5ITR Dna Binding Protein Dna date Mar 17, 2016
title Crystal Structure Of Human Neil1(P2g) Bound To Duplex Dna Co Thf
authors C.Zhu, L.Lu, J.Zhang, Z.Yue, J.Song, S.Zong, M.Liu, O.Stovicek, Y.Ga
compound source
Molecule: Endonuclease 8-Like 1
Chain: A, B, C
Synonym: Dna Glycosylaseap Lyase Neil1,Dna-(Apurinic Or Ap Site) Lyase Neil1,Endonuclease Viii-Like 1,Fpg1,Nei Homolog Nei-Like Protein 1;
Ec: 3.2.2.-,4.2.99.18
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Neil1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (26-Mer)
Chain: D, E
Engineered: Yes

Synthetic: Yes
Organism_scientific: Unidentified
Organism_taxid: 32644

Molecule: Dna (26-Mer)
Chain: F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Unidentified
Organism_taxid: 32644
symmetry Space Group: P 21 21 21
R_factor 0.211 R_Free 0.263
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.306 109.036 169.837 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.46 Å
ligand
enzyme Hydrolase E.C.3.2.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (169 Kb) [Save to disk]
  • Biological Unit Coordinates (5itr.pdb1.gz) 57 Kb
  • Biological Unit Coordinates (5itr.pdb2.gz) 55 Kb
  • Biological Unit Coordinates (5itr.pdb3.gz) 53 Kb
  • CSU: Contacts of Structural Units for 5ITR
  • Structure Factors (1068 Kb)
  • Retrieve 5ITR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5ITR from S2C, [Save to disk]
  • Re-refined 5itr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5ITR 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 5ITR
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5itr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5itr_D] [5itr_A] [5itr_B] [5itr_F] [5itr] [5itr_C] [5itr_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5ITR: [Fapy_DNA_glyco] [H2TH ] by SMART
  • Other resources with information on 5ITR
  • Community annotation for 5ITR at PDBWiki (http://pdbwiki.org)

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