6QSC

Crystal Structure of Arg470His mutant of Human Prolidase with Mn ions and GlyPro ligand


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.57 Å
  • R-Value Free: 0.167 
  • R-Value Work: 0.147 
  • R-Value Observed: 0.147 

wwPDB Validation 3D Report Full Report



Literature

Crystal Structure of Arg470His mutant of Human Prolidase with Mn ions and GlyPro ligand

Wilk, P.Wator, E.Weiss, M.S.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Xaa-Pro dipeptidase
A, B
493Homo sapiensMutation(s): 1 
Gene Names: PEPDPRD
EC: 3.4.13.9
Find proteins for P12955 (Homo sapiens)
Go to UniProtKB:  P12955
NIH Common Fund Data Resources
PHAROS  P12955
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PRO
Query on PRO

Download CCD File 
A, B
PROLINE
C5 H9 N O2
ONIBWKKTOPOVIA-BYPYZUCNSA-N
 Ligand Interaction
GOL
Query on GOL

Download CCD File 
A, B
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
GLY
Query on GLY

Download CCD File 
A, B
GLYCINE
C2 H5 N O2
DHMQDGOQFOQNFH-UHFFFAOYSA-N
 Ligand Interaction
MH2
Query on MH2

Download CCD File 
A, B
MANGANESE ION, 1 HYDROXYL COORDINATED
H Mn O
COIFCHMDWGZDDC-UHFFFAOYSA-M
 Ligand Interaction
MN
Query on MN

Download CCD File 
A, B
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.57 Å
  • R-Value Free: 0.167 
  • R-Value Work: 0.147 
  • R-Value Observed: 0.147 
  • Space Group: C 2 2 21
  • Diffraction Data DOI: 6QSC Protein Diffraction
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 103.541α = 90
b = 108.714β = 90
c = 211.548γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2020-03-18
    Type: Initial release