1B8A	Ligase	date	Jan 27, 1999
title	Aspartyl-Trna Synthetase
authors	E.Schmitt, L.Moulinier, J.C.Thierry, D.Moras
compound		source
Molecule: Protein (Aspartyl-Trna Synthetase) Chain: A, B Synonym: Aspartyl Trna Ligase Ec: 6.1.1.12 Engineered: Yes		Organism_scientific: Thermococcus Kodakarensis Organism_taxid: 69014 Strain: Kod1 Cellular_location: Cytoplasm Gene: Asps Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_plasmid: Puc18f
symmetry	Space Group: P 21 21 2	R_factor 0.168 R_Free 0.202
crystal cell	length a length b length c angle alpha angle beta angle gamma 124.800 125.000 87.160 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.90 Å
ligand	ATP, MN	enzyme	Ligase E.C.6.1.1.12 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Crystal structure of aspartyl-tRNA synthetase from Pyrococcus kodakaraensis KOD: archaeon specificity and catalytic mechanism of adenylate formation., Schmitt E, Moulinier L, Fujiwara S, Imanaka T, Thierry JC, Moras D, EMBO J 1998 Sep 1;17(17):5227-37. PMID:9724658

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (171 Kb) [Save to disk] Biological Unit Coordinates (1b8a.pdb1.gz) 166 Kb LPC: Ligand-Protein Contacts for 1B8A CSU: Contacts of Structural Units for 1B8A Likely Quarternary Molecular Structure file(s) for 1B8A Structure Factors (789 Kb) Retrieve 1B8A in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1B8A from S2C, [Save to disk] Re-refined 1b8a structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1B8A 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 1B8A

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 1B8A, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1b8aa1, region A:1-103 [Jmol] [rasmolscript] [script source]     - Domain d1b8aa2, region A:104-438 [Jmol] [rasmolscript] [script source]     - Domain d1b8ab1, region B:1001-1103 [Jmol] [rasmolscript] [script source]     - Domain d1b8ab2, region B:1104-1438 [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1b8a_B] [1b8a] [1b8a_A] SWISS-PROT database: [Q52428] Domain organization of [SYD_PYRKO] by SWISSPFAM

Other resources with information on 1B8A

Community annotation for 1B8A at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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