3FX3

Structure of a putative cAMP-binding regulatory protein from Silicibacter pomeroyi DSS-3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.181 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of a putative cAMP-binding regulatory protein from Silicibacter pomeroyi DSS-3

Cuff, M.E.Zhou, M.Freeman, L.Joachimiak, A.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cyclic nucleotide-binding protein
A, B
237Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3)N/A
Find proteins for Q5LKQ8 (Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3))
Go to UniProtKB:  Q5LKQ8
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
A, B
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.181 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 137.728α = 90.00
b = 137.728β = 90.00
c = 94.626γ = 120.00
Software Package:
Software NamePurpose
CCP4phasing
MLPHAREphasing
Cootmodel building
SBC-Collectdata collection
DENZOdata reduction
Omodel building
PDB_EXTRACTdata extraction
HKL-3000phasing
HKL-3000data scaling
SHELXDphasing
SCALEPACKdata scaling
REFMACrefinement
SOLVEphasing
RESOLVEphasing
HKL-3000data reduction
SHELXEmodel building
DMphasing
ARP/wARPmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-03-24
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Refinement description, Version format compliance
  • Version 1.2: 2017-11-01
    Type: Refinement description