5VPF

Transcription factor FosB/JunD bZIP domain in complex with cognate DNA, type-II crystal


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.69 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.210

Literature

Macromolecules
Sequence Display for 5VPF

Classification: transcription / dna

Total Structure Weight: 56600.86


Macromolecule Entities
Molecule Chains Length Organism Details
Protein fosB A, C 68 Homo sapiens Fragment: unp residues 153-219
Gene Name(s): FOSB Gene View G0S3
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Transcription factor jun-D B, D 68 Homo sapiens Fragment: unp residues 266-332
Gene Name(s): JUND Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*CP*GP*TP*CP*GP*GP*TP*GP*AP*CP*TP*CP*AP*CP*CP*GP*AP*CP*G)-3') E, G 19 Homo sapiens
DNA (5'-D(*CP*GP*TP*CP*GP*GP*TP*GP*AP*GP*TP*CP*AP*CP*CP*GP*AP*CP*G)-3') F, H 19 Homo sapiens

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PO4
Query on PO4

C, G PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A, B, C, D, E, F 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

B SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.69 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.210
  • Space Group: P 61 2 2

Unit Cell:

Length (Å) Angle (°)
a = 119.64 α = 90.00
b = 119.64 β = 90.00
c = 249.97 γ = 120.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2017-05-04
  • Released Date: 2017-09-06
  • Deposition author(s): Yin, Z., Rudenko, G., Machius, M.

Revision History

No revisions since initial release