4P1L

Crystal structure of a trap periplasmic solute binding protein from chromohalobacter salexigens dsm 3043 (csal_2479), target EFI-510085, with bound d-glucuronate, spg i213

Structural Biology Knowledgebase: 4P1L SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.181
  • R-Value Work: 0.143

Literature

Macromolecules
Sequence Display for 4P1L

Classification: TRANSPORT PROTEIN

Total Structure Weight: 74953.20

Macromolecule Entities
Molecule Chains Length Organism Details
TRAP dicarboxylate transporter, DctP subunit A, B 326 Chromohalobacter salexigens Fragment: TRAP PERIPLASMIC SOLUTE BINDING PROTEIN
Gene Name(s): Csal_2479
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B BETA-D-GLUCOPYRANURONIC ACID
D-GLUCURONIC ACID (Synonym)
C6 H10 O7
AEMOLEFTQBMNLQ-QIUUJYRFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
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, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.181
  • R-Value Work: 0.143
  • Space Group: I 21 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 158.12 α = 90.00
b = 158.12 β = 90.00
c = 158.12 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-02-26
  • Released Date: 2014-03-19
  • Deposition author(s): Vetting, M.W., Al Obaidi, N.F., Stead, M., Attonito, J.D., Scott Glenn, A., Chowdhury, S., Evans, B., Hillerich, B., Love, J., Seidel, R.D., Whalen, K.L., Gerlt, J.A., Almo, S.C., Enzyme Function Initiative (EFI)

Revision History

  • 2015-02-25
    Type: Citation | Details: Citation
  • 2015-02-04
    Type: Biological assembly | Details: Biological assembly
  • 2014-08-06
    Type: Entry authorship | Details: Entry authorship