4F8L

X-ray structure of PsaA from Yersinia pestis, in complex with galactose and AEBSF

Structural Biology Knowledgebase: 4F8L SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.182
  • R-Value Work: 0.139

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4F8L

Classification: CELL ADHESION / inhibitor

Total Structure Weight: 19745.32

Macromolecule Entities
Molecule Chains Length Organism Details
pH 6 antigen A 145 Yersinia pestis Gene Name(s): psaA YPO1303 y2882 YP_1289
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 6 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
AES
Query on AES

A 4-(2-AMINOETHYL)BENZENESULFONYL FLUORIDE
AEBSF (Synonym)
C8 H10 F N O2 S
MGSKVZWGBWPBTF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAL
Query on GAL

A BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MLI
Query on MLI

A MALONATE ION
C3 H2 O4
OFOBLEOULBTSOW-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BR
Query on BR

A BROMIDE ION
Br
CPELXLSAUQHCOX-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GLY
Query on GLY

A GLYCINE
C2 H5 N O2
DHMQDGOQFOQNFH-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAI
Query on GAI

A GUANIDINE
C H5 N3
ZRALSGWEFCBTJO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
GAL N/A in BindingDB
IC50: 40000000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.182
  • R-Value Work: 0.139
  • Space Group: P 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 26.11 α = 90.00
b = 54.16 β = 90.00
c = 101.63 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-05-17
  • Released Date: 2013-05-22
  • Deposition author(s): Bao, R., Esser, L., Xia, D.

Revision History

  • 2013-08-07
    Type: Citation | Details: Citation update