6BOT	Dna Binding Protein Dna	date	Nov 20, 2017
title	Human Ape1 Substrate Complex With An Cc Mismatch Adjacent T
authors	B.D.Freudenthal, A.M.Whitaker, M.S.Fairlamb
compound		source
Molecule: Dna-(Apurinic Or Apyrimidinic Site) Lyase Chain: A, B Synonym: Apex Nuclease,Apen,Apurinic-Apyrimidinic Endonucle 1,Ref-1,Redox Factor-1; Ec: 3.1.-.-,4.2.99.18 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Apex1, Ape, Ape1, Apex, Apx, Hap1, Ref1 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: 21-Mer Dna Chain: P Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: 21-Mer Dna Chain: V Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 1	R_factor 0.202 R_Free 0.245
crystal cell	length a length b length c angle alpha angle beta angle gamma 44.247 60.944 73.292 83.18 78.48 87.21
method	X-Ray Diffraction	resolution	2.30 Å
ligand	DV3, EDO	enzyme	Hydrolase E.C.3.1 BRENDA
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	Apurinic/apyrimidinic (AP) endonuclease 1 processing of AP sites with 5' mismatches., Fairlamb MS, Whitaker AM, Freudenthal BD, Acta Crystallogr D Struct Biol. 2018 Aug 1;74(Pt 8):760-768. doi:, 10.1107/S2059798318003340. Epub 2018 Jul 24. PMID:30082511

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (112 Kb) [Save to disk] Biological Unit Coordinates (6bot.pdb1.gz) 64 Kb Biological Unit Coordinates (6bot.pdb2.gz) 45 Kb LPC: Ligand-Protein Contacts for 6BOT CSU: Contacts of Structural Units for 6BOT Structure Factors (426 Kb) Retrieve 6BOT in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 6BOT from S2C, [Save to disk]

View 6BOT in 3D

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Visual 3D analysis of 6BOT

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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: [6bot_A] [6bot_P] [6bot_V] [6bot_B] SWISS-PROT database: Domain organization of by SWISSPFAM

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