2FB9	Ligase	date	Dec 08, 2005
title	Crystal Structure Of The Apo Form Of D-Alanine: D-Alanine Li From Thermus Caldophilus: A Basis For The Substrate-Induced Conformational Changes
authors	J.H.Lee, Y.Na, S.H.Eom
compound		source
Molecule: D-Alanine:D-Alanine Ligase Chain: A Ec: 6.3.2.4 Engineered: Yes		Organism_scientific: Thermus Caldophilus Organism_taxid: 272 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pkk223-3
symmetry	Space Group: C 2 2 21	R_factor 0.228 R_Free 0.268
crystal cell	length a length b length c angle alpha angle beta angle gamma 115.216 132.744 59.324 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.90 Å
ligand		enzyme	Ligase E.C.6.3.2.4 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structure of the apo form of D-alanine: D-alanine ligase (Ddl) from Thermus caldophilus: a basis for the substrate-induced conformational changes., Lee JH, Na Y, Song HE, Kim D, Park BH, Rho SH, Im YJ, Kim MK, Kang GB, Lee DS, Eom SH, Proteins. 2006 Sep 1;64(4):1078-82. PMID:16779845

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk] Biological Unit Coordinates (2fb9.pdb1.gz) 101 Kb CSU: Contacts of Structural Units for 2FB9 Likely Quarternary Molecular Structure file(s) for 2FB9 Structure Factors (642 Kb) Retrieve 2FB9 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2FB9 from S2C, [Save to disk] Re-refined 2fb9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2FB9 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 2FB9

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2FB9, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2fb9] [2fb9_A] SWISS-PROT database: [Q5SHZ3] [Q3T920] Domain organization of [DDL_THET8] [Q3T920_THECA] by SWISSPFAM

Other resources with information on 2FB9

Community annotation for 2FB9 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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