4IDO

human atlastin-1 1-446, C-his6, GDPAlF4-

Structural Biology Knowledgebase: 4IDO SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.199

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4IDO

Classification: HYDROLASE

Total Structure Weight: 106144.87

Macromolecule Entities
Molecule Chains Length Organism Details
Atlastin-1 A, B 457 Homo sapiens EC#: 3.6.5 IUBMB
Fragment: cytoplasmic domain (UNP residues 1-446)
Gene Name(s): ATL1 Gene View GBP3 Gene View SPG3A

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

A, B GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ALF
Query on ALF

A, B TETRAFLUOROALUMINATE ION
Al F4
UYOMQIYKOOHAMK-UHFFFAOYSA-J
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
GDP N/A in BindingDB
N/A in BindingMoad
Kd: 11630 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.199
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 49.61 α = 90.00
b = 116.43 β = 90.00
c = 185.40 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-12
  • Released Date: 2013-01-09
  • Deposition author(s): Byrnes, L.J., Singh, A., Szeto, K., Benvin, N.M., O'Donnell, J.P., Zipfel, W.R., Sondermann, H.

Revision History

  • 2013-02-20
    Type: Citation | Details: Citation update
  • 2013-02-06
    Type: Citation | Details: Citation update