1LDC

X-RAY STRUCTURE OF TWO COMPLEXES OF THE Y143F FLAVOCYTOCHROME B2 MUTANT CRYSTALLIZED IN THE PRESENCE OF LACTATE OR PHENYL-LACTATE

Structural Biology Knowledgebase: 1LDC SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Observed: 0.195

Literature

Macromolecules
Sequence Display for 1LDC

Classification: OXIDOREDUCTASE

Total Structure Weight: 115002.43

Macromolecule Entities
Molecule Chains Length Organism Details
L-LACTATE DEHYDROGENASE A, B 511 Saccharomyces cerevisiae EC#: 1.1.2.3 IUBMB
Mutation: Y143F
Gene Name(s): CYB2 YML054C YM9958.08C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FMN
Query on FMN

A, B FLAVIN MONONUCLEOTIDE
RIBOFLAVIN MONOPHOSPHATE (Synonym)
C17 H21 N4 O9 P
FVTCRASFADXXNN-SCRDCRAPSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PYR
Query on PYR

A, B PYRUVIC ACID
C3 H4 O3
LCTONWCANYUPML-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Observed: 0.195
  • Space Group: P 32 2 1

Unit Cell:

Length (Å) Angle (°)
a = 164.50 α = 90.00
b = 164.50 β = 90.00
c = 114.00 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1995-04-13
  • Released Date: 1995-07-10
  • Deposition author(s): Tegoni, M., Cambillau, C.

Revision History

  • 2012-06-27
    Type: Function and keywords | Details: --
  • 2012-06-27
    Type: Other | Details: updated SEQADV record
  • 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