All structure family : Flavivirus envelope glycoprotein M-like
 
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Entry Information
Entry status  (1)
REL
(9)
 
Experimental methods  (1)
Electron Microscopy
(9)
 
Authors  (60)
Klose T
(3)
Kuhn RJ
(3)
Rossmann MG
(3)
Bi G
(2)
Brannan JM
(2)
Formanova P
(2)
Formanová P
(2)
Fuzik T
(2)
Füzik T
(2)
Ge P
(2)
Kostyuchenko VA
(2)
Lok SM
(2)
Long F
(2)
Miller AS
(2)
Ng TS
(2)
Niedrig M
(2)
Plevka P
(2)
Ruzek D
(2)
Růžek D
(2)
Schein S
(2)
Sevvana M
(2)
Shi J
(2)
Sun L
(2)
Yoshii K
(2)
Yu X
(2)
Zhang Q
(2)
Zhang S
(2)
Zhang X
(2)
Zhou ZH
(2)
Baric RS
(1)
Bryan A
(1)
Buda G
(1)
Chen Z
(1)
Crowe JE
(1)
Crowe Jr JE
(1)
Davidson E
(1)
Diamond MS
(1)
Doranz BJ
(1)
Doyle M
(1)
Fernandez E
(1)
Fibriansah G
(1)
Kostyuchenko V
(1)
Kuhn R
(1)
Lambert S
(1)
Lim EX
(1)
Lim X-N
(1)
Lim XN
(1)
Lok S-M
(1)
Miller AJ
(1)
Ng T-S
(1)
Ooi JS
(1)
Ooi JSG
(1)
Pierson T
(1)
Pierson TC
(1)
Rossmann M
(1)
Rossmann MR
(1)
Sirohi D
(1)
Tan TY
(1)
Widman D
(1)
Widman DG
(1)
 
Homo / hetero assembly  (1)
hetero
(9)
 
Assembly composition  (1)
protein/protein complex
(9)
 
Assembly polymer count  (5)
360-mer
(5)
480-mer
(1)
600-mer
(1)
720-mer
(1)
tetramer
(1)
 
Resolution distribution
3.0 - 3.5
(1)
3.5 - 4
(8)
 
Release year distribution
2010 - 2015
(2)
2015 - 2020
(7)
 
Journal  (6)
Nat Commun
(3)
Nat Struct Mol Biol
(2)
Nature
(1)
Proc Natl Acad Sci U S A
(1)
Science
(1)
Structure
(1)
 
Macromolecules
Organism superkingdom  (1)
Viruses
(9)
 
Organism name  (4)
Zika virus
(3)
Dengue virus 2
(2)
Tick-borne encephalitis virus (strain HYPR)
(2)
Zika virus ZIKV/H. sapiens/FrenchPolynesia/10087PF/2013
(2)
 
Molecule name  (29)
Capsid protein C
(9)
Core protein
(9)
Envelope protein E
(9)
Flavivirin protease NS2B regulatory subunit
(9)
Flavivirin protease NS3 catalytic subunit
(9)
Genome polyprotein
(9)
Matrix protein
(9)
NS1
(9)
NS2A
(9)
NS4A
(9)
NS4B
(9)
Non-structural protein 1
(9)
Non-structural protein 2A
(9)
Non-structural protein 2B
(9)
Non-structural protein 3
(9)
Non-structural protein 4A
(9)
Non-structural protein 4B
(9)
Peptide 2k
(9)
Peptide pr
(9)
Protein prM
(9)
RNA-directed RNA polymerase NS5
(9)
Serine protease NS3
(9)
Serine protease subunit NS2B
(9)
Small envelope protein M
(9)
Capsid protein
(5)
NS5
(5)
Peptide precursor
(5)
Precursor membrane protein
(5)
Non-structural protein 5
(4)
 
Molecule type  (1)
Protein
(9)
 
Interacting Molecules  (7)
Envelope protein E
(9)
C10 IgG heavy chain variable region
(1)
C10 IgG light chain variable region
(1)
Fab 19/1786 - Heavy chain
(1)
Fab 19/1786 - Light chain
(1)
Immunoglobulin lambda variable 1-36
(1)
monoclonal antibody ZIKV-195 heavy chain
(1)
 
Function and Biology
EC number / name  (6)
2.1.1.56 : mRNA (guanine-N(7))-methyltransferase
(9)
2.1.1.57 : Methyltransferase cap1
(9)
2.7.7.48 : RNA-directed RNA polymerase
(9)
3.4.21.91 : Flavivirin
(9)
3.6.1.15 : Nucleoside-triphosphate phosphatase
(9)
3.6.4.13 : RNA helicase
(9)
 
Biological process  (1)
viral life cycle
(9)
 
Sequence and Structure classification
CATH class  (1)
Mainly Alpha
(9)
 
CATH topology  (1)
Helicase, Ruva Protein; domain 3
(9)
 
Pfam accession / name  (1)
PF01004 : Flavi_M
(9)
 
Experimental Information
Diffraction protocol  (1)
Single wavelength
(1)
 
Refinement software  (2)
REFMAC
(2)
PHENIX
(1)
 
EM microscope model  (1)
FEI TITAN KRIOS
(9)
 
EM detector name  (3)
FEI FALCON II (4k x 4k)
(4)
GATAN K2 SUMMIT (4k x 4k)
(3)
KODAK SO-163 FILM
(2)
 
Representative Structures
Representative Structures
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Entries 1 to 9 of 9
Entries 1 to 9 of 9
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Structure of Zika virus at a resolution of 3.1 Angstrom
Sevvana M, Long F, Miller AJ, Klose T, Buda G, Sun L, Kuhn RJ, Rossmann MR
Structure (2018) [PMID: 29958768  ]
Assembly composition: protein/protein complex
Carbohydrate polymer components:
Molecule 1 - NAG(2)
Assembly name: RNA-directed RNA polymerase NS5 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-100068 (Preferred)   search this ID
PDBe-KB: A0A024B7W1   
Electron Microscopy
3.1Å resolution
Released: 4 Jul 2018
Model geometry
Fit model/data
Data not analysed
6co8
6co8
6co8
CryoEM structure of Dengue virus envelope protein heterotetramer
Zhang X, Ge P, Yu X, Brannan JM, Bi G, Zhang Q, Schein S, Zhou ZH
Nat Struct Mol Biol (2013) [PMID: 23241927  ]
Source organism: Dengue virus 2  
Assembly composition: protein/protein complex
Bound ligands: NAG    NAG   
Carbohydrate polymer components:
Molecule 1 - NAG(2)
Assembly name: Envelope protein E (Preferred)   search this complex
PDBe complex ID: PDB-CPX-146929 (Preferred)   search this ID
PDBe-KB: P14340   
Electron Microscopy
3.6Å resolution
Released: 19 Dec 2012
Model geometry
Fit model/data
Data not analysed
3j2p
3j2p
3j2p
CryoEM structure of Dengue virus
Zhang X, Ge P, Yu X, Brannan JM, Bi G, Zhang Q, Schein S, Zhou ZH
Nat Struct Mol Biol (2013) [PMID: 23241927  ]
Source organism: Dengue virus 2  
Assembly composition: protein/protein complex
Bound ligands: NAG    NAG   
Carbohydrate polymer components:
Molecule 1 - NAG(2)
Assembly name: Envelope protein E (Preferred)   search this complex
PDBe complex ID: PDB-CPX-146923 (Preferred)   search this ID
PDBe-KB: P14340   
Electron Microscopy
3.6Å resolution
Released: 19 Dec 2012
Model geometry
Fit model/data
Data not analysed
3j27
3j27
3j27
Cryo-EM structure of the ZIKV virion in complex with Fab fragments of the potently neutralizing human monoclonal antibody ZIKV-195
Long F, Rossmann MG
Proc Natl Acad Sci U S A (2019) [PMID: 30642974  ]
Assembly composition: protein/protein complex
Carbohydrate polymer components:
Molecule 1 - NAG(2)
PDBe complex ID: PDB-CPX-207175 (Preferred)   search this ID
PDBe-KB: A0A024B7W1    A0A0B4J1U3   
Electron Microscopy
4Å resolution
Released: 16 Jan 2019
Model geometry
Fit model/data
Data not analysed
6mid
6mid
6mid
Cryo-EM structure of zika virus complexed with Fab C10 at pH 8.0
Zhang S, Kostyuchenko V, Ng T-S, Lim X-N, Ooi JSG, Lambert S, Tan TY, Widman D, Shi J, Baric RS, Lok S-M
Nat Commun (2016) [PMID: 27882950  ]
Source organisms: Zika virus  , Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: NAG    NAG   
Assembly name: RNA-directed RNA polymerase NS5 and IG-heavy chain and IG-light lambda chain (Preferred)   search this complex
PDBe complex ID: PDB-CPX-207177 (Preferred)   search this ID
PDBe-KB: A0A024B7W1   
Electron Microscopy
4Å resolution
Released: 30 Nov 2016
Model geometry
Fit model/data
Data not analysed
5h37
5h37
5h37
The cryo-EM structure of Tick-borne encephalitis virus mature particle
Fuzik T, Plevka P
Nat Commun (2018) [PMID: 29382836  ]
Assembly composition: protein/protein complex
Bound ligands: NAG    NAG   
Assembly name: Envelope protein E (Preferred)   search this complex
PDBe complex ID: PDB-CPX-169550 (Preferred)   search this ID
PDBe-KB: Q01299   
Electron Microscopy
3.9Å resolution
Released: 7 Feb 2018
Model geometry
Fit model/data
Data not analysed
5o6a
5o6a
5o6a
The cryo-EM structure of Zika Virus
Sirohi D, Chen Z, Sun L, Klose T, Pierson T, Rossmann M, Kuhn R
Science (2016) [PMID: 27033547  ]
Source organism: Zika virus  
Assembly composition: protein/protein complex
Carbohydrate polymer components:
Molecule 1 - NAG(2)
Assembly name: RNA-directed RNA polymerase NS5 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-100068 (Preferred)   search this ID
PDBe-KB: A0A024B7W1   
Electron Microscopy
3.8Å resolution
Released: 30 Mar 2016
Model geometry
Fit model/data
Data not analysed
5ire
5ire
5ire
Cryo-EM structure of thermally stable Zika virus strain H/PF/2013
Kostyuchenko VA, Zhang S, Fibriansah G, Lok SM
Nature (2016) [PMID: 27093288  ]
Source organism: Zika virus  
Assembly composition: protein/protein complex
Bound ligands: NAG    NAG   
Assembly name: RNA-directed RNA polymerase NS5 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-100068 (Preferred)   search this ID
PDBe-KB: A0A024B7W1   
Electron Microscopy
3.7Å resolution
Released: 25 May 2016
Model geometry
Fit model/data
Data not analysed
5iz7
5iz7
5iz7
The cryo-EM structure of Tick-borne encephalitis virus complexed with Fab fragment of neutralizing antibody 19/1786
Fuzik T, Plevka P
Nat Commun (2018) [PMID: 29382836  ]
Assembly composition: protein/protein complex
Bound ligands: NAG    NAG   
Assembly name: Envelope protein E and IG-heavy chain and IG-light kappa chain (Preferred)   search this complex
PDBe complex ID: PDB-CPX-211887 (Preferred)   search this ID
PDBe-KB: Q01299   
Electron Microscopy
3.9Å resolution
Released: 7 Feb 2018
Model geometry
Fit model/data
Data not analysed
5o6v
5o6v
5o6v
Entries 1 to 9 of 9
Entries 1 to 9 of 9