2NL8	Dna Binding Protein Dna	date	Oct 19, 2006
title	The Origin Binding Domain Of The Sv40 Large T Antigen Bound Specifically To A 17 Bp Palindrome Dna (Sites 1 And 3)
authors	D.Martynowski, E.Bochkareva, A.Bochkarev
compound		source
Molecule: 18-Nt Pen Element Of The Sv40 Dna Origin Chain: W Engineered: Yes Other_details: P2 Pentamer Replaced With Atcat		Synthetic: Yes
Molecule: Large T Antigen Chain: A Fragment: Origin Binding Domain (Residues 131-259) Engineered: Yes Mutation: Yes		Organism_scientific: Simian Virus 40 Organism_taxid: 10633 Strain: 776 Gene: Large T Antigen Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15b
symmetry	Space Group: P 43 21 2	R_factor 0.237 R_Free 0.299
crystal cell	length a length b length c angle alpha angle beta angle gamma 43.870 43.870 238.308 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.30 Å
Gene Ontology	Chain Function Process Component A
Primary reference	Structure of the origin-binding domain of simian virus 40 large T antigen bound to DNA., Bochkareva E, Martynowski D, Seitova A, Bochkarev A, EMBO J. 2006 Dec 13;25(24):5961-9. Epub 2006 Nov 30. PMID:17139255

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (34 Kb) [Save to disk] Biological Unit Coordinates (2nl8.pdb1.gz) 56 Kb CSU: Contacts of Structural Units for 2NL8 Likely Quarternary Molecular Structure file(s) for 2NL8 Structure Factors (160 Kb) Retrieve 2NL8 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2NL8 from S2C, [Save to disk] Re-refined 2nl8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2NL8 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 2NL8

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 2NL8, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2nl8_A] [2nl8] [2nl8_W] SWISS-PROT database: [P03070] Domain organization of [LT_SV40] by SWISSPFAM

Other resources with information on 2NL8

Community annotation for 2NL8 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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