4L1J

Three dimensional structure of mutant D143A of human HD domain-containing protein 2, Northeast Structural Genomics Consortium (NESG) Target HR6723


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.824 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.176 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Three dimensional structure of mutant D143A of human HD domain-containing protein 2, Northeast Structural Genomics Consortium (NESG) Target HR6723

Kuzin, A.Su, M.Yakunin, A.Beloglazova, O.Seetharaman, J.Maglaqui, M.Xiao, R.Lee, D.Brown, G.Flick, R.Everett, J.K.Acton, T.B.Montelione, G.T.Hunt, J.F.Tong, L.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HD domain-containing protein 2
A
204Homo sapiensMutation(s): 1 
Gene Names: HDDC2 (C6orf74, NS5ATP2)
Find proteins for Q7Z4H3 (Homo sapiens)
Go to Gene View: HDDC2
Go to UniProtKB:  Q7Z4H3
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
HD domain-containing protein 2 (Phosphorylate)
B
204Homo sapiensMutation(s): 1 
Gene Names: HDDC2 (C6orf74, NS5ATP2)
Find proteins for Q7Z4H3 (Homo sapiens)
Go to Gene View: HDDC2
Go to UniProtKB:  Q7Z4H3
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PE4
Query on PE4

Download SDF File 
Download CCD File 
B
2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL
POLYETHYLENE GLYCOL PEG4000
C16 H34 O8
PJWQOENWHPEPKI-UHFFFAOYSA-N
 Ligand Interaction
PEG
Query on PEG

Download SDF File 
Download CCD File 
A, B
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
SEP
Query on SEP
B
L-PEPTIDE LINKINGC3 H8 N O6 PSER
MSE
Query on MSE
A, B
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.824 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.176 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 64.991α = 90.00
b = 69.929β = 90.00
c = 105.778γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data scaling
BALBESphasing
HKL-2000data reduction
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2013-06-19
    Type: Initial release
  • Version 1.1: 2013-12-25
    Type: Structure summary