4YB5

Adenosine triphosphate phosphoribosyltransferase from Campylobacter jejuni in complex with the allosteric inhibitor histidine

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.210 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history. 


Literature

Campylobacter jejuni adenosine triphosphate phosphoribosyltransferase is an active hexamer that is allosterically controlled by the twisting of a regulatory tail.

Mittelstadt, G., Moggre, G.J., Panjikar, S., Nazmi, A.R., Parker, E.J.

(2016) Protein Sci 25: 1492-1506

  • DOI: 10.1002/pro.2948
  • Primary Citation of Related Structures:  
    4YB5, 4YB6, 4YB7

  • PubMed Abstract: 

    • Adenosine triphosphate phosphoribosyltransferase (ATP-PRT) catalyzes the first committed step of the histidine biosynthesis in plants and microorganisms. Here, we present the functional and structural characterization of the ATP-PRT from the pathogenic ε-proteobacteria Campylobacter jejuni (CjeATP-PRT) ...

    Adenosine triphosphate phosphoribosyltransferase (ATP-PRT) catalyzes the first committed step of the histidine biosynthesis in plants and microorganisms. Here, we present the functional and structural characterization of the ATP-PRT from the pathogenic ε-proteobacteria Campylobacter jejuni (CjeATP-PRT). This enzyme is a member of the long form (HisGL ) ATP-PRT and is allosterically inhibited by histidine, which binds to a remote regulatory domain, and competitively inhibited by AMP. In the crystalline form, CjeATP-PRT was found to adopt two distinctly different hexameric conformations, with an open homohexameric structure observed in the presence of substrate ATP, and a more compact closed form present when inhibitor histidine is bound. CjeATP-PRT was observed to adopt only a hexameric quaternary structure in solution, contradicting previous hypotheses favoring an allosteric mechanism driven by an oligomer equilibrium. Instead, this study supports the conclusion that the ATP-PRT long form hexamer is the active species; the tightening of this structure in response to remote histidine binding results in an inhibited enzyme.

    Organizational Affiliation: 

    Department of Chemistry, University of Canterbury, Christchurch, 8140, New Zealand.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ATP phosphoribosyltransferase
A, B, C, D, E, F
A, B, C, D, E, F
300Campylobacter jejuni RM1221Mutation(s): 0 
Gene Names: hisG, CJE1769
EC: 2.4.2.17
UniProt
Find proteins for Q5HSJ4 (Campylobacter jejuni (strain RM1221))
Explore Q5HSJ4 
Go to UniProtKB:  Q5HSJ4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5HSJ4
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HIS
Query on HIS
Download Ideal Coordinates CCD File 
BA [auth F],
J [auth A],
N [auth B],
R [auth C],
U [auth D],
BA [auth F],
J [auth A],
N [auth B],
R [auth C],
U [auth D],
X [auth E]
HISTIDINE
C6 H10 N3 O2
HNDVDQJCIGZPNO-YFKPBYRVSA-O		 Ligand Interaction
PGE
Query on PGE
Download Ideal Coordinates CCD File 
P [auth C]TRIETHYLENE GLYCOL
C6 H14 O4
ZIBGPFATKBEMQZ-UHFFFAOYSA-N		 Ligand Interaction
PEG
Query on PEG
Download Ideal Coordinates CCD File 
AA [auth F],
T [auth D]		DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N		 Ligand Interaction
SCN
Query on SCN
Download Ideal Coordinates CCD File 
G [auth A],
H [auth A],
L [auth B],
O [auth C],
V [auth E],
G [auth A],
H [auth A],
L [auth B],
O [auth C],
V [auth E],
W [auth E],
Y [auth F],
Z [auth F]
THIOCYANATE ION
C N S
ZMZDMBWJUHKJPS-UHFFFAOYSA-M		 Ligand Interaction
K
Query on K
Download Ideal Coordinates CCD File 
I [auth A],
K [auth A],
M [auth B],
Q [auth C],
S [auth C]		POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.239 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.210 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.137α = 90
b = 123.216β = 110.66
c = 95.701γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing
MOLREPphasing

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-03-09
    Type: Initial release
  • Version 1.1: 2017-09-27
    Changes: Author supporting evidence, Data collection, Derived calculations
  • Version 1.2: 2017-11-01
    Changes: Author supporting evidence
  • Version 1.3: 2018-09-05
    Changes: Data collection, Database references