1KYX

Lumazine Synthase from S.pombe bound to carboxyethyllumazine

Structural Biology Knowledgebase: 1KYX SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.206
  • R-Value Work: 0.175

Literature

Macromolecules
Sequence Display for 1KYX

Classification: TRANSFERASE

Total Structure Weight: 88441.12

Macromolecule Entities
Molecule Chains Length Organism Details
6,7-Dimethyl-8-ribityllumazine Synthase A, B, C, D, E 159 Schizosaccharomyces pombe EC#: 2.5.1.78 IUBMB
Gene Name(s): rib4 SPBC409.13
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D, E 3-[8-((2S,3S,4R)-2,3,4,5-TETRAHYDROXYPENTYL)- 2,4,7-TRIOXO-1,3,8-TRIHYDROPTERIDIN-6-YL]PROPANOIC ACID
CARBOXYETHYLLUMAZINE (Synonym)
C14 H18 N4 O9
PTYCEIBBGGLADD-PJKMHFRUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, C, D, E PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.206
  • R-Value Work: 0.175
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 111.09 α = 90.00
b = 145.18 β = 90.00
c = 128.55 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-02-06
  • Released Date: 2002-07-24
  • Deposition author(s): Gerhardt, S., Haase, I., Steinbacher, S., Kaiser, J.T., Cushman, M., Bacher, A., Huber, R., Fischer, M.

Revision History

  • 2013-01-23
    Type: Polymer description | Details: update EC number
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4