259)
T ss_pred eeehhchhhccch---hhhh-cchhHHHHHHHHHhccCCcceecchhh
Confidence 4699999999887 4554 999999999988888888999997643
No 56
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.47 E-value=7.8e-05 Score=59.70 Aligned_cols=48 Identities=29% Similarity=0.754 Sum_probs=37.8
Q ss_pred CccccccccccCC-CcceEeCCCCChhhHHhHHHHHhCC--CCCCccCcccc
Q 033041 1 MDCAVCLSEFEEN-ESGRVLPGCNHSFHIGCIDMWFHSH--STCPLCRTPVE 49 (129)
Q Consensus 1 ~~C~IC~~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~~--~~CP~Cr~~~~ 49 (129)
+.|..|-+.+... +...-+| |.|+||..|+..+|..+ .+||.||+...
T Consensus 366 L~Cg~CGe~~Glk~e~LqALp-CsHIfH~rCl~e~L~~n~~rsCP~CrklrS 416 (518)
T KOG1941|consen 366 LYCGLCGESIGLKNERLQALP-CSHIFHLRCLQEILENNGTRSCPNCRKLRS 416 (518)
T ss_pred hhhhhhhhhhcCCcccccccc-hhHHHHHHHHHHHHHhCCCCCCccHHHHHh
Confidence 4688998887643 3566788 99999999999999764 48999995444
No 57
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.47 E-value=5.6e-05 Score=60.92 Aligned_cols=49 Identities=27% Similarity=0.725 Sum_probs=40.4
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccC
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT 52 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 52 (129)
+.|+||...+.++ .....|||.||..|+..|+..+..||.|+..+....
T Consensus 22 l~C~~C~~vl~~p---~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 22 LLCPICMSVLRDP---VQTTTCGHRFCAGCLLESLSNHQKCPVCRQELTQAE 70 (391)
T ss_pred ccCccccccccCC---CCCCCCCCcccccccchhhccCcCCcccccccchhh
Confidence 4699999999887 221249999999999999999999999988776543
No 58
>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=97.44 E-value=6.4e-05 Score=51.94 Aligned_cols=35 Identities=17% Similarity=0.568 Sum_probs=29.2
Q ss_pred CccccccccccCCCcceEeCCCC------ChhhHHhHHHHHh
Q 033041 1 MDCAVCLSEFEENESGRVLPGCN------HSFHIGCIDMWFH 36 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~------H~Fh~~Ci~~wl~ 36 (129)
+||.||++.+...+.++.++ || |.||..|+.+|-.
T Consensus 27 ~EC~IC~~~I~~~~GvV~vt-~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 27 VECQICFDRIDNNDGVVYVT-DGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred eeehhhhhhhhcCCCEEEEe-cCCeehHHHHHHHHHHHHHHh
Confidence 48999999998855677777 66 8999999999943
No 59
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=0.00013 Score=55.83 Aligned_cols=48 Identities=29% Similarity=0.473 Sum_probs=36.5
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCccCcccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVELV 51 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 51 (129)
.+|++|-+.-..| ....+ |+|+||..||..-+.. ..+||.|..++.+.
T Consensus 240 ~~C~~Cg~~PtiP--~~~~~-C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~~l 289 (298)
T KOG2879|consen 240 TECPVCGEPPTIP--HVIGK-CGHIYCYYCIATSRLWDASFTCPLCGENVEPL 289 (298)
T ss_pred ceeeccCCCCCCC--eeecc-ccceeehhhhhhhhcchhhcccCccCCCCcch
Confidence 4899999986555 22334 9999999999887654 47999998876543
No 60
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=97.38 E-value=0.00022 Score=40.95 Aligned_cols=45 Identities=27% Similarity=0.684 Sum_probs=22.9
Q ss_pred cccccccccCCCcceEeC-CCCChhhHHhHHHHHh-CCCCCCccCccc
Q 033041 3 CAVCLSEFEENESGRVLP-GCNHSFHIGCIDMWFH-SHSTCPLCRTPV 48 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp-~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~ 48 (129)
|++|.++++..+. ...| .|++.+|..|...-++ ....||-||.++
T Consensus 1 cp~C~e~~d~~d~-~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDK-DFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCT-T--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCC-ccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 7899999955432 3333 4999999999988776 477999999876
No 61
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=0.00015 Score=54.30 Aligned_cols=48 Identities=23% Similarity=0.649 Sum_probs=38.2
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--------CCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--------HSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~ 51 (129)
.|.+|-..+..++.+++. |.|.||..|+..|-.. ...||.|..++.+.
T Consensus 52 NC~LC~t~La~gdt~RLv--CyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFPp 107 (299)
T KOG3970|consen 52 NCRLCNTPLASGDTTRLV--CYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFPP 107 (299)
T ss_pred CCceeCCccccCcceeeh--hhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCCC
Confidence 377888888888776665 9999999999999743 34799999887553
No 62
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.16 E-value=0.00018 Score=59.72 Aligned_cols=46 Identities=28% Similarity=0.700 Sum_probs=35.8
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-----CCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-----HSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~~~~~ 51 (129)
+|.+|.+.-.+. .... |.|.||..||..++.. +-+||.|...+...
T Consensus 538 ~C~lc~d~aed~---i~s~-ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 538 ECGLCHDPAEDY---IESS-CHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred eecccCChhhhh---Hhhh-hhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 699998875544 4444 9999999999999854 45899998777544
No 63
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=97.15 E-value=0.00023 Score=61.63 Aligned_cols=48 Identities=27% Similarity=0.753 Sum_probs=37.8
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-------CCCCCccCccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-------HSTCPLCRTPV 48 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-------~~~CP~Cr~~~ 48 (129)
.+|.||++.+.....+.-...|.|+||..||..|-.+ ...||.|....
T Consensus 192 yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqsv~ 246 (950)
T KOG1952|consen 192 YECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQSVS 246 (950)
T ss_pred eEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccchh
Confidence 4799999999877666555569999999999999754 23699998433
No 64
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.97 E-value=0.00024 Score=54.93 Aligned_cols=45 Identities=22% Similarity=0.500 Sum_probs=38.0
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
+-|-||...|..+ ++.. |+|.||..|...-++....|.+|.....
T Consensus 242 f~c~icr~~f~~p---Vvt~-c~h~fc~~ca~~~~qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 242 FKCFICRKYFYRP---VVTK-CGHYFCEVCALKPYQKGEKCYVCSQQTH 286 (313)
T ss_pred ccccccccccccc---hhhc-CCceeehhhhccccccCCcceecccccc
Confidence 3599999999988 5555 9999999999888888889999977553
No 65
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00054 Score=55.15 Aligned_cols=45 Identities=29% Similarity=0.717 Sum_probs=36.1
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--------CCCCCccCc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--------HSTCPLCRT 46 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~ 46 (129)
+.|.||++..........+| |+|+||..|+..++.. .-.||-+.-
T Consensus 185 f~C~ICf~e~~G~~c~~~lp-C~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 185 FDCCICFEEQMGQHCFKFLP-CSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred ccceeeehhhcCcceeeecc-cchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 47999999987767788899 9999999999999843 125877654
No 66
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.72 E-value=0.00089 Score=61.29 Aligned_cols=46 Identities=26% Similarity=0.774 Sum_probs=34.8
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCC----------CCCccCcccc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHS----------TCPLCRTPVE 49 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~----------~CP~Cr~~~~ 49 (129)
|-||+.+--.....+.+. |+|+||..|....|+... .||+|+.++.
T Consensus 3489 CmICFTE~L~AAP~IqL~-C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3489 CMICFTEALSAAPAIQLD-CSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred EEEEehhhhCCCcceecC-CccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 778877655555666776 999999999987765421 6999998774
No 67
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.71 E-value=0.0012 Score=47.81 Aligned_cols=31 Identities=32% Similarity=0.938 Sum_probs=25.2
Q ss_pred CCCChhhHHhHHHHHhC------CC-----CCCccCcccccc
Q 033041 21 GCNHSFHIGCIDMWFHS------HS-----TCPLCRTPVELV 51 (129)
Q Consensus 21 ~C~H~Fh~~Ci~~wl~~------~~-----~CP~Cr~~~~~~ 51 (129)
.||..||.-|+..||.. .+ .||+|..++..+
T Consensus 189 qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 189 QCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred ccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 39999999999999964 11 599999888654
No 68
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.71 E-value=0.0015 Score=49.58 Aligned_cols=49 Identities=16% Similarity=0.310 Sum_probs=43.0
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
-|+||.+.+.+...+.+|..|||+|+..|+.+++.....||+|-.++..
T Consensus 223 iCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plkd 271 (303)
T KOG3039|consen 223 ICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLKD 271 (303)
T ss_pred ecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCcc
Confidence 4999999999888777776699999999999999989999999887754
No 69
>PHA02862 5L protein; Provisional
Probab=96.69 E-value=0.0017 Score=45.47 Aligned_cols=47 Identities=28% Similarity=0.716 Sum_probs=34.1
Q ss_pred ccccccccccCCCcceEeC-CC---CChhhHHhHHHHHhC--CCCCCccCccccccC
Q 033041 2 DCAVCLSEFEENESGRVLP-GC---NHSFHIGCIDMWFHS--HSTCPLCRTPVELVT 52 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp-~C---~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~ 52 (129)
.|=||++.-.+. ..| .| ....|..|+..|+.. ...|++|+.++....
T Consensus 4 iCWIC~~~~~e~----~~PC~C~GS~K~VHq~CL~~WIn~S~k~~CeLCkteY~Ik~ 56 (156)
T PHA02862 4 ICWICNDVCDER----NNFCGCNEEYKVVHIKCMQLWINYSKKKECNLCKTKYNIKK 56 (156)
T ss_pred EEEEecCcCCCC----cccccccCcchhHHHHHHHHHHhcCCCcCccCCCCeEEEEE
Confidence 588999875433 345 13 358999999999975 447999999886543
No 70
>PHA03096 p28-like protein; Provisional
Probab=96.66 E-value=0.0011 Score=51.31 Aligned_cols=44 Identities=30% Similarity=0.659 Sum_probs=31.1
Q ss_pred ccccccccccCC----CcceEeCCCCChhhHHhHHHHHhC---CCCCCccC
Q 033041 2 DCAVCLSEFEEN----ESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCR 45 (129)
Q Consensus 2 ~C~IC~~~~~~~----~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr 45 (129)
+|.||++..... ..-..+++|.|.||..|+..|... ..+||.|+
T Consensus 180 ~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~ 230 (284)
T PHA03096 180 ICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENR 230 (284)
T ss_pred hcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCcccc
Confidence 699999976532 123456789999999999999854 23444443
No 71
>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=96.66 E-value=0.00094 Score=37.41 Aligned_cols=39 Identities=28% Similarity=0.770 Sum_probs=23.5
Q ss_pred cccccccccCCCcceEeC--CCCChhhHHhHHHHHhCCC--CCCcc
Q 033041 3 CAVCLSEFEENESGRVLP--GCNHSFHIGCIDMWFHSHS--TCPLC 44 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp--~C~H~Fh~~Ci~~wl~~~~--~CP~C 44 (129)
|.+|.+.+..+ ..-+ .|+-.+|..|+..++.... .||.|
T Consensus 1 C~~C~~iv~~G---~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQG---QRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSS---EE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeee---ccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 67888887777 3333 3888999999999997754 79987
No 72
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.63 E-value=0.0016 Score=50.78 Aligned_cols=43 Identities=28% Similarity=0.686 Sum_probs=34.4
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHH-hCCCCCCccCc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRT 46 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~ 46 (129)
|-|+.|...+..+ ...+-|+|.||..||...| .+.+.||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 4699998888777 3445599999999998766 46789999965
No 73
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.37 E-value=0.0024 Score=36.40 Aligned_cols=41 Identities=32% Similarity=0.915 Sum_probs=26.1
Q ss_pred cccccccccCCCcceEeC-CCCC---hhhHHhHHHHHhC--CCCCCcc
Q 033041 3 CAVCLSEFEENESGRVLP-GCNH---SFHIGCIDMWFHS--HSTCPLC 44 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp-~C~H---~Fh~~Ci~~wl~~--~~~CP~C 44 (129)
|-||++.-.... ..+.| .|+- ..|..||..|+.. ...|++|
T Consensus 1 CrIC~~~~~~~~-~li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDE-PLISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCC-ceecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 679999866554 34455 2444 7899999999974 5679887
No 74
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=96.35 E-value=0.0037 Score=44.43 Aligned_cols=46 Identities=22% Similarity=0.746 Sum_probs=33.7
Q ss_pred ccccccccccCCCcceEeC-CCCC---hhhHHhHHHHHhC--CCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLP-GCNH---SFHIGCIDMWFHS--HSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp-~C~H---~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~ 51 (129)
+|=||++.-.. ...| +|.. ..|..|+..|+.. ...|++|+.++...
T Consensus 10 ~CRIC~~~~~~----~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 10 CCWICKDEYDV----VTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPYNIK 61 (162)
T ss_pred eeEecCCCCCC----ccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeEEEE
Confidence 58899888432 1235 2554 6799999999965 44799999988654
No 75
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.30 E-value=0.00067 Score=52.55 Aligned_cols=39 Identities=28% Similarity=0.726 Sum_probs=29.5
Q ss_pred cccccccccCCCcceEeCCCCC-hhhHHhHHHHHhCCCCCCccCcccc
Q 033041 3 CAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
|+|||+. +..+..|+ ||| +-|..|-+.. ..||+||..+.
T Consensus 303 C~ICmDa---P~DCvfLe-CGHmVtCt~CGkrm----~eCPICRqyi~ 342 (350)
T KOG4275|consen 303 CAICMDA---PRDCVFLE-CGHMVTCTKCGKRM----NECPICRQYIV 342 (350)
T ss_pred HHHHhcC---CcceEEee-cCcEEeehhhcccc----ccCchHHHHHH
Confidence 8999886 55668888 999 5567776543 37999998664
No 76
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.27 E-value=0.0022 Score=48.29 Aligned_cols=48 Identities=23% Similarity=0.615 Sum_probs=33.6
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccCC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTA 53 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 53 (129)
.|..|..--. ++...++. |.|+||..|...- ....||+|+..+.....
T Consensus 5 hCn~C~~~~~-~~~f~LTa-C~HvfC~~C~k~~--~~~~C~lCkk~ir~i~l 52 (233)
T KOG4739|consen 5 HCNKCFRFPS-QDPFFLTA-CRHVFCEPCLKAS--SPDVCPLCKKSIRIIQL 52 (233)
T ss_pred EeccccccCC-CCceeeee-chhhhhhhhcccC--Cccccccccceeeeeec
Confidence 4777776544 55555665 9999999998652 22389999998755443
No 77
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.16 E-value=0.0024 Score=37.53 Aligned_cols=34 Identities=38% Similarity=0.779 Sum_probs=26.1
Q ss_pred cceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 15 SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 15 ~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
...++| |+|..+..|..-+ .-+-||+|.+++...
T Consensus 19 ~~~~~p-CgH~I~~~~f~~~--rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 19 KGTVLP-CGHLICDNCFPGE--RYNGCPFCGTPFEFD 52 (55)
T ss_pred cccccc-ccceeeccccChh--hccCCCCCCCcccCC
Confidence 346788 9999999997654 345799999988654
No 78
>PF04641 Rtf2: Rtf2 RING-finger
Probab=96.15 E-value=0.0048 Score=47.12 Aligned_cols=49 Identities=22% Similarity=0.411 Sum_probs=38.0
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
+.|||....|......+.+..|||+|...+|...- ....||+|-.+|..
T Consensus 114 ~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f~~ 162 (260)
T PF04641_consen 114 FICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPFTE 162 (260)
T ss_pred eECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCcccc
Confidence 35999999996655555554499999999999863 35679999998864
No 79
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.10 E-value=0.0043 Score=47.87 Aligned_cols=47 Identities=26% Similarity=0.750 Sum_probs=36.2
Q ss_pred CccccccccccCCC---cceEeCCCCChhhHHhHHHHHhCC-CCCCccCccc
Q 033041 1 MDCAVCLSEFEENE---SGRVLPGCNHSFHIGCIDMWFHSH-STCPLCRTPV 48 (129)
Q Consensus 1 ~~C~IC~~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~ 48 (129)
++|.||-++|...+ ..+.+. |||.|+..|+.+.+... ..||.||...
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~-c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLK-CGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccc-cCceehHhHHHHHhcCceeeccCCCCcc
Confidence 47999999997652 234444 99999999998877653 4799999875
No 80
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=96.06 E-value=0.0038 Score=48.15 Aligned_cols=44 Identities=27% Similarity=0.671 Sum_probs=35.6
Q ss_pred ccccccccccCCC-cceEeCCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041 2 DCAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT 46 (129)
Q Consensus 2 ~C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 46 (129)
.|+||.+.+.... .+..++ |||..|..|+......+.+||+|.+
T Consensus 160 ncPic~e~l~~s~~~~~~~~-CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 160 NCPICKEYLFLSFEDAGVLK-CGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred CCchhHHHhccccccCCccC-cccchHHHHHHHHhccCCCCCcccc
Confidence 3889998765443 344566 9999999999998877899999988
No 81
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.98 E-value=0.006 Score=48.62 Aligned_cols=45 Identities=27% Similarity=0.581 Sum_probs=37.8
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
.|+||+-.-... +..| |+|.-|..||.+.+-..+.|=.|++.+..
T Consensus 424 lCpICyA~pi~A---vf~P-C~H~SC~~CI~qHlmN~k~CFfCktTv~~ 468 (489)
T KOG4692|consen 424 LCPICYAGPINA---VFAP-CSHRSCYGCITQHLMNCKRCFFCKTTVID 468 (489)
T ss_pred cCcceecccchh---hccC-CCCchHHHHHHHHHhcCCeeeEecceeee
Confidence 599998764333 6778 99999999999999999999999987753
No 82
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.61 E-value=0.01 Score=47.29 Aligned_cols=48 Identities=29% Similarity=0.648 Sum_probs=36.3
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHH--HhCCCCCCccCccccccCC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMW--FHSHSTCPLCRTPVELVTA 53 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~w--l~~~~~CP~Cr~~~~~~~~ 53 (129)
-|-||.+.+.-- .++| |+|..|..|.... |...+.||+||..+.....
T Consensus 63 ~C~ICA~~~TYs---~~~P-C~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~V~f 112 (493)
T COG5236 63 NCQICAGSTTYS---ARYP-CGHQICHACAVRLRALYMQKGCPLCRTETEAVVF 112 (493)
T ss_pred eeEEecCCceEE---Eecc-CCchHHHHHHHHHHHHHhccCCCccccccceEEE
Confidence 478888876443 6788 9999999997543 4568899999998875543
No 83
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=95.60 E-value=0.0084 Score=46.86 Aligned_cols=44 Identities=25% Similarity=0.569 Sum_probs=33.2
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
++||||.+.+..+ +..-.=||..|..|-.+ ....||.|+.++..
T Consensus 49 leCPvC~~~l~~P---i~QC~nGHlaCssC~~~---~~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 49 LDCPVCFNPLSPP---IFQCDNGHLACSSCRTK---VSNKCPTCRLPIGN 92 (299)
T ss_pred ccCchhhccCccc---ceecCCCcEehhhhhhh---hcccCCcccccccc
Confidence 6899999999887 33211369999988754 46689999998853
No 84
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=95.41 E-value=0.0092 Score=52.02 Aligned_cols=41 Identities=24% Similarity=0.714 Sum_probs=31.3
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 48 (129)
.|.+|--.++.| .+... |||.||.+|+. .....||.|+..+
T Consensus 842 kCs~C~~~LdlP--~VhF~-CgHsyHqhC~e---~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 842 KCSACEGTLDLP--FVHFL-CGHSYHQHCLE---DKEDKCPKCLPEL 882 (933)
T ss_pred eecccCCccccc--eeeee-cccHHHHHhhc---cCcccCCccchhh
Confidence 588888888776 23344 99999999997 3456899998743
No 85
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.31 E-value=0.014 Score=46.43 Aligned_cols=47 Identities=19% Similarity=0.505 Sum_probs=35.1
Q ss_pred cccccccccCCCc-ceEeCCCCChhhHHhHHHHHhC-CCCCCccCccccc
Q 033041 3 CAVCLSEFEENES-GRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVEL 50 (129)
Q Consensus 3 C~IC~~~~~~~~~-~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~~ 50 (129)
|++|++.|+..++ ..-.+ ||-.+|..|...-.+. +..||.||..+..
T Consensus 17 cplcie~mditdknf~pc~-cgy~ic~fc~~~irq~lngrcpacrr~y~d 65 (480)
T COG5175 17 CPLCIEPMDITDKNFFPCP-CGYQICQFCYNNIRQNLNGRCPACRRKYDD 65 (480)
T ss_pred CcccccccccccCCcccCC-cccHHHHHHHHHHHhhccCCChHhhhhccc
Confidence 9999999987654 33455 9999898887654333 5589999987754
No 86
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.20 E-value=0.0093 Score=46.94 Aligned_cols=43 Identities=28% Similarity=0.523 Sum_probs=34.4
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTP 47 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~ 47 (129)
.|+||+....++ .++.--|-+||..|+..++..+..||+=..+
T Consensus 302 ~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 302 VCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred cChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 599999988776 3333269999999999999999999985433
No 87
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=95.19 E-value=0.0083 Score=46.99 Aligned_cols=30 Identities=43% Similarity=1.072 Sum_probs=23.5
Q ss_pred ceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041 16 GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48 (129)
Q Consensus 16 ~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 48 (129)
-+++| |+|+||.+|... ...+.||.|-.+|
T Consensus 104 GRmIP-CkHvFCl~CAr~--~~dK~Cp~C~d~V 133 (389)
T KOG2932|consen 104 GRMIP-CKHVFCLECARS--DSDKICPLCDDRV 133 (389)
T ss_pred ecccc-cchhhhhhhhhc--CccccCcCcccHH
Confidence 35788 999999999754 3467899998765
No 88
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.15 E-value=0.025 Score=39.15 Aligned_cols=48 Identities=23% Similarity=0.580 Sum_probs=35.0
Q ss_pred ccccccccccCCCcceEeC--CCCChhhHHhHHHHHhC---CCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLP--GCNHSFHIGCIDMWFHS---HSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp--~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~~ 51 (129)
+|.||.|...+.. .+-| -||-..|..|....++. +.+||+|+..+...
T Consensus 82 eCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 82 ECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred eccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 7999999865441 2223 29999999998766654 66899999988654
No 89
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.05 E-value=0.019 Score=46.13 Aligned_cols=44 Identities=18% Similarity=0.433 Sum_probs=36.0
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC---CCCCccC
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH---STCPLCR 45 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~Cr 45 (129)
+.|||=.+.-.+......+. |||+....-|.+..+.. +.||+|=
T Consensus 335 F~CPVlKeqtsdeNPPm~L~-CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 335 FICPVLKEQTSDENPPMMLI-CGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred eecccchhhccCCCCCeeee-ccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 46898888777777778888 99999999999987653 4799993
No 90
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=94.97 E-value=0.023 Score=33.31 Aligned_cols=32 Identities=28% Similarity=0.751 Sum_probs=28.4
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHH
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDM 33 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~ 33 (129)
-|++|-+.|...+.+++.|.||-.+|+.|...
T Consensus 7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 48999999988888899999999999999654
No 91
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=94.90 E-value=0.015 Score=50.15 Aligned_cols=49 Identities=24% Similarity=0.594 Sum_probs=36.9
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCccCccccccCCC
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRTPVELVTAQ 54 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~~~ 54 (129)
.+|.||++ .+.....+ |+|.||..|+...+.. ...||+||..+......
T Consensus 455 ~~c~ic~~----~~~~~it~-c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~ 505 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITR-CGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLL 505 (674)
T ss_pred cccccccc----cccceeec-ccchHHHHHHHhccccccCCCCcHHHHHHHHHHHh
Confidence 37999999 33446666 9999999999988865 23699999877655433
No 92
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.90 E-value=0.012 Score=46.78 Aligned_cols=41 Identities=32% Similarity=0.750 Sum_probs=28.8
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
.|.||++.... ...+| |||.-| |..-. +....||+||..+.
T Consensus 307 lcVVcl~e~~~---~~fvp-cGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 307 LCVVCLDEPKS---AVFVP-CGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred ceEEecCCccc---eeeec-CCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 48899988655 47888 999755 55332 22345999998764
No 93
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=94.33 E-value=0.024 Score=49.21 Aligned_cols=23 Identities=35% Similarity=0.938 Sum_probs=21.4
Q ss_pred CCCChhhHHhHHHHHhCCCCCCc
Q 033041 21 GCNHSFHIGCIDMWFHSHSTCPL 43 (129)
Q Consensus 21 ~C~H~Fh~~Ci~~wl~~~~~CP~ 43 (129)
.|+|..|.+|...|+.....||.
T Consensus 1047 ~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1047 TCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred cccccccHHHHHHHHhcCCcCCC
Confidence 39999999999999999999986
No 94
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.67 E-value=0.04 Score=48.39 Aligned_cols=32 Identities=28% Similarity=0.590 Sum_probs=25.7
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHH
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF 35 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 35 (129)
.|.+|...+... ...+.| |||.||..||....
T Consensus 819 ~C~~C~~~ll~~-pF~vf~-CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 819 SCDHCGRPLLIK-PFYVFP-CGHCFHRDCLIRHV 850 (911)
T ss_pred chHHhcchhhcC-cceeee-ccchHHHHHHHHHH
Confidence 588998877554 667788 99999999998664
No 95
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.40 E-value=0.033 Score=45.00 Aligned_cols=35 Identities=29% Similarity=0.678 Sum_probs=25.5
Q ss_pred ccccccccc-cCCCcceEeCCCCChhhHHhHHHHHhC
Q 033041 2 DCAVCLSEF-EENESGRVLPGCNHSFHIGCIDMWFHS 37 (129)
Q Consensus 2 ~C~IC~~~~-~~~~~~~~lp~C~H~Fh~~Ci~~wl~~ 37 (129)
+|.||+... ......... +|+|.||..|+...++.
T Consensus 148 ~C~iC~~e~~~~~~~f~~~-~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 148 ECGICFVEDPEAEDMFSVL-KCGHRFCKDCVKQHIEV 183 (384)
T ss_pred cCccCccccccHhhhHHHh-cccchhhhHHhHHHhhh
Confidence 799999444 333333434 49999999999998864
No 96
>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=93.39 E-value=0.045 Score=31.48 Aligned_cols=43 Identities=19% Similarity=0.563 Sum_probs=19.6
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC-----CCCCCccCcc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS-----HSTCPLCRTP 47 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~~ 47 (129)
|.|+|....+..+ .....|.|.-|.+ +..||.. ...||+|.++
T Consensus 3 L~CPls~~~i~~P---~Rg~~C~H~~CFD-l~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIP---VRGKNCKHLQCFD-LESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSE---EEETT--SS--EE-HHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeC---ccCCcCcccceEC-HHHHHHHhhccCCeECcCCcCc
Confidence 5688888888765 4444599975543 3445532 3479999753
No 97
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.21 E-value=0.042 Score=42.01 Aligned_cols=48 Identities=31% Similarity=0.823 Sum_probs=31.8
Q ss_pred cccccccccCCC-cceEeCCC-----CChhhHHhHHHHHhC--------CCCCCccCcccccc
Q 033041 3 CAVCLSEFEENE-SGRVLPGC-----NHSFHIGCIDMWFHS--------HSTCPLCRTPVELV 51 (129)
Q Consensus 3 C~IC~~~~~~~~-~~~~lp~C-----~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~~~ 51 (129)
|=||+..=++.. ...+-| | .|+.|..|+..|+-. .-.||.|++++...
T Consensus 23 CWiCF~TdeDn~~a~WV~P-CrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTEYiiv 84 (293)
T KOG3053|consen 23 CWICFATDEDNRLAAWVHP-CRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTEYIIV 84 (293)
T ss_pred EEEEeccCcccchhhhccc-ccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcchheee
Confidence 778877533322 223344 4 489999999999832 12699999987543
No 98
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.00 E-value=0.031 Score=50.84 Aligned_cols=43 Identities=26% Similarity=0.802 Sum_probs=35.1
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTP 47 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~ 47 (129)
.|.||++.+..-. .+.. |||.||..|+..|+..+..||+|+..
T Consensus 1155 ~c~ic~dil~~~~--~I~~-cgh~~c~~c~~~~l~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1155 VCEICLDILRNQG--GIAG-CGHEPCCRCDELWLYASSRCPICKSI 1197 (1394)
T ss_pred chHHHHHHHHhcC--Ceee-echhHhhhHHHHHHHHhccCcchhhh
Confidence 5899999887321 2333 99999999999999999999999853
No 99
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.91 E-value=0.0057 Score=49.17 Aligned_cols=46 Identities=22% Similarity=0.677 Sum_probs=36.8
Q ss_pred cccccccccCC-CcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041 3 CAVCLSEFEEN-ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 3 C~IC~~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
|.||.+.+... +.+..+- |||.+|..||.+||.....||.|+..+.
T Consensus 199 l~I~~~slK~~y~k~~~~~-~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 199 LSICFESLKQNYDKISAIV-CGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred hHhhHHHHHHHHHHHHHHh-hcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 67888877654 3444454 9999999999999998888999988764
No 100
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=92.88 E-value=0.068 Score=39.81 Aligned_cols=45 Identities=24% Similarity=0.661 Sum_probs=36.0
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
+|.+|......+ +....|+-.+|..|+..+++....||.|..-|.
T Consensus 183 ~Cn~Ch~LvIqg---~rCg~c~i~~h~~c~qty~q~~~~cphc~d~w~ 227 (235)
T KOG4718|consen 183 NCNLCHCLVIQG---IRCGSCNIQYHRGCIQTYLQRRDICPHCGDLWT 227 (235)
T ss_pred HHhHhHHHhhee---eccCcccchhhhHHHHHHhcccCcCCchhcccC
Confidence 588898877665 334458889999999999999889999976554
No 101
>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=92.76 E-value=0.077 Score=42.52 Aligned_cols=29 Identities=31% Similarity=0.960 Sum_probs=22.6
Q ss_pred CCChhhHHhHHHHHhC-------------CCCCCccCccccc
Q 033041 22 CNHSFHIGCIDMWFHS-------------HSTCPLCRTPVEL 50 (129)
Q Consensus 22 C~H~Fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~ 50 (129)
|.-..|..|+-+|+.+ +-.||+||+.+-.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 6678899999999854 2269999998753
No 102
>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=92.39 E-value=0.049 Score=31.11 Aligned_cols=28 Identities=25% Similarity=0.947 Sum_probs=21.4
Q ss_pred CC-ChhhHHhHHHHHhCCCCCCccCcccc
Q 033041 22 CN-HSFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 22 C~-H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
|. |..|..|+...+.....||+|..++.
T Consensus 18 C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 18 CSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp -SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred ecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 54 99999999999999999999998774
No 103
>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=92.32 E-value=0.15 Score=39.62 Aligned_cols=47 Identities=21% Similarity=0.540 Sum_probs=34.0
Q ss_pred ccccccccc-cCCC-cceEeCCCCChhhHHhHHHHHhC-CCCCCccCcccc
Q 033041 2 DCAVCLSEF-EENE-SGRVLPGCNHSFHIGCIDMWFHS-HSTCPLCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~-~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP~Cr~~~~ 49 (129)
.|++|..+. -.++ ...+-+ |+|..|.+|+...+.. ...||.|-..+.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~-C~H~lCEsCvd~iF~~g~~~CpeC~~iLR 51 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINE-CGHRLCESCVDRIFSLGPAQCPECMVILR 51 (300)
T ss_pred CCcccccceecCccceeeecc-ccchHHHHHHHHHHhcCCCCCCcccchhh
Confidence 589998753 3343 233345 9999999999988755 458999977653
No 104
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=92.02 E-value=0.044 Score=47.04 Aligned_cols=45 Identities=33% Similarity=0.913 Sum_probs=35.3
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCC---CCCCccCcccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSH---STCPLCRTPVE 49 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~---~~CP~Cr~~~~ 49 (129)
++|+||+..+..+ ..+. |.|.|+..|+..-+... ..||+|+..+.
T Consensus 22 lEc~ic~~~~~~p---~~~k-c~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 22 LECPICLEHVKEP---SLLK-CDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred ccCCceeEEeecc---chhh-hhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 5899999998887 4444 99999999998766543 46999986543
No 105
>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=91.99 E-value=0.15 Score=36.32 Aligned_cols=32 Identities=28% Similarity=0.750 Sum_probs=19.7
Q ss_pred CccccccccccCCCcceEeC------C-----CCCh-hhHHhHHHHH
Q 033041 1 MDCAVCLSEFEENESGRVLP------G-----CNHS-FHIGCIDMWF 35 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp------~-----C~H~-Fh~~Ci~~wl 35 (129)
.+|+|||+.--+. ++|. + |+.. -|..||+++-
T Consensus 3 ~~CpICme~PHNA---VLLlCSS~~kgcRpymc~Ts~rhSNCLdqfk 46 (162)
T PF07800_consen 3 VTCPICMEHPHNA---VLLLCSSHEKGCRPYMCDTSYRHSNCLDQFK 46 (162)
T ss_pred ccCceeccCCCce---EEEEeccccCCccccccCCccchhHHHHHHH
Confidence 4799999974333 3332 1 5543 3567998875
No 106
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.75 E-value=0.064 Score=45.87 Aligned_cols=40 Identities=25% Similarity=0.642 Sum_probs=29.0
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCC
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCP 42 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP 42 (129)
+-|.||+..|....-..+.+.|||..|.+|+... .+.+||
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--yn~scp 51 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--YNASCP 51 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--hhccCC
Confidence 3599999888655333333459999999999875 355788
No 107
>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=91.42 E-value=0.064 Score=40.80 Aligned_cols=48 Identities=27% Similarity=0.608 Sum_probs=34.8
Q ss_pred cccccccccc-CCC-cceEeCCCCChhhHHhHHHHHhC-CCCCC--ccCcccc
Q 033041 2 DCAVCLSEFE-ENE-SGRVLPGCNHSFHIGCIDMWFHS-HSTCP--LCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~~-~~~-~~~~lp~C~H~Fh~~Ci~~wl~~-~~~CP--~Cr~~~~ 49 (129)
-||||..+.. .|+ ...+.|.|-|.+|.+|++.-+.. ...|| -|.+.+.
T Consensus 12 ~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILR 64 (314)
T COG5220 12 RCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILR 64 (314)
T ss_pred cCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHH
Confidence 4999988633 333 34445579999999999998865 45799 6876554
No 108
>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=90.89 E-value=0.21 Score=28.96 Aligned_cols=43 Identities=28% Similarity=0.631 Sum_probs=23.0
Q ss_pred cccccccccCCC------cceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041 3 CAVCLSEFEENE------SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45 (129)
Q Consensus 3 C~IC~~~~~~~~------~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 45 (129)
|--|+..|.... .....+.|++.||.+|=.---+.-..||-|-
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 556777776542 3445678999999999544334455899883
No 109
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=90.81 E-value=0.16 Score=41.87 Aligned_cols=32 Identities=31% Similarity=0.723 Sum_probs=27.3
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHh
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH 36 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~ 36 (129)
+-|+||..-|.++ +++| |+|.+|..|...-+.
T Consensus 5 lkc~vc~~f~~ep---iil~-c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 5 LKCPVCGSFYREP---IILP-CSHNLCQACARNILV 36 (699)
T ss_pred ccCceehhhccCc---eEee-cccHHHHHHHHhhcc
Confidence 4699999999888 8898 999999999875543
No 110
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.00 E-value=0.17 Score=37.55 Aligned_cols=39 Identities=31% Similarity=0.756 Sum_probs=26.0
Q ss_pred cccccccccCCCcceEeCCCCC-hhhHHhHHHHHhCCCCCCccCcccc
Q 033041 3 CAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
|-+|.+. ...+.++| |.| .+|..|-.. -..||+|+....
T Consensus 161 Cr~C~~~---~~~VlllP-CrHl~lC~~C~~~----~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLP-CRHLCLCGICDES----LRICPICRSPKT 200 (207)
T ss_pred ceecCcC---CceEEeec-ccceEeccccccc----CccCCCCcChhh
Confidence 4445443 45678889 998 667777543 346999987653
No 111
>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=88.56 E-value=0.69 Score=27.30 Aligned_cols=44 Identities=18% Similarity=0.619 Sum_probs=31.0
Q ss_pred cccccccccCCCcceEeCCCC--ChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 3 CAVCLSEFEENESGRVLPGCN--HSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~--H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
|-.|-.++........+ |. ..||..|....| +..||-|...+..
T Consensus 8 CE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGelv~ 53 (57)
T PF06906_consen 8 CECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGELVR 53 (57)
T ss_pred ccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCcccc
Confidence 66677777655422333 55 489999998876 5689999887754
No 112
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=87.75 E-value=0.81 Score=28.81 Aligned_cols=52 Identities=17% Similarity=0.349 Sum_probs=19.8
Q ss_pred ccccccccccCCC---cceEeCCCCChhhHHhHHHHHh-CCCCCCccCccccccCC
Q 033041 2 DCAVCLSEFEENE---SGRVLPGCNHSFHIGCIDMWFH-SHSTCPLCRTPVELVTA 53 (129)
Q Consensus 2 ~C~IC~~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl~-~~~~CP~Cr~~~~~~~~ 53 (129)
.|.||-+.+.... ..+..-.|+--.|..|+.-=.+ .++.||.|+.++.....
T Consensus 11 iCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kg 66 (80)
T PF14569_consen 11 ICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKRHKG 66 (80)
T ss_dssp B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B----TT
T ss_pred ccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCcccccC
Confidence 5899999875322 2222224788889999865444 47789999988865443
No 113
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.38 E-value=0.38 Score=37.66 Aligned_cols=29 Identities=24% Similarity=0.682 Sum_probs=23.1
Q ss_pred CCChhhHHhHHHHHhC-------------CCCCCccCccccc
Q 033041 22 CNHSFHIGCIDMWFHS-------------HSTCPLCRTPVEL 50 (129)
Q Consensus 22 C~H~Fh~~Ci~~wl~~-------------~~~CP~Cr~~~~~ 50 (129)
|....|.+|+..|+.. .-+||+||+.+..
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 7789999999999742 3379999998753
No 114
>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 COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=87.07 E-value=0.69 Score=40.90 Aligned_cols=52 Identities=19% Similarity=0.575 Sum_probs=37.5
Q ss_pred ccccccccccCCCcceEeCCCC-----ChhhHHhHHHHHhC--CCCCCccCccccccCCCC
Q 033041 2 DCAVCLSEFEENESGRVLPGCN-----HSFHIGCIDMWFHS--HSTCPLCRTPVELVTAQP 55 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~-----H~Fh~~Ci~~wl~~--~~~CP~Cr~~~~~~~~~~ 55 (129)
.|-||..+=..++.. .-| |+ -..|..|+.+|+.- ...|-+|+.++..+.-..
T Consensus 14 ~CRICr~e~~~d~pL-fhP-CKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~Fk~IY~ 72 (1175)
T COG5183 14 SCRICRTEDIRDDPL-FHP-CKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYKFKDIYK 72 (1175)
T ss_pred hceeecCCCCCCCcC-ccc-ccccchhHHHHHHHHHHHHhcCCCcceeeecceeeeeeecc
Confidence 589998875444333 334 54 36899999999975 447999999998776543
No 116
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=86.85 E-value=0.32 Score=24.17 Aligned_cols=23 Identities=35% Similarity=0.758 Sum_probs=10.9
Q ss_pred ccccccccccCCCcceEeCCCCChh
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSF 26 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~F 26 (129)
.|+-|...+.. .....|.|||.|
T Consensus 2 ~CP~C~~~V~~--~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPE--SAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchh--hcCcCCCCCCCC
Confidence 35556555422 223444466655
No 117
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=86.83 E-value=0.38 Score=36.92 Aligned_cols=50 Identities=30% Similarity=0.713 Sum_probs=33.5
Q ss_pred ccccccccccCCCc-ceEeC-CCC---ChhhHHhHHHHHh--CCCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENES-GRVLP-GCN---HSFHIGCIDMWFH--SHSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~-~~~lp-~C~---H~Fh~~Ci~~wl~--~~~~CP~Cr~~~~~~ 51 (129)
.|-||..+...... ....| .|+ +..|..|+..|+. ....|.+|...+...
T Consensus 80 ~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~~~~ 136 (323)
T KOG1609|consen 80 ICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFFINV 136 (323)
T ss_pred cEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccceec
Confidence 48888886543321 23444 133 5789999999997 456899998766543
No 118
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.54 E-value=0.46 Score=38.98 Aligned_cols=33 Identities=21% Similarity=0.620 Sum_probs=26.3
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS 37 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~ 37 (129)
+|.||.+.+.. ....+. |+|.||..|...++..
T Consensus 72 ~c~ic~~~~~~--~~~~~~-c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 72 QCGICVESYDG--EIIGLG-CGHPFCPPCWTGYLGT 104 (444)
T ss_pred cCCcccCCCcc--hhhhcC-CCcHHHHHHHHHHhhh
Confidence 69999998765 334455 9999999999998854
No 119
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=85.58 E-value=0.41 Score=42.07 Aligned_cols=48 Identities=15% Similarity=0.194 Sum_probs=31.9
Q ss_pred ccccccccccCCC---cceEeCCCCChhhHHhHHHHHhC------CCCCCccCcccc
Q 033041 2 DCAVCLSEFEENE---SGRVLPGCNHSFHIGCIDMWFHS------HSTCPLCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~~~~~---~~~~lp~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~~~ 49 (129)
+|.||+..+..+. ....+.+|+|.||..||..|+.+ +-.|++|..-|.
T Consensus 98 Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~ 154 (1134)
T KOG0825|consen 98 TSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVG 154 (1134)
T ss_pred ccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhh
Confidence 5777777776532 12222259999999999999854 235777766553
No 120
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.31 E-value=0.59 Score=36.97 Aligned_cols=44 Identities=18% Similarity=0.440 Sum_probs=30.9
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC---CCCCCccC
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCR 45 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr 45 (129)
+.||+-.+.-........+. |||+.-..-+...-+. .+.||+|=
T Consensus 337 FiCPVlKe~~t~ENpP~ml~-CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 337 FICPVLKELCTDENPPVMLE-CGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred eeccccHhhhcccCCCeeee-ccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 35777666555545556676 9999998888776543 45799993
No 121
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.69 E-value=0.48 Score=38.32 Aligned_cols=42 Identities=24% Similarity=0.504 Sum_probs=31.0
Q ss_pred ccccccccccCC--CcceEeCCCCChhhHHhHHHHHhCCCCCCcc
Q 033041 2 DCAVCLSEFEEN--ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC 44 (129)
Q Consensus 2 ~C~IC~~~~~~~--~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C 44 (129)
.|++|.-.+.-. -...... |||.||..|...|...+..|..|
T Consensus 308 ~CpkC~~~ie~~~GCnhm~Cr-C~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 308 QCPKCKFMIELSEGCNHMTCR-CGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred cCcccceeeeecCCcceEEee-ccccchhhcCcchhhCCccccCc
Confidence 588887765433 3445555 99999999999998877777554
No 122
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=84.64 E-value=0.59 Score=40.80 Aligned_cols=40 Identities=25% Similarity=0.477 Sum_probs=28.6
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPL 43 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~ 43 (129)
.|.+|...+..- ....+.|+|.-|..|+..|+..+..||.
T Consensus 781 ~CtVC~~vi~G~--~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 781 KCTVCDLVIRGV--DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred Cceeecceeeee--EeecccccccccHHHHHHHHhcCCCCcc
Confidence 366676554321 2234469999999999999998887766
No 123
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=84.38 E-value=0.45 Score=40.43 Aligned_cols=28 Identities=29% Similarity=0.674 Sum_probs=19.8
Q ss_pred ceEeCCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041 16 GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRT 46 (129)
Q Consensus 16 ~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 46 (129)
+.....|+++||..|+.. ....||.|-.
T Consensus 531 ~~rC~~C~avfH~~C~~r---~s~~CPrC~R 558 (580)
T KOG1829|consen 531 TRRCSTCLAVFHKKCLRR---KSPCCPRCER 558 (580)
T ss_pred ceeHHHHHHHHHHHHHhc---cCCCCCchHH
Confidence 344445999999999755 3445999943
No 124
>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=84.28 E-value=0.53 Score=26.46 Aligned_cols=43 Identities=26% Similarity=0.550 Sum_probs=28.9
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHh------CCCCCCccC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH------SHSTCPLCR 45 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~------~~~~CP~Cr 45 (129)
.|.||... ......+.-..|+..||..|+..-.. ....||.|+
T Consensus 1 ~C~vC~~~-~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQS-DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSS-CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCc-CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 48899883 33334455556999999999865432 245788875
No 125
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=83.74 E-value=1.3 Score=35.09 Aligned_cols=48 Identities=25% Similarity=0.656 Sum_probs=35.6
Q ss_pred ccccccccccCCCcc-eEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 2 DCAVCLSEFEENESG-RVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~-~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
.|+||.+.+...+.. .-.+ |++..|..|+..-...+..||.||+++..
T Consensus 251 s~p~~~~~~~~~d~~~lP~~-~~~~~~l~~~~t~~~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 251 SCPICYEDLDLTDSNFLPCP-CGFRLCLFCHKTISDGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCccccccccccccc-ccccchhhhhhcccccCCCCCccCCcccc
Confidence 589999987544322 2234 88888888988877778899999966544
No 126
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=83.26 E-value=0.95 Score=33.33 Aligned_cols=38 Identities=32% Similarity=0.850 Sum_probs=26.9
Q ss_pred cccccccc-----ccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041 2 DCAVCLSE-----FEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45 (129)
Q Consensus 2 ~C~IC~~~-----~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 45 (129)
.|.||-+. |+. +.+...++|+..||..|... ..||-|-
T Consensus 154 iCe~C~~~~~IfPF~~-~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 154 ICEICNSDDIIFPFQI-DTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCccCCCCCCCCCCCC-CCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 57788753 222 35566677999999999752 6799994
No 127
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=82.24 E-value=0.59 Score=25.01 Aligned_cols=13 Identities=23% Similarity=0.736 Sum_probs=8.0
Q ss_pred ccccccccccCCC
Q 033041 2 DCAVCLSEFEENE 14 (129)
Q Consensus 2 ~C~IC~~~~~~~~ 14 (129)
+|+-|...|..++
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 5777776665443
No 128
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.33 E-value=0.88 Score=38.32 Aligned_cols=43 Identities=37% Similarity=0.927 Sum_probs=32.8
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVT 52 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 52 (129)
.|.||+..+ ..+..+ |. |..|+.+|+..+.+||+|+..+....
T Consensus 481 ~~~~~~~~~----~~~~~~-~~---~~~~l~~~~~~~~~~pl~~~~~~~~~ 523 (543)
T KOG0802|consen 481 VCAICYQEM----SARITP-CS---HALCLRKWLYVQEVCPLCHTYMKEDD 523 (543)
T ss_pred cchHHHHHH----Hhcccc-cc---chhHHHhhhhhccccCCCchhhhccc
Confidence 477787777 224455 77 78999999999999999988776543
No 129
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=81.15 E-value=1.4 Score=33.88 Aligned_cols=48 Identities=19% Similarity=0.239 Sum_probs=31.3
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
-|+|=.-+|........+..|||+|-..-+.+. ....|++|.+.|...
T Consensus 113 iCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~~~ 160 (293)
T KOG3113|consen 113 ICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQED 160 (293)
T ss_pred ecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccccc
Confidence 366655555444333334349999988877664 356899999987543
No 130
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=79.10 E-value=1.9 Score=29.08 Aligned_cols=43 Identities=26% Similarity=0.524 Sum_probs=30.0
Q ss_pred cccccccccCC----------CcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041 3 CAVCLSEFEEN----------ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45 (129)
Q Consensus 3 C~IC~~~~~~~----------~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 45 (129)
|--|...|... ......++|++.||.+|-..+-+.-..||-|.
T Consensus 58 C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~ 110 (112)
T TIGR00622 58 CFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCI 110 (112)
T ss_pred ccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCC
Confidence 66677766532 11223556999999999877767777899995
No 131
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.45 E-value=0.95 Score=35.35 Aligned_cols=37 Identities=19% Similarity=0.417 Sum_probs=26.3
Q ss_pred CccccccccccCCCcceEeCC-CCChhhHHhHHHHHhCC
Q 033041 1 MDCAVCLSEFEENESGRVLPG-CNHSFHIGCIDMWFHSH 38 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~-C~H~Fh~~Ci~~wl~~~ 38 (129)
|.|.+|.+.+++. ..+..|. =.|.||+.|-...++.+
T Consensus 269 LcCTLC~ERLEDT-HFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 269 LCCTLCHERLEDT-HFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred eeehhhhhhhccC-ceeecCCCcccceecccCHHHHHhh
Confidence 4699999998765 2232221 25999999999888753
No 132
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=77.36 E-value=1.1 Score=23.79 Aligned_cols=27 Identities=22% Similarity=0.641 Sum_probs=14.9
Q ss_pred CccccccccccCCCc-------ceEeCCCCChhh
Q 033041 1 MDCAVCLSEFEENES-------GRVLPGCNHSFH 27 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~-------~~~lp~C~H~Fh 27 (129)
++|+-|.-.|..++. ....++|+|.|+
T Consensus 3 i~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred EECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 367777777765432 122334667663
No 133
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=76.49 E-value=3.6 Score=37.48 Aligned_cols=50 Identities=18% Similarity=0.403 Sum_probs=33.8
Q ss_pred ccccccccccCC---CcceEeCCCCChhhHHhHHH-HHhCCCCCCccCcccccc
Q 033041 2 DCAVCLSEFEEN---ESGRVLPGCNHSFHIGCIDM-WFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~---~~~~~lp~C~H~Fh~~Ci~~-wl~~~~~CP~Cr~~~~~~ 51 (129)
.|.||-+++... +..+....|+--.|..|..- .-+.+..||.|++.+...
T Consensus 19 iCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr~ 72 (1079)
T PLN02638 19 VCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKRH 72 (1079)
T ss_pred eeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhhh
Confidence 599999987532 22223334777799999842 223477899999988633
No 134
>smart00132 LIM Zinc-binding domain present in Lin-11, Isl-1, Mec-3. Zinc-binding domain family. Some LIM domains bind protein partners via tyrosine-containing motifs. LIM domains are found in many key regulators of developmental pathways.
Probab=76.21 E-value=2 Score=22.02 Aligned_cols=36 Identities=25% Similarity=0.600 Sum_probs=23.1
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 48 (129)
|..|...+...+. .+.. =+..||..|+ .|..|...+
T Consensus 2 C~~C~~~i~~~~~-~~~~-~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGEL-VLRA-LGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcE-EEEe-CCccccccCC--------CCcccCCcC
Confidence 7788887765422 2222 4677888775 677787655
No 135
>PLN02189 cellulose synthase
Probab=75.38 E-value=4 Score=37.10 Aligned_cols=50 Identities=18% Similarity=0.389 Sum_probs=34.2
Q ss_pred ccccccccccCC---CcceEeCCCCChhhHHhHHHHH-hCCCCCCccCcccccc
Q 033041 2 DCAVCLSEFEEN---ESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~---~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~~~ 51 (129)
.|.||.+++... +..+....|+--.|..|..-=. +.++.||.|++.+...
T Consensus 36 ~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~ 89 (1040)
T PLN02189 36 VCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKRL 89 (1040)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhc
Confidence 599999997532 2223333488889999984322 3367899999988743
No 136
>PLN02436 cellulose synthase A
Probab=73.67 E-value=4.6 Score=36.84 Aligned_cols=50 Identities=22% Similarity=0.472 Sum_probs=33.8
Q ss_pred ccccccccccC---CCcceEeCCCCChhhHHhHHHHH-hCCCCCCccCcccccc
Q 033041 2 DCAVCLSEFEE---NESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~---~~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~~~ 51 (129)
.|.||-+++.. ++..+-...|+--.|..|..-=. ..++.||.|++.+...
T Consensus 38 iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~ 91 (1094)
T PLN02436 38 TCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKRI 91 (1094)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhhc
Confidence 59999999742 32233333477789999994322 2367899999988633
No 137
>PLN02400 cellulose synthase
Probab=73.67 E-value=4 Score=37.26 Aligned_cols=50 Identities=16% Similarity=0.340 Sum_probs=33.5
Q ss_pred ccccccccccCC---CcceEeCCCCChhhHHhHHHH-HhCCCCCCccCcccccc
Q 033041 2 DCAVCLSEFEEN---ESGRVLPGCNHSFHIGCIDMW-FHSHSTCPLCRTPVELV 51 (129)
Q Consensus 2 ~C~IC~~~~~~~---~~~~~lp~C~H~Fh~~Ci~~w-l~~~~~CP~Cr~~~~~~ 51 (129)
.|.||-+++... +..+..-.|+--.|..|..-= -+.+..||.|+..+.-.
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR~ 91 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRRH 91 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCccccc
Confidence 599999987532 222233347777999998421 23367899999988643
No 138
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=72.55 E-value=2.5 Score=32.63 Aligned_cols=47 Identities=26% Similarity=0.659 Sum_probs=32.5
Q ss_pred ccccccccccCCCcceEe---CCCCChhhHHhHHHHHhC---------CCCCCccCccc
Q 033041 2 DCAVCLSEFEENESGRVL---PGCNHSFHIGCIDMWFHS---------HSTCPLCRTPV 48 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~l---p~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~ 48 (129)
+|-+|...+.+.+..+.. +.|+-.+|..|+...+.. ...||.|++.+
T Consensus 184 ~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 184 ECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 688999998544433322 258889999999885432 22699998744
No 139
>PF00412 LIM: LIM domain; InterPro: IPR001781 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents LIM-type zinc finger (Znf) domains. LIM domains coordinate one or more zinc atoms, and are named after the three proteins (LIN-11, Isl1 and MEC-3) in which they were first found. They consist of two zinc-binding motifs that resemble GATA-like Znf's, however the residues holding the zinc atom(s) are variable, involving Cys, His, Asp or Glu residues. LIM domains are involved in proteins with differing functions, including gene expression, and cytoskeleton organisation and development [, ]. Protein containing LIM Znf domains include: Caenorhabditis elegans mec-3; a protein required for the differentiation of the set of six touch receptor neurons in this nematode. C. elegans. lin-11; a protein required for the asymmetric division of vulval blast cells. Vertebrate insulin gene enhancer binding protein isl-1. Isl-1 binds to one of the two cis-acting protein-binding domains of the insulin gene. Vertebrate homeobox proteins lim-1, lim-2 (lim-5) and lim3. Vertebrate lmx-1, which acts as a transcriptional activator by binding to the FLAT element; a beta-cell-specific transcriptional enhancer found in the insulin gene. Mammalian LH-2, a transcriptional regulatory protein involved in the control of cell differentiation in developing lymphoid and neural cell types. Drosophila melanogaster (Fruit fly) protein apterous, required for the normal development of the wing and halter imaginal discs. Vertebrate protein kinases LIMK-1 and LIMK-2. Mammalian rhombotins. Rhombotin 1 (RBTN1 or TTG-1) and rhombotin-2 (RBTN2 or TTG-2) are proteins of about 160 amino acids whose genes are disrupted by chromosomal translocations in T-cell leukemia. Mammalian and avian cysteine-rich protein (CRP), a 192 amino-acid protein of unknown function. Seems to interact with zyxin. Mammalian cysteine-rich intestinal protein (CRIP), a small protein which seems to have a role in zinc absorption and may function as an intracellular zinc transport protein. Vertebrate paxillin, a cytoskeletal focal adhesion protein. Mus musculus (Mouse) testin which should not be confused with rat testin which is a thiol protease homologue (see IPR000169 from INTERPRO). Helianthus annuus (Common sunflower) pollen specific protein SF3. Chicken zyxin. Zyxin is a low-abundance adhesion plaque protein which has been shown to interact with CRP. Yeast protein LRG1 which is involved in sporulation []. Saccharomyces cerevisiae (Baker's yeast) rho-type GTPase activating protein RGA1/DBM1. C. elegans homeobox protein ceh-14. C. elegans homeobox protein unc-97. S. cerevisiae hypothetical protein YKR090w. C. elegans hypothetical proteins C28H8.6. These proteins generally contain two tandem copies of the LIM domain in their N-terminal section. Zyxin and paxillin are exceptions in that they contain respectively three and four LIM domains at their C-terminal extremity. In apterous, isl-1, LH-2, lin-11, lim-1 to lim-3, lmx-1 and ceh-14 and mec-3 there is a homeobox domain some 50 to 95 amino acids after the LIM domains. LIM domains contain seven conserved cysteine residues and a histidine. The arrangement followed by these conserved residues is: C-x(2)-C-x(16,23)-H-x(2)-[CH]-x(2)-C-x(2)-C-x(16,21)-C-x(2,3)-[CHD] LIM domains bind two zinc ions []. LIM does not bind DNA, rather it seems to act as an interface for protein-protein interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CO8_A 2EGQ_A 2CUR_A 3IXE_B 1CTL_A 1B8T_A 1X62_A 2DFY_C 1IML_A 2CUQ_A ....
Probab=70.14 E-value=2.4 Score=24.09 Aligned_cols=39 Identities=23% Similarity=0.435 Sum_probs=26.5
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
|..|...+.....+.. . -+..||..|+ .|-.|+..+...
T Consensus 1 C~~C~~~I~~~~~~~~-~-~~~~~H~~Cf--------~C~~C~~~l~~~ 39 (58)
T PF00412_consen 1 CARCGKPIYGTEIVIK-A-MGKFWHPECF--------KCSKCGKPLNDG 39 (58)
T ss_dssp BTTTSSBESSSSEEEE-E-TTEEEETTTS--------BETTTTCBTTTS
T ss_pred CCCCCCCccCcEEEEE-e-CCcEEEcccc--------ccCCCCCccCCC
Confidence 6778888775533222 3 6788888775 789998877543
No 140
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=70.00 E-value=2 Score=37.79 Aligned_cols=40 Identities=25% Similarity=0.559 Sum_probs=26.3
Q ss_pred cccccccccCC----CcceEeCCCCChhhHHhHHHHHhCCCCCCcc
Q 033041 3 CAVCLSEFEEN----ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLC 44 (129)
Q Consensus 3 C~IC~~~~~~~----~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~C 44 (129)
|.-|++..... ..+.++- |+|.||..|+.....++. |-.|
T Consensus 787 c~~c~~~~l~~~~~~~~~~v~~-c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 787 CSSCFEPNLPSGAAFDSVVVFH-CGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhcccccccCcccceeeEEE-ccchhhhcccccHHHhcc-cChh
Confidence 66676654321 3455666 999999999977665544 5554
No 141
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.22 E-value=1.2 Score=34.96 Aligned_cols=45 Identities=27% Similarity=0.643 Sum_probs=33.1
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
|-||...+..+ ....+|.|.|+..|...|....+.||.|+....+
T Consensus 108 ~~~~~g~l~vp---t~~qg~w~qf~~~~p~~~~~~~~~~~d~~~~~~p 152 (324)
T KOG0824|consen 108 CYICYGKLTVP---TRIQGCWHQFCYVCPKSNFAMGNDCPDCRGKISP 152 (324)
T ss_pred eeeeeeeEEec---ccccCceeeeeecCCchhhhhhhccchhhcCcCc
Confidence 55566555544 2233599999999999999999999999875543
No 142
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=68.71 E-value=3.2 Score=23.81 Aligned_cols=36 Identities=31% Similarity=0.756 Sum_probs=19.7
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHh--CCCCCCccCcc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH--SHSTCPLCRTP 47 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~--~~~~CP~Cr~~ 47 (129)
+.||.|.+.|... .| +.| |...-.. ....||+|...
T Consensus 3 f~CP~C~~~~~~~----~L--~~H-----~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 3 FTCPYCGKGFSES----SL--VEH-----CEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred cCCCCCCCccCHH----HH--HHH-----HHhHCcCCCCCccCCCchhh
Confidence 4688888865443 22 333 3333222 23479999753
No 143
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=68.56 E-value=1.6 Score=35.47 Aligned_cols=33 Identities=30% Similarity=0.767 Sum_probs=0.0
Q ss_pred eEeCCCCChhhHHhHHHHHhC---------CCCCCccCccccc
Q 033041 17 RVLPGCNHSFHIGCIDMWFHS---------HSTCPLCRTPVEL 50 (129)
Q Consensus 17 ~~lp~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~~~ 50 (129)
...| |||.--.....-|-+- +..||.|-.++..
T Consensus 361 aF~P-CGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~g 402 (416)
T PF04710_consen 361 AFNP-CGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLDG 402 (416)
T ss_dssp -------------------------------------------
T ss_pred eecc-cccccchhhhhhhhcCCCCCCcccccccCCcccCcccC
Confidence 3456 9998777788888642 3479999887764
No 144
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=68.33 E-value=4.9 Score=20.13 Aligned_cols=29 Identities=17% Similarity=0.402 Sum_probs=10.4
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhH
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCI 31 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci 31 (129)
.|.+|...+.. .....-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 58888888765 233444458889998885
No 145
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=67.78 E-value=5.1 Score=31.92 Aligned_cols=32 Identities=28% Similarity=0.728 Sum_probs=22.4
Q ss_pred EeCCCCChhhHHhHHHHHhC---------CCCCCccCccccc
Q 033041 18 VLPGCNHSFHIGCIDMWFHS---------HSTCPLCRTPVEL 50 (129)
Q Consensus 18 ~lp~C~H~Fh~~Ci~~wl~~---------~~~CP~Cr~~~~~ 50 (129)
..| |||.--..-..-|-+. +..||.|-..+..
T Consensus 375 F~P-CGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L~g 415 (429)
T KOG3842|consen 375 FNP-CGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQLAG 415 (429)
T ss_pred cCC-cccccchhhhhHhhcCcCCCccccccccCcchhhhhcc
Confidence 456 9997767777777642 4479999876643
No 146
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=67.39 E-value=3.2 Score=33.08 Aligned_cols=42 Identities=24% Similarity=0.559 Sum_probs=25.9
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 45 (129)
|-.|.+....... .....|++.||.+|-.---++-..||.|.
T Consensus 333 Cf~C~~~~~~~~~-y~C~~Ck~~FCldCDv~iHesLh~CpgCe 374 (378)
T KOG2807|consen 333 CFACQGELLSSGR-YRCESCKNVFCLDCDVFIHESLHNCPGCE 374 (378)
T ss_pred eeeeccccCCCCc-EEchhccceeeccchHHHHhhhhcCCCcC
Confidence 5555444433322 23334999999999655444556799996
No 147
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=67.32 E-value=7.7 Score=24.17 Aligned_cols=47 Identities=17% Similarity=0.470 Sum_probs=28.5
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
|--|-.++.....-..+-.=.|.||..|....| +..||-|...+...
T Consensus 8 CECCDrDLpp~s~dA~ICtfEcTFCadCae~~l--~g~CPnCGGelv~R 54 (84)
T COG3813 8 CECCDRDLPPDSTDARICTFECTFCADCAENRL--HGLCPNCGGELVAR 54 (84)
T ss_pred CcccCCCCCCCCCceeEEEEeeehhHhHHHHhh--cCcCCCCCchhhcC
Confidence 444555554433222220034799999997654 45899998877543
No 148
>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=66.41 E-value=2.4 Score=25.32 Aligned_cols=34 Identities=15% Similarity=0.385 Sum_probs=16.0
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHH
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF 35 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 35 (129)
.|.+|...|..-..--....||++||..|....+
T Consensus 11 ~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 11 NCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp B-TTT--B-BSSS-EEE-TTT--EEECCCS-EEE
T ss_pred cCcCcCCcCCCceeeEccCCCCCEECCchhCCEE
Confidence 5888998885432222233499999998876543
No 149
>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=66.26 E-value=0.46 Score=29.32 Aligned_cols=42 Identities=26% Similarity=0.611 Sum_probs=22.1
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
+.||.|...|... =+|.+|..|-.. +.....||-|..++...
T Consensus 2 ~~CP~C~~~L~~~--------~~~~~C~~C~~~-~~~~a~CPdC~~~Le~L 43 (70)
T PF07191_consen 2 NTCPKCQQELEWQ--------GGHYHCEACQKD-YKKEAFCPDCGQPLEVL 43 (70)
T ss_dssp -B-SSS-SBEEEE--------TTEEEETTT--E-EEEEEE-TTT-SB-EEE
T ss_pred CcCCCCCCccEEe--------CCEEECcccccc-ceecccCCCcccHHHHH
Confidence 4699998886543 255566667654 33455799999887653
No 150
>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=65.51 E-value=3.9 Score=24.91 Aligned_cols=12 Identities=25% Similarity=1.038 Sum_probs=8.6
Q ss_pred hhhHHhHHHHHh
Q 033041 25 SFHIGCIDMWFH 36 (129)
Q Consensus 25 ~Fh~~Ci~~wl~ 36 (129)
-||..||.+|+.
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999984
No 151
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=63.90 E-value=2.9 Score=34.16 Aligned_cols=32 Identities=13% Similarity=0.464 Sum_probs=22.0
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHH
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMW 34 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~w 34 (129)
++|+||+-.+......... |.-.+|..|+.++
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 4899999987654322222 7788888887654
No 152
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=63.69 E-value=1.8 Score=25.05 Aligned_cols=19 Identities=32% Similarity=0.702 Sum_probs=13.9
Q ss_pred ceEeCCCCChhhHHhHHHH
Q 033041 16 GRVLPGCNHSFHIGCIDMW 34 (129)
Q Consensus 16 ~~~lp~C~H~Fh~~Ci~~w 34 (129)
.+..+.|+|.||..|...|
T Consensus 40 ~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 40 RVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred eeECCCCCCeECCCCCCcC
Confidence 4445458899988888777
No 153
>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=63.19 E-value=4.9 Score=22.88 Aligned_cols=34 Identities=18% Similarity=0.354 Sum_probs=21.9
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHH
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF 35 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 35 (129)
.|.+|...|..-..-.....||++|+..|.....
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 4778877776532222233499999999986543
No 154
>PRK05978 hypothetical protein; Provisional
Probab=62.72 E-value=6 Score=27.93 Aligned_cols=32 Identities=19% Similarity=0.482 Sum_probs=23.6
Q ss_pred EeCCCC--ChhhHHhHHHHHhCCCCCCccCccccccCCC
Q 033041 18 VLPGCN--HSFHIGCIDMWFHSHSTCPLCRTPVELVTAQ 54 (129)
Q Consensus 18 ~lp~C~--H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~~ 54 (129)
..|+|| +.|. .+|+.+..|+.|..++......
T Consensus 35 rCP~CG~G~LF~-----g~Lkv~~~C~~CG~~~~~~~a~ 68 (148)
T PRK05978 35 RCPACGEGKLFR-----AFLKPVDHCAACGEDFTHHRAD 68 (148)
T ss_pred cCCCCCCCcccc-----cccccCCCccccCCccccCCcc
Confidence 345676 6665 6788899999999888765444
No 155
>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=62.42 E-value=1.1 Score=34.58 Aligned_cols=42 Identities=24% Similarity=0.364 Sum_probs=18.6
Q ss_pred ccccccccccCCCcceEeC----CCCChhhHHhHHHHHhCCCCCCccCc
Q 033041 2 DCAVCLSEFEENESGRVLP----GCNHSFHIGCIDMWFHSHSTCPLCRT 46 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp----~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 46 (129)
.||||-..-... .+.. +=.|.+|..|-..|......||.|-.
T Consensus 174 ~CPvCGs~P~~s---~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 174 YCPVCGSPPVLS---VLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp S-TTT---EEEE---EEE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred cCCCCCCcCceE---EEecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 599998763221 1111 12356777788899777788999954
No 156
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=61.39 E-value=7.5 Score=35.46 Aligned_cols=49 Identities=20% Similarity=0.385 Sum_probs=33.4
Q ss_pred ccccccccccCC---CcceEeCCCCChhhHHhHHHHH-hCCCCCCccCccccc
Q 033041 2 DCAVCLSEFEEN---ESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPVEL 50 (129)
Q Consensus 2 ~C~IC~~~~~~~---~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~~ 50 (129)
.|.||-+++... +..+..-.|+--.|..|..-=. +.+..||.|+..+..
T Consensus 17 ~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 17 TCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred hhhccccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 499999987532 2222333477779999994322 336789999998874
No 157
>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=60.19 E-value=2.9 Score=34.05 Aligned_cols=28 Identities=36% Similarity=0.683 Sum_probs=0.0
Q ss_pred ceEeCCCCChhhHHhHHHHHhC------CCCCCccCcc
Q 033041 16 GRVLPGCNHSFHIGCIDMWFHS------HSTCPLCRTP 47 (129)
Q Consensus 16 ~~~lp~C~H~Fh~~Ci~~wl~~------~~~CP~Cr~~ 47 (129)
...+. |||++..+ .|... ...||+|+..
T Consensus 304 ~VYl~-CGHVhG~h---~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 304 WVYLN-CGHVHGYH---NWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp --------------------------------------
T ss_pred eeecc-ccceeeec---ccccccccccccccCCCcccc
Confidence 34444 99987654 56532 4579999874
No 158
>PLN02248 cellulose synthase-like protein
Probab=60.04 E-value=12 Score=34.36 Aligned_cols=30 Identities=23% Similarity=0.540 Sum_probs=26.5
Q ss_pred CCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 21 GCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 21 ~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
.|++.+|.+|...-++....||-|+.++..
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 149 ECGFKICRDCYIDAVKSGGICPGCKEPYKV 178 (1135)
T ss_pred cccchhHHhHhhhhhhcCCCCCCCcccccc
Confidence 488999999999988888899999998854
No 159
>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=60.03 E-value=8.4 Score=25.96 Aligned_cols=32 Identities=19% Similarity=0.439 Sum_probs=22.4
Q ss_pred ceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccCC
Q 033041 16 GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTA 53 (129)
Q Consensus 16 ~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 53 (129)
....|+|++.. +.+.+...|+.|+.++..+..
T Consensus 69 ~V~CP~C~K~T------KmLGr~D~CM~C~~pLTLd~~ 100 (114)
T PF11023_consen 69 QVECPNCGKQT------KMLGRVDACMHCKEPLTLDPS 100 (114)
T ss_pred eeECCCCCChH------hhhchhhccCcCCCcCccCch
Confidence 45677888843 445556789999999876543
No 160
>PLN02195 cellulose synthase A
Probab=58.99 E-value=9.6 Score=34.56 Aligned_cols=48 Identities=21% Similarity=0.453 Sum_probs=33.3
Q ss_pred ccccccccccCC---CcceEeCCCCChhhHHhHHHHH-hCCCCCCccCcccc
Q 033041 2 DCAVCLSEFEEN---ESGRVLPGCNHSFHIGCIDMWF-HSHSTCPLCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~~~~---~~~~~lp~C~H~Fh~~Ci~~wl-~~~~~CP~Cr~~~~ 49 (129)
.|.||-+.+... +..+..-.|+--.|+.|..-=. +.++.||.|++.+.
T Consensus 8 ~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 8 ICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYD 59 (977)
T ss_pred cceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCccc
Confidence 499999977533 2233333588889999984322 33678999999887
No 161
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=58.98 E-value=6.3 Score=29.85 Aligned_cols=25 Identities=28% Similarity=0.676 Sum_probs=18.7
Q ss_pred CccccccccccCCCcceEeCCCCChh
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSF 26 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~F 26 (129)
+.||||...+.......... .+|.|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~-~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICP-QNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcC-CCCCC
Confidence 46999999997655555555 68888
No 162
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=58.49 E-value=4.9 Score=30.92 Aligned_cols=30 Identities=17% Similarity=0.281 Sum_probs=24.8
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHh
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFH 36 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~ 36 (129)
|.+|+..+..+ ++.+ =||+|+..||.+++.
T Consensus 46 CsLtLqPc~dP---vit~-~GylfdrEaILe~il 75 (303)
T KOG3039|consen 46 CSLTLQPCRDP---VITP-DGYLFDREAILEYIL 75 (303)
T ss_pred eeeecccccCC---ccCC-CCeeeeHHHHHHHHH
Confidence 77888888777 6666 899999999998874
No 163
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=55.35 E-value=8.4 Score=22.06 Aligned_cols=24 Identities=25% Similarity=0.771 Sum_probs=13.6
Q ss_pred CCCCChhhHHhHHHHHhCCCCCCcc
Q 033041 20 PGCNHSFHIGCIDMWFHSHSTCPLC 44 (129)
Q Consensus 20 p~C~H~Fh~~Ci~~wl~~~~~CP~C 44 (129)
+.|||.|-.. |.........||.|
T Consensus 32 ~~Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 32 PKCGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCCCeeEcc-HhhhccCCCCCCCC
Confidence 4577876543 22222445678887
No 164
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=55.04 E-value=5.4 Score=33.15 Aligned_cols=50 Identities=16% Similarity=0.383 Sum_probs=31.4
Q ss_pred CccccccccccCC-CcceEeCCCCChhhHHhHHHHHhC--------CCCCCccCccccc
Q 033041 1 MDCAVCLSEFEEN-ESGRVLPGCNHSFHIGCIDMWFHS--------HSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~--------~~~CP~Cr~~~~~ 50 (129)
+.|.+|+...... ..+...-+|+-+||..|.+..... ...|=+|...-..
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~ 227 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKK 227 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchhh
Confidence 3588998654332 233334469999999998765421 2369999664433
No 165
>PF14353 CpXC: CpXC protein
Probab=54.03 E-value=14 Score=24.72 Aligned_cols=46 Identities=22% Similarity=0.343 Sum_probs=23.2
Q ss_pred CccccccccccCCCcceEeCCCCChhhHHhHHHHHhC---CCCCCccCccccc
Q 033041 1 MDCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS---HSTCPLCRTPVEL 50 (129)
Q Consensus 1 ~~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~---~~~CP~Cr~~~~~ 50 (129)
++||-|...+...-...+.. .....-...-+.. ..+||.|...+..
T Consensus 2 itCP~C~~~~~~~v~~~I~~----~~~p~l~e~il~g~l~~~~CP~Cg~~~~~ 50 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWTSINA----DEDPELKEKILDGSLFSFTCPSCGHKFRL 50 (128)
T ss_pred cCCCCCCCeeEEEEEeEEcC----cCCHHHHHHHHcCCcCEEECCCCCCceec
Confidence 46777777765542211111 1222233333332 3479999887643
No 166
>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 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=52.01 E-value=5.6 Score=22.78 Aligned_cols=11 Identities=45% Similarity=1.277 Sum_probs=5.9
Q ss_pred CCCccCccccc
Q 033041 40 TCPLCRTPVEL 50 (129)
Q Consensus 40 ~CP~Cr~~~~~ 50 (129)
.||+|..++..
T Consensus 22 ~CPlC~r~l~~ 32 (54)
T PF04423_consen 22 CCPLCGRPLDE 32 (54)
T ss_dssp E-TTT--EE-H
T ss_pred cCCCCCCCCCH
Confidence 89999988754
No 168
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=51.57 E-value=7.8 Score=29.79 Aligned_cols=40 Identities=13% Similarity=0.257 Sum_probs=27.1
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCcc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPLC 44 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~C 44 (129)
.|||=...+..+ .+-.+|||+|-..-|...+.. .-.||+=
T Consensus 178 rdPis~~~I~nP---viSkkC~HvydrDsI~~~l~~~~~i~CPv~ 219 (262)
T KOG2979|consen 178 RDPISKKPIVNP---VISKKCGHVYDRDSIMQILCDEITIRCPVL 219 (262)
T ss_pred cCchhhhhhhch---hhhcCcCcchhhhhHHHHhccCceeecccc
Confidence 456555555554 333359999999999998866 3368873
No 169
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=50.89 E-value=9.3 Score=33.89 Aligned_cols=29 Identities=31% Similarity=0.670 Sum_probs=20.4
Q ss_pred EeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 18 VLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 18 ~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
+.+.|+|..|.+=|.+ ...||+|...+..
T Consensus 1158 lC~~CkH~a~~~EIs~----y~~CPLCHs~~~~ 1186 (1189)
T KOG2041|consen 1158 LCPRCKHRAHQHEISK----YNCCPLCHSMESF 1186 (1189)
T ss_pred Eccccccccccccccc----cccCccccChhhc
Confidence 4456889887765533 5689999876654
No 170
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=48.43 E-value=10 Score=26.98 Aligned_cols=43 Identities=26% Similarity=0.465 Sum_probs=28.7
Q ss_pred cccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 5 VCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 5 IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
||++-=...+....-|.=.+.||..|-.+-+. .||.|..++.-
T Consensus 9 iC~NGH~~t~~~~~~p~~~~~fC~kCG~~tI~---~Cp~C~~~IrG 51 (158)
T PF10083_consen 9 ICLNGHVITDSYDKNPELREKFCSKCGAKTIT---SCPNCSTPIRG 51 (158)
T ss_pred HccCccccccccccCchHHHHHHHHhhHHHHH---HCcCCCCCCCC
Confidence 66665444433344444567899999887654 59999988754
No 171
>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=47.31 E-value=18 Score=23.86 Aligned_cols=24 Identities=29% Similarity=0.708 Sum_probs=18.4
Q ss_pred CChhhHHhHHHHHhC---------CCCCCccCc
Q 033041 23 NHSFHIGCIDMWFHS---------HSTCPLCRT 46 (129)
Q Consensus 23 ~H~Fh~~Ci~~wl~~---------~~~CP~Cr~ 46 (129)
.=.||..||..++.. ...||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 668999999877632 347999987
No 172
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=46.62 E-value=11 Score=24.45 Aligned_cols=29 Identities=28% Similarity=0.640 Sum_probs=18.5
Q ss_pred ccccccccccCCCcceEe--CCCCChhhHHhHHH
Q 033041 2 DCAVCLSEFEENESGRVL--PGCNHSFHIGCIDM 33 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~l--p~C~H~Fh~~Ci~~ 33 (129)
.|.||...... .... ++|...||..|...
T Consensus 57 ~C~iC~~~~G~---~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 57 KCSICGKSGGA---CIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCcCCCCCCce---eEEcCCCCCCcCCCHHHHHH
Confidence 57888776221 1221 24888999999865
No 173
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.56 E-value=24 Score=30.84 Aligned_cols=47 Identities=26% Similarity=0.538 Sum_probs=33.2
Q ss_pred ccccccccccCCCcceEeCCCCC-hhhHHhHHHHHh--C----CCCCCccCccccccC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWFH--S----HSTCPLCRTPVELVT 52 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl~--~----~~~CP~Cr~~~~~~~ 52 (129)
.|+||-..+... ....||| ..+..|...... . ...||+|+..+....
T Consensus 2 ~c~ic~~s~~~~----~~~s~~h~~v~~~~~~R~~~~~~~~~~~~~~~vcr~~~~~~s 55 (669)
T KOG2231|consen 2 SCAICAFSPDFV----GRGSCGHNEVCATCVVRLRFELNNRKCSNECPVCRREVETKS 55 (669)
T ss_pred CcceeecCcccc----ccccccccccchhhhhhhhhhcccccccccCcccccceeeec
Confidence 589998775443 3344999 999999877642 2 346899998776543
No 174
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.54 E-value=9.7 Score=26.65 Aligned_cols=39 Identities=31% Similarity=0.817 Sum_probs=21.4
Q ss_pred cccccccc-ccCCCcceEeCCCCCh-------hhHHhHHHH-HhCCC---CCCccCccc
Q 033041 2 DCAVCLSE-FEENESGRVLPGCNHS-------FHIGCIDMW-FHSHS---TCPLCRTPV 48 (129)
Q Consensus 2 ~C~IC~~~-~~~~~~~~~lp~C~H~-------Fh~~Ci~~w-l~~~~---~CP~Cr~~~ 48 (129)
+|.||+.. |.++ |||. ||..|--.. |.+++ +|-+|+...
T Consensus 67 tC~IC~KTKFADG--------~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~q 117 (169)
T KOG3799|consen 67 TCGICHKTKFADG--------CGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQQ 117 (169)
T ss_pred chhhhhhcccccc--------cCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHHH
Confidence 68999874 3333 7773 333333222 22233 588898754
No 175
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.41 E-value=5.4 Score=32.75 Aligned_cols=36 Identities=19% Similarity=0.479 Sum_probs=24.5
Q ss_pred ccccccccccCCCcceE----eCCCCChhhHHhHHHHHhC
Q 033041 2 DCAVCLSEFEENESGRV----LPGCNHSFHIGCIDMWFHS 37 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~----lp~C~H~Fh~~Ci~~wl~~ 37 (129)
.||.|...+........ ...|+|.||..|+..|...
T Consensus 228 ~CP~c~~~iek~~gc~~~~~~~~~c~~~FCw~Cl~~~~~h 267 (444)
T KOG1815|consen 228 ECPKCKVPIEKDGGCNHMTCKSASCKHEFCWVCLASLSDH 267 (444)
T ss_pred cCCCcccchhccCCccccccccCCcCCeeceeeecccccc
Confidence 48888888765542221 1139999999998888654
No 176
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=46.07 E-value=16 Score=24.12 Aligned_cols=32 Identities=16% Similarity=0.242 Sum_probs=24.8
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHH
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF 35 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 35 (129)
.|.||-+.+..++....+. +-..|..|+..-.
T Consensus 4 kC~iCg~~I~~gqlFTF~~--kG~VH~~C~~~~~ 35 (101)
T PF09943_consen 4 KCYICGKPIYEGQLFTFTK--KGPVHYECFREKA 35 (101)
T ss_pred EEEecCCeeeecceEEEec--CCcEeHHHHHHHH
Confidence 5999999998886666665 3568999987654
No 177
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=45.14 E-value=12 Score=29.58 Aligned_cols=43 Identities=21% Similarity=0.316 Sum_probs=26.4
Q ss_pred ccccccccccCCCcceEe---CCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041 2 DCAVCLSEFEENESGRVL---PGCNHSFHIGCIDMWFHSHSTCPLCRT 46 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~l---p~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 46 (129)
.||||-..-... +... .+=.+.+|..|-..|-.....||.|..
T Consensus 189 ~CPvCGs~P~~s--~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 189 FCPVCGSMPVSS--VVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCcchhh--eeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 599998763211 0000 112245566688889777788999964
No 178
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=45.14 E-value=12 Score=24.98 Aligned_cols=44 Identities=27% Similarity=0.457 Sum_probs=26.3
Q ss_pred ccccccccccCCC-cceEeCCCCChhhHHhHHHHHhC--CCCCCccCc
Q 033041 2 DCAVCLSEFEENE-SGRVLPGCNHSFHIGCIDMWFHS--HSTCPLCRT 46 (129)
Q Consensus 2 ~C~IC~~~~~~~~-~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~Cr~ 46 (129)
.|.+|...|.--. .......|+|.+|..|-.. ... ...|-+|..
T Consensus 56 ~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~-~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 56 HCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY-SKKEPIWLCKVCQK 102 (118)
T ss_dssp B-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE-TSSSCCEEEHHHHH
T ss_pred chhhhCCcccccCCCCCcCCcCCccccCccCCc-CCCCCCEEChhhHH
Confidence 5999988764221 2255556999999999644 111 125888864
No 179
>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=45.06 E-value=15 Score=21.84 Aligned_cols=10 Identities=40% Similarity=0.839 Sum_probs=5.8
Q ss_pred CCCCccCccc
Q 033041 39 STCPLCRTPV 48 (129)
Q Consensus 39 ~~CP~Cr~~~ 48 (129)
..||.|...+
T Consensus 47 ~~C~~Cg~~~ 56 (69)
T PF07282_consen 47 FTCPNCGFEM 56 (69)
T ss_pred EEcCCCCCEE
Confidence 3577775543
No 180
>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=44.21 E-value=4.9 Score=31.64 Aligned_cols=44 Identities=20% Similarity=0.289 Sum_probs=26.2
Q ss_pred ccccccccccCCCcceEe---CCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041 2 DCAVCLSEFEENESGRVL---PGCNHSFHIGCIDMWFHSHSTCPLCRT 46 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~l---p~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 46 (129)
.||||-..-... .+... .+=.+.+|..|-..|-.....||.|..
T Consensus 186 ~CPvCGs~P~~s-~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 186 LCPACGSPPVAS-MVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred cCCCCCChhhhh-hhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 699998763211 00000 012244566688889777788999965
No 181
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.19 E-value=15 Score=23.93 Aligned_cols=13 Identities=23% Similarity=0.943 Sum_probs=11.1
Q ss_pred hhhHHhHHHHHhC
Q 033041 25 SFHIGCIDMWFHS 37 (129)
Q Consensus 25 ~Fh~~Ci~~wl~~ 37 (129)
-||..|+..|...
T Consensus 42 gFCRNCLs~Wy~e 54 (104)
T COG3492 42 GFCRNCLSNWYRE 54 (104)
T ss_pred HHHHHHHHHHHHH
Confidence 5999999999853
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=42.95 E-value=21 Score=27.69 Aligned_cols=43 Identities=19% Similarity=0.369 Sum_probs=24.9
Q ss_pred ccccccccccCCCcceEeCCCCC-hhhHHhHHHHH-hCCCCCCcc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNH-SFHIGCIDMWF-HSHSTCPLC 44 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H-~Fh~~Ci~~wl-~~~~~CP~C 44 (129)
.|.||++....+..-.-+.--+- .-|..|+.+|- ..+..||-=
T Consensus 32 fChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~prs 76 (285)
T PF06937_consen 32 FCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCPRS 76 (285)
T ss_pred ecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCCcc
Confidence 58899887654422221111111 35689999984 456778843
No 183
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=41.11 E-value=17 Score=18.91 Aligned_cols=9 Identities=22% Similarity=0.497 Sum_probs=5.2
Q ss_pred CCCccCccc
Q 033041 40 TCPLCRTPV 48 (129)
Q Consensus 40 ~CP~Cr~~~ 48 (129)
.||.|...|
T Consensus 27 ~C~~C~~~~ 35 (38)
T TIGR02098 27 RCGKCGHVW 35 (38)
T ss_pred ECCCCCCEE
Confidence 466666554
No 184
>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=40.57 E-value=17 Score=18.21 Aligned_cols=28 Identities=21% Similarity=0.460 Sum_probs=16.8
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHh
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGC 30 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~C 30 (129)
.|.||...+.... ...-..|.-.+|..|
T Consensus 2 ~C~~C~~~~~~~~-~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFY-FYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCE-eEEeCCCCCeEcCcc
Confidence 5888977765542 223334666777665
No 185
>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=40.38 E-value=5.5 Score=21.74 Aligned_cols=26 Identities=23% Similarity=0.468 Sum_probs=15.1
Q ss_pred CCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041 20 PGCNHSFHIGCIDMWFHSHSTCPLCRT 46 (129)
Q Consensus 20 p~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 46 (129)
.+|||.|-...-..- .....||.|..
T Consensus 9 ~~Cg~~fe~~~~~~~-~~~~~CP~Cg~ 34 (42)
T PF09723_consen 9 EECGHEFEVLQSISE-DDPVPCPECGS 34 (42)
T ss_pred CCCCCEEEEEEEcCC-CCCCcCCCCCC
Confidence 358988865321110 12447999987
No 186
>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=39.89 E-value=19 Score=21.55 Aligned_cols=9 Identities=33% Similarity=0.903 Sum_probs=5.4
Q ss_pred CCCccCccc
Q 033041 40 TCPLCRTPV 48 (129)
Q Consensus 40 ~CP~Cr~~~ 48 (129)
.||.|+..|
T Consensus 55 ~Cp~c~r~Y 63 (68)
T PF03966_consen 55 ICPECGREY 63 (68)
T ss_dssp EETTTTEEE
T ss_pred EcCCCCCEE
Confidence 577776544
No 187
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=39.87 E-value=13 Score=19.76 Aligned_cols=30 Identities=20% Similarity=0.483 Sum_probs=17.3
Q ss_pred EeCCCCChhhHHhHHHHHhCCCCCCccCcccc
Q 033041 18 VLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 18 ~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
+.++||++||..-.-+ +....|..|..+|.
T Consensus 3 ~C~~Cg~~Yh~~~~pP--~~~~~Cd~cg~~L~ 32 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPP--KVEGVCDNCGGELV 32 (36)
T ss_dssp EETTTTEEEETTTB----SSTTBCTTTTEBEB
T ss_pred CcCCCCCccccccCCC--CCCCccCCCCCeeE
Confidence 3456888888532211 23457888877654
No 188
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=39.69 E-value=14 Score=23.01 Aligned_cols=31 Identities=29% Similarity=0.697 Sum_probs=19.0
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHH
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDM 33 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~ 33 (129)
.|.+|.......... ..++|.-.||..|...
T Consensus 38 ~C~~C~~~~Ga~i~C-~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 38 KCSICKKKGGACIGC-SHPGCSRSFHVPCARK 68 (90)
T ss_pred CCcCCCCCCCeEEEE-eCCCCCcEEChHHHcc
Confidence 578887652221111 1235999999999754
No 189
>PRK11827 hypothetical protein; Provisional
Probab=39.69 E-value=12 Score=22.27 Aligned_cols=19 Identities=16% Similarity=0.358 Sum_probs=12.7
Q ss_pred HHHhCCCCCCccCcccccc
Q 033041 33 MWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 33 ~wl~~~~~CP~Cr~~~~~~ 51 (129)
+||..--.||+|+.++...
T Consensus 3 ~~LLeILaCP~ckg~L~~~ 21 (60)
T PRK11827 3 HRLLEIIACPVCNGKLWYN 21 (60)
T ss_pred hHHHhheECCCCCCcCeEc
Confidence 4455555788888887653
No 190
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=39.62 E-value=28 Score=24.14 Aligned_cols=37 Identities=19% Similarity=0.353 Sum_probs=22.1
Q ss_pred cceEeCCCCChhhHHhHHHHH--hCCCCCCccCcccccc
Q 033041 15 SGRVLPGCNHSFHIGCIDMWF--HSHSTCPLCRTPVELV 51 (129)
Q Consensus 15 ~~~~lp~C~H~Fh~~Ci~~wl--~~~~~CP~Cr~~~~~~ 51 (129)
.....|+|+..|=..=..... ...+.||.|...+...
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l~~~ 136 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQLLDMDGTFTCPRCGEELEED 136 (147)
T ss_pred cEEECcCCCCEeeHHHHHHhcCCCCcEECCCCCCEEEEc
Confidence 345567788877643222211 1237899999988654
No 191
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=39.16 E-value=13 Score=28.37 Aligned_cols=39 Identities=21% Similarity=0.361 Sum_probs=27.6
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC--CCCCCc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS--HSTCPL 43 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~--~~~CP~ 43 (129)
.|+|=+..+.-+ .+..+|+|.|-.+-|..+++. ...||.
T Consensus 191 rCpitl~p~~~p---ils~kcnh~~e~D~I~~~lq~~~trvcp~ 231 (275)
T COG5627 191 RCPITLNPDFYP---ILSSKCNHKPEMDLINKKLQVECTRVCPR 231 (275)
T ss_pred cCCcccCcchhH---HHHhhhcccccHHHHHHHhcCCceeecch
Confidence 577766655444 333369999999999999884 456775
No 192
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=38.02 E-value=28 Score=27.84 Aligned_cols=30 Identities=10% Similarity=-0.132 Sum_probs=21.1
Q ss_pred eEeCCCCC-hhhHHhHHHHHhCCCCCCccCcccc
Q 033041 17 RVLPGCNH-SFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 17 ~~lp~C~H-~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
.+.+ |+| .|+..|.. +....+||+|...+.
T Consensus 357 ~~~~-~~~n~~~~~~a~--~s~~~~~~~c~~~~~ 387 (394)
T KOG2113|consen 357 IWSG-GNMNLSPGSLAS--ASASPTSSTCDHNDH 387 (394)
T ss_pred Eeec-CCcccChhhhhh--cccCCccccccccce
Confidence 4555 998 67777765 445678999976543
No 193
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=37.92 E-value=13 Score=35.17 Aligned_cols=46 Identities=26% Similarity=0.506 Sum_probs=33.4
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRTPV 48 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~~ 48 (129)
.|.||.........+... .|.-.||..|+..-+.. ...||-|+..-
T Consensus 1110 ~c~~cr~k~~~~~m~lc~-~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1110 LCKVCRRKKQDEKMLLCD-ECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred hhhhhhhcccchhhhhhH-hhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 488888876664332223 48889999999988755 44799998765
No 194
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=36.42 E-value=18 Score=21.50 Aligned_cols=13 Identities=38% Similarity=1.147 Sum_probs=9.6
Q ss_pred CCCCCccCccccc
Q 033041 38 HSTCPLCRTPVEL 50 (129)
Q Consensus 38 ~~~CP~Cr~~~~~ 50 (129)
..+||+|..+...
T Consensus 39 ~p~CPlC~s~M~~ 51 (59)
T PF14169_consen 39 EPVCPLCKSPMVS 51 (59)
T ss_pred CccCCCcCCcccc
Confidence 3579999887643
No 195
>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=34.53 E-value=4.7 Score=23.19 Aligned_cols=14 Identities=29% Similarity=0.935 Sum_probs=7.4
Q ss_pred CCCChhhHHhHHHH
Q 033041 21 GCNHSFHIGCIDMW 34 (129)
Q Consensus 21 ~C~H~Fh~~Ci~~w 34 (129)
.|++.||..|...|
T Consensus 45 ~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 45 SCGTEFCFKCGEPW 58 (64)
T ss_dssp SCCSEECSSSTSES
T ss_pred CCCCcCccccCccc
Confidence 35555555555444
No 196
>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=34.19 E-value=25 Score=20.89 Aligned_cols=14 Identities=36% Similarity=1.084 Sum_probs=10.4
Q ss_pred CCCCCCccCccccc
Q 033041 37 SHSTCPLCRTPVEL 50 (129)
Q Consensus 37 ~~~~CP~Cr~~~~~ 50 (129)
.|+.||.|..++..
T Consensus 2 ~HkHC~~CG~~Ip~ 15 (59)
T PF09889_consen 2 PHKHCPVCGKPIPP 15 (59)
T ss_pred CCCcCCcCCCcCCc
Confidence 46789999877754
No 197
>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=33.86 E-value=44 Score=21.41 Aligned_cols=30 Identities=20% Similarity=0.454 Sum_probs=19.0
Q ss_pred CCCChhhHHh---HHHHHhCCCCCCccCccccc
Q 033041 21 GCNHSFHIGC---IDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 21 ~C~H~Fh~~C---i~~wl~~~~~CP~Cr~~~~~ 50 (129)
.|+|.....- |-.|+..+..|..|++++..
T Consensus 38 ~C~~~L~~~~lIPi~S~l~lrGrCr~C~~~I~~ 70 (92)
T PF06750_consen 38 HCGHPLSWWDLIPILSYLLLRGRCRYCGAPIPP 70 (92)
T ss_pred CCCCcCcccccchHHHHHHhCCCCcccCCCCCh
Confidence 3665443332 34566778889999987743
No 198
>PF03832 WSK: WSK motif; InterPro: IPR001573 Cell signalling mediated via GPCRs (G-protein-coupled receptors) involves the assembly of receptors, G-proteins, effectors and downstream elements into complexes that approach in design 'solid-state' signalling devices. Scaffold molecules, such as the AKAPs (A-kinase anchoring proteins), were discovered more than a decade ago and represent dynamic platforms, enabling multivalent signalling []. This family of functionally related proteins is classified on the basis of their ability to associate with the PKA holoenzyme inside cells. A shared property of most, if not all, AKAPs is the ability to form multivalent signal transduction complexes. Each anchoring protein contains at least two functional motifs []. The conserved PKA binding motif forms an amphipathic helix of 14-18 residues that interacts with hydrophobic determinants located in the extreme N terminus of the regulatory subunit dimmer. The subcellular address of each AKAP is encoded by a unique targeting motif. Gravin, an autoantigen recognised by serum from myasthenia gravis patients contains 3 repeats of this domain []. The WSK motif is short motif, named after three conserved residues found in the WXSXK motif, found in protein kinase A anchoring proteins. ; GO: 0006605 protein targeting, 0007165 signal transduction
Probab=33.84 E-value=39 Score=17.42 Aligned_cols=19 Identities=26% Similarity=0.508 Sum_probs=14.9
Q ss_pred hhhhhhhhccCCCCCCCCC
Q 033041 95 FVSSFRRMLSREKKGNSTA 113 (129)
Q Consensus 95 ~~~s~~r~~sr~r~~~~~~ 113 (129)
.=.||+|++++.+.+.+..
T Consensus 6 ~W~S~KrlVt~rkrsks~~ 24 (31)
T PF03832_consen 6 TWASFKRLVTPRKRSKSSK 24 (31)
T ss_pred hhHHHHhhcCcccccccch
Confidence 3489999999888776653
No 199
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=33.77 E-value=33 Score=22.50 Aligned_cols=32 Identities=22% Similarity=0.305 Sum_probs=24.7
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHH
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWF 35 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl 35 (129)
.|.||-..+..++.....+ .-..|..|+..-.
T Consensus 8 kC~VCg~~iieGqkFTF~~--kGsVH~eCl~~s~ 39 (103)
T COG4847 8 KCYVCGGTIIEGQKFTFTK--KGSVHYECLAESK 39 (103)
T ss_pred eEeeeCCEeeeccEEEEee--CCcchHHHHHHHH
Confidence 5999999998887666665 4568999987644
No 200
>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=33.28 E-value=38 Score=25.55 Aligned_cols=27 Identities=19% Similarity=0.444 Sum_probs=17.3
Q ss_pred hhHHhHHHHHhCCCCCCccCccccccC
Q 033041 26 FHIGCIDMWFHSHSTCPLCRTPVELVT 52 (129)
Q Consensus 26 Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~ 52 (129)
-|..|...--..-..||+|++.-....
T Consensus 196 ~C~sC~qqIHRNAPiCPlCK~KsRSrn 222 (230)
T PF10146_consen 196 TCQSCHQQIHRNAPICPLCKAKSRSRN 222 (230)
T ss_pred hhHhHHHHHhcCCCCCcccccccccCC
Confidence 356676554334568999998765543
No 201
>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=33.18 E-value=30 Score=17.69 Aligned_cols=10 Identities=40% Similarity=1.172 Sum_probs=7.0
Q ss_pred CCCCCccCcc
Q 033041 38 HSTCPLCRTP 47 (129)
Q Consensus 38 ~~~CP~Cr~~ 47 (129)
...||+|..+
T Consensus 17 ~~~CP~Cg~~ 26 (33)
T cd00350 17 PWVCPVCGAP 26 (33)
T ss_pred CCcCcCCCCc
Confidence 4479999753
No 202
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=32.92 E-value=7.1 Score=30.50 Aligned_cols=11 Identities=9% Similarity=-0.006 Sum_probs=6.2
Q ss_pred hhHHhHHHHHh
Q 033041 26 FHIGCIDMWFH 36 (129)
Q Consensus 26 Fh~~Ci~~wl~ 36 (129)
.|..|+..+.+
T Consensus 216 vC~~CF~el~~ 226 (288)
T KOG1729|consen 216 VCDICFEELEK 226 (288)
T ss_pred ecHHHHHHHhc
Confidence 55566666543
No 203
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=32.74 E-value=25 Score=24.30 Aligned_cols=20 Identities=25% Similarity=0.574 Sum_probs=11.0
Q ss_pred HhHHHHHhC--CCCCCccCccc
Q 033041 29 GCIDMWFHS--HSTCPLCRTPV 48 (129)
Q Consensus 29 ~Ci~~wl~~--~~~CP~Cr~~~ 48 (129)
.|-.+.|+. .-.||+|-..+
T Consensus 33 ~Cg~PLF~KdG~v~CPvC~~~~ 54 (131)
T COG1645 33 KCGTPLFRKDGEVFCPVCGYRE 54 (131)
T ss_pred ccCCcceeeCCeEECCCCCceE
Confidence 344455543 22699997443
No 204
>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=32.48 E-value=24 Score=18.01 Aligned_cols=8 Identities=50% Similarity=1.315 Sum_probs=1.5
Q ss_pred cccccccc
Q 033041 3 CAVCLSEF 10 (129)
Q Consensus 3 C~IC~~~~ 10 (129)
|+.|..++
T Consensus 5 Cp~C~se~ 12 (30)
T PF08274_consen 5 CPLCGSEY 12 (30)
T ss_dssp -TTT----
T ss_pred CCCCCCcc
Confidence 44554443
No 205
>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=32.25 E-value=25 Score=23.56 Aligned_cols=13 Identities=23% Similarity=0.373 Sum_probs=8.6
Q ss_pred CCCCccCcccccc
Q 033041 39 STCPLCRTPVELV 51 (129)
Q Consensus 39 ~~CP~Cr~~~~~~ 51 (129)
..||.|-..|...
T Consensus 20 ~iCpeC~~EW~~~ 32 (109)
T TIGR00686 20 LICPSCLYEWNEN 32 (109)
T ss_pred eECcccccccccc
Confidence 3678887777543
No 206
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=31.52 E-value=31 Score=17.89 Aligned_cols=9 Identities=44% Similarity=1.512 Sum_probs=6.6
Q ss_pred CCCCccCcc
Q 033041 39 STCPLCRTP 47 (129)
Q Consensus 39 ~~CP~Cr~~ 47 (129)
..||+|.++
T Consensus 19 ~~CP~Cg~~ 27 (34)
T cd00729 19 EKCPICGAP 27 (34)
T ss_pred CcCcCCCCc
Confidence 479998764
No 207
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=31.42 E-value=12 Score=29.09 Aligned_cols=29 Identities=21% Similarity=0.327 Sum_probs=14.9
Q ss_pred CChhhHHhHHHHHhC----CCCCCccCcccccc
Q 033041 23 NHSFHIGCIDMWFHS----HSTCPLCRTPVELV 51 (129)
Q Consensus 23 ~H~Fh~~Ci~~wl~~----~~~CP~Cr~~~~~~ 51 (129)
.|.||..|..+.... ...||.|+..+.+.
T Consensus 110 ~~RFCg~CG~~~~~~~~g~~~~C~~cg~~~fPR 142 (279)
T COG2816 110 SHRFCGRCGTKTYPREGGWARVCPKCGHEHFPR 142 (279)
T ss_pred hCcCCCCCCCcCccccCceeeeCCCCCCccCCC
Confidence 455555555444322 23577776655443
No 208
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=31.08 E-value=23 Score=17.26 Aligned_cols=9 Identities=44% Similarity=1.224 Sum_probs=4.7
Q ss_pred ccccccccc
Q 033041 2 DCAVCLSEF 10 (129)
Q Consensus 2 ~C~IC~~~~ 10 (129)
.||||...+
T Consensus 3 ~CPiC~~~v 11 (26)
T smart00734 3 QCPVCFREV 11 (26)
T ss_pred cCCCCcCcc
Confidence 455555543
No 209
>PRK02935 hypothetical protein; Provisional
Probab=30.45 E-value=68 Score=21.42 Aligned_cols=31 Identities=19% Similarity=0.521 Sum_probs=18.3
Q ss_pred eEeCCCCChhhHHhHHHHHhCCCCCCccCccccccCC
Q 033041 17 RVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTA 53 (129)
Q Consensus 17 ~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 53 (129)
...|+|++. .+.|.+-..|..|+.++..+..
T Consensus 71 V~CP~C~K~------TKmLGrvD~CM~C~~PLTLd~~ 101 (110)
T PRK02935 71 VICPSCEKP------TKMLGRVDACMHCNQPLTLDRS 101 (110)
T ss_pred eECCCCCch------hhhccceeecCcCCCcCCcCcc
Confidence 345556552 3445556678888887765443
No 210
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=30.28 E-value=13 Score=27.58 Aligned_cols=13 Identities=38% Similarity=0.958 Sum_probs=10.5
Q ss_pred CccccccccccCC
Q 033041 1 MDCAVCLSEFEEN 13 (129)
Q Consensus 1 ~~C~IC~~~~~~~ 13 (129)
.+||+|-..|...
T Consensus 6 ~~CPvC~~~F~~~ 18 (214)
T PF09986_consen 6 ITCPVCGKEFKTK 18 (214)
T ss_pred eECCCCCCeeeee
Confidence 4799999998754
No 211
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=30.22 E-value=65 Score=23.20 Aligned_cols=33 Identities=21% Similarity=0.339 Sum_probs=21.7
Q ss_pred ceEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 16 GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 16 ~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
..+.|+|+..|=.. ..+...+.||.|...+...
T Consensus 117 ~Y~Cp~C~~rytf~---eA~~~~F~Cp~Cg~~L~~~ 149 (178)
T PRK06266 117 FFFCPNCHIRFTFD---EAMEYGFRCPQCGEMLEEY 149 (178)
T ss_pred EEECCCCCcEEeHH---HHhhcCCcCCCCCCCCeec
Confidence 34456677655433 3345688999999888653
No 212
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=30.00 E-value=10 Score=29.19 Aligned_cols=28 Identities=29% Similarity=0.766 Sum_probs=19.5
Q ss_pred CCC-ChhhHHhHHHHH--hCCCCCCccCccc
Q 033041 21 GCN-HSFHIGCIDMWF--HSHSTCPLCRTPV 48 (129)
Q Consensus 21 ~C~-H~Fh~~Ci~~wl--~~~~~CP~Cr~~~ 48 (129)
+|. -+||..|+.--. .....||.|+...
T Consensus 239 ~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 239 GCPIEWFHFTCVGLKTKPKGKWYCPRCKAEN 269 (274)
T ss_pred CCCcceEEEeccccccCCCCcccchhhhhhh
Confidence 488 899999985321 2244799998643
No 213
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=29.91 E-value=45 Score=25.48 Aligned_cols=26 Identities=19% Similarity=0.544 Sum_probs=16.7
Q ss_pred hhHHhHHHHHhCCCCCCccCcccccc
Q 033041 26 FHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 26 Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
.|..|...--.....||+|+..-...
T Consensus 251 ~ClsChqqIHRNAPiCPlCKaKsRSr 276 (286)
T KOG4451|consen 251 VCLSCHQQIHRNAPICPLCKAKSRSR 276 (286)
T ss_pred HHHHHHHHHhcCCCCCcchhhccccC
Confidence 45556555444456899999876544
No 214
>PRK04023 DNA polymerase II large subunit; Validated
Probab=29.73 E-value=31 Score=31.68 Aligned_cols=42 Identities=21% Similarity=0.284 Sum_probs=24.0
Q ss_pred ccccccccccCCCcceEeCCCCC-----hhhHHhHHHHHhCCCCCCccCcccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNH-----SFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H-----~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
.|+-|-..... ...|+||. .||..|- +......||-|.....
T Consensus 628 fCpsCG~~t~~----frCP~CG~~Te~i~fCP~CG--~~~~~y~CPKCG~El~ 674 (1121)
T PRK04023 628 KCPSCGKETFY----RRCPFCGTHTEPVYRCPRCG--IEVEEDECEKCGREPT 674 (1121)
T ss_pred cCCCCCCcCCc----ccCCCCCCCCCcceeCcccc--CcCCCCcCCCCCCCCC
Confidence 46666655322 35566773 5777773 2233456888876554
No 215
>KOG3816 consensus Cell differentiation regulator of the Headcase family [Signal transduction mechanisms]
Probab=29.70 E-value=25 Score=28.89 Aligned_cols=26 Identities=27% Similarity=0.695 Sum_probs=18.5
Q ss_pred cccccccCCCcceEeCCCCChhhHHhHHHH
Q 033041 5 VCLSEFEENESGRVLPGCNHSFHIGCIDMW 34 (129)
Q Consensus 5 IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~w 34 (129)
||.-.+... -..| |+.++|..|+..|
T Consensus 93 ~C~~VvCNN---E~C~-~~~~MH~qCF~~W 118 (526)
T KOG3816|consen 93 ICSFVVCNN---EHCP-CSTWMHLQCFYEW 118 (526)
T ss_pred hceEEeecC---CCCC-hhhHHHHHHHHHH
Confidence 455544444 2345 9999999999988
No 216
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=29.52 E-value=20 Score=30.74 Aligned_cols=33 Identities=27% Similarity=0.520 Sum_probs=21.5
Q ss_pred ccccccccccC----CCcce------EeCCCCChhhHHhHHHHH
Q 033041 2 DCAVCLSEFEE----NESGR------VLPGCNHSFHIGCIDMWF 35 (129)
Q Consensus 2 ~C~IC~~~~~~----~~~~~------~lp~C~H~Fh~~Ci~~wl 35 (129)
.|+||.+.|.. .+... .+- =|-+||..|+..-.
T Consensus 515 ~C~IC~EkFe~v~d~e~~~Wm~kdaV~le-~G~ifH~~Cl~e~~ 557 (579)
T KOG2071|consen 515 SCPICQEKFEVVFDQEEDLWMYKDAVYLE-FGRIFHSKCLSEKR 557 (579)
T ss_pred CCcccccccceeecchhhheeecceeeec-cCceeeccccchHH
Confidence 59999999852 11111 121 38899999987653
No 217
>KOG2846 consensus Predicted membrane protein [Function unknown]
Probab=29.34 E-value=65 Score=25.70 Aligned_cols=14 Identities=21% Similarity=0.439 Sum_probs=9.4
Q ss_pred CCCCCccCcccccc
Q 033041 38 HSTCPLCRTPVELV 51 (129)
Q Consensus 38 ~~~CP~Cr~~~~~~ 51 (129)
.+.||.|++--...
T Consensus 242 ~F~C~~Cn~LN~~~ 255 (328)
T KOG2846|consen 242 TFRCPHCNALNPAK 255 (328)
T ss_pred EEECccccccCCCc
Confidence 44799998754433
No 218
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=29.33 E-value=31 Score=22.95 Aligned_cols=28 Identities=25% Similarity=0.542 Sum_probs=16.7
Q ss_pred EeCCCCChhhHHhHHHHHhCC-CCCCccCcccccc
Q 033041 18 VLPGCNHSFHIGCIDMWFHSH-STCPLCRTPVELV 51 (129)
Q Consensus 18 ~lp~C~H~Fh~~Ci~~wl~~~-~~CP~Cr~~~~~~ 51 (129)
+.|.||-.|.- |++. -+||.|...|...
T Consensus 11 ~Cp~CG~kFYD------Lnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 11 TCPSCGAKFYD------LNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred cCCCCcchhcc------CCCCCccCCCCCCccCcc
Confidence 34446655532 2332 3699999887665
No 219
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=28.96 E-value=19 Score=25.47 Aligned_cols=23 Identities=26% Similarity=0.732 Sum_probs=16.8
Q ss_pred hhHHhHHHHHhC----CCCCCccCccc
Q 033041 26 FHIGCIDMWFHS----HSTCPLCRTPV 48 (129)
Q Consensus 26 Fh~~Ci~~wl~~----~~~CP~Cr~~~ 48 (129)
||..||++=|.. .-.||.|...-
T Consensus 2 ~H~~CL~Ppl~~~P~g~W~Cp~C~~~~ 28 (148)
T cd04718 2 FHLCCLRPPLKEVPEGDWICPFCEVEK 28 (148)
T ss_pred cccccCCCCCCCCCCCCcCCCCCcCCC
Confidence 788898877654 34799997653
No 220
>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=28.37 E-value=44 Score=19.93 Aligned_cols=10 Identities=60% Similarity=1.418 Sum_probs=6.9
Q ss_pred CCCCccCccc
Q 033041 39 STCPLCRTPV 48 (129)
Q Consensus 39 ~~CP~Cr~~~ 48 (129)
..||+|+..+
T Consensus 3 ~~CPlCkt~~ 12 (61)
T PF05715_consen 3 SLCPLCKTTL 12 (61)
T ss_pred ccCCcccchh
Confidence 4688887665
No 221
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=28.29 E-value=19 Score=25.92 Aligned_cols=25 Identities=28% Similarity=0.660 Sum_probs=14.3
Q ss_pred ceEeCCCCChhhHHhHHHHHhCCCCCCccCcc
Q 033041 16 GRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTP 47 (129)
Q Consensus 16 ~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~ 47 (129)
+.+.+.|||++-. ..-..||+|.++
T Consensus 134 ~~vC~vCGy~~~g-------e~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEG-------EAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccC-------CCCCcCCCCCCh
Confidence 4455558875321 234478888754
No 222
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=28.03 E-value=65 Score=21.20 Aligned_cols=28 Identities=18% Similarity=0.460 Sum_probs=16.8
Q ss_pred CCChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 22 CNHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 22 C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
||+--|..-+.++. .-..||.|+.++.+
T Consensus 65 CGvC~~~LT~~EY~-~~~~Cp~C~spFNp 92 (105)
T COG4357 65 CGVCRKLLTRAEYG-MCGSCPYCQSPFNP 92 (105)
T ss_pred hhhhhhhhhHHHHh-hcCCCCCcCCCCCc
Confidence 66655544444442 23459999988764
No 223
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=27.88 E-value=32 Score=23.77 Aligned_cols=23 Identities=17% Similarity=0.547 Sum_probs=16.3
Q ss_pred EeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041 18 VLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48 (129)
Q Consensus 18 ~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 48 (129)
..++|||.|+- -+..||.|..+.
T Consensus 31 kC~~CG~v~~P--------Pr~~Cp~C~~~~ 53 (140)
T COG1545 31 KCKKCGRVYFP--------PRAYCPKCGSET 53 (140)
T ss_pred EcCCCCeEEcC--------CcccCCCCCCCC
Confidence 34469998875 355799998763
No 224
>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=27.68 E-value=32 Score=20.30 Aligned_cols=11 Identities=55% Similarity=1.407 Sum_probs=4.6
Q ss_pred CCCccCccccc
Q 033041 40 TCPLCRTPVEL 50 (129)
Q Consensus 40 ~CP~Cr~~~~~ 50 (129)
.||+|++++..
T Consensus 4 ~CP~C~k~~~~ 14 (57)
T PF03884_consen 4 KCPICGKPVEW 14 (57)
T ss_dssp E-TTT--EEE-
T ss_pred cCCCCCCeecc
Confidence 47777776654
No 225
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=27.66 E-value=48 Score=19.92 Aligned_cols=11 Identities=55% Similarity=1.286 Sum_probs=7.9
Q ss_pred CCCCccCcccc
Q 033041 39 STCPLCRTPVE 49 (129)
Q Consensus 39 ~~CP~Cr~~~~ 49 (129)
..||+|++++.
T Consensus 7 v~CP~C~k~~~ 17 (62)
T PRK00418 7 VNCPTCGKPVE 17 (62)
T ss_pred ccCCCCCCccc
Confidence 35888888764
No 226
>PRK10220 hypothetical protein; Provisional
Probab=27.63 E-value=39 Score=22.64 Aligned_cols=13 Identities=23% Similarity=0.470 Sum_probs=9.6
Q ss_pred CCCCccCcccccc
Q 033041 39 STCPLCRTPVELV 51 (129)
Q Consensus 39 ~~CP~Cr~~~~~~ 51 (129)
..||.|-.+|...
T Consensus 21 ~vCpeC~hEW~~~ 33 (111)
T PRK10220 21 YICPECAHEWNDA 33 (111)
T ss_pred EECCcccCcCCcc
Confidence 4688888888654
No 227
>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=27.48 E-value=49 Score=21.39 Aligned_cols=24 Identities=13% Similarity=0.415 Sum_probs=17.6
Q ss_pred CChhhHHhHHHHHhCCCCCCccCccccc
Q 033041 23 NHSFHIGCIDMWFHSHSTCPLCRTPVEL 50 (129)
Q Consensus 23 ~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~ 50 (129)
||.||..|-. ....|.+|-..+..
T Consensus 58 g~~YCq~CAY----kkGiCamCGKki~d 81 (90)
T PF10235_consen 58 GAKYCQTCAY----KKGICAMCGKKILD 81 (90)
T ss_pred CCccChhhhc----ccCcccccCCeecc
Confidence 6778888853 35689999887743
No 228
>PRK01343 zinc-binding protein; Provisional
Probab=27.25 E-value=35 Score=20.13 Aligned_cols=12 Identities=33% Similarity=0.916 Sum_probs=9.2
Q ss_pred CCCCCccCcccc
Q 033041 38 HSTCPLCRTPVE 49 (129)
Q Consensus 38 ~~~CP~Cr~~~~ 49 (129)
...||+|++++.
T Consensus 9 ~~~CP~C~k~~~ 20 (57)
T PRK01343 9 TRPCPECGKPST 20 (57)
T ss_pred CCcCCCCCCcCc
Confidence 457999998764
No 229
>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=26.85 E-value=75 Score=22.34 Aligned_cols=32 Identities=19% Similarity=0.402 Sum_probs=20.6
Q ss_pred eEeCCCCChhhHHhHHHHHhCCCCCCccCcccccc
Q 033041 17 RVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELV 51 (129)
Q Consensus 17 ~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~ 51 (129)
.+.|+|+..|=. ...+...+.||.|...+...
T Consensus 110 Y~Cp~c~~r~tf---~eA~~~~F~Cp~Cg~~L~~~ 141 (158)
T TIGR00373 110 FICPNMCVRFTF---NEAMELNFTCPRCGAMLDYL 141 (158)
T ss_pred EECCCCCcEeeH---HHHHHcCCcCCCCCCEeeec
Confidence 345567765543 23345588999999887654
No 230
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=26.82 E-value=31 Score=23.28 Aligned_cols=32 Identities=28% Similarity=0.571 Sum_probs=16.9
Q ss_pred EeCCCCC---hhhHHhHHHHHhCCC---CCCccCcccc
Q 033041 18 VLPGCNH---SFHIGCIDMWFHSHS---TCPLCRTPVE 49 (129)
Q Consensus 18 ~lp~C~H---~Fh~~Ci~~wl~~~~---~CP~Cr~~~~ 49 (129)
..|+||| .||..=+...-+.+. +||-|.....
T Consensus 76 kCpkCghe~m~Y~T~QlRSADEGQTVFYTC~kC~~k~~ 113 (116)
T KOG2907|consen 76 KCPKCGHEEMSYHTLQLRSADEGQTVFYTCPKCKYKFT 113 (116)
T ss_pred cCcccCCchhhhhhhhcccccCCceEEEEcCccceeee
Confidence 4566888 555433322222222 6888876543
No 231
>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=26.66 E-value=33 Score=17.03 Aligned_cols=11 Identities=36% Similarity=0.984 Sum_probs=5.7
Q ss_pred CCCccCccccc
Q 033041 40 TCPLCRTPVEL 50 (129)
Q Consensus 40 ~CP~Cr~~~~~ 50 (129)
.||.|...+..
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 48999887763
No 232
>KOG4021 consensus Mitochondrial ribosomal protein S18b [Translation, ribosomal structure and biogenesis]
Probab=26.38 E-value=36 Score=25.31 Aligned_cols=23 Identities=26% Similarity=0.488 Sum_probs=14.8
Q ss_pred HHhHHHHHh-CCCCCCccCccccc
Q 033041 28 IGCIDMWFH-SHSTCPLCRTPVEL 50 (129)
Q Consensus 28 ~~Ci~~wl~-~~~~CP~Cr~~~~~ 50 (129)
..||.+--. ..+-||+||..+..
T Consensus 97 ktCIrkn~~~~gnpCPICRDeyL~ 120 (239)
T KOG4021|consen 97 KTCIRKNGRFLGNPCPICRDEYLY 120 (239)
T ss_pred hHHHhhcCeecCCCCCccccceEE
Confidence 347765433 25579999997643
No 233
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=26.38 E-value=31 Score=22.46 Aligned_cols=29 Identities=21% Similarity=0.410 Sum_probs=18.8
Q ss_pred CCCChhhHHhHHHHHhCCCCCCccCccccccCC
Q 033041 21 GCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTA 53 (129)
Q Consensus 21 ~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 53 (129)
+||-.|-.. -++.-..||.|+..+...+.
T Consensus 63 kCGfef~~~----~ik~pSRCP~CKSE~Ie~pr 91 (97)
T COG3357 63 KCGFEFRDD----KIKKPSRCPKCKSEWIEEPR 91 (97)
T ss_pred ccCcccccc----ccCCcccCCcchhhcccCCc
Confidence 477776542 12335579999998876543
No 234
>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=26.37 E-value=64 Score=17.03 Aligned_cols=32 Identities=22% Similarity=0.421 Sum_probs=18.5
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHH
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDM 33 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~ 33 (129)
.|.+|.+.+...........|+=..|..|+..
T Consensus 13 ~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 13 KCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 47777776654211122234777888888765
No 235
>PRK00420 hypothetical protein; Validated
Probab=26.07 E-value=48 Score=22.26 Aligned_cols=13 Identities=15% Similarity=0.368 Sum_probs=8.9
Q ss_pred CCCCCccCccccc
Q 033041 38 HSTCPLCRTPVEL 50 (129)
Q Consensus 38 ~~~CP~Cr~~~~~ 50 (129)
...||.|...+..
T Consensus 40 ~~~Cp~Cg~~~~v 52 (112)
T PRK00420 40 EVVCPVHGKVYIV 52 (112)
T ss_pred ceECCCCCCeeee
Confidence 4469999876543
No 236
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=25.55 E-value=35 Score=29.79 Aligned_cols=26 Identities=31% Similarity=0.925 Sum_probs=19.8
Q ss_pred CCCChhhHHhHHHHHhC-----CCCCCccCc
Q 033041 21 GCNHSFHIGCIDMWFHS-----HSTCPLCRT 46 (129)
Q Consensus 21 ~C~H~Fh~~Ci~~wl~~-----~~~CP~Cr~ 46 (129)
.|+-.||..|+..|+.. ...||-|+.
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 48999999999999854 235777764
No 237
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.34 E-value=40 Score=29.56 Aligned_cols=40 Identities=20% Similarity=0.501 Sum_probs=24.6
Q ss_pred ccccccccccCC-CcceEeCCCCChhhHHhHHHHHhCCCCCCccC
Q 033041 2 DCAVCLSEFEEN-ESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCR 45 (129)
Q Consensus 2 ~C~IC~~~~~~~-~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr 45 (129)
+|-+|...=+.. +-.+.+. |+-.||..| |+.-...|++|-
T Consensus 656 ~C~vcq~pedse~~v~rt~~-C~~~~C~~c---~~~~~~~~~vC~ 696 (717)
T KOG3726|consen 656 TCKVCQLPEDSETDVCRTTF-CYTPYCVAC---SLDYASISEVCG 696 (717)
T ss_pred HHHHhcCCcCccccccCccc-cCCcchHhh---hhhhhccCcccC
Confidence 477776543211 1223344 999888887 444567899994
No 238
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.14 E-value=47 Score=23.01 Aligned_cols=22 Identities=23% Similarity=0.724 Sum_probs=16.2
Q ss_pred hhhHHhHHHHHhCCCCCCccCcccc
Q 033041 25 SFHIGCIDMWFHSHSTCPLCRTPVE 49 (129)
Q Consensus 25 ~Fh~~Ci~~wl~~~~~CP~Cr~~~~ 49 (129)
.||.+|-..-+. .||.|.+++.
T Consensus 29 afcskcgeati~---qcp~csasir 50 (160)
T COG4306 29 AFCSKCGEATIT---QCPICSASIR 50 (160)
T ss_pred HHHhhhchHHHh---cCCccCCccc
Confidence 688888766443 5999988774
No 239
>PRK11595 DNA utilization protein GntX; Provisional
Probab=24.97 E-value=60 Score=24.01 Aligned_cols=38 Identities=18% Similarity=0.413 Sum_probs=20.3
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 48 (129)
.|.+|-..+... ...+|..|...|-.....|+.|..++
T Consensus 7 ~C~~C~~~~~~~---------~~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 7 LCWLCRMPLALS---------HWGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred cCccCCCccCCC---------CCcccHHHHhhCCcccCcCccCCCcC
Confidence 477787654321 11256667665432234677776553
No 240
>PF15353 HECA: Headcase protein family homologue
Probab=24.66 E-value=51 Score=21.96 Aligned_cols=14 Identities=21% Similarity=0.653 Sum_probs=12.2
Q ss_pred CCChhhHHhHHHHH
Q 033041 22 CNHSFHIGCIDMWF 35 (129)
Q Consensus 22 C~H~Fh~~Ci~~wl 35 (129)
.++.+|..|+..|=
T Consensus 40 ~~~~MH~~CF~~wE 53 (107)
T PF15353_consen 40 FGQYMHRECFEKWE 53 (107)
T ss_pred CCCchHHHHHHHHH
Confidence 57899999999993
No 241
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=24.52 E-value=30 Score=26.95 Aligned_cols=11 Identities=27% Similarity=0.815 Sum_probs=8.0
Q ss_pred CCCCccCcccc
Q 033041 39 STCPLCRTPVE 49 (129)
Q Consensus 39 ~~CP~Cr~~~~ 49 (129)
+.||.|.+.+-
T Consensus 216 F~C~hC~kAFA 226 (279)
T KOG2462|consen 216 FSCPHCGKAFA 226 (279)
T ss_pred ccCCcccchhc
Confidence 36999987663
No 242
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=24.07 E-value=49 Score=23.99 Aligned_cols=32 Identities=25% Similarity=0.536 Sum_probs=20.5
Q ss_pred cccccccc---ccCCCcceEeCCCCChhhHHhHHHH
Q 033041 2 DCAVCLSE---FEENESGRVLPGCNHSFHIGCIDMW 34 (129)
Q Consensus 2 ~C~IC~~~---~~~~~~~~~lp~C~H~Fh~~Ci~~w 34 (129)
+|..|... ...+ .++...+|.-.||..||-.-
T Consensus 1 ~C~~C~~~g~~~~kG-~Lv~CQGCs~sYHk~CLG~R 35 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKG-PLVYCQGCSSSYHKACLGPR 35 (175)
T ss_pred CcccccCCCCCccCC-CeEEcCccChHHHhhhcCCc
Confidence 47788543 2222 34444569999999999643
No 243
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=24.05 E-value=46 Score=25.19 Aligned_cols=11 Identities=27% Similarity=0.510 Sum_probs=6.7
Q ss_pred CCCCCccCccc
Q 033041 38 HSTCPLCRTPV 48 (129)
Q Consensus 38 ~~~CP~Cr~~~ 48 (129)
...||.|...+
T Consensus 322 ~~~C~~cg~~~ 332 (364)
T COG0675 322 LFKCPRCGFVH 332 (364)
T ss_pred eEECCCCCCee
Confidence 44678776543
No 244
>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=24.03 E-value=23 Score=24.94 Aligned_cols=23 Identities=35% Similarity=0.910 Sum_probs=15.1
Q ss_pred CCChhhHHhHHHHHhC-----------CCCCCccCcccc
Q 033041 22 CNHSFHIGCIDMWFHS-----------HSTCPLCRTPVE 49 (129)
Q Consensus 22 C~H~Fh~~Ci~~wl~~-----------~~~CP~Cr~~~~ 49 (129)
++|.| ..|+.+ .-+||+|...-.
T Consensus 10 ~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~V 43 (148)
T PF06676_consen 10 NGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTEV 43 (148)
T ss_pred CCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCeE
Confidence 67776 458754 237999976443
No 245
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=23.83 E-value=17 Score=28.45 Aligned_cols=45 Identities=18% Similarity=0.537 Sum_probs=29.3
Q ss_pred cccccccccCCCcceEeCCCCChhhHHhHHHHHhC----CCCCCccCccc
Q 033041 3 CAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHS----HSTCPLCRTPV 48 (129)
Q Consensus 3 C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~----~~~CP~Cr~~~ 48 (129)
|.||-..- .++.+.....|..-||..||.+=+.. ...|.+|-..+
T Consensus 284 csicgtse-nddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~~ 332 (336)
T KOG1244|consen 284 CSICGTSE-NDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEEL 332 (336)
T ss_pred eccccCcC-CCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHHH
Confidence 66776542 33344444569999999999876533 45788885444
No 246
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=23.46 E-value=64 Score=28.61 Aligned_cols=28 Identities=21% Similarity=0.375 Sum_probs=17.7
Q ss_pred EeCCCCChhhHHhHHHHHhCCCCCCccCc
Q 033041 18 VLPGCNHSFHIGCIDMWFHSHSTCPLCRT 46 (129)
Q Consensus 18 ~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~ 46 (129)
..| -|.|||.+|-..-......|-+|=.
T Consensus 43 qVP-tGpWfCrKCesqeraarvrCeLCP~ 70 (900)
T KOG0956|consen 43 QVP-TGPWFCRKCESQERAARVRCELCPH 70 (900)
T ss_pred ecC-CCchhhhhhhhhhhhccceeecccC
Confidence 345 6788888887654334456777744
No 247
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=23.35 E-value=55 Score=28.53 Aligned_cols=9 Identities=33% Similarity=0.523 Sum_probs=5.3
Q ss_pred ccccccccc
Q 033041 2 DCAVCLSEF 10 (129)
Q Consensus 2 ~C~IC~~~~ 10 (129)
.|+-|....
T Consensus 3 ~Cp~Cg~~n 11 (645)
T PRK14559 3 ICPQCQFEN 11 (645)
T ss_pred cCCCCCCcC
Confidence 466666553
No 248
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=22.81 E-value=29 Score=27.17 Aligned_cols=31 Identities=16% Similarity=0.363 Sum_probs=19.6
Q ss_pred cceEeCCCCChhhHHhHHHHHhCCCCCCccCccc
Q 033041 15 SGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPV 48 (129)
Q Consensus 15 ~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~ 48 (129)
-+...|.|++..+..=+.. ....||.|..-+
T Consensus 27 lw~KCp~c~~~~y~~eL~~---n~~vcp~c~~h~ 57 (294)
T COG0777 27 LWTKCPSCGEMLYRKELES---NLKVCPKCGHHM 57 (294)
T ss_pred ceeECCCccceeeHHHHHh---hhhcccccCccc
Confidence 3456677888766654433 245799997643
No 249
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=22.50 E-value=69 Score=17.57 Aligned_cols=9 Identities=22% Similarity=0.512 Sum_probs=5.3
Q ss_pred CCCCccCcc
Q 033041 39 STCPLCRTP 47 (129)
Q Consensus 39 ~~CP~Cr~~ 47 (129)
..||.|...
T Consensus 21 ~vC~~Cg~~ 29 (52)
T smart00661 21 FVCRKCGYE 29 (52)
T ss_pred EECCcCCCe
Confidence 357777543
No 250
>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=22.36 E-value=71 Score=16.78 Aligned_cols=32 Identities=16% Similarity=0.368 Sum_probs=15.4
Q ss_pred ccccccccccCCCc--ceEeCCCCChhhHH-hHHH
Q 033041 2 DCAVCLSEFEENES--GRVLPGCNHSFHIG-CIDM 33 (129)
Q Consensus 2 ~C~IC~~~~~~~~~--~~~lp~C~H~Fh~~-Ci~~ 33 (129)
.|..|...+..... .....+-.|.||.. |+..
T Consensus 8 ~C~~C~~~~~~~~~~~~~~~~g~~~~FCS~~C~~~ 42 (43)
T PF06467_consen 8 TCSYCKKYIPNKPTMIEVQYDGKMKQFCSQSCLSS 42 (43)
T ss_dssp E-TTT--EEECCC----EE-TTTTSCCSSHHHHHH
T ss_pred cCcccCCcccCCCccccccccCcccChhCHHHHhh
Confidence 47778888765543 23333466777744 6543
No 251
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=22.02 E-value=60 Score=20.63 Aligned_cols=21 Identities=19% Similarity=0.426 Sum_probs=16.1
Q ss_pred HHHhCCCCCCccCccccccCC
Q 033041 33 MWFHSHSTCPLCRTPVELVTA 53 (129)
Q Consensus 33 ~wl~~~~~CP~Cr~~~~~~~~ 53 (129)
.+|+-...|+.|..++.....
T Consensus 3 g~Lk~~~~C~~CG~d~~~~~a 23 (86)
T PF06170_consen 3 GYLKVAPRCPHCGLDYSHARA 23 (86)
T ss_pred ccccCCCcccccCCccccCCc
Confidence 466778899999988876544
No 252
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=21.55 E-value=67 Score=18.63 Aligned_cols=13 Identities=31% Similarity=0.772 Sum_probs=10.0
Q ss_pred CCCccCccccccC
Q 033041 40 TCPLCRTPVELVT 52 (129)
Q Consensus 40 ~CP~Cr~~~~~~~ 52 (129)
.||.|.+.+....
T Consensus 24 ~Cp~CGaeleVv~ 36 (54)
T TIGR01206 24 ICDECGAELEVVS 36 (54)
T ss_pred eCCCCCCEEEEEe
Confidence 6999998886643
No 253
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=21.28 E-value=53 Score=19.60 Aligned_cols=12 Identities=33% Similarity=1.088 Sum_probs=9.6
Q ss_pred CCCccCcccccc
Q 033041 40 TCPLCRTPVELV 51 (129)
Q Consensus 40 ~CP~Cr~~~~~~ 51 (129)
.||+||.++...
T Consensus 10 aCP~~kg~L~~~ 21 (60)
T COG2835 10 ACPVCKGPLVYD 21 (60)
T ss_pred eccCcCCcceEe
Confidence 699999987654
No 254
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=21.18 E-value=30 Score=20.10 Aligned_cols=10 Identities=40% Similarity=1.238 Sum_probs=5.3
Q ss_pred CCCccCcccc
Q 033041 40 TCPLCRTPVE 49 (129)
Q Consensus 40 ~CP~Cr~~~~ 49 (129)
+||+|...+.
T Consensus 26 tCP~C~a~~~ 35 (54)
T PF09237_consen 26 TCPICGAVIR 35 (54)
T ss_dssp E-TTT--EES
T ss_pred CCCcchhhcc
Confidence 7999987653
No 255
>KOG4430 consensus Topoisomerase I-binding arginine-serine-rich protein [Transcription]
Probab=21.14 E-value=45 Score=28.46 Aligned_cols=52 Identities=23% Similarity=0.307 Sum_probs=39.6
Q ss_pred ccccccccccCCCcceEeCCCCChhhHHhHHHHHhCCCCCCccCccccccCC
Q 033041 2 DCAVCLSEFEENESGRVLPGCNHSFHIGCIDMWFHSHSTCPLCRTPVELVTA 53 (129)
Q Consensus 2 ~C~IC~~~~~~~~~~~~lp~C~H~Fh~~Ci~~wl~~~~~CP~Cr~~~~~~~~ 53 (129)
.|.+|+..........++.+|.|.++..|+..|-.....|+.|.+.+.....
T Consensus 262 ~~~~~~~~~~~~eqk~l~~~~~~~~g~tsl~~e~~~~~v~~~~~tk~~~~~~ 313 (553)
T KOG4430|consen 262 ACGLCLSEADAKEQKGLEGNNQRQTGATSLMEEEAVESVCPLRVTKVRTISK 313 (553)
T ss_pred chhhchhhHhHHHhhhhhhcccchhhhhhhhhhhhhhhhhhccccccccccc
Confidence 4667777666555555666688999999999998888899999988765443
No 256
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=20.82 E-value=16 Score=17.65 Aligned_cols=7 Identities=43% Similarity=1.189 Sum_probs=3.3
Q ss_pred CCCccCc
Q 033041 40 TCPLCRT 46 (129)
Q Consensus 40 ~CP~Cr~ 46 (129)
.||.|-.
T Consensus 18 fC~~CG~ 24 (26)
T PF13248_consen 18 FCPNCGA 24 (26)
T ss_pred cChhhCC
Confidence 4555543
No 257
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=20.79 E-value=12 Score=18.92 Aligned_cols=6 Identities=50% Similarity=1.514 Sum_probs=2.7
Q ss_pred CCCccC
Q 033041 40 TCPLCR 45 (129)
Q Consensus 40 ~CP~Cr 45 (129)
.||.|.
T Consensus 23 ~C~~Cg 28 (32)
T PF09297_consen 23 RCPSCG 28 (32)
T ss_dssp EESSSS
T ss_pred ECCCCc
Confidence 344443
No 258
>PF12773 DZR: Double zinc ribbon
Probab=20.76 E-value=91 Score=16.98 Aligned_cols=12 Identities=25% Similarity=0.670 Sum_probs=8.3
Q ss_pred CCCCCccCcccc
Q 033041 38 HSTCPLCRTPVE 49 (129)
Q Consensus 38 ~~~CP~Cr~~~~ 49 (129)
...||.|...+.
T Consensus 29 ~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 29 KKICPNCGAENP 40 (50)
T ss_pred CCCCcCCcCCCc
Confidence 457999987653
No 259
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=20.46 E-value=67 Score=26.75 Aligned_cols=30 Identities=30% Similarity=0.630 Sum_probs=18.8
Q ss_pred cccccccccCCC---cceEeCCCCChhhHHhHHH
Q 033041 3 CAVCLSEFEENE---SGRVLPGCNHSFHIGCIDM 33 (129)
Q Consensus 3 C~IC~~~~~~~~---~~~~lp~C~H~Fh~~Ci~~ 33 (129)
|.||.. |+... .+....-|||+-|..|-..
T Consensus 131 C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr 163 (446)
T PF07227_consen 131 CCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALR 163 (446)
T ss_pred ccccCC-cccCCCCeeEEeccCCCceehhhhhcc
Confidence 778865 44322 2233334999999999654
Done!