2DQ0	Ligase	date	May 18, 2006
title	Crystal Structure Of Seryl-Trna Synthetase From Pyrococcus H Complexed With A Seryl-Adenylate Analog
authors	Y.Itoh, S.Sekine, S.Yokoyama, Riken Structural Genomicsproteom Initiative (Rsgi)
compound		source
Molecule: Seryl-Trna Synthetase Chain: A, B Synonym: Serine--Trna Ligase, Serrs Ec: 6.1.1.11 Engineered: Yes		Organism_scientific: Pyrococcus Horikoshii Organism_taxid: 70601 Strain: Ot3 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21-Codonplus(De3)-Ril Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet11a
symmetry	Space Group: P 21 21 21	R_factor 0.192 R_Free 0.248
crystal cell	length a length b length c angle alpha angle beta angle gamma 96.038 120.037 126.508 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.60 Å
ligand	SO4, SSA	enzyme	Ligase E.C.6.1.1.11 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Crystallographic and mutational studies of seryl-tRNA synthetase from the archaeon Pyrococcus horikoshii., Itoh Y, Sekine SI, Kuroishi C, Terada T, Shirouzu M, Kuramitsu S, Yokoyama S, RNA Biol. 2008 Jul 28;5(3). PMID:18818520

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (157 Kb) [Save to disk] Biological Unit Coordinates (2dq0.pdb1.gz) 152 Kb LPC: Ligand-Protein Contacts for 2DQ0 CSU: Contacts of Structural Units for 2DQ0 Likely Quarternary Molecular Structure file(s) for 2DQ0 Structure Factors (299 Kb) Retrieve 2DQ0 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2DQ0 from S2C, [Save to disk] Re-refined 2dq0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2DQ0 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 2DQ0

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 2DQ0, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2dq0_B] [2dq0_A] [2dq0] SWISS-PROT database: [O58441] Domain organization of [SYS_PYRHO] by SWISSPFAM

Other resources with information on 2DQ0

Community annotation for 2DQ0 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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