3J7L

Full virus map of brome mosaic virus

> Summary

Summary for 3J7L

Related3J7M 3J7N
EMDB informationEMD-6000
DescriptorCapsid protein
Functional Keywordscapsid protein, bmv, beta barrel, virus
Biological sourceBrome mosaic virus (BMV)
Cellular locationVirion  P03602
Total number of polymer chains3
Total molecular weight61235.06
Authors
Wang, Z.,Hryc, C.,Bammes, B.,Afonine, P.V.,Jakana, J.,Chen, D.H.,Liu, X.,Baker, M.L.,Kao, C.,Ludtke, S.J.,Schmid, M.F.,Adams, P.D.,Chiu, W. (deposition date: 2014-07-18, release date: 2014-09-10, Last modification date: 2016-05-18)
Primary citation
Wang, Z.,Hryc, C.F.,Bammes, B.,Afonine, P.V.,Jakana, J.,Chen, D.H.,Liu, X.,Baker, M.L.,Kao, C.,Ludtke, S.J.,Schmid, M.F.,Adams, P.D.,Chiu, W.
An atomic model of brome mosaic virus using direct electron detection and real-space optimization.
Nat Commun, 5:4808-4808, 2014
PubMed: 25185801
DOI: 10.1038/ncomms5808
MImport into Mendeley
Experimental method
ELECTRON MICROSCOPY
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Structure validation

ClashscoreRamachandran outliersSidechain outliers132.5%0.3%MetricValuePercentile RanksWorseBetterPercentile relative to all structuresPercentile relative to all EM structures

More Asymmetric unit images

Molmil generated image of 3j7l
no rotation
Molmil generated image of 3j7l
rotated about x axis by 90°
Molmil generated image of 3j7l
rotated about y axis by 90°

More Biological unit images

Molmil generated image of 3j7l
no rotation
Molmil generated image of 3j7l
rotated about x axis by 90°
Molmil generated image of 3j7l
rotated about y axis by 90°
(*)In the case of coarse surface representation, the asymmetric unit is shown as red ribbon representation.
Coordinate files for Biological unit (3j7l.pdb1.gz [4.27 MB])

> Structural details

Entity

Chain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
A, B, CCapsid proteinpolymer18920411.73
UniProt (P03602)
Pfam (PF01318)
Brome mosaic virus (BMV)CP, Coat protein

Sequence viewer

Contents of the asymmetric unit

PolymersNumber of chains3
Total molecular weight61235.1
Non-Polymers*Number of molecules0
Total molecular weight0.0
All*Total molecular weight61235.1
*Water molecules are not included.

> Experimental details

Refinement Statistics

Experimental method:ELECTRON MICROSCOPY

Cell axes1.0001.0001.000
Cell angles90.0090.0090.00
SpacegroupP 1
Resolution limits -
the highest resolution shell value -

Data Collection Statistics

Resolution limits -
the highest resolution shell value -

Crystallization Conditions

crystal IDmethodpHpH rangetemperatureunit

Crystallization Reagents

IDcrystal IDsolution IDreagent nameconcentrationdetails
Crystallization Reagents in Literatures*
IDcrystal IDsolutionreagent nameconcentration (unit)details
Annotated Information is extracted from Literature Info*

> Functional details

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Functional Information from GO Data

ChainGOidnamespacecontents
A0044165cellular_componenthost cell endoplasmic reticulum
A0039617cellular_componentT=3 icosahedral viral capsid
A0019013cellular_componentviral nucleocapsid
A0003723molecular_functionRNA binding
A0005198molecular_functionstructural molecule activity
B0044165cellular_componenthost cell endoplasmic reticulum
B0039617cellular_componentT=3 icosahedral viral capsid
B0019013cellular_componentviral nucleocapsid
B0003723molecular_functionRNA binding
B0005198molecular_functionstructural molecule activity
C0044165cellular_componenthost cell endoplasmic reticulum
C0039617cellular_componentT=3 icosahedral viral capsid
C0019013cellular_componentviral nucleocapsid
C0003723molecular_functionRNA binding
C0005198molecular_functionstructural molecule activity
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Functional Information from PDB Data

site_idNumber of ResiduesDetails
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Functional Information from PDB atom coordinates for the "HETATM" binding sites

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Functional Information from PROSITE/UniProt

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Functional Information from SwissProt/UniProt

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Catalytic Information from CSA

site_idNumber of ResiduesDetails

> Sequence Neighbor

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