1E9N	Dna Repair	date	Oct 24, 2000
title	A Second Divalent Metal Ion In The Active Site Of A New Crys Of Human Apurinicapyrimidinic Endonuclease, Ape1, And Its Implications For The Catalytic Mechanism
authors	P.T.Beernink, B.W.Segelke, B.Rupp
compound		source
Molecule: Dna-(Apurinic Or Apyrimidinic Site) Lyase Chain: A, B Synonym: Ap Endonuclease 1, Hap1, Ref1, Ape1 Ec: 4.2.99.18 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ape1 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_plasmid: Pet11d Expression_system_gene: Ape1
symmetry	Space Group: C 1 2 1	R_factor 0.186 R_Free 0.252
crystal cell	length a length b length c angle alpha angle beta angle gamma 137.522 45.016 125.702 90.00 108.03 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	PB	enzyme	Lyase E.C.4.2.99.18 BRENDA
related structures	by homologous chain: 1BIX, 1DEW
Gene Ontology	Chain Function Process Component A, B transcription corepressor ac... nuclease activity endonuclease activity endoribonuclease activity RNA-DNA hybrid ribonuclease ... exonuclease activity phosphodiesterase I activity... double-stranded DNA 3'-5' ex... 3'-5' exonuclease activity oxidoreductase activity
Primary reference	Two divalent metal ions in the active site of a new crystal form of human apurinic/apyrimidinic endonuclease, Ape1: implications for the catalytic mechanism., Beernink PT, Segelke BW, Hadi MZ, Erzberger JP, Wilson DM 3rd, Rupp B, J Mol Biol 2001 Apr 6;307(4):1023-34. PMID:11286553

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (101 Kb) [Save to disk] Biological Unit Coordinates (1e9n.pdb1.gz) 49 Kb Biological Unit Coordinates (1e9n.pdb2.gz) 49 Kb LPC: Ligand-Protein Contacts for 1E9N CSU: Contacts of Structural Units for 1E9N Likely Quarternary Molecular Structure file(s) for 1E9N Structure Factors (402 Kb) Retrieve 1E9N in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1E9N from S2C, [Save to disk] Re-refined 1e9n structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1E9N in 3D

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Visual 3D analysis of 1E9N

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Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1E9N, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1e9na_, region A [Jmol] [rasmolscript] [script source]     - Domain d1e9nb_, region B [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: [1e9n] [1e9n_B] [1e9n_A] SWISS-PROT database: [P27695] Domain organization of [APEX1_HUMAN] by SWISSPFAM

Other resources with information on 1E9N

Community annotation for 1E9N at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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