5ITX Dna Binding Protein Dna date Mar 17, 2016
title Crystal Structure Of Human Neil1(P2g R242k) Bound To Duplex Containing Thymine Glycol
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
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
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, C, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Unidentified
Organism_taxid: 32644

Molecule: Endonuclease 8-Like 1
Chain: E
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
symmetry Space Group: P 21 21 21
R_factor 0.192 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
73.991 109.378 170.968 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.65 Å
ligand CTG enzyme Hydrolase E.C.3.2.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, E, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (167 Kb) [Save to disk]
  • Biological Unit Coordinates (5itx.pdb1.gz) 56 Kb
  • Biological Unit Coordinates (5itx.pdb2.gz) 55 Kb
  • Biological Unit Coordinates (5itx.pdb3.gz) 53 Kb
  • LPC: Ligand-Protein Contacts for 5ITX
  • CSU: Contacts of Structural Units for 5ITX
  • Structure Factors (872 Kb)
  • Retrieve 5ITX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5ITX from S2C, [Save to disk]
  • Re-refined 5itx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5ITX 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 5ITX
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5itx_F] [5itx_D] [5itx_C] [5itx_B] [5itx_A] [5itx] [5itx_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5ITX: [Fapy_DNA_glyco] [H2TH ] by SMART
  • Other resources with information on 5ITX
  • Community annotation for 5ITX at PDBWiki (http://pdbwiki.org)

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