1KF6

E. coli Quinol-Fumarate Reductase with Bound Inhibitor HQNO

Structural Biology Knowledgebase: 1KF6 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.231

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1KF6

Classification: OXIDOREDUCTASE

Total Structure Weight: 249381.88

Macromolecule Entities
Molecule Chains Length Organism Details
FUMARATE REDUCTASE FLAVOPROTEIN A, M 602 Escherichia coli EC#: 1.3.5.4 IUBMB
Gene Name(s): frdA b4154 JW4115
FUMARATE REDUCTASE IRON-SULFUR PROTEIN B, N 243 Escherichia coli EC#: 1.3.5.1 IUBMB
Gene Name(s): frdB b4153 JW4114
FUMARATE REDUCTASE 15 KDA HYDROPHOBIC PROTEIN C, O 130 Escherichia coli Gene Name(s): frdC b4152 JW4113
FUMARATE REDUCTASE 13 KDA HYDROPHOBIC PROTEIN D, P 119 Escherichia coli Gene Name(s): frdD b4151 JW4112

Small Molecules
Ligands 10 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)
CE1
Query on CE1

O, P O-DODECANYL OCTAETHYLENE GLYCOL
THESIT (Synonym)
C28 H58 O9
YYELLDKEOUKVIQ-UHFFFAOYSA-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)
HQO
Query on HQO

C, N 2-HEPTYL-4-HYDROXY QUINOLINE N-OXIDE
2-HEPTYL-1-OXY-QUINOLIN-4-OL (Synonym)
C16 H21 N O2
NZPACTGCRWDXCJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
1PE
Query on 1PE

A PENTAETHYLENE GLYCOL
PEG400 (Synonym)
C10 H22 O6
JLFNLZLINWHATN-UHFFFAOYSA-N
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)
OAA
Query on OAA

A, M OXALOACETATE ION
C4 H3 O5
KHPXUQMNIQBQEV-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A, B, N ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A, M POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
HQO N/A in BindingDB
N/A in BindingMoad
Ki: 200 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.280
  • R-Value Work: 0.231
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 96.50 α = 90.00
b = 137.84 β = 90.00
c = 273.45 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-11-19
  • Released Date: 2002-03-13
  • Deposition author(s): Iverson, T.M., Luna-Chavez, C., Croal, L.R., Cecchini, G., Rees, D.C.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4