5Z2M

Structure of Orp1L/Rab7 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.142 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.181 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

A non-canonical GTPase interaction enables ORP1L-Rab7-RILP complex formation and late endosome positioning.

Ma, X.Liu, K.Li, J.Li, H.Li, J.Liu, Y.Yang, C.Liang, H.

(2018) J. Biol. Chem. 293: 14155-14164


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Oxysterol-binding protein-related protein 1
B, D
138Mus musculusMutation(s): 0 
Gene Names: Osbpl1a (Orp1, Orp1a, Orp1l)
Find proteins for Q91XL9 (Mus musculus)
Go to UniProtKB:  Q91XL9
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Ras-related protein Rab-7a
A, C
176Mus musculusMutation(s): 1 
Gene Names: Rab7a (Rab7)
Find proteins for P51150 (Mus musculus)
Go to UniProtKB:  P51150
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

Download SDF File 
Download CCD File 
A, C
GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.142 Å
  • R-Value Free: 0.209 
  • R-Value Work: 0.181 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 43.222α = 90.00
b = 109.626β = 99.94
c = 77.811γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
PHASERphasing
iMOSFLMdata reduction
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-08-08
    Type: Initial release
  • Version 1.1: 2018-09-19
    Type: Data collection, Database references