4XED

PKD domain of M14-like peptidase from Thermoplasmatales archaeon SCGC AB-540-F20


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.23 Å
  • R-Value Free: 0.169 
  • R-Value Work: 0.138 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

PKD domain of M14-like peptidase from Thermoplasmatales archaeon SCGC AB-540-F20

Michalska, K.Joachimiak, G.Endres, M.Joachimiak, A.Midwest Center for Structural Genomics (MCSG)

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Peptidase M14, carboxypeptidase A
A
99Thermoplasmatales archaeon SCGC AB-540-F20Mutation(s): 0 
Find proteins for M7U057 (Thermoplasmatales archaeon SCGC AB-540-F20)
Go to UniProtKB:  M7U057
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
A
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

Unit Cell:
Length (Å)Angle (°)
a = 46.186α = 90.00
b = 48.869β = 90.00
c = 78.509γ = 90.00
Software Package:
Software NamePurpose
HKL-3000phasing
HKL-3000data scaling
SHELXphasing
PHENIXrefinement
MLPHAREphasing
SBC-Collectdata collection
HKL-3000data reduction
DMphasing
ARPmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesGM094585

Revision History 

  • Version 1.0: 2015-05-13
    Type: Initial release
  • Version 1.1: 2017-09-20
    Type: Advisory, Author supporting evidence, Derived calculations, Refinement description, Source and taxonomy, Structure summary