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3L25
Biol. Unit 1
Info
Asym.Unit (108 KB)
Biol.Unit 1 (96 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF ZAIRE EBOLA VP35 INTERFERON INHIBITORY DOMAIN BOUND TO 8 BP DSRNA
Authors
:
D. W. Leung, K. C. Prins, D. M. Borek, M. Farahbakhsh, J. M. Tufariello, P. Ramanan, J. C. Nix, L. A. Helgeson, Z. Otwinowski, R. B. Honzatko, C. F. Basler, G. K. Amarasinghe
Date
:
14 Dec 09 (Deposition) - 26 Jan 10 (Release) - 16 Feb 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Rna Binding Domain, Coiled Coil, Interferon Antiviral System Evasion, Rna Replication, Rna Binding Protein, Transcription, Host Cytoplasm, Rna-Binding, Virion, Rna Binding Protein-Rna Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. W. Leung, K. C. Prins, D. M. Borek, M. Farahbakhsh, J. M. Tufariello, P. Ramanan, J. C. Nix, L. A. Helgeson, Z. Otwinowski, R. B. Honzatko, C. F. Basler, G. K. Amarasinghe
Structural Basis For Dsrna Recognition And Interferon Antagonism By Ebola Vp35.
Nat. Struct. Mol. Biol. V. 17 165 2010
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 25)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
2a: FORMIC ACID (FMTa)
2b: FORMIC ACID (FMTb)
2c: FORMIC ACID (FMTc)
2d: FORMIC ACID (FMTd)
2e: FORMIC ACID (FMTe)
2f: FORMIC ACID (FMTf)
2g: FORMIC ACID (FMTg)
2h: FORMIC ACID (FMTh)
2i: FORMIC ACID (FMTi)
2j: FORMIC ACID (FMTj)
2k: FORMIC ACID (FMTk)
2l: FORMIC ACID (FMTl)
2m: FORMIC ACID (FMTm)
2n: FORMIC ACID (FMTn)
2o: FORMIC ACID (FMTo)
2p: FORMIC ACID (FMTp)
2q: FORMIC ACID (FMTq)
2r: FORMIC ACID (FMTr)
2s: FORMIC ACID (FMTs)
2t: FORMIC ACID (FMTt)
2u: FORMIC ACID (FMTu)
2v: FORMIC ACID (FMTv)
2w: FORMIC ACID (FMTw)
2x: FORMIC ACID (FMTx)
3a: GLYCEROL (GOLa)
4a: MAGNESIUM ION (MGa)
5a: SODIUM ION (NAa)
5b: SODIUM ION (NAb)
5c: SODIUM ION (NAc)
5d: SODIUM ION (NAd)
5e: SODIUM ION (NAe)
5f: SODIUM ION (NAf)
5g: SODIUM ION (NAg)
5h: SODIUM ION (NAh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
FMT
24
Ligand/Ion
FORMIC ACID
3
GOL
1
Ligand/Ion
GLYCEROL
4
MG
-1
Ligand/Ion
MAGNESIUM ION
5
NA
-1
Ligand/Ion
SODIUM ION
[
close Hetero Component info
]
Sites
(38, 38)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
FMT A:11 , FMT A:12 , GLY A:236 , PRO A:304
BINDING SITE FOR RESIDUE MG A 1
02
AC2
SOFTWARE
ARG A:300
BINDING SITE FOR RESIDUE CL A 2
03
AC3
SOFTWARE
HOH A:32 , HOH A:185 , LEU A:232 , GLY A:234 , PHE A:235 , HOH A:353
BINDING SITE FOR RESIDUE NA A 10
04
AC4
SOFTWARE
ARG A:305 , HOH A:343 , TRP E:324 , U F:5 , G F:6 , HOH F:10
BINDING SITE FOR RESIDUE GOL A 341
05
AC5
SOFTWARE
PHE A:235 , ARG A:305 , GLN B:329 , PRO E:316
BINDING SITE FOR RESIDUE FMT A 3
06
AC6
SOFTWARE
MG A:1 , TYR A:229 , HIS A:240 , GLN A:244
BINDING SITE FOR RESIDUE FMT A 11
07
AC7
SOFTWARE
MG A:1 , PHE A:235 , GLY A:236 , HIS A:240 , ASP B:332
BINDING SITE FOR RESIDUE FMT A 12
08
AC8
SOFTWARE
HOH A:28 , PRO A:293 , VAL A:294 , FMT E:8 , ARG E:305
BINDING SITE FOR RESIDUE FMT A 16
09
AC9
SOFTWARE
HOH A:33 , GLN A:274 , HOH A:363 , G C:6 , HOH C:89
BINDING SITE FOR RESIDUE FMT A 19
10
BC1
SOFTWARE
GLN B:264
BINDING SITE FOR RESIDUE CL B 5
11
BC2
SOFTWARE
HOH B:71 , LEU B:232 , PRO B:233 , GLY B:234 , PHE B:235
BINDING SITE FOR RESIDUE NA B 6
12
BC3
SOFTWARE
HOH B:29 , PRO B:315 , PRO B:316 , PRO E:315 , PRO E:316
BINDING SITE FOR RESIDUE NA B 13
13
BC4
SOFTWARE
GLY B:301 , ASP B:302
BINDING SITE FOR RESIDUE FMT B 10
14
BC5
SOFTWARE
HOH B:140 , SER B:317 , PRO B:318 , LYS B:319 , ARG B:322 , TRP B:324
BINDING SITE FOR RESIDUE FMT B 341
15
BC6
SOFTWARE
HOH B:204 , ALA B:265 , GLU B:269 , HOH B:357
BINDING SITE FOR RESIDUE FMT B 17
16
BC7
SOFTWARE
FMT B:22 , GLY B:236 , THR B:237 , GLN B:241 , GLN B:244 , PRO B:304 , CYS B:307
BINDING SITE FOR RESIDUE FMT B 18
17
BC8
SOFTWARE
FMT B:18 , PHE B:235 , GLY B:236 , HIS B:240 , HOH D:358
BINDING SITE FOR RESIDUE FMT B 22
18
BC9
SOFTWARE
LYS B:282 , ASP B:321
BINDING SITE FOR RESIDUE FMT B 23
19
CC1
SOFTWARE
LYS B:282 , VAL B:284 , GLN B:288
BINDING SITE FOR RESIDUE FMT B 25
20
CC2
SOFTWARE
HOH A:33 , U C:5 , HOH C:89 , HOH D:34 , U F:5 , HOH F:54
BINDING SITE FOR RESIDUE NA C 9
21
CC3
SOFTWARE
U C:5 , G C:6 , HOH C:37 , HOH C:40 , HOH C:285 , HOH F:121
BINDING SITE FOR RESIDUE NA C 10
22
CC4
SOFTWARE
C C:3 , HOH C:307 , HOH D:151 , SER D:310 , HOH D:344 , HOH D:362
BINDING SITE FOR RESIDUE NA C 12
23
CC5
SOFTWARE
C C:3 , A C:4 , HOH C:27 , HOH C:50 , HOH C:77 , HOH C:108 , THR D:237 , PHE D:239 , G F:6
BINDING SITE FOR RESIDUE FMT C 11
24
CC6
SOFTWARE
HOH A:145 , PHE A:239 , G C:6 , HOH C:36 , HOH C:107 , HOH C:124 , C F:3 , A F:4
BINDING SITE FOR RESIDUE FMT C 24
25
CC7
SOFTWARE
HIS D:231
BINDING SITE FOR RESIDUE CL D 4
26
CC8
SOFTWARE
HOH D:10 , HOH D:59 , LEU D:232 , GLY D:234 , PHE D:235 , HOH D:343
BINDING SITE FOR RESIDUE NA D 8
27
CC9
SOFTWARE
HOH D:86 , ASN D:254 , SER D:255 , LEU D:256 , ASP D:257 , ILE D:258
BINDING SITE FOR RESIDUE FMT D 2
28
DC1
SOFTWARE
U C:5 , HOH C:14 , ARG D:305 , HOH D:364 , HOH D:370
BINDING SITE FOR RESIDUE FMT D 341
29
DC2
SOFTWARE
PRO B:316 , PHE D:235 , ARG D:305 , GLN E:329 , HOH E:350
BINDING SITE FOR RESIDUE FMT D 6
30
DC3
SOFTWARE
HOH D:34 , GLN D:274 , HOH D:357 , G F:6 , HOH F:54
BINDING SITE FOR RESIDUE FMT D 20
31
DC4
SOFTWARE
ARG B:305 , HOH D:199 , LEU D:249 , PRO D:293 , HOH D:360
BINDING SITE FOR RESIDUE FMT D 21
32
DC5
SOFTWARE
SER E:299 , ARG E:300
BINDING SITE FOR RESIDUE CL E 3
33
DC6
SOFTWARE
GLN E:241
BINDING SITE FOR RESIDUE FMT E 7
34
DC7
SOFTWARE
FMT A:16 , HOH A:74 , VAL A:294 , HOH E:44 , ARG E:305 , ALA E:306
BINDING SITE FOR RESIDUE FMT E 8
35
DC8
SOFTWARE
PHE D:235 , GLY D:236 , HIS D:240 , ASP E:332 , GLY E:333 , HOH E:351 , HOH E:369
BINDING SITE FOR RESIDUE FMT E 14
36
DC9
SOFTWARE
HOH A:112 , ASP A:332
BINDING SITE FOR RESIDUE FMT E 15
37
EC1
SOFTWARE
HOH C:217 , U F:5 , G F:6 , HOH F:16 , HOH F:58 , HOH F:297
BINDING SITE FOR RESIDUE NA F 11
38
EC2
SOFTWARE
HOH A:178 , G F:2 , C F:3 , HOH F:142 , HOH F:175 , HOH F:316
BINDING SITE FOR RESIDUE FMT F 9
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
View:
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
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Label:
Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_Filo_VP35_3l25E01 (E:218-340)
1b: PFAM_Filo_VP35_3l25E02 (E:218-340)
1c: PFAM_Filo_VP35_3l25E03 (E:218-340)
1d: PFAM_Filo_VP35_3l25E04 (E:218-340)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Filo_VP35]
(7)
Family
:
Filo_VP35
(7)
Zaire ebolavirus (strain Mayinga-76) (ZEBOV) (Zaire Ebola virus)
(4)
1a
Filo_VP35-3l25E01
E:218-340
1b
Filo_VP35-3l25E02
E:218-340
1c
Filo_VP35-3l25E03
E:218-340
1d
Filo_VP35-3l25E04
E:218-340
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Chain D
Chain E
Chain F
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