Query 041693
Match_columns 156
No_of_seqs 206 out of 1189
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 09:42:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041693.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041693hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF15227 zf-C3HC4_4: zinc fing 99.6 4.7E-16 1E-20 87.3 3.4 42 52-100 1-42 (42)
2 TIGR00599 rad18 DNA repair pro 99.5 1.8E-14 3.8E-19 115.8 6.5 83 36-133 13-95 (397)
3 smart00504 Ubox Modified RING 99.5 2.9E-14 6.3E-19 86.8 4.3 61 49-124 1-61 (63)
4 PLN03208 E3 ubiquitin-protein 99.5 7.9E-14 1.7E-18 101.5 4.8 66 45-110 14-84 (193)
5 KOG0287 Postreplication repair 99.4 3.5E-14 7.6E-19 110.2 2.7 75 41-130 15-89 (442)
6 PF04564 U-box: U-box domain; 99.4 9.7E-14 2.1E-18 87.1 4.0 70 47-130 2-71 (73)
7 PF13923 zf-C3HC4_2: Zinc fing 99.3 4.2E-13 9.1E-18 74.1 1.9 38 52-100 1-39 (39)
8 PF14835 zf-RING_6: zf-RING of 99.3 3.1E-13 6.7E-18 81.1 1.2 61 46-123 4-65 (65)
9 KOG0823 Predicted E3 ubiquitin 99.3 6.8E-13 1.5E-17 98.4 2.8 58 47-112 45-102 (230)
10 COG5432 RAD18 RING-finger-cont 99.3 2.2E-12 4.7E-17 98.5 4.3 73 40-127 16-88 (391)
11 KOG0320 Predicted E3 ubiquitin 99.3 2E-12 4.3E-17 92.3 3.7 52 48-110 130-183 (187)
12 PF13920 zf-C3HC4_3: Zinc fing 99.3 3E-12 6.5E-17 74.5 2.3 46 49-105 2-48 (50)
13 KOG0317 Predicted E3 ubiquitin 99.2 6.4E-12 1.4E-16 95.9 3.4 53 47-110 237-289 (293)
14 PHA02929 N1R/p28-like protein; 99.2 1.4E-11 3E-16 93.2 4.4 49 46-105 171-227 (238)
15 PF00097 zf-C3HC4: Zinc finger 99.2 1.1E-11 2.3E-16 69.1 2.1 40 52-100 1-41 (41)
16 PF13445 zf-RING_UBOX: RING-ty 99.2 9.1E-12 2E-16 69.9 1.7 39 52-98 1-43 (43)
17 PF13639 zf-RING_2: Ring finge 99.2 6.1E-12 1.3E-16 71.2 0.3 40 51-101 2-44 (44)
18 PHA02926 zinc finger-like prot 99.1 1.2E-10 2.6E-15 86.2 4.0 59 43-106 164-231 (242)
19 PF14634 zf-RING_5: zinc-RING 99.1 1.2E-10 2.6E-15 65.9 3.1 41 51-102 1-44 (44)
20 cd00162 RING RING-finger (Real 99.0 1.8E-10 4E-15 64.5 3.0 43 51-103 1-44 (45)
21 KOG2660 Locus-specific chromos 99.0 1.1E-10 2.5E-15 90.6 2.6 74 43-127 9-83 (331)
22 KOG2177 Predicted E3 ubiquitin 99.0 2.7E-10 5.9E-15 87.7 3.3 69 44-129 8-76 (386)
23 KOG2164 Predicted E3 ubiquitin 99.0 2.7E-10 5.8E-15 93.0 3.2 55 49-109 186-240 (513)
24 smart00184 RING Ring finger. E 98.9 9.7E-10 2.1E-14 59.5 3.2 39 52-100 1-39 (39)
25 COG5574 PEX10 RING-finger-cont 98.8 1.8E-09 3.9E-14 81.7 1.9 53 47-109 213-266 (271)
26 KOG0311 Predicted E3 ubiquitin 98.7 1.8E-09 3.9E-14 84.6 -0.0 73 43-125 37-111 (381)
27 KOG4159 Predicted E3 ubiquitin 98.7 1.6E-08 3.4E-13 81.8 4.4 73 46-129 81-154 (398)
28 TIGR00570 cdk7 CDK-activating 98.7 2.7E-08 5.8E-13 77.6 5.3 51 48-108 2-57 (309)
29 PF12678 zf-rbx1: RING-H2 zinc 98.7 2.1E-08 4.7E-13 62.7 3.4 40 51-101 21-73 (73)
30 KOG0978 E3 ubiquitin ligase in 98.6 1.3E-08 2.9E-13 86.6 0.7 56 44-109 638-693 (698)
31 COG5222 Uncharacterized conser 98.5 1.3E-07 2.8E-12 73.0 3.2 45 49-103 274-319 (427)
32 PF12861 zf-Apc11: Anaphase-pr 98.4 2.9E-07 6.3E-12 58.7 3.7 50 49-106 21-83 (85)
33 PF11789 zf-Nse: Zinc-finger o 98.4 2.1E-07 4.5E-12 55.4 2.2 44 47-99 9-53 (57)
34 COG5152 Uncharacterized conser 98.4 2.4E-07 5.2E-12 67.6 2.5 47 48-105 195-241 (259)
35 KOG0824 Predicted E3 ubiquitin 98.3 2.2E-07 4.7E-12 71.7 2.0 49 49-107 7-55 (324)
36 COG5243 HRD1 HRD ubiquitin lig 98.3 4E-07 8.6E-12 72.2 2.7 49 47-106 285-346 (491)
37 KOG0802 E3 ubiquitin ligase [P 98.3 2.5E-07 5.3E-12 78.3 1.1 47 47-104 289-340 (543)
38 KOG1813 Predicted E3 ubiquitin 98.3 7E-07 1.5E-11 68.8 3.0 46 49-105 241-286 (313)
39 KOG2879 Predicted E3 ubiquitin 98.2 1.7E-06 3.8E-11 66.0 3.5 52 45-105 235-287 (298)
40 KOG0297 TNF receptor-associate 98.1 2E-06 4.4E-11 69.9 3.4 53 46-109 18-71 (391)
41 KOG4628 Predicted E3 ubiquitin 98.1 1.6E-06 3.5E-11 68.8 2.2 47 50-106 230-279 (348)
42 COG5540 RING-finger-containing 98.1 2.1E-06 4.6E-11 66.4 2.1 49 47-105 321-372 (374)
43 KOG1002 Nucleotide excision re 97.8 2.3E-05 4.9E-10 65.0 4.5 54 48-107 535-588 (791)
44 PF11793 FANCL_C: FANCL C-term 97.8 7.8E-06 1.7E-10 50.7 1.1 58 49-106 2-67 (70)
45 KOG1645 RING-finger-containing 97.8 5.9E-05 1.3E-09 60.7 5.9 54 47-109 2-60 (463)
46 KOG1039 Predicted E3 ubiquitin 97.7 2E-05 4.2E-10 62.9 2.7 56 47-106 159-222 (344)
47 PF04641 Rtf2: Rtf2 RING-finge 97.7 7.3E-05 1.6E-09 57.7 5.6 69 46-126 110-182 (260)
48 KOG4367 Predicted Zn-finger pr 97.7 1.8E-05 3.8E-10 64.3 1.7 35 46-80 1-35 (699)
49 KOG4172 Predicted E3 ubiquitin 97.6 1E-05 2.3E-10 46.9 -0.2 46 50-105 8-54 (62)
50 KOG0804 Cytoplasmic Zn-finger 97.5 3.5E-05 7.5E-10 62.6 1.5 48 45-105 171-222 (493)
51 KOG4692 Predicted E3 ubiquitin 97.5 7.1E-05 1.5E-09 59.3 2.5 48 47-105 420-467 (489)
52 KOG4265 Predicted E3 ubiquitin 97.4 7.7E-05 1.7E-09 59.1 2.4 47 48-105 289-336 (349)
53 KOG3039 Uncharacterized conser 97.4 0.00013 2.8E-09 55.2 2.7 54 48-112 220-277 (303)
54 KOG1785 Tyrosine kinase negati 97.3 0.00011 2.4E-09 59.1 1.8 48 51-107 371-418 (563)
55 KOG4185 Predicted E3 ubiquitin 97.3 0.00031 6.7E-09 55.0 4.1 67 49-126 3-77 (296)
56 KOG0828 Predicted E3 ubiquitin 97.1 0.0002 4.2E-09 59.1 1.7 50 46-105 568-634 (636)
57 KOG0825 PHD Zn-finger protein 97.1 0.00011 2.3E-09 63.6 -0.2 47 48-105 122-171 (1134)
58 KOG1814 Predicted E3 ubiquitin 97.1 0.0016 3.5E-08 52.7 6.1 54 47-103 182-238 (445)
59 KOG1493 Anaphase-promoting com 97.0 0.0002 4.2E-09 44.5 0.3 48 51-106 22-82 (84)
60 KOG1734 Predicted RING-contain 97.0 0.00019 4.2E-09 55.0 0.1 51 48-107 223-283 (328)
61 PF14447 Prok-RING_4: Prokaryo 96.9 0.00067 1.4E-08 39.6 2.0 47 48-107 6-52 (55)
62 KOG4275 Predicted E3 ubiquitin 96.9 0.00017 3.7E-09 55.8 -0.8 42 49-105 300-342 (350)
63 smart00744 RINGv The RING-vari 96.8 0.0017 3.8E-08 37.2 3.3 42 51-101 1-49 (49)
64 PF14570 zf-RING_4: RING/Ubox 96.8 0.0012 2.5E-08 37.7 2.4 43 52-104 1-47 (48)
65 COG5194 APC11 Component of SCF 96.8 0.0015 3.3E-08 40.9 3.0 31 66-107 53-83 (88)
66 COG5219 Uncharacterized conser 96.8 0.00057 1.2E-08 60.4 1.2 49 48-105 1468-1523(1525)
67 KOG1571 Predicted E3 ubiquitin 96.7 0.00071 1.5E-08 53.8 1.6 46 46-105 302-347 (355)
68 KOG0827 Predicted E3 ubiquitin 96.6 0.0012 2.6E-08 53.1 2.1 46 50-103 5-54 (465)
69 KOG3800 Predicted E3 ubiquitin 96.6 0.0041 8.8E-08 48.2 4.8 46 51-106 2-52 (300)
70 PF07800 DUF1644: Protein of u 96.6 0.0035 7.6E-08 44.5 3.9 60 48-107 1-93 (162)
71 PF02891 zf-MIZ: MIZ/SP-RING z 96.5 0.002 4.2E-08 37.2 2.2 48 49-103 2-50 (50)
72 KOG3161 Predicted E3 ubiquitin 96.4 0.0014 3.1E-08 55.7 1.3 36 45-80 7-46 (861)
73 KOG4739 Uncharacterized protei 96.4 0.02 4.3E-07 43.4 7.1 44 50-106 4-49 (233)
74 KOG1001 Helicase-like transcri 96.4 0.0016 3.4E-08 56.6 1.4 47 50-106 455-501 (674)
75 KOG0826 Predicted E3 ubiquitin 96.3 0.0033 7.1E-08 49.5 2.8 47 47-104 298-345 (357)
76 KOG3002 Zn finger protein [Gen 96.3 0.0052 1.1E-07 48.4 4.0 47 45-105 44-91 (299)
77 KOG2817 Predicted E3 ubiquitin 96.2 0.0034 7.4E-08 50.6 2.6 53 46-106 331-386 (394)
78 KOG1812 Predicted E3 ubiquitin 96.2 0.0045 9.8E-08 50.4 3.3 54 49-107 146-205 (384)
79 KOG1941 Acetylcholine receptor 95.9 0.0026 5.6E-08 51.3 0.5 46 48-102 364-413 (518)
80 KOG4362 Transcriptional regula 95.9 0.0016 3.5E-08 56.0 -0.7 54 45-106 17-70 (684)
81 KOG3039 Uncharacterized conser 95.9 0.049 1.1E-06 41.6 7.2 37 44-80 38-74 (303)
82 PF05290 Baculo_IE-1: Baculovi 95.6 0.01 2.2E-07 41.0 2.5 52 48-107 79-134 (140)
83 KOG3970 Predicted E3 ubiquitin 95.5 0.041 9E-07 41.4 5.6 55 48-105 49-105 (299)
84 COG5175 MOT2 Transcriptional r 95.3 0.018 4E-07 45.8 3.3 47 50-106 15-65 (480)
85 PF10367 Vps39_2: Vacuolar sor 95.1 0.0089 1.9E-07 39.5 1.0 34 44-77 73-108 (109)
86 COG5236 Uncharacterized conser 94.8 0.014 3E-07 46.6 1.3 50 45-103 57-106 (493)
87 KOG2930 SCF ubiquitin ligase, 94.7 0.019 4.1E-07 37.9 1.6 28 66-104 80-107 (114)
88 PF03854 zf-P11: P-11 zinc fin 94.4 0.02 4.3E-07 32.4 0.9 35 61-106 12-47 (50)
89 PHA03096 p28-like protein; Pro 94.3 0.023 5E-07 44.5 1.5 32 50-81 179-218 (284)
90 KOG3113 Uncharacterized conser 93.9 0.15 3.2E-06 39.1 5.1 54 47-113 109-166 (293)
91 KOG1815 Predicted E3 ubiquitin 93.8 0.13 2.7E-06 42.8 5.0 56 47-105 68-126 (444)
92 COG5109 Uncharacterized conser 93.6 0.049 1.1E-06 43.0 2.1 58 41-106 328-388 (396)
93 KOG1952 Transcription factor N 93.4 0.066 1.4E-06 47.3 2.9 53 47-103 189-245 (950)
94 KOG2114 Vacuolar assembly/sort 93.3 0.05 1.1E-06 48.0 2.0 43 47-103 838-881 (933)
95 KOG1428 Inhibitor of type V ad 93.2 0.19 4.1E-06 47.3 5.3 55 47-105 3484-3544(3738)
96 KOG0298 DEAD box-containing he 93.0 0.019 4.1E-07 52.6 -1.0 49 44-103 1148-1197(1394)
97 KOG2932 E3 ubiquitin ligase in 92.7 0.055 1.2E-06 42.6 1.2 42 51-105 92-134 (389)
98 PF08746 zf-RING-like: RING-li 92.2 0.21 4.6E-06 27.7 2.9 40 52-100 1-43 (43)
99 KOG1940 Zn-finger protein [Gen 92.1 0.1 2.2E-06 40.6 2.0 43 49-102 158-204 (276)
100 KOG3579 Predicted E3 ubiquitin 91.9 0.11 2.4E-06 40.4 2.0 34 47-80 266-303 (352)
101 PF07191 zinc-ribbons_6: zinc- 91.6 0.013 2.8E-07 36.0 -2.7 41 49-105 1-41 (70)
102 COG5220 TFB3 Cdk activating ki 91.6 0.069 1.5E-06 40.6 0.6 46 48-103 9-62 (314)
103 PF10497 zf-4CXXC_R1: Zinc-fin 91.1 0.3 6.5E-06 32.6 3.2 54 48-103 6-70 (105)
104 KOG1100 Predicted E3 ubiquitin 90.7 0.15 3.2E-06 38.2 1.6 39 52-105 161-200 (207)
105 KOG3268 Predicted E3 ubiquitin 90.6 0.25 5.5E-06 35.9 2.6 58 50-107 166-230 (234)
106 PF10571 UPF0547: Uncharacteri 88.8 0.25 5.4E-06 24.4 1.1 21 51-71 2-24 (26)
107 COG3813 Uncharacterized protei 88.7 0.51 1.1E-05 29.1 2.6 31 66-109 26-56 (84)
108 PHA02825 LAP/PHD finger-like p 88.5 0.76 1.7E-05 32.8 3.8 49 47-105 6-59 (162)
109 PF10235 Cript: Microtubule-as 87.9 0.39 8.5E-06 31.1 1.8 37 49-105 44-80 (90)
110 PF05883 Baculo_RING: Baculovi 87.6 0.23 4.9E-06 34.5 0.6 32 49-80 26-66 (134)
111 PF06906 DUF1272: Protein of u 87.2 0.66 1.4E-05 27.2 2.3 43 51-106 7-53 (57)
112 PF10272 Tmpp129: Putative tra 85.9 0.64 1.4E-05 37.6 2.5 40 67-106 311-352 (358)
113 KOG0825 PHD Zn-finger protein 85.4 1.1 2.3E-05 39.9 3.6 53 47-104 94-153 (1134)
114 KOG2169 Zn-finger transcriptio 83.8 1.4 3E-05 38.5 3.7 69 45-124 302-371 (636)
115 KOG3899 Uncharacterized conser 82.7 0.8 1.7E-05 36.0 1.7 40 67-106 325-366 (381)
116 KOG4445 Uncharacterized conser 82.6 0.28 6E-06 38.6 -0.8 58 49-106 115-187 (368)
117 KOG2979 Protein involved in DN 81.9 0.76 1.6E-05 35.3 1.3 46 49-103 176-222 (262)
118 KOG4718 Non-SMC (structural ma 80.2 0.88 1.9E-05 34.0 1.1 44 49-103 181-225 (235)
119 PHA02862 5L protein; Provision 80.1 2.1 4.6E-05 30.2 2.9 47 50-106 3-54 (156)
120 PF05605 zf-Di19: Drought indu 78.7 3.6 7.9E-05 23.6 3.2 40 48-103 1-40 (54)
121 KOG2034 Vacuolar sorting prote 78.5 0.99 2.1E-05 40.4 1.0 36 45-80 813-850 (911)
122 PF15616 TerY-C: TerY-C metal 78.4 1.1 2.4E-05 31.1 1.1 50 41-107 69-118 (131)
123 PF04216 FdhE: Protein involve 78.3 0.38 8.2E-06 37.7 -1.4 45 48-103 171-220 (290)
124 PF14353 CpXC: CpXC protein 78.1 1.7 3.8E-05 29.6 2.0 49 49-105 1-49 (128)
125 TIGR01562 FdhE formate dehydro 75.5 0.93 2E-05 35.9 0.1 44 49-103 184-233 (305)
126 PF14569 zf-UDP: Zinc-binding 74.8 3 6.5E-05 26.2 2.2 48 48-105 8-62 (80)
127 PRK06266 transcription initiat 74.7 1.7 3.6E-05 31.8 1.2 18 92-109 134-151 (178)
128 PF14446 Prok-RING_1: Prokaryo 74.7 3.9 8.6E-05 23.8 2.5 30 49-78 5-38 (54)
129 PF01363 FYVE: FYVE zinc finge 74.5 1 2.3E-05 27.1 0.1 32 48-79 8-43 (69)
130 PF06844 DUF1244: Protein of u 73.9 1.9 4.1E-05 26.2 1.1 12 70-81 11-22 (68)
131 cd00065 FYVE FYVE domain; Zinc 73.5 2.1 4.7E-05 24.6 1.3 31 50-80 3-37 (57)
132 PF12906 RINGv: RING-variant d 73.4 2.2 4.9E-05 23.9 1.3 40 52-100 1-47 (47)
133 KOG4185 Predicted E3 ubiquitin 72.5 0.51 1.1E-05 36.9 -2.1 44 50-103 208-265 (296)
134 KOG1812 Predicted E3 ubiquitin 71.7 2.1 4.6E-05 35.0 1.3 34 47-80 304-342 (384)
135 KOG0289 mRNA splicing factor [ 71.6 19 0.00041 30.1 6.6 44 50-104 1-45 (506)
136 PRK04023 DNA polymerase II lar 71.1 6.5 0.00014 36.1 4.2 48 49-109 626-678 (1121)
137 PRK03564 formate dehydrogenase 70.5 1.8 3.8E-05 34.4 0.6 44 48-102 186-234 (309)
138 smart00064 FYVE Protein presen 69.8 4.4 9.5E-05 24.2 2.1 32 49-80 10-45 (68)
139 KOG2068 MOT2 transcription fac 69.3 4.9 0.00011 32.1 2.8 47 49-106 249-299 (327)
140 cd00350 rubredoxin_like Rubred 69.1 4.2 9.1E-05 20.9 1.7 11 93-103 16-26 (33)
141 PF09538 FYDLN_acid: Protein o 68.5 4 8.7E-05 27.3 1.9 13 93-105 25-37 (108)
142 PF13240 zinc_ribbon_2: zinc-r 68.3 1 2.2E-05 21.4 -0.7 10 94-103 13-22 (23)
143 KOG2042 Ubiquitin fusion degra 67.3 9.7 0.00021 34.8 4.5 72 45-131 866-938 (943)
144 PF05502 Dynactin_p62: Dynacti 66.0 3.1 6.8E-05 35.1 1.2 7 96-102 88-94 (483)
145 PF07975 C1_4: TFIIH C1-like d 65.4 7.3 0.00016 22.4 2.3 25 66-101 26-50 (51)
146 smart00154 ZnF_AN1 AN1-like Zi 65.2 5.2 0.00011 21.5 1.6 22 52-73 1-24 (39)
147 cd00729 rubredoxin_SM Rubredox 65.1 5.1 0.00011 20.9 1.5 11 93-103 17-27 (34)
148 PF13719 zinc_ribbon_5: zinc-r 61.3 5.2 0.00011 21.2 1.1 13 50-62 3-15 (37)
149 TIGR00373 conserved hypothetic 61.3 2.8 6.1E-05 29.9 0.1 18 92-109 126-143 (158)
150 smart00647 IBR In Between Ring 60.4 2.5 5.4E-05 24.7 -0.3 30 50-79 19-58 (64)
151 KOG2462 C2H2-type Zn-finger pr 60.0 5.8 0.00013 30.9 1.6 59 48-106 160-227 (279)
152 KOG0314 Predicted E3 ubiquitin 59.9 4.9 0.00011 33.5 1.3 36 45-80 215-253 (448)
153 KOG3799 Rab3 effector RIM1 and 57.9 2.3 5E-05 29.6 -0.8 55 44-103 60-116 (169)
154 COG4647 AcxC Acetone carboxyla 57.9 4.9 0.00011 27.8 0.8 22 54-75 62-83 (165)
155 PF00628 PHD: PHD-finger; Int 57.8 0.83 1.8E-05 25.7 -2.6 46 51-101 1-49 (51)
156 PF02318 FYVE_2: FYVE-type zin 57.8 6.2 0.00013 26.6 1.3 45 48-102 53-102 (118)
157 PRK11088 rrmA 23S rRNA methylt 57.7 6.4 0.00014 30.3 1.5 22 50-71 3-27 (272)
158 COG5627 MMS21 DNA repair prote 57.6 19 0.00042 27.6 3.9 49 49-106 189-240 (275)
159 PF09297 zf-NADH-PPase: NADH p 57.3 2 4.4E-05 21.9 -0.9 29 68-103 2-30 (32)
160 KOG1356 Putative transcription 57.0 4 8.6E-05 36.6 0.3 32 49-80 229-262 (889)
161 COG1592 Rubrerythrin [Energy p 56.4 8.7 0.00019 27.8 1.9 12 92-103 147-158 (166)
162 PLN02189 cellulose synthase 56.2 10 0.00022 35.0 2.7 47 49-105 34-87 (1040)
163 PLN02436 cellulose synthase A 55.9 10 0.00022 35.1 2.7 47 49-105 36-89 (1094)
164 KOG2068 MOT2 transcription fac 55.0 16 0.00035 29.2 3.3 30 71-108 4-33 (327)
165 PF01428 zf-AN1: AN1-like Zinc 54.1 6.9 0.00015 21.4 0.9 22 55-76 6-28 (43)
166 PRK11595 DNA utilization prote 54.1 13 0.00028 27.9 2.7 24 51-79 7-30 (227)
167 smart00249 PHD PHD zinc finger 53.9 14 0.00031 19.5 2.2 27 51-77 1-30 (47)
168 COG5183 SSM4 Protein involved 53.3 25 0.00054 31.8 4.5 72 48-128 11-94 (1175)
169 KOG3476 Microtubule-associated 53.2 1.2 2.6E-05 28.5 -2.6 38 49-106 54-91 (100)
170 KOG2231 Predicted E3 ubiquitin 52.4 13 0.00028 32.7 2.6 49 51-104 2-51 (669)
171 TIGR02300 FYDLN_acid conserved 51.9 11 0.00023 26.0 1.7 14 46-59 6-19 (129)
172 PLN02638 cellulose synthase A 51.0 14 0.0003 34.3 2.7 47 49-105 17-70 (1079)
173 COG0068 HypF Hydrogenase matur 50.9 9.5 0.00021 33.7 1.6 57 47-106 99-185 (750)
174 COG5319 Uncharacterized protei 49.2 22 0.00048 24.6 2.8 14 92-105 30-43 (142)
175 PF04423 Rad50_zn_hook: Rad50 48.8 22 0.00047 20.3 2.5 10 96-105 22-31 (54)
176 COG3492 Uncharacterized protei 48.7 8.2 0.00018 25.0 0.7 12 70-81 42-53 (104)
177 KOG4642 Chaperone-dependent E3 47.6 22 0.00049 27.5 3.0 73 44-130 206-278 (284)
178 PF13717 zinc_ribbon_4: zinc-r 47.4 12 0.00027 19.6 1.2 10 50-59 3-12 (36)
179 PF13834 DUF4193: Domain of un 46.9 6 0.00013 26.0 -0.1 30 46-75 67-98 (99)
180 PRK14714 DNA polymerase II lar 46.6 23 0.00049 33.6 3.3 52 49-108 667-723 (1337)
181 PF04710 Pellino: Pellino; In 46.2 6.7 0.00015 32.2 0.0 50 49-106 277-340 (416)
182 PF09723 Zn-ribbon_8: Zinc rib 46.0 15 0.00033 19.9 1.5 11 92-102 24-34 (42)
183 PF06676 DUF1178: Protein of u 45.8 6 0.00013 28.1 -0.3 34 66-104 9-42 (148)
184 PF13248 zf-ribbon_3: zinc-rib 45.8 4.6 0.0001 19.6 -0.6 8 95-102 17-24 (26)
185 smart00734 ZnF_Rad18 Rad18-lik 45.3 11 0.00023 18.4 0.7 10 50-59 2-11 (26)
186 PTZ00303 phosphatidylinositol 44.8 13 0.00029 33.4 1.6 30 50-79 461-499 (1374)
187 PLN02195 cellulose synthase A 44.7 21 0.00045 32.8 2.8 47 49-105 6-59 (977)
188 KOG0309 Conserved WD40 repeat- 44.4 13 0.00029 33.2 1.5 32 49-80 1028-1061(1081)
189 COG1198 PriA Primosomal protei 44.0 9.8 0.00021 33.9 0.7 43 49-103 435-484 (730)
190 PF09862 DUF2089: Protein of u 43.6 18 0.00039 24.4 1.7 9 52-60 1-9 (113)
191 KOG3362 Predicted BBOX Zn-fing 42.7 8.5 0.00018 27.1 0.1 28 50-78 119-147 (156)
192 PRK01343 zinc-binding protein; 42.7 22 0.00047 21.0 1.8 14 92-105 7-20 (57)
193 smart00132 LIM Zinc-binding do 42.5 21 0.00045 18.0 1.6 11 51-61 1-11 (39)
194 PLN02915 cellulose synthase A 42.2 23 0.00049 32.8 2.7 48 48-105 14-68 (1044)
195 KOG0824 Predicted E3 ubiquitin 41.7 7.3 0.00016 30.8 -0.4 49 45-104 101-150 (324)
196 PLN02400 cellulose synthase 41.3 18 0.00038 33.7 1.9 47 49-105 36-89 (1085)
197 PF01485 IBR: IBR domain; Int 41.2 3.9 8.4E-05 23.8 -1.6 30 50-79 19-58 (64)
198 PF10146 zf-C4H2: Zinc finger- 40.4 25 0.00054 26.8 2.3 27 71-108 196-222 (230)
199 KOG1729 FYVE finger containing 40.3 7.6 0.00017 30.6 -0.5 54 47-104 166-224 (288)
200 KOG2113 Predicted RNA binding 39.6 23 0.0005 28.4 2.0 45 47-104 341-386 (394)
201 KOG1815 Predicted E3 ubiquitin 39.4 14 0.00031 30.7 1.0 20 60-79 177-196 (444)
202 PRK14890 putative Zn-ribbon RN 39.4 19 0.00041 21.4 1.2 11 92-102 46-56 (59)
203 PF10186 Atg14: UV radiation r 38.8 21 0.00046 27.4 1.8 22 51-80 1-22 (302)
204 COG4098 comFA Superfamily II D 38.7 13 0.00027 30.5 0.5 31 47-77 37-68 (441)
205 PF09889 DUF2116: Uncharacteri 38.5 86 0.0019 18.6 4.5 14 94-107 3-16 (59)
206 smart00290 ZnF_UBP Ubiquitin C 37.9 24 0.00052 19.5 1.5 23 52-74 2-24 (50)
207 KOG3053 Uncharacterized conser 37.8 25 0.00053 27.4 1.9 57 45-104 16-81 (293)
208 COG2816 NPY1 NTP pyrophosphohy 37.0 9.8 0.00021 29.8 -0.4 31 67-104 109-139 (279)
209 PRK00420 hypothetical protein; 36.6 16 0.00036 24.6 0.7 12 49-60 23-34 (112)
210 KOG1818 Membrane trafficking a 36.5 13 0.00028 32.5 0.3 57 44-103 160-220 (634)
211 PF00412 LIM: LIM domain; Int 36.2 34 0.00073 19.3 2.0 31 48-78 25-56 (58)
212 PF00301 Rubredoxin: Rubredoxi 35.9 18 0.0004 20.3 0.7 15 43-57 28-42 (47)
213 PF10083 DUF2321: Uncharacteri 35.6 19 0.0004 25.8 0.9 12 68-79 27-38 (158)
214 TIGR00143 hypF [NiFe] hydrogen 35.3 21 0.00047 31.7 1.4 57 47-106 66-152 (711)
215 cd00730 rubredoxin Rubredoxin; 34.9 20 0.00043 20.5 0.8 14 44-57 29-42 (50)
216 TIGR00622 ssl1 transcription f 34.8 39 0.00085 22.8 2.3 41 50-101 56-110 (112)
217 PF12773 DZR: Double zinc ribb 34.4 47 0.001 18.3 2.4 14 92-105 27-40 (50)
218 KOG4451 Uncharacterized conser 34.4 33 0.00072 26.2 2.1 27 71-108 251-277 (286)
219 PF00096 zf-C2H2: Zinc finger, 33.5 9 0.00019 17.4 -0.7 12 51-62 2-13 (23)
220 KOG4218 Nuclear hormone recept 33.1 35 0.00075 27.8 2.1 14 48-61 14-27 (475)
221 PF06827 zf-FPG_IleRS: Zinc fi 33.0 8.8 0.00019 19.1 -0.8 10 51-60 3-12 (30)
222 PF13913 zf-C2HC_2: zinc-finge 32.9 21 0.00047 17.0 0.6 10 50-59 3-12 (25)
223 PF07503 zf-HYPF: HypF finger; 32.7 54 0.0012 17.2 2.2 31 71-104 1-31 (35)
224 PF03119 DNA_ligase_ZBD: NAD-d 32.5 19 0.00041 17.8 0.4 11 96-106 1-11 (28)
225 PF13894 zf-C2H2_4: C2H2-type 30.2 17 0.00038 16.0 0.0 11 51-61 2-12 (24)
226 PF10013 DUF2256: Uncharacteri 30.0 43 0.00094 18.4 1.6 15 91-105 5-19 (42)
227 PF13901 DUF4206: Domain of un 29.8 50 0.0011 24.5 2.4 40 47-102 150-197 (202)
228 PRK00418 DNA gyrase inhibitor; 29.7 31 0.00067 20.7 1.0 12 94-105 6-17 (62)
229 PF14369 zf-RING_3: zinc-finge 29.5 19 0.00042 18.8 0.1 10 95-104 22-31 (35)
230 COG1379 PHP family phosphoeste 29.2 23 0.0005 28.6 0.6 49 50-104 227-275 (403)
231 TIGR03830 CxxCG_CxxCG_HTH puta 29.2 31 0.00066 23.0 1.1 15 92-106 29-43 (127)
232 COG4640 Predicted membrane pro 28.8 29 0.00063 28.7 1.1 24 50-73 2-27 (465)
233 PLN03086 PRLI-interacting fact 28.7 79 0.0017 27.5 3.7 14 92-105 502-515 (567)
234 PRK14559 putative protein seri 28.3 25 0.00054 31.0 0.6 12 93-104 40-51 (645)
235 KOG3183 Predicted Zn-finger pr 27.9 47 0.001 25.5 2.0 56 51-107 10-68 (250)
236 PF02148 zf-UBP: Zn-finger in 27.7 36 0.00077 20.0 1.1 23 52-74 1-24 (63)
237 KOG3726 Uncharacterized conser 27.5 37 0.0008 30.0 1.5 38 51-103 656-698 (717)
238 PRK05978 hypothetical protein; 27.5 48 0.001 23.5 1.9 16 92-107 50-65 (148)
239 COG1675 TFA1 Transcription ini 27.1 1.1E+02 0.0025 22.3 3.8 18 92-109 130-147 (176)
240 KOG2789 Putative Zn-finger pro 27.1 25 0.00055 29.0 0.5 32 49-80 74-107 (482)
241 PF06869 DUF1258: Protein of u 26.9 1E+02 0.0022 23.9 3.7 47 68-130 17-65 (258)
242 PF00643 zf-B_box: B-box zinc 26.7 46 0.001 17.5 1.4 29 49-77 3-31 (42)
243 PF14471 DUF4428: Domain of un 26.2 74 0.0016 18.1 2.2 28 51-79 1-30 (51)
244 PF08882 Acetone_carb_G: Aceto 26.1 33 0.00071 23.1 0.8 11 65-75 27-37 (112)
245 PF03850 Tfb4: Transcription f 26.1 42 0.0009 26.3 1.5 12 48-59 252-263 (276)
246 KOG4443 Putative transcription 26.0 43 0.00093 29.5 1.6 51 47-103 16-71 (694)
247 COG3058 FdhE Uncharacterized p 26.0 35 0.00076 26.9 1.0 43 50-103 186-234 (308)
248 KOG3896 Dynactin, subunit p62 25.9 31 0.00068 27.9 0.8 14 45-58 20-33 (449)
249 KOG2807 RNA polymerase II tran 25.9 43 0.00093 27.0 1.5 25 52-76 333-360 (378)
250 KOG1829 Uncharacterized conser 25.3 56 0.0012 28.4 2.2 30 48-77 339-374 (580)
251 TIGR01206 lysW lysine biosynth 25.2 41 0.00089 19.5 1.0 12 95-106 3-14 (54)
252 COG1645 Uncharacterized Zn-fin 25.1 27 0.00058 24.3 0.2 13 49-61 28-40 (131)
253 TIGR03826 YvyF flagellar opero 24.9 39 0.00085 23.6 1.1 23 50-77 4-26 (137)
254 KOG3842 Adaptor protein Pellin 24.8 46 0.001 26.7 1.5 47 50-104 291-351 (429)
255 KOG3993 Transcription factor ( 24.5 10 0.00022 31.5 -2.2 23 43-65 261-283 (500)
256 TIGR00375 conserved hypothetic 24.5 20 0.00044 29.3 -0.5 32 66-104 237-268 (374)
257 KOG0801 Predicted E3 ubiquitin 24.0 46 0.001 24.1 1.3 16 93-108 137-152 (205)
258 COG4306 Uncharacterized protei 23.8 43 0.00094 23.1 1.0 11 95-105 69-79 (160)
259 COG5242 TFB4 RNA polymerase II 23.2 33 0.00072 26.2 0.4 14 49-62 260-273 (296)
260 PF07754 DUF1610: Domain of un 22.8 43 0.00094 16.0 0.7 10 92-101 14-23 (24)
261 PF14311 DUF4379: Domain of un 22.7 62 0.0014 18.4 1.5 8 93-100 48-55 (55)
262 COG2093 DNA-directed RNA polym 22.1 39 0.00084 20.3 0.5 12 92-103 16-27 (64)
263 PLN02248 cellulose synthase-li 22.1 72 0.0016 30.0 2.4 30 66-106 149-178 (1135)
264 PF03833 PolC_DP2: DNA polymer 21.8 30 0.00066 31.4 0.0 45 49-106 655-704 (900)
265 PF12874 zf-met: Zinc-finger o 21.7 20 0.00043 16.5 -0.7 13 50-62 1-13 (25)
266 PF09986 DUF2225: Uncharacteri 21.3 48 0.001 24.8 1.0 18 47-64 3-20 (214)
267 KOG0827 Predicted E3 ubiquitin 21.3 16 0.00034 30.1 -1.7 45 51-106 198-246 (465)
268 PF14205 Cys_rich_KTR: Cystein 21.2 43 0.00094 19.5 0.6 13 92-104 26-38 (55)
269 COG4338 Uncharacterized protei 21.2 39 0.00083 19.2 0.3 14 92-105 10-23 (54)
270 TIGR00100 hypA hydrogenase nic 20.5 45 0.00098 22.3 0.6 10 94-103 86-95 (115)
271 PRK00564 hypA hydrogenase nick 20.4 41 0.00089 22.6 0.4 9 95-103 89-97 (117)
272 PF06221 zf-C2HC5: Putative zi 20.4 71 0.0015 18.8 1.4 27 62-105 19-46 (57)
273 PF09237 GAGA: GAGA factor; I 20.3 36 0.00078 19.7 0.1 14 92-105 22-35 (54)
274 COG3024 Uncharacterized protei 20.2 1E+02 0.0022 18.6 2.0 15 92-106 5-19 (65)
275 PF12660 zf-TFIIIC: Putative z 20.1 38 0.00082 22.1 0.2 48 50-105 15-66 (99)
276 PRK04179 rpl37e 50S ribosomal 20.1 32 0.00069 20.6 -0.2 25 68-102 16-40 (62)
277 TIGR02652 conserved hypothetic 20.0 45 0.00097 23.5 0.5 13 92-104 7-19 (163)
278 cd04718 BAH_plant_2 BAH, or Br 20.0 36 0.00078 24.1 0.1 46 92-139 16-61 (148)
No 1
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=99.61 E-value=4.7e-16 Score=87.25 Aligned_cols=42 Identities=40% Similarity=0.942 Sum_probs=30.8
Q ss_pred CccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCC
Q 041693 52 CPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLC 100 (156)
Q Consensus 52 C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~C 100 (156)
||||+++|.+|++++|||+||..||.+++. . .......||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~-----~--~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWK-----E--PSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHC-----C--SSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHH-----c--cCCcCCCCcCC
Confidence 899999999999999999999999999982 1 11233789987
No 2
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.52 E-value=1.8e-14 Score=115.84 Aligned_cols=83 Identities=25% Similarity=0.499 Sum_probs=66.5
Q ss_pred hhhhhhhccCCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhH
Q 041693 36 LSCQLFDSIRLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTEL 115 (156)
Q Consensus 36 ~~~~~~~~~~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~ 115 (156)
+...+.....++..+.|+||.++|.+|++++|||+||..||..|+ .....||.|+..+..... ..
T Consensus 13 ~~t~~~~l~~Le~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l-----------~~~~~CP~Cr~~~~~~~L----r~ 77 (397)
T TIGR00599 13 LTTPIPSLYPLDTSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCL-----------SNQPKCPLCRAEDQESKL----RS 77 (397)
T ss_pred ccCCcccccccccccCCCcCchhhhCccCCCCCCchhHHHHHHHH-----------hCCCCCCCCCCccccccC----cc
Confidence 334444566788999999999999999999999999999999998 334589999999865433 37
Q ss_pred HHHHHHHHHHHHHHHHhH
Q 041693 116 GILLSRSCREYWEKRLQI 133 (156)
Q Consensus 116 n~~l~~l~~~~~~~~~~~ 133 (156)
|..|.++++.|...|...
T Consensus 78 N~~L~~iVe~~~~~R~~L 95 (397)
T TIGR00599 78 NWLVSEIVESFKNLRPSL 95 (397)
T ss_pred chHHHHHHHHHHHhhHHH
Confidence 888999999887655443
No 3
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=99.49 E-value=2.9e-14 Score=86.76 Aligned_cols=61 Identities=21% Similarity=0.290 Sum_probs=49.6
Q ss_pred cccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHHHHHH
Q 041693 49 ELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLSRSCR 124 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~ 124 (156)
++.||||++++.+|+.++|||+||+.||.+|+ .....||.|+.++...+.. .|..+++.++
T Consensus 1 ~~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~-----------~~~~~cP~~~~~~~~~~l~----~~~~l~~~i~ 61 (63)
T smart00504 1 EFLCPISLEVMKDPVILPSGQTYERRAIEKWL-----------LSHGTDPVTGQPLTHEDLI----PNLALKSAIQ 61 (63)
T ss_pred CcCCcCCCCcCCCCEECCCCCEEeHHHHHHHH-----------HHCCCCCCCcCCCChhhce----eCHHHHHHHH
Confidence 47899999999999999999999999999998 2256899999998766554 3555555544
No 4
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=99.45 E-value=7.9e-14 Score=101.50 Aligned_cols=66 Identities=26% Similarity=0.540 Sum_probs=48.8
Q ss_pred CCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhcc-----ccCCCCCCCCCCCCcCcccCCcc
Q 041693 45 RLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDG-----LKLADPTEKCPLCRKAGVYQGAI 110 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~-----~~~~~~~~~CP~Cr~~~~~~~~~ 110 (156)
....++.|+||++.+.+|++++|||.||..||..|+..+.... .........||+||..+......
T Consensus 14 ~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred cCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 3456799999999999999999999999999999974321000 01123467899999998654443
No 5
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=99.45 E-value=3.5e-14 Score=110.17 Aligned_cols=75 Identities=21% Similarity=0.371 Sum_probs=63.8
Q ss_pred hhccCCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHH
Q 041693 41 FDSIRLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLS 120 (156)
Q Consensus 41 ~~~~~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~ 120 (156)
.....+++.|+|.||.++|..|+++||||+||.-||..++ .....||.|+.++..... +.|..+.
T Consensus 15 pslk~lD~lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L-----------~~~p~CP~C~~~~~Es~L----r~n~il~ 79 (442)
T KOG0287|consen 15 PSLKTLDDLLRCGICFEYFNIPMITPCSHTFCSLCIRKFL-----------SYKPQCPTCCVTVTESDL----RNNRILD 79 (442)
T ss_pred chhhhhHHHHHHhHHHHHhcCceeccccchHHHHHHHHHh-----------ccCCCCCceecccchhhh----hhhhHHH
Confidence 3455678889999999999999999999999999999998 778899999999876554 5788888
Q ss_pred HHHHHHHHHH
Q 041693 121 RSCREYWEKR 130 (156)
Q Consensus 121 ~l~~~~~~~~ 130 (156)
.+++.|.-.|
T Consensus 80 Eiv~S~~~~R 89 (442)
T KOG0287|consen 80 EIVKSLNFAR 89 (442)
T ss_pred HHHHHHHHHH
Confidence 8888875544
No 6
>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=99.44 E-value=9.7e-14 Score=87.11 Aligned_cols=70 Identities=21% Similarity=0.242 Sum_probs=54.5
Q ss_pred CCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHHHHHHHH
Q 041693 47 DIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLSRSCREY 126 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~ 126 (156)
.+.|.|||+.++|.+||++++||+|++.+|..|+ ......||.|+.++...+.. .|..|++.++.|
T Consensus 2 P~~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l----------~~~~~~~P~t~~~l~~~~l~----pn~~Lk~~I~~~ 67 (73)
T PF04564_consen 2 PDEFLCPITGELMRDPVILPSGHTYERSAIERWL----------EQNGGTDPFTRQPLSESDLI----PNRALKSAIEEW 67 (73)
T ss_dssp SGGGB-TTTSSB-SSEEEETTSEEEEHHHHHHHH----------CTTSSB-TTT-SB-SGGGSE----E-HHHHHHHHHH
T ss_pred CcccCCcCcCcHhhCceeCCcCCEEcHHHHHHHH----------HcCCCCCCCCCCcCCcccce----ECHHHHHHHHHH
Confidence 3679999999999999999999999999999998 23478999999998776664 788899999888
Q ss_pred HHHH
Q 041693 127 WEKR 130 (156)
Q Consensus 127 ~~~~ 130 (156)
..++
T Consensus 68 ~~~~ 71 (73)
T PF04564_consen 68 CAEN 71 (73)
T ss_dssp HHHC
T ss_pred HHHc
Confidence 7643
No 7
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=99.34 E-value=4.2e-13 Score=74.14 Aligned_cols=38 Identities=45% Similarity=1.152 Sum_probs=31.5
Q ss_pred CccccccCCCC-eeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCC
Q 041693 52 CPVCLETVFDP-VSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLC 100 (156)
Q Consensus 52 C~IC~~~~~~P-v~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~C 100 (156)
|+||++.+.+| +.++|||+||..|+.+|+ .....||.|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~-----------~~~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYL-----------EKNPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHH-----------HCTSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHH-----------HCcCCCcCC
Confidence 89999999999 568999999999999998 225789987
No 8
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=99.34 E-value=3.1e-13 Score=81.06 Aligned_cols=61 Identities=28% Similarity=0.700 Sum_probs=33.4
Q ss_pred CCCcccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHHHHH
Q 041693 46 LDIELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLSRSC 123 (156)
Q Consensus 46 ~~~~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~ 123 (156)
+++.+.|++|.+++++||.+ .|.|+||..|+...+ +..||+|+.+....+. +.|+.+.+|+
T Consensus 4 le~lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~-------------~~~CPvC~~Paw~qD~----~~NrqLd~~i 65 (65)
T PF14835_consen 4 LEELLRCSICFDILKEPVCLGGCEHIFCSSCIRDCI-------------GSECPVCHTPAWIQDI----QINRQLDSMI 65 (65)
T ss_dssp HHHTTS-SSS-S--SS-B---SSS--B-TTTGGGGT-------------TTB-SSS--B-S-SS--------HHHHHHH
T ss_pred HHHhcCCcHHHHHhcCCceeccCccHHHHHHhHHhc-------------CCCCCCcCChHHHHHH----HhhhhhhccC
Confidence 34578999999999999976 799999999997654 2359999999877776 5888887764
No 9
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.32 E-value=6.8e-13 Score=98.37 Aligned_cols=58 Identities=26% Similarity=0.627 Sum_probs=48.7
Q ss_pred CCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccch
Q 041693 47 DIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHL 112 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~ 112 (156)
...+.|.||++..++||.+.|||.||..||.+|+. .......||+|+..+.....+++
T Consensus 45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~--------~~~~~~~cPVCK~~Vs~~~vvPl 102 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQ--------TRPNSKECPVCKAEVSIDTVVPL 102 (230)
T ss_pred CCceeeeeeccccCCCEEeecccceehHHHHHHHh--------hcCCCeeCCccccccccceEEee
Confidence 45799999999999999999999999999999983 23567789999998866555443
No 10
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=99.30 E-value=2.2e-12 Score=98.53 Aligned_cols=73 Identities=22% Similarity=0.368 Sum_probs=55.8
Q ss_pred hhhccCCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHH
Q 041693 40 LFDSIRLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILL 119 (156)
Q Consensus 40 ~~~~~~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l 119 (156)
+.+...++..+.|.||...+..|+.++|||+||.-||.+++ +....||+||.+...... +-+..+
T Consensus 16 IPSL~~LDs~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL-----------~~qp~CP~Cr~~~~esrl----r~~s~~ 80 (391)
T COG5432 16 IPSLKGLDSMLRCRICDCRISIPCETTCGHTFCSLCIRRHL-----------GTQPFCPVCREDPCESRL----RGSSGS 80 (391)
T ss_pred CcchhcchhHHHhhhhhheeecceecccccchhHHHHHHHh-----------cCCCCCccccccHHhhhc----ccchhH
Confidence 34455667789999999999999999999999999999998 777899999998654322 234444
Q ss_pred HHHHHHHH
Q 041693 120 SRSCREYW 127 (156)
Q Consensus 120 ~~l~~~~~ 127 (156)
..+.+.|.
T Consensus 81 ~ei~es~~ 88 (391)
T COG5432 81 REINESHA 88 (391)
T ss_pred HHHHHhhh
Confidence 44444443
No 11
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=2e-12 Score=92.30 Aligned_cols=52 Identities=40% Similarity=0.825 Sum_probs=43.5
Q ss_pred CcccCccccccCC--CCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCcc
Q 041693 48 IELTCPVCLETVF--DPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAI 110 (156)
Q Consensus 48 ~~l~C~IC~~~~~--~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 110 (156)
..+.||||++.+. .|+.+.|||.||+.||...+ .....||+|++.+..+...
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~al-----------k~~~~CP~C~kkIt~k~~~ 183 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDAL-----------KNTNKCPTCRKKITHKQFH 183 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHH-----------HhCCCCCCcccccchhhhe
Confidence 4589999999885 46678999999999999998 6678999999988765543
No 12
>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=99.25 E-value=3e-12 Score=74.48 Aligned_cols=46 Identities=39% Similarity=0.930 Sum_probs=40.1
Q ss_pred cccCccccccCCCCeeccCCCc-ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVFDPVSLTCGHI-LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~-fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
+..|+||++...+++.++|||. ||..|+.+++ .....||.||+++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~-----------~~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLL-----------KRKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHH-----------HTTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhc-----------ccCCCCCcCChhhc
Confidence 5789999999999999999999 9999999997 46789999999874
No 13
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=6.4e-12 Score=95.87 Aligned_cols=53 Identities=32% Similarity=0.721 Sum_probs=46.3
Q ss_pred CCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCcc
Q 041693 47 DIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAI 110 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~ 110 (156)
.....|.+|++...+|..+||||.||..||..|. +....||.||..++.....
T Consensus 237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~-----------~ek~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWC-----------SEKAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHH-----------ccccCCCcccccCCCccee
Confidence 4568999999999999999999999999999998 5556699999998766553
No 14
>PHA02929 N1R/p28-like protein; Provisional
Probab=99.21 E-value=1.4e-11 Score=93.16 Aligned_cols=49 Identities=27% Similarity=0.750 Sum_probs=40.3
Q ss_pred CCCcccCccccccCCCC--------eeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 46 LDIELTCPVCLETVFDP--------VSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 46 ~~~~l~C~IC~~~~~~P--------v~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
..++..|+||++.+.++ +.++|||.||..||.+|+ .....||+||.++.
T Consensus 171 ~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl-----------~~~~tCPlCR~~~~ 227 (238)
T PHA02929 171 RSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWK-----------KEKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHH-----------hcCCCCCCCCCEee
Confidence 35578999999987653 445899999999999998 45678999999875
No 15
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=99.18 E-value=1.1e-11 Score=69.08 Aligned_cols=40 Identities=48% Similarity=1.070 Sum_probs=35.0
Q ss_pred CccccccCCCCe-eccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCC
Q 041693 52 CPVCLETVFDPV-SLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLC 100 (156)
Q Consensus 52 C~IC~~~~~~Pv-~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~C 100 (156)
|+||++.+.+|+ +++|||+||..|+.+|+.. .....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~---------~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLEN---------SGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHH---------TSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHh---------cCCccCCcC
Confidence 899999999999 7899999999999999821 456779987
No 16
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=99.18 E-value=9.1e-12 Score=69.90 Aligned_cols=39 Identities=41% Similarity=0.947 Sum_probs=22.8
Q ss_pred CccccccCCC----CeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCC
Q 041693 52 CPVCLETVFD----PVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCP 98 (156)
Q Consensus 52 C~IC~~~~~~----Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP 98 (156)
||||.+ +.+ |+.|+|||+||+.|+.++++.+ ....+.||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~-------~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS-------DRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH--------S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC-------CCCeeeCc
Confidence 899999 877 9999999999999999997321 13567777
No 17
>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=99.15 E-value=6.1e-12 Score=71.23 Aligned_cols=40 Identities=38% Similarity=0.952 Sum_probs=32.2
Q ss_pred cCccccccCC---CCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCC
Q 041693 51 TCPVCLETVF---DPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCR 101 (156)
Q Consensus 51 ~C~IC~~~~~---~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr 101 (156)
.|+||++.+. .++.++|||.||..||.+|+ .....||+||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~-----------~~~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWL-----------KRNNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHH-----------HHSSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHH-----------HhCCcCCccC
Confidence 6999999883 45567999999999999998 2235999996
No 18
>PHA02926 zinc finger-like protein; Provisional
Probab=99.07 E-value=1.2e-10 Score=86.17 Aligned_cols=59 Identities=25% Similarity=0.600 Sum_probs=42.9
Q ss_pred ccCCCCcccCccccccCCCC---------eeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 43 SIRLDIELTCPVCLETVFDP---------VSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 43 ~~~~~~~l~C~IC~~~~~~P---------v~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.....++..|+||++...++ +..+|+|+||..||..|.+. ....+....||.||..+..
T Consensus 164 ~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~-----r~~~~~~rsCPiCR~~f~~ 231 (242)
T PHA02926 164 VYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRT-----RRETGASDNCPICRTRFRN 231 (242)
T ss_pred HHhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHh-----ccccCcCCcCCCCcceeee
Confidence 34456789999999976432 34479999999999999731 1222446789999998754
No 19
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=99.07 E-value=1.2e-10 Score=65.92 Aligned_cols=41 Identities=39% Similarity=0.980 Sum_probs=34.3
Q ss_pred cCccccccC---CCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCc
Q 041693 51 TCPVCLETV---FDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRK 102 (156)
Q Consensus 51 ~C~IC~~~~---~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~ 102 (156)
.|++|++.+ ..|..++|||+||..|+.+.. .....||.||+
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-----------~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-----------GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-----------CCCCCCcCCCC
Confidence 489999988 456778999999999998763 56789999985
No 20
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=99.04 E-value=1.8e-10 Score=64.53 Aligned_cols=43 Identities=42% Similarity=1.069 Sum_probs=36.2
Q ss_pred cCccccccCCCCeecc-CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 51 TCPVCLETVFDPVSLT-CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 51 ~C~IC~~~~~~Pv~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
.|+||++.+.+++.+. |||.||..|+..|+. .....||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~----------~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLK----------SGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHH----------hCcCCCCCCCCc
Confidence 5999999998888775 999999999999972 246789999875
No 21
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=99.03 E-value=1.1e-10 Score=90.56 Aligned_cols=74 Identities=19% Similarity=0.371 Sum_probs=55.7
Q ss_pred ccCCCCcccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHHH
Q 041693 43 SIRLDIELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLSR 121 (156)
Q Consensus 43 ~~~~~~~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~ 121 (156)
...+....+|.+|..+|.++.++ .|-|+||++||.+++ .....||.|...+.........+.+..++.
T Consensus 9 ~~~~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l-----------~~~~~CP~C~i~ih~t~pl~ni~~Drtlqd 77 (331)
T KOG2660|consen 9 LTELNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYL-----------EESKYCPTCDIVIHKTHPLLNIRSDRTLQD 77 (331)
T ss_pred hhhcccceehhhccceeecchhHHHHHHHHHHHHHHHHH-----------HHhccCCccceeccCccccccCCcchHHHH
Confidence 44567889999999999999997 599999999999998 457899999988765432222234555555
Q ss_pred HHHHHH
Q 041693 122 SCREYW 127 (156)
Q Consensus 122 l~~~~~ 127 (156)
++-++.
T Consensus 78 iVyKLV 83 (331)
T KOG2660|consen 78 IVYKLV 83 (331)
T ss_pred HHHHHc
Confidence 555543
No 22
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.99 E-value=2.7e-10 Score=87.75 Aligned_cols=69 Identities=33% Similarity=0.681 Sum_probs=54.5
Q ss_pred cCCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHHHHH
Q 041693 44 IRLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLSRSC 123 (156)
Q Consensus 44 ~~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~ 123 (156)
..+.+.+.|+||++.|.+|++++|||+||..|+..++ .....||.||. ... .. ..|..+.+++
T Consensus 8 ~~~~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~-----------~~~~~Cp~cr~-~~~-~~----~~n~~l~~~~ 70 (386)
T KOG2177|consen 8 EVLQEELTCPICLEYFREPVLLPCGHNFCRACLTRSW-----------EGPLSCPVCRP-PSR-NL----RPNVLLANLV 70 (386)
T ss_pred hhccccccChhhHHHhhcCccccccchHhHHHHHHhc-----------CCCcCCcccCC-chh-cc----CccHHHHHHH
Confidence 3556889999999999999888999999999999887 15689999995 322 21 2677777777
Q ss_pred HHHHHH
Q 041693 124 REYWEK 129 (156)
Q Consensus 124 ~~~~~~ 129 (156)
..+...
T Consensus 71 ~~~~~~ 76 (386)
T KOG2177|consen 71 ERLRQL 76 (386)
T ss_pred HHHHhc
Confidence 777543
No 23
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.98 E-value=2.7e-10 Score=92.97 Aligned_cols=55 Identities=33% Similarity=0.739 Sum_probs=46.5
Q ss_pred cccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCc
Q 041693 49 ELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~ 109 (156)
+..||||++...-|+.+.|||.||..||.++|+.. ....-..||+|+..+..++.
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s------~~~~~~~CPiC~s~I~~kdl 240 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYS------AIKGPCSCPICRSTITLKDL 240 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhh------cccCCccCCchhhhccccce
Confidence 78999999999999999999999999999999432 23556789999999877554
No 24
>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=98.93 E-value=9.7e-10 Score=59.48 Aligned_cols=39 Identities=44% Similarity=1.148 Sum_probs=33.9
Q ss_pred CccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCC
Q 041693 52 CPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLC 100 (156)
Q Consensus 52 C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~C 100 (156)
|+||++....++.++|||.||..|+..|+. .....||.|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~----------~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLK----------SGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHH----------hCcCCCCCC
Confidence 899999999999999999999999999971 345679987
No 25
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.81 E-value=1.8e-09 Score=81.67 Aligned_cols=53 Identities=30% Similarity=0.590 Sum_probs=43.3
Q ss_pred CCcccCccccccCCCCeeccCCCcccHhhHHH-HHhhhhhccccCCCCCCCCCCCCcCcccCCc
Q 041693 47 DIELTCPVCLETVFDPVSLTCGHILCKMCACS-AASVSIVDGLKLADPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~-~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~ 109 (156)
..++.|+||++....|..++|||.||..||.. |- ......||.||+.+..+..
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t----------~~k~~~CplCRak~~pk~v 266 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWT----------KKKYEFCPLCRAKVYPKKV 266 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHH----------hhccccCchhhhhccchhh
Confidence 45799999999999999999999999999988 53 1334459999998865443
No 26
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.73 E-value=1.8e-09 Score=84.59 Aligned_cols=73 Identities=26% Similarity=0.546 Sum_probs=53.7
Q ss_pred ccCCCCcccCccccccCCCCeecc-CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCcc-chhhHHHHHH
Q 041693 43 SIRLDIELTCPVCLETVFDPVSLT-CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAI-HLTELGILLS 120 (156)
Q Consensus 43 ~~~~~~~l~C~IC~~~~~~Pv~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~-~~~~~n~~l~ 120 (156)
...+..++.|+||+++++...+++ |+|.||..||...+ ..+...||.||+.+..+... .-...+.++.
T Consensus 37 l~~~~~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~----------r~gn~ecptcRk~l~SkrsLr~Dp~fdaLis 106 (381)
T KOG0311|consen 37 LAMFDIQVICPICLSLLKKTMTTKECLHRFCFDCIWKAL----------RSGNNECPTCRKKLVSKRSLRIDPNFDALIS 106 (381)
T ss_pred HHHhhhhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHH----------HhcCCCCchHHhhccccccCCCCccHHHHHH
Confidence 445677899999999999999985 99999999998776 26678999999987653322 1112444555
Q ss_pred HHHHH
Q 041693 121 RSCRE 125 (156)
Q Consensus 121 ~l~~~ 125 (156)
.|+..
T Consensus 107 ~i~~s 111 (381)
T KOG0311|consen 107 KIYPS 111 (381)
T ss_pred HHhcc
Confidence 55444
No 27
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.70 E-value=1.6e-08 Score=81.78 Aligned_cols=73 Identities=32% Similarity=0.648 Sum_probs=54.7
Q ss_pred CCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCcc-chhhHHHHHHHHHH
Q 041693 46 LDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAI-HLTELGILLSRSCR 124 (156)
Q Consensus 46 ~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~-~~~~~n~~l~~l~~ 124 (156)
+..++.|.||...+..|++++|||+||..||.+.+ .....||.||..+...... ....+|+....++.
T Consensus 81 ~~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~l-----------d~~~~cp~Cr~~l~e~~~~~~~~~~~r~~~~li~ 149 (398)
T KOG4159|consen 81 IRSEFECCVCSRALYPPVVTPCGHSFCLECLDRSL-----------DQETECPLCRDELVELPALEQALSLNRLLCKLIT 149 (398)
T ss_pred ccchhhhhhhHhhcCCCccccccccccHHHHHHHh-----------ccCCCCcccccccccchHHHHHHHHHHHHHHHHH
Confidence 36789999999999999999999999999998876 4678899999998642221 11113555556666
Q ss_pred HHHHH
Q 041693 125 EYWEK 129 (156)
Q Consensus 125 ~~~~~ 129 (156)
.|+..
T Consensus 150 ~F~~~ 154 (398)
T KOG4159|consen 150 KFLEG 154 (398)
T ss_pred Hhhhh
Confidence 65544
No 28
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.69 E-value=2.7e-08 Score=77.62 Aligned_cols=51 Identities=27% Similarity=0.596 Sum_probs=38.3
Q ss_pred CcccCcccccc-CCCCe---ec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCC
Q 041693 48 IELTCPVCLET-VFDPV---SL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQG 108 (156)
Q Consensus 48 ~~l~C~IC~~~-~~~Pv---~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~ 108 (156)
++..||+|... +..|- .+ +|||.||..|+...+ ..+...||.|+..+....
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~----------~~~~~~CP~C~~~lrk~~ 57 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLF----------VRGSGSCPECDTPLRKNN 57 (309)
T ss_pred CCCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHh----------cCCCCCCCCCCCccchhh
Confidence 35789999983 44554 22 699999999999987 244568999999876543
No 29
>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=98.67 E-value=2.1e-08 Score=62.74 Aligned_cols=40 Identities=38% Similarity=0.898 Sum_probs=31.6
Q ss_pred cCccccccCCCC------------ee-ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCC
Q 041693 51 TCPVCLETVFDP------------VS-LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCR 101 (156)
Q Consensus 51 ~C~IC~~~~~~P------------v~-l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr 101 (156)
.|+||++.+.+| +. .+|||.|...||.+|+ .....||+||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl-----------~~~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWL-----------KQNNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHH-----------TTSSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHH-----------hcCCcCCCCC
Confidence 499999998333 33 3799999999999999 5555999997
No 30
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=98.57 E-value=1.3e-08 Score=86.56 Aligned_cols=56 Identities=29% Similarity=0.548 Sum_probs=47.7
Q ss_pred cCCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCc
Q 041693 44 IRLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 44 ~~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~ 109 (156)
..+..-++||+|..-+++.+++.|||.||..|+.+.. .....+||.|...+...+.
T Consensus 638 k~yK~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~----------etRqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 638 KEYKELLKCSVCNTRWKDAVITKCGHVFCEECVQTRY----------ETRQRKCPKCNAAFGANDV 693 (698)
T ss_pred HHHHhceeCCCccCchhhHHHHhcchHHHHHHHHHHH----------HHhcCCCCCCCCCCCcccc
Confidence 4556789999999999999999999999999998876 2456789999999976655
No 31
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=98.45 E-value=1.3e-07 Score=73.03 Aligned_cols=45 Identities=36% Similarity=0.882 Sum_probs=39.4
Q ss_pred cccCccccccCCCCeecc-CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 49 ELTCPVCLETVFDPVSLT-CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
.|.||+|..++++|+.++ |+|+||..||...+ ....+.||.|...
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al----------~dsDf~CpnC~rk 319 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTAL----------LDSDFKCPNCSRK 319 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhh----------hhccccCCCcccc
Confidence 399999999999999996 89999999998776 3567999999763
No 32
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=98.42 E-value=2.9e-07 Score=58.66 Aligned_cols=50 Identities=22% Similarity=0.533 Sum_probs=36.2
Q ss_pred cccCccccccCC------------CCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 49 ELTCPVCLETVF------------DPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 49 ~l~C~IC~~~~~------------~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
+-.|+||+..|. -|+.+ .|+|.|...||.+|++. +.....||+||++...
T Consensus 21 dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~--------~~~~~~CPmCR~~w~~ 83 (85)
T PF12861_consen 21 DDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLST--------QSSKGQCPMCRQPWKF 83 (85)
T ss_pred CCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHcc--------ccCCCCCCCcCCeeee
Confidence 556777776653 14444 69999999999999832 2345799999998654
No 33
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=98.38 E-value=2.1e-07 Score=55.42 Aligned_cols=44 Identities=32% Similarity=0.693 Sum_probs=30.9
Q ss_pred CCcccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCC
Q 041693 47 DIELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPL 99 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~ 99 (156)
...+.|||.+..|.+||.- .|||+|.+..|..+++ ......||+
T Consensus 9 ~~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~---------~~~~~~CPv 53 (57)
T PF11789_consen 9 TISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQ---------RNGSKRCPV 53 (57)
T ss_dssp B--SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCT---------TTS-EE-SC
T ss_pred EeccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHH---------hcCCCCCCC
Confidence 3468999999999999985 8999999999999971 256788998
No 34
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=98.36 E-value=2.4e-07 Score=67.60 Aligned_cols=47 Identities=32% Similarity=0.775 Sum_probs=41.2
Q ss_pred CcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 48 IELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
-.+.|.||...|..||.+.|||.||..|..+-. .....|-+|.+...
T Consensus 195 IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y-----------~kg~~C~~Cgk~t~ 241 (259)
T COG5152 195 IPFLCGICKKDYESPVVTECGHSFCSLCAIRKY-----------QKGDECGVCGKATY 241 (259)
T ss_pred CceeehhchhhccchhhhhcchhHHHHHHHHHh-----------ccCCcceecchhhc
Confidence 357999999999999999999999999997765 66788999988763
No 35
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.33 E-value=2.2e-07 Score=71.70 Aligned_cols=49 Identities=27% Similarity=0.558 Sum_probs=41.1
Q ss_pred cccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 49 ELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
.-.|+||+....-|+.++|+|.||.-||.... ......|++||.++...
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy----------~ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSY----------KNDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchh----------hcCCCCCceecCCCCcc
Confidence 45899999999999999999999999997553 24556799999998643
No 36
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=4e-07 Score=72.18 Aligned_cols=49 Identities=31% Similarity=0.848 Sum_probs=41.2
Q ss_pred CCcccCcccccc-CCC------------CeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 47 DIELTCPVCLET-VFD------------PVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 47 ~~~l~C~IC~~~-~~~------------Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.++-.|.||++- +.. |..+||||.+...|++.|+ .....||.||.++..
T Consensus 285 n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~-----------ERqQTCPICr~p~if 346 (491)
T COG5243 285 NSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWL-----------ERQQTCPICRRPVIF 346 (491)
T ss_pred CCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHH-----------HhccCCCcccCcccc
Confidence 567899999986 433 4789999999999999998 677899999999543
No 37
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.27 E-value=2.5e-07 Score=78.26 Aligned_cols=47 Identities=34% Similarity=0.720 Sum_probs=41.5
Q ss_pred CCcccCccccccCCC-----CeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 47 DIELTCPVCLETVFD-----PVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~-----Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
..+..|+||.+.+.. |..++|||.|+..|+.+|+ .....||.||..+
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~-----------er~qtCP~CR~~~ 340 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWF-----------ERQQTCPTCRTVL 340 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHH-----------HHhCcCCcchhhh
Confidence 447899999999988 8899999999999999999 4577899999954
No 38
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=7e-07 Score=68.76 Aligned_cols=46 Identities=30% Similarity=0.802 Sum_probs=40.5
Q ss_pred cccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.+.|-||.+.|..||.+.|||+||..|..+.+ ..+..|++|.+.+.
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~-----------qk~~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPY-----------QKGEKCYVCSQQTH 286 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhcccc-----------ccCCcceecccccc
Confidence 45699999999999999999999999997665 56788999998874
No 39
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=1.7e-06 Score=66.00 Aligned_cols=52 Identities=35% Similarity=0.710 Sum_probs=42.8
Q ss_pred CCCCcccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 45 RLDIELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
....+.+||+|.+....|.++ +|||.||.-|+.+.. .....+.||.|..+..
T Consensus 235 ~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~---------~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 235 TGTSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSR---------LWDASFTCPLCGENVE 287 (298)
T ss_pred cccCCceeeccCCCCCCCeeeccccceeehhhhhhhh---------cchhhcccCccCCCCc
Confidence 445678999999999999987 599999999997764 1245689999998764
No 40
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=98.12 E-value=2e-06 Score=69.94 Aligned_cols=53 Identities=38% Similarity=0.867 Sum_probs=45.7
Q ss_pred CCCcccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCc
Q 041693 46 LDIELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 46 ~~~~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~ 109 (156)
+++++.|++|..++.+|+.. .|||.||..|+..|+ .....||.|+..+.....
T Consensus 18 ~~~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~-----------~~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 18 LDENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESL-----------SNHQKCPVCRQELTQAEE 71 (391)
T ss_pred CcccccCccccccccCCCCCCCCCCcccccccchhh-----------ccCcCCcccccccchhhc
Confidence 67889999999999999995 999999999999887 447899999888765443
No 41
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=1.6e-06 Score=68.79 Aligned_cols=47 Identities=26% Similarity=0.494 Sum_probs=38.0
Q ss_pred ccCccccccCCCC---eeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 50 LTCPVCLETVFDP---VSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 50 l~C~IC~~~~~~P---v~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.+|.||++-|..- ..|||+|.|...||..|+ ...+..||+|+..+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL----------~~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWL----------TQTRTFCPVCKRDIRT 279 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhH----------hhcCccCCCCCCcCCC
Confidence 4999999988643 347999999999999998 2335679999998754
No 42
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.05 E-value=2.1e-06 Score=66.45 Aligned_cols=49 Identities=27% Similarity=0.564 Sum_probs=40.1
Q ss_pred CCcccCccccccCCC---CeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 47 DIELTCPVCLETVFD---PVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~---Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.....|.||+.-|.+ -+.+||.|.|...|+.+|+ ......||+||.+++
T Consensus 321 ~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~----------~~y~~~CPvCrt~iP 372 (374)
T COG5540 321 DKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWL----------LGYSNKCPVCRTAIP 372 (374)
T ss_pred CCCceEEEEhhhhcccceEEEeccCceechhHHHHHH----------hhhcccCCccCCCCC
Confidence 345899999998743 2347999999999999998 246789999999875
No 43
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.83 E-value=2.3e-05 Score=65.02 Aligned_cols=54 Identities=20% Similarity=0.560 Sum_probs=43.9
Q ss_pred CcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 48 IELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
....|.+|.+...+++...|.|+||+.|+..|.. . ...+....||+|...++..
T Consensus 535 ~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~-----~-f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 535 GEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVE-----S-FMENNNVTCPVCHIGLSID 588 (791)
T ss_pred CceeecccCChhhhhHhhhhhHHHHHHHHHHHHH-----h-hhcccCCCCcccccccccc
Confidence 4578999999999999999999999999998862 1 1224458999999887543
No 44
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=97.80 E-value=7.8e-06 Score=50.68 Aligned_cols=58 Identities=21% Similarity=0.453 Sum_probs=25.3
Q ss_pred cccCccccccCC-C---Ceec----cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 49 ELTCPVCLETVF-D---PVSL----TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 49 ~l~C~IC~~~~~-~---Pv~l----~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
++.|+||+..+. . |... .|+++|-..||.+|+.........-......||.|+.+++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~~ 67 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPISW 67 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEEG
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeeeE
Confidence 578999999764 2 3332 59999999999999943221111111112469999998753
No 45
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.78 E-value=5.9e-05 Score=60.66 Aligned_cols=54 Identities=30% Similarity=0.655 Sum_probs=42.2
Q ss_pred CCcccCccccccCCCCe-----eccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCc
Q 041693 47 DIELTCPVCLETVFDPV-----SLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv-----~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~ 109 (156)
....+||||++.+.-|. .+.|||.|-..||.+|+. ....+.||.|........+
T Consensus 2 d~g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~---------k~~~~~cp~c~~katkr~i 60 (463)
T KOG1645|consen 2 DCGTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG---------KKTKMQCPLCSGKATKRQI 60 (463)
T ss_pred CccccCceeeeeeeecCceEEeeecccccccHHHHHHHHh---------hhhhhhCcccCChhHHHHH
Confidence 34679999999887664 457999999999999981 2557889999887654443
No 46
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=2e-05 Score=62.88 Aligned_cols=56 Identities=23% Similarity=0.593 Sum_probs=41.6
Q ss_pred CCcccCccccccCCCCe-----e---ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 47 DIELTCPVCLETVFDPV-----S---LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv-----~---l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
..+..|.||++...+.. . .+|.|+||..||.+|..+.. ........||.||.....
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q----~~~~~sksCP~CRv~s~~ 222 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQ----FESKTSKSCPFCRVPSSF 222 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhc----cccccccCCCcccCcccc
Confidence 45789999999887766 3 35999999999999963211 122346899999998754
No 47
>PF04641 Rtf2: Rtf2 RING-finger
Probab=97.72 E-value=7.3e-05 Score=57.74 Aligned_cols=69 Identities=22% Similarity=0.346 Sum_probs=49.4
Q ss_pred CCCcccCccccccCCCC---eec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHHH
Q 041693 46 LDIELTCPVCLETVFDP---VSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLSR 121 (156)
Q Consensus 46 ~~~~l~C~IC~~~~~~P---v~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~ 121 (156)
-...+.|||....|..- +.+ +|||+|+..++... .....||+|..++...+++.+......+..
T Consensus 110 ~~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~------------k~~~~Cp~c~~~f~~~DiI~Lnp~~ee~~~ 177 (260)
T PF04641_consen 110 SEGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKEL------------KKSKKCPVCGKPFTEEDIIPLNPPEEELEK 177 (260)
T ss_pred CCceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhh------------cccccccccCCccccCCEEEecCCccHHHH
Confidence 35679999999988432 233 89999999999764 234569999999988777766555555544
Q ss_pred HHHHH
Q 041693 122 SCREY 126 (156)
Q Consensus 122 l~~~~ 126 (156)
+...+
T Consensus 178 l~~~~ 182 (260)
T PF04641_consen 178 LRERM 182 (260)
T ss_pred HHHHH
Confidence 44444
No 48
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=97.68 E-value=1.8e-05 Score=64.29 Aligned_cols=35 Identities=40% Similarity=0.871 Sum_probs=31.6
Q ss_pred CCCcccCccccccCCCCeeccCCCcccHhhHHHHH
Q 041693 46 LDIELTCPVCLETVFDPVSLTCGHILCKMCACSAA 80 (156)
Q Consensus 46 ~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~ 80 (156)
+++++.||||..+|.+|++++|+|+.|+.|....+
T Consensus 1 meeelkc~vc~~f~~epiil~c~h~lc~~ca~~~~ 35 (699)
T KOG4367|consen 1 MEEELKCPVCGSFYREPIILPCSHNLCQACARNIL 35 (699)
T ss_pred CcccccCceehhhccCceEeecccHHHHHHHHhhc
Confidence 46789999999999999999999999999987543
No 49
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.63 E-value=1e-05 Score=46.93 Aligned_cols=46 Identities=33% Similarity=0.756 Sum_probs=38.0
Q ss_pred ccCccccccCCCCeeccCCCc-ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 50 LTCPVCLETVFDPVSLTCGHI-LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 50 l~C~IC~~~~~~Pv~l~CgH~-fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
-.|.||.+-..+.|.-.|||- .|..|-.+.+ ......||.||+++.
T Consensus 8 dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~----------~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 8 DECTICYEHPVDSVLYTCGHMCMCYACGLRLK----------KALHGCCPICRAPIK 54 (62)
T ss_pred cceeeeccCcchHHHHHcchHHhHHHHHHHHH----------HccCCcCcchhhHHH
Confidence 589999998888888899996 6999988776 135678999999874
No 50
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=97.54 E-value=3.5e-05 Score=62.63 Aligned_cols=48 Identities=31% Similarity=0.617 Sum_probs=38.4
Q ss_pred CCCCcccCccccccCCCCe----eccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 45 RLDIELTCPVCLETVFDPV----SLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv----~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.+.+..+||||++-+-..+ ++.|.|+|-..|+..|+ ..+||+||....
T Consensus 171 ~~tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~-------------~~scpvcR~~q~ 222 (493)
T KOG0804|consen 171 GLTELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW-------------DSSCPVCRYCQS 222 (493)
T ss_pred CcccCCCcchhHhhcCccccceeeeecccccchHHHhhcc-------------cCcChhhhhhcC
Confidence 3456789999999886665 35799999999999986 457999987543
No 51
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.47 E-value=7.1e-05 Score=59.31 Aligned_cols=48 Identities=21% Similarity=0.567 Sum_probs=42.5
Q ss_pred CCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 47 DIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.++-.||||..--...+..||+|.-|..||.+++ -+.+.|-.|+..+.
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHl-----------mN~k~CFfCktTv~ 467 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHL-----------MNCKRCFFCKTTVI 467 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHH-----------hcCCeeeEecceee
Confidence 5678999999988888899999999999999998 66788999988764
No 52
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.45 E-value=7.7e-05 Score=59.07 Aligned_cols=47 Identities=38% Similarity=0.768 Sum_probs=39.9
Q ss_pred CcccCccccccCCCCeeccCCCc-ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 48 IELTCPVCLETVFDPVSLTCGHI-LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~l~CgH~-fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
..-.|-||+.-.++-+.+||.|. .|..|..... -....||+||+++.
T Consensus 289 ~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-----------~q~n~CPICRqpi~ 336 (349)
T KOG4265|consen 289 SGKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-----------YQTNNCPICRQPIE 336 (349)
T ss_pred CCCeeEEEecCCcceEEecchhhehhHhHHHHHH-----------HhhcCCCccccchH
Confidence 36789999999999999999997 7999997664 34567999999874
No 53
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.38 E-value=0.00013 Score=55.22 Aligned_cols=54 Identities=24% Similarity=0.353 Sum_probs=45.7
Q ss_pred CcccCccccccCCCCee---c-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccch
Q 041693 48 IELTCPVCLETVFDPVS---L-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHL 112 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~---l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~ 112 (156)
..+.||+|.+.+.+.+. | +|||+||..|..+.. ...+.||+|..++...+++.+
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEkli-----------r~D~v~pv~d~plkdrdiI~L 277 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLI-----------RKDMVDPVTDKPLKDRDIIGL 277 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhc-----------cccccccCCCCcCcccceEee
Confidence 56899999999977653 2 899999999999987 677899999999988777655
No 54
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=97.31 E-value=0.00011 Score=59.12 Aligned_cols=48 Identities=31% Similarity=0.647 Sum_probs=38.9
Q ss_pred cCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 51 TCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 51 ~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
.|.||-+-=++-.+-||||..|..|+..|. ....+..||.||..+.-.
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ---------~sd~gq~CPFCRcEIKGt 418 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQ---------DSDEGQTCPFCRCEIKGT 418 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhc---------ccCCCCCCCceeeEeccc
Confidence 699999987777677999999999998885 223478899999987543
No 55
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.29 E-value=0.00031 Score=55.04 Aligned_cols=67 Identities=25% Similarity=0.540 Sum_probs=45.9
Q ss_pred cccCccccccC------CCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc--cCCccchhhHHHHHH
Q 041693 49 ELTCPVCLETV------FDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV--YQGAIHLTELGILLS 120 (156)
Q Consensus 49 ~l~C~IC~~~~------~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~--~~~~~~~~~~n~~l~ 120 (156)
.+.|-||.+.| ..|..+.|||++|..|+.+.+ ......||.||.+.. ......+ ..|..+.
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~----------~~~~i~cpfcR~~~~~~~~~~~~l-~kNf~ll 71 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLL----------GNSRILCPFCRETTEIPDGDVKSL-QKNFALL 71 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHh----------cCceeeccCCCCcccCCchhHhhh-hhhHHHH
Confidence 36788998876 457778899999999998886 355677899999952 2222222 3555555
Q ss_pred HHHHHH
Q 041693 121 RSCREY 126 (156)
Q Consensus 121 ~l~~~~ 126 (156)
..+...
T Consensus 72 ~~~~~~ 77 (296)
T KOG4185|consen 72 QAIEHM 77 (296)
T ss_pred HHHHHH
Confidence 555443
No 56
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.15 E-value=0.0002 Score=59.08 Aligned_cols=50 Identities=20% Similarity=0.450 Sum_probs=38.0
Q ss_pred CCCcccCccccccCC-----------------CCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 46 LDIELTCPVCLETVF-----------------DPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 46 ~~~~l~C~IC~~~~~-----------------~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
++...-|+||..... +-..+||.|.|...|+.+|.+ .....||+||.+++
T Consensus 568 ~~~t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd----------~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 568 VRRTNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMD----------TYKLICPVCRCPLP 634 (636)
T ss_pred hhccccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHh----------hhcccCCccCCCCC
Confidence 345678999997541 123459999999999999982 34578999999874
No 57
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.11 E-value=0.00011 Score=63.57 Aligned_cols=47 Identities=28% Similarity=0.560 Sum_probs=38.4
Q ss_pred CcccCccccccCCCCee---ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 48 IELTCPVCLETVFDPVS---LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~---l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
..-.||+|...+.+-.. .+|+|.||..|+..|- .....||+||..+.
T Consensus 122 ~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWs-----------R~aqTCPiDR~EF~ 171 (1134)
T KOG0825|consen 122 VENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWS-----------RCAQTCPVDRGEFG 171 (1134)
T ss_pred hhhhhhHHHHHHHHHhhccccccccccHHHHhhhhh-----------hhcccCchhhhhhh
Confidence 35689999988866544 3699999999999996 56778999999874
No 58
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.07 E-value=0.0016 Score=52.68 Aligned_cols=54 Identities=24% Similarity=0.509 Sum_probs=38.2
Q ss_pred CCcccCccccccCCCCe---eccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 47 DIELTCPVCLETVFDPV---SLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv---~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
...+.|.||++.....+ .+||+|.||+.|+..|+...+.. ......+||.+.-.
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~e---g~v~~l~Cp~~~C~ 238 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQE---GQVSCLKCPDPKCG 238 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhc---ceeeeecCCCCCCc
Confidence 34678999999876543 46999999999999998544321 22445778866544
No 59
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.0002 Score=44.53 Aligned_cols=48 Identities=23% Similarity=0.549 Sum_probs=34.4
Q ss_pred cCccccccCC------------CCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 51 TCPVCLETVF------------DPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 51 ~C~IC~~~~~------------~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
+|.||+-.|. -|..+ -|.|.|-.-||.+|+++ ..+...||+||+....
T Consensus 22 ~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~--------~tsq~~CPmcRq~~~~ 82 (84)
T KOG1493|consen 22 TCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNT--------PTSQGQCPMCRQTWQF 82 (84)
T ss_pred ccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcC--------ccccccCCcchheeEe
Confidence 6666665552 24444 59999999999999832 2445789999997653
No 60
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.97 E-value=0.00019 Score=54.95 Aligned_cols=51 Identities=20% Similarity=0.572 Sum_probs=39.8
Q ss_pred CcccCccccccCCCC----------eeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 48 IELTCPVCLETVFDP----------VSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 48 ~~l~C~IC~~~~~~P----------v~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
++-.|.||.+-+... ..++|+|+|-..||..|- -.+....||.|++.+..+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWc---------ivGKkqtCPYCKekVdl~ 283 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWC---------IVGKKQTCPYCKEKVDLK 283 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhhe---------eecCCCCCchHHHHhhHh
Confidence 467899999876433 467999999999998884 236678999999887543
No 61
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=96.91 E-value=0.00067 Score=39.63 Aligned_cols=47 Identities=26% Similarity=0.607 Sum_probs=36.2
Q ss_pred CcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 48 IELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
....|-.|...-...+.++|||..|..|..- ..-..||.|..++...
T Consensus 6 ~~~~~~~~~~~~~~~~~~pCgH~I~~~~f~~-------------~rYngCPfC~~~~~~~ 52 (55)
T PF14447_consen 6 PEQPCVFCGFVGTKGTVLPCGHLICDNCFPG-------------ERYNGCPFCGTPFEFD 52 (55)
T ss_pred cceeEEEccccccccccccccceeeccccCh-------------hhccCCCCCCCcccCC
Confidence 4556777777777788899999999999842 3345699999988654
No 62
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.00017 Score=55.75 Aligned_cols=42 Identities=36% Similarity=0.895 Sum_probs=34.9
Q ss_pred cccCccccccCCCCeeccCCCc-ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVFDPVSLTCGHI-LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~-fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
...|.||++..++-+.|+|||. -|..|-.+ ...||+||+.+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr---------------m~eCPICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKR---------------MNECPICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccc---------------cccCchHHHHHH
Confidence 6789999999999999999996 48888633 348999998764
No 63
>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=96.83 E-value=0.0017 Score=37.24 Aligned_cols=42 Identities=19% Similarity=0.558 Sum_probs=31.1
Q ss_pred cCccccc--cCCCCeeccCC-----CcccHhhHHHHHhhhhhccccCCCCCCCCCCCC
Q 041693 51 TCPVCLE--TVFDPVSLTCG-----HILCKMCACSAASVSIVDGLKLADPTEKCPLCR 101 (156)
Q Consensus 51 ~C~IC~~--~~~~Pv~l~Cg-----H~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr 101 (156)
.|.||++ .-.+|...||. |.+-..|+.+|+.. .....||+|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~---------~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINE---------SGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHH---------cCCCcCCCCC
Confidence 4889997 34566777874 77999999999832 3345899985
No 64
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=96.81 E-value=0.0012 Score=37.68 Aligned_cols=43 Identities=30% Similarity=0.772 Sum_probs=20.5
Q ss_pred CccccccCC--CCeec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 52 CPVCLETVF--DPVSL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 52 C~IC~~~~~--~Pv~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
||+|.+.+- +-... +||+-+|..|..+.+ ......||-||++.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~----------~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDIL----------ENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHT----------TSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHH----------hccCCCCCCCCCCC
Confidence 788888762 22223 589999999998875 13578899999863
No 65
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=96.77 E-value=0.0015 Score=40.94 Aligned_cols=31 Identities=29% Similarity=0.544 Sum_probs=26.7
Q ss_pred cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 66 TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 66 ~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
.|.|.|-.-||.+|+ .....||++|++....
T Consensus 53 ~CnHaFH~HCI~rWL-----------~Tk~~CPld~q~w~~~ 83 (88)
T COG5194 53 VCNHAFHDHCIYRWL-----------DTKGVCPLDRQTWVLA 83 (88)
T ss_pred ecchHHHHHHHHHHH-----------hhCCCCCCCCceeEEe
Confidence 599999999999999 4577899999987654
No 66
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=96.75 E-value=0.00057 Score=60.43 Aligned_cols=49 Identities=22% Similarity=0.492 Sum_probs=37.4
Q ss_pred CcccCccccccCC-----CCee--ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 48 IELTCPVCLETVF-----DPVS--LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 48 ~~l~C~IC~~~~~-----~Pv~--l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
-.-.|+||..++. -|-. -.|.|-|..+|+.+|+. .+++.+||.||..++
T Consensus 1468 G~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~---------Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1468 GHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFA---------SSARSNCPLCRSEIT 1523 (1525)
T ss_pred CcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHH---------hcCCCCCCccccccc
Confidence 3457999998874 2322 25999999999999983 256788999998764
No 67
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.73 E-value=0.00071 Score=53.77 Aligned_cols=46 Identities=33% Similarity=0.758 Sum_probs=35.9
Q ss_pred CCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 46 LDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 46 ~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
......|-||.+-..+.+.+||||.-| |..-. .....||+||+.+.
T Consensus 302 ~~~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs------------~~l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 302 LPQPDLCVVCLDEPKSAVFVPCGHVCC--CTLCS------------KHLPQCPVCRQRIR 347 (355)
T ss_pred cCCCCceEEecCCccceeeecCCcEEE--chHHH------------hhCCCCchhHHHHH
Confidence 344578999999999999999999977 76544 33445999998764
No 68
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.61 E-value=0.0012 Score=53.05 Aligned_cols=46 Identities=24% Similarity=0.633 Sum_probs=31.9
Q ss_pred ccCccccccCCCCe---ec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 50 LTCPVCLETVFDPV---SL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 50 l~C~IC~~~~~~Pv---~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
..|.||-+.+..-. .+ .|||+|-..|+.+|+. ..-....||.|+-.
T Consensus 5 A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe--------~~Ps~R~cpic~ik 54 (465)
T KOG0827|consen 5 AECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFE--------GDPSNRGCPICQIK 54 (465)
T ss_pred ceeeEeccCCccccccccccchhhHHHHHHHHHHHc--------cCCccCCCCceeec
Confidence 47999966553222 23 4999999999999982 11122689999944
No 69
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=96.59 E-value=0.0041 Score=48.23 Aligned_cols=46 Identities=30% Similarity=0.660 Sum_probs=36.0
Q ss_pred cCccccc-cCCCCee-c---cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 51 TCPVCLE-TVFDPVS-L---TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 51 ~C~IC~~-~~~~Pv~-l---~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.||+|.. .+..|-. + +|||..|.+|..+.+ ..+...||.|...+..
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF----------~~g~~~CpeC~~iLRk 52 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIF----------SLGPAQCPECMVILRK 52 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHH----------hcCCCCCCcccchhhh
Confidence 5999986 4556642 1 799999999999998 3667899999887654
No 70
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=96.55 E-value=0.0035 Score=44.50 Aligned_cols=60 Identities=25% Similarity=0.446 Sum_probs=37.8
Q ss_pred CcccCccccccCCCCeeccCC------------Ccc-cHhhHHHHHhhhhhcc--------------------ccCCCCC
Q 041693 48 IELTCPVCLETVFDPVSLTCG------------HIL-CKMCACSAASVSIVDG--------------------LKLADPT 94 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~l~Cg------------H~f-C~~Ci~~~~~~~~~~~--------------------~~~~~~~ 94 (156)
++.+||||++...+.|.|-|. .+| -..|+.++-....... .......
T Consensus 1 ed~~CpICme~PHNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQPE 80 (162)
T ss_pred CCccCceeccCCCceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccccc
Confidence 468999999999999988543 222 2467777653311000 1112235
Q ss_pred CCCCCCCcCcccC
Q 041693 95 EKCPLCRKAGVYQ 107 (156)
Q Consensus 95 ~~CP~Cr~~~~~~ 107 (156)
..||+||..+.-.
T Consensus 81 L~CPLCRG~V~GW 93 (162)
T PF07800_consen 81 LACPLCRGEVKGW 93 (162)
T ss_pred ccCccccCceece
Confidence 7899999998543
No 71
>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=96.54 E-value=0.002 Score=37.19 Aligned_cols=48 Identities=31% Similarity=0.627 Sum_probs=24.6
Q ss_pred cccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 49 ELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
.|.||+....+..|+.. .|.|.-|.+ +..++..+. ......||.|.++
T Consensus 2 sL~CPls~~~i~~P~Rg~~C~H~~CFD-l~~fl~~~~------~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 2 SLRCPLSFQRIRIPVRGKNCKHLQCFD-LESFLESNQ------RTPKWKCPICNKP 50 (50)
T ss_dssp ESB-TTTSSB-SSEEEETT--SS--EE-HHHHHHHHH------HS---B-TTT---
T ss_pred eeeCCCCCCEEEeCccCCcCcccceEC-HHHHHHHhh------ccCCeECcCCcCc
Confidence 47899999999999986 699998765 334443221 1345899999763
No 72
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.0014 Score=55.75 Aligned_cols=36 Identities=36% Similarity=0.850 Sum_probs=30.2
Q ss_pred CCCCcccCccccccC----CCCeeccCCCcccHhhHHHHH
Q 041693 45 RLDIELTCPVCLETV----FDPVSLTCGHILCKMCACSAA 80 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~----~~Pv~l~CgH~fC~~Ci~~~~ 80 (156)
.+.+-+.|+||+..| ..|+.+.|||+.|+.|+....
T Consensus 7 ~w~~~l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~ly 46 (861)
T KOG3161|consen 7 KWVLLLLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLLY 46 (861)
T ss_pred hhHHHhhchHHHHHHHHHhcCcccccccchHHHHHHHhHh
Confidence 455678999998776 579999999999999997764
No 73
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=96.35 E-value=0.02 Score=43.38 Aligned_cols=44 Identities=32% Similarity=0.828 Sum_probs=30.8
Q ss_pred ccCccccccC-CCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 50 LTCPVCLETV-FDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 50 l~C~IC~~~~-~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.-|..|...- .+|..| .|+|+||..|.... ....||.|++++..
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~-------------~~~~C~lCkk~ir~ 49 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKAS-------------SPDVCPLCKKSIRI 49 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccC-------------Cccccccccceeee
Confidence 4677777643 455544 79999999998432 22389999998643
No 74
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.35 E-value=0.0016 Score=56.58 Aligned_cols=47 Identities=26% Similarity=0.574 Sum_probs=38.3
Q ss_pred ccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 50 LTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 50 l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
..|++|.+ ...++.+.|||.||..|+...+. ......||.||..+..
T Consensus 455 ~~c~ic~~-~~~~~it~c~h~~c~~c~~~~i~---------~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 455 HWCHICCD-LDSFFITRCGHDFCVECLKKSIQ---------QSENAPCPLCRNVLKE 501 (674)
T ss_pred cccccccc-cccceeecccchHHHHHHHhccc---------cccCCCCcHHHHHHHH
Confidence 89999999 78888899999999999988761 1223389999988754
No 75
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=96.30 E-value=0.0033 Score=49.54 Aligned_cols=47 Identities=28% Similarity=0.563 Sum_probs=39.5
Q ss_pred CCcccCccccccCCCCeecc-CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 47 DIELTCPVCLETVFDPVSLT-CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
.+.-.||+|+....+|..+. -|-+||..|+..++ ..-..||+-..+.
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv-----------~~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYV-----------VNYGHCPVTGYPA 345 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHH-----------HhcCCCCccCCcc
Confidence 45678999999999998885 69999999999998 5667899876654
No 76
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=96.30 E-value=0.0052 Score=48.39 Aligned_cols=47 Identities=32% Similarity=0.639 Sum_probs=37.8
Q ss_pred CCCCcccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 45 RLDIELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
...+-+.||||.+.+..|+.- +=||.-|..|-.+ ....||.||.++.
T Consensus 44 ~~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~--------------~~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 44 LDLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTK--------------VSNKCPTCRLPIG 91 (299)
T ss_pred cchhhccCchhhccCcccceecCCCcEehhhhhhh--------------hcccCCccccccc
Confidence 345678999999999999653 4599999999853 3568999999986
No 77
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.23 E-value=0.0034 Score=50.59 Aligned_cols=53 Identities=28% Similarity=0.541 Sum_probs=39.3
Q ss_pred CCCcccCccccccC---CCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 46 LDIELTCPVCLETV---FDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 46 ~~~~l~C~IC~~~~---~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
...-+.|||=.+-- ..|+.+.|||+.|+.-+.+.. +++..+++||.|-.....
T Consensus 331 fHSvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS--------~ng~~sfKCPYCP~e~~~ 386 (394)
T KOG2817|consen 331 FHSVFICPVLKEQTSDENPPMMLICGHVISKDALNRLS--------KNGSQSFKCPYCPVEQLA 386 (394)
T ss_pred ccceeecccchhhccCCCCCeeeeccceecHHHHHHHh--------hCCCeeeeCCCCCcccCH
Confidence 44568999977654 468899999999999998875 212336999999766543
No 78
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.0045 Score=50.45 Aligned_cols=54 Identities=28% Similarity=0.590 Sum_probs=35.3
Q ss_pred cccCcccc-ccCCCCe---eccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCC--CCcCcccC
Q 041693 49 ELTCPVCL-ETVFDPV---SLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPL--CRKAGVYQ 107 (156)
Q Consensus 49 ~l~C~IC~-~~~~~Pv---~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~--Cr~~~~~~ 107 (156)
..+|.||. +...... +..|+|-||..|+.+++.+ ....+....||. |...++..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev-----~~~~~~~~~C~~~~C~~~l~~~ 205 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEV-----KLLSGTVIRCPHDGCESRLTLE 205 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhh-----hhccCCCccCCCCCCCccCCHH
Confidence 56899999 4332212 3469999999999999832 233456778874 54444433
No 79
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=95.90 E-value=0.0026 Score=51.31 Aligned_cols=46 Identities=35% Similarity=0.731 Sum_probs=36.4
Q ss_pred CcccCccccccC-CCCe---eccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCc
Q 041693 48 IELTCPVCLETV-FDPV---SLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRK 102 (156)
Q Consensus 48 ~~l~C~IC~~~~-~~Pv---~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~ 102 (156)
-++.|..|.+.+ -.|- -+||.|+|-..|+.+++- .+....||.||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~---------~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILE---------NNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHH---------hCCCCCCccHHH
Confidence 368999999986 2333 359999999999999871 256789999994
No 80
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=95.89 E-value=0.0016 Score=55.97 Aligned_cols=54 Identities=31% Similarity=0.669 Sum_probs=43.3
Q ss_pred CCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 45 RLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.+...+.||||...++.|+.+.|-|.||..|+...+ ........||+|+..+..
T Consensus 17 ~~~k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f--------~~~~~~~~~~lc~~~~eK 70 (684)
T KOG4362|consen 17 AMQKILECPICLEHVKEPSLLKCDHIFLKFCLNKLF--------ESKKGPKQCALCKSDIEK 70 (684)
T ss_pred HHhhhccCCceeEEeeccchhhhhHHHHhhhhhcee--------eccCccccchhhhhhhhh
Confidence 446689999999999999999999999999997665 112337889999876543
No 81
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=95.88 E-value=0.049 Score=41.55 Aligned_cols=37 Identities=16% Similarity=0.143 Sum_probs=32.3
Q ss_pred cCCCCcccCccccccCCCCeeccCCCcccHhhHHHHH
Q 041693 44 IRLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAA 80 (156)
Q Consensus 44 ~~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~ 80 (156)
.++.+.-.|.+|++.+.+||+++=||.||+.||.+++
T Consensus 38 DsiK~FdcCsLtLqPc~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 38 DSIKPFDCCSLTLQPCRDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred cccCCcceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence 3445556899999999999999999999999998886
No 82
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=95.62 E-value=0.01 Score=40.96 Aligned_cols=52 Identities=23% Similarity=0.520 Sum_probs=42.2
Q ss_pred CcccCccccccCCCCeec-c---CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 48 IELTCPVCLETVFDPVSL-T---CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~l-~---CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
.-..|.||.+...+...| | ||-..|..|....|.+ ...-..||+|+..+...
T Consensus 79 ~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~--------~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 79 KLYECNICKETSAEERFLKPNECCGYSICNACYANLWKF--------CNLYPVCPVCKTSFKSS 134 (140)
T ss_pred CceeccCcccccchhhcCCcccccchHHHHHHHHHHHHH--------cccCCCCCccccccccc
Confidence 357899999999999888 3 9999999999888732 34568899999887543
No 83
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.52 E-value=0.041 Score=41.39 Aligned_cols=55 Identities=22% Similarity=0.422 Sum_probs=39.6
Q ss_pred CcccCccccccCC--CCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 48 IELTCPVCLETVF--DPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 48 ~~l~C~IC~~~~~--~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
-.-.|.+|...+. +-+.+-|-|.|-..|+..+...-.. ...-.+..||.|..++-
T Consensus 49 Y~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPa---nTAPaGyqCP~Cs~eiF 105 (299)
T KOG3970|consen 49 YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPA---NTAPAGYQCPCCSQEIF 105 (299)
T ss_pred CCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCC---cCCCCcccCCCCCCccC
Confidence 3467999999874 5566789999999999988622110 01133688999999874
No 84
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=95.31 E-value=0.018 Score=45.76 Aligned_cols=47 Identities=28% Similarity=0.674 Sum_probs=33.5
Q ss_pred ccCccccccCC--CCee--ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 50 LTCPVCLETVF--DPVS--LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 50 l~C~IC~~~~~--~Pv~--l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
-.||+|.+.+- +--. .+||-..|+.|..... ..-..+||.||.....
T Consensus 15 d~cplcie~mditdknf~pc~cgy~ic~fc~~~ir----------q~lngrcpacrr~y~d 65 (480)
T COG5175 15 DYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIR----------QNLNGRCPACRRKYDD 65 (480)
T ss_pred ccCcccccccccccCCcccCCcccHHHHHHHHHHH----------hhccCCChHhhhhccc
Confidence 34999998763 2222 3689889999997664 1346789999987654
No 85
>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=95.14 E-value=0.0089 Score=39.45 Aligned_cols=34 Identities=24% Similarity=0.568 Sum_probs=27.5
Q ss_pred cCCCCcccCccccccCCCCee--ccCCCcccHhhHH
Q 041693 44 IRLDIELTCPVCLETVFDPVS--LTCGHILCKMCAC 77 (156)
Q Consensus 44 ~~~~~~l~C~IC~~~~~~Pv~--l~CgH~fC~~Ci~ 77 (156)
..+.++-.|++|...+...+. .||||.|...|+.
T Consensus 73 v~i~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 73 VVITESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred EEECCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 345677889999999877654 3999999999974
No 86
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.79 E-value=0.014 Score=46.57 Aligned_cols=50 Identities=26% Similarity=0.689 Sum_probs=40.2
Q ss_pred CCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 45 RLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
.-++...|-||-.-+.-...+||+|..|.-|..+... --..+.||.||..
T Consensus 57 tDEen~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRA---------LY~~K~C~~CrTE 106 (493)
T COG5236 57 TDEENMNCQICAGSTTYSARYPCGHQICHACAVRLRA---------LYMQKGCPLCRTE 106 (493)
T ss_pred cccccceeEEecCCceEEEeccCCchHHHHHHHHHHH---------HHhccCCCccccc
Confidence 3356789999999888878899999999999976531 1456789999986
No 87
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=94.71 E-value=0.019 Score=37.88 Aligned_cols=28 Identities=25% Similarity=0.453 Sum_probs=24.6
Q ss_pred cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 66 TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 66 ~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
.|.|.|-.-||.+|+ +....||+|.++-
T Consensus 80 ~CNHaFH~hCisrWl-----------ktr~vCPLdn~eW 107 (114)
T KOG2930|consen 80 VCNHAFHFHCISRWL-----------KTRNVCPLDNKEW 107 (114)
T ss_pred ecchHHHHHHHHHHH-----------hhcCcCCCcCcce
Confidence 599999999999999 6678899998764
No 88
>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=94.36 E-value=0.02 Score=32.40 Aligned_cols=35 Identities=26% Similarity=0.644 Sum_probs=23.1
Q ss_pred CCeeccCC-CcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 61 DPVSLTCG-HILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 61 ~Pv~l~Cg-H~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
+--.+.|. |..|..|+...+ +.+..||.|..+++.
T Consensus 12 ~k~Li~C~dHYLCl~CLt~ml-----------~~s~~C~iC~~~LPt 47 (50)
T PF03854_consen 12 NKGLIKCSDHYLCLNCLTLML-----------SRSDRCPICGKPLPT 47 (50)
T ss_dssp -SSEEE-SS-EEEHHHHHHT------------SSSSEETTTTEE---
T ss_pred CCCeeeecchhHHHHHHHHHh-----------ccccCCCcccCcCcc
Confidence 33345785 888999999887 778899999988753
No 89
>PHA03096 p28-like protein; Provisional
Probab=94.29 E-value=0.023 Score=44.49 Aligned_cols=32 Identities=22% Similarity=0.380 Sum_probs=24.5
Q ss_pred ccCccccccCC-CCe------ec-cCCCcccHhhHHHHHh
Q 041693 50 LTCPVCLETVF-DPV------SL-TCGHILCKMCACSAAS 81 (156)
Q Consensus 50 l~C~IC~~~~~-~Pv------~l-~CgH~fC~~Ci~~~~~ 81 (156)
-.|.||++... .+. ++ .|.|.||..|+..|..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~ 218 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMT 218 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHH
Confidence 67999998653 221 23 5999999999999973
No 90
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.87 E-value=0.15 Score=39.07 Aligned_cols=54 Identities=19% Similarity=0.306 Sum_probs=40.9
Q ss_pred CCcccCccccccCCCCee----ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchh
Q 041693 47 DIELTCPVCLETVFDPVS----LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLT 113 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~----l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~ 113 (156)
...++|||-.-.|..-.. -.|||+|-..-+.+. ....|++|.+.....+.+.+.
T Consensus 109 ~a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKei-------------kas~C~~C~a~y~~~dvIvlN 166 (293)
T KOG3113|consen 109 RARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEI-------------KASVCHVCGAAYQEDDVIVLN 166 (293)
T ss_pred cceeecccccceecceEEEEEEeccceeccHHHHHHh-------------hhccccccCCcccccCeEeeC
Confidence 456899998887766543 279999998888654 256899999998877766553
No 91
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.76 E-value=0.13 Score=42.84 Aligned_cols=56 Identities=27% Similarity=0.556 Sum_probs=38.3
Q ss_pred CCcccCccccccCCC-CeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCC--CCCcCcc
Q 041693 47 DIELTCPVCLETVFD-PVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCP--LCRKAGV 105 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~-Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP--~Cr~~~~ 105 (156)
.....|.||...+.. .+.+.|||.||..|+..++...+..+... ...|| -|.+.+.
T Consensus 68 ~~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~---~i~cp~~~C~a~v~ 126 (444)
T KOG1815|consen 68 KGDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEA---KIKCPAHGCPALVG 126 (444)
T ss_pred CccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccc---cccCCCCCccccCC
Confidence 456899999998875 55568999999999999985443222221 14565 4555543
No 92
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.56 E-value=0.049 Score=42.95 Aligned_cols=58 Identities=28% Similarity=0.497 Sum_probs=42.2
Q ss_pred hhccCCCCcccCccccccC---CCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 41 FDSIRLDIELTCPVCLETV---FDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 41 ~~~~~~~~~l~C~IC~~~~---~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.....+..-++||+=.+.- ..|+++.|||+.-+.-+.+.- +.+...+.||.|-.....
T Consensus 328 p~~~hfHs~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS--------~nG~~~FKCPYCP~~~~~ 388 (396)
T COG5109 328 PKGRHFHSLFICPVLKELCTDENPPVMLECGHVISKEALSVLS--------QNGVLSFKCPYCPEMSKY 388 (396)
T ss_pred CCcccccceeeccccHhhhcccCCCeeeeccceeeHHHHHHHh--------hcCcEEeeCCCCCcchhh
Confidence 3344566779999877654 468899999999998887663 223458999999665543
No 93
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=93.45 E-value=0.066 Score=47.27 Aligned_cols=53 Identities=25% Similarity=0.507 Sum_probs=39.1
Q ss_pred CCcccCccccccCCC--Cee--ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 47 DIELTCPVCLETVFD--PVS--LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~--Pv~--l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
...+.|.||.+.+.. |+- ..|-|+|-..||.+|... ..+.....++||.|+..
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs----~ek~~~~~WrCP~Cqsv 245 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARS----SEKTGQDGWRCPACQSV 245 (950)
T ss_pred cCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHH----hhhccCccccCCcccch
Confidence 457899999998753 432 258899999999999743 22333568999999843
No 94
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.34 E-value=0.05 Score=47.95 Aligned_cols=43 Identities=30% Similarity=0.597 Sum_probs=35.7
Q ss_pred CCcccCccccccCCCCee-ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 47 DIELTCPVCLETVFDPVS-LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~-l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
-..-.|..|...+.-|+. ..|||+|.+.|+. .+...||.|+..
T Consensus 838 ~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e--------------~~~~~CP~C~~e 881 (933)
T KOG2114|consen 838 FQVSKCSACEGTLDLPFVHFLCGHSYHQHCLE--------------DKEDKCPKCLPE 881 (933)
T ss_pred eeeeeecccCCccccceeeeecccHHHHHhhc--------------cCcccCCccchh
Confidence 345689999999999977 5899999999994 456789999773
No 95
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=93.16 E-value=0.19 Score=47.32 Aligned_cols=55 Identities=22% Similarity=0.493 Sum_probs=36.4
Q ss_pred CCcccCccccccC--CCC-eeccCCCcccHhhHHHHHhhhhhccccCC---CCCCCCCCCCcCcc
Q 041693 47 DIELTCPVCLETV--FDP-VSLTCGHILCKMCACSAASVSIVDGLKLA---DPTEKCPLCRKAGV 105 (156)
Q Consensus 47 ~~~l~C~IC~~~~--~~P-v~l~CgH~fC~~Ci~~~~~~~~~~~~~~~---~~~~~CP~Cr~~~~ 105 (156)
+.+-.|-||+.-. ..| +.+.|+|.|-..|..+.+. ..|.+. -+-..||.|..++.
T Consensus 3484 D~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE----~RW~GPRItF~FisCPiC~n~In 3544 (3738)
T KOG1428|consen 3484 DADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLE----NRWLGPRITFGFISCPICKNKIN 3544 (3738)
T ss_pred ccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHH----hcccCCeeEEeeeecccccchhh
Confidence 3456899998632 334 4589999999999876651 112211 22367999988774
No 96
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=93.05 E-value=0.019 Score=52.59 Aligned_cols=49 Identities=24% Similarity=0.627 Sum_probs=40.0
Q ss_pred cCCCCcccCccccccCC-CCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 44 IRLDIELTCPVCLETVF-DPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 44 ~~~~~~l~C~IC~~~~~-~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
..+.....|+||++++. .-.+..|||.+|..|...|+ .....||.|...
T Consensus 1148 ~~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l-----------~~~s~~~~~ksi 1197 (1394)
T KOG0298|consen 1148 MNLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWL-----------YASSRCPICKSI 1197 (1394)
T ss_pred HHhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHH-----------HHhccCcchhhh
Confidence 34556789999999998 55566899999999999998 566789999754
No 97
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=92.70 E-value=0.055 Score=42.58 Aligned_cols=42 Identities=31% Similarity=0.648 Sum_probs=29.0
Q ss_pred cCccccccCCC-CeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 51 TCPVCLETVFD-PVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 51 ~C~IC~~~~~~-Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.|--|.-.+.. -..++|.|.||.+|... ...+.||.|...+.
T Consensus 92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~-------------~~dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 92 FCDRCDFPIAIYGRMIPCKHVFCLECARS-------------DSDKICPLCDDRVQ 134 (389)
T ss_pred eecccCCcceeeecccccchhhhhhhhhc-------------CccccCcCcccHHH
Confidence 46666654432 23569999999999842 33678999987764
No 98
>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=92.17 E-value=0.21 Score=27.70 Aligned_cols=40 Identities=28% Similarity=0.507 Sum_probs=22.3
Q ss_pred CccccccCCCCeecc---CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCC
Q 041693 52 CPVCLETVFDPVSLT---CGHILCKMCACSAASVSIVDGLKLADPTEKCPLC 100 (156)
Q Consensus 52 C~IC~~~~~~Pv~l~---CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~C 100 (156)
|.+|.++...-+.-+ |+-.+-..|+..+++. .....||.|
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~y~r~---------~~~~~CP~C 43 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKKYFRH---------RSNPKCPNC 43 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHHHTTT----------SS-B-TTT
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHHHHhc---------CCCCCCcCC
Confidence 678888887777643 8888889999999721 222379987
No 99
>KOG1940 consensus Zn-finger protein [General function prediction only]
Probab=92.08 E-value=0.1 Score=40.61 Aligned_cols=43 Identities=35% Similarity=0.770 Sum_probs=33.6
Q ss_pred cccCccccccC----CCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCc
Q 041693 49 ELTCPVCLETV----FDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRK 102 (156)
Q Consensus 49 ~l~C~IC~~~~----~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~ 102 (156)
...||||.+.+ ..|..++|||+--..|+.... .....||+|.+
T Consensus 158 ~~ncPic~e~l~~s~~~~~~~~CgH~~h~~cf~e~~-----------~~~y~CP~C~~ 204 (276)
T KOG1940|consen 158 EFNCPICKEYLFLSFEDAGVLKCGHYMHSRCFEEMI-----------CEGYTCPICSK 204 (276)
T ss_pred cCCCchhHHHhccccccCCccCcccchHHHHHHHHh-----------ccCCCCCcccc
Confidence 34599999865 455667999999889997775 33499999987
No 100
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.92 E-value=0.11 Score=40.42 Aligned_cols=34 Identities=26% Similarity=0.621 Sum_probs=29.4
Q ss_pred CCcccCccccccCCCCeeccC----CCcccHhhHHHHH
Q 041693 47 DIELTCPVCLETVFDPVSLTC----GHILCKMCACSAA 80 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l~C----gH~fC~~Ci~~~~ 80 (156)
...|.|.+|.+-+.+-....| .|-||..|-.+..
T Consensus 266 ~apLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResI 303 (352)
T KOG3579|consen 266 SAPLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESI 303 (352)
T ss_pred CCceeehhhhhhhccCceeecCCCcccceecccCHHHH
Confidence 346999999999999988877 6999999988776
No 101
>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=91.62 E-value=0.013 Score=36.05 Aligned_cols=41 Identities=29% Similarity=0.552 Sum_probs=22.5
Q ss_pred cccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
++.||.|...+. +. =||.+|..|-..+ .....||.|..++.
T Consensus 1 e~~CP~C~~~L~-~~---~~~~~C~~C~~~~------------~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 1 ENTCPKCQQELE-WQ---GGHYHCEACQKDY------------KKEAFCPDCGQPLE 41 (70)
T ss_dssp --B-SSS-SBEE-EE---TTEEEETTT--EE------------EEEEE-TTT-SB-E
T ss_pred CCcCCCCCCccE-Ee---CCEEECccccccc------------eecccCCCcccHHH
Confidence 468999998642 11 1888999998665 34567999998864
No 102
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=91.60 E-value=0.069 Score=40.62 Aligned_cols=46 Identities=33% Similarity=0.720 Sum_probs=34.3
Q ss_pred CcccCccccc-cCCCCee--c--c-CCCcccHhhHHHHHhhhhhccccCCCCCCCCC--CCCcC
Q 041693 48 IELTCPVCLE-TVFDPVS--L--T-CGHILCKMCACSAASVSIVDGLKLADPTEKCP--LCRKA 103 (156)
Q Consensus 48 ~~l~C~IC~~-~~~~Pv~--l--~-CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP--~Cr~~ 103 (156)
.+-.||||.. .+-.|-+ + | |-|..|.+|+.+.++ .+...|| -|.+-
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs----------~GpAqCP~~gC~kI 62 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFS----------RGPAQCPYKGCGKI 62 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhc----------CCCCCCCCccHHHH
Confidence 3568999996 3455532 2 4 999999999999983 5677899 67653
No 103
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=91.05 E-value=0.3 Score=32.55 Aligned_cols=54 Identities=28% Similarity=0.544 Sum_probs=34.0
Q ss_pred CcccCccccccCCCCee--------ccC---CCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 48 IELTCPVCLETVFDPVS--------LTC---GHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~--------l~C---gH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
...+|..|...-.+..+ ..| .-.||..||....+-++.+.. ......||.||.-
T Consensus 6 ~g~~CHqCrqKt~~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~--~~~~W~CP~Crgi 70 (105)
T PF10497_consen 6 NGKTCHQCRQKTLDFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVL--EDPNWKCPKCRGI 70 (105)
T ss_pred CCCCchhhcCCCCCCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHh--cCCceECCCCCCe
Confidence 34567777775443332 235 667999999877643332222 2457899999874
No 104
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.69 E-value=0.15 Score=38.18 Aligned_cols=39 Identities=33% Similarity=0.839 Sum_probs=29.4
Q ss_pred CccccccCCCCeeccCCC-cccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 52 CPVCLETVFDPVSLTCGH-ILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 52 C~IC~~~~~~Pv~l~CgH-~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
|-.|.+--..-+.+||.| .+|..|- .+...||.|+....
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~---------------~~~~~CPiC~~~~~ 200 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICD---------------ESLRICPICRSPKT 200 (207)
T ss_pred ceecCcCCceEEeecccceEeccccc---------------ccCccCCCCcChhh
Confidence 999998766655579997 5899996 22556999988654
No 105
>KOG3268 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.57 E-value=0.25 Score=35.95 Aligned_cols=58 Identities=17% Similarity=0.434 Sum_probs=34.4
Q ss_pred ccCccccccCCC---Cee----ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 50 LTCPVCLETVFD---PVS----LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 50 l~C~IC~~~~~~---Pv~----l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
.-|.||+.+--+ |-. +.||..|-.-|+..|++.-......-+.--..||.|..++..+
T Consensus 166 ~~cgicyayqldGTipDqtCdN~qCgkpFHqiCL~dWLRgilTsRQSFdiiFGeCPYCS~PialK 230 (234)
T KOG3268|consen 166 GACGICYAYQLDGTIPDQTCDNIQCGKPFHQICLTDWLRGILTSRQSFDIIFGECPYCSDPIALK 230 (234)
T ss_pred hcccceeeeecCCccccccccccccCCcHHHHHHHHHHHHHhhccceeeeeeccCCCCCCcceee
Confidence 457777765322 221 3699999999999998421111100011125699999987654
No 106
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=88.75 E-value=0.25 Score=24.36 Aligned_cols=21 Identities=33% Similarity=0.672 Sum_probs=11.2
Q ss_pred cCccccccCCCCee-cc-CCCcc
Q 041693 51 TCPVCLETVFDPVS-LT-CGHIL 71 (156)
Q Consensus 51 ~C~IC~~~~~~Pv~-l~-CgH~f 71 (156)
+||-|...+..... -+ |||.|
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCCC
Confidence 47777765533322 23 66665
No 107
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=88.72 E-value=0.51 Score=29.13 Aligned_cols=31 Identities=26% Similarity=0.402 Sum_probs=23.5
Q ss_pred cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCc
Q 041693 66 TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 66 ~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~ 109 (156)
.--|+||..|....+ ...||.|...+.....
T Consensus 26 tfEcTFCadCae~~l-------------~g~CPnCGGelv~RP~ 56 (84)
T COG3813 26 TFECTFCADCAENRL-------------HGLCPNCGGELVARPI 56 (84)
T ss_pred EEeeehhHhHHHHhh-------------cCcCCCCCchhhcCcC
Confidence 345899999997665 4579999998865444
No 108
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=88.53 E-value=0.76 Score=32.84 Aligned_cols=49 Identities=16% Similarity=0.339 Sum_probs=34.5
Q ss_pred CCcccCccccccCCCCeeccCC--Cc---ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 47 DIELTCPVCLETVFDPVSLTCG--HI---LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l~Cg--H~---fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
..+-.|-||++--. +..-||. .+ ...+|+.+|++ .++...|+.|+.+..
T Consensus 6 ~~~~~CRIC~~~~~-~~~~PC~CkGs~k~VH~sCL~rWi~---------~s~~~~CeiC~~~Y~ 59 (162)
T PHA02825 6 LMDKCCWICKDEYD-VVTNYCNCKNENKIVHKECLEEWIN---------TSKNKSCKICNGPYN 59 (162)
T ss_pred CCCCeeEecCCCCC-CccCCcccCCCchHHHHHHHHHHHh---------cCCCCcccccCCeEE
Confidence 45678999998753 3334654 32 37899999983 246788999998864
No 109
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=87.94 E-value=0.39 Score=31.07 Aligned_cols=37 Identities=30% Similarity=0.763 Sum_probs=28.5
Q ss_pred cccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.-.|.||...+..+ ||.||..|-. ....|.+|...+.
T Consensus 44 ~~~C~~CK~~v~q~-----g~~YCq~CAY---------------kkGiCamCGKki~ 80 (90)
T PF10235_consen 44 SSKCKICKTKVHQP-----GAKYCQTCAY---------------KKGICAMCGKKIL 80 (90)
T ss_pred CccccccccccccC-----CCccChhhhc---------------ccCcccccCCeec
Confidence 34799999865544 8899999973 3457999999874
No 110
>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=87.57 E-value=0.23 Score=34.53 Aligned_cols=32 Identities=22% Similarity=0.610 Sum_probs=25.6
Q ss_pred cccCccccccCCC--Cee-ccCC------CcccHhhHHHHH
Q 041693 49 ELTCPVCLETVFD--PVS-LTCG------HILCKMCACSAA 80 (156)
Q Consensus 49 ~l~C~IC~~~~~~--Pv~-l~Cg------H~fC~~Ci~~~~ 80 (156)
...|.||++.+.+ -|+ ++|| |.||..|+.+|.
T Consensus 26 ~~EC~IC~~~I~~~~GvV~vt~~g~lnLEkmfc~~C~~rw~ 66 (134)
T PF05883_consen 26 TVECQICFDRIDNNDGVVYVTDGGTLNLEKMFCADCDKRWR 66 (134)
T ss_pred CeeehhhhhhhhcCCCEEEEecCCeehHHHHHHHHHHHHHH
Confidence 6889999998766 443 5676 679999999994
No 111
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=87.21 E-value=0.66 Score=27.18 Aligned_cols=43 Identities=21% Similarity=0.410 Sum_probs=28.2
Q ss_pred cCccccccCCC----CeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 51 TCPVCLETVFD----PVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 51 ~C~IC~~~~~~----Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.|-.|...+.. ..+-+=-.|||..|....+ ...||.|...+..
T Consensus 7 nCE~C~~dLp~~s~~A~ICSfECTFC~~C~e~~l-------------~~~CPNCgGelv~ 53 (57)
T PF06906_consen 7 NCECCDKDLPPDSPEAYICSFECTFCADCAETML-------------NGVCPNCGGELVR 53 (57)
T ss_pred CccccCCCCCCCCCcceEEeEeCcccHHHHHHHh-------------cCcCcCCCCcccc
Confidence 46666665532 2222333589999998765 4579999988754
No 112
>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=85.86 E-value=0.64 Score=37.63 Aligned_cols=40 Identities=18% Similarity=0.295 Sum_probs=23.5
Q ss_pred CCCcccHhhHHHHHhh-hhhccccC-CCCCCCCCCCCcCccc
Q 041693 67 CGHILCKMCACSAASV-SIVDGLKL-ADPTEKCPLCRKAGVY 106 (156)
Q Consensus 67 CgH~fC~~Ci~~~~~~-~~~~~~~~-~~~~~~CP~Cr~~~~~ 106 (156)
|..-.|..|+.+|+.. |....... -.+...||+||+.+-.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 3344588999999832 11000000 0346789999998754
No 113
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=85.42 E-value=1.1 Score=39.89 Aligned_cols=53 Identities=21% Similarity=0.234 Sum_probs=37.2
Q ss_pred CCcccCccccccCCCCe----ecc---CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 47 DIELTCPVCLETVFDPV----SLT---CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv----~l~---CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
.+..+|++|..-+.+|+ ..+ |+|.||..||..|. .++......-.|+.|..-+
T Consensus 94 a~s~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~-----DqL~~~~k~c~H~FC~~Ci 153 (1134)
T KOG0825|consen 94 AESDTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCN-----DQLEESEKHTAHYFCEECV 153 (1134)
T ss_pred ccccccchhheecCCcccccCcCchhhhhhhhhhHHHHHHH-----HHhhccccccccccHHHHh
Confidence 34578888887777654 234 99999999999997 4444445556677776554
No 114
>KOG2169 consensus Zn-finger transcription factor [Transcription]
Probab=83.78 E-value=1.4 Score=38.51 Aligned_cols=69 Identities=26% Similarity=0.518 Sum_probs=46.3
Q ss_pred CCCCcccCccccccCCCCee-ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHHHHH
Q 041693 45 RLDIELTCPVCLETVFDPVS-LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLSRSC 123 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv~-l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~ 123 (156)
.+.-.|.|||++.-+.-|.. ..|.|.-|.+=..- -........+.||+|.+........ .+..+..++
T Consensus 302 ~~~vSL~CPl~~~Rm~~P~r~~~CkHlQcFD~~~~-------lq~n~~~pTW~CPVC~~~~~~e~l~----iD~~~~~iL 370 (636)
T KOG2169|consen 302 SLRVSLNCPLSKMRMSLPARGHTCKHLQCFDALSY-------LQMNEQKPTWRCPVCQKAAPFEGLI----IDGYFLNIL 370 (636)
T ss_pred cceeEecCCcccceeecCCcccccccceecchhhh-------HHhccCCCeeeCccCCccccccchh----hhHHHHHHH
Confidence 44567999999988877766 47999877765422 2223447789999999988766553 444444444
Q ss_pred H
Q 041693 124 R 124 (156)
Q Consensus 124 ~ 124 (156)
.
T Consensus 371 ~ 371 (636)
T KOG2169|consen 371 Q 371 (636)
T ss_pred h
Confidence 3
No 115
>KOG3899 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.67 E-value=0.8 Score=35.96 Aligned_cols=40 Identities=23% Similarity=0.464 Sum_probs=24.2
Q ss_pred CCCcccHhhHHHHHhh-hh-hccccCCCCCCCCCCCCcCccc
Q 041693 67 CGHILCKMCACSAASV-SI-VDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 67 CgH~fC~~Ci~~~~~~-~~-~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
|....|.+|+-+|+.. +. -....-..++..||+||+.+-.
T Consensus 325 crp~wc~~cla~~f~~rq~~v~r~~~~~~~~~cp~cr~~fci 366 (381)
T KOG3899|consen 325 CRPLWCRSCLAQIFIGRQDNVYRYEYHRGSAQCPTCRKNFCI 366 (381)
T ss_pred cccHHHHHHHHHHHhhcccchhHHHHHhcCCCCcchhhceEE
Confidence 4556788999999821 10 0000011456889999998754
No 116
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=82.60 E-value=0.28 Score=38.59 Aligned_cols=58 Identities=19% Similarity=0.377 Sum_probs=37.7
Q ss_pred cccCccccccCC-CC-e-eccCCCcccHhhHHHHHhhh---------hhcc---ccCCCCCCCCCCCCcCccc
Q 041693 49 ELTCPVCLETVF-DP-V-SLTCGHILCKMCACSAASVS---------IVDG---LKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 49 ~l~C~IC~~~~~-~P-v-~l~CgH~fC~~Ci~~~~~~~---------~~~~---~~~~~~~~~CP~Cr~~~~~ 106 (156)
.-.|.||+-=|. .| . .++|-|-|-..|+.+++..- .... .........||+||..+..
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 467999987664 44 3 35899999999999887430 0111 1111223569999998754
No 117
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=81.94 E-value=0.76 Score=35.34 Aligned_cols=46 Identities=20% Similarity=0.386 Sum_probs=36.5
Q ss_pred cccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 49 ELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
.++||+-...+..|++- .|||.|=++-|..++ .......||+=...
T Consensus 176 s~rdPis~~~I~nPviSkkC~HvydrDsI~~~l---------~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 176 SNRDPISKKPIVNPVISKKCGHVYDRDSIMQIL---------CDEITIRCPVLGCE 222 (262)
T ss_pred cccCchhhhhhhchhhhcCcCcchhhhhHHHHh---------ccCceeecccccCC
Confidence 58999999999999874 799999999998886 12446789875444
No 118
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=80.20 E-value=0.88 Score=34.04 Aligned_cols=44 Identities=18% Similarity=0.451 Sum_probs=34.6
Q ss_pred cccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 49 ELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
--.|.+|..+...-+.. .||-.|-..|+.+++ .....||.|.--
T Consensus 181 lk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~-----------q~~~~cphc~d~ 225 (235)
T KOG4718|consen 181 LKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYL-----------QRRDICPHCGDL 225 (235)
T ss_pred HHHHhHhHHHhheeeccCcccchhhhHHHHHHh-----------cccCcCCchhcc
Confidence 35899999988766654 688778899999998 447889999543
No 119
>PHA02862 5L protein; Provisional
Probab=80.05 E-value=2.1 Score=30.16 Aligned_cols=47 Identities=17% Similarity=0.361 Sum_probs=33.1
Q ss_pred ccCccccccCCCCeeccCCC-----cccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 50 LTCPVCLETVFDPVSLTCGH-----ILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 50 l~C~IC~~~~~~Pv~l~CgH-----~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
-.|-||++.-.+. .-||.. -..+.|+.+|++ .+....|+.|+.+...
T Consensus 3 diCWIC~~~~~e~-~~PC~C~GS~K~VHq~CL~~WIn---------~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDER-NNFCGCNEEYKVVHIKCMQLWIN---------YSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCCC-cccccccCcchhHHHHHHHHHHh---------cCCCcCccCCCCeEEE
Confidence 4688999875444 346542 346899999983 2567899999988643
No 120
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=78.67 E-value=3.6 Score=23.61 Aligned_cols=40 Identities=25% Similarity=0.587 Sum_probs=22.2
Q ss_pred CcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 48 IELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
+.+.||.|.+.+... . ++.-|.... ........||+|...
T Consensus 1 ~~f~CP~C~~~~~~~-~------L~~H~~~~H---------~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 1 DSFTCPYCGKGFSES-S------LVEHCEDEH---------RSESKNVVCPICSSR 40 (54)
T ss_pred CCcCCCCCCCccCHH-H------HHHHHHhHC---------cCCCCCccCCCchhh
Confidence 468899999843321 1 222233322 122446889999763
No 121
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.48 E-value=0.99 Score=40.37 Aligned_cols=36 Identities=22% Similarity=0.560 Sum_probs=28.7
Q ss_pred CCCCcccCccccccC-CCCeec-cCCCcccHhhHHHHH
Q 041693 45 RLDIELTCPVCLETV-FDPVSL-TCGHILCKMCACSAA 80 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~-~~Pv~l-~CgH~fC~~Ci~~~~ 80 (156)
.+.-.-.|.+|...+ ..|..+ +|||.|-+.|+.+..
T Consensus 813 v~ep~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 813 VLEPQDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred EecCccchHHhcchhhcCcceeeeccchHHHHHHHHHH
Confidence 345567899999864 677765 999999999998775
No 122
>PF15616 TerY-C: TerY-C metal binding domain
Probab=78.37 E-value=1.1 Score=31.06 Aligned_cols=50 Identities=24% Similarity=0.558 Sum_probs=35.2
Q ss_pred hhccCCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 41 FDSIRLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 41 ~~~~~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
+....+...-.||-|...+-=.+- .||+.||.. ......||-|.......
T Consensus 69 vntseL~g~PgCP~CGn~~~fa~C-~CGkl~Ci~----------------g~~~~~CPwCg~~g~~~ 118 (131)
T PF15616_consen 69 VNTSELIGAPGCPHCGNQYAFAVC-GCGKLFCID----------------GEGEVTCPWCGNEGSFG 118 (131)
T ss_pred EehHHhcCCCCCCCCcChhcEEEe-cCCCEEEeC----------------CCCCEECCCCCCeeeec
Confidence 334455566899999997554333 899999842 24478999999887543
No 123
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=78.33 E-value=0.38 Score=37.70 Aligned_cols=45 Identities=24% Similarity=0.420 Sum_probs=20.8
Q ss_pred CcccCccccccCCCCeecc-----CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 48 IELTCPVCLETVFDPVSLT-----CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~l~-----CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
..-.||||.....-.+... =.|-+|.-|-..|- -....||.|...
T Consensus 171 ~~g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~-----------~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 171 QRGYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWR-----------FVRIKCPYCGNT 220 (290)
T ss_dssp T-SS-TTT---EEEEEEE------EEEEEETTT--EEE-------------TTS-TTT---
T ss_pred cCCcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeee-----------ecCCCCcCCCCC
Confidence 3469999998654333332 23567888988885 556778888765
No 124
>PF14353 CpXC: CpXC protein
Probab=78.12 E-value=1.7 Score=29.60 Aligned_cols=49 Identities=18% Similarity=0.082 Sum_probs=25.2
Q ss_pred cccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
+++||.|...+.-.+-+.-.-..=..=....+ .+.-....||.|+..+.
T Consensus 1 ~itCP~C~~~~~~~v~~~I~~~~~p~l~e~il--------~g~l~~~~CP~Cg~~~~ 49 (128)
T PF14353_consen 1 EITCPHCGHEFEFEVWTSINADEDPELKEKIL--------DGSLFSFTCPSCGHKFR 49 (128)
T ss_pred CcCCCCCCCeeEEEEEeEEcCcCCHHHHHHHH--------cCCcCEEECCCCCCcee
Confidence 36888888877544432211111111122222 22234688999999864
No 125
>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=75.52 E-value=0.93 Score=35.94 Aligned_cols=44 Identities=23% Similarity=0.531 Sum_probs=28.7
Q ss_pred cccCccccccCCCCeec----cCC--CcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 49 ELTCPVCLETVFDPVSL----TCG--HILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l----~Cg--H~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
.-.||||...-.-.+.. .=| +-+|.-|-..|- -....||.|...
T Consensus 184 ~~~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~-----------~~R~~C~~Cg~~ 233 (305)
T TIGR01562 184 RTLCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWH-----------YVRVKCSHCEES 233 (305)
T ss_pred CCcCCCCCChhhhhhhcccCCCCCceEEEcCCCCCccc-----------ccCccCCCCCCC
Confidence 45899999865433322 123 456888887774 556778888764
No 126
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=74.80 E-value=3 Score=26.16 Aligned_cols=48 Identities=19% Similarity=0.478 Sum_probs=20.0
Q ss_pred CcccCccccccCC-----CCeec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 48 IELTCPVCLETVF-----DPVSL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 48 ~~l~C~IC~~~~~-----~Pv~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
..-.|.||.+-.- ++... .|+--.|+.|..--. ..+...||.|+....
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYEr----------keg~q~CpqCkt~yk 62 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYER----------KEGNQVCPQCKTRYK 62 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHH----------HTS-SB-TTT--B--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHh----------hcCcccccccCCCcc
Confidence 3568999998652 23332 588888999996433 266788999997654
No 127
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=74.71 E-value=1.7 Score=31.76 Aligned_cols=18 Identities=17% Similarity=0.277 Sum_probs=14.1
Q ss_pred CCCCCCCCCCcCcccCCc
Q 041693 92 DPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~~~~~ 109 (156)
...+.||.|+..+...+.
T Consensus 134 ~~~F~Cp~Cg~~L~~~dn 151 (178)
T PRK06266 134 EYGFRCPQCGEMLEEYDN 151 (178)
T ss_pred hcCCcCCCCCCCCeeccc
Confidence 457999999999876444
No 128
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=74.68 E-value=3.9 Score=23.82 Aligned_cols=30 Identities=27% Similarity=0.551 Sum_probs=24.0
Q ss_pred cccCccccccC--CCCeec--cCCCcccHhhHHH
Q 041693 49 ELTCPVCLETV--FDPVSL--TCGHILCKMCACS 78 (156)
Q Consensus 49 ~l~C~IC~~~~--~~Pv~l--~CgH~fC~~Ci~~ 78 (156)
.-.|++|.+.| .+.++. .||-.|-+.|...
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 46899999999 566654 5999999999843
No 129
>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=74.51 E-value=1 Score=27.13 Aligned_cols=32 Identities=19% Similarity=0.531 Sum_probs=16.2
Q ss_pred CcccCccccccCCC---Cee-ccCCCcccHhhHHHH
Q 041693 48 IELTCPVCLETVFD---PVS-LTCGHILCKMCACSA 79 (156)
Q Consensus 48 ~~l~C~IC~~~~~~---Pv~-l~CgH~fC~~Ci~~~ 79 (156)
+.-.|.+|...|.- ... -.||+.||..|....
T Consensus 8 ~~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~ 43 (69)
T PF01363_consen 8 EASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQR 43 (69)
T ss_dssp G-SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EE
T ss_pred CCCcCcCcCCcCCCceeeEccCCCCCEECCchhCCE
Confidence 34689999998732 111 259999999998644
No 130
>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=73.94 E-value=1.9 Score=26.17 Aligned_cols=12 Identities=17% Similarity=0.390 Sum_probs=8.5
Q ss_pred cccHhhHHHHHh
Q 041693 70 ILCKMCACSAAS 81 (156)
Q Consensus 70 ~fC~~Ci~~~~~ 81 (156)
.||+.|+.+|..
T Consensus 11 gFCRNCLskWy~ 22 (68)
T PF06844_consen 11 GFCRNCLSKWYR 22 (68)
T ss_dssp S--HHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 499999999983
No 131
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=73.48 E-value=2.1 Score=24.58 Aligned_cols=31 Identities=23% Similarity=0.537 Sum_probs=21.1
Q ss_pred ccCccccccCCC----CeeccCCCcccHhhHHHHH
Q 041693 50 LTCPVCLETVFD----PVSLTCGHILCKMCACSAA 80 (156)
Q Consensus 50 l~C~IC~~~~~~----Pv~l~CgH~fC~~Ci~~~~ 80 (156)
-.|.+|...|.- ..--.||++||..|.....
T Consensus 3 ~~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~ 37 (57)
T cd00065 3 SSCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRI 37 (57)
T ss_pred CcCcccCccccCCccccccCcCcCCcChHHcCCee
Confidence 368888775532 2223699999999996553
No 132
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=73.43 E-value=2.2 Score=23.94 Aligned_cols=40 Identities=25% Similarity=0.612 Sum_probs=21.9
Q ss_pred CccccccCC--CCeeccCCC-----cccHhhHHHHHhhhhhccccCCCCCCCCCCC
Q 041693 52 CPVCLETVF--DPVSLTCGH-----ILCKMCACSAASVSIVDGLKLADPTEKCPLC 100 (156)
Q Consensus 52 C~IC~~~~~--~Pv~l~CgH-----~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~C 100 (156)
|-||++.-. .|...||+- ..-..|+.+|+.. .+...|++|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~---------~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRE---------SGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHH---------HT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHh---------cCCCcCCCC
Confidence 567776543 256667642 3467899999832 334558776
No 133
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.49 E-value=0.51 Score=36.91 Aligned_cols=44 Identities=32% Similarity=0.683 Sum_probs=33.0
Q ss_pred ccCccccccCC------CCeecc--------CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 50 LTCPVCLETVF------DPVSLT--------CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 50 l~C~IC~~~~~------~Pv~l~--------CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
..|.||...+. .|..+. |||+.|..|+...+. .....||.|+..
T Consensus 208 ~~c~ic~~~~~~n~~~~~p~vl~~~~~~~~~c~htlc~~c~~~~l~----------~~~~~cp~~~~~ 265 (296)
T KOG4185|consen 208 KLCEICERIYSENDEKLAPLVLSLSRLKEKIEGHTLCKECIDTILL----------QAGIKCPFCTWS 265 (296)
T ss_pred HHHHHHHHHhhccccccchhHHHHHHHHHHHHHHHHHhcchHHHHH----------HhhhcCCcccce
Confidence 56888887664 355556 999999999988762 222889999874
No 134
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.69 E-value=2.1 Score=35.02 Aligned_cols=34 Identities=26% Similarity=0.589 Sum_probs=25.2
Q ss_pred CCcccCccccccCC-----CCeeccCCCcccHhhHHHHH
Q 041693 47 DIELTCPVCLETVF-----DPVSLTCGHILCKMCACSAA 80 (156)
Q Consensus 47 ~~~l~C~IC~~~~~-----~Pv~l~CgH~fC~~Ci~~~~ 80 (156)
.....||.|...+. ..++-.|||-||..|...|.
T Consensus 304 ~~wr~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~ 342 (384)
T KOG1812|consen 304 KRWRQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWK 342 (384)
T ss_pred HhcCcCcccceeeeecCCcceEEeeccccchhhcCcchh
Confidence 34568999998763 23444699999999998775
No 135
>KOG0289 consensus mRNA splicing factor [General function prediction only]
Probab=71.57 E-value=19 Score=30.11 Aligned_cols=44 Identities=23% Similarity=0.292 Sum_probs=36.1
Q ss_pred ccCccccccCCCCeecc-CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 50 LTCPVCLETVFDPVSLT-CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 50 l~C~IC~~~~~~Pv~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
+.|.|-.++..+||.-+ -||.|=++=|.++. .....||+=.+++
T Consensus 1 m~CaISgEvP~~PVvS~~Sg~vfEkrLIEqyI-----------~e~G~DPIt~~pL 45 (506)
T KOG0289|consen 1 MVCAISGEVPEEPVVSPVSGHVFEKRLIEQYI-----------AETGKDPITNEPL 45 (506)
T ss_pred CeecccCCCCCCccccccccchHHHHHHHHHH-----------HHcCCCCCCCCcC
Confidence 46999999999999875 89999999999998 4455677776665
No 136
>PRK04023 DNA polymerase II large subunit; Validated
Probab=71.12 E-value=6.5 Score=36.12 Aligned_cols=48 Identities=21% Similarity=0.506 Sum_probs=32.5
Q ss_pred cccCccccccCCCCeeccCCC-----cccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCc
Q 041693 49 ELTCPVCLETVFDPVSLTCGH-----ILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH-----~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~ 109 (156)
...|+-|.........-.||. .||..|-.. .....||.|.........
T Consensus 626 ~RfCpsCG~~t~~frCP~CG~~Te~i~fCP~CG~~-------------~~~y~CPKCG~El~~~s~ 678 (1121)
T PRK04023 626 RRKCPSCGKETFYRRCPFCGTHTEPVYRCPRCGIE-------------VEEDECEKCGREPTPYSK 678 (1121)
T ss_pred CccCCCCCCcCCcccCCCCCCCCCcceeCccccCc-------------CCCCcCCCCCCCCCccce
Confidence 468999999864333335984 599999421 334679999998765443
No 137
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=70.49 E-value=1.8 Score=34.44 Aligned_cols=44 Identities=27% Similarity=0.568 Sum_probs=29.0
Q ss_pred CcccCccccccCCCCee-c--cCC--CcccHhhHHHHHhhhhhccccCCCCCCCCCCCCc
Q 041693 48 IELTCPVCLETVFDPVS-L--TCG--HILCKMCACSAASVSIVDGLKLADPTEKCPLCRK 102 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv~-l--~Cg--H~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~ 102 (156)
..-.||+|...-.-.+. + .=| +-+|.-|-..|- -....||.|..
T Consensus 186 ~~~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~-----------~~R~~C~~Cg~ 234 (309)
T PRK03564 186 QRQFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWH-----------VVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCCCcchhheeeccCCCCceEEEcCCCCCccc-----------ccCccCCCCCC
Confidence 45799999987544432 1 223 456888887774 55677888875
No 138
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=69.28 E-value=4.9 Score=32.10 Aligned_cols=47 Identities=36% Similarity=0.793 Sum_probs=34.9
Q ss_pred cccCccccccC--CCCeec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 49 ELTCPVCLETV--FDPVSL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 49 ~l~C~IC~~~~--~~Pv~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.-.||+|.+.. .+...+ +||+..|..|+.+.. .+..+||.||.+...
T Consensus 249 ~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~-----------~~~~~~~~~rk~~~~ 299 (327)
T KOG2068|consen 249 PPSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTIS-----------DGDGRCPGCRKPYER 299 (327)
T ss_pred CCCCCCCCCcccccccccccccccccchhhhhhccc-----------ccCCCCCccCCcccc
Confidence 36899999966 333334 589888999987665 677899999977543
No 140
>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=69.11 E-value=4.2 Score=20.94 Aligned_cols=11 Identities=27% Similarity=0.779 Sum_probs=8.6
Q ss_pred CCCCCCCCCcC
Q 041693 93 PTEKCPLCRKA 103 (156)
Q Consensus 93 ~~~~CP~Cr~~ 103 (156)
....||.|..+
T Consensus 16 ~~~~CP~Cg~~ 26 (33)
T cd00350 16 APWVCPVCGAP 26 (33)
T ss_pred CCCcCcCCCCc
Confidence 46789999774
No 141
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=68.50 E-value=4 Score=27.31 Aligned_cols=13 Identities=23% Similarity=0.401 Sum_probs=7.0
Q ss_pred CCCCCCCCCcCcc
Q 041693 93 PTEKCPLCRKAGV 105 (156)
Q Consensus 93 ~~~~CP~Cr~~~~ 105 (156)
....||.|...+.
T Consensus 25 ~PivCP~CG~~~~ 37 (108)
T PF09538_consen 25 DPIVCPKCGTEFP 37 (108)
T ss_pred CCccCCCCCCccC
Confidence 3445666665544
No 142
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=68.32 E-value=1 Score=21.42 Aligned_cols=10 Identities=30% Similarity=0.850 Sum_probs=5.4
Q ss_pred CCCCCCCCcC
Q 041693 94 TEKCPLCRKA 103 (156)
Q Consensus 94 ~~~CP~Cr~~ 103 (156)
...||.|..+
T Consensus 13 ~~fC~~CG~~ 22 (23)
T PF13240_consen 13 AKFCPNCGTP 22 (23)
T ss_pred CcchhhhCCc
Confidence 4446666554
No 143
>KOG2042 consensus Ubiquitin fusion degradation protein-2 [Posttranslational modification, protein turnover, chaperones]
Probab=67.29 E-value=9.7 Score=34.76 Aligned_cols=72 Identities=14% Similarity=0.028 Sum_probs=57.0
Q ss_pred CCCCcccCccccccCCCCeecc-CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHHHHH
Q 041693 45 RLDIELTCPVCLETVFDPVSLT-CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLSRSC 123 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv~l~-CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~ 123 (156)
...+++.=|+-..++.+||.+| -|++.++.=|.+++ -...+=|.||.+++..... .|..++..+
T Consensus 866 dvpdef~DPlm~Tlm~dPV~LP~Srv~vDRsti~rhl-----------Ls~~tdPFNR~pLt~d~v~----pn~eLK~kI 930 (943)
T KOG2042|consen 866 DVPDEFLDPLMSTLMSDPVVLPSSRVTVDRSTIERHL-----------LSDCTDPFNREPLTEDMVS----PNEELKAKI 930 (943)
T ss_pred cCchhhhCccccccCCCCccCCcccccccHHHHHHHH-----------hcCCCCccccccCchhhcC----CCHHHHHHH
Confidence 4567788899999999999998 89999999999887 4455668999999876664 567777777
Q ss_pred HHHHHHHH
Q 041693 124 REYWEKRL 131 (156)
Q Consensus 124 ~~~~~~~~ 131 (156)
+.+..++.
T Consensus 931 ~~~~~ek~ 938 (943)
T KOG2042|consen 931 RCWIKEKR 938 (943)
T ss_pred HHHHHHhh
Confidence 77665543
No 144
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=66.04 E-value=3.1 Score=35.13 Aligned_cols=7 Identities=43% Similarity=1.175 Sum_probs=3.7
Q ss_pred CCCCCCc
Q 041693 96 KCPLCRK 102 (156)
Q Consensus 96 ~CP~Cr~ 102 (156)
.|+.|+=
T Consensus 88 ~C~~C~W 94 (483)
T PF05502_consen 88 SCSYCRW 94 (483)
T ss_pred ECCCcee
Confidence 4555543
No 145
>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=65.44 E-value=7.3 Score=22.41 Aligned_cols=25 Identities=24% Similarity=0.774 Sum_probs=13.6
Q ss_pred cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCC
Q 041693 66 TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCR 101 (156)
Q Consensus 66 ~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr 101 (156)
.|++.||.+|=. + ....-..||-|.
T Consensus 26 ~C~~~FC~dCD~-f----------iHE~LH~CPGC~ 50 (51)
T PF07975_consen 26 KCKNHFCIDCDV-F----------IHETLHNCPGCE 50 (51)
T ss_dssp TTT--B-HHHHH-T----------TTTTS-SSSTT-
T ss_pred CCCCccccCcCh-h----------hhccccCCcCCC
Confidence 589999999952 1 135567898873
No 146
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=65.18 E-value=5.2 Score=21.53 Aligned_cols=22 Identities=27% Similarity=0.708 Sum_probs=14.4
Q ss_pred CccccccCCC-Ceecc-CCCcccH
Q 041693 52 CPVCLETVFD-PVSLT-CGHILCK 73 (156)
Q Consensus 52 C~IC~~~~~~-Pv~l~-CgH~fC~ 73 (156)
|.+|.....- |..-. |+.+||.
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~ 24 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCG 24 (39)
T ss_pred CcccCCcccccCeECCccCCcccc
Confidence 5566665444 76665 8888875
No 147
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=65.09 E-value=5.1 Score=20.88 Aligned_cols=11 Identities=45% Similarity=1.195 Sum_probs=8.0
Q ss_pred CCCCCCCCCcC
Q 041693 93 PTEKCPLCRKA 103 (156)
Q Consensus 93 ~~~~CP~Cr~~ 103 (156)
....||+|..+
T Consensus 17 ~p~~CP~Cg~~ 27 (34)
T cd00729 17 APEKCPICGAP 27 (34)
T ss_pred CCCcCcCCCCc
Confidence 34589999875
No 148
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=61.35 E-value=5.2 Score=21.21 Aligned_cols=13 Identities=38% Similarity=0.856 Sum_probs=7.6
Q ss_pred ccCccccccCCCC
Q 041693 50 LTCPVCLETVFDP 62 (156)
Q Consensus 50 l~C~IC~~~~~~P 62 (156)
.+||-|...|.-|
T Consensus 3 i~CP~C~~~f~v~ 15 (37)
T PF13719_consen 3 ITCPNCQTRFRVP 15 (37)
T ss_pred EECCCCCceEEcC
Confidence 4567666665433
No 149
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=61.26 E-value=2.8 Score=29.94 Aligned_cols=18 Identities=22% Similarity=0.410 Sum_probs=13.9
Q ss_pred CCCCCCCCCCcCcccCCc
Q 041693 92 DPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~~~~~ 109 (156)
...+.||.|+.++...+.
T Consensus 126 ~~~F~Cp~Cg~~L~~~dn 143 (158)
T TIGR00373 126 ELNFTCPRCGAMLDYLDN 143 (158)
T ss_pred HcCCcCCCCCCEeeeccC
Confidence 457999999999865544
No 150
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=60.36 E-value=2.5 Score=24.67 Aligned_cols=30 Identities=27% Similarity=0.634 Sum_probs=19.4
Q ss_pred ccCc--cccccCCC-------Ceec-cCCCcccHhhHHHH
Q 041693 50 LTCP--VCLETVFD-------PVSL-TCGHILCKMCACSA 79 (156)
Q Consensus 50 l~C~--IC~~~~~~-------Pv~l-~CgH~fC~~Ci~~~ 79 (156)
.-|| -|...+.. .+.- .||+.||..|...|
T Consensus 19 ~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~~~ 58 (64)
T smart00647 19 KWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKVPW 58 (64)
T ss_pred cCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCCcC
Confidence 3587 77655422 1233 58999999998654
No 151
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=59.97 E-value=5.8 Score=30.93 Aligned_cols=59 Identities=17% Similarity=0.256 Sum_probs=34.3
Q ss_pred CcccCccccccCCC---------CeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 48 IELTCPVCLETVFD---------PVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 48 ~~l~C~IC~~~~~~---------Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
....|++|...++. -.+++|...+|..=+.+-|=-+.-.....+...+.||.|++.+..
T Consensus 160 ka~~C~~C~K~YvSmpALkMHirTH~l~c~C~iCGKaFSRPWLLQGHiRTHTGEKPF~C~hC~kAFAD 227 (279)
T KOG2462|consen 160 KAFSCKYCGKVYVSMPALKMHIRTHTLPCECGICGKAFSRPWLLQGHIRTHTGEKPFSCPHCGKAFAD 227 (279)
T ss_pred ccccCCCCCceeeehHHHhhHhhccCCCcccccccccccchHHhhcccccccCCCCccCCcccchhcc
Confidence 35678888776632 123466666777655433312221222234567999999998753
No 152
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=59.94 E-value=4.9 Score=33.55 Aligned_cols=36 Identities=33% Similarity=0.712 Sum_probs=29.5
Q ss_pred CCCCcccCccc-cccCCCCeec--cCCCcccHhhHHHHH
Q 041693 45 RLDIELTCPVC-LETVFDPVSL--TCGHILCKMCACSAA 80 (156)
Q Consensus 45 ~~~~~l~C~IC-~~~~~~Pv~l--~CgH~fC~~Ci~~~~ 80 (156)
.+.+++.|++| ...|.+...+ -|..+||..||.+.+
T Consensus 215 ~~~e~~~c~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~l 253 (448)
T KOG0314|consen 215 ELPEGLQCPLCGKEVMLDAALLSKCCLKSFCDKCIRDAL 253 (448)
T ss_pred cCCccccCceecchhhHHHHHhhhhhcccCCcccccccc
Confidence 45678999999 7788888777 389999999997663
No 153
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=57.88 E-value=2.3 Score=29.62 Aligned_cols=55 Identities=29% Similarity=0.547 Sum_probs=28.4
Q ss_pred cCCCCcccCcccccc-CCCCeeccCCCcccHhhHHHHHhh-hhhccccCCCCCCCCCCCCcC
Q 041693 44 IRLDIELTCPVCLET-VFDPVSLTCGHILCKMCACSAASV-SIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 44 ~~~~~~l~C~IC~~~-~~~Pv~l~CgH~fC~~Ci~~~~~~-~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
.-..++.+|.||+.. |.+ .|||. |..|-.+.-.. -....++.+.....|-.|+..
T Consensus 60 aGv~ddatC~IC~KTKFAD----G~GH~-C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 60 AGVGDDATCGICHKTKFAD----GCGHN-CSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cccCcCcchhhhhhccccc----ccCcc-cchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 445788999999984 333 47773 33333222100 011122333445667777754
No 154
>COG4647 AcxC Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=57.86 E-value=4.9 Score=27.81 Aligned_cols=22 Identities=18% Similarity=0.434 Sum_probs=13.3
Q ss_pred cccccCCCCeeccCCCcccHhh
Q 041693 54 VCLETVFDPVSLTCGHILCKMC 75 (156)
Q Consensus 54 IC~~~~~~Pv~l~CgH~fC~~C 75 (156)
||+..-..-+...|||+||..=
T Consensus 62 i~qs~~~rv~rcecghsf~d~r 83 (165)
T COG4647 62 ICQSAQKRVIRCECGHSFGDYR 83 (165)
T ss_pred EEecccccEEEEeccccccChh
Confidence 4444433323358999999753
No 155
>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=57.78 E-value=0.83 Score=25.74 Aligned_cols=46 Identities=24% Similarity=0.528 Sum_probs=25.6
Q ss_pred cCccccccCCCCeec---cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCC
Q 041693 51 TCPVCLETVFDPVSL---TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCR 101 (156)
Q Consensus 51 ~C~IC~~~~~~Pv~l---~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr 101 (156)
.|.||......-.++ .|+..|-..|+..... ..........||.|+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~-----~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEK-----AEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHS-----HHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChh-----hccCCCCcEECcCCc
Confidence 478888843332233 5787888888853321 011112367888774
No 156
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=57.76 E-value=6.2 Score=26.62 Aligned_cols=45 Identities=29% Similarity=0.669 Sum_probs=27.9
Q ss_pred CcccCccccccC---CC-Cee-ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCc
Q 041693 48 IELTCPVCLETV---FD-PVS-LTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRK 102 (156)
Q Consensus 48 ~~l~C~IC~~~~---~~-Pv~-l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~ 102 (156)
.+-.|.+|...| .+ ... ..|+|.+|..|-.. ........|.+|.+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~----------~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY----------SKKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE----------TSSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc----------CCCCCCEEChhhHH
Confidence 456999998754 22 222 37999999999632 12245677888854
No 157
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=57.67 E-value=6.4 Score=30.28 Aligned_cols=22 Identities=23% Similarity=0.570 Sum_probs=15.6
Q ss_pred ccCccccccCC-CCeec--cCCCcc
Q 041693 50 LTCPVCLETVF-DPVSL--TCGHIL 71 (156)
Q Consensus 50 l~C~IC~~~~~-~Pv~l--~CgH~f 71 (156)
+.||+|...+. .+..+ +.||+|
T Consensus 3 ~~CP~C~~~l~~~~~~~~C~~~h~f 27 (272)
T PRK11088 3 YQCPLCHQPLTLEENSWICPQNHQF 27 (272)
T ss_pred ccCCCCCcchhcCCCEEEcCCCCCC
Confidence 78999999874 23334 457877
No 158
>COG5627 MMS21 DNA repair protein MMS21 [DNA replication, recombination, and repair]
Probab=57.60 E-value=19 Score=27.57 Aligned_cols=49 Identities=24% Similarity=0.470 Sum_probs=35.6
Q ss_pred cccCccccccCCCCee-ccCCCcccHhhHHHHHhhhhhccccCCCCCCCCC--CCCcCccc
Q 041693 49 ELTCPVCLETVFDPVS-LTCGHILCKMCACSAASVSIVDGLKLADPTEKCP--LCRKAGVY 106 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~-l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP--~Cr~~~~~ 106 (156)
+.+|||-+.....|+. ..|.|.|=++=|..++. .....-|| .|.+....
T Consensus 189 ~nrCpitl~p~~~pils~kcnh~~e~D~I~~~lq---------~~~trvcp~~~Csq~~~~ 240 (275)
T COG5627 189 SNRCPITLNPDFYPILSSKCNHKPEMDLINKKLQ---------VECTRVCPRLICSQKEVV 240 (275)
T ss_pred cccCCcccCcchhHHHHhhhcccccHHHHHHHhc---------CCceeecchhhcchheec
Confidence 5799998888888876 47999999999988871 13455677 35554443
No 159
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=57.33 E-value=2 Score=21.92 Aligned_cols=29 Identities=21% Similarity=0.578 Sum_probs=13.8
Q ss_pred CCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 68 GHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 68 gH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
.|.||..|=.... ....+....||.|+..
T Consensus 2 ~~rfC~~CG~~t~-------~~~~g~~r~C~~Cg~~ 30 (32)
T PF09297_consen 2 NHRFCGRCGAPTK-------PAPGGWARRCPSCGHE 30 (32)
T ss_dssp TTSB-TTT--BEE-------E-SSSS-EEESSSS-E
T ss_pred CCcccCcCCcccc-------CCCCcCEeECCCCcCE
Confidence 3678888864332 2223456778888753
No 160
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=56.96 E-value=4 Score=36.55 Aligned_cols=32 Identities=25% Similarity=0.424 Sum_probs=24.8
Q ss_pred cccCccccccCCCCee--ccCCCcccHhhHHHHH
Q 041693 49 ELTCPVCLETVFDPVS--LTCGHILCKMCACSAA 80 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~--l~CgH~fC~~Ci~~~~ 80 (156)
.-.|..|....++-.- -.||+.||..|+..|.
T Consensus 229 ~~mC~~C~~tlfn~hw~C~~C~~~~Cl~C~r~~~ 262 (889)
T KOG1356|consen 229 REMCDRCETTLFNIHWRCPRCGFGVCLDCYRKWY 262 (889)
T ss_pred chhhhhhcccccceeEEccccCCeeeecchhhcc
Confidence 4578899987775433 3699999999998883
No 161
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=56.43 E-value=8.7 Score=27.78 Aligned_cols=12 Identities=33% Similarity=1.035 Sum_probs=9.1
Q ss_pred CCCCCCCCCCcC
Q 041693 92 DPTEKCPLCRKA 103 (156)
Q Consensus 92 ~~~~~CP~Cr~~ 103 (156)
.....||+|..+
T Consensus 147 e~P~~CPiCga~ 158 (166)
T COG1592 147 EAPEVCPICGAP 158 (166)
T ss_pred CCCCcCCCCCCh
Confidence 556789999865
No 162
>PLN02189 cellulose synthase
Probab=56.19 E-value=10 Score=35.00 Aligned_cols=47 Identities=23% Similarity=0.591 Sum_probs=33.3
Q ss_pred cccCccccccCC-----CCeec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVF-----DPVSL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~-----~Pv~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.-.|.||.+-+- +|... .|+--.|+.|..--. ..++..||.|+....
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer----------~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYER----------REGTQNCPQCKTRYK 87 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhh----------hcCCccCcccCCchh
Confidence 348999998753 23322 488889999994322 366789999998865
No 163
>PLN02436 cellulose synthase A
Probab=55.85 E-value=10 Score=35.09 Aligned_cols=47 Identities=21% Similarity=0.610 Sum_probs=33.4
Q ss_pred cccCccccccCC-----CCeec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVF-----DPVSL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~-----~Pv~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.-.|.||.+-.- +|.+. .|+--.|+.|..--. ..++..||.|+....
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer----------~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYER----------REGNQACPQCKTRYK 89 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhhhhh----------hcCCccCcccCCchh
Confidence 348999998752 23322 488889999994322 366789999998865
No 164
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=54.98 E-value=16 Score=29.24 Aligned_cols=30 Identities=27% Similarity=0.557 Sum_probs=19.0
Q ss_pred ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCC
Q 041693 71 LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQG 108 (156)
Q Consensus 71 fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~ 108 (156)
.|..|+.+.. .......+||.||.+.....
T Consensus 4 Ic~~cwh~i~--------~~~~~~grcpncr~ky~e~k 33 (327)
T KOG2068|consen 4 ICDSCWHHIA--------TSAEKKGRCPNCRTKYKEEK 33 (327)
T ss_pred eeHHHHhccc--------cccccccCCccccCccchhh
Confidence 5777776543 11122589999999876443
No 165
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 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 AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=54.13 E-value=6.9 Score=21.40 Aligned_cols=22 Identities=27% Similarity=0.640 Sum_probs=12.3
Q ss_pred ccccCCCCeecc-CCCcccHhhH
Q 041693 55 CLETVFDPVSLT-CGHILCKMCA 76 (156)
Q Consensus 55 C~~~~~~Pv~l~-CgH~fC~~Ci 76 (156)
|.....-|+.-+ |+..||..=.
T Consensus 6 C~~~~~~~~~C~~C~~~FC~~Hr 28 (43)
T PF01428_consen 6 CKKKDFLPFKCKHCGKSFCLKHR 28 (43)
T ss_dssp T--BCTSHEE-TTTS-EE-TTTH
T ss_pred CcCccCCCeECCCCCcccCcccc
Confidence 777666777765 9999987544
No 166
>PRK11595 DNA utilization protein GntX; Provisional
Probab=54.07 E-value=13 Score=27.95 Aligned_cols=24 Identities=17% Similarity=0.416 Sum_probs=12.6
Q ss_pred cCccccccCCCCeeccCCCcccHhhHHHH
Q 041693 51 TCPVCLETVFDPVSLTCGHILCKMCACSA 79 (156)
Q Consensus 51 ~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~ 79 (156)
.|.+|...+..+ ....|..|...+
T Consensus 7 ~C~~C~~~~~~~-----~~~lC~~C~~~l 30 (227)
T PRK11595 7 LCWLCRMPLALS-----HWGICSVCSRAL 30 (227)
T ss_pred cCccCCCccCCC-----CCcccHHHHhhC
Confidence 577777654321 123566666543
No 167
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=53.27 E-value=25 Score=31.85 Aligned_cols=72 Identities=18% Similarity=0.434 Sum_probs=45.9
Q ss_pred CcccCccccc--cCCCCeeccCCCc-----ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCc-----cchhhH
Q 041693 48 IELTCPVCLE--TVFDPVSLTCGHI-----LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGA-----IHLTEL 115 (156)
Q Consensus 48 ~~l~C~IC~~--~~~~Pv~l~CgH~-----fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~-----~~~~~~ 115 (156)
+.-+|.||.. .--+|..-||..+ ..++|+..|+. .++..+|-.|..++..++. +...+.
T Consensus 11 d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~---------~s~~~kCdiChy~~~Fk~IY~e~mP~~IPf 81 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWME---------CSGTKKCDICHYEYKFKDIYKEDMPQIIPF 81 (1175)
T ss_pred cchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHh---------cCCCcceeeecceeeeeeecccCCCcccce
Confidence 4579999985 3456766676543 36889999972 4678899999988754322 222234
Q ss_pred HHHHHHHHHHHHH
Q 041693 116 GILLSRSCREYWE 128 (156)
Q Consensus 116 n~~l~~l~~~~~~ 128 (156)
..+++.....+++
T Consensus 82 siL~rk~a~t~~~ 94 (1175)
T COG5183 82 SILIRKVADTGWK 94 (1175)
T ss_pred ehhHHHHHHHHHH
Confidence 4555555555544
No 169
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=53.16 E-value=1.2 Score=28.52 Aligned_cols=38 Identities=29% Similarity=0.724 Sum_probs=28.7
Q ss_pred cccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 49 ELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
...|.||......| |-.||..|... ...|.+|.+.+..
T Consensus 54 ~~kC~iCk~~vHQ~-----GshYC~tCAY~---------------KgiCAMCGKki~n 91 (100)
T KOG3476|consen 54 LAKCRICKQLVHQP-----GSHYCQTCAYK---------------KGICAMCGKKILN 91 (100)
T ss_pred cchhHHHHHHhcCC-----cchhHhHhhhh---------------hhHHHHhhhHhhc
Confidence 46799999998887 55699999843 3468889887643
No 170
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.35 E-value=13 Score=32.75 Aligned_cols=49 Identities=24% Similarity=0.570 Sum_probs=34.1
Q ss_pred cCccccccCCCCeeccCCC-cccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 51 TCPVCLETVFDPVSLTCGH-ILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 51 ~C~IC~~~~~~Pv~l~CgH-~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
.|+||-.-..-+..-.||| ..|..|..+... ..........||+||..+
T Consensus 2 ~c~ic~~s~~~~~~~s~~h~~v~~~~~~R~~~-----~~~~~~~~~~~~vcr~~~ 51 (669)
T KOG2231|consen 2 SCAICAFSPDFVGRGSCGHNEVCATCVVRLRF-----ELNNRKCSNECPVCRREV 51 (669)
T ss_pred CcceeecCccccccccccccccchhhhhhhhh-----hcccccccccCcccccce
Confidence 5888888766666668999 899999987641 111123356689999854
No 171
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=51.90 E-value=11 Score=26.03 Aligned_cols=14 Identities=21% Similarity=0.342 Sum_probs=8.4
Q ss_pred CCCcccCccccccC
Q 041693 46 LDIELTCPVCLETV 59 (156)
Q Consensus 46 ~~~~l~C~IC~~~~ 59 (156)
+....+||-|...|
T Consensus 6 lGtKr~Cp~cg~kF 19 (129)
T TIGR02300 6 LGTKRICPNTGSKF 19 (129)
T ss_pred hCccccCCCcCccc
Confidence 33456777776655
No 172
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=51.01 E-value=14 Score=34.27 Aligned_cols=47 Identities=23% Similarity=0.598 Sum_probs=33.4
Q ss_pred cccCccccccCC-----CCeec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVF-----DPVSL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~-----~Pv~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.-.|.||.+-.- +|... .||--.|+.|.. +- ...++..||.|+....
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YE---------r~eG~q~CPqCktrYk 70 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YE---------RKDGNQSCPQCKTKYK 70 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchhh-hh---------hhcCCccCCccCCchh
Confidence 448999998752 23332 588889999994 31 2367789999998765
No 173
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=50.94 E-value=9.5 Score=33.72 Aligned_cols=57 Identities=26% Similarity=0.542 Sum_probs=38.7
Q ss_pred CCcccCccccccCCCCe----------eccCCCcc--------------------cHhhHHHHHhhhhhccccCCCCCCC
Q 041693 47 DIELTCPVCLETVFDPV----------SLTCGHIL--------------------CKMCACSAASVSIVDGLKLADPTEK 96 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv----------~l~CgH~f--------------------C~~Ci~~~~~~~~~~~~~~~~~~~~ 96 (156)
.|--+|+-|++-+.+|. .+.||..| |..|...|.++..+ +-......
T Consensus 99 pD~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPRfTIi~alPYDR~nTsM~~F~lC~~C~~EY~dP~nR---RfHAQp~a 175 (750)
T COG0068 99 PDAATCEDCLEEIFDPNSRRYLYPFINCTNCGPRFTIIEALPYDRENTSMADFPLCPFCDKEYKDPLNR---RFHAQPIA 175 (750)
T ss_pred CchhhhHHHHHHhcCCCCcceeccccccCCCCcceeeeccCCCCcccCccccCcCCHHHHHHhcCcccc---cccccccc
Confidence 45679999998877763 24688766 99999988633211 11233578
Q ss_pred CCCCCcCccc
Q 041693 97 CPLCRKAGVY 106 (156)
Q Consensus 97 CP~Cr~~~~~ 106 (156)
||.|.-.+..
T Consensus 176 Cp~CGP~~~l 185 (750)
T COG0068 176 CPKCGPHLFL 185 (750)
T ss_pred CcccCCCeEE
Confidence 9999887654
No 174
>COG5319 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.17 E-value=22 Score=24.55 Aligned_cols=14 Identities=29% Similarity=0.707 Sum_probs=10.5
Q ss_pred CCCCCCCCCCcCcc
Q 041693 92 DPTEKCPLCRKAGV 105 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~ 105 (156)
.+-..||+|...-.
T Consensus 30 rgLv~CPvCgs~~V 43 (142)
T COG5319 30 RGLVTCPVCGSTEV 43 (142)
T ss_pred cCceeCCCCCcHHH
Confidence 45688999987643
No 175
>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=48.83 E-value=22 Score=20.30 Aligned_cols=10 Identities=40% Similarity=0.883 Sum_probs=5.5
Q ss_pred CCCCCCcCcc
Q 041693 96 KCPLCRKAGV 105 (156)
Q Consensus 96 ~CP~Cr~~~~ 105 (156)
.||+|..++.
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 8999999885
No 176
>COG3492 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.71 E-value=8.2 Score=24.98 Aligned_cols=12 Identities=17% Similarity=0.412 Sum_probs=10.5
Q ss_pred cccHhhHHHHHh
Q 041693 70 ILCKMCACSAAS 81 (156)
Q Consensus 70 ~fC~~Ci~~~~~ 81 (156)
.||+.|+..|..
T Consensus 42 gFCRNCLs~Wy~ 53 (104)
T COG3492 42 GFCRNCLSNWYR 53 (104)
T ss_pred HHHHHHHHHHHH
Confidence 599999999973
No 177
>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]
Probab=47.63 E-value=22 Score=27.54 Aligned_cols=73 Identities=14% Similarity=0.040 Sum_probs=53.1
Q ss_pred cCCCCcccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCCccchhhHHHHHHHHH
Q 041693 44 IRLDIELTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQGAIHLTELGILLSRSC 123 (156)
Q Consensus 44 ~~~~~~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~ 123 (156)
..+.+.+.|.|-++++.+|+++|-|=+|=+.=|..++. .-+..=|+-|.++.....+ .|..+...+
T Consensus 206 rEvpd~lcgkIt~el~~~pvi~psgIty~ra~I~Ehl~----------rvghfdpvtr~~Lte~q~i----pN~alkevI 271 (284)
T KOG4642|consen 206 REVPDYLCGKITLELMREPVITPSGITYDRADIEEHLQ----------RVGHFDPVTRWPLTEYQLI----PNLALKEVI 271 (284)
T ss_pred ccccchhhhhhhHHhhcCCccCccccchhHHHHHHHHH----------HhccCCchhcccCCHHhhc----cchHHHHHH
Confidence 44567788899999999999999999999999988872 2223346666666544443 677777777
Q ss_pred HHHHHHH
Q 041693 124 REYWEKR 130 (156)
Q Consensus 124 ~~~~~~~ 130 (156)
..|..+.
T Consensus 272 a~fl~~n 278 (284)
T KOG4642|consen 272 AAFLKEN 278 (284)
T ss_pred HHHHHhc
Confidence 7776543
No 178
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=47.40 E-value=12 Score=19.63 Aligned_cols=10 Identities=40% Similarity=1.036 Sum_probs=5.2
Q ss_pred ccCccccccC
Q 041693 50 LTCPVCLETV 59 (156)
Q Consensus 50 l~C~IC~~~~ 59 (156)
++||-|...|
T Consensus 3 i~Cp~C~~~y 12 (36)
T PF13717_consen 3 ITCPNCQAKY 12 (36)
T ss_pred EECCCCCCEE
Confidence 3455555544
No 179
>PF13834 DUF4193: Domain of unknown function (DUF4193)
Probab=46.94 E-value=6 Score=26.02 Aligned_cols=30 Identities=23% Similarity=0.499 Sum_probs=21.4
Q ss_pred CCCcccCccccccCCCCeec--cCCCcccHhh
Q 041693 46 LDIELTCPVCLETVFDPVSL--TCGHILCKMC 75 (156)
Q Consensus 46 ~~~~l~C~IC~~~~~~Pv~l--~CgH~fC~~C 75 (156)
-.++|+|.-|+-+-...... .=|+.+|..|
T Consensus 67 q~DEFTCssCFLV~HRSqLa~~~~g~~iC~DC 98 (99)
T PF13834_consen 67 QADEFTCSSCFLVHHRSQLAREKDGQPICRDC 98 (99)
T ss_pred CCCceeeeeeeeEechhhhccccCCCEecccc
Confidence 36789999999876554433 2377888877
No 180
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=46.60 E-value=23 Score=33.58 Aligned_cols=52 Identities=19% Similarity=0.473 Sum_probs=31.8
Q ss_pred cccCccccccCCCCeeccCCCc-----ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCC
Q 041693 49 ELTCPVCLETVFDPVSLTCGHI-----LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQG 108 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~-----fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~ 108 (156)
.+.||-|.........-.||.. +|..|-...- ........||.|..++....
T Consensus 667 ~rkCPkCG~~t~~~fCP~CGs~te~vy~CPsCGaev~--------~des~a~~CP~CGtplv~~~ 723 (1337)
T PRK14714 667 RRRCPSCGTETYENRCPDCGTHTEPVYVCPDCGAEVP--------PDESGRVECPRCDVELTPYQ 723 (1337)
T ss_pred EEECCCCCCccccccCcccCCcCCCceeCccCCCccC--------CCccccccCCCCCCcccccc
Confidence 3789999986544322348854 4888864321 01112557999998876543
No 181
>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=46.15 E-value=6.7 Score=32.20 Aligned_cols=50 Identities=36% Similarity=0.739 Sum_probs=0.0
Q ss_pred cccCccccccCC-------------CC-eeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 49 ELTCPVCLETVF-------------DP-VSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 49 ~l~C~IC~~~~~-------------~P-v~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
...||+=+..+. .| |-+.|||++-. ..|. ...........||+||..-+.
T Consensus 277 rpQCPVglnTL~fp~~~~~~~~~~~qP~VYl~CGHVhG~---h~Wg-----~~~~~~~~~r~CPlCr~~g~~ 340 (416)
T PF04710_consen 277 RPQCPVGLNTLVFPSKSRKDVPDERQPWVYLNCGHVHGY---HNWG-----QDSDRDPRSRTCPLCRQVGPY 340 (416)
T ss_dssp ------------------------------------------------------------------------
T ss_pred CCCCCcCCCccccccccccccccccCceeeccccceeee---cccc-----cccccccccccCCCccccCCc
Confidence 367888766553 23 34689998754 2332 111111237889999987543
No 182
>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=46.04 E-value=15 Score=19.90 Aligned_cols=11 Identities=36% Similarity=0.863 Sum_probs=9.1
Q ss_pred CCCCCCCCCCc
Q 041693 92 DPTEKCPLCRK 102 (156)
Q Consensus 92 ~~~~~CP~Cr~ 102 (156)
.....||.|+.
T Consensus 24 ~~~~~CP~Cg~ 34 (42)
T PF09723_consen 24 DDPVPCPECGS 34 (42)
T ss_pred CCCCcCCCCCC
Confidence 45788999988
No 183
>PF06676 DUF1178: Protein of unknown function (DUF1178); InterPro: IPR009562 This family consists of several hypothetical bacterial proteins of around 150 residues in length. The function of this family is unknown.
Probab=45.84 E-value=6 Score=28.06 Aligned_cols=34 Identities=21% Similarity=0.235 Sum_probs=19.0
Q ss_pred cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 66 TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 66 ~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
.+||.| ..||+.+..=..+...+-..||+|...-
T Consensus 9 ~~gH~F-----EgWF~ss~~fd~Q~~~glv~CP~Cgs~~ 42 (148)
T PF06676_consen 9 ENGHEF-----EGWFRSSAAFDRQQARGLVSCPVCGSTE 42 (148)
T ss_pred CCCCcc-----ceecCCHHHHHHHHHcCCccCCCCCCCe
Confidence 468888 4555322111111235678999998763
No 184
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=45.76 E-value=4.6 Score=19.57 Aligned_cols=8 Identities=38% Similarity=1.003 Sum_probs=3.8
Q ss_pred CCCCCCCc
Q 041693 95 EKCPLCRK 102 (156)
Q Consensus 95 ~~CP~Cr~ 102 (156)
..||.|..
T Consensus 17 ~fC~~CG~ 24 (26)
T PF13248_consen 17 KFCPNCGA 24 (26)
T ss_pred ccChhhCC
Confidence 34555544
No 185
>smart00734 ZnF_Rad18 Rad18-like CCHC zinc finger. Yeast Rad18p functions with Rad5p in error-free post-replicative DNA repair. This zinc finger is likely to bind nucleic-acids.
Probab=45.33 E-value=11 Score=18.38 Aligned_cols=10 Identities=50% Similarity=1.381 Sum_probs=8.0
Q ss_pred ccCccccccC
Q 041693 50 LTCPVCLETV 59 (156)
Q Consensus 50 l~C~IC~~~~ 59 (156)
..||||.+.+
T Consensus 2 v~CPiC~~~v 11 (26)
T smart00734 2 VQCPVCFREV 11 (26)
T ss_pred CcCCCCcCcc
Confidence 4799998876
No 186
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=44.83 E-value=13 Score=33.44 Aligned_cols=30 Identities=27% Similarity=0.685 Sum_probs=22.2
Q ss_pred ccCccccccCCC--------Ce-eccCCCcccHhhHHHH
Q 041693 50 LTCPVCLETVFD--------PV-SLTCGHILCKMCACSA 79 (156)
Q Consensus 50 l~C~IC~~~~~~--------Pv-~l~CgH~fC~~Ci~~~ 79 (156)
-.|..|...|.- .. .-.||.+||..|-...
T Consensus 461 dtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnR 499 (1374)
T PTZ00303 461 DSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKR 499 (1374)
T ss_pred CcccCcCCcccccccccccccccccCCccccCccccCCc
Confidence 469999998842 11 1269999999998654
No 187
>PLN02195 cellulose synthase A
Probab=44.74 E-value=21 Score=32.85 Aligned_cols=47 Identities=23% Similarity=0.436 Sum_probs=33.6
Q ss_pred cccCccccccCC-----CCeec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVF-----DPVSL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~-----~Pv~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.-.|.||.+..- +|... .|+--.|+.|.. +- ...++..||.|+....
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCye-ye---------r~eg~q~CpqCkt~Yk 59 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLE-YE---------IKEGRKVCLRCGGPYD 59 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhh-hh---------hhcCCccCCccCCccc
Confidence 348999998552 34332 588889999994 31 2366789999998765
No 188
>KOG0309 consensus Conserved WD40 repeat-containing protein [Function unknown]
Probab=44.36 E-value=13 Score=33.22 Aligned_cols=32 Identities=25% Similarity=0.494 Sum_probs=23.2
Q ss_pred cccCccccccCCCCee--ccCCCcccHhhHHHHH
Q 041693 49 ELTCPVCLETVFDPVS--LTCGHILCKMCACSAA 80 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~--l~CgH~fC~~Ci~~~~ 80 (156)
.+.|.+|.-.....-. ..|||..-.+|...|+
T Consensus 1028 ~~~C~~C~l~V~gss~~Cg~C~Hv~H~sc~~eWf 1061 (1081)
T KOG0309|consen 1028 TFQCAICHLAVRGSSNFCGTCGHVGHTSCMMEWF 1061 (1081)
T ss_pred eeeeeeEeeEeeccchhhccccccccHHHHHHHH
Confidence 4567777654443322 3799999999999999
No 189
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=44.03 E-value=9.8 Score=33.89 Aligned_cols=43 Identities=26% Similarity=0.566 Sum_probs=27.8
Q ss_pred cccCccccccCCCCe-----ec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 49 ELTCPVCLETVFDPV-----SL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv-----~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
.+.|.-|..++.-|. ++ .=+..+|..|-.+ ......||.|...
T Consensus 435 ~l~C~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~------------~~~p~~Cp~Cgs~ 484 (730)
T COG1198 435 LLLCRDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQ------------EPIPQSCPECGSE 484 (730)
T ss_pred eeecccCCCcccCCCCCcceEEecCCCeeEeCCCCCC------------CCCCCCCCCCCCC
Confidence 467887777775542 21 2345567778632 2557889999987
No 190
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=43.55 E-value=18 Score=24.44 Aligned_cols=9 Identities=44% Similarity=1.132 Sum_probs=5.6
Q ss_pred CccccccCC
Q 041693 52 CPVCLETVF 60 (156)
Q Consensus 52 C~IC~~~~~ 60 (156)
||+|...+.
T Consensus 1 CPvCg~~l~ 9 (113)
T PF09862_consen 1 CPVCGGELV 9 (113)
T ss_pred CCCCCCceE
Confidence 677776543
No 191
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=42.71 E-value=8.5 Score=27.11 Aligned_cols=28 Identities=25% Similarity=0.522 Sum_probs=18.6
Q ss_pred ccCccccccCCCCeeccCCCcccH-hhHHH
Q 041693 50 LTCPVCLETVFDPVSLTCGHILCK-MCACS 78 (156)
Q Consensus 50 l~C~IC~~~~~~Pv~l~CgH~fC~-~Ci~~ 78 (156)
-.|.||. ++..-..+.||..||. .|+..
T Consensus 119 ~fCaVCG-~~S~ysC~~CG~kyCsv~C~~~ 147 (156)
T KOG3362|consen 119 KFCAVCG-YDSKYSCVNCGTKYCSVRCLKT 147 (156)
T ss_pred hhhhhcC-CCchhHHHhcCCceeechhhhh
Confidence 4799999 4444444689998875 36643
No 192
>PRK01343 zinc-binding protein; Provisional
Probab=42.66 E-value=22 Score=20.98 Aligned_cols=14 Identities=43% Similarity=0.959 Sum_probs=11.3
Q ss_pred CCCCCCCCCCcCcc
Q 041693 92 DPTEKCPLCRKAGV 105 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~ 105 (156)
.....||+|++++.
T Consensus 7 ~p~~~CP~C~k~~~ 20 (57)
T PRK01343 7 RPTRPCPECGKPST 20 (57)
T ss_pred CCCCcCCCCCCcCc
Confidence 45688999999865
No 193
>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=42.54 E-value=21 Score=18.03 Aligned_cols=11 Identities=18% Similarity=0.516 Sum_probs=6.8
Q ss_pred cCccccccCCC
Q 041693 51 TCPVCLETVFD 61 (156)
Q Consensus 51 ~C~IC~~~~~~ 61 (156)
.|..|.+.+..
T Consensus 1 ~C~~C~~~i~~ 11 (39)
T smart00132 1 KCAGCGKPIRG 11 (39)
T ss_pred CccccCCcccC
Confidence 36677776654
No 194
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=42.24 E-value=23 Score=32.85 Aligned_cols=48 Identities=29% Similarity=0.563 Sum_probs=33.9
Q ss_pred CcccCccccccCC-----CCeec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 48 IELTCPVCLETVF-----DPVSL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 48 ~~l~C~IC~~~~~-----~Pv~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
..-.|.||.+-.- +|... .|+--.|+.|.. +- ...++..||.|+....
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cye-ye---------~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYE-YE---------RSEGNQCCPQCNTRYK 68 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhh-hh---------hhcCCccCCccCCchh
Confidence 3468999998652 23332 588889999994 31 2366789999998765
No 195
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.69 E-value=7.3 Score=30.82 Aligned_cols=49 Identities=24% Similarity=0.493 Sum_probs=37.5
Q ss_pred CCCCcccCccccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 45 RLDIELTCPVCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
...++-+|-+|...+.-|... .|.|-||.-|...|. .....||.|+...
T Consensus 101 ~~~~~~~~~~~~g~l~vpt~~qg~w~qf~~~~p~~~~-----------~~~~~~~d~~~~~ 150 (324)
T KOG0824|consen 101 FQQDHDICYICYGKLTVPTRIQGCWHQFCYVCPKSNF-----------AMGNDCPDCRGKI 150 (324)
T ss_pred ccCCccceeeeeeeEEecccccCceeeeeecCCchhh-----------hhhhccchhhcCc
Confidence 446678999999999988877 499999999988776 3445566666543
No 196
>PLN02400 cellulose synthase
Probab=41.31 E-value=18 Score=33.66 Aligned_cols=47 Identities=26% Similarity=0.535 Sum_probs=33.5
Q ss_pred cccCccccccCC-----CCeec--cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 49 ELTCPVCLETVF-----DPVSL--TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 49 ~l~C~IC~~~~~-----~Pv~l--~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
.-.|.||.+-.- +|... .|+--.|+.|.. + +...++..||.|+....
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYE-Y---------ERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYE-Y---------ERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhh-e---------ecccCCccCcccCCccc
Confidence 448999998752 23332 588889999993 3 22366789999998765
No 197
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=41.16 E-value=3.9 Score=23.78 Aligned_cols=30 Identities=27% Similarity=0.555 Sum_probs=16.4
Q ss_pred ccCcc--ccccCCC-----C--eecc-CCCcccHhhHHHH
Q 041693 50 LTCPV--CLETVFD-----P--VSLT-CGHILCKMCACSA 79 (156)
Q Consensus 50 l~C~I--C~~~~~~-----P--v~l~-CgH~fC~~Ci~~~ 79 (156)
..||- |...+.. . ++-+ |++.||..|-..|
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~~~ 58 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGEPW 58 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTSES
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCccc
Confidence 47876 8876632 1 3335 9999999997544
No 198
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=40.43 E-value=25 Score=26.77 Aligned_cols=27 Identities=22% Similarity=0.604 Sum_probs=20.5
Q ss_pred ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCC
Q 041693 71 LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQG 108 (156)
Q Consensus 71 fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~ 108 (156)
-|.+|.... ..+-..||+|......+.
T Consensus 196 ~C~sC~qqI-----------HRNAPiCPlCK~KsRSrn 222 (230)
T PF10146_consen 196 TCQSCHQQI-----------HRNAPICPLCKAKSRSRN 222 (230)
T ss_pred hhHhHHHHH-----------hcCCCCCcccccccccCC
Confidence 488898766 377889999998875543
No 199
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=40.27 E-value=7.6 Score=30.60 Aligned_cols=54 Identities=24% Similarity=0.419 Sum_probs=30.8
Q ss_pred CCcccCccccccCCCCe-----eccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 47 DIELTCPVCLETVFDPV-----SLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv-----~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
.+...|.+|....+... .-.||++||..|-...+. ......+....|+.|-..+
T Consensus 166 ~ea~~C~~C~~~~Ftl~~RRHHCR~CG~ivC~~Cs~n~~~----l~~~~~k~~rvC~~CF~el 224 (288)
T KOG1729|consen 166 SEATECMVCGCTEFTLSERRHHCRNCGDIVCAPCSRNRFL----LPNLSTKPIRVCDICFEEL 224 (288)
T ss_pred ccceecccCCCccccHHHHHHHHHhcchHhhhhhhcCccc----ccccCCCCceecHHHHHHH
Confidence 45678999999522221 126999999999755320 1111112233677775544
No 200
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=39.57 E-value=23 Score=28.37 Aligned_cols=45 Identities=9% Similarity=-0.061 Sum_probs=33.1
Q ss_pred CCcccCccccccCCCCeeccCCCc-ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 47 DIELTCPVCLETVFDPVSLTCGHI-LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~l~CgH~-fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
-..+.|-.|..-+....-.+|+|. ||..|.. + .....||+|....
T Consensus 341 ~s~~~~~~~~~~~~st~~~~~~~n~~~~~~a~--~-----------s~~~~~~~c~~~~ 386 (394)
T KOG2113|consen 341 MSSLKGTSAGFGLLSTIWSGGNMNLSPGSLAS--A-----------SASPTSSTCDHND 386 (394)
T ss_pred hhhcccccccCceeeeEeecCCcccChhhhhh--c-----------ccCCccccccccc
Confidence 346788888886666556689996 8999985 1 5578899997643
No 201
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.45 E-value=14 Score=30.74 Aligned_cols=20 Identities=30% Similarity=0.605 Sum_probs=15.0
Q ss_pred CCCeeccCCCcccHhhHHHH
Q 041693 60 FDPVSLTCGHILCKMCACSA 79 (156)
Q Consensus 60 ~~Pv~l~CgH~fC~~Ci~~~ 79 (156)
..+|.-.|||.||..|...|
T Consensus 177 ~~~v~C~~g~~FC~~C~~~~ 196 (444)
T KOG1815|consen 177 SVEVDCGCGHEFCFACGEES 196 (444)
T ss_pred ccceeCCCCchhHhhccccc
Confidence 34455589999999998644
No 202
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=39.42 E-value=19 Score=21.36 Aligned_cols=11 Identities=27% Similarity=0.646 Sum_probs=8.6
Q ss_pred CCCCCCCCCCc
Q 041693 92 DPTEKCPLCRK 102 (156)
Q Consensus 92 ~~~~~CP~Cr~ 102 (156)
+....||.|.-
T Consensus 46 ~~~Y~CP~CGF 56 (59)
T PRK14890 46 SNPYTCPKCGF 56 (59)
T ss_pred CCceECCCCCC
Confidence 56788999964
No 203
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=38.77 E-value=21 Score=27.45 Aligned_cols=22 Identities=23% Similarity=0.705 Sum_probs=16.5
Q ss_pred cCccccccCCCCeeccCCCcccHhhHHHHH
Q 041693 51 TCPVCLETVFDPVSLTCGHILCKMCACSAA 80 (156)
Q Consensus 51 ~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~ 80 (156)
.|+||. ..-.+-||..|+...+
T Consensus 1 ~C~iC~--------~~~~~~~C~~C~~~~L 22 (302)
T PF10186_consen 1 QCPICH--------NSRRRFYCANCVNNRL 22 (302)
T ss_pred CCCCCC--------CCCCCeECHHHHHHHH
Confidence 499999 3456778999997554
No 204
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=38.74 E-value=13 Score=30.45 Aligned_cols=31 Identities=26% Similarity=0.586 Sum_probs=24.1
Q ss_pred CCcccCcccccc-CCCCeeccCCCcccHhhHH
Q 041693 47 DIELTCPVCLET-VFDPVSLTCGHILCKMCAC 77 (156)
Q Consensus 47 ~~~l~C~IC~~~-~~~Pv~l~CgH~fC~~Ci~ 77 (156)
...+.|.-|... ...-..+|||..||+.|+.
T Consensus 37 ~gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~ 68 (441)
T COG4098 37 NGKYRCNRCGNTHIELFAKLPCGCLYCRNCLM 68 (441)
T ss_pred cCcEEehhcCCcchhhhcccccceEeehhhhh
Confidence 456799999954 3445568999999999994
No 205
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=38.48 E-value=86 Score=18.55 Aligned_cols=14 Identities=29% Similarity=0.664 Sum_probs=10.8
Q ss_pred CCCCCCCCcCcccC
Q 041693 94 TEKCPLCRKAGVYQ 107 (156)
Q Consensus 94 ~~~CP~Cr~~~~~~ 107 (156)
...||.|+.++...
T Consensus 3 HkHC~~CG~~Ip~~ 16 (59)
T PF09889_consen 3 HKHCPVCGKPIPPD 16 (59)
T ss_pred CCcCCcCCCcCCcc
Confidence 45799999988643
No 206
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=37.86 E-value=24 Score=19.48 Aligned_cols=23 Identities=35% Similarity=0.621 Sum_probs=13.0
Q ss_pred CccccccCCCCeeccCCCcccHh
Q 041693 52 CPVCLETVFDPVSLTCGHILCKM 74 (156)
Q Consensus 52 C~IC~~~~~~Pv~l~CgH~fC~~ 74 (156)
|..|...-.-=+-+.|+|.+|..
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~ 24 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGR 24 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCC
Confidence 55566433222345688888854
No 207
>KOG3053 consensus Uncharacterized conserved protein [Function unknown]
Probab=37.82 E-value=25 Score=27.37 Aligned_cols=57 Identities=19% Similarity=0.302 Sum_probs=36.4
Q ss_pred CCCCcccCccccccCCCCee----ccCC-----CcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 45 RLDIELTCPVCLETVFDPVS----LTCG-----HILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 45 ~~~~~l~C~IC~~~~~~Pv~----l~Cg-----H~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
+.+.+-.|=||+..=.+--. -||. |=...+|+.+|.+... .........||.|+...
T Consensus 16 ~~e~eR~CWiCF~TdeDn~~a~WV~PCrCRGt~KWVHqsCL~rWiDEK~---~~n~~q~V~C~QCqTEY 81 (293)
T KOG3053|consen 16 NQELERCCWICFATDEDNRLAAWVHPCRCRGTTKWVHQSCLSRWIDEKQ---RGNPLQTVSCPQCQTEY 81 (293)
T ss_pred ccccceeEEEEeccCcccchhhhcccccccCccHHHHHHHHHHHHhHHh---cCCCCceeechhhcchh
Confidence 34567789999986544322 2542 3457899999984211 12224467899999875
No 208
>COG2816 NPY1 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]
Probab=36.98 E-value=9.8 Score=29.83 Aligned_cols=31 Identities=19% Similarity=0.449 Sum_probs=20.8
Q ss_pred CCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 67 CGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 67 CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
=.|.||..|-.+.. ....+....||.|+...
T Consensus 109 ~~~RFCg~CG~~~~-------~~~~g~~~~C~~cg~~~ 139 (279)
T COG2816 109 RSHRFCGRCGTKTY-------PREGGWARVCPKCGHEH 139 (279)
T ss_pred hhCcCCCCCCCcCc-------cccCceeeeCCCCCCcc
Confidence 56888888875442 22334567899998764
No 209
>PRK00420 hypothetical protein; Validated
Probab=36.65 E-value=16 Score=24.59 Aligned_cols=12 Identities=42% Similarity=0.930 Sum_probs=8.5
Q ss_pred cccCccccccCC
Q 041693 49 ELTCPVCLETVF 60 (156)
Q Consensus 49 ~l~C~IC~~~~~ 60 (156)
.-.||+|...+.
T Consensus 23 ~~~CP~Cg~pLf 34 (112)
T PRK00420 23 SKHCPVCGLPLF 34 (112)
T ss_pred cCCCCCCCCcce
Confidence 368998887554
No 210
>KOG1818 consensus Membrane trafficking and cell signaling protein HRS, contains VHS and FYVE domains [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=36.53 E-value=13 Score=32.46 Aligned_cols=57 Identities=18% Similarity=0.413 Sum_probs=36.1
Q ss_pred cCCCCcccCccccccCC----CCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 44 IRLDIELTCPVCLETVF----DPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 44 ~~~~~~l~C~IC~~~~~----~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
..+.+...|-.|.-.|. .-....||-+||..|....+.. ..+........|-.|-..
T Consensus 160 pdW~D~~~C~rCr~~F~~~~rkHHCr~CG~vFC~qcss~s~~l---P~~Gi~~~VRVCd~C~E~ 220 (634)
T KOG1818|consen 160 PDWIDSEECLRCRVKFGLTNRKHHCRNCGQVFCGQCSSKSLTL---PKLGIEKPVRVCDSCYEL 220 (634)
T ss_pred cccccccccceeeeeeeeccccccccccchhhccCccccccCc---ccccccccceehhhhHHH
Confidence 45667788999988773 2234579999999998765421 112222334678777443
No 211
>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=36.18 E-value=34 Score=19.25 Aligned_cols=31 Identities=23% Similarity=0.318 Sum_probs=23.3
Q ss_pred CcccCccccccCCCCe-eccCCCcccHhhHHH
Q 041693 48 IELTCPVCLETVFDPV-SLTCGHILCKMCACS 78 (156)
Q Consensus 48 ~~l~C~IC~~~~~~Pv-~l~CgH~fC~~Ci~~ 78 (156)
+=+.|..|...+.... ...=|..||..|..+
T Consensus 25 ~Cf~C~~C~~~l~~~~~~~~~~~~~C~~c~~~ 56 (58)
T PF00412_consen 25 ECFKCSKCGKPLNDGDFYEKDGKPYCKDCYQK 56 (58)
T ss_dssp TTSBETTTTCBTTTSSEEEETTEEEEHHHHHH
T ss_pred cccccCCCCCccCCCeeEeECCEEECHHHHhh
Confidence 4688999999886653 445678899998754
No 212
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=35.89 E-value=18 Score=20.34 Aligned_cols=15 Identities=33% Similarity=0.563 Sum_probs=9.1
Q ss_pred ccCCCCcccCccccc
Q 041693 43 SIRLDIELTCPVCLE 57 (156)
Q Consensus 43 ~~~~~~~l~C~IC~~ 57 (156)
-..|.+++.||+|..
T Consensus 28 F~~Lp~~w~CP~C~a 42 (47)
T PF00301_consen 28 FEDLPDDWVCPVCGA 42 (47)
T ss_dssp GGGS-TT-B-TTTSS
T ss_pred HHHCCCCCcCcCCCC
Confidence 346778999999974
No 213
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=35.60 E-value=19 Score=25.78 Aligned_cols=12 Identities=17% Similarity=0.631 Sum_probs=7.6
Q ss_pred CCcccHhhHHHH
Q 041693 68 GHILCKMCACSA 79 (156)
Q Consensus 68 gH~fC~~Ci~~~ 79 (156)
.+.||..|-..-
T Consensus 27 ~~~fC~kCG~~t 38 (158)
T PF10083_consen 27 REKFCSKCGAKT 38 (158)
T ss_pred HHHHHHHhhHHH
Confidence 356777776544
No 214
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=35.30 E-value=21 Score=31.73 Aligned_cols=57 Identities=25% Similarity=0.449 Sum_probs=38.4
Q ss_pred CCcccCccccccCCCCe----------eccCCCcc--------------------cHhhHHHHHhhhhhccccCCCCCCC
Q 041693 47 DIELTCPVCLETVFDPV----------SLTCGHIL--------------------CKMCACSAASVSIVDGLKLADPTEK 96 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv----------~l~CgH~f--------------------C~~Ci~~~~~~~~~~~~~~~~~~~~ 96 (156)
.|--.|+-|+.-+.+|. .+.||..| |..|...+.++.. ..-......
T Consensus 66 pD~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p~~---rr~h~~~~~ 142 (711)
T TIGR00143 66 ADVATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRENTSMADFPLCPDCAKEYKDPLD---RRFHAQPIA 142 (711)
T ss_pred CchhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCCCcCCCCCcCCHHHHHHhcCCcc---ccCCCCCcc
Confidence 35678999998877763 23577655 9999998863221 111234578
Q ss_pred CCCCCcCccc
Q 041693 97 CPLCRKAGVY 106 (156)
Q Consensus 97 CP~Cr~~~~~ 106 (156)
||.|.-.+..
T Consensus 143 C~~Cgp~l~l 152 (711)
T TIGR00143 143 CPRCGPQLNF 152 (711)
T ss_pred CCCCCcEEEE
Confidence 9999887754
No 215
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=34.92 E-value=20 Score=20.46 Aligned_cols=14 Identities=36% Similarity=0.669 Sum_probs=11.2
Q ss_pred cCCCCcccCccccc
Q 041693 44 IRLDIELTCPVCLE 57 (156)
Q Consensus 44 ~~~~~~l~C~IC~~ 57 (156)
..+.+++.||+|..
T Consensus 29 ~~Lp~~w~CP~C~a 42 (50)
T cd00730 29 EDLPDDWVCPVCGA 42 (50)
T ss_pred hHCCCCCCCCCCCC
Confidence 35678899999975
No 216
>TIGR00622 ssl1 transcription factor ssl1. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.79 E-value=39 Score=22.78 Aligned_cols=41 Identities=22% Similarity=0.530 Sum_probs=27.1
Q ss_pred ccCccccccCCCCe--------------eccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCC
Q 041693 50 LTCPVCLETVFDPV--------------SLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCR 101 (156)
Q Consensus 50 l~C~IC~~~~~~Pv--------------~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr 101 (156)
..|-.|+..|..+. -..|++.||.+|=.=+ ...-..||-|.
T Consensus 56 ~~C~~C~~~f~~~~~~~~~~~~~~~~y~C~~C~~~FC~dCD~fi-----------He~Lh~CPGC~ 110 (112)
T TIGR00622 56 RFCFGCQGPFPKPPVSPFDELKDSHRYVCAVCKNVFCVDCDVFV-----------HESLHCCPGCI 110 (112)
T ss_pred CcccCcCCCCCCcccccccccccccceeCCCCCCccccccchhh-----------hhhccCCcCCC
Confidence 35888988876541 1258899999885322 24456688885
No 217
>PF12773 DZR: Double zinc ribbon
Probab=34.38 E-value=47 Score=18.28 Aligned_cols=14 Identities=21% Similarity=0.603 Sum_probs=9.0
Q ss_pred CCCCCCCCCCcCcc
Q 041693 92 DPTEKCPLCRKAGV 105 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~ 105 (156)
.....||.|...+.
T Consensus 27 ~~~~~C~~Cg~~~~ 40 (50)
T PF12773_consen 27 QSKKICPNCGAENP 40 (50)
T ss_pred CCCCCCcCCcCCCc
Confidence 34567888877653
No 218
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=34.36 E-value=33 Score=26.19 Aligned_cols=27 Identities=22% Similarity=0.598 Sum_probs=19.8
Q ss_pred ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccCC
Q 041693 71 LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQG 108 (156)
Q Consensus 71 fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~~ 108 (156)
.|.+|-.+.- .+...||+|........
T Consensus 251 ~ClsChqqIH-----------RNAPiCPlCKaKsRSrN 277 (286)
T KOG4451|consen 251 VCLSCHQQIH-----------RNAPICPLCKAKSRSRN 277 (286)
T ss_pred HHHHHHHHHh-----------cCCCCCcchhhccccCC
Confidence 4778876653 67789999998775543
No 219
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=33.53 E-value=9 Score=17.38 Aligned_cols=12 Identities=25% Similarity=0.814 Sum_probs=8.4
Q ss_pred cCccccccCCCC
Q 041693 51 TCPVCLETVFDP 62 (156)
Q Consensus 51 ~C~IC~~~~~~P 62 (156)
.|++|...|..+
T Consensus 2 ~C~~C~~~f~~~ 13 (23)
T PF00096_consen 2 KCPICGKSFSSK 13 (23)
T ss_dssp EETTTTEEESSH
T ss_pred CCCCCCCccCCH
Confidence 578887777654
No 220
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=33.07 E-value=35 Score=27.79 Aligned_cols=14 Identities=36% Similarity=0.738 Sum_probs=9.9
Q ss_pred CcccCccccccCCC
Q 041693 48 IELTCPVCLETVFD 61 (156)
Q Consensus 48 ~~l~C~IC~~~~~~ 61 (156)
.+-.||+|.+....
T Consensus 14 l~ElCPVCGDkVSG 27 (475)
T KOG4218|consen 14 LGELCPVCGDKVSG 27 (475)
T ss_pred cccccccccCcccc
Confidence 34579999986543
No 221
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=33.00 E-value=8.8 Score=19.09 Aligned_cols=10 Identities=30% Similarity=0.873 Sum_probs=3.6
Q ss_pred cCccccccCC
Q 041693 51 TCPVCLETVF 60 (156)
Q Consensus 51 ~C~IC~~~~~ 60 (156)
.|+.|..++.
T Consensus 3 ~C~rC~~~~~ 12 (30)
T PF06827_consen 3 KCPRCWNYIE 12 (30)
T ss_dssp B-TTT--BBE
T ss_pred cCccCCCcce
Confidence 4555655543
No 222
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=32.93 E-value=21 Score=17.01 Aligned_cols=10 Identities=30% Similarity=1.059 Sum_probs=7.2
Q ss_pred ccCccccccC
Q 041693 50 LTCPVCLETV 59 (156)
Q Consensus 50 l~C~IC~~~~ 59 (156)
..|++|...|
T Consensus 3 ~~C~~CgR~F 12 (25)
T PF13913_consen 3 VPCPICGRKF 12 (25)
T ss_pred CcCCCCCCEE
Confidence 4688777766
No 223
>PF07503 zf-HYPF: HypF finger; InterPro: IPR011125 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. Proteins of the HypF family are involved in the maturation and regulation of hydrogenase []. In the N terminus they appear to have two zinc finger domains that are similar to those found in the DnaJ chaperone []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3TTD_A 3TSQ_A 3TTC_A 3TSP_A 3TTF_A 3TSU_A.
Probab=32.69 E-value=54 Score=17.18 Aligned_cols=31 Identities=19% Similarity=0.239 Sum_probs=14.7
Q ss_pred ccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 71 LCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 71 fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
.|..|+..+.+... ..-......|+.|+-.+
T Consensus 1 lC~~C~~Ey~~p~~---RR~~~~~isC~~CGPr~ 31 (35)
T PF07503_consen 1 LCDDCLKEYFDPSN---RRFHYQFISCTNCGPRY 31 (35)
T ss_dssp --HHHHHHHCSTTS---TTTT-TT--BTTCC-SC
T ss_pred CCHHHHHHHcCCCC---CcccCcCccCCCCCCCE
Confidence 47888888763221 11123357799997654
No 224
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=32.52 E-value=19 Score=17.83 Aligned_cols=11 Identities=36% Similarity=0.860 Sum_probs=6.1
Q ss_pred CCCCCCcCccc
Q 041693 96 KCPLCRKAGVY 106 (156)
Q Consensus 96 ~CP~Cr~~~~~ 106 (156)
.||.|...+..
T Consensus 1 ~CP~C~s~l~~ 11 (28)
T PF03119_consen 1 TCPVCGSKLVR 11 (28)
T ss_dssp B-TTT--BEEE
T ss_pred CcCCCCCEeEc
Confidence 49999998764
No 225
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=30.19 E-value=17 Score=16.05 Aligned_cols=11 Identities=27% Similarity=0.890 Sum_probs=5.6
Q ss_pred cCccccccCCC
Q 041693 51 TCPVCLETVFD 61 (156)
Q Consensus 51 ~C~IC~~~~~~ 61 (156)
.|++|...+..
T Consensus 2 ~C~~C~~~~~~ 12 (24)
T PF13894_consen 2 QCPICGKSFRS 12 (24)
T ss_dssp E-SSTS-EESS
T ss_pred CCcCCCCcCCc
Confidence 57777766544
No 226
>PF10013 DUF2256: Uncharacterized protein conserved in bacteria (DUF2256); InterPro: IPR017136 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=30.02 E-value=43 Score=18.41 Aligned_cols=15 Identities=27% Similarity=0.735 Sum_probs=11.8
Q ss_pred CCCCCCCCCCCcCcc
Q 041693 91 ADPTEKCPLCRKAGV 105 (156)
Q Consensus 91 ~~~~~~CP~Cr~~~~ 105 (156)
.-....||+|..++.
T Consensus 5 ~lp~K~C~~C~rpf~ 19 (42)
T PF10013_consen 5 NLPSKICPVCGRPFT 19 (42)
T ss_pred cCCCCcCcccCCcch
Confidence 355788999999874
No 227
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=29.77 E-value=50 Score=24.47 Aligned_cols=40 Identities=20% Similarity=0.700 Sum_probs=25.8
Q ss_pred CCcccCcccccc-CC---CC-eec---cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCc
Q 041693 47 DIELTCPVCLET-VF---DP-VSL---TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRK 102 (156)
Q Consensus 47 ~~~l~C~IC~~~-~~---~P-v~l---~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~ 102 (156)
...+.|-+|.+. +. +. .+. .|+..|-+.|. .. ..||.|..
T Consensus 150 ~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~---------------~~-~~CpkC~R 197 (202)
T PF13901_consen 150 QKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCF---------------RK-KSCPKCAR 197 (202)
T ss_pred hCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhc---------------CC-CCCCCcHh
Confidence 347889999852 11 11 121 58999999998 22 56999954
No 228
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=29.66 E-value=31 Score=20.70 Aligned_cols=12 Identities=42% Similarity=0.778 Sum_probs=10.0
Q ss_pred CCCCCCCCcCcc
Q 041693 94 TEKCPLCRKAGV 105 (156)
Q Consensus 94 ~~~CP~Cr~~~~ 105 (156)
...||.|++++.
T Consensus 6 ~v~CP~C~k~~~ 17 (62)
T PRK00418 6 TVNCPTCGKPVE 17 (62)
T ss_pred cccCCCCCCccc
Confidence 568999999874
No 229
>PF14369 zf-RING_3: zinc-finger
Probab=29.46 E-value=19 Score=18.83 Aligned_cols=10 Identities=30% Similarity=0.697 Sum_probs=7.5
Q ss_pred CCCCCCCcCc
Q 041693 95 EKCPLCRKAG 104 (156)
Q Consensus 95 ~~CP~Cr~~~ 104 (156)
..||.|...+
T Consensus 22 ~~CP~C~~gF 31 (35)
T PF14369_consen 22 VACPRCHGGF 31 (35)
T ss_pred cCCcCCCCcE
Confidence 4699998755
No 230
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=29.18 E-value=23 Score=28.59 Aligned_cols=49 Identities=16% Similarity=0.215 Sum_probs=33.2
Q ss_pred ccCccccccCCCCeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 50 LTCPVCLETVFDPVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 50 l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
--|.|-.++=-+|..-.-.-|-|..|..++- -.........||.|...+
T Consensus 227 ~g~~ivaNyGLdP~LGKY~~TAC~rC~t~y~------le~A~~~~wrCpkCGg~i 275 (403)
T COG1379 227 DGCKIVANYGLDPRLGKYHLTACSRCYTRYS------LEEAKSLRWRCPKCGGKI 275 (403)
T ss_pred CCceEEEecCcCccccchhHHHHHHhhhccC------cchhhhhcccCcccccch
Confidence 3467767766777665666677999986662 122235578999999865
No 231
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=29.15 E-value=31 Score=22.99 Aligned_cols=15 Identities=27% Similarity=0.477 Sum_probs=10.6
Q ss_pred CCCCCCCCCCcCccc
Q 041693 92 DPTEKCPLCRKAGVY 106 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~~ 106 (156)
.....||.|...+..
T Consensus 29 ~~~~~C~~CGe~~~~ 43 (127)
T TIGR03830 29 VPGWYCPACGEELLD 43 (127)
T ss_pred eeeeECCCCCCEEEc
Confidence 445679999887643
No 232
>COG4640 Predicted membrane protein [Function unknown]
Probab=28.78 E-value=29 Score=28.69 Aligned_cols=24 Identities=33% Similarity=0.665 Sum_probs=14.5
Q ss_pred ccCcccc-ccCCCCeec-cCCCcccH
Q 041693 50 LTCPVCL-ETVFDPVSL-TCGHILCK 73 (156)
Q Consensus 50 l~C~IC~-~~~~~Pv~l-~CgH~fC~ 73 (156)
..||-|. +-..+.+.. .|||.|=.
T Consensus 2 ~fC~kcG~qk~Ed~~qC~qCG~~~t~ 27 (465)
T COG4640 2 KFCPKCGSQKAEDDVQCTQCGHKFTS 27 (465)
T ss_pred CcccccccccccccccccccCCcCCc
Confidence 3577777 555555553 47776643
No 233
>PLN03086 PRLI-interacting factor K; Provisional
Probab=28.71 E-value=79 Score=27.51 Aligned_cols=14 Identities=14% Similarity=0.223 Sum_probs=9.6
Q ss_pred CCCCCCCCCCcCcc
Q 041693 92 DPTEKCPLCRKAGV 105 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~ 105 (156)
.....|+.|...+.
T Consensus 502 ~Kpi~C~fC~~~v~ 515 (567)
T PLN03086 502 LRLITCRFCGDMVQ 515 (567)
T ss_pred CCceeCCCCCCccc
Confidence 34567888877764
No 234
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=28.26 E-value=25 Score=30.99 Aligned_cols=12 Identities=25% Similarity=0.692 Sum_probs=6.6
Q ss_pred CCCCCCCCCcCc
Q 041693 93 PTEKCPLCRKAG 104 (156)
Q Consensus 93 ~~~~CP~Cr~~~ 104 (156)
+...||.|+..+
T Consensus 40 ~~~fC~~CG~~~ 51 (645)
T PRK14559 40 DEAHCPNCGAET 51 (645)
T ss_pred ccccccccCCcc
Confidence 345566666554
No 235
>KOG3183 consensus Predicted Zn-finger protein [General function prediction only]
Probab=27.89 E-value=47 Score=25.52 Aligned_cols=56 Identities=27% Similarity=0.510 Sum_probs=34.9
Q ss_pred cCc--cccccCCCCeec-cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcccC
Q 041693 51 TCP--VCLETVFDPVSL-TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 51 ~C~--IC~~~~~~Pv~l-~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~~ 107 (156)
-|. .|.++=+-|..- .|++.||..=.. +.++.=....+.......||.|..++...
T Consensus 10 HCs~~~CkqlDFLPf~Cd~C~~~FC~eHrs-ye~H~Cp~~~~~~~~v~icp~cs~pv~~~ 68 (250)
T KOG3183|consen 10 HCSVPYCKQLDFLPFKCDGCSGIFCLEHRS-YESHHCPKGLRIDVQVPICPLCSKPVPTK 68 (250)
T ss_pred ccCcchhhhccccceeeCCccchhhhccch-HhhcCCCcccccceeecccCCCCCCCCCC
Confidence 454 788887888887 599999875321 11111111223334568899999988654
No 236
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=27.65 E-value=36 Score=20.04 Aligned_cols=23 Identities=39% Similarity=0.686 Sum_probs=12.4
Q ss_pred CccccccCCCCe-eccCCCcccHh
Q 041693 52 CPVCLETVFDPV-SLTCGHILCKM 74 (156)
Q Consensus 52 C~IC~~~~~~Pv-~l~CgH~fC~~ 74 (156)
|..|...-.+.- -|.||+.+|..
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~ 24 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGR 24 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETT
T ss_pred CCCCCCcCCceEEeCCCCcccccC
Confidence 455664412222 36899999986
No 237
>KOG3726 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.55 E-value=37 Score=30.00 Aligned_cols=38 Identities=24% Similarity=0.444 Sum_probs=26.2
Q ss_pred cCccccccCCC-----CeeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 51 TCPVCLETVFD-----PVSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 51 ~C~IC~~~~~~-----Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
+|-+|+.. .+ +-++.|+-.||..|...+ ...||+|.-.
T Consensus 656 ~C~vcq~p-edse~~v~rt~~C~~~~C~~c~~~~--------------~~~~~vC~~~ 698 (717)
T KOG3726|consen 656 TCKVCQLP-EDSETDVCRTTFCYTPYCVACSLDY--------------ASISEVCGPD 698 (717)
T ss_pred HHHHhcCC-cCccccccCccccCCcchHhhhhhh--------------hccCcccCch
Confidence 67778753 33 334579999999998655 3469999654
No 238
>PRK05978 hypothetical protein; Provisional
Probab=27.54 E-value=48 Score=23.51 Aligned_cols=16 Identities=19% Similarity=0.567 Sum_probs=12.3
Q ss_pred CCCCCCCCCCcCcccC
Q 041693 92 DPTEKCPLCRKAGVYQ 107 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~~~ 107 (156)
+-...||.|...+...
T Consensus 50 kv~~~C~~CG~~~~~~ 65 (148)
T PRK05978 50 KPVDHCAACGEDFTHH 65 (148)
T ss_pred ccCCCccccCCccccC
Confidence 5567899999987653
No 239
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=27.14 E-value=1.1e+02 Score=22.25 Aligned_cols=18 Identities=17% Similarity=0.268 Sum_probs=13.6
Q ss_pred CCCCCCCCCCcCcccCCc
Q 041693 92 DPTEKCPLCRKAGVYQGA 109 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~~~~~ 109 (156)
...+.||.|+..+...+.
T Consensus 130 ~~~F~Cp~Cg~~L~~~d~ 147 (176)
T COG1675 130 ELGFTCPKCGEDLEEYDS 147 (176)
T ss_pred HhCCCCCCCCchhhhccc
Confidence 345899999999876544
No 240
>KOG2789 consensus Putative Zn-finger protein [General function prediction only]
Probab=27.07 E-value=25 Score=29.01 Aligned_cols=32 Identities=22% Similarity=0.632 Sum_probs=25.3
Q ss_pred cccCccccccCCCCeec--cCCCcccHhhHHHHH
Q 041693 49 ELTCPVCLETVFDPVSL--TCGHILCKMCACSAA 80 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l--~CgH~fC~~Ci~~~~ 80 (156)
...||||+-++.....+ -|..+.|..|+....
T Consensus 74 ~~ecpicflyyps~~n~~rcC~~~Ic~ecf~~~~ 107 (482)
T KOG2789|consen 74 KTECPICFLYYPSAKNLVRCCSETICGECFAPFG 107 (482)
T ss_pred cccCceeeeecccccchhhhhccchhhhheeccc
Confidence 46899999988765554 489999999997553
No 241
>PF06869 DUF1258: Protein of unknown function (DUF1258); InterPro: IPR009667 This family represents a conserved region approximately 260 residues long within a number of hypothetical proteins of unknown function that seem to be specific to Caenorhabditis elegans. Note that this family contains a number of conserved cysteine and histidine residues.
Probab=26.91 E-value=1e+02 Score=23.95 Aligned_cols=47 Identities=21% Similarity=0.414 Sum_probs=25.8
Q ss_pred CCcccHhhHHHHHhhhhhccccCCCCCCCCCCC--CcCcccCCccchhhHHHHHHHHHHHHHHHH
Q 041693 68 GHILCKMCACSAASVSIVDGLKLADPTEKCPLC--RKAGVYQGAIHLTELGILLSRSCREYWEKR 130 (156)
Q Consensus 68 gH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~C--r~~~~~~~~~~~~~~n~~l~~l~~~~~~~~ 130 (156)
.|.||-.|.... .....|-.| ...+..-.. .....|..|++.|..+-
T Consensus 17 ~h~~CN~CG~~~------------~~~~kC~~c~~~~vakfvRi----g~~~QL~dLV~~y~~~I 65 (258)
T PF06869_consen 17 THFICNSCGKVV------------ESNEKCSCCGCGPVAKFVRI----GGFSQLQDLVEQYLEDI 65 (258)
T ss_pred eehhhhhhhhhh------------ccCceeeccCCCccEEEEEE----cHHHHHHHHHHHHHHHH
Confidence 488999998622 334456545 444333222 13455666666665543
No 242
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=26.67 E-value=46 Score=17.51 Aligned_cols=29 Identities=28% Similarity=0.572 Sum_probs=18.2
Q ss_pred cccCccccccCCCCeeccCCCcccHhhHH
Q 041693 49 ELTCPVCLETVFDPVSLTCGHILCKMCAC 77 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~ 77 (156)
...|+.+.+....-.-..|+-.+|..|..
T Consensus 3 ~~~C~~H~~~~~~~~C~~C~~~~C~~C~~ 31 (42)
T PF00643_consen 3 EPKCPEHPEEPLSLFCEDCNEPLCSECTV 31 (42)
T ss_dssp SSB-SSTTTSBEEEEETTTTEEEEHHHHH
T ss_pred CccCccCCccceEEEecCCCCccCccCCC
Confidence 45677777632222234799999999985
No 243
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=26.24 E-value=74 Score=18.10 Aligned_cols=28 Identities=25% Similarity=0.712 Sum_probs=17.8
Q ss_pred cCccccccC--CCCeeccCCCcccHhhHHHH
Q 041693 51 TCPVCLETV--FDPVSLTCGHILCKMCACSA 79 (156)
Q Consensus 51 ~C~IC~~~~--~~Pv~l~CgH~fC~~Ci~~~ 79 (156)
.|+||.+-+ ...+-+.=| ..|.+|+.+.
T Consensus 1 ~C~iCg~kigl~~~~k~~DG-~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKIKDG-YICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceeccCc-cchHHHHHHh
Confidence 488888753 333445556 5788888654
No 244
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=26.12 E-value=33 Score=23.08 Aligned_cols=11 Identities=36% Similarity=0.939 Sum_probs=8.7
Q ss_pred ccCCCcccHhh
Q 041693 65 LTCGHILCKMC 75 (156)
Q Consensus 65 l~CgH~fC~~C 75 (156)
-.|||.||..=
T Consensus 27 c~CGh~f~d~r 37 (112)
T PF08882_consen 27 CDCGHEFCDAR 37 (112)
T ss_pred ccCCCeecChh
Confidence 47999999753
No 245
>PF03850 Tfb4: Transcription factor Tfb4; InterPro: IPR004600 Members of this family are part of the TFIIH complex which is involved in the initiation of transcription and nucleotide excision repair. The core-TFIIH basal transcription factor complex has six subunits, this is the p34 subunit.; GO: 0006281 DNA repair, 0006355 regulation of transcription, DNA-dependent, 0000439 core TFIIH complex
Probab=26.06 E-value=42 Score=26.27 Aligned_cols=12 Identities=42% Similarity=0.935 Sum_probs=6.2
Q ss_pred CcccCccccccC
Q 041693 48 IELTCPVCLETV 59 (156)
Q Consensus 48 ~~l~C~IC~~~~ 59 (156)
-.+.|++|+.+|
T Consensus 252 ~g~vCsvCLsIf 263 (276)
T PF03850_consen 252 IGYVCSVCLSIF 263 (276)
T ss_pred ceeEchhhhhhh
Confidence 345555555543
No 246
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=26.02 E-value=43 Score=29.47 Aligned_cols=51 Identities=27% Similarity=0.544 Sum_probs=32.2
Q ss_pred CCcccCccccccCCCCee--c---cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 47 DIELTCPVCLETVFDPVS--L---TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~--l---~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
...+.|++|...=..+-- + .||-.|-..|+..|+.... ..+.++||.||.-
T Consensus 16 ~~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~------l~~gWrC~~crvC 71 (694)
T KOG4443|consen 16 IVCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAV------LSGGWRCPSCRVC 71 (694)
T ss_pred hhhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHH------hcCCcccCCceee
Confidence 345778888776544332 2 5887888888887763211 1344788888754
No 247
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=26.01 E-value=35 Score=26.88 Aligned_cols=43 Identities=23% Similarity=0.497 Sum_probs=27.7
Q ss_pred ccCccccccCCCCeec----cCCCcc--cHhhHHHHHhhhhhccccCCCCCCCCCCCCcC
Q 041693 50 LTCPVCLETVFDPVSL----TCGHIL--CKMCACSAASVSIVDGLKLADPTEKCPLCRKA 103 (156)
Q Consensus 50 l~C~IC~~~~~~Pv~l----~CgH~f--C~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~ 103 (156)
-.||+|.......++. .=|-.| |.-|...|. .-+.+|..|...
T Consensus 186 ~~CPvCGS~PvaSmV~~g~~~~GlRYL~CslC~teW~-----------~VR~KC~nC~~t 234 (308)
T COG3058 186 QYCPVCGSMPVASMVQIGETEQGLRYLHCSLCETEWH-----------YVRVKCSNCEQS 234 (308)
T ss_pred ccCCCcCCCCcceeeeecCccccchhhhhhhHHHHHH-----------HHHHHhcccccc
Confidence 4899999976555432 133333 888999885 345567777654
No 248
>KOG3896 consensus Dynactin, subunit p62 [Cell motility]
Probab=25.92 E-value=31 Score=27.94 Aligned_cols=14 Identities=21% Similarity=0.437 Sum_probs=7.1
Q ss_pred CCCCcccCcccccc
Q 041693 45 RLDIELTCPVCLET 58 (156)
Q Consensus 45 ~~~~~l~C~IC~~~ 58 (156)
++.+.+.|.-|.++
T Consensus 20 pl~~L~FCRyC~kl 33 (449)
T KOG3896|consen 20 PLPDLVFCRYCFKL 33 (449)
T ss_pred cccceeeeeccccc
Confidence 34445555555554
No 249
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=25.90 E-value=43 Score=26.99 Aligned_cols=25 Identities=20% Similarity=0.688 Sum_probs=13.3
Q ss_pred CccccccCC-CCe-ec-cCCCcccHhhH
Q 041693 52 CPVCLETVF-DPV-SL-TCGHILCKMCA 76 (156)
Q Consensus 52 C~IC~~~~~-~Pv-~l-~CgH~fC~~Ci 76 (156)
|-.|+.-.. .+. +- .|.++||.+|=
T Consensus 333 Cf~C~~~~~~~~~y~C~~Ck~~FCldCD 360 (378)
T KOG2807|consen 333 CFACQGELLSSGRYRCESCKNVFCLDCD 360 (378)
T ss_pred eeeeccccCCCCcEEchhccceeeccch
Confidence 666644332 222 22 47777777774
No 250
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=25.29 E-value=56 Score=28.43 Aligned_cols=30 Identities=23% Similarity=0.502 Sum_probs=22.2
Q ss_pred CcccCccccccCC-----CCeecc-CCCcccHhhHH
Q 041693 48 IELTCPVCLETVF-----DPVSLT-CGHILCKMCAC 77 (156)
Q Consensus 48 ~~l~C~IC~~~~~-----~Pv~l~-CgH~fC~~Ci~ 77 (156)
+.+.|..|...+- .|..-. +|+.||..|..
T Consensus 339 Q~~~CAgC~~~i~~~~~~~~R~C~y~G~y~C~~Ch~ 374 (580)
T KOG1829|consen 339 QNFRCAGCGHTIGPDLEQRPRLCRYLGKYFCDCCHQ 374 (580)
T ss_pred cCceecccCCCcccccccchhHhhhhhhhhCchhcc
Confidence 5789999998765 333322 79999999984
No 251
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=25.18 E-value=41 Score=19.52 Aligned_cols=12 Identities=25% Similarity=0.448 Sum_probs=7.7
Q ss_pred CCCCCCCcCccc
Q 041693 95 EKCPLCRKAGVY 106 (156)
Q Consensus 95 ~~CP~Cr~~~~~ 106 (156)
+.||.|...+..
T Consensus 3 ~~CP~CG~~iev 14 (54)
T TIGR01206 3 FECPDCGAEIEL 14 (54)
T ss_pred cCCCCCCCEEec
Confidence 467777776644
No 252
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=25.15 E-value=27 Score=24.26 Aligned_cols=13 Identities=31% Similarity=0.784 Sum_probs=9.5
Q ss_pred cccCccccccCCC
Q 041693 49 ELTCPVCLETVFD 61 (156)
Q Consensus 49 ~l~C~IC~~~~~~ 61 (156)
.-.||.|.-.++.
T Consensus 28 ~~hCp~Cg~PLF~ 40 (131)
T COG1645 28 AKHCPKCGTPLFR 40 (131)
T ss_pred HhhCcccCCccee
Confidence 3589999886654
No 253
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=24.92 E-value=39 Score=23.59 Aligned_cols=23 Identities=26% Similarity=0.648 Sum_probs=18.9
Q ss_pred ccCccccccCCCCeeccCCCcccHhhHH
Q 041693 50 LTCPVCLETVFDPVSLTCGHILCKMCAC 77 (156)
Q Consensus 50 l~C~IC~~~~~~Pv~l~CgH~fC~~Ci~ 77 (156)
-.|+.|..+|... |..+|..|..
T Consensus 4 ~nC~~CgklF~~~-----~~~iCp~C~~ 26 (137)
T TIGR03826 4 ANCPKCGRLFVKT-----GRDVCPSCYE 26 (137)
T ss_pred ccccccchhhhhc-----CCccCHHHhH
Confidence 4799999998761 7788999985
No 254
>KOG3842 consensus Adaptor protein Pellino [Signal transduction mechanisms]
Probab=24.80 E-value=46 Score=26.75 Aligned_cols=47 Identities=34% Similarity=0.675 Sum_probs=27.1
Q ss_pred ccCccccccCC-------------CC-eeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 50 LTCPVCLETVF-------------DP-VSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 50 l~C~IC~~~~~-------------~P-v~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
-.||+=+..+. .| |-+.|||.--. ..|- ...........||+|+..-
T Consensus 291 PQCPVglnTL~~P~~~~~~~~~~~QP~vYl~CGHV~G~---H~WG-----~~e~~g~~~r~CPmC~~~g 351 (429)
T KOG3842|consen 291 PQCPVGLNTLAFPSKRRKRVVDEKQPWVYLNCGHVHGY---HNWG-----VRENTGQRERECPMCRVVG 351 (429)
T ss_pred CCCCcccceeecccccccccccccCCeEEEeccccccc---cccc-----cccccCcccCcCCeeeeec
Confidence 57888776653 23 34689997432 1221 1112223467899999764
No 255
>KOG3993 consensus Transcription factor (contains Zn finger) [Transcription]
Probab=24.52 E-value=10 Score=31.50 Aligned_cols=23 Identities=22% Similarity=0.333 Sum_probs=17.7
Q ss_pred ccCCCCcccCccccccCCCCeec
Q 041693 43 SIRLDIELTCPVCLETVFDPVSL 65 (156)
Q Consensus 43 ~~~~~~~l~C~IC~~~~~~Pv~l 65 (156)
..+..-++.|.+|...|.|+..|
T Consensus 261 i~n~iGdyiCqLCK~kYeD~F~L 283 (500)
T KOG3993|consen 261 IPNVIGDYICQLCKEKYEDAFAL 283 (500)
T ss_pred CcccHHHHHHHHHHHhhhhHHHH
Confidence 33444578999999999999876
No 256
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=24.50 E-value=20 Score=29.31 Aligned_cols=32 Identities=19% Similarity=0.443 Sum_probs=18.1
Q ss_pred cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCc
Q 041693 66 TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAG 104 (156)
Q Consensus 66 ~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~ 104 (156)
.=-.++|..|-..+- ..........|| |..++
T Consensus 237 KYh~~~c~~C~~~~~------~~~~~~~~~~Cp-CG~~i 268 (374)
T TIGR00375 237 KYHQTACEACGEPAV------SEDAETACANCP-CGGRI 268 (374)
T ss_pred ccchhhhcccCCcCC------chhhhhcCCCCC-CCCcc
Confidence 344567888864331 111122357899 99875
No 257
>KOG0801 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.97 E-value=46 Score=24.06 Aligned_cols=16 Identities=31% Similarity=0.642 Sum_probs=12.4
Q ss_pred CCCCCCCCCcCcccCC
Q 041693 93 PTEKCPLCRKAGVYQG 108 (156)
Q Consensus 93 ~~~~CP~Cr~~~~~~~ 108 (156)
..++||+|.+.+...+
T Consensus 137 ~g~KCPvC~K~V~sDd 152 (205)
T KOG0801|consen 137 SGMKCPVCHKVVPSDD 152 (205)
T ss_pred CCccCCccccccCCCc
Confidence 4589999999876544
No 258
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.79 E-value=43 Score=23.12 Aligned_cols=11 Identities=18% Similarity=0.223 Sum_probs=5.6
Q ss_pred CCCCCCCcCcc
Q 041693 95 EKCPLCRKAGV 105 (156)
Q Consensus 95 ~~CP~Cr~~~~ 105 (156)
..|..|..+++
T Consensus 69 sfchncgs~fp 79 (160)
T COG4306 69 SFCHNCGSRFP 79 (160)
T ss_pred chhhcCCCCCC
Confidence 34555555543
No 259
>COG5242 TFB4 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB4 [Transcription / DNA replication, recombination, and repair]
Probab=23.22 E-value=33 Score=26.23 Aligned_cols=14 Identities=36% Similarity=0.923 Sum_probs=8.9
Q ss_pred cccCccccccCCCC
Q 041693 49 ELTCPVCLETVFDP 62 (156)
Q Consensus 49 ~l~C~IC~~~~~~P 62 (156)
.+.|++|+.+|..|
T Consensus 260 GfvCsVCLsvfc~p 273 (296)
T COG5242 260 GFVCSVCLSVFCRP 273 (296)
T ss_pred eeehhhhheeecCC
Confidence 56677777766444
No 260
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=22.80 E-value=43 Score=16.04 Aligned_cols=10 Identities=30% Similarity=0.670 Sum_probs=7.9
Q ss_pred CCCCCCCCCC
Q 041693 92 DPTEKCPLCR 101 (156)
Q Consensus 92 ~~~~~CP~Cr 101 (156)
...+.||.|.
T Consensus 14 ~v~f~CPnCG 23 (24)
T PF07754_consen 14 AVPFPCPNCG 23 (24)
T ss_pred CceEeCCCCC
Confidence 5578899996
No 261
>PF14311 DUF4379: Domain of unknown function (DUF4379)
Probab=22.66 E-value=62 Score=18.37 Aligned_cols=8 Identities=38% Similarity=1.194 Sum_probs=5.1
Q ss_pred CCCCCCCC
Q 041693 93 PTEKCPLC 100 (156)
Q Consensus 93 ~~~~CP~C 100 (156)
....||.|
T Consensus 48 ~~~~CP~C 55 (55)
T PF14311_consen 48 RGKGCPYC 55 (55)
T ss_pred CCCCCCCC
Confidence 45567776
No 262
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=22.12 E-value=39 Score=20.31 Aligned_cols=12 Identities=42% Similarity=1.057 Sum_probs=9.0
Q ss_pred CCCCCCCCCCcC
Q 041693 92 DPTEKCPLCRKA 103 (156)
Q Consensus 92 ~~~~~CP~Cr~~ 103 (156)
.....||.|..+
T Consensus 16 ~d~e~CP~Cgs~ 27 (64)
T COG2093 16 EDTEICPVCGST 27 (64)
T ss_pred CCCccCCCCCCc
Confidence 345569999887
No 263
>PLN02248 cellulose synthase-like protein
Probab=22.08 E-value=72 Score=30.01 Aligned_cols=30 Identities=27% Similarity=0.683 Sum_probs=23.8
Q ss_pred cCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 66 TCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 66 ~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.|++..|++|....+ .....||-|+.+...
T Consensus 149 ~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 149 ECGFKICRDCYIDAV-----------KSGGICPGCKEPYKV 178 (1135)
T ss_pred cccchhHHhHhhhhh-----------hcCCCCCCCcccccc
Confidence 488889999998776 446789999987643
No 264
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=21.78 E-value=30 Score=31.37 Aligned_cols=45 Identities=27% Similarity=0.721 Sum_probs=0.0
Q ss_pred cccCccccccCCCCeeccCC-C----cccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 49 ELTCPVCLETVFDPVSLTCG-H----ILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 49 ~l~C~IC~~~~~~Pv~l~Cg-H----~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
...||-|...-.....-.|| | .+|..|-... ....||.|......
T Consensus 655 ~r~Cp~Cg~~t~~~~Cp~CG~~T~~~~~Cp~C~~~~-------------~~~~C~~C~~~~~~ 704 (900)
T PF03833_consen 655 RRRCPKCGKETFYNRCPECGSHTEPVYVCPDCGIEV-------------EEDECPKCGRETTS 704 (900)
T ss_dssp ---------------------------------------------------------------
T ss_pred cccCcccCCcchhhcCcccCCccccceecccccccc-------------CccccccccccCcc
Confidence 46799999865544444587 3 3799997543 23389999887643
No 265
>PF12874 zf-met: Zinc-finger of C2H2 type; PDB: 1ZU1_A 2KVG_A.
Probab=21.75 E-value=20 Score=16.54 Aligned_cols=13 Identities=15% Similarity=0.577 Sum_probs=8.5
Q ss_pred ccCccccccCCCC
Q 041693 50 LTCPVCLETVFDP 62 (156)
Q Consensus 50 l~C~IC~~~~~~P 62 (156)
+.|.||...|..+
T Consensus 1 ~~C~~C~~~f~s~ 13 (25)
T PF12874_consen 1 FYCDICNKSFSSE 13 (25)
T ss_dssp EEETTTTEEESSH
T ss_pred CCCCCCCCCcCCH
Confidence 3577887766554
No 266
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=21.32 E-value=48 Score=24.80 Aligned_cols=18 Identities=33% Similarity=0.617 Sum_probs=13.9
Q ss_pred CCcccCccccccCCCCee
Q 041693 47 DIELTCPVCLETVFDPVS 64 (156)
Q Consensus 47 ~~~l~C~IC~~~~~~Pv~ 64 (156)
....+||+|...|....+
T Consensus 3 ~k~~~CPvC~~~F~~~~v 20 (214)
T PF09986_consen 3 DKKITCPVCGKEFKTKKV 20 (214)
T ss_pred CCceECCCCCCeeeeeEE
Confidence 457899999999865543
No 267
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.29 E-value=16 Score=30.10 Aligned_cols=45 Identities=22% Similarity=0.423 Sum_probs=34.8
Q ss_pred cCccccccCCCC----eeccCCCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCccc
Q 041693 51 TCPVCLETVFDP----VSLTCGHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGVY 106 (156)
Q Consensus 51 ~C~IC~~~~~~P----v~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~~ 106 (156)
.|.||...++.- -.+.|||.+-..||.+|+ .....||.|+..+..
T Consensus 198 sl~I~~~slK~~y~k~~~~~~g~~~~~~kL~k~L-----------~~~~kl~~~~rel~~ 246 (465)
T KOG0827|consen 198 SLSICFESLKQNYDKISAIVCGHIYHHGKLSKWL-----------ATKRKLPSCRRELPK 246 (465)
T ss_pred hhHhhHHHHHHHHHHHHHHhhcccchhhHHHHHH-----------HHHHHhHHHHhhhhh
Confidence 688888877543 235799999999999998 335679999888743
No 268
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=21.24 E-value=43 Score=19.51 Aligned_cols=13 Identities=23% Similarity=0.646 Sum_probs=9.2
Q ss_pred CCCCCCCCCCcCc
Q 041693 92 DPTEKCPLCRKAG 104 (156)
Q Consensus 92 ~~~~~CP~Cr~~~ 104 (156)
+-...||.|++..
T Consensus 26 NfPlyCpKCK~Et 38 (55)
T PF14205_consen 26 NFPLYCPKCKQET 38 (55)
T ss_pred cccccCCCCCceE
Confidence 3456788888764
No 269
>COG4338 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.18 E-value=39 Score=19.23 Aligned_cols=14 Identities=29% Similarity=0.795 Sum_probs=11.0
Q ss_pred CCCCCCCCCCcCcc
Q 041693 92 DPTEKCPLCRKAGV 105 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~ 105 (156)
...+.||+|..++.
T Consensus 10 lp~KICpvCqRPFs 23 (54)
T COG4338 10 LPDKICPVCQRPFS 23 (54)
T ss_pred cchhhhhhhcCchH
Confidence 45678999998874
No 270
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=20.48 E-value=45 Score=22.34 Aligned_cols=10 Identities=30% Similarity=0.863 Sum_probs=7.9
Q ss_pred CCCCCCCCcC
Q 041693 94 TEKCPLCRKA 103 (156)
Q Consensus 94 ~~~CP~Cr~~ 103 (156)
...||.|+..
T Consensus 86 ~~~CP~Cgs~ 95 (115)
T TIGR00100 86 LYRCPKCHGI 95 (115)
T ss_pred CccCcCCcCC
Confidence 5679999875
No 271
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=20.41 E-value=41 Score=22.65 Aligned_cols=9 Identities=22% Similarity=0.674 Sum_probs=6.9
Q ss_pred CCCCCCCcC
Q 041693 95 EKCPLCRKA 103 (156)
Q Consensus 95 ~~CP~Cr~~ 103 (156)
..||.|...
T Consensus 89 ~~CP~Cgs~ 97 (117)
T PRK00564 89 GVCEKCHSK 97 (117)
T ss_pred CcCcCCCCC
Confidence 359999875
No 272
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 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 zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=20.39 E-value=71 Score=18.77 Aligned_cols=27 Identities=33% Similarity=0.925 Sum_probs=19.1
Q ss_pred CeeccCCCcccHhhHHHHHhhhhhccccCCCC-CCCCCCCCcCcc
Q 041693 62 PVSLTCGHILCKMCACSAASVSIVDGLKLADP-TEKCPLCRKAGV 105 (156)
Q Consensus 62 Pv~l~CgH~fC~~Ci~~~~~~~~~~~~~~~~~-~~~CP~Cr~~~~ 105 (156)
|--+.||-++|.. .+ ...||.|..++.
T Consensus 19 ~NCl~CGkIiC~~-----------------Eg~~~pC~fCg~~l~ 46 (57)
T PF06221_consen 19 PNCLNCGKIICEQ-----------------EGPLGPCPFCGTPLL 46 (57)
T ss_pred ccccccChhhccc-----------------ccCcCcCCCCCCccc
Confidence 3346799988852 34 578999987663
No 273
>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=20.29 E-value=36 Score=19.66 Aligned_cols=14 Identities=21% Similarity=0.674 Sum_probs=7.0
Q ss_pred CCCCCCCCCCcCcc
Q 041693 92 DPTEKCPLCRKAGV 105 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~ 105 (156)
.....||.|...+.
T Consensus 22 ~~PatCP~C~a~~~ 35 (54)
T PF09237_consen 22 EQPATCPICGAVIR 35 (54)
T ss_dssp S--EE-TTT--EES
T ss_pred CCCCCCCcchhhcc
Confidence 44678999998774
No 274
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.23 E-value=1e+02 Score=18.64 Aligned_cols=15 Identities=40% Similarity=0.736 Sum_probs=11.5
Q ss_pred CCCCCCCCCCcCccc
Q 041693 92 DPTEKCPLCRKAGVY 106 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~~ 106 (156)
.....||.|.+++..
T Consensus 5 ~~~v~CP~Cgkpv~w 19 (65)
T COG3024 5 RITVPCPTCGKPVVW 19 (65)
T ss_pred cccccCCCCCCcccc
Confidence 345689999998865
No 275
>PF12660 zf-TFIIIC: Putative zinc-finger of transcription factor IIIC complex; InterPro: IPR024764 This zinc-finger domain is at the very C terminus of a number of different TFIIIC subunit proteins. This domain might be involved in protein-DNA and/or protein-protein interactions [].; PDB: 2J04_C.
Probab=20.06 E-value=38 Score=22.14 Aligned_cols=48 Identities=25% Similarity=0.659 Sum_probs=15.1
Q ss_pred ccCccccccC--CCCeeccC--CCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCcCcc
Q 041693 50 LTCPVCLETV--FDPVSLTC--GHILCKMCACSAASVSIVDGLKLADPTEKCPLCRKAGV 105 (156)
Q Consensus 50 l~C~IC~~~~--~~Pv~l~C--gH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~~~~ 105 (156)
-.|++|...+ .++....| ||+| .+|..+.+ . .. ......|+.|....-
T Consensus 15 E~C~~C~~~i~~~~~~~~~C~~GH~w-~RC~lT~l-----~-i~-~~~~r~C~~C~~~~l 66 (99)
T PF12660_consen 15 EKCPICGAPIPFDDLDEAQCENGHVW-PRCALTFL-----P-IQ-TPGVRVCPVCGRRAL 66 (99)
T ss_dssp --------------SSEEE-TTS-EE-EB-SSS-S-----B-S--SS-EEE-TTT--EEE
T ss_pred ccccccccccccCCcCEeECCCCCEE-eeeeeeee-----e-ec-cCCeeEcCCCCCEEe
Confidence 4899999864 55555555 8988 34554443 0 11 122378999987654
No 276
>PRK04179 rpl37e 50S ribosomal protein L37e; Reviewed
Probab=20.06 E-value=32 Score=20.61 Aligned_cols=25 Identities=24% Similarity=0.542 Sum_probs=17.6
Q ss_pred CCcccHhhHHHHHhhhhhccccCCCCCCCCCCCCc
Q 041693 68 GHILCKMCACSAASVSIVDGLKLADPTEKCPLCRK 102 (156)
Q Consensus 68 gH~fC~~Ci~~~~~~~~~~~~~~~~~~~~CP~Cr~ 102 (156)
.|++|..|-...+ ......|-.|.-
T Consensus 16 tHt~CrRCG~~sy----------h~qK~~CasCGy 40 (62)
T PRK04179 16 THIRCRRCGRHSY----------NVRKKYCAACGF 40 (62)
T ss_pred ccchhcccCcccc----------cccccchhhcCC
Confidence 5888888876655 244567888876
No 277
>TIGR02652 conserved hypothetical protein TIGR02652, cyanobacterial. Members of this family of conserved hypothetical proteins are found, so far, only in the Cyanobacteria. Members are about 170 amino acids long and share a motif CxxCx(14)CxxH near the amino end.
Probab=20.01 E-value=45 Score=23.49 Aligned_cols=13 Identities=38% Similarity=0.966 Sum_probs=10.4
Q ss_pred CCCCCCCCCCcCc
Q 041693 92 DPTEKCPLCRKAG 104 (156)
Q Consensus 92 ~~~~~CP~Cr~~~ 104 (156)
+....||.||+.+
T Consensus 7 Gpei~CPhCRQ~i 19 (163)
T TIGR02652 7 GPEIRCPHCRQNI 19 (163)
T ss_pred CCcCcCchhhccc
Confidence 4567899999876
No 278
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=20.00 E-value=36 Score=24.14 Aligned_cols=46 Identities=22% Similarity=0.389 Sum_probs=22.2
Q ss_pred CCCCCCCCCCcCcccCCccchhhHHHHHHHHHHHHHHHHHhHHHHHHH
Q 041693 92 DPTEKCPLCRKAGVYQGAIHLTELGILLSRSCREYWEKRLQIERVERV 139 (156)
Q Consensus 92 ~~~~~CP~Cr~~~~~~~~~~~~~~n~~l~~l~~~~~~~~~~~~~~e~~ 139 (156)
.+...||.|...-........ +.........+++.......+.+.+
T Consensus 16 ~g~W~Cp~C~~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~vArIeki 61 (148)
T cd04718 16 EGDWICPFCEVEKSGQSAMPQ--LPPTSRSACEKLLSGDLWLARIEKL 61 (148)
T ss_pred CCCcCCCCCcCCCCCCccccc--CCCcchhhhhhhccCchHHHHHHHH
Confidence 567889999876543322111 1112223444454444444444443
Done!