3VNS

Co-crystal structure of NRPS adenylation protein CytC1 with D-valine and AMP from streptomyces


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.001 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Substrate recognition mechanism of NRPS adenylation protein from Streptomyces

Ueki, M.Okumura, H.Osada, H.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NRPS adenylation protein CytC1
A
544N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DVA
Query on DVA

Download SDF File 
Download CCD File 
A
D-VALINE
C5 H11 N O2
KZSNJWFQEVHDMF-SCSAIBSYSA-N
 Ligand Interaction
AMP
Query on AMP

Download SDF File 
Download CCD File 
A
ADENOSINE MONOPHOSPHATE
C10 H14 N5 O7 P
UDMBCSSLTHHNCD-KQYNXXCUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.001 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.191 
  • Space Group: I 2 3
Unit Cell:
Length (Å)Angle (°)
a = 156.544α = 90.00
b = 156.544β = 90.00
c = 156.544γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
MOLREPphasing
BSSdata collection
HKL-2000data scaling
HKL-2000data reduction
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-01-23
    Type: Initial release
  • Version 1.1: 2017-11-22
    Type: Refinement description