1XZQ Hydrolase date Nov 12, 2004
title Structure Of The Gtp-Binding Protein Trme From Thermotoga Maritima Complexed With 5-Formyl-Thf
authors A.Scrima, I.R.Vetter, M.E.Armengod, A.Wittinghofer
compound source
Molecule: Probable Trna Modification Gtpase Trme
Chain: A
Synonym: Trme Gtp-Binding Protein
Engineered: Yes
Organism_scientific: Thermotoga Maritima
Organism_taxid: 2336
Gene: Trme
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21de3 (Trme-)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet20b

Molecule: Probable Trna Modification Gtpase Trme
Chain: B
Fragment: N-Terminal Domain (Residues 1-117)
Synonym: Trme Gtp-Binding Protein
Engineered: Yes

Organism_scientific: Thermotoga Maritima
Organism_taxid: 2336
Gene: Trme
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21de3 (Trme-)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet20b
symmetry Space Group: P 62
R_factor 0.250 R_Free 0.307
crystal
cell
length a length b length c angle alpha angle beta angle gamma
130.030 130.030 113.840 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.90 Å
ligand FON enzyme
related structures by homologous chain: 1JAL
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe structure of the TrmE GTP-binding protein and its implications for tRNA modification., Scrima A, Vetter IR, Armengod ME, Wittinghofer A, EMBO J 2004 Dec 16;. PMID:15616586
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (97 Kb) [Save to disk]
  • Biological Unit Coordinates (1xzq.pdb1.gz) 92 Kb
  • Biological Unit Coordinates (1xzq.pdb2.gz) 181 Kb
  • LPC: Ligand-Protein Contacts for 1XZQ
  • CSU: Contacts of Structural Units for 1XZQ
  • Likely Quarternary Molecular Structure file(s) for 1XZQ
  • Structure Factors (205 Kb)
  • Retrieve 1XZQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1XZQ from S2C, [Save to disk]
  • Re-refined 1xzq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1XZQ 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 1XZQ
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1XZQ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1xzqa1, region A:118-211,A:372-450 [Jmol] [rasmolscript] [script source]
        - Domain d1xzqa3, region A:2-117 [Jmol] [rasmolscript] [script source]
        - Domain d1xzqa2, region A:212-371 [Jmol] [rasmolscript] [script source]
        - Domain d1xzqb1, region B:1-117 [Jmol] [rasmolscript] [script source]
  • Fold representative 1xzq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1xzq_A] [1xzq_B] [1xzq]
  • SWISS-PROT database: [Q9WYA4]
  • Domain organization of [MNME_THEMA] by SWISSPFAM
  • Domain found in 1XZQ: [small_GTPase ] by SMART
  • Other resources with information on 1XZQ
  • Community annotation for 1XZQ at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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