3NND | pdb_00003nnd

The crystal structure of ABC transporter from Rhodopseudomonas palustris

• PDB DOI: https://doi.org/10.2210/pdb3NND/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Rhodopseudomonas palustris
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-06-23 Released: 2010-10-13 
• Deposition Author(s): Zhang, Z., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.296 (Depositor), 0.295 (DCC) 
• R-Value Work: 
  0.244 (Depositor), 0.242 (DCC) 
• R-Value Observed: 
  0.246 (Depositor) 

Literature

The crystal structure of ABC transporter from Rhodopseudomonas palustris

Zhang, Z., Burley, S.K., Swaminathan, S.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 161.43 kDa 
• Atom Count: 10,255 
• Modeled Residue Count: 1,326 
• Deposited Residue Count: 1,464 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Possible substrate binding protein of ABC transporter system	A [auth B], B [auth A], C, D	366	Rhodopseudomonas palustris	Mutation(s): 0  Gene Names: RPA4397
UniProt
Find proteins for Q6N1K8 (Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)) Explore Q6N1K8  Go to UniProtKB:  Q6N1K8

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A [auth B], B [auth A], C, D	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.296 (Depositor), 0.295 (DCC) 
• R-Value Work:  0.244 (Depositor), 0.242 (DCC) 
• R-Value Observed: 0.246 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.742	α = 90
b = 118.427	β = 106.87
c = 93.464	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
SOLVE	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-10-13 
Deposition Author(s): Zhang, Z., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2010-10-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-02-10
  Changes: Database references, Derived calculations, Structure summary
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references
• Version 1.4: 2024-10-16
  Changes: Structure summary