1JS8

Structure of a Functional Unit from Octopus Hemocyanin

Structural Biology Knowledgebase: 1JS8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.262
  • R-Value Work: 0.202

Literature

Macromolecules
Sequence Display for 1JS8

Classification: OXYGEN STORAGE / TRANSPORT

Total Structure Weight: 92283.48

Macromolecule Entities
Molecule Chains Length Organism Details
Hemocyanin A, B 394 Enteroctopus dofleini Fragment: C-terminal functional unit, Odg
Mutation: P2843L
Details: C-TERMINAL PROTEOLYTIC FRAGMENT FROM 350KDA POLYPEPTIDE SUBUNIT. NATIVE MULTIMER IS 10 SUBUNITS EXHIBITING D5 SYMMETRY.
Gene Name(s): ODHCY
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

A, B BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A, B ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CUO
Query on CUO

A, B CU2-O2 CLUSTER
CU-O2-CU LINKAGE (Synonym)
Cu2 O2
PCGDDKBKPXANNY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.262
  • R-Value Work: 0.202
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 92.86 α = 90.00
b = 168.39 β = 90.00
c = 58.29 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-08-16
  • Released Date: 2001-10-03
  • Deposition author(s): Cuff, M.E., Miller, K.I., van Holde, K.E., Hendrickson, W.A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update