4OQB Transferase Dna Transferase Inhibitor date Feb 07, 2014
title Structure Of Human Parp-1 Bound To A Dna Double Strand Break Complex With (2z)-2-{4-[2-(Morpholin-4-Yl)Ethoxy]Benzyliden 2,3-Dihydro-1-Benzofuran-7-Carboxamide
authors J.M.Pascal, J.D.Steffen
compound source
Molecule: Poly [Adp-Ribose] Polymerase 1
Chain: A, D
Fragment: N-Terminus (Zn1-Zn3, See Remark 999)
Synonym: Parp-1, Adp-Ribosyltransferase Diphtheria Toxin-Li Artd1, Nad(+) Adp-Ribosyltransferase 1, Adprt 1, Poly[Adp-R Synthase 1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Parp1, Adprt, Ppol
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Poly [Adp-Ribose] Polymerase 1
Chain: C, F
Fragment: C-Terminus (Wgr-Cat, Unp Residues 518-1014)
Synonym: Parp-1, Adp-Ribosyltransferase Diphtheria Toxin-Li Artd1, Nad(+) Adp-Ribosyltransferase 1, Adprt 1, Poly[Adp-R Synthase 1;
Ec: 2.4.2.30
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Parp1, Adprt, Ppol
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (26-Mer)
Chain: M, N
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.322 R_Free 0.349
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.100 113.080 296.230 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.36 Å
ligand 2UT, ZN enzyme Transferase E.C.2.4.2.30 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D


F, C


Primary referenceDiscovery and Structure-Activity Relationship of Novel 2,3-Dihydrobenzofuran-7-carboxamide and 2,3-Dihydrobenzofuran-3(2H)-one-7-carboxamide Derivatives as Poly(ADP-ribose)polymerase-1 Inhibitors., Patel MR, Bhatt A, Steffen JD, Chergui A, Murai J, Pommier Y, Pascal JM, Trombetta LD, Fronczek FR, Talele TT, J Med Chem. 2014 Jun 25. PMID:24922587
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (522 Kb) [Save to disk]
  • Biological Unit Coordinates (4oqb.pdb1.gz) 282 Kb
  • Biological Unit Coordinates (4oqb.pdb2.gz) 282 Kb
  • LPC: Ligand-Protein Contacts for 4OQB
  • CSU: Contacts of Structural Units for 4OQB
  • Structure Factors (600 Kb)
  • Retrieve 4OQB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4OQB from S2C, [Save to disk]
  • Re-refined 4oqb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4OQB 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 4OQB
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4OQB, from MSDmotif at EBI
  • Fold representative 4oqb from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4oqb_F] [4oqb_N] [4oqb_M] [4oqb_A] [4oqb_C] [4oqb_D] [4oqb]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4OQB: [PADR1] [WGR] [zf-PARP ] by SMART
  • Other resources with information on 4OQB
  • Community annotation for 4OQB at PDBWiki (http://pdbwiki.org)

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