4QDY

Crystal structure of a YbbR-like protein (SP_1560) from Streptococcus pneumoniae TIGR4 at 2.74 A resolution

Structural Biology Knowledgebase: 4QDY SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.74 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.232

Literature

Macromolecules
Sequence Display for 4QDY

Classification: STRUCTURAL GENOMICS UNKNOWN FUNCTION

Total Structure Weight: 24745.46

Macromolecule Entities
Molecule Chains Length Organism Details
conserved hypothetical protein A 227 Streptococcus pneumoniae Gene Name(s): SP_1560
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PEG
Query on PEG

A DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

Unit Cell:

Length (Å) Angle (°)
a = 77.93 α = 90.00
b = 77.93 β = 90.00
c = 145.24 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-05-14
  • Released Date: 2014-07-30
  • Deposition author(s): Joint Center for Structural Genomics (JCSG)

Revision History

  • 2014-12-24
    Type: Entry title | Details: --