4DBP

Myosin VI nucleotide-free (MDINSERT2) D179Y crystal structure

Structural Biology Knowledgebase: 4DBP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.163

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4DBP

Classification: motor protein / Calcium binding protein

Total Structure Weight: 111393.41

Macromolecule Entities
Molecule Chains Length Organism Details
Myosin-VI A 814 Sus scrofa Fragment: MOTOR DOMAIN-INSERT2, UNP residues 2-815
Mutation: D179Y
Gene Name(s): MYO6 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Calmodulin C 149 Drosophila melanogaster Gene Name(s): Cam CG8472
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A TERTIARY-BUTYL ALCOHOL
2-METHYL-2-PROPANOL (Synonym)
C4 H10 O
DKGAVHZHDRPRBM-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IPA
Query on IPA

A ISOPROPYL ALCOHOL
2-PROPANOL (Synonym)
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

C CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.218
  • R-Value Work: 0.163
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.60 α = 90.00
b = 104.39 β = 91.15
c = 90.02 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-01-16
  • Released Date: 2013-01-30
  • Deposition author(s): Pylypenko, O., Sweeney, H.L., Houdusse, A.

Revision History

No revisions since initial release