4B2K

COMPLEXES OF DODECIN WITH FLAVIN AND FLAVIN-LIKE LIGANDS

Structural Biology Knowledgebase: 4B2K SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.197
  • R-Value Work: 0.172

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4B2K

Classification: FLAVOPROTEIN

Total Structure Weight: 9107.79

Macromolecule Entities
Molecule Chains Length Organism Details
DODECIN A 76 Halobacterium salinarum Details: TRYPTOPHAN 36 EXCHANGED BY 4-AMINO-L-TRYPTOPHAN, RIBOFLAVIN BOUND
Gene Name(s): OE_3073R
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A RIBOFLAVIN
RIBOFLAVINE; VITAMIN B2 (Synonym)
C17 H20 N4 O6
AUNGANRZJHBGPY-SCRDCRAPSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
4IN
Query on 4IN
A L-PEPTIDE LINKING C11 H13 N3 O2 TRP

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.197
  • R-Value Work: 0.172
  • Space Group: F 41 3 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 142.30 α = 90.00
b = 142.30 β = 90.00
c = 142.30 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-16
  • Released Date: 2013-07-17
  • Deposition author(s): Staudt, H., Hoesl, M., Dreuw, A., Serdjukow, S., Oesterhelt, D., Budisa, N., Wachtveitl, J., Grininger, M.

Revision History

  • 2013-08-21
    Type: Citation | Details: JRNL