5E8F

Structure of Fully modified geranylgeranylated PDE6C Peptide in complex with PDE6D


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The N- and C-terminal ends of RPGR can bind to PDE6 delta.

Fansa, E.K.O'Reilly, N.J.Ismail, S.Wittinghofer, A.

(2015) Embo Rep. 16: 1583-1585


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta
A, C
149Homo sapiensMutation(s): 0 
Gene Names: PDE6D (PDED)
Find proteins for O43924 (Homo sapiens)
Go to Gene View: PDE6D
Go to UniProtKB:  O43924
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Cone cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha'
D, E
5Homo sapiensMutation(s): 0 
Gene Names: PDE6C (PDEA2)
EC: 3.1.4.35
Find proteins for P51160 (Homo sapiens)
Go to Gene View: PDE6C
Go to UniProtKB:  P51160
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GER
Query on GER

Download SDF File 
Download CCD File 
D, E
GERAN-8-YL GERAN
C20 H34
HSOYJGBJQAKCNA-CAIKYXSQSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
CMT
Query on CMT
D, E
L-PEPTIDE LINKINGC4 H9 N O2 SCYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.198 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 77.710α = 90.00
b = 81.430β = 90.00
c = 118.530γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
MOLREPphasing
Cootmodel building
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-11-18
    Type: Initial release
  • Version 1.1: 2015-12-16
    Type: Database references