5QU2

Crystal Structure of human Nck SH3.1 in complex with peptide PPPVPNPDY


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.04 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.166 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Domain Swap in the first SH3 domain of human Nck1

Richter, K.Topp, A.Schlatter, D.Rudolph, M.G.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Cytoplasmic protein NCK1
A, B
60Homo sapiensMutation(s): 0 
Gene Names: NCK1 (NCK)
Find proteins for P16333 (Homo sapiens)
Go to Gene View: NCK1
Go to UniProtKB:  P16333
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ACE-PRO-PRO-PRO-VAL-PRO-ASN-PRO-ASP-TYR
D, E
10N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NH2
Query on NH2

Download SDF File 
Download CCD File 
D, E
AMINO GROUP
H2 N
QGZKDVFQNNGYKY-UHFFFAOYAF
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, D
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
ACE
Query on ACE
D, E
NON-POLYMERC2 H4 O

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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.04 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.166 
  • Space Group: I 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 50.650α = 90.00
b = 63.340β = 90.00
c = 99.680γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
PHASERphasing
XDSdata reduction
REFMACrefinement
XSCALEdata scaling
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2019-12-13 
  • Released Date: 2020-02-12 
  • Deposition Author(s): Rudolph, M.G.

Revision History 

  • Version 1.0: 2020-02-12
    Type: Initial release