3NV7 | pdb_00003nv7

Crystal structure of H.pylori phosphopantetheine adenylyltransferase mutant I4V/N76Y

• PDB DOI: https://doi.org/10.2210/pdb3NV7/pdb

• Classification: TRANSFERASE
• Organism(s): Helicobacter pylori 26695
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2010-07-08 Released: 2011-07-13 
• Deposition Author(s): Chen, C.H., Cheng, C.S., Yin, H.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 
  0.241 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.185 (DCC) 
• R-Value Observed: 
  0.190 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of H.pylori phosphopantetheine adenylyltransferase mutant I4V/N76Y

Chen, C.H., Cheng, C.S., Yin, H.S.

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 and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 18.17 kDa 
• Atom Count: 1,384 
• Modeled Residue Count: 155 
• Deposited Residue Count: 157 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphopantetheine adenylyltransferase	A	157	Helicobacter pylori 26695	Mutation(s): 2  Gene Names: coaD, kdtB, HP_1475 EC: 2.7.7.3
UniProt
Find proteins for O26010 (Helicobacter pylori (strain ATCC 700392 / 26695)) Explore O26010  Go to UniProtKB:  O26010

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A], C [auth A], D [auth A], E [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ACY	F [auth A]	ACETIC ACID C2 H4 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free:  0.241 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.185 (DCC) 
• R-Value Observed: 0.190 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.022	α = 90
b = 69.459	β = 90
c = 95.92	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-07-13 
Deposition Author(s): Chen, C.H., Cheng, C.S., Yin, H.S.

Revision History  

• Version 1.0: 2011-07-13
  Type: Initial release
  
• Version 1.1: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description