6G6X

14-3-3sigma in complex with a P129beta3P mutated YAP pS127 phosphopeptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.13 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.150 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Effect of single, synthetic alpha-to-beta3-amino acid point mutations on phosphopeptide-protein binding

Thijssen, V.Andrei, S.A.Brunsveld, L.Ottmann, C.Milroy, L.G.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
14-3-3 protein sigma
A
236Homo sapiensMutation(s): 0 
Gene Names: SFN (HME1)
Find proteins for P31947 (Homo sapiens)
Go to Gene View: SFN
Go to UniProtKB:  P31947
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Transcriptional coactivator YAP1
P
11Homo sapiensMutation(s): 1 
Gene Names: YAP1 (YAP65)
Find proteins for P46937 (Homo sapiens)
Go to Gene View: YAP1
Go to UniProtKB:  P46937
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
EOE
Query on EOE
P
L-peptide linkingC6 H11 N O2

--

SEP
Query on SEP
P
L-PEPTIDE LINKINGC3 H8 N O6 PSER
ACE
Query on ACE
P
NON-POLYMERC2 H4 O

--

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.13 Å
  • R-Value Free: 0.168 
  • R-Value Work: 0.150 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 82.118α = 90.00
b = 111.849β = 90.00
c = 62.630γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
PHASERphasing
Aimlessdata scaling
PHENIXrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Netherlands Organisation for Scientific ResearchNetherlandsECHO-STIP 717.014.001
Netherlands Organisation for Scientific ResearchNetherlandsGravity program 024.001.035

Revision History 

  • Version 1.0: 2019-04-10
    Type: Initial release