1OKO

Crystal structure of Pseudomonas Aeruginosa Lectin 1 complexed with galactose at 1.6 A resolution

Structural Biology Knowledgebase: 1OKO SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.187
  • R-Value Work: 0.154

Literature

Macromolecules
Sequence Display for 1OKO

Classification: SUGAR BINDING PROTEIN

Total Structure Weight: 52908.75

Macromolecule Entities
Molecule Chains Length Organism Details
PA-I GALACTOPHILIC LECTIN A, B, C, D 121 Pseudomonas aeruginosa Gene Name(s): lecA pa1L PA2570
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GLA
Query on GLA

B, C, D ALPHA D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-PHYPRBDBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GAL
Query on GAL

A, B, C, D BETA-D-GALACTOSE
C6 H12 O6
WQZGKKKJIJFFOK-FPRJBGLDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MPD
Query on MPD

A (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-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)
CA
Query on CA

A, B, C, D CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
GLA N/A in BindingDB
Kd: 29412 nM  BindingMOAD

GAL N/A in BindingDB
Kd: 29412 nM  BindingMOAD
Kd: 29000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.187
  • R-Value Work: 0.154
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 49.06 α = 90.00
b = 53.28 β = 90.00
c = 160.68 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-28
  • Released Date: 2003-12-04
  • Deposition author(s): Cioci, G., Mitchell, E., Gautier, C., Wimmerova, M., Perez, S., Gilboa-Garber, N., Imberty, A.

Revision History

  • 2015-08-12
    Type: Other | Details: MASTER
  • 2015-08-12
    Type: Binding sites and description | Details: SITE,REMARK 800
  • 2015-08-12
    Type: Atom nomenclature | Details: HETATM
  • 2015-08-12
    Type: Version format compliance | Details: REMARK 4