Query 019720
Match_columns 336
No_of_seqs 270 out of 1706
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 04:00:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019720.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019720hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4628 Predicted E3 ubiquitin 99.7 2.4E-18 5.3E-23 166.1 4.9 75 252-335 203-278 (348)
2 PF13639 zf-RING_2: Ring finge 99.6 1.7E-15 3.7E-20 104.9 2.5 44 288-331 1-44 (44)
3 PHA02929 N1R/p28-like protein; 99.3 1.3E-12 2.9E-17 121.3 4.3 77 252-335 146-227 (238)
4 COG5540 RING-finger-containing 99.3 1.3E-12 2.9E-17 122.9 3.4 51 285-335 321-372 (374)
5 PF12678 zf-rbx1: RING-H2 zinc 99.3 2.2E-12 4.8E-17 99.1 4.0 45 287-331 19-73 (73)
6 KOG1734 Predicted RING-contain 99.2 4.6E-12 1E-16 117.6 2.2 56 280-335 217-281 (328)
7 COG5243 HRD1 HRD ubiquitin lig 99.2 1.3E-11 2.7E-16 119.1 2.8 55 280-334 280-344 (491)
8 PLN03208 E3 ubiquitin-protein 99.1 9.6E-11 2.1E-15 105.2 4.8 50 283-335 14-79 (193)
9 PF13920 zf-C3HC4_3: Zinc fing 99.0 1.3E-10 2.7E-15 82.6 2.8 48 286-336 1-49 (50)
10 KOG0317 Predicted E3 ubiquitin 99.0 1.4E-10 3.1E-15 108.9 3.6 53 280-335 232-284 (293)
11 cd00162 RING RING-finger (Real 99.0 4.4E-10 9.4E-15 76.1 3.7 44 289-334 1-45 (45)
12 PF13923 zf-C3HC4_2: Zinc fing 98.9 9.5E-10 2.1E-14 74.2 3.0 39 290-330 1-39 (39)
13 KOG0823 Predicted E3 ubiquitin 98.9 2E-09 4.4E-14 98.5 4.5 49 284-335 44-95 (230)
14 PF12861 zf-Apc11: Anaphase-pr 98.8 2.1E-09 4.6E-14 84.4 3.5 50 286-335 20-82 (85)
15 KOG0802 E3 ubiquitin ligase [P 98.8 3.6E-09 7.9E-14 109.6 3.5 52 283-334 287-340 (543)
16 KOG0320 Predicted E3 ubiquitin 98.8 4.7E-09 1E-13 92.5 3.5 50 285-335 129-178 (187)
17 PF14634 zf-RING_5: zinc-RING 98.8 6.2E-09 1.3E-13 72.1 3.2 44 289-332 1-44 (44)
18 PHA02926 zinc finger-like prot 98.7 6.8E-09 1.5E-13 94.6 3.3 51 285-335 168-230 (242)
19 PF15227 zf-C3HC4_4: zinc fing 98.7 7.5E-09 1.6E-13 71.2 2.6 38 290-330 1-42 (42)
20 smart00504 Ubox Modified RING 98.7 1.4E-08 3.1E-13 74.8 4.3 45 288-335 2-46 (63)
21 PF00097 zf-C3HC4: Zinc finger 98.7 7.9E-09 1.7E-13 70.0 2.4 39 290-330 1-41 (41)
22 smart00184 RING Ring finger. E 98.7 1.4E-08 3.1E-13 66.2 3.4 38 290-330 1-39 (39)
23 TIGR00599 rad18 DNA repair pro 98.5 5.1E-08 1.1E-12 96.9 3.6 49 284-335 23-71 (397)
24 COG5194 APC11 Component of SCF 98.5 8.1E-08 1.8E-12 74.0 3.1 27 308-334 54-80 (88)
25 smart00744 RINGv The RING-vari 98.4 1.6E-07 3.5E-12 66.7 3.2 42 289-331 1-49 (49)
26 KOG0828 Predicted E3 ubiquitin 98.4 5.5E-07 1.2E-11 90.0 6.7 51 285-335 569-634 (636)
27 KOG1493 Anaphase-promoting com 98.3 1.2E-07 2.6E-12 72.5 0.6 49 286-334 19-80 (84)
28 PF13445 zf-RING_UBOX: RING-ty 98.3 5.5E-07 1.2E-11 62.2 2.7 38 290-328 1-43 (43)
29 COG5574 PEX10 RING-finger-cont 98.2 6.4E-07 1.4E-11 83.6 2.5 47 285-334 213-261 (271)
30 PF04564 U-box: U-box domain; 98.2 1.2E-06 2.6E-11 67.2 2.6 48 285-335 2-50 (73)
31 COG5219 Uncharacterized conser 98.1 6.9E-07 1.5E-11 94.9 1.2 49 285-335 1467-1523(1525)
32 KOG2930 SCF ubiquitin ligase, 98.1 1.4E-06 3E-11 70.4 2.3 48 287-334 46-107 (114)
33 PF11793 FANCL_C: FANCL C-term 98.1 7.5E-07 1.6E-11 67.9 -0.1 49 287-335 2-66 (70)
34 KOG0287 Postreplication repair 97.9 3.7E-06 8.1E-11 80.9 1.7 48 286-336 22-69 (442)
35 KOG0804 Cytoplasmic Zn-finger 97.9 5.9E-06 1.3E-10 82.1 2.8 52 280-333 168-220 (493)
36 KOG2164 Predicted E3 ubiquitin 97.9 6E-06 1.3E-10 83.4 2.6 45 287-334 186-235 (513)
37 KOG4265 Predicted E3 ubiquitin 97.7 2.2E-05 4.8E-10 76.3 3.5 49 285-336 288-337 (349)
38 COG5432 RAD18 RING-finger-cont 97.7 1.4E-05 3.1E-10 75.6 2.0 47 286-335 24-70 (391)
39 KOG0825 PHD Zn-finger protein 97.7 8E-06 1.7E-10 85.6 -0.2 51 285-335 121-171 (1134)
40 KOG4159 Predicted E3 ubiquitin 97.5 7.3E-05 1.6E-09 74.6 3.3 49 284-335 81-129 (398)
41 KOG1039 Predicted E3 ubiquitin 97.4 7.8E-05 1.7E-09 73.1 2.0 51 285-335 159-221 (344)
42 KOG4445 Uncharacterized conser 97.3 0.0001 2.2E-09 70.2 1.3 50 285-334 113-185 (368)
43 KOG0311 Predicted E3 ubiquitin 97.2 4.8E-05 1E-09 73.8 -1.5 47 285-334 41-89 (381)
44 KOG1941 Acetylcholine receptor 97.2 0.00013 2.7E-09 71.7 0.9 47 286-332 364-413 (518)
45 KOG4172 Predicted E3 ubiquitin 97.0 0.00019 4.1E-09 51.8 -0.0 47 286-335 6-54 (62)
46 PF14835 zf-RING_6: zf-RING of 97.0 0.00018 3.9E-09 53.7 -0.2 44 287-334 7-50 (65)
47 KOG0801 Predicted E3 ubiquitin 96.9 0.0003 6.4E-09 61.6 0.7 32 283-314 173-204 (205)
48 KOG0297 TNF receptor-associate 96.7 0.00077 1.7E-08 67.5 2.1 50 284-335 18-67 (391)
49 PF11789 zf-Nse: Zinc-finger o 96.7 0.00094 2E-08 48.9 1.7 43 285-329 9-53 (57)
50 PF05883 Baculo_RING: Baculovi 96.6 0.0011 2.5E-08 56.4 1.9 37 287-323 26-68 (134)
51 KOG1428 Inhibitor of type V ad 96.5 0.0014 3.1E-08 72.8 2.9 53 283-335 3482-3544(3738)
52 PF12906 RINGv: RING-variant d 96.4 0.0021 4.6E-08 45.1 2.2 40 290-330 1-47 (47)
53 KOG1785 Tyrosine kinase negati 96.4 0.0011 2.4E-08 65.4 1.0 45 288-335 370-416 (563)
54 KOG3970 Predicted E3 ubiquitin 96.3 0.0031 6.8E-08 58.0 3.1 49 285-334 48-104 (299)
55 KOG2879 Predicted E3 ubiquitin 96.0 0.0069 1.5E-07 57.3 4.1 52 282-335 234-287 (298)
56 PHA02825 LAP/PHD finger-like p 96.0 0.0062 1.3E-07 53.4 3.3 49 284-334 5-58 (162)
57 KOG1002 Nucleotide excision re 96.0 0.0028 6.2E-08 64.6 1.3 48 284-334 533-585 (791)
58 KOG1814 Predicted E3 ubiquitin 95.9 0.0044 9.6E-08 61.5 2.1 48 285-332 182-237 (445)
59 PF14570 zf-RING_4: RING/Ubox 95.8 0.0054 1.2E-07 43.4 1.6 44 290-334 1-47 (48)
60 PF10367 Vps39_2: Vacuolar sor 95.7 0.0045 9.7E-08 49.8 1.2 33 285-318 76-108 (109)
61 KOG0826 Predicted E3 ubiquitin 95.7 0.011 2.3E-07 57.3 3.9 49 282-333 295-344 (357)
62 COG5152 Uncharacterized conser 95.7 0.0055 1.2E-07 55.5 1.8 44 287-333 196-239 (259)
63 KOG2660 Locus-specific chromos 95.7 0.0033 7.1E-08 60.8 0.4 49 284-334 12-60 (331)
64 KOG3039 Uncharacterized conser 95.6 0.012 2.6E-07 55.0 3.6 75 261-335 195-270 (303)
65 KOG1571 Predicted E3 ubiquitin 95.5 0.0087 1.9E-07 58.6 2.4 49 281-335 299-347 (355)
66 KOG0978 E3 ubiquitin ligase in 95.2 0.0056 1.2E-07 64.9 0.3 45 287-334 643-688 (698)
67 KOG1813 Predicted E3 ubiquitin 95.1 0.0093 2E-07 57.0 1.5 45 287-334 241-285 (313)
68 PHA03096 p28-like protein; Pro 94.8 0.014 3.1E-07 56.1 1.8 45 288-332 179-231 (284)
69 KOG0827 Predicted E3 ubiquitin 94.5 0.003 6.5E-08 62.3 -3.7 50 287-336 196-246 (465)
70 KOG4692 Predicted E3 ubiquitin 94.2 0.037 8E-07 54.2 3.1 49 284-335 419-467 (489)
71 KOG1952 Transcription factor N 94.2 0.023 5E-07 61.0 1.8 50 283-332 187-244 (950)
72 KOG3268 Predicted E3 ubiquitin 93.4 0.05 1.1E-06 48.6 2.2 49 286-334 164-227 (234)
73 PF14447 Prok-RING_4: Prokaryo 93.2 0.046 1E-06 39.7 1.3 45 286-335 6-50 (55)
74 PF04641 Rtf2: Rtf2 RING-finge 93.1 0.13 2.9E-06 48.6 4.8 52 283-335 109-161 (260)
75 COG5236 Uncharacterized conser 92.7 0.19 4.1E-06 49.3 5.1 53 279-334 53-107 (493)
76 KOG1940 Zn-finger protein [Gen 92.5 0.07 1.5E-06 51.0 1.9 47 286-332 157-204 (276)
77 COG5222 Uncharacterized conser 92.3 0.072 1.6E-06 51.1 1.8 42 288-332 275-318 (427)
78 KOG1609 Protein involved in mR 92.3 0.082 1.8E-06 50.4 2.2 48 287-334 78-133 (323)
79 PF10272 Tmpp129: Putative tra 91.9 0.23 4.9E-06 49.3 4.8 27 308-334 311-350 (358)
80 KOG2932 E3 ubiquitin ligase in 91.6 0.069 1.5E-06 51.5 0.8 45 287-335 90-134 (389)
81 PF08746 zf-RING-like: RING-li 91.1 0.1 2.2E-06 35.9 1.0 41 290-330 1-43 (43)
82 KOG2114 Vacuolar assembly/sort 91.0 0.12 2.5E-06 55.8 1.8 41 288-333 841-881 (933)
83 KOG1001 Helicase-like transcri 90.9 0.08 1.7E-06 56.7 0.5 44 288-335 455-500 (674)
84 PHA02862 5L protein; Provision 89.6 0.2 4.4E-06 43.3 1.8 26 309-334 25-52 (156)
85 KOG4275 Predicted E3 ubiquitin 88.9 0.068 1.5E-06 51.2 -1.8 43 286-335 299-342 (350)
86 COG5183 SSM4 Protein involved 88.3 0.38 8.3E-06 51.8 3.1 51 284-335 9-66 (1175)
87 KOG2034 Vacuolar sorting prote 87.3 0.3 6.4E-06 53.1 1.6 36 285-321 815-850 (911)
88 KOG3002 Zn finger protein [Gen 86.7 0.4 8.7E-06 46.5 2.1 45 284-335 45-91 (299)
89 KOG0802 E3 ubiquitin ligase [P 86.5 0.34 7.3E-06 50.6 1.6 47 281-334 473-519 (543)
90 COG5175 MOT2 Transcriptional r 86.4 0.47 1E-05 46.5 2.3 51 285-335 12-64 (480)
91 PF14446 Prok-RING_1: Prokaryo 86.3 0.88 1.9E-05 33.0 3.1 44 286-333 4-50 (54)
92 KOG3053 Uncharacterized conser 85.7 0.41 8.9E-06 45.2 1.5 50 284-333 17-80 (293)
93 PF03854 zf-P11: P-11 zinc fin 85.7 0.3 6.5E-06 34.4 0.4 30 306-335 16-46 (50)
94 KOG0309 Conserved WD40 repeat- 85.1 0.51 1.1E-05 50.5 2.0 40 289-329 1030-1069(1081)
95 KOG4362 Transcriptional regula 84.0 0.27 5.9E-06 52.2 -0.5 47 286-335 20-69 (684)
96 KOG0298 DEAD box-containing he 83.2 0.4 8.6E-06 54.0 0.3 45 286-332 1152-1196(1394)
97 KOG2817 Predicted E3 ubiquitin 76.5 2.2 4.7E-05 42.7 2.9 47 285-331 332-381 (394)
98 KOG3005 GIY-YIG type nuclease 74.8 2 4.4E-05 40.9 2.1 47 287-333 182-241 (276)
99 PF05290 Baculo_IE-1: Baculovi 71.6 3 6.5E-05 35.8 2.2 46 286-334 79-131 (140)
100 KOG1100 Predicted E3 ubiquitin 68.7 2.4 5.3E-05 38.9 1.2 38 290-334 161-199 (207)
101 KOG1815 Predicted E3 ubiquitin 68.5 3.1 6.7E-05 42.4 2.0 37 285-323 68-104 (444)
102 KOG0825 PHD Zn-finger protein 67.2 4 8.7E-05 44.2 2.5 49 286-334 95-153 (1134)
103 KOG3899 Uncharacterized conser 66.8 3 6.6E-05 40.2 1.4 27 308-334 325-364 (381)
104 PF13901 DUF4206: Domain of un 66.0 4 8.8E-05 37.2 2.1 41 287-332 152-197 (202)
105 smart00132 LIM Zinc-binding do 65.7 6 0.00013 25.0 2.3 37 290-335 2-38 (39)
106 KOG1812 Predicted E3 ubiquitin 65.0 2.5 5.4E-05 42.4 0.6 38 286-323 145-183 (384)
107 KOG2066 Vacuolar assembly/sort 63.6 3 6.5E-05 45.1 0.8 46 284-330 781-830 (846)
108 KOG0269 WD40 repeat-containing 62.9 6.3 0.00014 42.5 3.0 42 287-329 779-820 (839)
109 PF02891 zf-MIZ: MIZ/SP-RING z 61.5 2.5 5.4E-05 29.9 -0.1 42 289-333 4-50 (50)
110 KOG4718 Non-SMC (structural ma 61.3 4.1 8.9E-05 37.6 1.2 43 286-330 180-222 (235)
111 PF07975 C1_4: TFIIH C1-like d 60.0 7.4 0.00016 27.9 2.1 41 290-331 2-50 (51)
112 KOG1829 Uncharacterized conser 54.3 4.4 9.5E-05 42.7 0.2 43 286-331 510-557 (580)
113 smart00249 PHD PHD zinc finger 52.7 8.2 0.00018 25.3 1.3 31 289-319 1-31 (47)
114 PF04423 Rad50_zn_hook: Rad50 48.9 5.4 0.00012 28.4 -0.1 11 325-335 21-31 (54)
115 KOG1812 Predicted E3 ubiquitin 48.6 8.5 0.00019 38.6 1.2 45 287-331 306-352 (384)
116 KOG3161 Predicted E3 ubiquitin 43.7 8.6 0.00019 40.9 0.3 35 286-320 10-45 (861)
117 KOG3039 Uncharacterized conser 41.7 22 0.00049 33.7 2.7 34 285-321 41-74 (303)
118 PF07191 zinc-ribbons_6: zinc- 40.7 3 6.4E-05 31.9 -2.6 40 288-335 2-41 (70)
119 KOG3799 Rab3 effector RIM1 and 40.6 4.9 0.00011 34.6 -1.7 52 282-333 60-116 (169)
120 KOG3842 Adaptor protein Pellin 39.3 25 0.00054 34.5 2.7 51 284-334 338-413 (429)
121 KOG2068 MOT2 transcription fac 39.1 21 0.00046 35.0 2.2 48 287-335 249-298 (327)
122 PF13717 zinc_ribbon_4: zinc-r 38.8 15 0.00032 24.2 0.8 25 289-313 4-36 (36)
123 PF00628 PHD: PHD-finger; Int 37.2 13 0.00029 25.5 0.4 43 290-332 2-50 (51)
124 PF00412 LIM: LIM domain; Int 36.1 30 0.00066 24.1 2.1 26 290-316 1-26 (58)
125 PF14169 YdjO: Cold-inducible 36.1 17 0.00037 26.9 0.8 12 324-335 39-50 (59)
126 cd00350 rubredoxin_like Rubred 35.9 25 0.00055 22.4 1.5 11 323-333 16-26 (33)
127 PF13832 zf-HC5HC2H_2: PHD-zin 35.3 50 0.0011 26.5 3.6 33 286-320 54-88 (110)
128 PF04710 Pellino: Pellino; In 33.8 14 0.0003 37.3 0.0 50 286-335 327-401 (416)
129 KOG3113 Uncharacterized conser 33.1 40 0.00086 32.1 2.9 49 285-335 109-158 (293)
130 KOG2927 Membrane component of 32.4 93 0.002 31.0 5.4 30 117-147 187-216 (372)
131 KOG3579 Predicted E3 ubiquitin 32.3 26 0.00056 33.9 1.6 36 286-324 267-306 (352)
132 PF07649 C1_3: C1-like domain; 31.2 32 0.0007 21.3 1.4 29 289-317 2-30 (30)
133 PF14569 zf-UDP: Zinc-binding 29.7 62 0.0013 25.3 3.0 50 285-334 7-61 (80)
134 COG5109 Uncharacterized conser 29.6 37 0.00081 33.3 2.2 46 286-331 335-383 (396)
135 PLN02189 cellulose synthase 29.1 58 0.0012 36.9 3.8 50 285-334 32-86 (1040)
136 PF06906 DUF1272: Protein of u 29.1 82 0.0018 23.1 3.3 43 289-334 7-51 (57)
137 KOG1729 FYVE finger containing 29.1 11 0.00023 36.5 -1.6 36 289-324 216-251 (288)
138 TIGR00622 ssl1 transcription f 28.7 73 0.0016 26.6 3.5 46 287-332 55-111 (112)
139 PF06844 DUF1244: Protein of u 27.6 37 0.0008 25.7 1.4 12 311-322 11-22 (68)
140 PRK03564 formate dehydrogenase 27.5 32 0.00069 33.6 1.3 42 286-332 186-234 (309)
141 PRK05978 hypothetical protein; 27.3 31 0.00067 30.1 1.1 22 309-335 42-63 (148)
142 KOG2807 RNA polymerase II tran 27.1 63 0.0014 31.9 3.2 48 285-333 328-376 (378)
143 KOG2071 mRNA cleavage and poly 26.8 31 0.00068 36.4 1.2 35 285-320 511-556 (579)
144 PLN02436 cellulose synthase A 26.5 75 0.0016 36.1 4.1 50 285-334 34-88 (1094)
145 PF13239 2TM: 2TM domain 25.2 73 0.0016 24.5 2.8 40 99-138 23-63 (83)
146 COG5627 MMS21 DNA repair prote 23.2 44 0.00095 31.5 1.3 40 287-328 189-230 (275)
147 PF09723 Zn-ribbon_8: Zinc rib 21.6 23 0.0005 23.9 -0.6 11 324-334 26-37 (42)
148 PF01363 FYVE: FYVE zinc finge 21.4 43 0.00094 24.5 0.8 35 285-321 7-44 (69)
149 PF13061 DUF3923: Protein of u 21.1 2.4E+02 0.0052 21.2 4.7 52 85-136 2-61 (66)
150 COG4847 Uncharacterized protei 20.7 79 0.0017 25.7 2.1 35 287-322 6-40 (103)
151 PF09237 GAGA: GAGA factor; I 20.6 31 0.00068 24.9 -0.1 12 284-295 21-32 (54)
152 TIGR01562 FdhE formate dehydro 20.4 50 0.0011 32.3 1.2 42 286-332 183-232 (305)
153 COG5524 Bacteriorhodopsin [Gen 20.1 4.4E+02 0.0096 25.5 7.4 24 174-197 193-216 (285)
No 1
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.72 E-value=2.4e-18 Score=166.14 Aligned_cols=75 Identities=32% Similarity=0.853 Sum_probs=64.8
Q ss_pred CCCCCCHHHHhcCCCceeeccccccccCCCCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCC-cccc
Q 019720 252 ADKGASDDQISRLPSWRYKRVDSNLEAGNSAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSC-CPLC 330 (336)
Q Consensus 252 ~~~g~s~~~i~~Lp~~k~~~~~~~~~~~~~~~~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~t-CPlC 330 (336)
..+++.++.++++|..+|+...+. .....|+||||+|++||++|.|||+|.||..|||+||..+.+ ||+|
T Consensus 203 ~~~r~~k~~l~~~p~~~f~~~~~~---------~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvC 273 (348)
T KOG4628|consen 203 RRNRLIKRLLKKLPVRTFTKGDDE---------DATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVC 273 (348)
T ss_pred hhhhhHHHHHhhCCcEEecccccc---------CCCceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCC
Confidence 457889999999999999986621 111589999999999999999999999999999999988754 9999
Q ss_pred CcCcC
Q 019720 331 KQELE 335 (336)
Q Consensus 331 R~~I~ 335 (336)
|+++.
T Consensus 274 K~di~ 278 (348)
T KOG4628|consen 274 KRDIR 278 (348)
T ss_pred CCcCC
Confidence 99874
No 2
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=99.55 E-value=1.7e-15 Score=104.93 Aligned_cols=44 Identities=45% Similarity=1.208 Sum_probs=40.9
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccC
Q 019720 288 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCK 331 (336)
Q Consensus 288 ~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR 331 (336)
++|+||++++++++.+..++|+|.||.+||.+|++.+.+||+||
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 37999999999999999999999999999999999999999997
No 3
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.31 E-value=1.3e-12 Score=121.28 Aligned_cols=77 Identities=25% Similarity=0.545 Sum_probs=56.0
Q ss_pred CCCCCCHHHHhcCCCceeeccccccccCCCCCCCCCCcccccccccccCCc----e-EEeCCCCcccHHHHHHHHhcCCC
Q 019720 252 ADKGASDDQISRLPSWRYKRVDSNLEAGNSAPANEDPECCICLAKYKEKEE----V-RKLPCSHMFHLKCVDQWLRILSC 326 (336)
Q Consensus 252 ~~~g~s~~~i~~Lp~~k~~~~~~~~~~~~~~~~~~~~~C~ICL~~f~~~~~----v-r~LPC~H~FH~~CI~~WL~~~~t 326 (336)
..++.+++.++.+|....+-... ....++.+|+||++.+.+++. + ..++|+|.||.+||++|++.+.+
T Consensus 146 ~k~~~~~~~i~~lp~vl~~~e~~-------~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~t 218 (238)
T PHA02929 146 KKGKNYKKFLKTIPSVLSEYEKL-------YNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKNT 218 (238)
T ss_pred HhcchhHHHHHhcchhhhhhhhh-------hcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCCC
Confidence 34566777788888764332110 112356799999999877541 2 33469999999999999999999
Q ss_pred ccccCcCcC
Q 019720 327 CPLCKQELE 335 (336)
Q Consensus 327 CPlCR~~I~ 335 (336)
||+||.++.
T Consensus 219 CPlCR~~~~ 227 (238)
T PHA02929 219 CPVCRTPFI 227 (238)
T ss_pred CCCCCCEee
Confidence 999998763
No 4
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.29 E-value=1.3e-12 Score=122.90 Aligned_cols=51 Identities=37% Similarity=1.056 Sum_probs=46.6
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHh-cCCCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR-ILSCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~I~ 335 (336)
....+|+|||++|..+|++++|||+|.||..|+++|+. -+..||+||.++.
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 34579999999999999999999999999999999997 5788999999875
No 5
>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=99.29 E-value=2.2e-12 Score=99.15 Aligned_cols=45 Identities=38% Similarity=1.019 Sum_probs=36.8
Q ss_pred CCcccccccccccC----------CceEEeCCCCcccHHHHHHHHhcCCCccccC
Q 019720 287 DPECCICLAKYKEK----------EEVRKLPCSHMFHLKCVDQWLRILSCCPLCK 331 (336)
Q Consensus 287 ~~~C~ICL~~f~~~----------~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR 331 (336)
++.|+||++++.+. -.+...+|+|.||..||.+||+.+.+||+||
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 44599999999443 3456667999999999999999999999997
No 6
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.20 E-value=4.6e-12 Score=117.56 Aligned_cols=56 Identities=27% Similarity=0.666 Sum_probs=48.4
Q ss_pred CCCCCCCCCcccccccccccCC-------ceEEeCCCCcccHHHHHHHH--hcCCCccccCcCcC
Q 019720 280 NSAPANEDPECCICLAKYKEKE-------EVRKLPCSHMFHLKCVDQWL--RILSCCPLCKQELE 335 (336)
Q Consensus 280 ~~~~~~~~~~C~ICL~~f~~~~-------~vr~LPC~H~FH~~CI~~WL--~~~~tCPlCR~~I~ 335 (336)
-.+...+|..|+||-..+...+ ++..|.|+|+||..||+.|. .++++||.||..++
T Consensus 217 lPtkhl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVd 281 (328)
T KOG1734|consen 217 LPTKHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVD 281 (328)
T ss_pred CCCCCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhh
Confidence 3445678899999999988776 78899999999999999994 67899999998775
No 7
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=99.16 E-value=1.3e-11 Score=119.07 Aligned_cols=55 Identities=31% Similarity=0.963 Sum_probs=46.6
Q ss_pred CCCCCCCCCcccccccc-cccCC---------ceEEeCCCCcccHHHHHHHHhcCCCccccCcCc
Q 019720 280 NSAPANEDPECCICLAK-YKEKE---------EVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 280 ~~~~~~~~~~C~ICL~~-f~~~~---------~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
++++.++|..|.||+++ ++.+. +-+.|||||.+|.+|++.|++++++||+||.++
T Consensus 280 ~eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQTCPICr~p~ 344 (491)
T COG5243 280 EEQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQTCPICRRPV 344 (491)
T ss_pred hhhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhccCCCcccCcc
Confidence 34456889999999999 55442 347899999999999999999999999999984
No 8
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.08 E-value=9.6e-11 Score=105.18 Aligned_cols=50 Identities=28% Similarity=0.787 Sum_probs=42.4
Q ss_pred CCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc----------------CCCccccCcCcC
Q 019720 283 PANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI----------------LSCCPLCKQELE 335 (336)
Q Consensus 283 ~~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~----------------~~tCPlCR~~I~ 335 (336)
...++.+|+||++.++++ ..++|+|.||..||.+|+.. ...||+||.++.
T Consensus 14 ~~~~~~~CpICld~~~dP---VvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDP---VVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred cCCCccCCccCCCcCCCc---EEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 345678999999999887 67899999999999999852 357999999874
No 9
>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=99.03 E-value=1.3e-10 Score=82.62 Aligned_cols=48 Identities=40% Similarity=0.938 Sum_probs=40.4
Q ss_pred CCCcccccccccccCCceEEeCCCCc-ccHHHHHHHHhcCCCccccCcCcCC
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHM-FHLKCVDQWLRILSCCPLCKQELER 336 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~I~~ 336 (336)
|+..|.||++...+ ...+||+|. |+.+|+++|++.+..||+||++|++
T Consensus 1 ~~~~C~iC~~~~~~---~~~~pCgH~~~C~~C~~~~~~~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 1 EDEECPICFENPRD---VVLLPCGHLCFCEECAERLLKRKKKCPICRQPIES 49 (50)
T ss_dssp -HSB-TTTSSSBSS---EEEETTCEEEEEHHHHHHHHHTTSBBTTTTBB-SE
T ss_pred CcCCCccCCccCCc---eEEeCCCChHHHHHHhHHhcccCCCCCcCChhhcC
Confidence 46789999998555 588999999 9999999999999999999999863
No 10
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.02 E-value=1.4e-10 Score=108.86 Aligned_cols=53 Identities=26% Similarity=0.765 Sum_probs=46.4
Q ss_pred CCCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 280 NSAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 280 ~~~~~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
+....+.+..|.+||+.-+++ ..+||||+||+.||..|+..++.||+||...+
T Consensus 232 ~~~i~~a~~kC~LCLe~~~~p---SaTpCGHiFCWsCI~~w~~ek~eCPlCR~~~~ 284 (293)
T KOG0317|consen 232 LSSIPEATRKCSLCLENRSNP---SATPCGHIFCWSCILEWCSEKAECPLCREKFQ 284 (293)
T ss_pred CccCCCCCCceEEEecCCCCC---CcCcCcchHHHHHHHHHHccccCCCcccccCC
Confidence 334456678999999999888 78999999999999999999999999998764
No 11
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=98.98 E-value=4.4e-10 Score=76.09 Aligned_cols=44 Identities=45% Similarity=1.176 Sum_probs=37.0
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHhc-CCCccccCcCc
Q 019720 289 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-LSCCPLCKQEL 334 (336)
Q Consensus 289 ~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~I 334 (336)
+|+||++.+. +.+...+|+|.||..|+++|++. +..||.||..+
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 5999999983 34455569999999999999987 78899999864
No 12
>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=98.90 E-value=9.5e-10 Score=74.16 Aligned_cols=39 Identities=36% Similarity=0.967 Sum_probs=33.7
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCcccc
Q 019720 290 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLC 330 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlC 330 (336)
|+||++.+.+ .+..++|||.|+.+|+.+|++.+.+||+|
T Consensus 1 C~iC~~~~~~--~~~~~~CGH~fC~~C~~~~~~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD--PVVVTPCGHSFCKECIEKYLEKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS--EEEECTTSEEEEHHHHHHHHHCTSB-TTT
T ss_pred CCCCCCcccC--cCEECCCCCchhHHHHHHHHHCcCCCcCC
Confidence 8999999887 45688999999999999999999999998
No 13
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.86 E-value=2e-09 Score=98.48 Aligned_cols=49 Identities=35% Similarity=0.746 Sum_probs=42.7
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC---CCccccCcCcC
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL---SCCPLCKQELE 335 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~---~tCPlCR~~I~ 335 (336)
.....+|.|||+.-+|+ .++.|||.||+.||-+||..+ +.||+||..|.
T Consensus 44 ~~~~FdCNICLd~akdP---VvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs 95 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAKDP---VVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVS 95 (230)
T ss_pred CCCceeeeeeccccCCC---EEeecccceehHHHHHHHhhcCCCeeCCccccccc
Confidence 45678999999998888 778899999999999999873 56999999875
No 14
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.84 E-value=2.1e-09 Score=84.41 Aligned_cols=50 Identities=32% Similarity=0.799 Sum_probs=39.3
Q ss_pred CCCccccccccccc--------CC--ceEEeCCCCcccHHHHHHHHhc---CCCccccCcCcC
Q 019720 286 EDPECCICLAKYKE--------KE--EVRKLPCSHMFHLKCVDQWLRI---LSCCPLCKQELE 335 (336)
Q Consensus 286 ~~~~C~ICL~~f~~--------~~--~vr~LPC~H~FH~~CI~~WL~~---~~tCPlCR~~I~ 335 (336)
+|+.|.||...|+. || .+..-.|+|.||..||.+|+.. ++.||+||++.+
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 47789999999983 22 2333349999999999999975 578999999753
No 15
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.77 E-value=3.6e-09 Score=109.57 Aligned_cols=52 Identities=35% Similarity=0.866 Sum_probs=46.5
Q ss_pred CCCCCCcccccccccccCCc--eEEeCCCCcccHHHHHHHHhcCCCccccCcCc
Q 019720 283 PANEDPECCICLAKYKEKEE--VRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 283 ~~~~~~~C~ICL~~f~~~~~--vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
....+..|.||+++...+++ ...|||+|.||..|+.+|++++++||.||..+
T Consensus 287 ~~~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 287 LALSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFERQQTCPTCRTVL 340 (543)
T ss_pred hhhcCCeeeeechhhccccccccceeecccchHHHHHHHHHHHhCcCCcchhhh
Confidence 44568899999999999765 68899999999999999999999999999843
No 16
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.76 E-value=4.7e-09 Score=92.53 Aligned_cols=50 Identities=30% Similarity=0.707 Sum_probs=43.2
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
++...|+|||+.+.+...+ -+.|||+||++||+.-++....||+|++.|.
T Consensus 129 ~~~~~CPiCl~~~sek~~v-sTkCGHvFC~~Cik~alk~~~~CP~C~kkIt 178 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPV-STKCGHVFCSQCIKDALKNTNKCPTCRKKIT 178 (187)
T ss_pred ccccCCCceecchhhcccc-ccccchhHHHHHHHHHHHhCCCCCCcccccc
Confidence 4458999999999887542 3669999999999999999999999998875
No 17
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=98.75 E-value=6.2e-09 Score=72.09 Aligned_cols=44 Identities=34% Similarity=0.847 Sum_probs=39.5
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCc
Q 019720 289 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 332 (336)
Q Consensus 289 ~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 332 (336)
+|.||.++|.+....+.++|+|+|+.+|+++.......||+||+
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 59999999976777899999999999999999866789999985
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=98.72 E-value=6.8e-09 Score=94.65 Aligned_cols=51 Identities=29% Similarity=0.827 Sum_probs=38.2
Q ss_pred CCCCcccccccccccCC-----ceEEe-CCCCcccHHHHHHHHhcC------CCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKE-----EVRKL-PCSHMFHLKCVDQWLRIL------SCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~-----~vr~L-PC~H~FH~~CI~~WL~~~------~tCPlCR~~I~ 335 (336)
.++.+|+||++..-++. .-..| +|+|.||..||++|.+.+ .+||+||..+.
T Consensus 168 SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 168 SKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred cCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 45689999999864431 12244 599999999999999753 45999998753
No 19
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=98.72 E-value=7.5e-09 Score=71.19 Aligned_cols=38 Identities=37% Similarity=0.917 Sum_probs=30.6
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHhcC----CCcccc
Q 019720 290 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL----SCCPLC 330 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~----~tCPlC 330 (336)
|+||++.|+++ ..|+|||.|+..||.+|.+.. ..||.|
T Consensus 1 CpiC~~~~~~P---v~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDP---VSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSE---EE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCc---cccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 89999999999 889999999999999999764 369988
No 20
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=98.71 E-value=1.4e-08 Score=74.77 Aligned_cols=45 Identities=24% Similarity=0.435 Sum_probs=41.1
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 288 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 288 ~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
..|+||.+.++++ ..+||||+|+++||.+|++.+.+||+|+.++.
T Consensus 2 ~~Cpi~~~~~~~P---v~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~ 46 (63)
T smart00504 2 FLCPISLEVMKDP---VILPSGQTYERRAIEKWLLSHGTDPVTGQPLT 46 (63)
T ss_pred cCCcCCCCcCCCC---EECCCCCEEeHHHHHHHHHHCCCCCCCcCCCC
Confidence 4699999999988 67899999999999999998999999998873
No 21
>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=98.70 E-value=7.9e-09 Score=70.02 Aligned_cols=39 Identities=41% Similarity=1.013 Sum_probs=34.7
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHh--cCCCcccc
Q 019720 290 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR--ILSCCPLC 330 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~--~~~tCPlC 330 (336)
|+||++.++++. ..++|+|.||.+|+++|++ ....||+|
T Consensus 1 C~iC~~~~~~~~--~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV--ILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE--EETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCC--EEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 899999988873 5889999999999999998 45789998
No 22
>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=98.69 E-value=1.4e-08 Score=66.15 Aligned_cols=38 Identities=39% Similarity=1.078 Sum_probs=32.9
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHh-cCCCcccc
Q 019720 290 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR-ILSCCPLC 330 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~-~~~tCPlC 330 (336)
|+||++.. +....++|+|.||.+|+++|++ .+..||.|
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 78999883 3458899999999999999998 66789987
No 23
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.53 E-value=5.1e-08 Score=96.88 Aligned_cols=49 Identities=29% Similarity=0.602 Sum_probs=43.5
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
.+....|+||++.|.++ ..+||+|.||..||..|+.....||+||..+.
T Consensus 23 Le~~l~C~IC~d~~~~P---vitpCgH~FCs~CI~~~l~~~~~CP~Cr~~~~ 71 (397)
T TIGR00599 23 LDTSLRCHICKDFFDVP---VLTSCSHTFCSLCIRRCLSNQPKCPLCRAEDQ 71 (397)
T ss_pred cccccCCCcCchhhhCc---cCCCCCCchhHHHHHHHHhCCCCCCCCCCccc
Confidence 35678999999999887 57899999999999999998889999998764
No 24
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=98.50 E-value=8.1e-08 Score=74.05 Aligned_cols=27 Identities=41% Similarity=0.995 Sum_probs=25.9
Q ss_pred CCCcccHHHHHHHHhcCCCccccCcCc
Q 019720 308 CSHMFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 308 C~H~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
|+|.||..||.+||..+..||++|++.
T Consensus 54 CnHaFH~HCI~rWL~Tk~~CPld~q~w 80 (88)
T COG5194 54 CNHAFHDHCIYRWLDTKGVCPLDRQTW 80 (88)
T ss_pred cchHHHHHHHHHHHhhCCCCCCCCcee
Confidence 999999999999999999999999875
No 25
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=98.44 E-value=1.6e-07 Score=66.72 Aligned_cols=42 Identities=26% Similarity=0.764 Sum_probs=33.6
Q ss_pred cccccccccccCCceEEeCCC-----CcccHHHHHHHHhc--CCCccccC
Q 019720 289 ECCICLAKYKEKEEVRKLPCS-----HMFHLKCVDQWLRI--LSCCPLCK 331 (336)
Q Consensus 289 ~C~ICL~~f~~~~~vr~LPC~-----H~FH~~CI~~WL~~--~~tCPlCR 331 (336)
.|.||++ .+++++..+.||. |.+|.+|+++|+.. +.+||+|+
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 4445555689984 99999999999965 45899995
No 26
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=5.5e-07 Score=90.04 Aligned_cols=51 Identities=29% Similarity=0.817 Sum_probs=41.0
Q ss_pred CCCCcccccccccccCC--------------ceEEeCCCCcccHHHHHHHHh-cCCCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKE--------------EVRKLPCSHMFHLKCVDQWLR-ILSCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~--------------~vr~LPC~H~FH~~CI~~WL~-~~~tCPlCR~~I~ 335 (336)
+....|+||+.+.+.-. ....+||+|+||..|+.+|.. .+-.||+||.++.
T Consensus 569 ~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 569 RRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred hccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 44568999999876421 234669999999999999998 5669999999874
No 27
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.34 E-value=1.2e-07 Score=72.49 Aligned_cols=49 Identities=35% Similarity=0.776 Sum_probs=36.4
Q ss_pred CCCcccccccccccCCceEEe----------CCCCcccHHHHHHHHhc---CCCccccCcCc
Q 019720 286 EDPECCICLAKYKEKEEVRKL----------PCSHMFHLKCVDQWLRI---LSCCPLCKQEL 334 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~L----------PC~H~FH~~CI~~WL~~---~~tCPlCR~~I 334 (336)
.+..|.||...|+.--.--++ -|.|.||..||.+|+.. ++.||+||+..
T Consensus 19 ~~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 19 PDETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTW 80 (84)
T ss_pred CCCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchhee
Confidence 344899999999752211122 28999999999999975 46799999864
No 28
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=98.28 E-value=5.5e-07 Score=62.24 Aligned_cols=38 Identities=32% Similarity=0.767 Sum_probs=23.0
Q ss_pred ccccccccccCCc-eEEeCCCCcccHHHHHHHHhcC----CCcc
Q 019720 290 CCICLAKYKEKEE-VRKLPCSHMFHLKCVDQWLRIL----SCCP 328 (336)
Q Consensus 290 C~ICL~~f~~~~~-vr~LPC~H~FH~~CI~~WL~~~----~tCP 328 (336)
|+||.+ |.+++. -++|||||+|+++||+++++.+ ..||
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 866443 3789999999999999999854 3577
No 29
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.21 E-value=6.4e-07 Score=83.58 Aligned_cols=47 Identities=32% Similarity=0.804 Sum_probs=41.0
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHH-HHhcCCC-ccccCcCc
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQ-WLRILSC-CPLCKQEL 334 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~-WL~~~~t-CPlCR~~I 334 (336)
..|..|.||++.-+.+ ..+||||+||..||-. |-+.+.- ||+||+.+
T Consensus 213 ~~d~kC~lC~e~~~~p---s~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~ 261 (271)
T COG5574 213 LADYKCFLCLEEPEVP---SCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKV 261 (271)
T ss_pred ccccceeeeecccCCc---ccccccchhhHHHHHHHHHhhccccCchhhhhc
Confidence 5688999999998877 7889999999999999 9877654 99999865
No 30
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=98.16 E-value=1.2e-06 Score=67.20 Aligned_cols=48 Identities=21% Similarity=0.416 Sum_probs=39.1
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc-CCCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-LSCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~I~ 335 (336)
.+...|+||.+-+.++ ..+||||.|.+.||.+|++. +.+||+|+.++.
T Consensus 2 P~~f~CpIt~~lM~dP---Vi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~ 50 (73)
T PF04564_consen 2 PDEFLCPITGELMRDP---VILPSGHTYERSAIERWLEQNGGTDPFTRQPLS 50 (73)
T ss_dssp SGGGB-TTTSSB-SSE---EEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-S
T ss_pred CcccCCcCcCcHhhCc---eeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCC
Confidence 3567899999999999 88999999999999999998 899999998874
No 31
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.13 E-value=6.9e-07 Score=94.87 Aligned_cols=49 Identities=37% Similarity=0.952 Sum_probs=39.4
Q ss_pred CCCCcccccccccccCCceEEeC------CCCcccHHHHHHHHhc--CCCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKEEVRKLP------CSHMFHLKCVDQWLRI--LSCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LP------C~H~FH~~CI~~WL~~--~~tCPlCR~~I~ 335 (336)
.+..||+||......-| |.|| |+|.||..|+-+|++. +.+||+||..+.
T Consensus 1467 sG~eECaICYsvL~~vd--r~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVD--RSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHh--ccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 56779999998876221 4555 8899999999999986 578999998764
No 32
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=98.12 E-value=1.4e-06 Score=70.41 Aligned_cols=48 Identities=33% Similarity=0.834 Sum_probs=35.6
Q ss_pred CCccccccccccc------------CCc-eEEeC-CCCcccHHHHHHHHhcCCCccccCcCc
Q 019720 287 DPECCICLAKYKE------------KEE-VRKLP-CSHMFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 287 ~~~C~ICL~~f~~------------~~~-vr~LP-C~H~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
-+.|+||...+-+ .++ +...- |+|.||..||.+||+++..||||.++-
T Consensus 46 vDnCAICRnHIMd~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlktr~vCPLdn~eW 107 (114)
T KOG2930|consen 46 VDNCAICRNHIMDLCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKTRNVCPLDNKEW 107 (114)
T ss_pred echhHHHHHHHHHHHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhhcCcCCCcCcce
Confidence 4578888755422 122 22333 999999999999999999999998753
No 33
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=98.07 E-value=7.5e-07 Score=67.91 Aligned_cols=49 Identities=29% Similarity=0.798 Sum_probs=23.4
Q ss_pred CCcccccccccccCCceEEe-----CCCCcccHHHHHHHHhc----C-------CCccccCcCcC
Q 019720 287 DPECCICLAKYKEKEEVRKL-----PCSHMFHLKCVDQWLRI----L-------SCCPLCKQELE 335 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~L-----PC~H~FH~~CI~~WL~~----~-------~tCPlCR~~I~ 335 (336)
+.+|.||.+...+++++-.+ .|++.||..|+.+||.. + .+||.|+.+|.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 45899999987744333222 27899999999999863 1 24999999873
No 34
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.92 E-value=3.7e-06 Score=80.90 Aligned_cols=48 Identities=27% Similarity=0.645 Sum_probs=43.8
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcCC
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELER 336 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~~ 336 (336)
.-..|-||.+-|..+ ..+||+|.||.-||++.|..+..||.|+.++.+
T Consensus 22 ~lLRC~IC~eyf~ip---~itpCsHtfCSlCIR~~L~~~p~CP~C~~~~~E 69 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP---MITPCSHTFCSLCIRKFLSYKPQCPTCCVTVTE 69 (442)
T ss_pred HHHHHhHHHHHhcCc---eeccccchHHHHHHHHHhccCCCCCceecccch
Confidence 446899999999999 889999999999999999999999999988753
No 35
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.90 E-value=5.9e-06 Score=82.08 Aligned_cols=52 Identities=29% Similarity=0.759 Sum_probs=41.1
Q ss_pred CCCCCCCCCcccccccccccCC-ceEEeCCCCcccHHHHHHHHhcCCCccccCcC
Q 019720 280 NSAPANEDPECCICLAKYKEKE-EVRKLPCSHMFHLKCVDQWLRILSCCPLCKQE 333 (336)
Q Consensus 280 ~~~~~~~~~~C~ICL~~f~~~~-~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~ 333 (336)
.....-|-.+|++||+..++.. .++...|+|.||..|+.+|- ..+||+||.-
T Consensus 168 ~~~~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~--~~scpvcR~~ 220 (493)
T KOG0804|consen 168 PPTGLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW--DSSCPVCRYC 220 (493)
T ss_pred CCCCcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc--cCcChhhhhh
Confidence 3444567789999999987764 34556699999999999995 4789999963
No 36
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.89 E-value=6e-06 Score=83.37 Aligned_cols=45 Identities=29% Similarity=0.732 Sum_probs=36.8
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC-----CCccccCcCc
Q 019720 287 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL-----SCCPLCKQEL 334 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~-----~tCPlCR~~I 334 (336)
+..|+|||+.-.-+ ..+.|||+||..||-+.+... ..||+|+..|
T Consensus 186 ~~~CPICL~~~~~p---~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCCcc---cccccCceeeHHHHHHHHhhhcccCCccCCchhhhc
Confidence 78999999987666 344599999999998887543 5699999876
No 37
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.73 E-value=2.2e-05 Score=76.25 Aligned_cols=49 Identities=31% Similarity=0.783 Sum_probs=40.6
Q ss_pred CCCCcccccccccccCCceEEeCCCCc-ccHHHHHHHHhcCCCccccCcCcCC
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHM-FHLKCVDQWLRILSCCPLCKQELER 336 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~-FH~~CI~~WL~~~~tCPlCR~~I~~ 336 (336)
++..+|-|||++-.+- .+|||.|. .|..|.+.---....||+||++|++
T Consensus 288 ~~gkeCVIClse~rdt---~vLPCRHLCLCs~Ca~~Lr~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSESRDT---VVLPCRHLCLCSGCAKSLRYQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCCcce---EEecchhhehhHhHHHHHHHhhcCCCccccchHh
Confidence 5578999999986654 89999996 6889988876667889999999863
No 38
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.72 E-value=1.4e-05 Score=75.58 Aligned_cols=47 Identities=23% Similarity=0.579 Sum_probs=42.4
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
.-..|-||-+-+..+ ..++|||.||.-||+.-|..+.-||+||.+-+
T Consensus 24 s~lrC~IC~~~i~ip---~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~ 70 (391)
T COG5432 24 SMLRCRICDCRISIP---CETTCGHTFCSLCIRRHLGTQPFCPVCREDPC 70 (391)
T ss_pred hHHHhhhhhheeecc---eecccccchhHHHHHHHhcCCCCCccccccHH
Confidence 456899999999998 78899999999999999999999999998643
No 39
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.69 E-value=8e-06 Score=85.62 Aligned_cols=51 Identities=25% Similarity=0.582 Sum_probs=45.7
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
.....|++||..+.++......+|+|.||..||+.|-+.-++||+||..+.
T Consensus 121 ~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 121 HVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhh
Confidence 345689999999999988888889999999999999999999999998654
No 40
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=7.3e-05 Score=74.62 Aligned_cols=49 Identities=37% Similarity=0.823 Sum_probs=44.4
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
...+.+|+||...+.++ ..+||||.|+..||++-+..+..||+||.++.
T Consensus 81 ~~sef~c~vc~~~l~~p---v~tpcghs~c~~Cl~r~ld~~~~cp~Cr~~l~ 129 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPP---VVTPCGHSFCLECLDRSLDQETECPLCRDELV 129 (398)
T ss_pred ccchhhhhhhHhhcCCC---ccccccccccHHHHHHHhccCCCCcccccccc
Confidence 36788999999999998 77799999999999999998899999999875
No 41
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=7.8e-05 Score=73.08 Aligned_cols=51 Identities=33% Similarity=0.871 Sum_probs=39.6
Q ss_pred CCCCcccccccccccCC----ceEEeC-CCCcccHHHHHHHH--hc-----CCCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKE----EVRKLP-CSHMFHLKCVDQWL--RI-----LSCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~----~vr~LP-C~H~FH~~CI~~WL--~~-----~~tCPlCR~~I~ 335 (336)
..+.+|.||++...+.. ....|| |+|.||..||++|- +. ...||.||....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 45789999999987764 123446 99999999999997 33 467999998653
No 42
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=97.26 E-value=0.0001 Score=70.16 Aligned_cols=50 Identities=24% Similarity=0.782 Sum_probs=42.0
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc-----------------------CCCccccCcCc
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-----------------------LSCCPLCKQEL 334 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~-----------------------~~tCPlCR~~I 334 (336)
.....|.|||--|.+++...+++|-|.||..|+.+.|.. +..||+||..|
T Consensus 113 ~p~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i 185 (368)
T KOG4445|consen 113 HPNGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERI 185 (368)
T ss_pred CCCCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhc
Confidence 345689999999999999999999999999999776521 24599999876
No 43
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.21 E-value=4.8e-05 Score=73.83 Aligned_cols=47 Identities=32% Similarity=0.663 Sum_probs=40.3
Q ss_pred CCCCcccccccccccCCceEEeC-CCCcccHHHHHHHHhc-CCCccccCcCc
Q 019720 285 NEDPECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLRI-LSCCPLCKQEL 334 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LP-C~H~FH~~CI~~WL~~-~~tCPlCR~~I 334 (336)
..+..|+|||+-++.. +..+ |.|.||.+||.+-++. +.+||-||+.+
T Consensus 41 ~~~v~c~icl~llk~t---mttkeClhrfc~~ci~~a~r~gn~ecptcRk~l 89 (381)
T KOG0311|consen 41 DIQVICPICLSLLKKT---MTTKECLHRFCFDCIWKALRSGNNECPTCRKKL 89 (381)
T ss_pred hhhhccHHHHHHHHhh---cccHHHHHHHHHHHHHHHHHhcCCCCchHHhhc
Confidence 4577999999998876 5555 9999999999999975 78999999875
No 44
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=97.16 E-value=0.00013 Score=71.73 Aligned_cols=47 Identities=36% Similarity=0.854 Sum_probs=40.1
Q ss_pred CCCcccccccccccC-CceEEeCCCCcccHHHHHHHHhcC--CCccccCc
Q 019720 286 EDPECCICLAKYKEK-EEVRKLPCSHMFHLKCVDQWLRIL--SCCPLCKQ 332 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~-~~vr~LPC~H~FH~~CI~~WL~~~--~tCPlCR~ 332 (336)
-+.-|..|-+.|-.. +.+-.|||.|+||..|+...|.+| .+||.||+
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 356799999998765 457889999999999999999876 67999994
No 45
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.96 E-value=0.00019 Score=51.78 Aligned_cols=47 Identities=26% Similarity=0.710 Sum_probs=33.2
Q ss_pred CCCcccccccccccCCceEEeCCCCc-ccHHHHHHHHh-cCCCccccCcCcC
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHM-FHLKCVDQWLR-ILSCCPLCKQELE 335 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~-FH~~CI~~WL~-~~~tCPlCR~~I~ 335 (336)
-++||.||.+.=.+. ..-.|+|. .+-+|-.+-++ .+..||+||++|+
T Consensus 6 ~~dECTICye~pvds---VlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 6 WSDECTICYEHPVDS---VLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred cccceeeeccCcchH---HHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 347999998774443 33449996 45667544444 7899999999874
No 46
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=96.95 E-value=0.00018 Score=53.74 Aligned_cols=44 Identities=32% Similarity=0.686 Sum_probs=22.8
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCc
Q 019720 287 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
--.|++|.+-++++ +....|.|+|+..||.+-+. ..||+|+.+.
T Consensus 7 lLrCs~C~~~l~~p--v~l~~CeH~fCs~Ci~~~~~--~~CPvC~~Pa 50 (65)
T PF14835_consen 7 LLRCSICFDILKEP--VCLGGCEHIFCSSCIRDCIG--SECPVCHTPA 50 (65)
T ss_dssp TTS-SSS-S--SS---B---SSS--B-TTTGGGGTT--TB-SSS--B-
T ss_pred hcCCcHHHHHhcCC--ceeccCccHHHHHHhHHhcC--CCCCCcCChH
Confidence 45799999998777 34455999999999988544 4599999764
No 47
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.90 E-value=0.0003 Score=61.60 Aligned_cols=32 Identities=28% Similarity=0.784 Sum_probs=29.3
Q ss_pred CCCCCCcccccccccccCCceEEeCCCCcccH
Q 019720 283 PANEDPECCICLAKYKEKEEVRKLPCSHMFHL 314 (336)
Q Consensus 283 ~~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~ 314 (336)
+..+..||.||||+++.++.+..|||-.+||+
T Consensus 173 L~ddkGECvICLEdL~~GdtIARLPCLCIYHK 204 (205)
T KOG0801|consen 173 LKDDKGECVICLEDLEAGDTIARLPCLCIYHK 204 (205)
T ss_pred hcccCCcEEEEhhhccCCCceeccceEEEeec
Confidence 45677899999999999999999999999996
No 48
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.71 E-value=0.00077 Score=67.47 Aligned_cols=50 Identities=30% Similarity=0.669 Sum_probs=43.2
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
..++..|++|.....++-.. ..|+|.||..|+.+|+..+..||.|+..+.
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~--~~cgh~fC~~C~~~~~~~~~~cp~~~~~~~ 67 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQT--TTCGHRFCAGCLLESLSNHQKCPVCRQELT 67 (391)
T ss_pred CcccccCccccccccCCCCC--CCCCCcccccccchhhccCcCCcccccccc
Confidence 45778999999999998332 579999999999999999999999987653
No 49
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=96.66 E-value=0.00094 Score=48.91 Aligned_cols=43 Identities=23% Similarity=0.566 Sum_probs=29.2
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc--CCCccc
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI--LSCCPL 329 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPl 329 (336)
.-...|+|.+..|+++ ++-..|+|+|-++.|.++++. ...||+
T Consensus 9 ~~~~~CPiT~~~~~~P--V~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDP--VKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSE--EEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred EeccCCCCcCChhhCC--cCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 3457899999999987 455579999999999999944 456998
No 50
>PF05883 Baculo_RING: Baculovirus U-box/Ring-like domain; InterPro: IPR008573 This family consists of several Baculovirus proteins of around 130 residues in length. The function of this family is unknown, but it appears to be related to the U-box and ring finger domain by profile-profile comparison.
Probab=96.57 E-value=0.0011 Score=56.44 Aligned_cols=37 Identities=27% Similarity=0.605 Sum_probs=32.0
Q ss_pred CCcccccccccccCCceEEeCCC------CcccHHHHHHHHhc
Q 019720 287 DPECCICLAKYKEKEEVRKLPCS------HMFHLKCVDQWLRI 323 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~------H~FH~~CI~~WL~~ 323 (336)
..||+||++.+.+++.+..++|+ |.||.+|+++|-+.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~~~ 68 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWRRE 68 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHHhh
Confidence 56899999999997778888885 99999999999433
No 51
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=96.54 E-value=0.0014 Score=72.82 Aligned_cols=53 Identities=32% Similarity=0.764 Sum_probs=44.2
Q ss_pred CCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC----------CCccccCcCcC
Q 019720 283 PANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL----------SCCPLCKQELE 335 (336)
Q Consensus 283 ~~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~----------~tCPlCR~~I~ 335 (336)
....|+.|-||..+--.......|.|+|+||..|.++-|+.. -+||+|+.+|+
T Consensus 3482 kQD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3482 KQDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred hcccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhh
Confidence 346788999999988888888899999999999998766542 25999999886
No 52
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=96.42 E-value=0.0021 Score=45.15 Aligned_cols=40 Identities=35% Similarity=0.884 Sum_probs=28.1
Q ss_pred ccccccccccCCceEEeCCC-----CcccHHHHHHHHhc--CCCcccc
Q 019720 290 CCICLAKYKEKEEVRKLPCS-----HMFHLKCVDQWLRI--LSCCPLC 330 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~-----H~FH~~CI~~WL~~--~~tCPlC 330 (336)
|-||+++-++++. -+.||+ ...|.+|+.+|+.. +.+|++|
T Consensus 1 CrIC~~~~~~~~~-li~pC~C~Gs~~~vH~~CL~~W~~~~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEP-LISPCRCKGSMKYVHRSCLERWIRESGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS--EE-SSS-SSCCGSEECCHHHHHHHHHT-SB-TTT
T ss_pred CeEeCCcCCCCCc-eecccccCCCcchhHHHHHHHHHHhcCCCcCCCC
Confidence 7799999777663 457863 48899999999974 5679988
No 53
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=96.42 E-value=0.0011 Score=65.37 Aligned_cols=45 Identities=29% Similarity=0.837 Sum_probs=37.3
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhc--CCCccccCcCcC
Q 019720 288 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI--LSCCPLCKQELE 335 (336)
Q Consensus 288 ~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPlCR~~I~ 335 (336)
.-|-||-+. +..++.=||||..|..|+..|-.. .++||.||.+|.
T Consensus 370 eLCKICaen---dKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIK 416 (563)
T KOG1785|consen 370 ELCKICAEN---DKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIK 416 (563)
T ss_pred HHHHHhhcc---CCCcccccccchHHHHHHHhhcccCCCCCCCceeeEec
Confidence 479999765 445688899999999999999854 589999998774
No 54
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.28 E-value=0.0031 Score=58.02 Aligned_cols=49 Identities=33% Similarity=0.781 Sum_probs=40.0
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc---C-----CCccccCcCc
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI---L-----SCCPLCKQEL 334 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~---~-----~tCPlCR~~I 334 (336)
.-+..|..|-..++.||.+| |-|-|.||.+|+++|-.. + -.||.|..+|
T Consensus 48 DY~pNC~LC~t~La~gdt~R-LvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~ei 104 (299)
T KOG3970|consen 48 DYNPNCRLCNTPLASGDTTR-LVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEI 104 (299)
T ss_pred CCCCCCceeCCccccCccee-ehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCcc
Confidence 34567999999999998876 679999999999999643 1 2499998875
No 55
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.03 E-value=0.0069 Score=57.30 Aligned_cols=52 Identities=23% Similarity=0.478 Sum_probs=40.1
Q ss_pred CCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc--CCCccccCcCcC
Q 019720 282 APANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI--LSCCPLCKQELE 335 (336)
Q Consensus 282 ~~~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPlCR~~I~ 335 (336)
.....+.+|++|-+.=..+ ....+|+|+||-.||..=+.- ..+||.|-.+++
T Consensus 234 s~~t~~~~C~~Cg~~PtiP--~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 234 STGTSDTECPVCGEPPTIP--HVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred ccccCCceeeccCCCCCCC--eeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3456788999998874444 345669999999999987654 478999987764
No 56
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=95.99 E-value=0.0062 Score=53.37 Aligned_cols=49 Identities=22% Similarity=0.673 Sum_probs=33.8
Q ss_pred CCCCCcccccccccccCCceEEeCCCC---cccHHHHHHHHhc--CCCccccCcCc
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPCSH---MFHLKCVDQWLRI--LSCCPLCKQEL 334 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC~H---~FH~~CI~~WL~~--~~tCPlCR~~I 334 (336)
+..+.+|-||.++.. +....=.|+. .-|.+|+++|+.. +.+||+|+.+.
T Consensus 5 s~~~~~CRIC~~~~~--~~~~PC~CkGs~k~VH~sCL~rWi~~s~~~~CeiC~~~Y 58 (162)
T PHA02825 5 SLMDKCCWICKDEYD--VVTNYCNCKNENKIVHKECLEEWINTSKNKSCKICNGPY 58 (162)
T ss_pred CCCCCeeEecCCCCC--CccCCcccCCCchHHHHHHHHHHHhcCCCCcccccCCeE
Confidence 456779999998843 2222000333 6699999999965 46799998753
No 57
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=95.96 E-value=0.0028 Score=64.57 Aligned_cols=48 Identities=23% Similarity=0.627 Sum_probs=39.2
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc-----CCCccccCcCc
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-----LSCCPLCKQEL 334 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~-----~~tCPlCR~~I 334 (336)
..+..+|.+|-+.-++. .+..|.|.||+-||.++... +-+||.|..++
T Consensus 533 nk~~~~C~lc~d~aed~---i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~L 585 (791)
T KOG1002|consen 533 NKGEVECGLCHDPAEDY---IESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGL 585 (791)
T ss_pred ccCceeecccCChhhhh---HhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccc
Confidence 34567999999887766 66779999999999998743 57899998765
No 58
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.87 E-value=0.0044 Score=61.52 Aligned_cols=48 Identities=33% Similarity=0.712 Sum_probs=39.6
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC--------CCccccCc
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL--------SCCPLCKQ 332 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~--------~tCPlCR~ 332 (336)
..-..|+||.++....+....|||+|+||+.|....+.+. -.||-|+-
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C 237 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKC 237 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCC
Confidence 4557899999998877889999999999999999998652 24876654
No 59
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=95.76 E-value=0.0054 Score=43.35 Aligned_cols=44 Identities=23% Similarity=0.528 Sum_probs=22.2
Q ss_pred ccccccccccCCceEEeC--CCCcccHHHHHHHHh-cCCCccccCcCc
Q 019720 290 CCICLAKYKEKEEVRKLP--CSHMFHLKCVDQWLR-ILSCCPLCKQEL 334 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LP--C~H~FH~~CI~~WL~-~~~tCPlCR~~I 334 (336)
|++|.++....+ ...+| |++..+..|..+-++ .+..||-||++-
T Consensus 1 cp~C~e~~d~~d-~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETD-KDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCC-TT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCC-CccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 789999984433 34567 689999999888876 478999999864
No 60
>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=95.71 E-value=0.0045 Score=49.82 Aligned_cols=33 Identities=24% Similarity=0.723 Sum_probs=28.5
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHH
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVD 318 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~ 318 (336)
.++..|++|-..+.. ......||+|+||..|++
T Consensus 76 ~~~~~C~vC~k~l~~-~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGN-SVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCC-ceEEEeCCCeEEeccccc
Confidence 467789999999988 567788999999999975
No 61
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=95.70 E-value=0.011 Score=57.35 Aligned_cols=49 Identities=18% Similarity=0.408 Sum_probs=39.6
Q ss_pred CCCCCCCcccccccccccCCceEEeC-CCCcccHHHHHHHHhcCCCccccCcC
Q 019720 282 APANEDPECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLRILSCCPLCKQE 333 (336)
Q Consensus 282 ~~~~~~~~C~ICL~~f~~~~~vr~LP-C~H~FH~~CI~~WL~~~~tCPlCR~~ 333 (336)
....+...|++|+....++ .++. -|-+||..||-+.++..+.||+=-.+
T Consensus 295 ~l~~~~~~CpvClk~r~Np---tvl~vSGyVfCY~Ci~~Yv~~~~~CPVT~~p 344 (357)
T KOG0826|consen 295 LLPPDREVCPVCLKKRQNP---TVLEVSGYVFCYPCIFSYVVNYGHCPVTGYP 344 (357)
T ss_pred cCCCccccChhHHhccCCC---ceEEecceEEeHHHHHHHHHhcCCCCccCCc
Confidence 3446678999999998887 3333 59999999999999999999985444
No 62
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=95.69 E-value=0.0055 Score=55.47 Aligned_cols=44 Identities=23% Similarity=0.446 Sum_probs=39.1
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcC
Q 019720 287 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQE 333 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~ 333 (336)
...|.||-.+|+.+ .++.|||+||..|.-.=.+...+|-+|-+.
T Consensus 196 PF~C~iCKkdy~sp---vvt~CGH~FC~~Cai~~y~kg~~C~~Cgk~ 239 (259)
T COG5152 196 PFLCGICKKDYESP---VVTECGHSFCSLCAIRKYQKGDECGVCGKA 239 (259)
T ss_pred ceeehhchhhccch---hhhhcchhHHHHHHHHHhccCCcceecchh
Confidence 45899999999998 677899999999999888888999999764
No 63
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=95.68 E-value=0.0033 Score=60.81 Aligned_cols=49 Identities=22% Similarity=0.527 Sum_probs=41.2
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCc
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
.....+|.+|-.-+-|... +.-|-|.||+.||-+.|..+.+||.|.-.|
T Consensus 12 ~n~~itC~LC~GYliDATT--I~eCLHTFCkSCivk~l~~~~~CP~C~i~i 60 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATT--ITECLHTFCKSCIVKYLEESKYCPTCDIVI 60 (331)
T ss_pred cccceehhhccceeecchh--HHHHHHHHHHHHHHHHHHHhccCCccceec
Confidence 3567899999988888732 334999999999999999999999998655
No 64
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.56 E-value=0.012 Score=54.99 Aligned_cols=75 Identities=15% Similarity=0.249 Sum_probs=55.8
Q ss_pred HhcCCCceeeccccccccCCCCCCCCCCcccccccccccCCceEEeC-CCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 261 ISRLPSWRYKRVDSNLEAGNSAPANEDPECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 261 i~~Lp~~k~~~~~~~~~~~~~~~~~~~~~C~ICL~~f~~~~~vr~LP-C~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
++.|-.++|...+...+...-........|++|.+.+.+...+..|. |+|+|+.+|+++..+....||+|-.++.
T Consensus 195 lkdL~~VkFT~l~s~~~et~l~a~s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~v~pv~d~plk 270 (303)
T KOG3039|consen 195 LKDLFAVKFTPLNSEETETKLIAASKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDMVDPVTDKPLK 270 (303)
T ss_pred hhhcceeeeeecCCchhhhhhhhhccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccccccCCCCcCc
Confidence 44555566665543222222222346789999999999988877776 9999999999999999999999988764
No 65
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.47 E-value=0.0087 Score=58.59 Aligned_cols=49 Identities=27% Similarity=0.610 Sum_probs=35.8
Q ss_pred CCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 281 SAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 281 ~~~~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
......+.-|.||+++.++- ..+||||+-+ |..-- +...+||+||+.|+
T Consensus 299 ~~~~~~p~lcVVcl~e~~~~---~fvpcGh~cc--ct~cs-~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 299 FRELPQPDLCVVCLDEPKSA---VFVPCGHVCC--CTLCS-KHLPQCPVCRQRIR 347 (355)
T ss_pred ccccCCCCceEEecCCccce---eeecCCcEEE--chHHH-hhCCCCchhHHHHH
Confidence 34445667899999987774 7899999955 65443 33455999998764
No 66
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=95.22 E-value=0.0056 Score=64.91 Aligned_cols=45 Identities=24% Similarity=0.660 Sum_probs=35.9
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhc-CCCccccCcCc
Q 019720 287 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-LSCCPLCKQEL 334 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~I 334 (336)
-..|+.|=....+- ....|+|+||..||..=+.. ...||-|-.++
T Consensus 643 ~LkCs~Cn~R~Kd~---vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aF 688 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDA---VITKCGHVFCEECVQTRYETRQRKCPKCNAAF 688 (698)
T ss_pred ceeCCCccCchhhH---HHHhcchHHHHHHHHHHHHHhcCCCCCCCCCC
Confidence 35899998665553 44559999999999999876 57899998765
No 67
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.14 E-value=0.0093 Score=56.97 Aligned_cols=45 Identities=22% Similarity=0.414 Sum_probs=40.3
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCc
Q 019720 287 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
...|-||-..|.++ .+..|+|+||..|.-+=++....|++|-+++
T Consensus 241 Pf~c~icr~~f~~p---Vvt~c~h~fc~~ca~~~~qk~~~c~vC~~~t 285 (313)
T KOG1813|consen 241 PFKCFICRKYFYRP---VVTKCGHYFCEVCALKPYQKGEKCYVCSQQT 285 (313)
T ss_pred Cccccccccccccc---hhhcCCceeehhhhccccccCCcceeccccc
Confidence 45699999999999 7788999999999998888889999998765
No 68
>PHA03096 p28-like protein; Provisional
Probab=94.84 E-value=0.014 Score=56.05 Aligned_cols=45 Identities=27% Similarity=0.496 Sum_probs=33.1
Q ss_pred CcccccccccccCC----ceEEeC-CCCcccHHHHHHHHhc---CCCccccCc
Q 019720 288 PECCICLAKYKEKE----EVRKLP-CSHMFHLKCVDQWLRI---LSCCPLCKQ 332 (336)
Q Consensus 288 ~~C~ICL~~f~~~~----~vr~LP-C~H~FH~~CI~~WL~~---~~tCPlCR~ 332 (336)
.+|.||++...... .-..|+ |.|.|+..||..|-.. +.+||-||.
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 68999999877532 234566 9999999999999754 345555553
No 69
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.51 E-value=0.003 Score=62.26 Aligned_cols=50 Identities=24% Similarity=0.640 Sum_probs=44.8
Q ss_pred CCcccccccccccC-CceEEeCCCCcccHHHHHHHHhcCCCccccCcCcCC
Q 019720 287 DPECCICLAKYKEK-EEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELER 336 (336)
Q Consensus 287 ~~~C~ICL~~f~~~-~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~~ 336 (336)
...|+||.++|+.. +++..+-|+|.+|.+|+.+||.....||-|++.+++
T Consensus 196 v~sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 196 VGSLSICFESLKQNYDKISAIVCGHIYHHGKLSKWLATKRKLPSCRRELPK 246 (465)
T ss_pred HhhhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHhHHHHhhhhh
Confidence 34799999999987 888888899999999999999999999999998763
No 70
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.23 E-value=0.037 Score=54.21 Aligned_cols=49 Identities=33% Similarity=0.517 Sum_probs=41.1
Q ss_pred CCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
..||..|+||...=-. -...||+|.=|..||.+=+-.++.|=.||..+.
T Consensus 419 ~sEd~lCpICyA~pi~---Avf~PC~H~SC~~CI~qHlmN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 419 DSEDNLCPICYAGPIN---AVFAPCSHRSCYGCITQHLMNCKRCFFCKTTVI 467 (489)
T ss_pred CcccccCcceecccch---hhccCCCCchHHHHHHHHHhcCCeeeEecceee
Confidence 3678899999766333 367899999999999999999999999998663
No 71
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=94.22 E-value=0.023 Score=60.99 Aligned_cols=50 Identities=36% Similarity=0.861 Sum_probs=37.6
Q ss_pred CCCCCCcccccccccccCCceEEe-CCCCcccHHHHHHHHhcC-C------CccccCc
Q 019720 283 PANEDPECCICLAKYKEKEEVRKL-PCSHMFHLKCVDQWLRIL-S------CCPLCKQ 332 (336)
Q Consensus 283 ~~~~~~~C~ICL~~f~~~~~vr~L-PC~H~FH~~CI~~WL~~~-~------tCPlCR~ 332 (336)
+..+..+|.||.+.+...+.+=-- .|-|+||..||.+|-+.. + .||-|+.
T Consensus 187 l~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 187 LSNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARSSEKTGQDGWRCPACQS 244 (950)
T ss_pred HhcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHHhhhccCccccCCcccc
Confidence 446778999999998887654221 167999999999997542 1 4999984
No 72
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.41 E-value=0.05 Score=48.59 Aligned_cols=49 Identities=31% Similarity=0.715 Sum_probs=33.9
Q ss_pred CCCcccccccccccCC----ceEEeCCCCcccHHHHHHHHhc----C-------CCccccCcCc
Q 019720 286 EDPECCICLAKYKEKE----EVRKLPCSHMFHLKCVDQWLRI----L-------SCCPLCKQEL 334 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~----~vr~LPC~H~FH~~CI~~WL~~----~-------~tCPlCR~~I 334 (336)
+-..|.||..---+|. ..--..|+.-||.-|+..||+. + ..||.|..+|
T Consensus 164 ~~~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~Pi 227 (234)
T KOG3268|consen 164 ELGACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPI 227 (234)
T ss_pred hhhcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcc
Confidence 3456888875443432 2223459999999999999964 2 2499999887
No 73
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=93.15 E-value=0.046 Score=39.66 Aligned_cols=45 Identities=24% Similarity=0.603 Sum_probs=33.1
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
....|-.|...=.. -.++||+|..+..|.+. +.-+-||+|..+++
T Consensus 6 ~~~~~~~~~~~~~~---~~~~pCgH~I~~~~f~~--~rYngCPfC~~~~~ 50 (55)
T PF14447_consen 6 PEQPCVFCGFVGTK---GTVLPCGHLICDNCFPG--ERYNGCPFCGTPFE 50 (55)
T ss_pred cceeEEEccccccc---cccccccceeeccccCh--hhccCCCCCCCccc
Confidence 34456666554333 37899999999999776 45577999999875
No 74
>PF04641 Rtf2: Rtf2 RING-finger
Probab=93.12 E-value=0.13 Score=48.65 Aligned_cols=52 Identities=17% Similarity=0.420 Sum_probs=40.8
Q ss_pred CCCCCCcccccccccccCCceE-EeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 283 PANEDPECCICLAKYKEKEEVR-KLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 283 ~~~~~~~C~ICL~~f~~~~~vr-~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
.......|+|...++....... ..||||+|-..++++- +....||+|-.++.
T Consensus 109 ~~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~-k~~~~Cp~c~~~f~ 161 (260)
T PF04641_consen 109 NSEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL-KKSKKCPVCGKPFT 161 (260)
T ss_pred cCCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh-cccccccccCCccc
Confidence 3466789999999996655544 4479999999999997 34567999988764
No 75
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.66 E-value=0.19 Score=49.30 Aligned_cols=53 Identities=26% Similarity=0.624 Sum_probs=40.2
Q ss_pred CCCCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHH--HhcCCCccccCcCc
Q 019720 279 GNSAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQW--LRILSCCPLCKQEL 334 (336)
Q Consensus 279 ~~~~~~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~W--L~~~~tCPlCR~~I 334 (336)
+..+..++...|.||-....-. .++||+|..|--|--+- |-.+..||+||..-
T Consensus 53 SaddtDEen~~C~ICA~~~TYs---~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~ 107 (493)
T COG5236 53 SADDTDEENMNCQICAGSTTYS---ARYPCGHQICHACAVRLRALYMQKGCPLCRTET 107 (493)
T ss_pred cccccccccceeEEecCCceEE---EeccCCchHHHHHHHHHHHHHhccCCCcccccc
Confidence 3344456667899998775544 78999999999997554 66788999999754
No 76
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=92.50 E-value=0.07 Score=51.01 Aligned_cols=47 Identities=23% Similarity=0.570 Sum_probs=39.5
Q ss_pred CCCcccccccccccCC-ceEEeCCCCcccHHHHHHHHhcCCCccccCc
Q 019720 286 EDPECCICLAKYKEKE-EVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 332 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~-~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 332 (336)
....|+||.+.+-+.. .+..++|+|.-|..|..+-...+-+||+|.+
T Consensus 157 ~~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~~~~y~CP~C~~ 204 (276)
T KOG1940|consen 157 SEFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMICEGYTCPICSK 204 (276)
T ss_pred ccCCCchhHHHhccccccCCccCcccchHHHHHHHHhccCCCCCcccc
Confidence 3444999999887764 3567889999999999999888899999988
No 77
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=92.32 E-value=0.072 Score=51.14 Aligned_cols=42 Identities=29% Similarity=0.634 Sum_probs=35.0
Q ss_pred CcccccccccccCCceEEeC-CCCcccHHHHHHHHh-cCCCccccCc
Q 019720 288 PECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLR-ILSCCPLCKQ 332 (336)
Q Consensus 288 ~~C~ICL~~f~~~~~vr~LP-C~H~FH~~CI~~WL~-~~~tCPlCR~ 332 (336)
..|+.|..-..++ ..+| |+|.||.+||..-|. ....||.|..
T Consensus 275 LkCplc~~Llrnp---~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP---MKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc---ccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 6899999888777 4556 799999999998875 5688999975
No 78
>KOG1609 consensus Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=92.27 E-value=0.082 Score=50.44 Aligned_cols=48 Identities=29% Similarity=0.705 Sum_probs=37.0
Q ss_pred CCcccccccccccCCc-eEEeCCC-----CcccHHHHHHHHh--cCCCccccCcCc
Q 019720 287 DPECCICLAKYKEKEE-VRKLPCS-----HMFHLKCVDQWLR--ILSCCPLCKQEL 334 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~-vr~LPC~-----H~FH~~CI~~WL~--~~~tCPlCR~~I 334 (336)
+..|-||.++.+.... ..+.||. +..|+.|+++|+. .+.+|.+|+...
T Consensus 78 ~~~cRIc~~~~~~~~~~~l~~pC~C~g~l~~vH~~cl~~W~~~~~~~~CeiC~~~~ 133 (323)
T KOG1609|consen 78 GPICRICHEEDEESNGLLLISPCSCKGSLAYVHRSCLEKWFSIKGNITCEICKSFF 133 (323)
T ss_pred CCcEEEEecccccccccccccCccccCcHHHHHHHHHHhhhccccCeeeecccccc
Confidence 5789999998765432 4567863 7789999999997 457899998753
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=91.91 E-value=0.23 Score=49.28 Aligned_cols=27 Identities=30% Similarity=0.992 Sum_probs=21.3
Q ss_pred CCCcccHHHHHHHHhc-------------CCCccccCcCc
Q 019720 308 CSHMFHLKCVDQWLRI-------------LSCCPLCKQEL 334 (336)
Q Consensus 308 C~H~FH~~CI~~WL~~-------------~~tCPlCR~~I 334 (336)
|.=.+|.+|+.+|+.. +.+||.||++.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCcccc
Confidence 5677899999999844 33599999975
No 80
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=91.64 E-value=0.069 Score=51.50 Aligned_cols=45 Identities=29% Similarity=0.600 Sum_probs=31.8
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 287 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
.-.|--|--.+.. .-|.+||+|+||.+|... ...+.||+|-..|+
T Consensus 90 VHfCd~Cd~PI~I--YGRmIPCkHvFCl~CAr~--~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 90 VHFCDRCDFPIAI--YGRMIPCKHVFCLECARS--DSDKICPLCDDRVQ 134 (389)
T ss_pred eEeecccCCccee--eecccccchhhhhhhhhc--CccccCcCcccHHH
Confidence 4456666444333 348899999999999754 34568999987664
No 81
>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=91.08 E-value=0.1 Score=35.93 Aligned_cols=41 Identities=24% Similarity=0.607 Sum_probs=23.1
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHhcCC--Ccccc
Q 019720 290 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILS--CCPLC 330 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~--tCPlC 330 (336)
|.+|-+-...|+.-..-.|+=.+|..|++.+++.+. .||.|
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 567777766664333223888999999999998764 79988
No 82
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.98 E-value=0.12 Score=55.84 Aligned_cols=41 Identities=24% Similarity=0.635 Sum_probs=32.8
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcC
Q 019720 288 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQE 333 (336)
Q Consensus 288 ~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~ 333 (336)
..|..|--..+-+. .---|+|.||..|+. .....||-|+-+
T Consensus 841 skCs~C~~~LdlP~--VhF~CgHsyHqhC~e---~~~~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGTLDLPF--VHFLCGHSYHQHCLE---DKEDKCPKCLPE 881 (933)
T ss_pred eeecccCCccccce--eeeecccHHHHHhhc---cCcccCCccchh
Confidence 68999988877772 333499999999999 556789999863
No 83
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=90.93 E-value=0.08 Score=56.66 Aligned_cols=44 Identities=27% Similarity=0.653 Sum_probs=35.6
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhc--CCCccccCcCcC
Q 019720 288 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI--LSCCPLCKQELE 335 (336)
Q Consensus 288 ~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~--~~tCPlCR~~I~ 335 (336)
..|.||++ .+.....+|+|.||.+|+.+-+.. +..||+||..++
T Consensus 455 ~~c~ic~~----~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~ 500 (674)
T KOG1001|consen 455 HWCHICCD----LDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLK 500 (674)
T ss_pred cccccccc----cccceeecccchHHHHHHHhccccccCCCCcHHHHHHH
Confidence 78999999 344477889999999999998754 356999998653
No 84
>PHA02862 5L protein; Provisional
Probab=89.58 E-value=0.2 Score=43.34 Aligned_cols=26 Identities=31% Similarity=0.857 Sum_probs=20.9
Q ss_pred CCcccHHHHHHHHhc--CCCccccCcCc
Q 019720 309 SHMFHLKCVDQWLRI--LSCCPLCKQEL 334 (336)
Q Consensus 309 ~H~FH~~CI~~WL~~--~~tCPlCR~~I 334 (336)
...-|++|+.+|++. +.+||+||.+.
T Consensus 25 ~K~VHq~CL~~WIn~S~k~~CeLCkteY 52 (156)
T PHA02862 25 YKVVHIKCMQLWINYSKKKECNLCKTKY 52 (156)
T ss_pred chhHHHHHHHHHHhcCCCcCccCCCCeE
Confidence 446799999999975 46799999753
No 85
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.85 E-value=0.068 Score=51.19 Aligned_cols=43 Identities=30% Similarity=0.739 Sum_probs=30.4
Q ss_pred CCCcccccccccccCCceEEeCCCCcc-cHHHHHHHHhcCCCccccCcCcC
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHMF-HLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~F-H~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
.+.-|.||++. +-+...|+|||.- |.+|= +.-+.||+||+.|.
T Consensus 299 ~~~LC~ICmDa---P~DCvfLeCGHmVtCt~CG----krm~eCPICRqyi~ 342 (350)
T KOG4275|consen 299 TRRLCAICMDA---PRDCVFLECGHMVTCTKCG----KRMNECPICRQYIV 342 (350)
T ss_pred HHHHHHHHhcC---CcceEEeecCcEEeehhhc----cccccCchHHHHHH
Confidence 37889999876 4445889999964 34442 22358999998663
No 86
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=88.28 E-value=0.38 Score=51.78 Aligned_cols=51 Identities=22% Similarity=0.661 Sum_probs=39.8
Q ss_pred CCCCCcccccccccccCCceEEeCCC-----CcccHHHHHHHHhc--CCCccccCcCcC
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPCS-----HMFHLKCVDQWLRI--LSCCPLCKQELE 335 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC~-----H~FH~~CI~~WL~~--~~tCPlCR~~I~ 335 (336)
.+++..|-||..+=..++++- =||+ ...|++|+-+|+.- ...|-+|+.+++
T Consensus 9 N~d~~~CRICr~e~~~d~pLf-hPCKC~GSIkYiH~eCL~eW~~~s~~~kCdiChy~~~ 66 (1175)
T COG5183 9 NEDKRSCRICRTEDIRDDPLF-HPCKCSGSIKYIHRECLMEWMECSGTKKCDICHYEYK 66 (1175)
T ss_pred CccchhceeecCCCCCCCcCc-ccccccchhHHHHHHHHHHHHhcCCCcceeeecceee
Confidence 456789999998877776654 4664 57899999999975 456999998764
No 87
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=87.31 E-value=0.3 Score=53.08 Aligned_cols=36 Identities=25% Similarity=0.530 Sum_probs=29.1
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHH
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWL 321 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL 321 (336)
+.+.+|.+|...+... .-.+-||+|.||++||.+-.
T Consensus 815 ep~d~C~~C~~~ll~~-pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 815 EPQDSCDHCGRPLLIK-PFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred cCccchHHhcchhhcC-cceeeeccchHHHHHHHHHH
Confidence 4567899999887665 55678999999999997653
No 88
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=86.73 E-value=0.4 Score=46.48 Aligned_cols=45 Identities=18% Similarity=0.570 Sum_probs=36.0
Q ss_pred CCCCCcccccccccccCCceEEeCC--CCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 284 ANEDPECCICLAKYKEKEEVRKLPC--SHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~vr~LPC--~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
..+-.+|+||.+.+..+ ...| ||.-|..|-. +....||.||.++-
T Consensus 45 ~~~lleCPvC~~~l~~P----i~QC~nGHlaCssC~~---~~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPP----IFQCDNGHLACSSCRT---KVSNKCPTCRLPIG 91 (299)
T ss_pred chhhccCchhhccCccc----ceecCCCcEehhhhhh---hhcccCCccccccc
Confidence 34557999999999987 4558 7999998865 56788999998863
No 89
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.52 E-value=0.34 Score=50.64 Aligned_cols=47 Identities=34% Similarity=0.857 Sum_probs=39.2
Q ss_pred CCCCCCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCc
Q 019720 281 SAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 281 ~~~~~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
+...+....|.||+.+. ..+..+|. |..|..+|+..+..||+|+..+
T Consensus 473 ~~l~~~~~~~~~~~~~~----~~~~~~~~---~~~~l~~~~~~~~~~pl~~~~~ 519 (543)
T KOG0802|consen 473 SQLREPNDVCAICYQEM----SARITPCS---HALCLRKWLYVQEVCPLCHTYM 519 (543)
T ss_pred hhhhcccCcchHHHHHH----Hhcccccc---chhHHHhhhhhccccCCCchhh
Confidence 34456678999999997 44777898 9999999999999999998754
No 90
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=86.41 E-value=0.47 Score=46.46 Aligned_cols=51 Identities=18% Similarity=0.540 Sum_probs=35.3
Q ss_pred CCCCcccccccccccCCc-eEEeCCCCcccHHHHHHHH-hcCCCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKEE-VRKLPCSHMFHLKCVDQWL-RILSCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~-vr~LPC~H~FH~~CI~~WL-~~~~tCPlCR~~I~ 335 (336)
.|++-|+.|+++++..|+ ..--|||-..|+-|-..-- ..|..||-||+..+
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~ 64 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYD 64 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhcc
Confidence 345569999999988765 3334578777777744322 24789999998643
No 91
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=86.33 E-value=0.88 Score=32.99 Aligned_cols=44 Identities=25% Similarity=0.666 Sum_probs=34.4
Q ss_pred CCCcccccccccccCCceEEeC-CCCcccHHHHHHHHhcCCCccc--cCcC
Q 019720 286 EDPECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLRILSCCPL--CKQE 333 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LP-C~H~FH~~CI~~WL~~~~tCPl--CR~~ 333 (336)
+...|.+|-+.|.+++.+.+=| |+-.+|++|-++ ...|-. |..+
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~----~g~C~~~~c~~~ 50 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK----AGGCINYSCGTG 50 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHhh----CCceEeccCCCC
Confidence 4567999999999888888888 999999999654 455544 5543
No 92
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.75 E-value=0.41 Score=45.17 Aligned_cols=50 Identities=26% Similarity=0.712 Sum_probs=35.0
Q ss_pred CCCCCcccccccccccCCce-EEeCC-----CCcccHHHHHHHHhcC--------CCccccCcC
Q 019720 284 ANEDPECCICLAKYKEKEEV-RKLPC-----SHMFHLKCVDQWLRIL--------SCCPLCKQE 333 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~~~v-r~LPC-----~H~FH~~CI~~WL~~~--------~tCPlCR~~ 333 (336)
.+.+..|-||+..=+|+..- =+=|| +|--|..|+..|...+ -+||-|+.+
T Consensus 17 ~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~~~n~~q~V~C~QCqTE 80 (293)
T KOG3053|consen 17 QELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQRGNPLQTVSCPQCQTE 80 (293)
T ss_pred cccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHhcCCCCceeechhhcch
Confidence 34566788999885554211 13466 4999999999998543 249999864
No 93
>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=85.69 E-value=0.3 Score=34.43 Aligned_cols=30 Identities=30% Similarity=0.784 Sum_probs=22.8
Q ss_pred eCC-CCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 306 LPC-SHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 306 LPC-~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
..| .|..+..|+..-|.+...||+|+++++
T Consensus 16 i~C~dHYLCl~CLt~ml~~s~~C~iC~~~LP 46 (50)
T PF03854_consen 16 IKCSDHYLCLNCLTLMLSRSDRCPICGKPLP 46 (50)
T ss_dssp EE-SS-EEEHHHHHHT-SSSSEETTTTEE--
T ss_pred eeecchhHHHHHHHHHhccccCCCcccCcCc
Confidence 448 599999999999999999999999875
No 94
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=85.13 E-value=0.51 Score=50.51 Aligned_cols=40 Identities=28% Similarity=0.655 Sum_probs=28.0
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccc
Q 019720 289 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPL 329 (336)
Q Consensus 289 ~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPl 329 (336)
.|+||--..... ......|+|+-|.+|...|+.+...||-
T Consensus 1030 ~C~~C~l~V~gs-s~~Cg~C~Hv~H~sc~~eWf~~gd~Cps 1069 (1081)
T KOG0309|consen 1030 QCAICHLAVRGS-SNFCGTCGHVGHTSCMMEWFRTGDVCPS 1069 (1081)
T ss_pred eeeeEeeEeecc-chhhccccccccHHHHHHHHhcCCcCCC
Confidence 355554443332 2223448999999999999999999984
No 95
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=84.01 E-value=0.27 Score=52.22 Aligned_cols=47 Identities=36% Similarity=0.751 Sum_probs=38.9
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC---CCccccCcCcC
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL---SCCPLCKQELE 335 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~---~tCPlCR~~I~ 335 (336)
-..+|.||+..|.++ ..+.|.|.|+..|+..-+... ..||+|+..++
T Consensus 20 k~lEc~ic~~~~~~p---~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~e 69 (684)
T KOG4362|consen 20 KILECPICLEHVKEP---SLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIE 69 (684)
T ss_pred hhccCCceeEEeecc---chhhhhHHHHhhhhhceeeccCccccchhhhhhhh
Confidence 356899999999998 567799999999998877543 46999997765
No 96
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=83.21 E-value=0.4 Score=54.03 Aligned_cols=45 Identities=31% Similarity=0.666 Sum_probs=37.9
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCc
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 332 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 332 (336)
+...|.||++.....- ...-|+|.++..|...|+..+..||.|+.
T Consensus 1152 ~~~~c~ic~dil~~~~--~I~~cgh~~c~~c~~~~l~~~s~~~~~ks 1196 (1394)
T KOG0298|consen 1152 GHFVCEICLDILRNQG--GIAGCGHEPCCRCDELWLYASSRCPICKS 1196 (1394)
T ss_pred cccchHHHHHHHHhcC--CeeeechhHhhhHHHHHHHHhccCcchhh
Confidence 3458999999988432 34559999999999999999999999985
No 97
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.51 E-value=2.2 Score=42.70 Aligned_cols=47 Identities=15% Similarity=0.301 Sum_probs=38.2
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcC---CCccccC
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL---SCCPLCK 331 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~---~tCPlCR 331 (336)
..-..|+|=-+.=.+...-..|.|||+..++-+++--+.. ..||.|=
T Consensus 332 HSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP 381 (394)
T KOG2817|consen 332 HSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCP 381 (394)
T ss_pred cceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCC
Confidence 3456899988887777777999999999999999987653 4699993
No 98
>KOG3005 consensus GIY-YIG type nuclease [General function prediction only]
Probab=74.80 E-value=2 Score=40.87 Aligned_cols=47 Identities=28% Similarity=0.555 Sum_probs=35.4
Q ss_pred CCcccccccccccCCceEEeC----CCCcccHHHHHHHHhc---------CCCccccCcC
Q 019720 287 DPECCICLAKYKEKEEVRKLP----CSHMFHLKCVDQWLRI---------LSCCPLCKQE 333 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LP----C~H~FH~~CI~~WL~~---------~~tCPlCR~~ 333 (336)
..+|-+|.+++.+.+..+..- |+-++|..|+..-+.. .+.||.|++-
T Consensus 182 ~~~celc~~ei~e~~~~~a~c~~~~c~~~~h~~CLa~~~~~~e~g~~~p~eg~cp~C~~~ 241 (276)
T KOG3005|consen 182 NVECELCEKEILETDWSRATCPNPDCDSLNHLTCLAEELLEVEPGQLIPLEGMCPKCEKF 241 (276)
T ss_pred chhhHHHHHHhccccceeccCCCCCCCchhhhhhhhHHHhccCCCceeccCCCCCchhce
Confidence 368999999996666555432 8899999999985432 3569999874
No 99
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=71.58 E-value=3 Score=35.75 Aligned_cols=46 Identities=30% Similarity=0.682 Sum_probs=34.1
Q ss_pred CCCcccccccccccCCceEEe-C---CCCcccHHHHHHHHh---cCCCccccCcCc
Q 019720 286 EDPECCICLAKYKEKEEVRKL-P---CSHMFHLKCVDQWLR---ILSCCPLCKQEL 334 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~L-P---C~H~FH~~CI~~WL~---~~~tCPlCR~~I 334 (336)
.-.+|.||.+.-.|. +-| | ||-..+-.|-..-++ .++.||+||...
T Consensus 79 ~lYeCnIC~etS~ee---~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSF 131 (140)
T PF05290_consen 79 KLYECNICKETSAEE---RFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSF 131 (140)
T ss_pred CceeccCcccccchh---hcCCcccccchHHHHHHHHHHHHHcccCCCCCcccccc
Confidence 457899999886665 333 3 798888888765544 468999999764
No 100
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.70 E-value=2.4 Score=38.93 Aligned_cols=38 Identities=32% Similarity=0.766 Sum_probs=27.5
Q ss_pred ccccccccccCCceEEeCCCC-cccHHHHHHHHhcCCCccccCcCc
Q 019720 290 CCICLAKYKEKEEVRKLPCSH-MFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~H-~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
|-.|-+. +..+..+||.| .+|..|=+. -.+||+|+...
T Consensus 161 Cr~C~~~---~~~VlllPCrHl~lC~~C~~~----~~~CPiC~~~~ 199 (207)
T KOG1100|consen 161 CRKCGER---EATVLLLPCRHLCLCGICDES----LRICPICRSPK 199 (207)
T ss_pred ceecCcC---CceEEeecccceEeccccccc----CccCCCCcChh
Confidence 7777644 66689999975 566777544 34699999764
No 101
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.51 E-value=3.1 Score=42.45 Aligned_cols=37 Identities=32% Similarity=0.697 Sum_probs=32.1
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI 323 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~ 323 (336)
..+.+|-||.+.+.. .+..+.|+|.|+..|....++.
T Consensus 68 ~~~~~c~ic~~~~~~--~~~~~~c~H~~c~~cw~~yl~~ 104 (444)
T KOG1815|consen 68 KGDVQCGICVESYDG--EIIGLGCGHPFCPPCWTGYLGT 104 (444)
T ss_pred CccccCCcccCCCcc--hhhhcCCCcHHHHHHHHHHhhh
Confidence 567899999999887 5677889999999999999865
No 102
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=67.23 E-value=4 Score=44.24 Aligned_cols=49 Identities=10% Similarity=0.180 Sum_probs=35.1
Q ss_pred CCCcccccccccccC-CceEEeC---CCCcccHHHHHHHHhc------CCCccccCcCc
Q 019720 286 EDPECCICLAKYKEK-EEVRKLP---CSHMFHLKCVDQWLRI------LSCCPLCKQEL 334 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~-~~vr~LP---C~H~FH~~CI~~WL~~------~~tCPlCR~~I 334 (336)
+...|.+|..++.++ |..-.+| |.|.||..||..|+.. +-.|++|+..|
T Consensus 95 ~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 95 ESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred cccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHh
Confidence 345677777776663 3344556 9999999999999743 34689998755
No 103
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=66.77 E-value=3 Score=40.20 Aligned_cols=27 Identities=22% Similarity=0.682 Sum_probs=21.7
Q ss_pred CCCcccHHHHHHHHh-------------cCCCccccCcCc
Q 019720 308 CSHMFHLKCVDQWLR-------------ILSCCPLCKQEL 334 (336)
Q Consensus 308 C~H~FH~~CI~~WL~-------------~~~tCPlCR~~I 334 (336)
|.-..|.+|+.+|+. .+.+||.||++.
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 567889999998863 356799999975
No 104
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=65.96 E-value=4 Score=37.20 Aligned_cols=41 Identities=29% Similarity=0.727 Sum_probs=28.0
Q ss_pred CCcccccccc-----cccCCceEEeCCCCcccHHHHHHHHhcCCCccccCc
Q 019720 287 DPECCICLAK-----YKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 332 (336)
Q Consensus 287 ~~~C~ICL~~-----f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 332 (336)
...|-+|-++ |+.+...+--.|+-+||++|..+ ..||-|.+
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-----~~CpkC~R 197 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-----KSCPKCAR 197 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-----CCCCCcHh
Confidence 4578888652 33333333334999999999773 67999964
No 105
>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=65.70 E-value=6 Score=25.04 Aligned_cols=37 Identities=24% Similarity=0.529 Sum_probs=25.7
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 290 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
|..|-+.+.+++.... .=+..||.+| ..|..|+.++.
T Consensus 2 C~~C~~~i~~~~~~~~-~~~~~~H~~C--------f~C~~C~~~L~ 38 (39)
T smart00132 2 CAGCGKPIRGGELVLR-ALGKVWHPEC--------FKCSKCGKPLG 38 (39)
T ss_pred ccccCCcccCCcEEEE-eCCccccccC--------CCCcccCCcCc
Confidence 7778888777633322 2478999888 56888887764
No 106
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.04 E-value=2.5 Score=42.41 Aligned_cols=38 Identities=32% Similarity=0.679 Sum_probs=28.4
Q ss_pred CCCcccccccccccC-CceEEeCCCCcccHHHHHHHHhc
Q 019720 286 EDPECCICLAKYKEK-EEVRKLPCSHMFHLKCVDQWLRI 323 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~-~~vr~LPC~H~FH~~CI~~WL~~ 323 (336)
...+|.||..+...+ +....+-|+|.|+.+|+.+-+..
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev 183 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV 183 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh
Confidence 456899999555444 33345569999999999988764
No 107
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=63.63 E-value=3 Score=45.07 Aligned_cols=46 Identities=20% Similarity=0.459 Sum_probs=33.8
Q ss_pred CCCCCcccccccccccC----CceEEeCCCCcccHHHHHHHHhcCCCcccc
Q 019720 284 ANEDPECCICLAKYKEK----EEVRKLPCSHMFHLKCVDQWLRILSCCPLC 330 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~~~----~~vr~LPC~H~FH~~CI~~WL~~~~tCPlC 330 (336)
-..+..|+-|.+..... +.+.++.|+|.||++|+..-..+++ |-.|
T Consensus 781 v~~e~rc~~c~~~~l~~~~~~~~~~v~~c~h~yhk~c~~~~~~~~~-~~~~ 830 (846)
T KOG2066|consen 781 VSVEERCSSCFEPNLPSGAAFDSVVVFHCGHMYHKECLMMESLRNA-CNIE 830 (846)
T ss_pred EeehhhhhhhcccccccCcccceeeEEEccchhhhcccccHHHhcc-cChh
Confidence 34455899999876532 4577888999999999988876655 4433
No 108
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=62.87 E-value=6.3 Score=42.53 Aligned_cols=42 Identities=21% Similarity=0.394 Sum_probs=29.9
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccc
Q 019720 287 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPL 329 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPl 329 (336)
.+.|++|-..+..- .+-.=-|+|.-|.+|+.+|+..+.-||.
T Consensus 779 ~~~CtVC~~vi~G~-~~~c~~C~H~gH~sh~~sw~~~~s~ca~ 820 (839)
T KOG0269|consen 779 SAKCTVCDLVIRGV-DVWCQVCGHGGHDSHLKSWFFKASPCAK 820 (839)
T ss_pred hcCceeecceeeee-EeecccccccccHHHHHHHHhcCCCCcc
Confidence 35788886554332 1111129999999999999999888876
No 109
>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=61.54 E-value=2.5 Score=29.91 Aligned_cols=42 Identities=21% Similarity=0.551 Sum_probs=20.6
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHhcCC-----CccccCcC
Q 019720 289 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILS-----CCPLCKQE 333 (336)
Q Consensus 289 ~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~-----tCPlCR~~ 333 (336)
.|+|....++.+ +|-..|.|.-+ -=++.||+.+. .||+|.++
T Consensus 4 ~CPls~~~i~~P--~Rg~~C~H~~C-FDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 4 RCPLSFQRIRIP--VRGKNCKHLQC-FDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp B-TTTSSB-SSE--EEETT--SS---EEHHHHHHHHHHS---B-TTT---
T ss_pred eCCCCCCEEEeC--ccCCcCcccce-ECHHHHHHHhhccCCeECcCCcCc
Confidence 588888777665 56667998832 11345665432 59999874
No 110
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=61.26 E-value=4.1 Score=37.57 Aligned_cols=43 Identities=23% Similarity=0.634 Sum_probs=35.6
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCcccc
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLC 330 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlC 330 (336)
.-..|.+|.+-.-.| ++-=.|+-.+|..|+...+.....||.|
T Consensus 180 nlk~Cn~Ch~LvIqg--~rCg~c~i~~h~~c~qty~q~~~~cphc 222 (235)
T KOG4718|consen 180 NLKNCNLCHCLVIQG--IRCGSCNIQYHRGCIQTYLQRRDICPHC 222 (235)
T ss_pred HHHHHhHhHHHhhee--eccCcccchhhhHHHHHHhcccCcCCch
Confidence 456899999877666 3434588899999999999999999999
No 111
>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=60.04 E-value=7.4 Score=27.89 Aligned_cols=41 Identities=24% Similarity=0.728 Sum_probs=21.3
Q ss_pred ccccccccccCC------ceEEeC-CCCcccHHHHHHHHhcC-CCccccC
Q 019720 290 CCICLAKYKEKE------EVRKLP-CSHMFHLKCVDQWLRIL-SCCPLCK 331 (336)
Q Consensus 290 C~ICL~~f~~~~------~vr~LP-C~H~FH~~CI~~WL~~~-~tCPlCR 331 (336)
|--|+..+.++. ....=| |+++|+.+| |...... -.||-|.
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 556777777653 233344 899999999 5554433 5799884
No 112
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=54.35 E-value=4.4 Score=42.73 Aligned_cols=43 Identities=28% Similarity=0.762 Sum_probs=26.6
Q ss_pred CCCccccccc-----ccccCCceEEeCCCCcccHHHHHHHHhcCCCccccC
Q 019720 286 EDPECCICLA-----KYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCK 331 (336)
Q Consensus 286 ~~~~C~ICL~-----~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR 331 (336)
....|-+|-. .|+.....+-.-|+++||..|... .+..||.|-
T Consensus 510 ~gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r---~s~~CPrC~ 557 (580)
T KOG1829|consen 510 KGFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRR---KSPCCPRCE 557 (580)
T ss_pred CeeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhc---cCCCCCchH
Confidence 3456778822 233222344455999999999654 334499994
No 113
>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 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=48.89 E-value=5.4 Score=28.38 Aligned_cols=11 Identities=55% Similarity=1.606 Sum_probs=5.8
Q ss_pred CCccccCcCcC
Q 019720 325 SCCPLCKQELE 335 (336)
Q Consensus 325 ~tCPlCR~~I~ 335 (336)
..||+|.++++
T Consensus 21 ~~CPlC~r~l~ 31 (54)
T PF04423_consen 21 GCCPLCGRPLD 31 (54)
T ss_dssp EE-TTT--EE-
T ss_pred CcCCCCCCCCC
Confidence 48999999875
No 115
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.60 E-value=8.5 Score=38.64 Aligned_cols=45 Identities=22% Similarity=0.451 Sum_probs=33.3
Q ss_pred CCcccccccccccCCceEEeC--CCCcccHHHHHHHHhcCCCccccC
Q 019720 287 DPECCICLAKYKEKEEVRKLP--CSHMFHLKCVDQWLRILSCCPLCK 331 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LP--C~H~FH~~CI~~WL~~~~tCPlCR 331 (336)
-..|+.|.-.++..+....+. |+|.|+..|-..|...+..|..|-
T Consensus 306 wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~~~~~~~~~~~ 352 (384)
T KOG1812|consen 306 WRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWKTHNGECYECC 352 (384)
T ss_pred cCcCcccceeeeecCCcceEEeeccccchhhcCcchhhCCccccCcc
Confidence 456888887776655433333 799999999999998888776553
No 116
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.68 E-value=8.6 Score=40.93 Aligned_cols=35 Identities=26% Similarity=0.390 Sum_probs=26.0
Q ss_pred CCCcccccccccccCCce-EEeCCCCcccHHHHHHH
Q 019720 286 EDPECCICLAKYKEKEEV-RKLPCSHMFHLKCVDQW 320 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~v-r~LPC~H~FH~~CI~~W 320 (336)
+-..|.||+..|....-. +-|-|+|..|..|+..-
T Consensus 10 ~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l 45 (861)
T KOG3161|consen 10 LLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL 45 (861)
T ss_pred HHhhchHHHHHHHHHhcCcccccccchHHHHHHHhH
Confidence 456799999988776321 33449999999999873
No 117
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.66 E-value=22 Score=33.67 Aligned_cols=34 Identities=12% Similarity=0.277 Sum_probs=29.4
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHH
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWL 321 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL 321 (336)
.+-..|+.||..+.++ ...|=||+|.++||-+.+
T Consensus 41 K~FdcCsLtLqPc~dP---vit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 41 KPFDCCSLTLQPCRDP---VITPDGYLFDREAILEYI 74 (303)
T ss_pred CCcceeeeecccccCC---ccCCCCeeeeHHHHHHHH
Confidence 4557899999999998 677789999999998875
No 118
>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=40.66 E-value=3 Score=31.88 Aligned_cols=40 Identities=25% Similarity=0.502 Sum_probs=20.8
Q ss_pred CcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 288 PECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 288 ~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
..|+.|..+++... +|.++..|-.. ++..+.||-|.++++
T Consensus 2 ~~CP~C~~~L~~~~-------~~~~C~~C~~~-~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 2 NTCPKCQQELEWQG-------GHYHCEACQKD-YKKEAFCPDCGQPLE 41 (70)
T ss_dssp -B-SSS-SBEEEET-------TEEEETTT--E-EEEEEE-TTT-SB-E
T ss_pred CcCCCCCCccEEeC-------CEEECcccccc-ceecccCCCcccHHH
Confidence 46888887765543 45555556443 455678999988775
No 119
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.55 E-value=4.9 Score=34.59 Aligned_cols=52 Identities=27% Similarity=0.563 Sum_probs=29.7
Q ss_pred CCCCCCCccccccc-ccccCCceEEeCCCCcccHHHHHHH-HhcCC---CccccCcC
Q 019720 282 APANEDPECCICLA-KYKEKEEVRKLPCSHMFHLKCVDQW-LRILS---CCPLCKQE 333 (336)
Q Consensus 282 ~~~~~~~~C~ICL~-~f~~~~~vr~LPC~H~FH~~CI~~W-L~~~~---tCPlCR~~ 333 (336)
....+|+.|.||+. .|.||-.-.--.|.-.||..|=.+- |+.|. .|-+|++.
T Consensus 60 aGv~ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cccCcCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 45578999999995 5777722222223344555554433 33333 38888764
No 120
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=39.35 E-value=25 Score=34.50 Aligned_cols=51 Identities=27% Similarity=0.613 Sum_probs=35.0
Q ss_pred CCCCCcccccccccc---------------cCC-ceEEeCCCCcccHHHHHHHHhc---------CCCccccCcCc
Q 019720 284 ANEDPECCICLAKYK---------------EKE-EVRKLPCSHMFHLKCVDQWLRI---------LSCCPLCKQEL 334 (336)
Q Consensus 284 ~~~~~~C~ICL~~f~---------------~~~-~vr~LPC~H~FH~~CI~~WL~~---------~~tCPlCR~~I 334 (336)
...+.+|++|+..=. .|. .-.--||+|+--.+-..-|-++ ++.||.|-..+
T Consensus 338 g~~~r~CPmC~~~gp~V~L~lG~E~~f~vD~G~pthaF~PCGHv~sekt~~YWs~iplPhGT~~f~a~CPFC~~~L 413 (429)
T KOG3842|consen 338 GQRERECPMCRVVGPYVPLWLGCEAGFYVDAGPPTHAFNPCGHVCSEKTVKYWSQIPLPHGTHAFHAACPFCATQL 413 (429)
T ss_pred CcccCcCCeeeeecceeeeeccccceeEecCCCcccccCCcccccchhhhhHhhcCcCCCccccccccCcchhhhh
Confidence 445779999986411 010 1234579999988889999765 35699997654
No 121
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=39.15 E-value=21 Score=35.03 Aligned_cols=48 Identities=27% Similarity=0.565 Sum_probs=35.8
Q ss_pred CCcccccccccccCCceEEeC--CCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 287 DPECCICLAKYKEKEEVRKLP--CSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LP--C~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
...|+||-+.....+. -.+| |+|.-|..|...=...+.+||.||++..
T Consensus 249 ~~s~p~~~~~~~~~d~-~~lP~~~~~~~~l~~~~t~~~~~~~~~~~rk~~~ 298 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDS-NFLPCPCGFRLCLFCHKTISDGDGRCPGCRKPYE 298 (327)
T ss_pred CCCCCCCCCccccccc-ccccccccccchhhhhhcccccCCCCCccCCccc
Confidence 3689999988744433 3466 6777788887777777899999998653
No 122
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=38.77 E-value=15 Score=24.18 Aligned_cols=25 Identities=44% Similarity=0.841 Sum_probs=15.9
Q ss_pred cccccccccccCCc--------eEEeCCCCccc
Q 019720 289 ECCICLAKYKEKEE--------VRKLPCSHMFH 313 (336)
Q Consensus 289 ~C~ICL~~f~~~~~--------vr~LPC~H~FH 313 (336)
+|+=|...|+.+|+ ++--.|+|.|+
T Consensus 4 ~Cp~C~~~y~i~d~~ip~~g~~v~C~~C~~~f~ 36 (36)
T PF13717_consen 4 TCPNCQAKYEIDDEKIPPKGRKVRCSKCGHVFF 36 (36)
T ss_pred ECCCCCCEEeCCHHHCCCCCcEEECCCCCCEeC
Confidence 68888888877664 22223667664
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=37.23 E-value=13 Score=25.51 Aligned_cols=43 Identities=21% Similarity=0.519 Sum_probs=27.3
Q ss_pred ccccccccccCCceEEeCCCCcccHHHHHHHHh------cCCCccccCc
Q 019720 290 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR------ILSCCPLCKQ 332 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~------~~~tCPlCR~ 332 (336)
|.||...-.+++-+.=-.|+..||..|++.=.+ ..-.||.|+.
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 788988444443333223899999999965432 1346888864
No 124
>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=36.15 E-value=30 Score=24.08 Aligned_cols=26 Identities=23% Similarity=0.437 Sum_probs=11.5
Q ss_pred ccccccccccCCceEEeCCCCcccHHH
Q 019720 290 CCICLAKYKEKEEVRKLPCSHMFHLKC 316 (336)
Q Consensus 290 C~ICL~~f~~~~~vr~LPC~H~FH~~C 316 (336)
|.-|-..+.+++.+. ..-+..||.+|
T Consensus 1 C~~C~~~I~~~~~~~-~~~~~~~H~~C 26 (58)
T PF00412_consen 1 CARCGKPIYGTEIVI-KAMGKFWHPEC 26 (58)
T ss_dssp BTTTSSBESSSSEEE-EETTEEEETTT
T ss_pred CCCCCCCccCcEEEE-EeCCcEEEccc
Confidence 444555554433221 12455555555
No 125
>PF14169 YdjO: Cold-inducible protein YdjO
Probab=36.09 E-value=17 Score=26.86 Aligned_cols=12 Identities=42% Similarity=0.999 Sum_probs=9.3
Q ss_pred CCCccccCcCcC
Q 019720 324 LSCCPLCKQELE 335 (336)
Q Consensus 324 ~~tCPlCR~~I~ 335 (336)
..+||+|+.+..
T Consensus 39 ~p~CPlC~s~M~ 50 (59)
T PF14169_consen 39 EPVCPLCKSPMV 50 (59)
T ss_pred CccCCCcCCccc
Confidence 367999998764
No 126
>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=35.94 E-value=25 Score=22.45 Aligned_cols=11 Identities=27% Similarity=0.733 Sum_probs=7.3
Q ss_pred cCCCccccCcC
Q 019720 323 ILSCCPLCKQE 333 (336)
Q Consensus 323 ~~~tCPlCR~~ 333 (336)
....||.|..+
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 34578888653
No 127
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=35.27 E-value=50 Score=26.52 Aligned_cols=33 Identities=24% Similarity=0.460 Sum_probs=23.2
Q ss_pred CCCcccccccccccCCceEEeC--CCCcccHHHHHHH
Q 019720 286 EDPECCICLAKYKEKEEVRKLP--CSHMFHLKCVDQW 320 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LP--C~H~FH~~CI~~W 320 (336)
....|.||... .|..+.--. |...||..|..+.
T Consensus 54 ~~~~C~iC~~~--~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKS--GGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCC--CceeEEcCCCCCCcCCCHHHHHHC
Confidence 45689999987 553333222 7789999998764
No 128
>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=33.83 E-value=14 Score=37.26 Aligned_cols=50 Identities=24% Similarity=0.586 Sum_probs=0.0
Q ss_pred CCCcccccccccc--------------cC--CceEEeCCCCcccHHHHHHHHhc---------CCCccccCcCcC
Q 019720 286 EDPECCICLAKYK--------------EK--EEVRKLPCSHMFHLKCVDQWLRI---------LSCCPLCKQELE 335 (336)
Q Consensus 286 ~~~~C~ICL~~f~--------------~~--~~vr~LPC~H~FH~~CI~~WL~~---------~~tCPlCR~~I~ 335 (336)
.+.+|++|+..-. |. -...--||||+--.+...-|-++ ++.||.|-.+++
T Consensus 327 ~~r~CPlCr~~g~~V~L~mG~E~afyvD~~~pthaF~PCGHv~SekTa~yWs~i~lPhGt~~f~a~CPFCa~~L~ 401 (416)
T PF04710_consen 327 RSRTCPLCRQVGPYVPLWMGCEPAFYVDSGPPTHAFNPCGHVCSEKTAKYWSQIPLPHGTHAFHAACPFCATPLD 401 (416)
T ss_dssp ---------------------------------------------------------------------------
T ss_pred ccccCCCccccCCceeEeeccccceeecCCCCceeecccccccchhhhhhhhcCCCCCCcccccccCCcccCccc
Confidence 3789999995421 10 12345679999999999999654 256999987764
No 129
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.12 E-value=40 Score=32.13 Aligned_cols=49 Identities=14% Similarity=0.257 Sum_probs=34.9
Q ss_pred CCCCcccccccccccCCce-EEeCCCCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 285 NEDPECCICLAKYKEKEEV-RKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~v-r~LPC~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
.....|+|---++...... ...+|||+|-..-+.+- ...+|++|..+.+
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei--kas~C~~C~a~y~ 158 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI--KASVCHVCGAAYQ 158 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh--hhccccccCCccc
Confidence 3456899888777766443 34459999987776652 3578999988764
No 130
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.37 E-value=93 Score=31.03 Aligned_cols=30 Identities=17% Similarity=0.182 Sum_probs=18.6
Q ss_pred cchhhhhHHHHhHHHHHhhheeeeeeecccc
Q 019720 117 PMRIWIVGYDIGCLLSLLLLYGRYRQLYASQ 147 (336)
Q Consensus 117 PL~~WIigY~~~c~l~l~l~~~~yr~~~~~~ 147 (336)
|+..|++|..+ .++++.+++...|-++-++
T Consensus 187 ~~~~~vl~~~f-vl~tlaivLFPLWP~~mR~ 216 (372)
T KOG2927|consen 187 PLMWQVLGVLF-VLVTLAIVLFPLWPRRMRQ 216 (372)
T ss_pred chhHHHHHHHH-HHHHHHHHhcccCcHHHhc
Confidence 66777776555 5566666666666555443
No 131
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.32 E-value=26 Score=33.90 Aligned_cols=36 Identities=19% Similarity=0.547 Sum_probs=29.3
Q ss_pred CCCcccccccccccCCceEEeCC----CCcccHHHHHHHHhcC
Q 019720 286 EDPECCICLAKYKEKEEVRKLPC----SHMFHLKCVDQWLRIL 324 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC----~H~FH~~CI~~WL~~~ 324 (336)
....|.+|.+.++|. .-..| .|.||-.|-++-+|.+
T Consensus 267 apLcCTLC~ERLEDT---HFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 267 APLCCTLCHERLEDT---HFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred CceeehhhhhhhccC---ceeecCCCcccceecccCHHHHHhh
Confidence 346899999999987 44457 7999999999988764
No 132
>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=31.19 E-value=32 Score=21.29 Aligned_cols=29 Identities=21% Similarity=0.332 Sum_probs=10.8
Q ss_pred cccccccccccCCceEEeCCCCcccHHHH
Q 019720 289 ECCICLAKYKEKEEVRKLPCSHMFHLKCV 317 (336)
Q Consensus 289 ~C~ICL~~f~~~~~vr~LPC~H~FH~~CI 317 (336)
.|.+|-.....+...+-..|.-.+|.+|+
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 57888877666444455558999999986
No 133
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=29.71 E-value=62 Score=25.31 Aligned_cols=50 Identities=22% Similarity=0.353 Sum_probs=21.1
Q ss_pred CCCCcccccccccccCCc--eEEe--CCCCcccHHHHHHHHhc-CCCccccCcCc
Q 019720 285 NEDPECCICLAKYKEKEE--VRKL--PCSHMFHLKCVDQWLRI-LSCCPLCKQEL 334 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~--vr~L--PC~H~FH~~CI~~WL~~-~~tCPlCR~~I 334 (336)
.....|.||-++....+. +-+. -|+--.++.|.+-=.+. ++.||-||.+.
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~y 61 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRY 61 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B-
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCc
Confidence 356689999988755332 2222 27778899998876654 68999999754
No 134
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=29.60 E-value=37 Score=33.32 Aligned_cols=46 Identities=15% Similarity=0.267 Sum_probs=34.0
Q ss_pred CCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc---CCCccccC
Q 019720 286 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI---LSCCPLCK 331 (336)
Q Consensus 286 ~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~---~~tCPlCR 331 (336)
.-..|++=-+.-.+...-..|.|||+.-.+-+++--+. ...||.|-
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP 383 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCP 383 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCC
Confidence 34578876666666666678899999999999886543 24599994
No 135
>PLN02189 cellulose synthase
Probab=29.12 E-value=58 Score=36.88 Aligned_cols=50 Identities=20% Similarity=0.321 Sum_probs=33.9
Q ss_pred CCCCccccccccccc---CCceEEeC-CCCcccHHHHHHHHh-cCCCccccCcCc
Q 019720 285 NEDPECCICLAKYKE---KEEVRKLP-CSHMFHLKCVDQWLR-ILSCCPLCKQEL 334 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~---~~~vr~LP-C~H~FH~~CI~~WL~-~~~tCPlCR~~I 334 (336)
.....|.||-++... |+.-..-. |+---|+.|.+-=-+ .+++||-||..-
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y 86 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRY 86 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 345589999999763 33332222 667789999854333 378999999764
No 136
>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=29.10 E-value=82 Score=23.08 Aligned_cols=43 Identities=26% Similarity=0.588 Sum_probs=30.5
Q ss_pred cccccccccccCCceEEeCC--CCcccHHHHHHHHhcCCCccccCcCc
Q 019720 289 ECCICLAKYKEKEEVRKLPC--SHMFHLKCVDQWLRILSCCPLCKQEL 334 (336)
Q Consensus 289 ~C~ICL~~f~~~~~vr~LPC--~H~FH~~CI~~WL~~~~tCPlCR~~I 334 (336)
.|-.|-.++..+..-..+ | ...|+.+|.+.-| +..||.|--.+
T Consensus 7 nCE~C~~dLp~~s~~A~I-CSfECTFC~~C~e~~l--~~~CPNCgGel 51 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYI-CSFECTFCADCAETML--NGVCPNCGGEL 51 (57)
T ss_pred CccccCCCCCCCCCcceE-EeEeCcccHHHHHHHh--cCcCcCCCCcc
Confidence 466677777666522222 6 4789999999966 78899997655
No 137
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=29.09 E-value=11 Score=36.53 Aligned_cols=36 Identities=25% Similarity=0.520 Sum_probs=30.9
Q ss_pred cccccccccccCCceEEeCCCCcccHHHHHHHHhcC
Q 019720 289 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRIL 324 (336)
Q Consensus 289 ~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~ 324 (336)
+|.+|.++|+.+.......|.-+||..|+-.|++..
T Consensus 216 vC~~CF~el~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (288)
T KOG1729|consen 216 VCDICFEELEKGARGDREDSLPVFHGKCYPNWLTTG 251 (288)
T ss_pred ecHHHHHHHhcccccchhhccccccccccccccccc
Confidence 899999999876666667777799999999999764
No 138
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.70 E-value=73 Score=26.57 Aligned_cols=46 Identities=22% Similarity=0.472 Sum_probs=31.3
Q ss_pred CCcccccccccccCCc----------eE-EeCCCCcccHHHHHHHHhcCCCccccCc
Q 019720 287 DPECCICLAKYKEKEE----------VR-KLPCSHMFHLKCVDQWLRILSCCPLCKQ 332 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~----------vr-~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 332 (336)
...|--|+..|.++.. .. --.|+++|+.+|=.-+-+.=-.||-|..
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 3569999998875411 11 2238999999995555455567999963
No 139
>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=27.59 E-value=37 Score=25.68 Aligned_cols=12 Identities=33% Similarity=0.971 Sum_probs=8.7
Q ss_pred cccHHHHHHHHh
Q 019720 311 MFHLKCVDQWLR 322 (336)
Q Consensus 311 ~FH~~CI~~WL~ 322 (336)
-||+.|+.+|..
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 140
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=27.50 E-value=32 Score=33.65 Aligned_cols=42 Identities=24% Similarity=0.583 Sum_probs=27.9
Q ss_pred CCCccccccccc-------ccCCceEEeCCCCcccHHHHHHHHhcCCCccccCc
Q 019720 286 EDPECCICLAKY-------KEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 332 (336)
Q Consensus 286 ~~~~C~ICL~~f-------~~~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 332 (336)
....|++|-..= ...+..|.|-|+ -|=.+|--....||.|-.
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~Cs-----lC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCN-----LCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcC-----CCCCcccccCccCCCCCC
Confidence 467899997651 122334555554 477788777888999964
No 141
>PRK05978 hypothetical protein; Provisional
Probab=27.28 E-value=31 Score=30.15 Aligned_cols=22 Identities=18% Similarity=0.715 Sum_probs=17.9
Q ss_pred CCcccHHHHHHHHhcCCCccccCcCcC
Q 019720 309 SHMFHLKCVDQWLRILSCCPLCKQELE 335 (336)
Q Consensus 309 ~H~FH~~CI~~WL~~~~tCPlCR~~I~ 335 (336)
+|.|+ .+||.+.+||.|-.+++
T Consensus 42 G~LF~-----g~Lkv~~~C~~CG~~~~ 63 (148)
T PRK05978 42 GKLFR-----AFLKPVDHCAACGEDFT 63 (148)
T ss_pred Ccccc-----cccccCCCccccCCccc
Confidence 47775 88999999999987653
No 142
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=27.06 E-value=63 Score=31.91 Aligned_cols=48 Identities=27% Similarity=0.638 Sum_probs=34.5
Q ss_pred CCCCcccccccccccCCceEEeCCCCcccHHHHHHHHhc-CCCccccCcC
Q 019720 285 NEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRI-LSCCPLCKQE 333 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~-~~tCPlCR~~ 333 (336)
..+..|-.|..+...+...+-=.|.|+||.+| |..+.. --.||-|...
T Consensus 328 ~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldC-Dv~iHesLh~CpgCeh~ 376 (378)
T KOG2807|consen 328 NGSRFCFACQGELLSSGRYRCESCKNVFCLDC-DVFIHESLHNCPGCEHK 376 (378)
T ss_pred CCCcceeeeccccCCCCcEEchhccceeeccc-hHHHHhhhhcCCCcCCC
Confidence 34555999977777766666555999999999 555443 3579999754
No 143
>KOG2071 consensus mRNA cleavage and polyadenylation factor I/II complex, subunit Pcf11 [RNA processing and modification]
Probab=26.79 E-value=31 Score=36.37 Aligned_cols=35 Identities=29% Similarity=0.643 Sum_probs=25.0
Q ss_pred CCCCcccccccccccC-----------CceEEeCCCCcccHHHHHHH
Q 019720 285 NEDPECCICLAKYKEK-----------EEVRKLPCSHMFHLKCVDQW 320 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~-----------~~vr~LPC~H~FH~~CI~~W 320 (336)
+....|.||.++|++- +.+. +-=|-+||..|+.+-
T Consensus 511 e~~~~C~IC~EkFe~v~d~e~~~Wm~kdaV~-le~G~ifH~~Cl~e~ 556 (579)
T KOG2071|consen 511 ERQASCPICQEKFEVVFDQEEDLWMYKDAVY-LEFGRIFHSKCLSEK 556 (579)
T ss_pred ccccCCcccccccceeecchhhheeecceee-eccCceeeccccchH
Confidence 4567999999999751 1232 225889999999764
No 144
>PLN02436 cellulose synthase A
Probab=26.48 E-value=75 Score=36.13 Aligned_cols=50 Identities=22% Similarity=0.402 Sum_probs=33.6
Q ss_pred CCCCcccccccccc---cCCceEEeC-CCCcccHHHHHHHHh-cCCCccccCcCc
Q 019720 285 NEDPECCICLAKYK---EKEEVRKLP-CSHMFHLKCVDQWLR-ILSCCPLCKQEL 334 (336)
Q Consensus 285 ~~~~~C~ICL~~f~---~~~~vr~LP-C~H~FH~~CI~~WL~-~~~tCPlCR~~I 334 (336)
.....|.||-++.. +|+.-..-. |+---|+.|.+-=-+ .+++||-||..-
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y 88 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRY 88 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCch
Confidence 34568999999963 344322222 666689999954433 368999999764
No 145
>PF13239 2TM: 2TM domain
Probab=25.21 E-value=73 Score=24.48 Aligned_cols=40 Identities=23% Similarity=0.524 Sum_probs=25.0
Q ss_pred HHHhhhhhcccCCCCCCCcchhhhh-HHHHhHHHHHhhhee
Q 019720 99 ISIITFTLSISKKESPIWPMRIWIV-GYDIGCLLSLLLLYG 138 (336)
Q Consensus 99 Iv~~i~vL~ls~~E~p~~PL~~WIi-gY~~~c~l~l~l~~~ 138 (336)
+++.++...+.--..|..+-.+|++ |++++.++|..-++.
T Consensus 23 ~ivn~~l~~in~~~~~~~~W~~~~~~~Wgi~L~~h~~~vf~ 63 (83)
T PF13239_consen 23 LIVNSFLIFINLFTGPGYFWPLWPILGWGIGLAIHALKVFG 63 (83)
T ss_pred HHHHHHHHHHHHHcCCCCchHHHHHHHHHHHHHHHHHHHHc
Confidence 3333333333333455566666876 899999999987763
No 146
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=23.23 E-value=44 Score=31.51 Aligned_cols=40 Identities=20% Similarity=0.394 Sum_probs=30.7
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHhcCCC--cc
Q 019720 287 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSC--CP 328 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~~~~t--CP 328 (336)
+..|+|-+..+.-+ +.-..|+|.|-.+-|.+.|....+ ||
T Consensus 189 ~nrCpitl~p~~~p--ils~kcnh~~e~D~I~~~lq~~~trvcp 230 (275)
T COG5627 189 SNRCPITLNPDFYP--ILSSKCNHKPEMDLINKKLQVECTRVCP 230 (275)
T ss_pred cccCCcccCcchhH--HHHhhhcccccHHHHHHHhcCCceeecc
Confidence 56899999887776 222239999999999999986544 66
No 147
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=21.59 E-value=23 Score=23.95 Aligned_cols=11 Identities=36% Similarity=0.785 Sum_probs=7.5
Q ss_pred CCCccccCc-Cc
Q 019720 324 LSCCPLCKQ-EL 334 (336)
Q Consensus 324 ~~tCPlCR~-~I 334 (336)
...||.|.. .+
T Consensus 26 ~~~CP~Cg~~~~ 37 (42)
T PF09723_consen 26 PVPCPECGSTEV 37 (42)
T ss_pred CCcCCCCCCCce
Confidence 456888877 44
No 148
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=21.37 E-value=43 Score=24.52 Aligned_cols=35 Identities=26% Similarity=0.569 Sum_probs=18.3
Q ss_pred CCCCcccccccccccCCceEEeC---CCCcccHHHHHHHH
Q 019720 285 NEDPECCICLAKYKEKEEVRKLP---CSHMFHLKCVDQWL 321 (336)
Q Consensus 285 ~~~~~C~ICL~~f~~~~~vr~LP---C~H~FH~~CI~~WL 321 (336)
.+...|.+|..+|.--. +.-- ||++|+.+|.....
T Consensus 7 ~~~~~C~~C~~~F~~~~--rrhhCr~CG~~vC~~Cs~~~~ 44 (69)
T PF01363_consen 7 SEASNCMICGKKFSLFR--RRHHCRNCGRVVCSSCSSQRI 44 (69)
T ss_dssp GG-SB-TTT--B-BSSS---EEE-TTT--EEECCCS-EEE
T ss_pred CCCCcCcCcCCcCCCce--eeEccCCCCCEECCchhCCEE
Confidence 45678999999996532 3222 89999999987654
No 149
>PF13061 DUF3923: Protein of unknown function (DUF3923)
Probab=21.13 E-value=2.4e+02 Score=21.20 Aligned_cols=52 Identities=13% Similarity=0.233 Sum_probs=37.0
Q ss_pred cceEehHHHHHHHHHHHhhhhhcccCC--CCCCCc------chhhhhHHHHhHHHHHhhh
Q 019720 85 STWMTLELLALLVQISIITFTLSISKK--ESPIWP------MRIWIVGYDIGCLLSLLLL 136 (336)
Q Consensus 85 ~~~i~leli~~l~qIv~~i~vL~ls~~--E~p~~P------L~~WIigY~~~c~l~l~l~ 136 (336)
+.|.....++.+.++..++.+..-+-| +.-++| |-+|.+.|..-.+..+..+
T Consensus 2 k~w~i~ni~~lilf~~~a~~I~~R~vDgaGv~qT~~~k~itl~vl~i~~~~i~i~q~Iw~ 61 (66)
T PF13061_consen 2 KFWWIFNIIWLILFLIVAIFIWLRKVDGAGVVQTPELKLITLAVLGIFFIIILIIQLIWL 61 (66)
T ss_pred eEEEehHHHHHHHHHHHHHHheeeeccccccccCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468889999999999999999988766 333344 4566666666655555443
No 150
>COG4847 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.71 E-value=79 Score=25.67 Aligned_cols=35 Identities=17% Similarity=0.350 Sum_probs=29.6
Q ss_pred CCcccccccccccCCceEEeCCCCcccHHHHHHHHh
Q 019720 287 DPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLR 322 (336)
Q Consensus 287 ~~~C~ICL~~f~~~~~vr~LPC~H~FH~~CI~~WL~ 322 (336)
.-.|.||-.....|+...-.+ .-..|.+|+..=..
T Consensus 6 ewkC~VCg~~iieGqkFTF~~-kGsVH~eCl~~s~~ 40 (103)
T COG4847 6 EWKCYVCGGTIIEGQKFTFTK-KGSVHYECLAESKR 40 (103)
T ss_pred eeeEeeeCCEeeeccEEEEee-CCcchHHHHHHHHh
Confidence 457999999999999998888 77889999976543
No 151
>PF09237 GAGA: GAGA factor; InterPro: IPR015318 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Members of this entry bind to a 5'-GAGAG-3' DNA consensus binding site, and contain a Cys2-His2 zinc finger core as well as an N-terminal extension containing two highly basic regions. The zinc finger core binds in the DNA major groove and recognises the first three GAG bases of the consensus in a manner similar to that seen in other classical zinc finger-DNA complexes. The second basic region forms a helix that interacts in the major groove recognising the last G of the consensus, while the first basic region wraps around the DNA in the minor groove and recognises the A in the fourth position of the consensus sequence []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1YUI_A 1YUJ_A.
Probab=20.60 E-value=31 Score=24.85 Aligned_cols=12 Identities=33% Similarity=0.697 Sum_probs=4.0
Q ss_pred CCCCCccccccc
Q 019720 284 ANEDPECCICLA 295 (336)
Q Consensus 284 ~~~~~~C~ICL~ 295 (336)
++....|+||-.
T Consensus 21 S~~PatCP~C~a 32 (54)
T PF09237_consen 21 SEQPATCPICGA 32 (54)
T ss_dssp TS--EE-TTT--
T ss_pred cCCCCCCCcchh
Confidence 344556666643
No 152
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=20.39 E-value=50 Score=32.25 Aligned_cols=42 Identities=24% Similarity=0.650 Sum_probs=28.2
Q ss_pred CCCcccccccc-----ccc---CCceEEeCCCCcccHHHHHHHHhcCCCccccCc
Q 019720 286 EDPECCICLAK-----YKE---KEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 332 (336)
Q Consensus 286 ~~~~C~ICL~~-----f~~---~~~vr~LPC~H~FH~~CI~~WL~~~~tCPlCR~ 332 (336)
....|++|-+. ... .+..|.|-|+. |=.+|--....||.|-.
T Consensus 183 ~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~Csl-----C~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 183 SRTLCPACGSPPVASMVRQGGKETGLRYLSCSL-----CATEWHYVRVKCSHCEE 232 (305)
T ss_pred CCCcCCCCCChhhhhhhcccCCCCCceEEEcCC-----CCCcccccCccCCCCCC
Confidence 45689999765 222 23456666553 77788777888999965
No 153
>COG5524 Bacteriorhodopsin [General function prediction only]
Probab=20.14 E-value=4.4e+02 Score=25.54 Aligned_cols=24 Identities=17% Similarity=0.350 Sum_probs=18.9
Q ss_pred HHhHHHHHHHHHhhhccEEEEecc
Q 019720 174 CRTSLELFFAIWFVMGNVWVFDSR 197 (336)
Q Consensus 174 ~~~~l~~f~~iW~i~G~~wif~~~ 197 (336)
+..+.+++.++|+.+-.+|..+.+
T Consensus 193 F~~l~~~~vvLWl~YPivW~ig~~ 216 (285)
T COG5524 193 FLTLRNYTVVLWLGYPIVWLIGPG 216 (285)
T ss_pred HHHHHHHHHHHHHhccceeEEccc
Confidence 334557888999999999998764
Done!