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2JLY
Asym. Unit
Info
Asym.Unit (165 KB)
Biol.Unit 1 (82 KB)
Biol.Unit 2 (81 KB)
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(1)
Title
:
DENGUE VIRUS 4 NS3 HELICASE IN COMPLEX WITH SSRNA AND ADP-PHOSPHATE
Authors
:
D. H. Luo, T. Xu, R. P. Watson, D. S. Becker, A. Sampath, W. Jahnke, S. S. Ye C. H. Wang, S. P. Lim, S. G. Vasudevan, J. Lescar
Date
:
15 Sep 08 (Deposition) - 25 Nov 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,C (1x)
Biol. Unit 2: B,D (1x)
Keywords
:
Hydrolase-Rna Complex, Envelope Protein, Ribonucleoprotein, Capsid Protein, Rna Replication, Serine Protease, Glycoprotein, Dengue Virus, Metal-Binding, Transferase, Atp-Binding, Rna-Binding, Flaviviruses, Transcription Regulation, Rna-Directed Rna Polymerase, Nucleotide-Binding, Viral Nucleoprotein, Secreted, Helicase, Protease, Hydrolase, Phosphate, Cleavage On Pair Of Basic Residues, Endoplasmic Reticulum, Nucleotidyltransferase, Adp, Ssrna, Virion, Atpase, Nucleus, Membrane, Transmembrane, Transcription, Phosphoprotein, Ns3 Helicase Structure, Multifunctional Enzyme
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Reference
:
D. Luo, T. Xu, R. P. Watson, D. Scherer-Becker, A. Sampath, W. Jahnke, S. S. Yeong, C. H. Wang, S. P. Lim, A. Strongin, S. G. Vasudevan, J. Lesca
Insights Into Rna Unwinding And Atp Hydrolysis By The Flavivirus Ns3 Protein.
Embo J. V. 27 3209 2008
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Hetero Components
(4, 8)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
3a: MANGANESE (II) ION (MNa)
3b: MANGANESE (II) ION (MNb)
4a: PHOSPHATE ION (PO4a)
4b: PHOSPHATE ION (PO4b)
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Label:
No.
Name
Count
Type
Full Name
1
ADP
2
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
GOL
2
Ligand/Ion
GLYCEROL
3
MN
2
Ligand/Ion
MANGANESE (II) ION
4
PO4
2
Ligand/Ion
PHOSPHATE ION
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Sites
(8, 8)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY A:196 , ALA A:197 , GLY A:198 , LYS A:199 , THR A:200 , LYS A:201 , ASN A:329 , ASN A:416 , ARG A:418 , ARG A:463 , PO4 A:1620 , MN A:1621 , HOH A:2188 , HOH A:2189
BINDING SITE FOR RESIDUE ADP A1619
2
AC2
SOFTWARE
HIS A:194 , PRO A:195 , LYS A:199 , GLU A:285 , ALA A:316 , GLN A:456 , ARG A:460 , ARG A:463 , ADP A:1619 , HOH A:2184 , HOH A:2185 , HOH A:2189
BINDING SITE FOR RESIDUE PO4 A1620
3
AC3
SOFTWARE
THR A:200 , GLU A:285 , ADP A:1619 , HOH A:2186 , HOH A:2187 , HOH A:2188 , HOH A:2189
BINDING SITE FOR RESIDUE MN A1621
4
AC4
SOFTWARE
GLY A:168 , PRO A:174 , TYR A:176 , ILE A:442 , LEU A:443 , ALA A:598 , ALA A:602 , HOH A:2003
BINDING SITE FOR RESIDUE GOL A1622
5
AC5
SOFTWARE
GLY B:196 , ALA B:197 , GLY B:198 , LYS B:199 , THR B:200 , LYS B:201 , ASN B:329 , ASN B:416 , ARG B:463 , PO4 B:1620 , MN B:1621 , HOH B:2181 , HOH B:2182
BINDING SITE FOR RESIDUE ADP B1619
6
AC6
SOFTWARE
HIS B:194 , PRO B:195 , LYS B:199 , GLU B:285 , ALA B:316 , GLN B:456 , ARG B:460 , ARG B:463 , ADP B:1619 , HOH B:2177 , HOH B:2178 , HOH B:2181
BINDING SITE FOR RESIDUE PO4 B1620
7
AC7
SOFTWARE
THR B:200 , GLU B:285 , ADP B:1619 , HOH B:2179 , HOH B:2180 , HOH B:2181 , HOH B:2182
BINDING SITE FOR RESIDUE MN B1621
8
AC8
SOFTWARE
GLY B:168 , GLU B:173 , TYR B:176 , ILE B:442 , LEU B:443 , ALA B:598 , ALA B:602
BINDING SITE FOR RESIDUE GOL B1622
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(2, 4)
Info
All SCOP Domains
1a: SCOP_d2jlya2 (A:483-618)
1b: SCOP_d2jlyb2 (B:483-618)
2a: SCOP_d2jlya1 (A:168-482)
2b: SCOP_d2jlyb1 (B:168-482)
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Protein Domains
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Organisms
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
automated matches
(303)
Protein domain
:
automated matches
(303)
Dengue virus 4 [TaxId: 408688]
(4)
1a
d2jlya2
A:483-618
1b
d2jlyb2
B:483-618
Family
:
RNA helicase
(31)
Protein domain
:
automated matches
(11)
Dengue virus 4 [TaxId: 408688]
(9)
2a
d2jlya1
A:168-482
2b
d2jlyb1
B:168-482
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Flavi_DEAD_2jlyB01 (B:183-330)
1b: PFAM_Flavi_DEAD_2jlyB02 (B:183-330)
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Clan
:
P-loop_NTPase
(1112)
Family
:
Flavi_DEAD
(27)
Dengue virus type 4 (strain Thailand/0348/1991) (DENV-4)
(10)
1a
Flavi_DEAD-2jlyB01
B:183-330
1b
Flavi_DEAD-2jlyB02
B:183-330
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Asymmetric Unit 1
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Asym.Unit (165 KB)
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Biol.Unit 1 (82 KB)
Header - Biol.Unit 1
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Header - Biol.Unit 2
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