5Z45

Crystal structure of prenyltransferase AmbP1 pH6.5 complexed with GSPP and cis-indolyl vinyl isonitrile


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.601 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Molecular Insight into the Mg2+-Dependent Allosteric Control of Indole Prenylation by Aromatic Prenyltransferase AmbP1

Awakawa, T.Mori, T.Nakashima, Y.Zhai, R.Wong, C.P.Hillwig, M.L.Liu, X.Abe, I.

(2018) Angew. Chem. Int. Ed. Engl. 57: 6810-6813


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
AmbP1
A, B
309Fischerella ambigua UTEX 1903Mutation(s): 0 
Gene Names: ambP1 (famD2)
Find proteins for V5TDZ4 (Fischerella ambigua UTEX 1903)
Go to UniProtKB:  V5TDZ4
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
8XL
Query on 8XL

Download SDF File 
Download CCD File 
B
3-[(Z)-2-isocyanoethenyl]-1H-indole
C11 H8 N2
JQMYMZZLIOIXEO-SREVYHEPSA-N
 Ligand Interaction
GST
Query on GST

Download SDF File 
Download CCD File 
A, B
GERANYL S-THIOLODIPHOSPHATE
S-[(2E)-3,7-DIMETHYLOCTA-2,6-DIENYL] TRIHYDROGEN THIODIPHOSPHATE
C10 H20 O6 P2 S
AKIXWSDUEPPMKM-JXMROGBWSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.601 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.191 
  • Space Group: P 41
Unit Cell:
Length (Å)Angle (°)
a = 116.257α = 90.00
b = 116.257β = 90.00
c = 49.687γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHASERphasing
PHENIXrefinement
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-06-06
    Type: Initial release
  • Version 1.1: 2018-06-13
    Type: Data collection, Database references