1F74

CRYSTAL STRUCTURE ANALYSIS OF N-ACETYLNEURAMINATE LYASE FROM HAEMOPHILUS INFLUENZAE: CRYSTAL FORM II COMPLEXED WITH 4-DEOXY-SIALIC ACID

Structural Biology Knowledgebase: 1F74 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.169

Literature

Macromolecules
Sequence Display for 1F74

Classification: LYASE

Total Structure Weight: 66114.00

Macromolecule Entities
Molecule Chains Length Organism Details
N-ACETYL-NEURAMINATE LYASE A, C 293 Haemophilus influenzae EC#: 4.1.3.3 IUBMB
Mutation: N131S, A229K, E278A, L281V
Gene Name(s): nanA HI_0142
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, C 6,7,8,9-TETRAHYDROXY-5-METHYLCARBOXAMIDO- 2-OXONONANOIC ACID
C11 H19 N O8
HWTGNSKUIIUDOU-PEBGCTIMSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, C GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

C CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
NAY N/A in BindingDB
Ki: 900000 nM  BindingMOAD
Ki: 900000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.169
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 65.21 α = 90.00
b = 118.01 β = 90.00
c = 80.97 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-06-26
  • Released Date: 2000-11-22
  • Deposition author(s): Barbosa, J.A.R.G., Smith, B.J., DeGori, R., Lawrence, M.C.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values