6IIT

Complex structure of the HRP3 PWWP domain with both a 16-bp TA-rich DNA and an H3K36me2-containing histone peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.194 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Complex structure of the HRP3 PWWP domain with both a 16-bp TA-rich DNA and a H3K36me2-containing histone peptide

Wang, Z.Tian, W.

(2019) Nucleic Acids Res 


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Hepatoma-derived growth factor-related protein 3A, B100Homo sapiensMutation(s): 0 
Gene Names: HDGFL3HDGF2HDGFRP3CGI-142
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y3E1 (Homo sapiens)
Explore Q9Y3E1 
Go to UniProtKB:  Q9Y3E1
PHAROS:  Q9Y3E1
GTEx:  ENSG00000166503 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9Y3E1
Protein Feature View
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  • Reference Sequence

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
H3K36me2-containing histone peptideE, F8synthetic constructMutation(s): 0 
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

Find similar nucleic acids by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChainsLengthOrganismImage
16-bp TA-rich DNAC, D 16synthetic construct
Protein Feature View
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MLY
Query on MLY
E, F L-PEPTIDE LINKINGC8 H18 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.264 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.194 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 33.592α = 90
b = 33.592β = 90
c = 200.101γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

  • Deposited Date: 2018-10-07 
  • Released Date: 2019-04-24 
  • Deposition Author(s): Wang, Z., Tian, W.

Funding OrganizationLocationGrant Number
National Natural Science Foundation of ChinaChina31570729

Revision History  (Full details and data files)

  • Version 1.0: 2019-04-24
    Type: Initial release