Query 042704
Match_columns 201
No_of_seqs 190 out of 1956
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 08:40:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042704.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042704hhsearch_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 4.6E-16 9.9E-21 97.7 2.4 44 154-197 1-44 (44)
2 KOG4628 Predicted E3 ubiquitin 99.5 6.6E-15 1.4E-19 128.7 4.2 47 154-200 230-277 (348)
3 PF12678 zf-rbx1: RING-H2 zinc 99.4 6.9E-13 1.5E-17 92.2 4.1 45 153-197 19-73 (73)
4 PHA02929 N1R/p28-like protein; 99.3 3.2E-12 6.8E-17 107.2 5.3 49 152-200 173-226 (238)
5 COG5540 RING-finger-containing 99.3 2.4E-12 5.3E-17 109.7 3.9 50 152-201 322-372 (374)
6 COG5243 HRD1 HRD ubiquitin lig 99.2 9.3E-12 2E-16 108.7 3.2 49 152-200 286-344 (491)
7 PF13920 zf-C3HC4_3: Zinc fing 99.1 7.5E-11 1.6E-15 75.8 3.5 45 153-200 2-47 (50)
8 PF13923 zf-C3HC4_2: Zinc fing 99.0 1.7E-10 3.7E-15 70.4 3.1 39 156-196 1-39 (39)
9 cd00162 RING RING-finger (Real 99.0 2.8E-10 6.2E-15 69.9 3.8 44 155-200 1-45 (45)
10 PLN03208 E3 ubiquitin-protein 99.0 3.3E-10 7.2E-15 91.9 4.2 47 152-201 17-79 (193)
11 PF15227 zf-C3HC4_4: zinc fing 99.0 4.2E-10 9.1E-15 70.0 3.3 38 156-196 1-42 (42)
12 PF12861 zf-Apc11: Anaphase-pr 98.9 5.3E-10 1.2E-14 79.3 2.9 48 153-200 21-81 (85)
13 KOG0802 E3 ubiquitin ligase [P 98.9 3.4E-10 7.3E-15 105.6 2.2 48 152-199 290-339 (543)
14 KOG0317 Predicted E3 ubiquitin 98.9 6E-10 1.3E-14 94.7 2.7 46 152-200 238-283 (293)
15 PF14634 zf-RING_5: zinc-RING 98.9 2.4E-09 5.3E-14 67.0 3.4 44 155-198 1-44 (44)
16 smart00504 Ubox Modified RING 98.9 3.3E-09 7.1E-14 70.8 4.3 44 154-200 2-45 (63)
17 PF00097 zf-C3HC4: Zinc finger 98.8 2.8E-09 6E-14 65.4 3.4 39 156-196 1-41 (41)
18 KOG0823 Predicted E3 ubiquitin 98.8 2.1E-09 4.5E-14 88.9 3.4 46 152-200 46-94 (230)
19 smart00184 RING Ring finger. E 98.8 3.9E-09 8.5E-14 62.5 3.4 38 156-196 1-39 (39)
20 PHA02926 zinc finger-like prot 98.7 5.9E-09 1.3E-13 85.9 3.3 49 152-200 169-229 (242)
21 KOG0320 Predicted E3 ubiquitin 98.7 6.1E-09 1.3E-13 83.0 2.8 48 152-200 130-177 (187)
22 TIGR00599 rad18 DNA repair pro 98.7 8.2E-09 1.8E-13 92.5 3.8 53 145-200 17-70 (397)
23 COG5194 APC11 Component of SCF 98.5 8.5E-08 1.8E-12 66.8 3.3 47 154-200 32-80 (88)
24 PF13445 zf-RING_UBOX: RING-ty 98.5 1.2E-07 2.6E-12 59.2 3.0 38 156-194 1-43 (43)
25 COG5574 PEX10 RING-finger-cont 98.4 1E-07 2.3E-12 80.3 2.9 46 152-200 214-261 (271)
26 smart00744 RINGv The RING-vari 98.4 2.1E-07 4.5E-12 59.7 3.3 42 155-197 1-49 (49)
27 KOG1493 Anaphase-promoting com 98.4 7.4E-08 1.6E-12 66.5 0.9 48 153-200 20-80 (84)
28 COG5219 Uncharacterized conser 98.4 1.2E-07 2.7E-12 91.2 2.5 48 152-201 1468-1523(1525)
29 PF04564 U-box: U-box domain; 98.4 2.7E-07 5.9E-12 63.9 3.4 45 153-200 4-49 (73)
30 KOG0287 Postreplication repair 98.4 1.2E-07 2.6E-12 82.5 1.8 45 153-200 23-67 (442)
31 COG5432 RAD18 RING-finger-cont 98.4 1.6E-07 3.5E-12 80.2 2.4 55 143-200 14-69 (391)
32 KOG4265 Predicted E3 ubiquitin 98.4 2.7E-07 5.9E-12 80.7 3.2 46 152-200 289-335 (349)
33 KOG2164 Predicted E3 ubiquitin 98.3 2.8E-07 6E-12 83.9 2.8 45 153-200 186-235 (513)
34 KOG0828 Predicted E3 ubiquitin 98.3 3.4E-07 7.3E-12 83.0 2.0 50 152-201 570-634 (636)
35 KOG1734 Predicted RING-contain 98.2 4E-07 8.7E-12 77.0 0.6 49 152-200 223-280 (328)
36 PF11793 FANCL_C: FANCL C-term 98.1 8.1E-07 1.8E-11 61.2 -0.0 48 153-200 2-65 (70)
37 KOG2930 SCF ubiquitin ligase, 98.0 4.9E-06 1.1E-10 60.8 2.7 29 171-199 78-106 (114)
38 KOG0804 Cytoplasmic Zn-finger 97.8 7.5E-06 1.6E-10 73.6 1.0 46 152-199 174-220 (493)
39 KOG4172 Predicted E3 ubiquitin 97.8 6.7E-06 1.5E-10 53.4 0.2 45 153-200 7-53 (62)
40 KOG4445 Uncharacterized conser 97.7 1.4E-05 3.1E-10 68.6 1.0 49 152-200 114-185 (368)
41 KOG0311 Predicted E3 ubiquitin 97.6 7E-06 1.5E-10 71.9 -1.4 47 152-200 42-89 (381)
42 PF14835 zf-RING_6: zf-RING of 97.6 1.4E-05 3E-10 53.7 -0.5 41 154-199 8-49 (65)
43 KOG4159 Predicted E3 ubiquitin 97.5 5.3E-05 1.2E-09 68.2 2.2 47 152-201 83-129 (398)
44 KOG0825 PHD Zn-finger protein 97.5 2.3E-05 5E-10 74.6 -0.1 49 152-200 122-170 (1134)
45 KOG1039 Predicted E3 ubiquitin 97.4 7.6E-05 1.6E-09 66.0 2.5 51 150-200 158-220 (344)
46 KOG1785 Tyrosine kinase negati 97.2 0.00014 3E-09 64.9 1.2 44 154-200 370-415 (563)
47 KOG1941 Acetylcholine receptor 97.1 0.00015 3.2E-09 64.6 0.9 47 152-198 364-413 (518)
48 PF11789 zf-Nse: Zinc-finger o 97.0 0.00043 9.4E-09 45.7 2.0 41 153-195 11-53 (57)
49 KOG0978 E3 ubiquitin ligase in 97.0 0.00026 5.6E-09 67.5 0.9 45 153-200 643-688 (698)
50 KOG1814 Predicted E3 ubiquitin 96.9 0.00071 1.5E-08 60.6 3.2 45 153-197 184-236 (445)
51 KOG1428 Inhibitor of type V ad 96.8 0.001 2.2E-08 67.4 3.1 49 152-200 3485-3543(3738)
52 KOG0297 TNF receptor-associate 96.8 0.00059 1.3E-08 61.6 1.4 46 152-200 20-66 (391)
53 KOG2660 Locus-specific chromos 96.7 0.00038 8.3E-09 60.6 0.1 45 153-199 15-59 (331)
54 PF12906 RINGv: RING-variant d 96.7 0.0012 2.5E-08 41.8 2.1 40 156-196 1-47 (47)
55 KOG0801 Predicted E3 ubiquitin 96.6 0.00059 1.3E-08 54.0 0.3 29 152-180 176-204 (205)
56 PF14570 zf-RING_4: RING/Ubox 96.5 0.0017 3.7E-08 41.3 1.8 43 156-199 1-46 (48)
57 KOG2879 Predicted E3 ubiquitin 96.4 0.0033 7.2E-08 53.7 3.9 47 152-200 238-286 (298)
58 COG5152 Uncharacterized conser 96.3 0.0015 3.2E-08 53.4 0.9 43 154-199 197-239 (259)
59 PF10367 Vps39_2: Vacuolar sor 96.0 0.0023 5.1E-08 46.5 0.8 32 152-184 77-108 (109)
60 COG5236 Uncharacterized conser 96.0 0.0071 1.5E-07 53.4 3.6 46 152-200 60-107 (493)
61 KOG4692 Predicted E3 ubiquitin 95.9 0.01 2.3E-07 52.5 4.5 50 148-200 417-466 (489)
62 PF05883 Baculo_RING: Baculovi 95.6 0.009 2E-07 46.0 2.4 36 153-188 26-67 (134)
63 KOG1813 Predicted E3 ubiquitin 95.6 0.0044 9.5E-08 53.4 0.7 44 153-199 241-284 (313)
64 KOG3970 Predicted E3 ubiquitin 95.5 0.01 2.3E-07 49.5 2.8 47 153-200 50-104 (299)
65 KOG4275 Predicted E3 ubiquitin 95.5 0.0022 4.9E-08 55.2 -1.1 41 153-200 300-341 (350)
66 PHA02825 LAP/PHD finger-like p 95.5 0.013 2.8E-07 46.3 3.1 47 152-200 7-58 (162)
67 KOG1940 Zn-finger protein [Gen 95.5 0.0087 1.9E-07 51.5 2.3 48 151-198 156-204 (276)
68 KOG1002 Nucleotide excision re 95.2 0.0089 1.9E-07 55.4 1.6 46 152-200 535-585 (791)
69 KOG1571 Predicted E3 ubiquitin 95.2 0.0096 2.1E-07 52.6 1.7 43 152-200 304-346 (355)
70 PF08746 zf-RING-like: RING-li 95.1 0.0097 2.1E-07 36.9 1.1 41 156-196 1-43 (43)
71 KOG0827 Predicted E3 ubiquitin 94.7 0.0019 4.1E-08 57.6 -4.2 49 153-201 196-245 (465)
72 PHA03096 p28-like protein; Pro 94.4 0.023 5E-07 49.2 1.9 45 154-198 179-231 (284)
73 KOG1952 Transcription factor N 94.3 0.029 6.3E-07 54.5 2.5 46 152-197 190-243 (950)
74 KOG3268 Predicted E3 ubiquitin 93.8 0.056 1.2E-06 43.6 2.9 47 154-200 166-227 (234)
75 PF14447 Prok-RING_4: Prokaryo 93.7 0.032 7E-07 36.4 1.1 42 154-200 8-49 (55)
76 COG5222 Uncharacterized conser 93.5 0.04 8.6E-07 47.9 1.7 41 154-197 275-317 (427)
77 PF04641 Rtf2: Rtf2 RING-finge 93.5 0.076 1.7E-06 45.3 3.4 48 152-200 112-160 (260)
78 KOG2114 Vacuolar assembly/sort 93.5 0.071 1.5E-06 52.0 3.5 41 154-199 841-881 (933)
79 PF10272 Tmpp129: Putative tra 92.8 0.09 2E-06 47.0 2.9 27 174-200 311-350 (358)
80 KOG3039 Uncharacterized conser 92.7 0.12 2.6E-06 43.8 3.4 48 153-200 221-269 (303)
81 PF03854 zf-P11: P-11 zinc fin 92.0 0.057 1.2E-06 34.2 0.5 31 171-201 15-46 (50)
82 KOG2817 Predicted E3 ubiquitin 91.6 0.17 3.6E-06 45.5 3.1 48 152-199 333-383 (394)
83 KOG1001 Helicase-like transcri 91.6 0.071 1.5E-06 51.4 0.9 42 154-199 455-498 (674)
84 KOG1100 Predicted E3 ubiquitin 91.1 0.1 2.2E-06 43.2 1.2 37 156-199 161-198 (207)
85 KOG2932 E3 ubiquitin ligase in 90.8 0.11 2.3E-06 45.4 1.1 41 155-199 92-132 (389)
86 KOG2034 Vacuolar sorting prote 90.3 0.14 3.1E-06 50.1 1.6 35 152-187 816-850 (911)
87 KOG0826 Predicted E3 ubiquitin 90.2 0.21 4.4E-06 44.0 2.3 45 152-199 299-344 (357)
88 KOG3899 Uncharacterized conser 89.3 0.22 4.9E-06 43.2 1.8 27 174-200 325-364 (381)
89 PF14446 Prok-RING_1: Prokaryo 89.1 0.4 8.8E-06 31.2 2.5 33 153-185 5-38 (54)
90 KOG0298 DEAD box-containing he 88.9 0.13 2.7E-06 52.3 0.0 43 153-197 1153-1195(1394)
91 KOG3053 Uncharacterized conser 87.3 0.31 6.8E-06 41.5 1.5 48 152-199 19-80 (293)
92 KOG0309 Conserved WD40 repeat- 87.1 0.38 8.2E-06 46.7 2.0 41 154-195 1029-1069(1081)
93 PF05290 Baculo_IE-1: Baculovi 87.1 0.53 1.1E-05 36.3 2.4 47 152-200 79-131 (140)
94 KOG1609 Protein involved in mR 86.6 0.29 6.2E-06 42.1 0.9 47 153-199 78-132 (323)
95 KOG3002 Zn finger protein [Gen 85.1 0.73 1.6E-05 40.3 2.7 42 152-200 47-90 (299)
96 COG5175 MOT2 Transcriptional r 83.7 0.72 1.6E-05 40.9 2.0 47 153-199 14-62 (480)
97 KOG2807 RNA polymerase II tran 82.9 2 4.2E-05 38.0 4.3 72 127-199 304-376 (378)
98 KOG0269 WD40 repeat-containing 81.9 1.3 2.9E-05 43.0 3.2 42 153-195 779-820 (839)
99 KOG1812 Predicted E3 ubiquitin 78.6 0.98 2.1E-05 40.8 1.1 36 153-188 146-182 (384)
100 PF02891 zf-MIZ: MIZ/SP-RING z 75.3 3.9 8.5E-05 25.9 2.9 41 154-199 3-50 (50)
101 KOG4718 Non-SMC (structural ma 74.9 1.7 3.8E-05 36.1 1.5 42 154-197 182-223 (235)
102 COG5109 Uncharacterized conser 70.5 3.9 8.5E-05 36.0 2.7 47 152-198 335-384 (396)
103 PF13901 DUF4206: Domain of un 69.1 3.5 7.7E-05 33.8 2.1 41 152-197 151-196 (202)
104 KOG1815 Predicted E3 ubiquitin 67.7 3.1 6.7E-05 38.2 1.6 35 152-188 69-103 (444)
105 KOG4362 Transcriptional regula 65.8 1.6 3.4E-05 42.2 -0.7 44 154-200 22-68 (684)
106 KOG2066 Vacuolar assembly/sort 64.9 2.8 6E-05 41.0 0.7 43 153-196 784-830 (846)
107 KOG0802 E3 ubiquitin ligase [P 64.3 3.1 6.7E-05 39.2 1.0 41 152-199 478-518 (543)
108 KOG1829 Uncharacterized conser 62.2 2.9 6.3E-05 39.7 0.4 42 152-196 510-556 (580)
109 smart00132 LIM Zinc-binding do 61.7 6.6 0.00014 22.3 1.8 36 156-200 2-37 (39)
110 KOG3005 GIY-YIG type nuclease 58.3 5.7 0.00012 34.2 1.4 47 154-200 183-242 (276)
111 smart00249 PHD PHD zinc finger 57.0 6.4 0.00014 23.1 1.2 30 156-185 2-31 (47)
112 KOG0825 PHD Zn-finger protein 56.1 7.2 0.00016 38.4 1.9 47 152-198 95-151 (1134)
113 PF04710 Pellino: Pellino; In 55.3 3.9 8.5E-05 37.0 0.0 26 171-199 306-337 (416)
114 COG5183 SSM4 Protein involved 54.5 10 0.00023 37.5 2.6 49 152-200 11-65 (1175)
115 KOG2068 MOT2 transcription fac 51.6 11 0.00024 33.3 2.2 45 154-199 250-296 (327)
116 PF06906 DUF1272: Protein of u 51.6 25 0.00053 23.1 3.2 43 154-200 6-51 (57)
117 KOG1812 Predicted E3 ubiquitin 51.5 8.1 0.00018 34.9 1.4 43 154-196 307-351 (384)
118 TIGR00622 ssl1 transcription f 51.0 27 0.00058 26.2 3.9 46 153-198 55-111 (112)
119 PF10571 UPF0547: Uncharacteri 50.7 8.9 0.00019 21.0 1.0 10 192-201 2-11 (26)
120 KOG1729 FYVE finger containing 50.3 4.2 9.2E-05 35.4 -0.6 44 146-189 207-250 (288)
121 KOG4185 Predicted E3 ubiquitin 49.5 3.3 7.2E-05 35.5 -1.4 46 153-198 207-264 (296)
122 PF06844 DUF1244: Protein of u 49.0 11 0.00024 25.5 1.4 12 177-188 11-22 (68)
123 PF00628 PHD: PHD-finger; Int 46.9 8.5 0.00018 23.8 0.6 43 156-198 2-50 (51)
124 PF06937 EURL: EURL protein; 46.7 19 0.00042 31.0 2.9 41 154-194 31-74 (285)
125 KOG3039 Uncharacterized conser 46.7 14 0.0003 31.6 2.0 32 153-187 43-74 (303)
126 PF00412 LIM: LIM domain; Int 44.8 11 0.00024 23.6 0.9 9 174-182 18-26 (58)
127 PF07975 C1_4: TFIIH C1-like d 37.2 27 0.00059 22.4 1.8 41 156-197 2-50 (51)
128 KOG3579 Predicted E3 ubiquitin 36.4 20 0.00043 31.3 1.4 37 153-190 268-306 (352)
129 PF04423 Rad50_zn_hook: Rad50 34.1 13 0.00028 23.7 -0.1 9 192-200 22-30 (54)
130 KOG2113 Predicted RNA binding 33.2 34 0.00073 30.3 2.3 42 152-198 342-384 (394)
131 PF14311 DUF4379: Domain of un 32.0 26 0.00057 22.2 1.1 22 174-196 34-55 (55)
132 PF07191 zinc-ribbons_6: zinc- 30.5 5.1 0.00011 27.5 -2.5 39 154-200 2-40 (70)
133 PF13719 zinc_ribbon_5: zinc-r 29.1 34 0.00074 20.1 1.2 13 155-167 4-16 (37)
134 PF07649 C1_3: C1-like domain; 29.0 43 0.00092 18.5 1.5 29 155-183 2-30 (30)
135 PF01363 FYVE: FYVE zinc finge 28.8 26 0.00056 23.1 0.7 33 152-186 8-43 (69)
136 smart00531 TFIIE Transcription 28.7 1.8E+02 0.0039 22.3 5.6 21 70-90 21-41 (147)
137 PF02318 FYVE_2: FYVE-type zin 28.4 87 0.0019 23.2 3.6 34 152-185 53-88 (118)
138 PF13832 zf-HC5HC2H_2: PHD-zin 28.2 57 0.0012 23.5 2.5 33 152-186 54-88 (110)
139 PF13717 zinc_ribbon_4: zinc-r 27.4 31 0.00068 20.2 0.8 13 155-167 4-16 (36)
140 TIGR00373 conserved hypothetic 26.9 1.6E+02 0.0034 23.1 5.0 24 70-93 34-57 (158)
141 KOG3113 Uncharacterized conser 26.7 58 0.0013 28.0 2.6 45 154-200 112-157 (293)
142 smart00734 ZnF_Rad18 Rad18-lik 26.5 34 0.00075 18.5 0.8 8 192-199 3-10 (26)
143 cd00350 rubredoxin_like Rubred 26.0 37 0.00079 19.4 0.9 9 190-198 17-25 (33)
144 PF04216 FdhE: Protein involve 24.8 21 0.00046 30.7 -0.4 46 152-198 171-219 (290)
145 KOG1245 Chromatin remodeling c 23.3 30 0.00064 36.6 0.3 48 152-199 1107-1158(1404)
146 COG5220 TFB3 Cdk activating ki 22.8 44 0.00095 28.6 1.1 29 168-196 27-59 (314)
147 PF14569 zf-UDP: Zinc-binding 22.7 1E+02 0.0022 21.6 2.8 49 151-199 7-60 (80)
148 PRK06266 transcription initiat 22.7 1.6E+02 0.0035 23.6 4.4 31 152-200 116-146 (178)
149 COG3492 Uncharacterized protei 22.6 47 0.001 24.0 1.1 12 177-188 42-53 (104)
150 cd00065 FYVE FYVE domain; Zinc 22.4 66 0.0014 20.0 1.7 35 154-188 3-38 (57)
151 PF04710 Pellino: Pellino; In 22.1 30 0.00064 31.5 0.0 48 153-200 328-400 (416)
152 PF14169 YdjO: Cold-inducible 21.8 46 0.00099 22.0 0.8 12 189-200 38-49 (59)
153 PF10497 zf-4CXXC_R1: Zinc-fin 21.1 80 0.0017 23.1 2.1 24 175-198 37-69 (105)
154 PF10146 zf-C4H2: Zinc finger- 21.1 66 0.0014 27.0 1.9 21 179-199 197-217 (230)
155 KOG3842 Adaptor protein Pellin 20.9 62 0.0014 28.8 1.7 49 152-200 340-413 (429)
156 PF06750 DiS_P_DiS: Bacterial 20.7 83 0.0018 22.4 2.1 36 154-201 34-69 (92)
157 COG3813 Uncharacterized protei 20.6 1.1E+02 0.0024 21.2 2.5 43 155-200 7-51 (84)
158 PF15353 HECA: Headcase protei 20.4 64 0.0014 23.9 1.5 13 174-186 40-52 (107)
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=99.59 E-value=4.6e-16 Score=97.70 Aligned_cols=44 Identities=43% Similarity=1.241 Sum_probs=40.5
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR 197 (201)
+.|+||++.+..++.++.++|+|.||.+||.+|++++.+||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHSSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhCCcCCccC
Confidence 47999999999889999999999999999999999999999998
No 2
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.52 E-value=6.6e-15 Score=128.67 Aligned_cols=47 Identities=38% Similarity=1.044 Sum_probs=43.6
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCC-CCCCCCccC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS-LCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~-~CPlCR~~l 200 (201)
..|+||+|+|..|+.++.|||+|.||..||++||.++. .||+|++.+
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcC
Confidence 48999999999999999999999999999999998775 599999875
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=99.35 E-value=6.9e-13 Score=92.18 Aligned_cols=45 Identities=40% Similarity=1.043 Sum_probs=36.4
Q ss_pred ccccccccccccC----------CCceEEccCCCcccHHHHHHHHhcCCCCCCCC
Q 042704 153 QQYCVICLEVMKE----------GSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197 (201)
Q Consensus 153 ~~~C~ICle~~~~----------~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR 197 (201)
++.|+||++.+.. +..+...+|+|.||..||.+||+.+.+||+||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~~CP~CR 73 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNNTCPLCR 73 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSSB-TTSS
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCCcCCCCC
Confidence 4569999999932 22345567999999999999999999999998
No 4
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.29 E-value=3.2e-12 Score=107.25 Aligned_cols=49 Identities=27% Similarity=0.771 Sum_probs=40.7
Q ss_pred CccccccccccccCCCc-----eEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSK-----AARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~-----~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
.+..|+||++.+..+.. .+.++|+|.||..||.+|++++.+||+||.++
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~tCPlCR~~~ 226 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNTCPVCRTPF 226 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCCCCCCCCEe
Confidence 46799999999764321 23457999999999999999999999999875
No 5
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=2.4e-12 Score=109.72 Aligned_cols=50 Identities=30% Similarity=0.825 Sum_probs=46.2
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccCC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQLS 201 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l~ 201 (201)
.+-+|+||++.|-.++..+.|||.|.||..|+.+|+. -++.||+||.++|
T Consensus 322 ~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 322 KGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 4579999999999999999999999999999999997 5668999999986
No 6
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.19 E-value=9.3e-12 Score=108.72 Aligned_cols=49 Identities=39% Similarity=1.009 Sum_probs=42.7
Q ss_pred Ccccccccccc-ccCC---------CceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEV-MKEG---------SKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~-~~~~---------~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
++..|+||+++ +..+ ..+.+|||||.+|.+|++.|++++.+||+||.++
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 67899999999 5444 2367899999999999999999999999999874
No 7
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=99.10 E-value=7.5e-11 Score=75.82 Aligned_cols=45 Identities=31% Similarity=0.854 Sum_probs=39.8
Q ss_pred ccccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
+..|.||++.. ..+..+||||. |+..|+.+|+++...||+||+++
T Consensus 2 ~~~C~iC~~~~---~~~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i 47 (50)
T PF13920_consen 2 DEECPICFENP---RDVVLLPCGHLCFCEECAERLLKRKKKCPICRQPI 47 (50)
T ss_dssp HSB-TTTSSSB---SSEEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-
T ss_pred cCCCccCCccC---CceEEeCCCChHHHHHHhHHhcccCCCCCcCChhh
Confidence 46899999998 56889999999 99999999999999999999986
No 8
>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=99.04 E-value=1.7e-10 Score=70.43 Aligned_cols=39 Identities=31% Similarity=1.021 Sum_probs=32.8
Q ss_pred cccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCC
Q 042704 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLC 196 (201)
Q Consensus 156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlC 196 (201)
|+||++.+. +.++.++|||.|+.+||.+|++.+..||+|
T Consensus 1 C~iC~~~~~--~~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELR--DPVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-S--SEEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCccc--CcCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 899999995 234789999999999999999998899998
No 9
>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=99.02 E-value=2.8e-10 Score=69.91 Aligned_cols=44 Identities=39% Similarity=1.069 Sum_probs=36.5
Q ss_pred ccccccccccCCCceEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704 155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL 200 (201)
Q Consensus 155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l 200 (201)
.|+||++.+. .....++|+|.||..|+..|++. +..||+||..+
T Consensus 1 ~C~iC~~~~~--~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR--EPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh--CceEecCCCChhcHHHHHHHHHhCcCCCCCCCCcC
Confidence 5999999982 34445569999999999999987 77899999864
No 10
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.00 E-value=3.3e-10 Score=91.86 Aligned_cols=47 Identities=26% Similarity=0.737 Sum_probs=39.6
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhc----------------CCCCCCCCccCC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN----------------SSLCPLCRFQLS 201 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~----------------~~~CPlCR~~l~ 201 (201)
+...|+||++.+ ..++.++|||.||..||.+|+.. ...||+||.++.
T Consensus 17 ~~~~CpICld~~---~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 17 GDFDCNICLDQV---RDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred CccCCccCCCcC---CCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 457899999998 56678999999999999999852 247999998763
No 11
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.98 E-value=4.2e-10 Score=69.98 Aligned_cols=38 Identities=34% Similarity=0.949 Sum_probs=30.2
Q ss_pred cccccccccCCCceEEccCCCcccHHHHHHHHhcC----CCCCCC
Q 042704 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS----SLCPLC 196 (201)
Q Consensus 156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~----~~CPlC 196 (201)
|+||++.| .+++.|+|||.|+..||.+|++.. ..||.|
T Consensus 1 CpiC~~~~---~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLF---KDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB----SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhh---CCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999 789999999999999999999743 469987
No 12
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.94 E-value=5.3e-10 Score=79.27 Aligned_cols=48 Identities=29% Similarity=0.743 Sum_probs=36.1
Q ss_pred ccccccccccccCCCc----------eEEccCCCcccHHHHHHHHhc---CCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSK----------AARMPCSHIYHQDCLVNWLKN---SSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~----------~~~LpC~H~FH~~CI~~WL~~---~~~CPlCR~~l 200 (201)
++.|.||...|...-. ++.-.|+|.||..||.+||.. +..||+||+++
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w 81 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPW 81 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCee
Confidence 5778888888863211 222349999999999999985 45899999875
No 13
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=3.4e-10 Score=105.58 Aligned_cols=48 Identities=42% Similarity=1.126 Sum_probs=43.5
Q ss_pred CccccccccccccCCCc--eEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 152 SQQYCVICLEVMKEGSK--AARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~--~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
.+..|+||+|++..+.. +.+|||+|.||..|+..|+++..+||+||..
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~ 339 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTV 339 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhh
Confidence 46899999999976654 8899999999999999999999999999974
No 14
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.91 E-value=6e-10 Score=94.67 Aligned_cols=46 Identities=35% Similarity=0.951 Sum_probs=42.1
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
....|.+|||.- +.+..+||||.||-+||..|...+..||+||.++
T Consensus 238 a~~kC~LCLe~~---~~pSaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~ 283 (293)
T KOG0317|consen 238 ATRKCSLCLENR---SNPSATPCGHIFCWSCILEWCSEKAECPLCREKF 283 (293)
T ss_pred CCCceEEEecCC---CCCCcCcCcchHHHHHHHHHHccccCCCcccccC
Confidence 347899999998 6788999999999999999999999999999876
No 15
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.85 E-value=2.4e-09 Score=67.05 Aligned_cols=44 Identities=34% Similarity=0.775 Sum_probs=38.9
Q ss_pred ccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCc
Q 042704 155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRF 198 (201)
Q Consensus 155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~ 198 (201)
.|.||++.|.....+..++|||.|+..|+.++......||+||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLKGKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhcCCCCCCcCCCC
Confidence 48999999965667888999999999999999866779999985
No 16
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.85 E-value=3.3e-09 Score=70.78 Aligned_cols=44 Identities=27% Similarity=0.531 Sum_probs=39.9
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
..|+||.+.+ ..++.+||||+|++.||.+|++.+.+||+|+.++
T Consensus 2 ~~Cpi~~~~~---~~Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~ 45 (63)
T smart00504 2 FLCPISLEVM---KDPVILPSGQTYERRAIEKWLLSHGTDPVTGQPL 45 (63)
T ss_pred cCCcCCCCcC---CCCEECCCCCEEeHHHHHHHHHHCCCCCCCcCCC
Confidence 4699999999 4578899999999999999999888999999876
No 17
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=98.84 E-value=2.8e-09 Score=65.44 Aligned_cols=39 Identities=46% Similarity=1.153 Sum_probs=33.3
Q ss_pred cccccccccCCCceEEccCCCcccHHHHHHHHh--cCCCCCCC
Q 042704 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--NSSLCPLC 196 (201)
Q Consensus 156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--~~~~CPlC 196 (201)
|+||++.+. .....++|+|.|+..||.+|++ ....||+|
T Consensus 1 C~iC~~~~~--~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFE--DPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCS--SEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCcccc--CCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999994 2334899999999999999998 55689998
No 18
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.83 E-value=2.1e-09 Score=88.94 Aligned_cols=46 Identities=30% Similarity=0.821 Sum_probs=40.0
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhc---CCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN---SSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~---~~~CPlCR~~l 200 (201)
...+|.|||+.- .++++..|||.||-.||.+||.. +..||+|+..+
T Consensus 46 ~~FdCNICLd~a---kdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~V 94 (230)
T KOG0823|consen 46 GFFDCNICLDLA---KDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEV 94 (230)
T ss_pred Cceeeeeecccc---CCCEEeecccceehHHHHHHHhhcCCCeeCCcccccc
Confidence 568999999998 67788899999999999999973 34799999876
No 19
>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=98.82 E-value=3.9e-09 Score=62.54 Aligned_cols=38 Identities=39% Similarity=1.183 Sum_probs=33.9
Q ss_pred cccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCC
Q 042704 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLC 196 (201)
Q Consensus 156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlC 196 (201)
|+||++.. ..+..++|+|.||..|+..|++ .+..||+|
T Consensus 1 C~iC~~~~---~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL---KDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCC---CCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 78999995 6788899999999999999998 66789987
No 20
>PHA02926 zinc finger-like protein; Provisional
Probab=98.75 E-value=5.9e-09 Score=85.95 Aligned_cols=49 Identities=29% Similarity=0.766 Sum_probs=36.5
Q ss_pred CccccccccccccCC-----CceEEc-cCCCcccHHHHHHHHhcC------CCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEG-----SKAARM-PCSHIYHQDCLVNWLKNS------SLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~-----~~~~~L-pC~H~FH~~CI~~WL~~~------~~CPlCR~~l 200 (201)
.+..|+||+|..-.. .....| +|+|.||..||.+|.+.+ .+||+||..+
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f 229 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRF 229 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCccee
Confidence 458999999986321 112234 699999999999999742 3699999864
No 21
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=6.1e-09 Score=83.00 Aligned_cols=48 Identities=31% Similarity=0.780 Sum_probs=40.4
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
....|+|||+.+... .+.-..|||+||+.||+.-++....||+||+.|
T Consensus 130 ~~~~CPiCl~~~sek-~~vsTkCGHvFC~~Cik~alk~~~~CP~C~kkI 177 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEK-VPVSTKCGHVFCSQCIKDALKNTNKCPTCRKKI 177 (187)
T ss_pred cccCCCceecchhhc-cccccccchhHHHHHHHHHHHhCCCCCCccccc
Confidence 457899999999632 234467999999999999999999999999765
No 22
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.72 E-value=8.2e-09 Score=92.46 Aligned_cols=53 Identities=28% Similarity=0.624 Sum_probs=44.0
Q ss_pred CCcccCC-CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 145 APAIEGC-SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 145 ~p~~~~~-~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
.|.++.. ....|+||++.| ..++.+||+|.||..||..|+.....||+||..+
T Consensus 17 ~~~l~~Le~~l~C~IC~d~~---~~PvitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~ 70 (397)
T TIGR00599 17 IPSLYPLDTSLRCHICKDFF---DVPVLTSCSHTFCSLCIRRCLSNQPKCPLCRAED 70 (397)
T ss_pred cccccccccccCCCcCchhh---hCccCCCCCCchhHHHHHHHHhCCCCCCCCCCcc
Confidence 3444444 457999999999 5666899999999999999999888999999865
No 23
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.52 E-value=8.5e-08 Score=66.81 Aligned_cols=47 Identities=30% Similarity=0.702 Sum_probs=34.7
Q ss_pred cccccccccccCCCce--EEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 154 QYCVICLEVMKEGSKA--ARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~--~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
..|+-|......|++. .-=-|.|.||..||.+||..+..||++|+++
T Consensus 32 ~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 32 GTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred CcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 4555565544444432 2234999999999999999999999999874
No 24
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.48 E-value=1.2e-07 Score=59.16 Aligned_cols=38 Identities=37% Similarity=0.870 Sum_probs=22.7
Q ss_pred cccccccccC-CCceEEccCCCcccHHHHHHHHhcC----CCCC
Q 042704 156 CVICLEVMKE-GSKAARMPCSHIYHQDCLVNWLKNS----SLCP 194 (201)
Q Consensus 156 C~ICle~~~~-~~~~~~LpC~H~FH~~CI~~WL~~~----~~CP 194 (201)
|+||.| |.. ...+..|||||+|+.+||.++++++ ..||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 899999 643 3357889999999999999999843 2576
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.45 E-value=1e-07 Score=80.25 Aligned_cols=46 Identities=35% Similarity=0.888 Sum_probs=40.3
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHH-HHhcCCC-CCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVN-WLKNSSL-CPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~-WL~~~~~-CPlCR~~l 200 (201)
.+..|+||++.. ..+..+||||+||..||.. |-+++.- ||+||+..
T Consensus 214 ~d~kC~lC~e~~---~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 214 ADYKCFLCLEEP---EVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred cccceeeeeccc---CCcccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 467899999998 6788999999999999999 9776665 99999864
No 26
>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=98.43 E-value=2.1e-07 Score=59.70 Aligned_cols=42 Identities=29% Similarity=0.872 Sum_probs=33.4
Q ss_pred ccccccccccCCCceEEccCC-----CcccHHHHHHHHhc--CCCCCCCC
Q 042704 155 YCVICLEVMKEGSKAARMPCS-----HIYHQDCLVNWLKN--SSLCPLCR 197 (201)
Q Consensus 155 ~C~ICle~~~~~~~~~~LpC~-----H~FH~~CI~~WL~~--~~~CPlCR 197 (201)
.|.||++ ...+..+..+||. |.+|.+|+.+|+.. +.+||+|+
T Consensus 1 ~CrIC~~-~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHD-EGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCC-CCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 4899999 3344567789984 88999999999964 45899995
No 27
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.41 E-value=7.4e-08 Score=66.55 Aligned_cols=48 Identities=29% Similarity=0.879 Sum_probs=34.3
Q ss_pred ccccccccccccCCCceEEcc----------CCCcccHHHHHHHHhc---CCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAARMP----------CSHIYHQDCLVNWLKN---SSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~Lp----------C~H~FH~~CI~~WL~~---~~~CPlCR~~l 200 (201)
+..|-||.-.|..--.-.++| |.|.||..||.+|+.. +..||+||+++
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 347777777774322222333 8999999999999973 34799999875
No 28
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.40 E-value=1.2e-07 Score=91.16 Aligned_cols=48 Identities=33% Similarity=0.929 Sum_probs=38.5
Q ss_pred CccccccccccccCCCceEEcc------CCCcccHHHHHHHHh--cCCCCCCCCccCC
Q 042704 152 SQQYCVICLEVMKEGSKAARMP------CSHIYHQDCLVNWLK--NSSLCPLCRFQLS 201 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~Lp------C~H~FH~~CI~~WL~--~~~~CPlCR~~l~ 201 (201)
+-.+|+||...+.. .-+.|| |+|.||..|+.+|++ .+++||+||.+++
T Consensus 1468 G~eECaICYsvL~~--vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDM--VDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHH--HhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 45799999999851 223455 899999999999997 4568999999875
No 29
>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=98.39 E-value=2.7e-07 Score=63.88 Aligned_cols=45 Identities=27% Similarity=0.560 Sum_probs=37.0
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHhc-CCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN-SSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~-~~~CPlCR~~l 200 (201)
...|+|+.+.+ ..++.+|+||.|.+.||.+|+.. +.+||+|+.++
T Consensus 4 ~f~CpIt~~lM---~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l 49 (73)
T PF04564_consen 4 EFLCPITGELM---RDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPL 49 (73)
T ss_dssp GGB-TTTSSB----SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-
T ss_pred ccCCcCcCcHh---hCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcC
Confidence 57899999999 78899999999999999999998 88999998876
No 30
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=98.39 E-value=1.2e-07 Score=82.47 Aligned_cols=45 Identities=29% Similarity=0.698 Sum_probs=41.4
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
-..|-||.|.| ..+...||+|.||.-||...|..+..||.|+.++
T Consensus 23 lLRC~IC~eyf---~ip~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~ 67 (442)
T KOG0287|consen 23 LLRCGICFEYF---NIPMITPCSHTFCSLCIRKFLSYKPQCPTCCVTV 67 (442)
T ss_pred HHHHhHHHHHh---cCceeccccchHHHHHHHHHhccCCCCCceeccc
Confidence 46899999999 6788999999999999999999999999999865
No 31
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=98.38 E-value=1.6e-07 Score=80.21 Aligned_cols=55 Identities=27% Similarity=0.600 Sum_probs=45.9
Q ss_pred hcCCcccCC-CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 143 KLAPAIEGC-SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 143 ~~~p~~~~~-~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
...|.+.+. +...|-||-+.| ..+...+|||.||.-||...|..+..||+||.+.
T Consensus 14 T~IPSL~~LDs~lrC~IC~~~i---~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~ 69 (391)
T COG5432 14 TKIPSLKGLDSMLRCRICDCRI---SIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDP 69 (391)
T ss_pred ccCcchhcchhHHHhhhhhhee---ecceecccccchhHHHHHHHhcCCCCCccccccH
Confidence 344555544 457899999999 6777899999999999999999999999999863
No 32
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.35 E-value=2.7e-07 Score=80.69 Aligned_cols=46 Identities=30% Similarity=0.743 Sum_probs=41.4
Q ss_pred CccccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
++.+|.||+.+. .....|||+|. .|..|.+..--+++.||+||+++
T Consensus 289 ~gkeCVIClse~---rdt~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi 335 (349)
T KOG4265|consen 289 SGKECVICLSES---RDTVVLPCRHLCLCSGCAKSLRYQTNNCPICRQPI 335 (349)
T ss_pred CCCeeEEEecCC---cceEEecchhhehhHhHHHHHHHhhcCCCccccch
Confidence 468999999999 68889999999 99999988777888999999875
No 33
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=2.8e-07 Score=83.87 Aligned_cols=45 Identities=36% Similarity=0.835 Sum_probs=37.9
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHhcC-----CCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS-----SLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~-----~~CPlCR~~l 200 (201)
+..|+|||+.. ..+.++-|||+||..||.+++... ..||+||..+
T Consensus 186 ~~~CPICL~~~---~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPP---SVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCC---CcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 68999999998 566677799999999999998643 4899999765
No 34
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=3.4e-07 Score=82.96 Aligned_cols=50 Identities=38% Similarity=1.021 Sum_probs=38.9
Q ss_pred CccccccccccccC---CCce-----------EEccCCCcccHHHHHHHHh-cCCCCCCCCccCC
Q 042704 152 SQQYCVICLEVMKE---GSKA-----------ARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQLS 201 (201)
Q Consensus 152 ~~~~C~ICle~~~~---~~~~-----------~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l~ 201 (201)
...+|+||+..... +... ...||.|+||..|+.+|.. .+-.||+||.++|
T Consensus 570 ~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 570 RTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred ccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 35689999997642 2211 1359999999999999998 5558999999986
No 35
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.19 E-value=4e-07 Score=77.00 Aligned_cols=49 Identities=22% Similarity=0.792 Sum_probs=40.6
Q ss_pred CccccccccccccCCC-------ceEEccCCCcccHHHHHHHH--hcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGS-------KAARMPCSHIYHQDCLVNWL--KNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~-------~~~~LpC~H~FH~~CI~~WL--~~~~~CPlCR~~l 200 (201)
++.-|+||=..+.... ...+|.|+|+||..||+-|- .++.+||.|+..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekV 280 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKV 280 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHh
Confidence 6789999998876544 56789999999999999995 4777999998654
No 36
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.06 E-value=8.1e-07 Score=61.15 Aligned_cols=48 Identities=27% Similarity=0.668 Sum_probs=22.3
Q ss_pred cccccccccccc-CCCceEE--c--cCCCcccHHHHHHHHhc---C--------CCCCCCCccC
Q 042704 153 QQYCVICLEVMK-EGSKAAR--M--PCSHIYHQDCLVNWLKN---S--------SLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~-~~~~~~~--L--pC~H~FH~~CI~~WL~~---~--------~~CPlCR~~l 200 (201)
+..|.||.+.+. .+..+.. - .|+..||..|+.+||.. . ..||.|+.+|
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCee
Confidence 368999999876 3332222 1 38999999999999861 1 1599999876
No 37
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=97.98 E-value=4.9e-06 Score=60.79 Aligned_cols=29 Identities=34% Similarity=0.875 Sum_probs=26.2
Q ss_pred EccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 171 RMPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 171 ~LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
--.|.|.||..||.+||+++..||+|.++
T Consensus 78 WG~CNHaFH~hCisrWlktr~vCPLdn~e 106 (114)
T KOG2930|consen 78 WGVCNHAFHFHCISRWLKTRNVCPLDNKE 106 (114)
T ss_pred eeecchHHHHHHHHHHHhhcCcCCCcCcc
Confidence 34599999999999999999999999775
No 38
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.78 E-value=7.5e-06 Score=73.64 Aligned_cols=46 Identities=35% Similarity=0.925 Sum_probs=35.5
Q ss_pred CccccccccccccCCC-ceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 152 SQQYCVICLEVMKEGS-KAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~-~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
.-..|+||||-+.... -++...|.|.||..|+.+|.. .+||+||.-
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~--~scpvcR~~ 220 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWD--SSCPVCRYC 220 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhccc--CcChhhhhh
Confidence 3458999999885322 134456999999999999964 689999963
No 39
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.75 E-value=6.7e-06 Score=53.41 Aligned_cols=45 Identities=27% Similarity=0.614 Sum_probs=35.3
Q ss_pred ccccccccccccCCCceEEccCCCc-ccHHHHHHHHh-cCCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLK-NSSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~-~~~~CPlCR~~l 200 (201)
+++|.||.|.-. ..+.-.|||. .+..|-.+.++ .+..||+||.++
T Consensus 7 ~dECTICye~pv---dsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPV---DSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPI 53 (62)
T ss_pred ccceeeeccCcc---hHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHH
Confidence 489999999873 3344569998 88899776665 778999999875
No 40
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.66 E-value=1.4e-05 Score=68.63 Aligned_cols=49 Identities=31% Similarity=0.730 Sum_probs=41.7
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHh-----------------------cCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-----------------------NSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-----------------------~~~~CPlCR~~l 200 (201)
...+|.|||--|..+...++.+|-|.||..|+.++|. ....||+||..|
T Consensus 114 p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i 185 (368)
T KOG4445|consen 114 PNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERI 185 (368)
T ss_pred CCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhc
Confidence 3479999999999999899999999999999988764 123699999765
No 41
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=7e-06 Score=71.89 Aligned_cols=47 Identities=34% Similarity=0.738 Sum_probs=37.8
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l 200 (201)
.+..|+|||+.++ .......|.|.||.+||.+-+. .++.||.||+.+
T Consensus 42 ~~v~c~icl~llk--~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 42 IQVICPICLSLLK--KTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhccHHHHHHHH--hhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 4578999999995 2333345999999999998886 567999999864
No 42
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.55 E-value=1.4e-05 Score=53.74 Aligned_cols=41 Identities=27% Similarity=0.805 Sum_probs=22.0
Q ss_pred cccccccccccCCCceEE-ccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 154 QYCVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~-LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
..|++|.+.+ ..++. -.|.|+|+..||.+-+. .-||+|+.+
T Consensus 8 LrCs~C~~~l---~~pv~l~~CeH~fCs~Ci~~~~~--~~CPvC~~P 49 (65)
T PF14835_consen 8 LRCSICFDIL---KEPVCLGGCEHIFCSSCIRDCIG--SECPVCHTP 49 (65)
T ss_dssp TS-SSS-S-----SS-B---SSS--B-TTTGGGGTT--TB-SSS--B
T ss_pred cCCcHHHHHh---cCCceeccCccHHHHHHhHHhcC--CCCCCcCCh
Confidence 5799999999 45544 56999999999988554 459999865
No 43
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=5.3e-05 Score=68.19 Aligned_cols=47 Identities=32% Similarity=0.730 Sum_probs=42.4
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~ 201 (201)
++..|.||..-+ ..++.+||||.|+..||.+-+.....||+||.+++
T Consensus 83 sef~c~vc~~~l---~~pv~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 83 SEFECCVCSRAL---YPPVVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred chhhhhhhHhhc---CCCccccccccccHHHHHHHhccCCCCcccccccc
Confidence 568999999999 67888899999999999998888889999998763
No 44
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.49 E-value=2.3e-05 Score=74.65 Aligned_cols=49 Identities=18% Similarity=0.551 Sum_probs=43.5
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
....|++|+..+.++......+|+|.||..||..|-+.-.+||+||.++
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF 170 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEF 170 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhh
Confidence 4578999999998776677788999999999999999999999999875
No 45
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.44 E-value=7.6e-05 Score=66.00 Aligned_cols=51 Identities=31% Similarity=0.848 Sum_probs=37.9
Q ss_pred CCCccccccccccccCCC----ceEEcc-CCCcccHHHHHHHH--hc-----CCCCCCCCccC
Q 042704 150 GCSQQYCVICLEVMKEGS----KAARMP-CSHIYHQDCLVNWL--KN-----SSLCPLCRFQL 200 (201)
Q Consensus 150 ~~~~~~C~ICle~~~~~~----~~~~Lp-C~H~FH~~CI~~WL--~~-----~~~CPlCR~~l 200 (201)
...+..|.||++...... ....|| |.|.||..||.+|- .+ ...||.||...
T Consensus 158 ~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 158 KSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 346789999999875322 022345 99999999999997 34 46899999753
No 46
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.17 E-value=0.00014 Score=64.89 Aligned_cols=44 Identities=32% Similarity=0.887 Sum_probs=37.2
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHh--cCCCCCCCCccC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--NSSLCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--~~~~CPlCR~~l 200 (201)
.-|-||-|.= ..+..=||||..|..|+..|.. ...+||.||.++
T Consensus 370 eLCKICaend---KdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 370 ELCKICAEND---KDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHHhhccC---CCcccccccchHHHHHHHhhcccCCCCCCCceeeEe
Confidence 4699999876 4677789999999999999984 357999999876
No 47
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.14 E-value=0.00015 Score=64.57 Aligned_cols=47 Identities=38% Similarity=0.870 Sum_probs=37.7
Q ss_pred CccccccccccccCCC-ceEEccCCCcccHHHHHHHHhcCC--CCCCCCc
Q 042704 152 SQQYCVICLEVMKEGS-KAARMPCSHIYHQDCLVNWLKNSS--LCPLCRF 198 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~-~~~~LpC~H~FH~~CI~~WL~~~~--~CPlCR~ 198 (201)
.+..|-.|=|-+.... ...-|||.|+||..|+...|.++. +||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHH
Confidence 3468999999886543 345599999999999999997554 8999984
No 48
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=97.00 E-value=0.00043 Score=45.68 Aligned_cols=41 Identities=20% Similarity=0.621 Sum_probs=27.7
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHhc--CCCCCC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN--SSLCPL 195 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~--~~~CPl 195 (201)
...|+|.+..|+ +.++...|+|.|-++.|.+|+++ ...||+
T Consensus 11 ~~~CPiT~~~~~--~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 11 SLKCPITLQPFE--DPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp -SB-TTTSSB-S--SEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred ccCCCCcCChhh--CCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 478999999995 44455689999999999999943 447998
No 49
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.97 E-value=0.00026 Score=67.47 Aligned_cols=45 Identities=22% Similarity=0.622 Sum_probs=37.5
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHh-cCCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~l 200 (201)
-..|++|-.-++ .++...|+|+||..||.+-+. ++..||.|...+
T Consensus 643 ~LkCs~Cn~R~K---d~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 643 LLKCSVCNTRWK---DAVITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred ceeCCCccCchh---hHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 358999998874 555667999999999999986 778999998765
No 50
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.91 E-value=0.00071 Score=60.57 Aligned_cols=45 Identities=27% Similarity=0.617 Sum_probs=36.8
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHh--------cCCCCCCCC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--------NSSLCPLCR 197 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--------~~~~CPlCR 197 (201)
-.+|.||+++.........|||+|+||+.|+..++. +.-.||-+.
T Consensus 184 lf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 184 LFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred cccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 378999999997667888899999999999999975 223687654
No 51
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.75 E-value=0.001 Score=67.40 Aligned_cols=49 Identities=31% Similarity=0.795 Sum_probs=40.2
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcC----------CCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS----------SLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~----------~~CPlCR~~l 200 (201)
.++.|.||+.+-...-...+|.|+|.||..|..+-|.+. -.||+|..++
T Consensus 3485 ~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~I 3543 (3738)
T KOG1428|consen 3485 ADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKI 3543 (3738)
T ss_pred cCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchh
Confidence 567899999987666677889999999999998776532 2799999875
No 52
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.75 E-value=0.00059 Score=61.56 Aligned_cols=46 Identities=33% Similarity=0.857 Sum_probs=39.5
Q ss_pred CccccccccccccCCCceEE-ccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~-LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
.+..|++|...+. .+.. ..|+|.||..|+..|+..+..||.||..+
T Consensus 20 ~~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~~~~~cp~~~~~~ 66 (391)
T KOG0297|consen 20 ENLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLSNHQKCPVCRQEL 66 (391)
T ss_pred ccccCcccccccc---CCCCCCCCCCcccccccchhhccCcCCccccccc
Confidence 3478999999994 4455 58999999999999999999999998764
No 53
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=96.73 E-value=0.00038 Score=60.65 Aligned_cols=45 Identities=24% Similarity=0.693 Sum_probs=37.6
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
-..|.+|-..|- +..+...|-|.||++||.+.|....+||.|...
T Consensus 15 ~itC~LC~GYli--DATTI~eCLHTFCkSCivk~l~~~~~CP~C~i~ 59 (331)
T KOG2660|consen 15 HITCRLCGGYLI--DATTITECLHTFCKSCIVKYLEESKYCPTCDIV 59 (331)
T ss_pred ceehhhccceee--cchhHHHHHHHHHHHHHHHHHHHhccCCcccee
Confidence 368999999994 334445599999999999999999999999754
No 54
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.69 E-value=0.0012 Score=41.85 Aligned_cols=40 Identities=35% Similarity=0.927 Sum_probs=27.4
Q ss_pred cccccccccCCCceEEccCC-----CcccHHHHHHHHh--cCCCCCCC
Q 042704 156 CVICLEVMKEGSKAARMPCS-----HIYHQDCLVNWLK--NSSLCPLC 196 (201)
Q Consensus 156 C~ICle~~~~~~~~~~LpC~-----H~FH~~CI~~WL~--~~~~CPlC 196 (201)
|-||++.-..+. ....||+ -..|.+|+.+|+. ++..|++|
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 679999876544 5678863 3689999999997 55679987
No 55
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.61 E-value=0.00059 Score=54.03 Aligned_cols=29 Identities=48% Similarity=1.019 Sum_probs=26.9
Q ss_pred CccccccccccccCCCceEEccCCCcccH
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQ 180 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~ 180 (201)
+..+|.||||++..|+.+.+|||-.+||+
T Consensus 176 dkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 176 DKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred cCCcEEEEhhhccCCCceeccceEEEeec
Confidence 45799999999999999999999999996
No 56
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.49 E-value=0.0017 Score=41.29 Aligned_cols=43 Identities=28% Similarity=0.624 Sum_probs=22.4
Q ss_pred cccccccccCCCceEEcc--CCCcccHHHHHHHHh-cCCCCCCCCcc
Q 042704 156 CVICLEVMKEGSKAARMP--CSHIYHQDCLVNWLK-NSSLCPLCRFQ 199 (201)
Q Consensus 156 C~ICle~~~~~~~~~~Lp--C~H~FH~~CI~~WL~-~~~~CPlCR~~ 199 (201)
|++|.+++.. .....+| |++.++..|..+-++ .+..||-||.+
T Consensus 1 cp~C~e~~d~-~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDE-TDKDFYPCECGFQICRFCYHDILENEGGRCPGCREP 46 (48)
T ss_dssp -TTTS-B--C-CCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B
T ss_pred CCCccccccc-CCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCC
Confidence 7899999832 3334456 789999999999886 57899999986
No 57
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.45 E-value=0.0033 Score=53.68 Aligned_cols=47 Identities=30% Similarity=0.507 Sum_probs=36.9
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHh--cCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--NSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--~~~~CPlCR~~l 200 (201)
++.+|++|-+.-. ..-...+|+|+||..||..-+. ...+||.|-.+.
T Consensus 238 ~~~~C~~Cg~~Pt--iP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 238 SDTECPVCGEPPT--IPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENV 286 (298)
T ss_pred CCceeeccCCCCC--CCeeeccccceeehhhhhhhhcchhhcccCccCCCC
Confidence 6789999999874 2334567999999999988765 346999997654
No 58
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=96.30 E-value=0.0015 Score=53.43 Aligned_cols=43 Identities=19% Similarity=0.467 Sum_probs=38.1
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
..|.||-++| ..++...|||.||..|..+-.+....|-+|-+.
T Consensus 197 F~C~iCKkdy---~spvvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 197 FLCGICKKDY---ESPVVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred eeehhchhhc---cchhhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 5899999999 677788999999999999988888899999653
No 59
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=96.04 E-value=0.0023 Score=46.48 Aligned_cols=32 Identities=25% Similarity=0.665 Sum_probs=27.3
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHH
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLV 184 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~ 184 (201)
.+..|++|-..+.. ......||||+||..|+.
T Consensus 77 ~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 45789999999966 567789999999999975
No 60
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.97 E-value=0.0071 Score=53.36 Aligned_cols=46 Identities=35% Similarity=0.701 Sum_probs=39.1
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHH--HhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNW--LKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~W--L~~~~~CPlCR~~l 200 (201)
+..-|.||.+.+ ....++||+|..|.-|..+. |...+.||+||.+.
T Consensus 60 en~~C~ICA~~~---TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 60 ENMNCQICAGST---TYSARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred ccceeEEecCCc---eEEEeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 556899999998 68889999999999998654 66888999999763
No 61
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.94 E-value=0.01 Score=52.45 Aligned_cols=50 Identities=26% Similarity=0.558 Sum_probs=41.8
Q ss_pred ccCCCccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 148 IEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 148 ~~~~~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
+++..+.-|+||.-.- ...+..||+|.-|+.||.+-+-+.+.|=.|+..+
T Consensus 417 lp~sEd~lCpICyA~p---i~Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv 466 (489)
T KOG4692|consen 417 LPDSEDNLCPICYAGP---INAVFAPCSHRSCYGCITQHLMNCKRCFFCKTTV 466 (489)
T ss_pred CCCcccccCcceeccc---chhhccCCCCchHHHHHHHHHhcCCeeeEeccee
Confidence 4455678999998765 5667789999999999999999999999998654
No 62
>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=95.57 E-value=0.009 Score=45.98 Aligned_cols=36 Identities=17% Similarity=0.530 Sum_probs=29.4
Q ss_pred ccccccccccccCCCceEEccCC------CcccHHHHHHHHh
Q 042704 153 QQYCVICLEVMKEGSKAARMPCS------HIYHQDCLVNWLK 188 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~------H~FH~~CI~~WL~ 188 (201)
..+|.||++.+..++-++.++|+ |.||.+|+.+|-+
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~ 67 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRR 67 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHh
Confidence 36899999999874556677774 8899999999943
No 63
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.57 E-value=0.0044 Score=53.44 Aligned_cols=44 Identities=20% Similarity=0.529 Sum_probs=39.3
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
...|-||-..| ..+++..|+|.||..|..+=+++...|++|.+.
T Consensus 241 Pf~c~icr~~f---~~pVvt~c~h~fc~~ca~~~~qk~~~c~vC~~~ 284 (313)
T KOG1813|consen 241 PFKCFICRKYF---YRPVVTKCGHYFCEVCALKPYQKGEKCYVCSQQ 284 (313)
T ss_pred Ccccccccccc---ccchhhcCCceeehhhhccccccCCcceecccc
Confidence 35799999999 677889999999999999999999999999765
No 64
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.55 E-value=0.01 Score=49.46 Aligned_cols=47 Identities=26% Similarity=0.711 Sum_probs=38.7
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHh--------cCCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK--------NSSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~--------~~~~CPlCR~~l 200 (201)
...|..|-.-+..|+ .++|-|-|.||-+|+..|-. ....||-|..++
T Consensus 50 ~pNC~LC~t~La~gd-t~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 50 NPNCRLCNTPLASGD-TTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCceeCCccccCc-ceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 357999999998875 45788999999999999975 234799998875
No 65
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.54 E-value=0.0022 Score=55.18 Aligned_cols=41 Identities=24% Similarity=0.735 Sum_probs=32.7
Q ss_pred ccccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
..-|+||++.. ....-|+|||. -|.+|-.+. +.||+||+.+
T Consensus 300 ~~LC~ICmDaP---~DCvfLeCGHmVtCt~CGkrm----~eCPICRqyi 341 (350)
T KOG4275|consen 300 RRLCAICMDAP---RDCVFLECGHMVTCTKCGKRM----NECPICRQYI 341 (350)
T ss_pred HHHHHHHhcCC---cceEEeecCcEEeehhhcccc----ccCchHHHHH
Confidence 46799999988 67889999998 677776543 4899999753
No 66
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.51 E-value=0.013 Score=46.33 Aligned_cols=47 Identities=23% Similarity=0.680 Sum_probs=31.5
Q ss_pred CccccccccccccCCCceEEccCCC---cccHHHHHHHHh--cCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSH---IYHQDCLVNWLK--NSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H---~FH~~CI~~WL~--~~~~CPlCR~~l 200 (201)
.+..|-||.++.. ....-=.|+. .-|.+|+.+|+. +...|++|+++.
T Consensus 7 ~~~~CRIC~~~~~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 7 MDKCCWICKDEYD--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCeeEecCCCCC--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 4578999998853 1111000333 469999999997 445899998753
No 67
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=95.51 E-value=0.0087 Score=51.48 Aligned_cols=48 Identities=27% Similarity=0.597 Sum_probs=39.6
Q ss_pred CCccccccccccccCCC-ceEEccCCCcccHHHHHHHHhcCCCCCCCCc
Q 042704 151 CSQQYCVICLEVMKEGS-KAARMPCSHIYHQDCLVNWLKNSSLCPLCRF 198 (201)
Q Consensus 151 ~~~~~C~ICle~~~~~~-~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~ 198 (201)
.....|+||.+.+..+. .+..++|||..|..|+......+.+||+|.+
T Consensus 156 ~~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 156 SSEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred cccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 34567999999887654 4566899999999999998877799999976
No 68
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.23 E-value=0.0089 Score=55.41 Aligned_cols=46 Identities=22% Similarity=0.669 Sum_probs=37.9
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHh-----cCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK-----NSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~-----~~~~CPlCR~~l 200 (201)
+...|-+|.+.- .......|.|.||+.||..+.. .+.+||.|-..|
T Consensus 535 ~~~~C~lc~d~a---ed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 535 GEVECGLCHDPA---EDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred CceeecccCChh---hhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 667899999987 4566788999999999998875 345899997655
No 69
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.22 E-value=0.0096 Score=52.63 Aligned_cols=43 Identities=33% Similarity=0.816 Sum_probs=30.9
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
....|.||+++.. ...-+||||.-+ |..--. ....||+||+.+
T Consensus 304 ~p~lcVVcl~e~~---~~~fvpcGh~cc--ct~cs~-~l~~CPvCR~rI 346 (355)
T KOG1571|consen 304 QPDLCVVCLDEPK---SAVFVPCGHVCC--CTLCSK-HLPQCPVCRQRI 346 (355)
T ss_pred CCCceEEecCCcc---ceeeecCCcEEE--chHHHh-hCCCCchhHHHH
Confidence 3468999999994 577899999955 543332 234599999753
No 70
>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=95.15 E-value=0.0097 Score=36.94 Aligned_cols=41 Identities=29% Similarity=0.869 Sum_probs=23.2
Q ss_pred cccccccccCCCceEEccCCCcccHHHHHHHHhcCC--CCCCC
Q 042704 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS--LCPLC 196 (201)
Q Consensus 156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~--~CPlC 196 (201)
|.+|-+....|..-....|+=.+|..|+..+++... .||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRHRSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT-SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhcCCCCCCcCC
Confidence 678888886554322234888999999999998655 79987
No 71
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.66 E-value=0.0019 Score=57.56 Aligned_cols=49 Identities=35% Similarity=0.698 Sum_probs=41.4
Q ss_pred ccccccccccccCC-CceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704 153 QQYCVICLEVMKEG-SKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201 (201)
Q Consensus 153 ~~~C~ICle~~~~~-~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~ 201 (201)
...|+||.+.++.. +....+-|+|.+|..|+.+||.....||.||.+++
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~ 245 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELP 245 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhh
Confidence 46899999999754 44556779999999999999998889999998774
No 72
>PHA03096 p28-like protein; Provisional
Probab=94.40 E-value=0.023 Score=49.20 Aligned_cols=45 Identities=27% Similarity=0.476 Sum_probs=31.8
Q ss_pred cccccccccccCC----CceEEcc-CCCcccHHHHHHHHhcC---CCCCCCCc
Q 042704 154 QYCVICLEVMKEG----SKAARMP-CSHIYHQDCLVNWLKNS---SLCPLCRF 198 (201)
Q Consensus 154 ~~C~ICle~~~~~----~~~~~Lp-C~H~FH~~CI~~WL~~~---~~CPlCR~ 198 (201)
..|.||++..... ..-..|+ |.|.|+..||..|-... .+||.||.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 6799999977542 2233465 99999999999997532 35665553
No 73
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.28 E-value=0.029 Score=54.51 Aligned_cols=46 Identities=30% Similarity=0.849 Sum_probs=33.8
Q ss_pred CccccccccccccCCCce-EEccCCCcccHHHHHHHHhcC-------CCCCCCC
Q 042704 152 SQQYCVICLEVMKEGSKA-ARMPCSHIYHQDCLVNWLKNS-------SLCPLCR 197 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~-~~LpC~H~FH~~CI~~WL~~~-------~~CPlCR 197 (201)
...+|.||.+.+.....+ ..-.|-|+||..||.+|-... -.||-|+
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cq 243 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQ 243 (950)
T ss_pred CceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCccc
Confidence 457999999998643221 123489999999999997521 1699998
No 74
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.78 E-value=0.056 Score=43.64 Aligned_cols=47 Identities=32% Similarity=0.820 Sum_probs=32.7
Q ss_pred cccccccccccCCCceEE----ccCCCcccHHHHHHHHh-----cCC------CCCCCCccC
Q 042704 154 QYCVICLEVMKEGSKAAR----MPCSHIYHQDCLVNWLK-----NSS------LCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~----LpC~H~FH~~CI~~WL~-----~~~------~CPlCR~~l 200 (201)
..|-||.-.-..|..+-. ..|+.-||.-|+..||+ +++ .||.|..++
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 457777665544443222 44999999999999997 222 699998775
No 75
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.66 E-value=0.032 Score=36.41 Aligned_cols=42 Identities=31% Similarity=0.746 Sum_probs=30.1
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
..|..|...- .....+||+|..+..|..- .+-+-||+|-.++
T Consensus 8 ~~~~~~~~~~---~~~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~ 49 (55)
T PF14447_consen 8 QPCVFCGFVG---TKGTVLPCGHLICDNCFPG--ERYNGCPFCGTPF 49 (55)
T ss_pred eeEEEccccc---cccccccccceeeccccCh--hhccCCCCCCCcc
Confidence 3455555443 4567899999999999765 3567899997665
No 76
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.54 E-value=0.04 Score=47.88 Aligned_cols=41 Identities=24% Similarity=0.718 Sum_probs=34.6
Q ss_pred cccccccccccCCCceEEcc-CCCcccHHHHHHHHh-cCCCCCCCC
Q 042704 154 QYCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLK-NSSLCPLCR 197 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~-~~~~CPlCR 197 (201)
..|+.|...+ ..+.+.| |+|.|+.+||..-|- .-..||.|.
T Consensus 275 LkCplc~~Ll---rnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~ 317 (427)
T COG5222 275 LKCPLCHCLL---RNPMKTPCCGHTFCDECIGTALLDSDFKCPNCS 317 (427)
T ss_pred ccCcchhhhh---hCcccCccccchHHHHHHhhhhhhccccCCCcc
Confidence 7899999999 5667777 799999999997765 556899994
No 77
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.50 E-value=0.076 Score=45.27 Aligned_cols=48 Identities=17% Similarity=0.397 Sum_probs=37.3
Q ss_pred CccccccccccccCCC-ceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGS-KAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~-~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
....|+|...+|.... .+...||||+|...+|...- ....||+|-.++
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k-~~~~Cp~c~~~f 160 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK-KSKKCPVCGKPF 160 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc-ccccccccCCcc
Confidence 4578999999995433 34456899999999999873 356899997764
No 78
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.48 E-value=0.071 Score=51.96 Aligned_cols=41 Identities=29% Similarity=0.689 Sum_probs=31.7
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
..|..|--.+. -..+..-|+|.||.+|+. .....||-|+.+
T Consensus 841 skCs~C~~~Ld--lP~VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLD--LPFVHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCccc--cceeeeecccHHHHHhhc---cCcccCCccchh
Confidence 58999998883 233445699999999998 455689999864
No 79
>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=92.77 E-value=0.09 Score=46.95 Aligned_cols=27 Identities=26% Similarity=0.958 Sum_probs=21.7
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCCCCCccC
Q 042704 174 CSHIYHQDCLVNWLK-------------NSSLCPLCRFQL 200 (201)
Q Consensus 174 C~H~FH~~CI~~WL~-------------~~~~CPlCR~~l 200 (201)
|...+|.+|+-+|+. ++..||.||+++
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 567789999999985 334899999875
No 80
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.72 E-value=0.12 Score=43.77 Aligned_cols=48 Identities=15% Similarity=0.413 Sum_probs=40.2
Q ss_pred ccccccccccccCCCceEE-ccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 153 QQYCVICLEVMKEGSKAAR-MPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~-LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
..-|+||.+.+.+...... -||||+|..+|+.+.+..-..||+|-.++
T Consensus 221 ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~pl 269 (303)
T KOG3039|consen 221 RYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPL 269 (303)
T ss_pred ceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcC
Confidence 4579999999986554444 47999999999999999999999997665
No 81
>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=92.03 E-value=0.057 Score=34.19 Aligned_cols=31 Identities=32% Similarity=0.710 Sum_probs=23.3
Q ss_pred EccC-CCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704 171 RMPC-SHIYHQDCLVNWLKNSSLCPLCRFQLS 201 (201)
Q Consensus 171 ~LpC-~H~FH~~CI~~WL~~~~~CPlCR~~l~ 201 (201)
...| .|..+..|+...|.++..||+|..++|
T Consensus 15 Li~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 15 LIKCSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp EEE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred eeeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 3457 599999999999999999999999886
No 82
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.65 E-value=0.17 Score=45.51 Aligned_cols=48 Identities=27% Similarity=0.512 Sum_probs=40.6
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCC---CCCCCCcc
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS---LCPLCRFQ 199 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~---~CPlCR~~ 199 (201)
+-..|||=-+.-.++..+.+|.|||+..++-+.+.-++.. .||.|-.+
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e 383 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVE 383 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcc
Confidence 5578999888888888999999999999999999876543 79999543
No 83
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=91.64 E-value=0.071 Score=51.42 Aligned_cols=42 Identities=31% Similarity=0.774 Sum_probs=35.2
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcC--CCCCCCCcc
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS--SLCPLCRFQ 199 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~--~~CPlCR~~ 199 (201)
..|.||++ . +.+...+|+|.|+.+|+..-+... ..||+||..
T Consensus 455 ~~c~ic~~-~---~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~ 498 (674)
T KOG1001|consen 455 HWCHICCD-L---DSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNV 498 (674)
T ss_pred cccccccc-c---ccceeecccchHHHHHHHhccccccCCCCcHHHHH
Confidence 78999999 4 677888999999999999887633 369999864
No 84
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.13 E-value=0.1 Score=43.23 Aligned_cols=37 Identities=30% Similarity=0.707 Sum_probs=29.2
Q ss_pred cccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCcc
Q 042704 156 CVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 156 C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
|-.|-+.- ..+..+||.|. +|..|=.. -..||+|+..
T Consensus 161 Cr~C~~~~---~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~ 198 (207)
T KOG1100|consen 161 CRKCGERE---ATVLLLPCRHLCLCGICDES----LRICPICRSP 198 (207)
T ss_pred ceecCcCC---ceEEeecccceEeccccccc----CccCCCCcCh
Confidence 88888876 67889999988 88888543 3469999864
No 85
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=90.85 E-value=0.11 Score=45.44 Aligned_cols=41 Identities=24% Similarity=0.736 Sum_probs=29.2
Q ss_pred ccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 155 YCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
.|.-|=--+. ..-+.+||+|+||.+|... ..-+.||.|-..
T Consensus 92 fCd~Cd~PI~--IYGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~ 132 (389)
T KOG2932|consen 92 FCDRCDFPIA--IYGRMIPCKHVFCLECARS--DSDKICPLCDDR 132 (389)
T ss_pred eecccCCcce--eeecccccchhhhhhhhhc--CccccCcCcccH
Confidence 5666654443 4567899999999999754 334689999654
No 86
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.31 E-value=0.14 Score=50.15 Aligned_cols=35 Identities=29% Similarity=0.640 Sum_probs=28.6
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHH
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWL 187 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL 187 (201)
..+.|.+|...+... .-.+.||||.||.+||.+-.
T Consensus 816 p~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 816 PQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred CccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 468999999988643 55678999999999998664
No 87
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=90.18 E-value=0.21 Score=43.95 Aligned_cols=45 Identities=16% Similarity=0.588 Sum_probs=35.5
Q ss_pred CccccccccccccCCCceEEcc-CCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 152 SQQYCVICLEVMKEGSKAARMP-CSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
....|++|+..-.+ +..+. -|-+||..||...+..++.||+=-.+
T Consensus 299 ~~~~CpvClk~r~N---ptvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 299 DREVCPVCLKKRQN---PTVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred ccccChhHHhccCC---CceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 45689999998843 33443 58999999999999999999985443
No 88
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.28 E-value=0.22 Score=43.15 Aligned_cols=27 Identities=30% Similarity=0.835 Sum_probs=21.9
Q ss_pred CCCcccHHHHHHHHh-------------cCCCCCCCCccC
Q 042704 174 CSHIYHQDCLVNWLK-------------NSSLCPLCRFQL 200 (201)
Q Consensus 174 C~H~FH~~CI~~WL~-------------~~~~CPlCR~~l 200 (201)
|...+|.+|+-+|+. ++.+||+||+.+
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~f 364 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNF 364 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhce
Confidence 567789999999975 445899999875
No 89
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=89.13 E-value=0.4 Score=31.20 Aligned_cols=33 Identities=30% Similarity=0.719 Sum_probs=27.8
Q ss_pred ccccccccccccCCCceEEcc-CCCcccHHHHHH
Q 042704 153 QQYCVICLEVMKEGSKAARMP-CSHIYHQDCLVN 185 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~Lp-C~H~FH~~CI~~ 185 (201)
...|++|-+.|+.++.+++-| |+--+|++|..+
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 467999999998777777766 999999999754
No 90
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=88.87 E-value=0.13 Score=52.35 Aligned_cols=43 Identities=33% Similarity=0.786 Sum_probs=36.6
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR 197 (201)
-..|.||++.+.. .-...-|+|.++..|+..|+..+..||+|.
T Consensus 1153 ~~~c~ic~dil~~--~~~I~~cgh~~c~~c~~~~l~~~s~~~~~k 1195 (1394)
T KOG0298|consen 1153 HFVCEICLDILRN--QGGIAGCGHEPCCRCDELWLYASSRCPICK 1195 (1394)
T ss_pred ccchHHHHHHHHh--cCCeeeechhHhhhHHHHHHHHhccCcchh
Confidence 3589999999952 334566999999999999999999999996
No 91
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.34 E-value=0.31 Score=41.51 Aligned_cols=48 Identities=29% Similarity=0.768 Sum_probs=34.2
Q ss_pred CccccccccccccCCCce-EEccC-----CCcccHHHHHHHHhc--------CCCCCCCCcc
Q 042704 152 SQQYCVICLEVMKEGSKA-ARMPC-----SHIYHQDCLVNWLKN--------SSLCPLCRFQ 199 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~-~~LpC-----~H~FH~~CI~~WL~~--------~~~CPlCR~~ 199 (201)
.+..|=||+.--++.... -+-|| .|-.|..|+..|+.. .-+||.|+.+
T Consensus 19 ~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 19 LERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred cceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 567899999876533222 24576 477999999999852 2279999865
No 92
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=87.15 E-value=0.38 Score=46.70 Aligned_cols=41 Identities=29% Similarity=0.834 Sum_probs=30.3
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPL 195 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPl 195 (201)
..|+||.--.. |.......|+|+.|.+|...|+...-.||.
T Consensus 1029 ~~C~~C~l~V~-gss~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1029 FQCAICHLAVR-GSSNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeeEeeEee-ccchhhccccccccHHHHHHHHhcCCcCCC
Confidence 35666654442 334455679999999999999998889984
No 93
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=87.07 E-value=0.53 Score=36.30 Aligned_cols=47 Identities=28% Similarity=0.559 Sum_probs=34.8
Q ss_pred CccccccccccccCCCceEEcc---CCCcccHHHHHHHHh---cCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMP---CSHIYHQDCLVNWLK---NSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~Lp---C~H~FH~~CI~~WL~---~~~~CPlCR~~l 200 (201)
.-.+|.||.|...+.. ..-| ||-..+..|-...++ .+..||+|+..+
T Consensus 79 ~lYeCnIC~etS~ee~--FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAEER--FLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF 131 (140)
T ss_pred CceeccCcccccchhh--cCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence 3479999999985332 2234 898899999877766 455899998765
No 94
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=86.61 E-value=0.29 Score=42.06 Aligned_cols=47 Identities=30% Similarity=0.687 Sum_probs=35.1
Q ss_pred ccccccccccccCCCc-eEEccCC-----CcccHHHHHHHHh--cCCCCCCCCcc
Q 042704 153 QQYCVICLEVMKEGSK-AARMPCS-----HIYHQDCLVNWLK--NSSLCPLCRFQ 199 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~-~~~LpC~-----H~FH~~CI~~WL~--~~~~CPlCR~~ 199 (201)
...|-||.++...... ....||. ...|+.|+.+|+. ++..|.+|...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~ 132 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSF 132 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeeccccc
Confidence 3689999997743211 5677863 4579999999997 66689999764
No 95
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=85.08 E-value=0.73 Score=40.26 Aligned_cols=42 Identities=24% Similarity=0.691 Sum_probs=32.1
Q ss_pred CccccccccccccCCCceEEccC--CCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPC--SHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC--~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
+-.+|+||.+.+.. -.+.| ||.-|..|-.+ .++.||.||.++
T Consensus 47 ~lleCPvC~~~l~~----Pi~QC~nGHlaCssC~~~---~~~~CP~Cr~~~ 90 (299)
T KOG3002|consen 47 DLLDCPVCFNPLSP----PIFQCDNGHLACSSCRTK---VSNKCPTCRLPI 90 (299)
T ss_pred hhccCchhhccCcc----cceecCCCcEehhhhhhh---hcccCCcccccc
Confidence 45799999999942 24456 89999998753 456899999876
No 96
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=83.66 E-value=0.72 Score=40.95 Aligned_cols=47 Identities=32% Similarity=0.639 Sum_probs=31.7
Q ss_pred ccccccccccccCCCceE-EccCCCcccHHHHHHHHh-cCCCCCCCCcc
Q 042704 153 QQYCVICLEVMKEGSKAA-RMPCSHIYHQDCLVNWLK-NSSLCPLCRFQ 199 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~-~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~ 199 (201)
++.|+.|+|.+...+.-. --|||-..|.-|....-+ -+..||-||..
T Consensus 14 ed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~ 62 (480)
T COG5175 14 EDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRK 62 (480)
T ss_pred cccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhh
Confidence 355999999986544332 245787777777655433 35689999864
No 97
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=82.89 E-value=2 Score=37.99 Aligned_cols=72 Identities=14% Similarity=0.385 Sum_probs=50.5
Q ss_pred HHhHHHHHhhhhhhhhhcCCcccCCCccccccccccccCCCceEEccCCCcccHHHHHHHH-hcCCCCCCCCcc
Q 042704 127 AAIDEAVTRSINTQVLKLAPAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWL-KNSSLCPLCRFQ 199 (201)
Q Consensus 127 ~~~~~~~~~~l~~~~~~~~p~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL-~~~~~CPlCR~~ 199 (201)
..+.++....+|...+...|..+......|-.|.++...+...+.-.|.+.||.+|= ..+ ..-+.||-|...
T Consensus 304 ~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCD-v~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 304 PHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLSSGRYRCESCKNVFCLDCD-VFIHESLHNCPGCEHK 376 (378)
T ss_pred hHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCCCCcEEchhccceeeccch-HHHHhhhhcCCCcCCC
Confidence 345555555666666667776665556779999888877666666679999999993 333 344579999654
No 98
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=81.92 E-value=1.3 Score=42.96 Aligned_cols=42 Identities=26% Similarity=0.528 Sum_probs=31.6
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCC
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPL 195 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPl 195 (201)
...|++|--.+. |..+-.--|+|.-|.+|+.+|+..+..||.
T Consensus 779 ~~~CtVC~~vi~-G~~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIR-GVDVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceee-eeEeecccccccccHHHHHHHHhcCCCCcc
Confidence 347888877763 222333349999999999999999888876
No 99
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.59 E-value=0.98 Score=40.79 Aligned_cols=36 Identities=22% Similarity=0.593 Sum_probs=26.8
Q ss_pred cccccccc-ccccCCCceEEccCCCcccHHHHHHHHh
Q 042704 153 QQYCVICL-EVMKEGSKAARMPCSHIYHQDCLVNWLK 188 (201)
Q Consensus 153 ~~~C~ICl-e~~~~~~~~~~LpC~H~FH~~CI~~WL~ 188 (201)
...|.||. +...........-|+|.|+.+|+.+.+.
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~ie 182 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIE 182 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhh
Confidence 47899999 4443323333566999999999998876
No 100
>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=75.28 E-value=3.9 Score=25.93 Aligned_cols=41 Identities=17% Similarity=0.558 Sum_probs=18.8
Q ss_pred cccccccccccCCCceEEccCCCc--ccHHHHHHHHh---cC--CCCCCCCcc
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHI--YHQDCLVNWLK---NS--SLCPLCRFQ 199 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~--FH~~CI~~WL~---~~--~~CPlCR~~ 199 (201)
..|+|-...+. ..++-..|.|. |-. ..||. +. -.||+|.++
T Consensus 3 L~CPls~~~i~--~P~Rg~~C~H~~CFDl---~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIR--IPVRGKNCKHLQCFDL---ESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-S--SEEEETT--SS--EEH---HHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEE--eCccCCcCcccceECH---HHHHHHhhccCCeECcCCcCc
Confidence 46888777773 34455669997 443 34443 22 269999863
No 101
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=74.93 E-value=1.7 Score=36.06 Aligned_cols=42 Identities=24% Similarity=0.728 Sum_probs=34.3
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR 197 (201)
..|.+|.+..-. .++.=.|+-.+|..|+...+++...||-|.
T Consensus 182 k~Cn~Ch~LvIq--g~rCg~c~i~~h~~c~qty~q~~~~cphc~ 223 (235)
T KOG4718|consen 182 KNCNLCHCLVIQ--GIRCGSCNIQYHRGCIQTYLQRRDICPHCG 223 (235)
T ss_pred HHHhHhHHHhhe--eeccCcccchhhhHHHHHHhcccCcCCchh
Confidence 589999998743 234455888899999999999999999994
No 102
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=70.47 E-value=3.9 Score=36.03 Aligned_cols=47 Identities=21% Similarity=0.453 Sum_probs=37.5
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcC---CCCCCCCc
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNS---SLCPLCRF 198 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~---~~CPlCR~ 198 (201)
+-..|++=-+.-..+..+..|.|||+.-++-+++.-+.. ..||.|-.
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~ 384 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPE 384 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCc
Confidence 456899888887777889999999999999988865533 36999953
No 103
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=69.14 E-value=3.5 Score=33.80 Aligned_cols=41 Identities=22% Similarity=0.630 Sum_probs=27.7
Q ss_pred Ccccccccccc-----ccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCC
Q 042704 152 SQQYCVICLEV-----MKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCR 197 (201)
Q Consensus 152 ~~~~C~ICle~-----~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR 197 (201)
.+..|.+|-+. |..+...+.-.|+-+||..|..+ ..||-|.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~~CpkC~ 196 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----KSCPKCA 196 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----CCCCCcH
Confidence 45789999852 22222233345999999999863 6799993
No 104
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.68 E-value=3.1 Score=38.17 Aligned_cols=35 Identities=23% Similarity=0.590 Sum_probs=29.9
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHh
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK 188 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~ 188 (201)
....|-||.+.+.. ....+.|+|.|+..|+...+.
T Consensus 69 ~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~ 103 (444)
T KOG1815|consen 69 GDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLG 103 (444)
T ss_pred ccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhh
Confidence 45799999999953 577788999999999999886
No 105
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=65.84 E-value=1.6 Score=42.17 Aligned_cols=44 Identities=32% Similarity=0.783 Sum_probs=34.9
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhc---CCCCCCCCccC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN---SSLCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~---~~~CPlCR~~l 200 (201)
.+|+||++-+. .+..+.|-|.|+..|+..-+.. ...||+|+..+
T Consensus 22 lEc~ic~~~~~---~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~ 68 (684)
T KOG4362|consen 22 LECPICLEHVK---EPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDI 68 (684)
T ss_pred ccCCceeEEee---ccchhhhhHHHHhhhhhceeeccCccccchhhhhhh
Confidence 68999999994 4467889999999999876653 34799998543
No 106
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=64.88 E-value=2.8 Score=41.04 Aligned_cols=43 Identities=26% Similarity=0.659 Sum_probs=30.3
Q ss_pred cccccccccccc-CC---CceEEccCCCcccHHHHHHHHhcCCCCCCC
Q 042704 153 QQYCVICLEVMK-EG---SKAARMPCSHIYHQDCLVNWLKNSSLCPLC 196 (201)
Q Consensus 153 ~~~C~ICle~~~-~~---~~~~~LpC~H~FH~~CI~~WL~~~~~CPlC 196 (201)
+.-|.-|++... .| ..+.++.|+|.||+.|+.--..++. |-.|
T Consensus 784 e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 784 EERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred hhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 357889988654 23 4677889999999999976654443 5444
No 107
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.34 E-value=3.1 Score=39.18 Aligned_cols=41 Identities=41% Similarity=0.941 Sum_probs=34.3
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
..+.|.||.++. ..+..+|. |..|+..|+.-+..||+|+..
T Consensus 478 ~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~ 518 (543)
T KOG0802|consen 478 PNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTY 518 (543)
T ss_pred ccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchh
Confidence 457899999988 34566788 899999999999999999864
No 108
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=62.19 E-value=2.9 Score=39.72 Aligned_cols=42 Identities=24% Similarity=0.661 Sum_probs=26.2
Q ss_pred Ccccccccccc-----ccCCCceEEccCCCcccHHHHHHHHhcCCCCCCC
Q 042704 152 SQQYCVICLEV-----MKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLC 196 (201)
Q Consensus 152 ~~~~C~ICle~-----~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlC 196 (201)
.+..|.+|... |......+...|+++||..|+.. .+..||.|
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC 556 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRC 556 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCch
Confidence 35678888331 11112234466999999999754 33449999
No 109
>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=61.73 E-value=6.6 Score=22.25 Aligned_cols=36 Identities=22% Similarity=0.617 Sum_probs=23.5
Q ss_pred cccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
|..|-+.+..+.. ....=+..||..|+ .|..|+.+|
T Consensus 2 C~~C~~~i~~~~~-~~~~~~~~~H~~Cf--------~C~~C~~~L 37 (39)
T smart00132 2 CAGCGKPIRGGEL-VLRALGKVWHPECF--------KCSKCGKPL 37 (39)
T ss_pred ccccCCcccCCcE-EEEeCCccccccCC--------CCcccCCcC
Confidence 7778887754312 22223678998885 788887765
No 110
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=58.28 E-value=5.7 Score=34.16 Aligned_cols=47 Identities=28% Similarity=0.574 Sum_probs=32.7
Q ss_pred ccccccccccc-CCCceEEcc---CCCcccHHHHHHHHh---------cCCCCCCCCccC
Q 042704 154 QYCVICLEVMK-EGSKAARMP---CSHIYHQDCLVNWLK---------NSSLCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~-~~~~~~~Lp---C~H~FH~~CI~~WL~---------~~~~CPlCR~~l 200 (201)
..|-+|.+++. .+..+..-| |.-.+|..|+..-+. ....||.|++-+
T Consensus 183 ~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~~ 242 (276)
T KOG3005|consen 183 VECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKFL 242 (276)
T ss_pred hhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhcee
Confidence 68999999994 333222222 888899999988443 234799998743
No 111
>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 KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=56.10 E-value=7.2 Score=38.45 Aligned_cols=47 Identities=11% Similarity=0.168 Sum_probs=32.3
Q ss_pred CccccccccccccCCC-ceEEcc---CCCcccHHHHHHHHh------cCCCCCCCCc
Q 042704 152 SQQYCVICLEVMKEGS-KAARMP---CSHIYHQDCLVNWLK------NSSLCPLCRF 198 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~-~~~~Lp---C~H~FH~~CI~~WL~------~~~~CPlCR~ 198 (201)
....|.+|.-++.... -.-.+| |+|.||..||..|+. .+..|++|..
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~ 151 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEE 151 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHH
Confidence 3467777777775411 123455 999999999999986 2346788854
No 113
>PF04710 Pellino: Pellino; InterPro: IPR006800 Pellino is involved in Toll-like signalling pathways, and associates with the kinase domain of the Pelle Ser/Thr kinase [, , ].; PDB: 3EGB_B 3EGA_A.
Probab=55.30 E-value=3.9 Score=37.01 Aligned_cols=26 Identities=38% Similarity=0.856 Sum_probs=0.0
Q ss_pred EccCCCcccHHHHHHHHh------cCCCCCCCCcc
Q 042704 171 RMPCSHIYHQDCLVNWLK------NSSLCPLCRFQ 199 (201)
Q Consensus 171 ~LpC~H~FH~~CI~~WL~------~~~~CPlCR~~ 199 (201)
-|.|||++. ...|-. +..+||+||..
T Consensus 306 Yl~CGHVhG---~h~Wg~~~~~~~~~r~CPlCr~~ 337 (416)
T PF04710_consen 306 YLNCGHVHG---YHNWGQDSDRDPRSRTCPLCRQV 337 (416)
T ss_dssp -----------------------------------
T ss_pred eccccceee---ecccccccccccccccCCCcccc
Confidence 466999876 357753 24589999974
No 114
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=54.46 E-value=10 Score=37.53 Aligned_cols=49 Identities=20% Similarity=0.687 Sum_probs=32.6
Q ss_pred CccccccccccccCCCceEE-ccC-C--CcccHHHHHHHHhc--CCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAAR-MPC-S--HIYHQDCLVNWLKN--SSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~-LpC-~--H~FH~~CI~~WL~~--~~~CPlCR~~l 200 (201)
++..|-||..+=..++.... -.| | ...|.+|+..|+.- ...|-+|..++
T Consensus 11 d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~ 65 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEY 65 (1175)
T ss_pred cchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHhcCCCcceeeeccee
Confidence 34789999988655432211 002 1 23899999999974 44799998764
No 115
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=51.60 E-value=11 Score=33.30 Aligned_cols=45 Identities=24% Similarity=0.484 Sum_probs=33.6
Q ss_pred cccccccccccCCCceEEcc--CCCcccHHHHHHHHhcCCCCCCCCcc
Q 042704 154 QYCVICLEVMKEGSKAARMP--CSHIYHQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~Lp--C~H~FH~~CI~~WL~~~~~CPlCR~~ 199 (201)
..|+||-+..... ...-+| |++..|..|+..-...+..||.||++
T Consensus 250 ~s~p~~~~~~~~~-d~~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~ 296 (327)
T KOG2068|consen 250 PSCPICYEDLDLT-DSNFLPCPCGFRLCLFCHKTISDGDGRCPGCRKP 296 (327)
T ss_pred CCCCCCCCccccc-ccccccccccccchhhhhhcccccCCCCCccCCc
Confidence 5899999987332 233455 67777777877777788899999965
No 116
>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=51.55 E-value=25 Score=23.09 Aligned_cols=43 Identities=30% Similarity=0.604 Sum_probs=30.4
Q ss_pred cccccccccccCCC-ceEEccCC--CcccHHHHHHHHhcCCCCCCCCccC
Q 042704 154 QYCVICLEVMKEGS-KAARMPCS--HIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~~-~~~~LpC~--H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
..|-.|-.++..++ .... |+ ..|+..|....| +..||.|-.+|
T Consensus 6 pnCE~C~~dLp~~s~~A~I--CSfECTFC~~C~e~~l--~~~CPNCgGel 51 (57)
T PF06906_consen 6 PNCECCDKDLPPDSPEAYI--CSFECTFCADCAETML--NGVCPNCGGEL 51 (57)
T ss_pred CCccccCCCCCCCCCcceE--EeEeCcccHHHHHHHh--cCcCcCCCCcc
Confidence 35777877776554 2322 43 459999999987 57899997654
No 117
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.53 E-value=8.1 Score=34.91 Aligned_cols=43 Identities=21% Similarity=0.539 Sum_probs=29.8
Q ss_pred cccccccccccC--CCceEEccCCCcccHHHHHHHHhcCCCCCCC
Q 042704 154 QYCVICLEVMKE--GSKAARMPCSHIYHQDCLVNWLKNSSLCPLC 196 (201)
Q Consensus 154 ~~C~ICle~~~~--~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlC 196 (201)
.+|+.|.-.+.. |-....=.|+|.|+..|...|...+..|..|
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~ 351 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYEC 351 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCc
Confidence 578888776543 3222222389999999999998877766544
No 118
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=50.99 E-value=27 Score=26.16 Aligned_cols=46 Identities=20% Similarity=0.481 Sum_probs=31.0
Q ss_pred ccccccccccccCCC-----------ceEEccCCCcccHHHHHHHHhcCCCCCCCCc
Q 042704 153 QQYCVICLEVMKEGS-----------KAARMPCSHIYHQDCLVNWLKNSSLCPLCRF 198 (201)
Q Consensus 153 ~~~C~ICle~~~~~~-----------~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~ 198 (201)
...|--|+..|.... .-+.-.|++.|+.+|=.-+-..-+.||-|-.
T Consensus 55 ~~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fiHe~Lh~CPGC~~ 111 (112)
T TIGR00622 55 SRFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFVHESLHCCPGCIH 111 (112)
T ss_pred CCcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhhhhhccCCcCCCC
Confidence 456999999885321 1112348999999996555555668999853
No 119
>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=50.67 E-value=8.9 Score=21.02 Aligned_cols=10 Identities=30% Similarity=0.903 Sum_probs=6.3
Q ss_pred CCCCCCccCC
Q 042704 192 LCPLCRFQLS 201 (201)
Q Consensus 192 ~CPlCR~~l~ 201 (201)
+||-|++.+|
T Consensus 2 ~CP~C~~~V~ 11 (26)
T PF10571_consen 2 TCPECGAEVP 11 (26)
T ss_pred cCCCCcCCch
Confidence 5777766653
No 120
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=50.30 E-value=4.2 Score=35.37 Aligned_cols=44 Identities=27% Similarity=0.711 Sum_probs=33.3
Q ss_pred CcccCCCccccccccccccCCCceEEccCCCcccHHHHHHHHhc
Q 042704 146 PAIEGCSQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKN 189 (201)
Q Consensus 146 p~~~~~~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~ 189 (201)
|...+..-..|.+|+++|..|.......|.-.||..|+..|+..
T Consensus 207 ~~~~~k~~rvC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (288)
T KOG1729|consen 207 PNLSTKPIRVCDICFEELEKGARGDREDSLPVFHGKCYPNWLTT 250 (288)
T ss_pred cccCCCCceecHHHHHHHhcccccchhhcccccccccccccccc
Confidence 33333344599999999986666666777779999999999974
No 121
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.51 E-value=3.3 Score=35.53 Aligned_cols=46 Identities=22% Similarity=0.597 Sum_probs=36.7
Q ss_pred ccccccccccccCC---CceEEcc--------CCCcccHHHHHHHHhcC-CCCCCCCc
Q 042704 153 QQYCVICLEVMKEG---SKAARMP--------CSHIYHQDCLVNWLKNS-SLCPLCRF 198 (201)
Q Consensus 153 ~~~C~ICle~~~~~---~~~~~Lp--------C~H~FH~~CI~~WL~~~-~~CPlCR~ 198 (201)
...|.||...|... ..++.+. |+|..+..|+..-+.+. ..||.||.
T Consensus 207 ~~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~~~~~~cp~~~~ 264 (296)
T KOG4185|consen 207 EKLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILLQAGIKCPFCTW 264 (296)
T ss_pred HHHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHHHhhhcCCcccc
Confidence 36799999999732 2456677 99999999999998754 48999985
No 122
>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=49.02 E-value=11 Score=25.52 Aligned_cols=12 Identities=25% Similarity=0.977 Sum_probs=8.7
Q ss_pred cccHHHHHHHHh
Q 042704 177 IYHQDCLVNWLK 188 (201)
Q Consensus 177 ~FH~~CI~~WL~ 188 (201)
-||+.|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 399999999985
No 123
>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=46.86 E-value=8.5 Score=23.78 Aligned_cols=43 Identities=30% Similarity=0.634 Sum_probs=27.3
Q ss_pred cccccccccCCCceEEccCCCcccHHHHHHHHh------cCCCCCCCCc
Q 042704 156 CVICLEVMKEGSKAARMPCSHIYHQDCLVNWLK------NSSLCPLCRF 198 (201)
Q Consensus 156 C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~------~~~~CPlCR~ 198 (201)
|.||...-..+..+.--.|+..||..|+..=.. ..-.||.|+.
T Consensus 2 C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp BTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred CcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 788888443333333345899999999865432 2346777753
No 124
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=46.73 E-value=19 Score=30.98 Aligned_cols=41 Identities=32% Similarity=0.685 Sum_probs=28.4
Q ss_pred cccccccccccCCCceEEcc-C-CCcccHHHHHHH-HhcCCCCC
Q 042704 154 QYCVICLEVMKEGSKAARMP-C-SHIYHQDCLVNW-LKNSSLCP 194 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~Lp-C-~H~FH~~CI~~W-L~~~~~CP 194 (201)
..|.||+|.--.|....-|. = +=.=|++|+.+| |..+..||
T Consensus 31 sfChiCfEl~iegvpks~llHtkSlRGHrdCFEK~HlIanQ~~p 74 (285)
T PF06937_consen 31 SFCHICFELSIEGVPKSNLLHTKSLRGHRDCFEKYHLIANQDCP 74 (285)
T ss_pred eecceeeccccccCccccccccccccchHHHHHHHHHHHcCCCC
Confidence 58999999876665443333 1 123579999999 56677788
No 125
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=46.69 E-value=14 Score=31.58 Aligned_cols=32 Identities=9% Similarity=0.410 Sum_probs=28.4
Q ss_pred ccccccccccccCCCceEEccCCCcccHHHHHHHH
Q 042704 153 QQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWL 187 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL 187 (201)
-+.|+.||.-+ ..++..|=||+|.++||...+
T Consensus 43 FdcCsLtLqPc---~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 43 FDCCSLTLQPC---RDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred cceeeeecccc---cCCccCCCCeeeeHHHHHHHH
Confidence 47899999999 778888999999999998875
No 126
>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=44.80 E-value=11 Score=23.64 Aligned_cols=9 Identities=22% Similarity=0.933 Sum_probs=4.6
Q ss_pred CCCcccHHH
Q 042704 174 CSHIYHQDC 182 (201)
Q Consensus 174 C~H~FH~~C 182 (201)
-+..||..|
T Consensus 18 ~~~~~H~~C 26 (58)
T PF00412_consen 18 MGKFWHPEC 26 (58)
T ss_dssp TTEEEETTT
T ss_pred CCcEEEccc
Confidence 345555555
No 127
>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=37.19 E-value=27 Score=22.35 Aligned_cols=41 Identities=27% Similarity=0.717 Sum_probs=18.9
Q ss_pred cccccccccCCC------ceEEcc-CCCcccHHHHHHHHh-cCCCCCCCC
Q 042704 156 CVICLEVMKEGS------KAARMP-CSHIYHQDCLVNWLK-NSSLCPLCR 197 (201)
Q Consensus 156 C~ICle~~~~~~------~~~~Lp-C~H~FH~~CI~~WL~-~~~~CPlCR 197 (201)
|--|+..|..+. ...+=| |++.|+.+| +-.+. .-..||-|-
T Consensus 2 CfgC~~~~~~~~~~~~~~~~y~C~~C~~~FC~dC-D~fiHE~LH~CPGC~ 50 (51)
T PF07975_consen 2 CFGCQKPFPDGPEKKADSSRYRCPKCKNHFCIDC-DVFIHETLHNCPGCE 50 (51)
T ss_dssp ETTTTEE-TTS-------EEE--TTTT--B-HHH-HHTTTTTS-SSSTT-
T ss_pred CccCCCCCCCcccccccCCeEECCCCCCccccCc-ChhhhccccCCcCCC
Confidence 455666665431 223333 899999999 33332 345799883
No 128
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.38 E-value=20 Score=31.29 Aligned_cols=37 Identities=22% Similarity=0.451 Sum_probs=27.6
Q ss_pred ccccccccccccCCCceEEcc--CCCcccHHHHHHHHhcC
Q 042704 153 QQYCVICLEVMKEGSKAARMP--CSHIYHQDCLVNWLKNS 190 (201)
Q Consensus 153 ~~~C~ICle~~~~~~~~~~Lp--C~H~FH~~CI~~WL~~~ 190 (201)
-..|.+|.|-+++.. .++-| =.|.||-.|=+.-++++
T Consensus 268 pLcCTLC~ERLEDTH-FVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTH-FVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCc-eeecCCCcccceecccCHHHHHhh
Confidence 378999999996543 33334 28999999999888744
No 129
>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=34.07 E-value=13 Score=23.67 Aligned_cols=9 Identities=56% Similarity=1.209 Sum_probs=4.6
Q ss_pred CCCCCCccC
Q 042704 192 LCPLCRFQL 200 (201)
Q Consensus 192 ~CPlCR~~l 200 (201)
.||+|..+|
T Consensus 22 ~CPlC~r~l 30 (54)
T PF04423_consen 22 CCPLCGRPL 30 (54)
T ss_dssp E-TTT--EE
T ss_pred cCCCCCCCC
Confidence 799997665
No 130
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=33.16 E-value=34 Score=30.34 Aligned_cols=42 Identities=7% Similarity=-0.175 Sum_probs=33.3
Q ss_pred CccccccccccccCCCceEEccCCCc-ccHHHHHHHHhcCCCCCCCCc
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHI-YHQDCLVNWLKNSSLCPLCRF 198 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~-FH~~CI~~WL~~~~~CPlCR~ 198 (201)
....|..|-+.+ -.....||+|. |+.+|.. +....+||.|..
T Consensus 342 s~~~~~~~~~~~---~st~~~~~~~n~~~~~~a~--~s~~~~~~~c~~ 384 (394)
T KOG2113|consen 342 SSLKGTSAGFGL---LSTIWSGGNMNLSPGSLAS--ASASPTSSTCDH 384 (394)
T ss_pred hhcccccccCce---eeeEeecCCcccChhhhhh--cccCCccccccc
Confidence 557899998877 35556789998 9999987 667789999964
No 131
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=32.01 E-value=26 Score=22.21 Aligned_cols=22 Identities=23% Similarity=0.739 Sum_probs=12.3
Q ss_pred CCCcccHHHHHHHHhcCCCCCCC
Q 042704 174 CSHIYHQDCLVNWLKNSSLCPLC 196 (201)
Q Consensus 174 C~H~FH~~CI~~WL~~~~~CPlC 196 (201)
|+|.|-.. |..-..+...||.|
T Consensus 34 Cgh~w~~~-v~~R~~~~~~CP~C 55 (55)
T PF14311_consen 34 CGHEWKAS-VNDRTRRGKGCPYC 55 (55)
T ss_pred CCCeeEcc-HhhhccCCCCCCCC
Confidence 55555322 33333566789988
No 132
>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=30.49 E-value=5.1 Score=27.46 Aligned_cols=39 Identities=23% Similarity=0.542 Sum_probs=17.3
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
..|+.|..++.... +|.++..|-.. +.....||-|.++|
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~L 40 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPL 40 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHH
Confidence 46888888774221 44444445432 23445788887765
No 133
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=29.06 E-value=34 Score=20.06 Aligned_cols=13 Identities=15% Similarity=0.363 Sum_probs=8.6
Q ss_pred ccccccccccCCC
Q 042704 155 YCVICLEVMKEGS 167 (201)
Q Consensus 155 ~C~ICle~~~~~~ 167 (201)
.|+-|...|...+
T Consensus 4 ~CP~C~~~f~v~~ 16 (37)
T PF13719_consen 4 TCPNCQTRFRVPD 16 (37)
T ss_pred ECCCCCceEEcCH
Confidence 5777777776543
No 134
>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=29.03 E-value=43 Score=18.48 Aligned_cols=29 Identities=21% Similarity=0.422 Sum_probs=9.9
Q ss_pred ccccccccccCCCceEEccCCCcccHHHH
Q 042704 155 YCVICLEVMKEGSKAARMPCSHIYHQDCL 183 (201)
Q Consensus 155 ~C~ICle~~~~~~~~~~LpC~H~FH~~CI 183 (201)
.|.+|-+....+..-.-..|.-.+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 47778777754223334668888888885
No 135
>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=28.82 E-value=26 Score=23.08 Aligned_cols=33 Identities=18% Similarity=0.409 Sum_probs=16.4
Q ss_pred CccccccccccccCCCceEE---ccCCCcccHHHHHHH
Q 042704 152 SQQYCVICLEVMKEGSKAAR---MPCSHIYHQDCLVNW 186 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~---LpC~H~FH~~CI~~W 186 (201)
....|.+|...|.. ..++ --||++|+..|....
T Consensus 8 ~~~~C~~C~~~F~~--~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 8 EASNCMICGKKFSL--FRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp G-SB-TTT--B-BS--SS-EEE-TTT--EEECCCS-EE
T ss_pred CCCcCcCcCCcCCC--ceeeEccCCCCCEECCchhCCE
Confidence 45789999999953 2233 338999999887544
No 136
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=28.75 E-value=1.8e+02 Score=22.31 Aligned_cols=21 Identities=14% Similarity=0.199 Sum_probs=14.7
Q ss_pred HHhhcCCCcchhHHHHHHHHH
Q 042704 70 CLSALNVAFHAHPSIIYKITS 90 (201)
Q Consensus 70 ~l~~~~i~~~~~~~iv~~i~~ 90 (201)
+-..+|+.......++..+-.
T Consensus 21 La~~l~i~~n~vRkiL~~L~e 41 (147)
T smart00531 21 LAELLGIKQKQLRKILYLLYD 41 (147)
T ss_pred HHHHhCCCHHHHHHHHHHHHh
Confidence 334458888778888777766
No 137
>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=28.45 E-value=87 Score=23.17 Aligned_cols=34 Identities=18% Similarity=0.343 Sum_probs=23.1
Q ss_pred Ccccccccccccc--CCCceEEccCCCcccHHHHHH
Q 042704 152 SQQYCVICLEVMK--EGSKAARMPCSHIYHQDCLVN 185 (201)
Q Consensus 152 ~~~~C~ICle~~~--~~~~~~~LpC~H~FH~~CI~~ 185 (201)
+...|.+|...|. .+.......|+|.+|..|-..
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~ 88 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY 88 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc
Confidence 5679999998764 334455667999999988543
No 138
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=28.21 E-value=57 Score=23.48 Aligned_cols=33 Identities=24% Similarity=0.418 Sum_probs=23.3
Q ss_pred CccccccccccccCCCceEEcc--CCCcccHHHHHHH
Q 042704 152 SQQYCVICLEVMKEGSKAARMP--CSHIYHQDCLVNW 186 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~Lp--C~H~FH~~CI~~W 186 (201)
....|.||.... |..+.--- |...||..|..+.
T Consensus 54 ~~~~C~iC~~~~--G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSG--GACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCC--ceeEEcCCCCCCcCCCHHHHHHC
Confidence 357899999983 33333333 8889999998663
No 139
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=27.39 E-value=31 Score=20.17 Aligned_cols=13 Identities=15% Similarity=0.312 Sum_probs=7.9
Q ss_pred ccccccccccCCC
Q 042704 155 YCVICLEVMKEGS 167 (201)
Q Consensus 155 ~C~ICle~~~~~~ 167 (201)
.|+-|.-.|...+
T Consensus 4 ~Cp~C~~~y~i~d 16 (36)
T PF13717_consen 4 TCPNCQAKYEIDD 16 (36)
T ss_pred ECCCCCCEEeCCH
Confidence 5677777665433
No 140
>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=26.90 E-value=1.6e+02 Score=23.12 Aligned_cols=24 Identities=8% Similarity=0.133 Sum_probs=14.7
Q ss_pred HHhhcCCCcchhHHHHHHHHHHHH
Q 042704 70 CLSALNVAFHAHPSIIYKITSYAH 93 (201)
Q Consensus 70 ~l~~~~i~~~~~~~iv~~i~~~a~ 93 (201)
+-..+|+.......++..+...-.
T Consensus 34 La~~Lgi~~~~VRk~L~~L~e~~L 57 (158)
T TIGR00373 34 ISLELGIKLNEVRKALYALYDAGL 57 (158)
T ss_pred HHHHHCCCHHHHHHHHHHHHHCCC
Confidence 334457777777777776665543
No 141
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.67 E-value=58 Score=27.98 Aligned_cols=45 Identities=18% Similarity=0.324 Sum_probs=30.5
Q ss_pred cccccccccccCC-CceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 154 QYCVICLEVMKEG-SKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 154 ~~C~ICle~~~~~-~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
..|+|=--++... .....-+|||+|-..-+.+. ...+|++|.+..
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y 157 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAY 157 (293)
T ss_pred eecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCcc
Confidence 4688765555322 23445679999998877764 367899997653
No 142
>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=26.48 E-value=34 Score=18.54 Aligned_cols=8 Identities=38% Similarity=1.086 Sum_probs=4.8
Q ss_pred CCCCCCcc
Q 042704 192 LCPLCRFQ 199 (201)
Q Consensus 192 ~CPlCR~~ 199 (201)
.||+|.+.
T Consensus 3 ~CPiC~~~ 10 (26)
T smart00734 3 QCPVCFRE 10 (26)
T ss_pred cCCCCcCc
Confidence 47777544
No 143
>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=25.97 E-value=37 Score=19.35 Aligned_cols=9 Identities=33% Similarity=1.036 Sum_probs=6.4
Q ss_pred CCCCCCCCc
Q 042704 190 SSLCPLCRF 198 (201)
Q Consensus 190 ~~~CPlCR~ 198 (201)
...||+|..
T Consensus 17 ~~~CP~Cg~ 25 (33)
T cd00350 17 PWVCPVCGA 25 (33)
T ss_pred CCcCcCCCC
Confidence 347999964
No 144
>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=24.81 E-value=21 Score=30.67 Aligned_cols=46 Identities=17% Similarity=0.289 Sum_probs=20.0
Q ss_pred CccccccccccccCCCceEEcc---CCCcccHHHHHHHHhcCCCCCCCCc
Q 042704 152 SQQYCVICLEVMKEGSKAARMP---CSHIYHQDCLVNWLKNSSLCPLCRF 198 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~Lp---C~H~FH~~CI~~WL~~~~~CPlCR~ 198 (201)
....|+||=..-..+. +..-. =.|.+|.-|-..|-.....||.|-.
T Consensus 171 ~~g~CPvCGs~P~~s~-l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~ 219 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSV-LRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGN 219 (290)
T ss_dssp T-SS-TTT---EEEEE-EE------EEEEEETTT--EEE--TTS-TTT--
T ss_pred cCCcCCCCCCcCceEE-EecCCCCccEEEEcCCCCCeeeecCCCCcCCCC
Confidence 4579999987643211 11110 1455677788889777889999943
No 145
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=23.31 E-value=30 Score=36.59 Aligned_cols=48 Identities=23% Similarity=0.490 Sum_probs=35.8
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCC----CCCCCCcc
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSS----LCPLCRFQ 199 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~----~CPlCR~~ 199 (201)
....|.+|..............|.-.||..|+.+-+..-. .||-||.+
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKE 1158 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchh
Confidence 3468999999986544444445778899999999886433 79999864
No 146
>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=22.79 E-value=44 Score=28.57 Aligned_cols=29 Identities=28% Similarity=0.638 Sum_probs=22.9
Q ss_pred ceEEcc-CCCcccHHHHHHHHhcC-CCCC--CC
Q 042704 168 KAARMP-CSHIYHQDCLVNWLKNS-SLCP--LC 196 (201)
Q Consensus 168 ~~~~Lp-C~H~FH~~CI~~WL~~~-~~CP--lC 196 (201)
....-| |-|.+|.+|+++.+.+. ..|| -|
T Consensus 27 k~linPECyHrmCESCvdRIFs~GpAqCP~~gC 59 (314)
T COG5220 27 KILINPECYHRMCESCVDRIFSRGPAQCPYKGC 59 (314)
T ss_pred EEEECHHHHHHHHHHHHHHHhcCCCCCCCCccH
Confidence 444567 99999999999999754 4799 55
No 147
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=22.75 E-value=1e+02 Score=21.59 Aligned_cols=49 Identities=22% Similarity=0.415 Sum_probs=19.8
Q ss_pred CCccccccccccccCCC----ceEEccCCCcccHHHHHHHHh-cCCCCCCCCcc
Q 042704 151 CSQQYCVICLEVMKEGS----KAARMPCSHIYHQDCLVNWLK-NSSLCPLCRFQ 199 (201)
Q Consensus 151 ~~~~~C~ICle~~~~~~----~~~~LpC~H~FH~~CI~~WL~-~~~~CPlCR~~ 199 (201)
.....|.||=++..... .+....|+--.++.|..==.+ .+..||.|+..
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ 60 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTR 60 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCC
Confidence 35678999999875322 233345777788888854443 66789999864
No 148
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=22.72 E-value=1.6e+02 Score=23.59 Aligned_cols=31 Identities=19% Similarity=0.323 Sum_probs=19.9
Q ss_pred CccccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
....|+.|.-.|...+ -+.....||.|-.+|
T Consensus 116 ~~Y~Cp~C~~rytf~e------------------A~~~~F~Cp~Cg~~L 146 (178)
T PRK06266 116 MFFFCPNCHIRFTFDE------------------AMEYGFRCPQCGEML 146 (178)
T ss_pred CEEECCCCCcEEeHHH------------------HhhcCCcCCCCCCCC
Confidence 3467888877764322 233467899998765
No 149
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.62 E-value=47 Score=24.00 Aligned_cols=12 Identities=33% Similarity=1.060 Sum_probs=10.3
Q ss_pred cccHHHHHHHHh
Q 042704 177 IYHQDCLVNWLK 188 (201)
Q Consensus 177 ~FH~~CI~~WL~ 188 (201)
-||+.|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 389999999986
No 150
>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=22.44 E-value=66 Score=20.05 Aligned_cols=35 Identities=17% Similarity=0.393 Sum_probs=23.4
Q ss_pred cccccccccccCCCc-eEEccCCCcccHHHHHHHHh
Q 042704 154 QYCVICLEVMKEGSK-AARMPCSHIYHQDCLVNWLK 188 (201)
Q Consensus 154 ~~C~ICle~~~~~~~-~~~LpC~H~FH~~CI~~WL~ 188 (201)
..|.+|-..|..... ..-..||++|+..|......
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~ 38 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIP 38 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCeee
Confidence 578999888853221 11134899999999876543
No 151
>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=22.06 E-value=30 Score=31.52 Aligned_cols=48 Identities=27% Similarity=0.639 Sum_probs=0.0
Q ss_pred ccccccccccccC-----CC-----------ceEEccCCCcccHHHHHHHHh---------cCCCCCCCCccC
Q 042704 153 QQYCVICLEVMKE-----GS-----------KAARMPCSHIYHQDCLVNWLK---------NSSLCPLCRFQL 200 (201)
Q Consensus 153 ~~~C~ICle~~~~-----~~-----------~~~~LpC~H~FH~~CI~~WL~---------~~~~CPlCR~~l 200 (201)
...|++|+..-.. |. ...--||||+--.....-|-+ .+..||+|-.+|
T Consensus 328 ~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L 400 (416)
T PF04710_consen 328 SRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPL 400 (416)
T ss_dssp -------------------------------------------------------------------------
T ss_pred cccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCcc
Confidence 5789999965311 11 122357999998889988954 234799997665
No 152
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=21.79 E-value=46 Score=22.03 Aligned_cols=12 Identities=33% Similarity=1.121 Sum_probs=8.5
Q ss_pred cCCCCCCCCccC
Q 042704 189 NSSLCPLCRFQL 200 (201)
Q Consensus 189 ~~~~CPlCR~~l 200 (201)
....||+|..+.
T Consensus 38 ~~p~CPlC~s~M 49 (59)
T PF14169_consen 38 EEPVCPLCKSPM 49 (59)
T ss_pred CCccCCCcCCcc
Confidence 345899998653
No 153
>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=21.13 E-value=80 Score=23.14 Aligned_cols=24 Identities=29% Similarity=0.531 Sum_probs=18.4
Q ss_pred CCcccHHHHHHHHhc---------CCCCCCCCc
Q 042704 175 SHIYHQDCLVNWLKN---------SSLCPLCRF 198 (201)
Q Consensus 175 ~H~FH~~CI~~WL~~---------~~~CPlCR~ 198 (201)
.-.|+..||..+... .-.||.||.
T Consensus 37 ~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 37 RGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG 69 (105)
T ss_pred cceehHhHHHHHHhhhHHHHhcCCceECCCCCC
Confidence 666999999888642 236999985
No 154
>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=21.06 E-value=66 Score=27.03 Aligned_cols=21 Identities=33% Similarity=0.861 Sum_probs=13.8
Q ss_pred cHHHHHHHHhcCCCCCCCCcc
Q 042704 179 HQDCLVNWLKNSSLCPLCRFQ 199 (201)
Q Consensus 179 H~~CI~~WL~~~~~CPlCR~~ 199 (201)
|.+|-.+-=.+-..||+|+..
T Consensus 197 C~sC~qqIHRNAPiCPlCK~K 217 (230)
T PF10146_consen 197 CQSCHQQIHRNAPICPLCKAK 217 (230)
T ss_pred hHhHHHHHhcCCCCCcccccc
Confidence 455655544455699999764
No 155
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=20.87 E-value=62 Score=28.77 Aligned_cols=49 Identities=29% Similarity=0.651 Sum_probs=32.4
Q ss_pred CccccccccccccC-----CCc-----------eEEccCCCcccHHHHHHHHh---------cCCCCCCCCccC
Q 042704 152 SQQYCVICLEVMKE-----GSK-----------AARMPCSHIYHQDCLVNWLK---------NSSLCPLCRFQL 200 (201)
Q Consensus 152 ~~~~C~ICle~~~~-----~~~-----------~~~LpC~H~FH~~CI~~WL~---------~~~~CPlCR~~l 200 (201)
.+..|++|+.+=.. |.+ -.--||||+--..-..-|-+ .+..||+|-..|
T Consensus 340 ~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 340 RERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred ccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 35789999975310 111 12357999988888888865 234799997654
No 156
>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=20.71 E-value=83 Score=22.41 Aligned_cols=36 Identities=17% Similarity=0.395 Sum_probs=27.3
Q ss_pred cccccccccccCCCceEEccCCCcccHHHHHHHHhcCCCCCCCCccCC
Q 042704 154 QYCVICLEVMKEGSKAARMPCSHIYHQDCLVNWLKNSSLCPLCRFQLS 201 (201)
Q Consensus 154 ~~C~ICle~~~~~~~~~~LpC~H~FH~~CI~~WL~~~~~CPlCR~~l~ 201 (201)
..|+-|...+.--+ .+| |..|+..+..|..|++++|
T Consensus 34 S~C~~C~~~L~~~~---lIP---------i~S~l~lrGrCr~C~~~I~ 69 (92)
T PF06750_consen 34 SHCPHCGHPLSWWD---LIP---------ILSYLLLRGRCRYCGAPIP 69 (92)
T ss_pred CcCcCCCCcCcccc---cch---------HHHHHHhCCCCcccCCCCC
Confidence 68999988884322 222 6789989999999999875
No 157
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.64 E-value=1.1e+02 Score=21.19 Aligned_cols=43 Identities=33% Similarity=0.605 Sum_probs=27.4
Q ss_pred ccccccccccCCCceEEccC--CCcccHHHHHHHHhcCCCCCCCCccC
Q 042704 155 YCVICLEVMKEGSKAARMPC--SHIYHQDCLVNWLKNSSLCPLCRFQL 200 (201)
Q Consensus 155 ~C~ICle~~~~~~~~~~LpC--~H~FH~~CI~~WL~~~~~CPlCR~~l 200 (201)
.|--|-.++..++.-. +-| .|.|+.+|...-| +..||.|-.+|
T Consensus 7 nCECCDrDLpp~s~dA-~ICtfEcTFCadCae~~l--~g~CPnCGGel 51 (84)
T COG3813 7 NCECCDRDLPPDSTDA-RICTFECTFCADCAENRL--HGLCPNCGGEL 51 (84)
T ss_pred CCcccCCCCCCCCCce-eEEEEeeehhHhHHHHhh--cCcCCCCCchh
Confidence 3555666665433222 224 5789999998766 46899996554
No 158
>PF15353 HECA: Headcase protein family homologue
Probab=20.42 E-value=64 Score=23.90 Aligned_cols=13 Identities=23% Similarity=0.940 Sum_probs=11.8
Q ss_pred CCCcccHHHHHHH
Q 042704 174 CSHIYHQDCLVNW 186 (201)
Q Consensus 174 C~H~FH~~CI~~W 186 (201)
.++..|.+|++.|
T Consensus 40 ~~~~MH~~CF~~w 52 (107)
T PF15353_consen 40 FGQYMHRECFEKW 52 (107)
T ss_pred CCCchHHHHHHHH
Confidence 4788999999999
Done!