2ZBB | pdb_00002zbb

P43 crystal of DctBp

• PDB DOI: https://doi.org/10.2210/pdb2ZBB/pdb

• Classification: TRANSFERASE
• Organism(s): Rhizobium meliloti (strain 1021)
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-10-18 Released: 2008-11-18 
• Deposition Author(s): Zhou, Y.F., Nan, B.Y., Liu, X., Nan, J., Liang, Y.H., Panjikar, S., Ma, Q.J., Wang, Y.P., Su, X.-D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.272 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.209 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.213 (Depositor) 

Literature

crystal structures of sensory histidine kinase DctBp

Zhou, Y.F., Nan, B.Y., Liu, X., Nan, J., Liang, Y.H., Panjikar, S., Ma, Q.J., Wang, Y.P., Su, X.-D.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 132.45 kDa 
• Atom Count: 7,852 
• Modeled Residue Count: 1,020 
• Deposited Residue Count: 1,220 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
C4-dicarboxylate transport sensor protein dctB	A, B, C, D	305	N/A	Mutation(s): 0  Gene Names: dctB EC: 2.7.13.3
UniProt
Find proteins for P13633 (Rhizobium meliloti (strain 1021)) Explore P13633  Go to UniProtKB:  P13633

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MLA	E [auth A], F [auth B], G [auth C], H [auth D]	MALONIC ACID C3 H4 O4 OFOBLEOULBTSOW-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.272 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.209 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.213 (Depositor) 

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.36	α = 90
b = 70.36	β = 90
c = 226.92	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-11-18 
Deposition Author(s): Zhou, Y.F., Nan, B.Y., Liu, X., Nan, J., Liang, Y.H., Panjikar, S., Ma, Q.J., Wang, Y.P., Su, X.-D.

Revision History  

• Version 1.0: 2008-11-18
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2015-04-29
  Changes: Non-polymer description
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2024-03-13
  Changes: Data collection, Database references, Derived calculations