1DL5

PROTEIN-L-ISOASPARTATE O-METHYLTRANSFERASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.182 

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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Crystal structure of protein isoaspartyl methyltransferase: a catalyst for protein repair.

Skinner, M.M.Puvathingal, J.M.Walter, R.L.Friedman, A.M.

(2000) Structure 8: 1189-1201

  • DOI: 10.1016/s0969-2126(00)00522-0
  • Primary Citation of Related Structures:  
    1DL5

  • PubMed Abstract: 
  • Formation of isoaspartyl residues is one of several processes that damage proteins as they age. Protein L-isoaspartate (D-aspartate) O-methyltransferase (PIMT) is a conserved and nearly ubiquitous enzyme that catalyzes the repair of proteins damaged by isoaspartyl formation ...

    Formation of isoaspartyl residues is one of several processes that damage proteins as they age. Protein L-isoaspartate (D-aspartate) O-methyltransferase (PIMT) is a conserved and nearly ubiquitous enzyme that catalyzes the repair of proteins damaged by isoaspartyl formation.


    Organizational Affiliation

    Department of Biological Sciences, Purdue University , West Lafayette, IN 47907, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN-L-ISOASPARTATE O-METHYLTRANSFERASEA, B317Thermotoga maritimaMutation(s): 0 
EC: 2.1.1.77
UniProt
Find proteins for Q56308 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8))
Explore Q56308 
Go to UniProtKB:  Q56308
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SAH (Subject of Investigation/LOI)
Query on SAH

Download Ideal Coordinates CCD File 
L [auth A], W [auth B]S-ADENOSYL-L-HOMOCYSTEINE
C14 H20 N6 O5 S
ZJUKTBDSGOFHSH-WFMPWKQPSA-N
 Ligand Interaction
CD
Query on CD

Download Ideal Coordinates CCD File 
C [auth A] , F [auth A] , I [auth A] , J [auth A] , K [auth A] , M [auth B] , P [auth B] , S [auth B] , 
C [auth A],  F [auth A],  I [auth A],  J [auth A],  K [auth A],  M [auth B],  P [auth B],  S [auth B],  V [auth B]
CADMIUM ION
Cd
WLZRMCYVCSSEQC-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download Ideal Coordinates CCD File 
D [auth A] , E [auth A] , G [auth A] , H [auth A] , N [auth B] , O [auth B] , Q [auth B] , R [auth B] , 
D [auth A],  E [auth A],  G [auth A],  H [auth A],  N [auth B],  O [auth B],  Q [auth B],  R [auth B],  T [auth B],  U [auth B]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.182 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 51.06α = 90
b = 98.91β = 105.66
c = 76.86γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MLPHAREphasing
CNSrefinement

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-12-08
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance