4KX6

Plasticity of the quinone-binding site of the complex II homolog quinol:fumarate reductase

Structural Biology Knowledgebase: 4KX6 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.240

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4KX6

Classification: OXIDOREDUCTASE

Total Structure Weight: 241520.05

Macromolecule Entities
Molecule Chains Length Organism Details
Fumarate reductase flavoprotein subunit A, M 577 Escherichia coli EC#: 1.3.5.4 IUBMB
Gene Name(s): frdA b4154 JW4115
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Fumarate reductase (Anaerobic), Fe-S subunit B, N 243 Escherichia coli
Fumarate reductase subunit C C, O 130 Escherichia coli Mutation: E29L
Fumarate reductase subunit D D, P 119 Escherichia coli Gene Name(s): frdD b4151 JW4112
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, M FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MQ7
Query on MQ7

D, N MENAQUINONE-7
C46 H64 O2
RAKQPZMEYJZGPI-LJWNYQGCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SF4
Query on SF4

B, N IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
F3S
Query on F3S

B, N FE3-S4 CLUSTER
Fe3 S4
FCXHZBQOKRZXKS-MZMDZPPWAW
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FES
Query on FES

B, N FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.240
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 97.09 α = 90.00
b = 138.62 β = 90.00
c = 273.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-05-24
  • Released Date: 2013-07-17
  • Deposition author(s): Singh, P.K., Sarwar, M., Maklashina, E., Kotlyar, V., Rajagukguk, S., Tomasiak, T.M., Cecchini, G., Iverson, T.M.

Revision History

  • 2013-09-11
    Type: Citation | Details: Citation update
  • 2013-07-24
    Type: Citation | Details: Citation update