3LOC

Crystal structure of putative transcriptional regulator ycdc


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.195 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal Structure of Hypothetical Transcriptional Regulator Ycdc from Escherichia Coli

Patskovsky, Y.V.Mennella, V.Almo, S.C.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HTH-type transcriptional regulator rutR
A, B, C, D
212Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: rutR (ycdC)
Find proteins for P0ACU2 (Escherichia coli (strain K12))
Go to UniProtKB:  P0ACU2
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
URA
Query on URA

Download SDF File 
Download CCD File 
A, B, C, D
URACIL
C4 H4 N2 O2
ISAKRJDGNUQOIC-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.229 
  • R-Value Work: 0.195 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 52.020α = 90.00
b = 139.610β = 90.00
c = 156.000γ = 90.00
Software Package:
Software NamePurpose
RESOLVEmodel building
HKL-3000phasing
DENZOdata reduction
SOLVEphasing
REFMACrefinement
Cootmodel building
SCALEPACKdata scaling
RESOLVEphasing
SBC-Collectdata collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-03-16
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-11-01
    Type: Refinement description