1FYF	Ligase	date	Sep 29, 2000
title	Crystal Structure Of A Truncated Form Of Threonyl-Trna Synth Complexed With A Seryl Adenylate Analog
authors	R.Sankaranarayanan, A.C.Dock-Bregeon, D.Moras
compound		source
Molecule: Threonyl-Trna Synthetase Chain: A, B Fragment: Catalytic And Anticodon Binding Domains (Residues Ec: 6.1.1.3 Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 21 21 21	R_factor 0.218 R_Free 0.237
crystal cell	length a length b length c angle alpha angle beta angle gamma 86.950 109.520 115.370 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.65 Å
ligand	SSA, ZN	enzyme	Ligase E.C.6.1.1.3 BRENDA
related structures	by homologous chain: 1EVK, 1EVL
Gene Ontology	Chain Function Process Component A, B
Primary reference	Transfer RNA-mediated editing in threonyl-tRNA synthetase. The class II solution to the double discrimination problem., Dock-Bregeon A, Sankaranarayanan R, Romby P, Caillet J, Springer M, Rees B, Francklyn CS, Ehresmann C, Moras D, Cell 2000 Dec 8;103(6):877-84. PMID:11136973

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (144 Kb) [Save to disk] Biological Unit Coordinates (1fyf.pdb1.gz) 139 Kb LPC: Ligand-Protein Contacts for 1FYF CSU: Contacts of Structural Units for 1FYF Likely Quarternary Molecular Structure file(s) for 1FYF Structure Factors (1051 Kb) Retrieve 1FYF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1FYF from S2C, [Save to disk] Re-refined 1fyf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1FYF 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 1FYF

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 1FYF, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1fyfa2, region A:242-532 [Jmol] [rasmolscript] [script source]     - Domain d1fyfa1, region A:533-642 [Jmol] [rasmolscript] [script source]     - Domain d1fyfb2, region B:242-532 [Jmol] [rasmolscript] [script source]     - Domain d1fyfb1, region B:533-642 [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: [1fyf_B] [1fyf] [1fyf_A] SWISS-PROT database: [P0A8M3] Domain organization of [SYT_ECOLI] by SWISSPFAM

Other resources with information on 1FYF

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

Movements, Movies and Images

Domain movements in 1FYF from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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