6HZH | pdb_00006hzh

Apo structure of TP domain from Chlamydia trachomatis penicillin-binding protein 3

• PDB DOI: https://doi.org/10.2210/pdb6HZH/pdb

• Classification: PEPTIDE BINDING PROTEIN
• Organism(s): Chlamydia trachomatis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2018-10-23 Released: 2019-11-20 
• Deposition Author(s): Bellini, D., Koekemoer, L., Newman, H., Dowson, C.G.
• Funding Organization(s): Medical Research Council (United Kingdom)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.83 Å
• R-Value Free: 
  0.242 (Depositor), 0.234 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.199 (DCC) 
• R-Value Observed: 
  0.201 (Depositor) 

Starting Model: experimental

Literature

Apo structure of TP domain from Chlamydia trachomatis penicillin-binding protein 3

Bellini, D., Koekemoer, L., Newman, H., Dowson, C.G.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 72.94 kDa 
• Atom Count: 5,150 
• Modeled Residue Count: 672 
• Deposited Residue Count: 692 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Penicillin-binding protein	A, B	346	Chlamydia trachomatis	Mutation(s): 2  Gene Names: pbp_2, ERS133248_00492 EC: 2.4.1.129

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.83 Å
• R-Value Free:  0.242 (Depositor), 0.234 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.199 (DCC) 
• R-Value Observed: 0.201 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.444	α = 90
b = 105.444	β = 90
c = 118.522	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
MrBUMP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2019-11-20 
Deposition Author(s): Bellini, D., Koekemoer, L., Newman, H., Dowson, C.G.

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Funding Organization	Location	Grant Number
Medical Research Council (United Kingdom)	United Kingdom	grant.MR/P007503/1

Revision History  

• Version 1.0: 2019-11-20
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Data collection, Database references, Refinement description