6ASD Dna Binding Protein Dna date Aug 24, 2017
title Zinc Finger Region Of Human Tet1 In Complex With Cpg Dna
authors K.Liu, C.Xu, W.Tempel, J.R.Walker, C.H.Arrowsmith, C.Bountra, A.M. J.Min, Structural Genomics Consortium (Sgc)
compound source
Molecule: Dna (5'-D(Gpcpcpapcpcpgpgptpgpgpc)-3'
Chain: A, B
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: Synthetic

Molecule: Methylcytosine Dioxygenase Tet1
Chain: C
Fragment: Zinc Finger Region (Unp Residues 587-632)
Synonym: Cxxc-Type Zinc Finger Protein 6,Leukemia-Associate With A Cxxc Domain,Ten-Eleven Translocation 1 Gene Protein;
Ec: 1.14.11.-
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tet1, Cxxc6, Kiaa1676, Lcx
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)-V2r-Prare2
Expression_system_plasmid: Pet28-Mhl
symmetry Space Group: C 1 2 1
R_factor 0.202 R_Free 0.235
length a length b length c angle alpha angle beta angle gamma
73.502 31.951 65.414 90.00 121.82 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand UNX, ZN enzyme Oxidoreductase E.C.1.14.11 BRENDA

Primary referenceDNA Sequence Recognition of Human CXXC Domains and Their Structural Determinants., Xu C, Liu K, Lei M, Yang A, Li Y, Hughes TR, Min J, Structure. 2017 Dec 16. pii: S0969-2126(17)30396-9. doi:, 10.1016/j.str.2017.11.022. PMID:29276034
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (42 Kb) [Save to disk]
  • Biological Unit Coordinates (6asd.pdb1.gz) 37 Kb
  • LPC: Ligand-Protein Contacts for 6ASD
  • CSU: Contacts of Structural Units for 6ASD
  • Structure Factors (1307 Kb)
  • Retrieve 6ASD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6ASD from S2C, [Save to disk]
  • View 6ASD in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 6ASD
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6asd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6asd_A] [6asd_C] [6asd_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6ASD
  • Community annotation for 6ASD at PDBWiki (http://pdbwiki.org)

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