1OJP

SPECIFICITY AND MECHANISM OF STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASE: COMPLEX WITH 6-SULPHATED CHONDROITIN DISACCHARIDE

Structural Biology Knowledgebase: 1OJP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.196

Literature

Macromolecules
Sequence Display for 1OJP

Classification: LYASE

Total Structure Weight: 84406.29

Macromolecule Entities
Molecule Chains Length Organism Details
HYALURONATE LYASE A 731 Streptococcus pneumoniae EC#: 4.2.2.1 IUBMB
Fragment: HYALURONATE LYASE, RESIDUES 285-1009
Mutation: A173T, E196D, T223I, C496R, P541T, G704S, F736S, R790G
Gene Name(s): SP_0314
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NG6
Query on NG6

A N-ACETYL-D-GALACTOSAMINE 6-SULFATE
C8 H15 N O9 S
WJFVEEAIYIOATH-JAJWTYFOSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GCD
Query on GCD

A 4,5-DEHYDRO-D-GLUCURONIC ACID
C6 H8 O6
IAKKJSVSFCTLRY-YKKSOZKNSA-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)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.196
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 83.70 α = 90.00
b = 103.01 β = 90.00
c = 101.16 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-07-11
  • Released Date: 2003-10-30
  • Deposition author(s): Rigden, D.J., Jedrzejas, M.J.

Revision History

  • 2013-01-23
    Type: Refinement description | Details: REMARK 3
  • 2013-01-23
    Type: Other | Details: SCALE1,REMARK 700,SCALE3,TER,SCALE2,REMARK 525,REMARK 290
  • 2013-01-23
    Type: Atom nomenclature | Details: HETATM
  • 2013-01-23
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2013-01-23
    Type: Linkage | Details: CONECT,LINK
  • 2013-01-23
    Type: Polymer description | Details: COMPND
  • 2013-01-23
    Type: Sequence database correspondence | Details: DBREF,SEQADV
  • 2013-01-23
    Type: Binding sites and description | Details: REMARK 800,SITE
  • 2013-01-23
    Type: Non-polymer description | Details: FORMUL,HETNAM,HET
  • 2013-01-23
    Type: Geometry validation | Details: REMARK 500