4YB7

Adenosine triphosphate phosphoribosyltransferase from Campylobacter jejuni in complex with ATP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.232 

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This is version 1.1 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)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ATP phosphoribosyltransferase300Campylobacter jejuni RM1221Mutation(s): 0 
Gene Names: hisGCJE1769
EC: 2.4.2.17
UniProt
Find proteins for Q5HSJ4 (Campylobacter jejuni (strain RM1221))
Explore Q5HSJ4 
Go to UniProtKB:  Q5HSJ4
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ATP (Subject of Investigation/LOI)
Query on ATP

Download Ideal Coordinates CCD File 
AA [auth I] , CA [auth K] , EA [auth A] , GA [auth F] , IA [auth G] , KA [auth H] , NA [auth J] , O [auth B] , 
AA [auth I], CA [auth K], EA [auth A], GA [auth F], IA [auth G], KA [auth H], NA [auth J], O [auth B], QA [auth L], S [auth C], U [auth D], X [auth E]
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
PO4
Query on PO4

Download Ideal Coordinates CCD File 
MA [auth J], N [auth B], Q [auth C], R [auth C], W [auth E], Z [auth I]PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
ACY
Query on ACY

Download Ideal Coordinates CCD File 
OA [auth J]ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
BA [auth K] , DA [auth A] , FA [auth F] , HA [auth G] , JA [auth H] , LA [auth J] , M [auth B] , P [auth C] , 
BA [auth K], DA [auth A], FA [auth F], HA [auth G], JA [auth H], LA [auth J], M [auth B], P [auth C], PA [auth L], T [auth D], V [auth E], Y [auth I]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.232 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.667α = 101.11
b = 91.835β = 95.21
c = 154.903γ = 118.14
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-03-09
    Type: Initial release
  • Version 1.1: 2018-09-05
    Changes: Advisory, Data collection, Database references, Derived calculations