1V25 Ligase date Oct 07, 2003
title Crystal Structure Of Tt0168 From Thermus Thermophilus Hb8
authors Y.Hisanaga, H.Ago, T.Nakatsu, K.Hamada, K.Ida, H.Kanda, M.Yamamoto Y.Arii, M.Sugahara, S.Kuramitsu, S.Yokoyama, M.Miyano, Riken Str Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Long-Chain-Fatty-Acid-Coa Synthetase
Chain: A, B
Ec: 6.2.1.3
Engineered: Yes
 Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a
symmetry Space Group: P 21 21 21
R_factor 0.205 R_Free 0.240
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.520 101.151 176.487 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand ANP, MG enzyme Ligase E.C.6.2.1.3 BRENDA
related structures by homologous chain: 1V26
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • long-chain fatty acid-CoA li...


    • Primary referenceStructural basis of the substrate-specific two-step catalysis of long chain fatty acyl-CoA synthetase dimer., Hisanaga Y, Ago H, Nakagawa N, Hamada K, Ida K, Yamamoto M, Hori T, Arii Y, Sugahara M, Kuramitsu S, Yokoyama S, Miyano M, J Biol Chem 2004 Jul 23;279(30):31717-26. Epub 2004 May 15. PMID:15145952
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (168 Kb) [Save to disk]
  • Biological Unit Coordinates (1v25.pdb1.gz) 163 Kb
  • LPC: Ligand-Protein Contacts for 1V25
  • CSU: Contacts of Structural Units for 1V25
  • Likely Quarternary Molecular Structure file(s) for 1V25
  • Structure Factors (457 Kb)
  • Retrieve 1V25 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1V25 from S2C, [Save to disk]
  • Re-refined 1v25 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1V25 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 1V25
  • 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 1V25, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1v25a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1v25b_, region B [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1v25_A] [1v25_B] [1v25]
  • SWISS-PROT database: [Q6L8F0]
  • Domain organization of [Q6L8F0_THETH] by SWISSPFAM
    • Other resources with information on 1V25
  • Community annotation for 1V25 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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