1XQ4 | pdb_00001xq4

Crystal Structure of the Putative ApaA Protein from Bordetella pertussis, Northeast Structural Genomics Target BeR40

• PDB DOI: https://doi.org/10.2210/pdb1XQ4/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Bordetella pertussis
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2004-10-11 Released: 2004-11-09 
• Deposition Author(s): Forouhar, F., Yong, W., Vorobiev, S.M., Xiao, R., Acton, T.B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.286 (Depositor), 0.300 (DCC) 
• R-Value Work: 
  0.241 (Depositor), 0.259 (DCC) 
• R-Value Observed: 
  0.241 (Depositor) 

Literature

Crystal Structure of the Putative ApaA Protein from Bordetella pertussis, Northeast Structural Genomics Target BeR40

Forouhar, F., Yong, W., Vorobiev, S.M., Xiao, R., Acton, T.B., Montelione, G.T., Hunt, J.F., Tong, L.

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.

Macromolecule Content 

• Total Structure Weight: 63.53 kDa 
• Atom Count: 4,122 
• Modeled Residue Count: 488 
• Deposited Residue Count: 556 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein apaG	A, B, C, D	139	Bordetella pertussis	Mutation(s): 2  Gene Names: apaG
UniProt
Find proteins for Q7VU61 (Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)) Explore Q7VU61  Go to UniProtKB:  Q7VU61

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	E [auth A], F [auth B], G [auth C], H [auth D]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.286 (Depositor), 0.300 (DCC) 
• R-Value Work:  0.241 (Depositor), 0.259 (DCC) 
• R-Value Observed: 0.241 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.559	α = 90
b = 100.256	β = 90
c = 108.108	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
SnB	phasing
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-11-09 
Deposition Author(s): Forouhar, F., Yong, W., Vorobiev, S.M., Xiao, R., Acton, T.B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2004-11-09
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2024-03-06
  Changes: Data collection, Database references, Derived calculations
• Version 1.5: 2024-10-30
  Changes: Structure summary