2YXG	Lyase	date	Apr 26, 2007
title	Crystal Structure Of Dihyrodipicolinate Synthase (Dapa)
authors	B.Padmanabhan, Y.Bessho, S.Yokoyama, Riken Structural Genomicsproteomics Initiative (Rsgi)
compound		source
Molecule: Dihydrodipicolinate Synthase Chain: A, B, C, D Synonym: Dhdps Ec: 4.2.1.52 Engineered: Yes		Organism_scientific: Methanocaldococcus Jannaschii Dsm 2661; Organism_taxid: 243232 Strain: Dsm2661 Gene: Dapa Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Rosetta(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-21a
symmetry	Space Group: P 1 21 1	R_factor 0.158 R_Free 0.224
crystal cell	length a length b length c angle alpha angle beta angle gamma 80.469 76.532 101.863 90.00 106.87 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand		enzyme	Lyase E.C.4.2.1.52 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Structure of dihydrodipicolinate synthase from Methanocaldococcus jannaschii., Padmanabhan B, Strange RW, Antonyuk SV, Ellis MJ, Hasnain SS, Iino H, Agari Y, Bessho Y, Yokoyama S, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2009 Dec 1;65(Pt, 12):1222-6. Epub 2009 Nov 27. PMID:20054116

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (195 Kb) [Save to disk] Biological Unit Coordinates (2yxg.pdb1.gz) 190 Kb CSU: Contacts of Structural Units for 2YXG Likely Quarternary Molecular Structure file(s) for 2YXG Retrieve 2YXG in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2YXG from S2C, [Save to disk]

View 2YXG 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 2YXG

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2YXG, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2yxg_A] [2yxg_C] [2yxg_B] [2yxg_D] [2yxg] SWISS-PROT database: [Q57695] Domain organization of [DAPA_METJA] by SWISSPFAM Domain found in 2YXG: [DHDPS ] by SMART

Other resources with information on 2YXG

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

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