4Q6B | pdb_00004q6b

Crystal Structure of ABC Transporter Substrate-Binding Protein fromDesulfitobacterium hafniense complex with Leu

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.67 Å
  • R-Value Free: 
    0.206 (Depositor) 
  • R-Value Work: 
    0.168 (Depositor) 
  • R-Value Observed: 
    0.170 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history. 

Literature

Crystal Structure of ABC Transporter Substrate-Binding Protein fromDesulfitobacterium hafniense complex with Leu

Kim, Y., Chhor, G., Endres, M., Joachimiak, A.

To be published.

Macromolecule Content 

  • Total Structure Weight: 39.64 kDa 
  • Atom Count: 2,881 
  • Modeled Residue Count: 335 
  • Deposited Residue Count: 356 
  • Unique protein chains: 1

Macromolecules

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|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Extracellular ligand-binding receptor356Desulfitobacterium hafniense DCB-2Mutation(s): 0 
Gene Names: Dhaf_0110
UniProt
Find proteins for B8FZ96 (Desulfitobacterium hafniense (strain DSM 10664 / DCB-2))
Explore B8FZ96 
Go to UniProtKB:  B8FZ96
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupB8FZ96
Sequence Annotations
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Reference Sequence

Small Molecules

Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.67 Å
  • R-Value Free:  0.206 (Depositor) 
  • R-Value Work:  0.168 (Depositor) 
  • R-Value Observed: 0.170 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 60.425α = 90
b = 42.765β = 108.95
c = 63.577γ = 90
Software Package:
Software NamePurpose
SBC-Collectdata collection
HKL-3000data collection
HKL-3000phasing
MOLREPphasing
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-07-02
    Type: Initial release
  • Version 1.1: 2023-09-20
    Changes: Data collection, Database references, Derived calculations, Refinement description
  • Version 1.2: 2023-12-06
    Changes: Data collection
  • Version 1.3: 2024-10-30
    Changes: Structure summary