6C92

The structure of MppP soaked with the product 2-ketoarginine


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.834 Å
  • R-Value Free: 0.175 
  • R-Value Work: 0.151 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Streptomyces wadayamensis MppP is a PLP-Dependent Oxidase, Not an Oxygenase.

Han, L.Vuksanovic, N.Oehm, S.A.Fenske, T.G.Schwabacher, A.W.Silvaggi, N.R.

(2018) Biochemistry 57: 3252-3264


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PLP-Dependent L-Arginine Hydroxylase MppP
A
376Streptomyces wadayamensisMutation(s): 0 
Find proteins for A0A0X1KHF5 (Streptomyces wadayamensis)
Go to UniProtKB:  A0A0X1KHF5
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PLP-Dependent L-Arginine Hydroxylase MppP
B, C, D
376Streptomyces wadayamensisMutation(s): 0 
Find proteins for A0A0X1KHF5 (Streptomyces wadayamensis)
Go to UniProtKB:  A0A0X1KHF5
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
EGV
Query on EGV

Download SDF File 
Download CCD File 
B, C
(4S)-5-carbamimidamido-4-hydroxy-2-oxopentanoic acid
C6 H11 N3 O4
RPBOKETVUMOUHD-VKHMYHEASA-N
 Ligand Interaction
EQJ
Query on EQJ

Download SDF File 
Download CCD File 
A
(E)-N~2~-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene)-L-arginine
C14 H22 N5 O7 P
PFHOMURYEGODJI-GBCOYWTISA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
LLP
Query on LLP
B, C, D
L-PEPTIDE LINKINGC14 H22 N3 O7 PLYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.834 Å
  • R-Value Free: 0.175 
  • R-Value Work: 0.151 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 85.859α = 90.00
b = 108.780β = 90.00
c = 195.519γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
HKL-2000data reduction
PHENIXrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Foundation (United States)United StatesCHE-1606842

Revision History 

  • Version 1.0: 2018-09-05
    Type: Initial release