4RH7

Crystal structure of human cytoplasmic dynein 2 motor domain in complex with ADP.Vi


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.41 Å
  • R-Value Free: 0.285
  • R-Value Work: 0.237

Literature

Macromolecules
Sequence Display for 4RH7

Classification: MOTOR PROTEIN

Total Structure Weight: 394917.44

Macromolecule Entities
Molecule Chains Length Organism Details
Green fluorescent protein/Cytoplasmic dynein 2 heavy chain 1 A 3450 Homo sapiens Synthetic construct Mutation: K1413R, R2871Q, A3680V
Gene Name(s): DYNC2H1 Gene View DHC1B DHC2 DNCH2 DYH1B KIAA1997
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A ADP ORTHOVANADATE
C10 H17 N5 O14 P2 V
SWCHWRVRYDCWAN-AZGWGOJFSA-J
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ATP
Query on ATP

A ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ADP
Query on ADP

A ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.41 Å
  • R-Value Free: 0.285
  • R-Value Work: 0.237
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 136.03 α = 90.00
b = 487.15 β = 90.00
c = 276.46 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-10-01
  • Released Date: 2014-12-10
  • Deposition author(s): Schmidt, H., Zalyte, R., Urnavicius, L., Carter, A.P.

Revision History

  • Version 1_0: 2014-12-10

    Type: Initial release

  • Version 1_1: 2014-12-24

    Type: Database references

  • Version 1_2: 2015-04-08

    Type: Database references

  • Version 1_3: 2017-08-02

    Type: Refinement description, Source and taxonomy