6N2A

Meso-Diaminopimelate Decarboxylase from Arabidopsis thaliana (Isoform 1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.170 
  • R-Value Observed: 0.172 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Active site gating provides stereochemical control for meso-diaminopimelate decarboxylase

Crowther, J.M.Cross, P.J.Oliver, M.R.Leeman, M.M.Bartl, A.J.Weatherhead, A.W.North, R.A.Donovan, K.A.Kessans, S.A.Griffin, M.D.W.Suzuki, H.Hudson, A.O.Kassanmescheff, M.Dobson, R.C.J.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Diaminopimelate decarboxylase 1, chloroplastic
A, B
422Arabidopsis thalianaMutation(s): 0 
Gene Names: LYSA1At3g14390MLN21.17
EC: 4.1.1.20
UniProt
Find proteins for Q949X7 (Arabidopsis thaliana)
Explore Q949X7 
Go to UniProtKB:  Q949X7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ949X7
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.88 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.170 
  • R-Value Observed: 0.172 
  • Space Group: P 21 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 80.968α = 90
b = 88.624β = 90
c = 121.587γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
iMOSFLMdata reduction
MOLREPphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Royal SocietyNew ZealandUOC1506
National Science Foundation (NSF, United States)United StatesMCB-1120541

Revision History  (Full details and data files)

  • Version 1.0: 2019-04-24
    Type: Initial release
  • Version 1.1: 2019-11-27
    Changes: Author supporting evidence
  • Version 1.2: 2023-10-11
    Changes: Data collection, Database references, Refinement description