3NGI	Transferase Dna	date	Jun 11, 2010
title	Rb69 Dna Polymerase (Y567a) Ternary Complex With Dttp Opposi
authors	M.Wang, J.Wang, W.H.Konigsberg
compound		source
Molecule: Dna Polymerase Chain: A Synonym: Gp43 Ec: 2.7.7.7 Engineered: Yes Mutation: Yes		Organism_scientific: Enterobacteria Phage Rb69 Organism_common: Bacteriophage Rb69 Organism_taxid: 12353 Gene: 43, Gp43 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet21b
Molecule: Dna (5'- D(Tpcpapgpgptpapapgpcpapgptpcpcpgpcpg)-3' Chain: T Engineered: Yes Other_details: Template Dna Strand		Synthetic: Yes
Molecule: Dna (5'-D(Gpcpgpgpapcptpgpcptptpap(D Chain: P Engineered: Yes Other_details: Primer Dna Strand		Synthetic: Yes
symmetry	Space Group: P 21 21 21	R_factor 0.192 R_Free 0.226
crystal cell	length a length b length c angle alpha angle beta angle gamma 74.989 120.336 130.768 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.89 Å
ligand	CA, DOC, TTP	enzyme	Transferase E.C.2.7.7.7 BRENDA
Gene Ontology	Chain Function Process Component A DNA-directed DNA polymerase ... nuclease activity exonuclease activity 3'-5' exonuclease activity
Primary reference	Variation in Mutation Rates Caused by RB69pol Fidelity Mutants Can Be Rationalized on the Basis of Their Kinetic Behavior and Crystal Structures., Xia S, Wang M, Lee HR, Sinha A, Blaha G, Christian T, Wang J, Konigsberg W, J Mol Biol. 2011 Jan 7. PMID:21216248

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (188 Kb) [Save to disk] Biological Unit Coordinates (3ngi.pdb1.gz) 181 Kb LPC: Ligand-Protein Contacts for 3NGI CSU: Contacts of Structural Units for 3NGI Structure Factors (1428 Kb) Retrieve 3NGI in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3NGI from S2C, [Save to disk] Re-refined 3ngi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3NGI 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 3NGI

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 3NGI, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3ngi] [3ngi_T] [3ngi_A] [3ngi_P] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3NGI: [POLBc ] by SMART

Other resources with information on 3NGI

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

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