3PML	Lyase,Transferase Dna	date	Nov 17, 2010
title	Crystal Structure Of A Polymerase Lambda Variant With A Dgtp Opposite A Templating T
authors	K.Bebenek, L.C.Pedersen, T.A.Kunkel
compound		source
Molecule: Dna Polymerase Lambda Chain: A, B Fragment: Unp Residues 242-575 Synonym: Pol Lambda, Dna Polymerase Beta-2, Pol Beta2, Dna Kappa; Ec: 2.7.7.7, 4.2.99.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Strain: 562 Gene: Poll Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3)Ril Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet22
Molecule: 5'-D(Cpgpgpcptpgptpapcptpg)-3' Chain: C, E Engineered: Yes Other_details: Templating Strand Dna		Synthetic: Yes
Molecule: 5'-D(Pgpcpcpg)-3' Chain: D, G Engineered: Yes Other_details: Primer Strand Dna		Synthetic: Yes
Molecule: 5'-D(Cpapgptpapc)-3' Chain: F, H Engineered: Yes Other_details: Downstream Strand Dna		Synthetic: Yes
symmetry	Space Group: P 21 21 2	R_factor 0.233 R_Free 0.271
crystal cell	length a length b length c angle alpha angle beta angle gamma 97.038 191.570 59.084 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.60 Å
ligand	1GC, MG, NA	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Replication infidelity via a mismatch with Watson-Crick geometry., Bebenek K, Pedersen LC, Kunkel TA, Proc Natl Acad Sci U S A. 2011 Jan 13. PMID:21233421

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (134 Kb) [Save to disk] Biological Unit Coordinates (3pml.pdb1.gz) 64 Kb Biological Unit Coordinates (3pml.pdb2.gz) 67 Kb LPC: Ligand-Protein Contacts for 3PML CSU: Contacts of Structural Units for 3PML Structure Factors (386 Kb) Retrieve 3PML in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3PML from S2C, [Save to disk] Re-refined 3pml structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3PML 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 3PML

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 3PML, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3pml_D] [3pml_A] [3pml_H] [3pml] [3pml_B] [3pml_E] [3pml_C] [3pml_F] [3pml_G] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 3PML: [HhH1] [POLXc ] by SMART

Other resources with information on 3PML

Community annotation for 3PML at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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