4UY4

1.86 A structure of human Spindlin-4 protein in complex with histone H3K4me3 peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.203 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

1.86 A Structure of Human Spindlin-4 Protein in Complex with Histone H3K4Me3 Peptide

Talon, R.Gileadi, C.Johansson, C.Burgess-Brown, N.Shrestha, L.Fairhead, M.von Delft, F.Krojer, T.Bountra, C.Arrowsmith, C.H.Edwards, A.Oppermann, U.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
SPINDLIN-4A, B216Homo sapiensMutation(s): 0 
Gene Names: SPIN4
UniProt & NIH Common Fund Data Resources
Find proteins for Q56A73 (Homo sapiens)
Explore Q56A73 
Go to UniProtKB:  Q56A73
PHAROS:  Q56A73
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ56A73
Protein Feature View
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  • Reference Sequence

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
HISTONE H3K4ME3C, D6Homo sapiensMutation(s): 0 
Gene Names: 
UniProt & NIH Common Fund Data Resources
Find proteins for P68431 (Homo sapiens)
Explore P68431 
Go to UniProtKB:  P68431
PHAROS:  P68431
Entity Groups  
UniProt GroupP68431
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
E [auth A]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
M3L
Query on M3L
C, D L-PEPTIDE LINKINGC9 H21 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.86 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.203 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 39.072α = 81.25
b = 51.69β = 89.89
c = 57.141γ = 88
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2014-09-24
    Type: Initial release
  • Version 1.1: 2015-08-19
    Changes: Database references, Structure summary
  • Version 1.2: 2018-01-24
    Changes: Database references, Structure summary
  • Version 1.3: 2019-05-15
    Changes: Data collection, Derived calculations, Experimental preparation