6OE7 Dna Binding Protein Dna date Mar 27, 2019
title Crystal Structure Of Hmces Cross-Linked To Dna Abasic Site
authors L.Halabelian, Y.Li, H.Zeng, C.Bountra, A.M.Edwards, C.H.Arrowsmit Structural Genomics Consortium (Sgc)
compound source
Molecule: Embryonic Stem Cell-Specific 5-Hydroxymethylcytos Binding Protein;
Chain: A
Fragment: Srap Domain (Unp Residues 2-270)
Synonym: Es Cell-Specific 5hmc-Binding Protein,Putative Pep Srapd1,Srap Domain-Containing Protein 1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hmces, C3orf37, Dc12, Srapd1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'-D(Gptpcptpgpg)-3')
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Cpcpapgpapcpgptp(Drz)Pgptpt
Chain: B
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: I 1 2 1
R_factor 0.194 R_Free 0.216
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.509 51.534 149.720 90.00 92.72 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand DRZ, EDO, UNX enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (54 Kb) [Save to disk]
  • Biological Unit Coordinates (6oe7.pdb1.gz) 56 Kb
  • LPC: Ligand-Protein Contacts for 6OE7
  • CSU: Contacts of Structural Units for 6OE7
  • Structure Factors (895 Kb)
  • Retrieve 6OE7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6OE7 from S2C, [Save to disk]
  • View 6OE7 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 6OE7
  • 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 6oe7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6oe7_C] [6oe7_B] [6oe7_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6OE7
  • Community annotation for 6OE7 at PDBWiki (http://pdbwiki.org)

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