PDB-4ard: Structure of the immature retroviral capsid at 8A resol...

Entry
Summary
Database / ID	PORTEIN DATA BANK (PDB) / 4ard
Title	Structure of the immature retroviral capsid at 8A resolution by cryo- electron microscopy
Descriptor	CAPSID PROTEIN P27
Keywords	VIRAL PROTEIN, RETROVIRUS, GAG
PDBj Mine pages	Summary, Structural Details, Experimental Details, Functional Details
Other databases	RCSB-PDB, PDBe, CATH, CE, FSSP, SCOP, VAST
Structure Visualization
Movies	Movie Page #1: Depositted structure unit, Made by Jmol #2: Superimposing with simplified surface model of EM map, EMDB-2090, Made by Jmol #3: Superimposing with EM 3D map: EMDB-2090, Made by UCSF CHIMERA
Structure viewers	Yorodumi, jV4, Jmol, Biological unit (Images, jV)
Related Structure Data
Related Entries	EMDB-2090 Fit EMDB-2089 PDB-1bax PDB-1cl4 PDB-4arg Fit: target map of fitting
Similar strucutres (beta)	Diagram PDB-3m9i PDB-1brd PDB-2zz9 PDB-3iy5 List of similar structure data about Omokage system

Article
Citation - primary
Article	Nature, Vol. 487, Page: 385 - , Year: 2012,
Title	Structure of the Immature Retroviral Capsid at 8A Resolution by Cryo-Electron Microscopy.
Authors	Bharat, T.A.M., Davey, N.E., Ulbrich, P., Riches, J.D., Marco, A.D., Rumlova, M., Sachse, C., Ruml, T., Briggs, J.A.G.
Links	DOI: 10.1038/NATURE11169

Components
ID 1 : M-PMV DPRO CANC PROTEIN
Image
Description	CAPSID PROTEIN P27
Type	polypeptide(L)
Fragment	M-PMV CA-NTD, RESIDUES 318-433
Formula weight	12885.351 Da
Number of molecules	2
ID	1
Source	Method: Isolated from a genetically manipulated source Gene: ID:11855, MASON-PFIZER MONKEY VIRUS Host: ID:562, ESCHERICHIA COLI
Links	UniProt: P07567, Sequence view

Processing
2D projection selection
Software name	SPIDER, AV3
3D reconstruction
Actual pixel size	1.53 A/pix
CTF correction method	DIVISION BY 3D CTF SQ
Details	HELICAL RECONSTRUCTION WITH 3D ASYMMETRIC UNIT AVERAGING SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD-2090. (DEPOSITION ID: 10768).
Method	HELICAL RECONSTRUCTION WITH 3D ASYMMETRIC UNIT AVERAGING
Nominal pixel size	1.53 A/pix
Resolution	7 A
3D fitting
Method	RIGID BODY
Refinement Protocol	NMR
Refinement Space	REAL
3D fitting list
3D fitting id	1
PDB entry ID	2KGF PDB-2kgf
Refine
Refine id	ELECTRON MICROSCOPY
Ls d res high	7.00 A
Refine hist
Cycle id	LAST
Refine id	ELECTRON MICROSCOPY
D res high	7.00
Total atoms	232
Protein atoms	232