2PXI	Lyase, Transferase Dna	date	May 14, 2007
title	Ternary Complex Of Dna Polymerase Beta With A Dideoxy Termin Primer And 2'-Deoxyguanosine 5'-Beta, Gamma-Monofluoromethy Triphosphate
authors	C.E.Mckenna, V.K.Batra, W.A.Beard, L.C.Pedersen, S.H.Wilson
compound		source
Molecule: 5'-D(Cpcpgpapcpcpgpcpgpcpaptpcpapg Chain: T Engineered: Yes		Synthetic: Yes
Molecule: 5'-D(Gpcptpgpaptpgpcpgp(Doc))-3' Chain: P Engineered: Yes		Synthetic: Yes
Molecule: 5'-D(Pgptpcpgpg)-3' Chain: D Engineered: Yes		Synthetic: Yes
Molecule: Dna Polymerase Beta Chain: A Ec: 2.7.7.7, 4.2.99.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Polb Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 1 21 1	R_factor 0.206 R_Free 0.270
crystal cell	length a length b length c angle alpha angle beta angle gamma 50.600 80.200 55.400 90.00 107.80 90.00
method	X-Ray Diffraction	resolution	2.10 Å
ligand	CL, DOC, GFH, MG, NA	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	(R)-beta,gamma-fluoromethylene-dGTP-DNA ternary complex with DNA polymerase beta., McKenna CE, Kashemirov BA, Upton TG, Batra VK, Goodman MF, Pedersen LC, Beard WA, Wilson SH, J Am Chem Soc. 2007 Dec 19;129(50):15412-3. Epub 2007 Nov 22. PMID:18031037

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk] Biological Unit Coordinates (2pxi.pdb1.gz) 72 Kb LPC: Ligand-Protein Contacts for 2PXI CSU: Contacts of Structural Units for 2PXI Likely Quarternary Molecular Structure file(s) for 2PXI Structure Factors (191 Kb) Retrieve 2PXI in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2PXI from S2C, [Save to disk] Re-refined 2pxi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2PXI 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 2PXI

Ramachandran plot from PDBSum

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 2PXI, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2pxi] [2pxi_T] [2pxi_A] [2pxi_P] [2pxi_D] SWISS-PROT database: [P06746] Domain organization of [DPOLB_HUMAN] by SWISSPFAM Domains found in 2PXI: [HhH1] [POLXc ] by SMART

Other resources with information on 2PXI

Community annotation for 2PXI at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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