4U5Q | pdb_00004u5q

High resolution crystal structure of reductase (R) domain of nonribosomal peptide synthetase from Mycobacterium tuberculosis

• PDB DOI: https://doi.org/10.2210/pdb4U5Q/pdb

• Classification: LIGASE
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-07-25 Released: 2016-01-13 
• Deposition Author(s): Patel, K.D., Haque, A.S., Priyadarshan, K., Sankaranarayanan, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.81 Å
• R-Value Free: 
  0.245 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.202 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.204 (Depositor) 

Starting Model: experimental

Literature

High resolution structure of R-domain of nonribosomal peptide synthetase from Mycobacterium tuberculosis

Patel, K.D., Haque, A.S., Sankaranarayanan, R.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 104.97 kDa 
• Atom Count: 7,239 
• Modeled Residue Count: 855 
• Deposited Residue Count: 956 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptide synthetase	A, B	478	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  Gene Names: nrp, Rv0101, LH57_00575 EC: 2.3.1 (UniProt), 6.2.1 (UniProt)
UniProt
Find proteins for Q10896 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore Q10896  Go to UniProtKB:  Q10896

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
XPE	C [auth B]	3,6,9,12,15,18,21,24,27-NONAOXANONACOSANE-1,29-DIOL C20 H42 O11 DTPCFIHYWYONMD-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.81 Å
• R-Value Free:  0.245 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.202 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.204 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.532	α = 90
b = 88.593	β = 90
c = 126.077	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-01-13 
Deposition Author(s): Patel, K.D., Haque, A.S., Priyadarshan, K., Sankaranarayanan, R.

Revision History  

• Version 1.0: 2016-01-13
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description