1BNK Hydrolase Dna date Jul 29, 1998
title Human 3-Methyladenine Dna Glycosylase Complexed To Dna
authors A.Y.Lau, O.D.Schaerer, L.Samson, G.L.Verdine, T.Ellenberger
compound source
Molecule: Dna (5'-D(Gpapcpaptpgpyrrptptpgpcpcp
Chain: D
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'-D(Gpgpcpapaptpcpaptpgptpcpa)
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: Protein (3-Methyladenine Dna Glycosylase)
Chain: A
Synonym: Aag, Anpg, Mpg
Ec: 3.2.2.21
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Liver
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_cellular_location: Cytoplasm
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Plm1-Aag
Expression_system_gene: Aag
symmetry Space Group: P 21 21 21
R_factor 0.216 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
43.750 57.100 128.450 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand YRR enzyme Hydrolase E.C.3.2.2.21 BRENDA
related structures by homologous chain: 1F4R
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of a human alkylbase-DNA repair enzyme complexed to DNA: mechanisms for nucleotide flipping and base excision., Lau AY, Scharer OD, Samson L, Verdine GL, Ellenberger T, Cell 1998 Oct 16;95(2):249-58. PMID:9790531
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk]
  • Biological Unit Coordinates (1bnk.pdb1.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 1BNK
  • CSU: Contacts of Structural Units for 1BNK
  • Likely Quarternary Molecular Structure file(s) for 1BNK
  • Retrieve 1BNK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BNK from S2C, [Save to disk]
  • View 1BNK 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 1BNK
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1BNK, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1bnka_, region A [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1bnk_A] [1bnk_E] [1bnk] [1bnk_D]
  • SWISS-PROT database: [P29372]
  • Domain organization of [3MG_HUMAN] by SWISSPFAM
  • Other resources with information on 1BNK
  • Community annotation for 1BNK at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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