1DRJ

PROBING PROTEIN-PROTEIN INTERACTIONS: THE RIBOSE-BINDING PROTEIN IN BACTERIAL TRANSPORT AND CHEMOTAXIS

• PDB DOI: https://doi.org/10.2210/pdb1DRJ/pdb

• Classification: SUGAR TRANSPORT
• Organism(s): Escherichia coli
• Mutation(s): No 


• Deposited: 1994-09-23 Released: 1995-01-26 
• Deposition Author(s): Mowbray, S.L., Bjorkman, A.J., Cole, L.B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Work: 0.176 
• R-Value Observed: 0.176 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 28.76 kDa 
• Atom Count: 2,166 
• Modelled Residue Count: 271 
• Deposited Residue Count: 271 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
D-RIBOSE-BINDING PROTEIN	A	271	Escherichia coli	Mutation(s): 0
UniProt
Find proteins for P02925 (Escherichia coli (strain K12)) Explore P02925  Go to UniProtKB:  P02925

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
RIP	B [auth A]	beta-D-ribopyranose C5 H10 O5 SRBFZHDQGSBBOR-TXICZTDVSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
RIP	PDBBind:  1DRJ	Kd: 40 (nM) from 1 assay(s)
	Binding MOAD:  1DRJ	Kd: 40 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Work: 0.176 
• R-Value Observed: 0.176 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.91	α = 90
b = 90.08	β = 90
c = 39.28	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1995-01-26 
Deposition Author(s): Mowbray, S.L., Bjorkman, A.J., Cole, L.B.

Revision History  

• Version 1.0: 1995-01-26
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Derived calculations, Other
• Version 1.4: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Database references, Derived calculations, Structure summary
• Version 1.5: 2024-02-07
  Changes: Data collection, Database references, Structure summary