1T2F Oxidoreductase date Apr 21, 2004
title Human B Lactate Dehydrogenase Complexed With Nad+ And 4- Hydroxy-1,2,5-Oxadiazole-3-Carboxylic Acid
authors A.Cameron, J.Read, R.Tranter, V.J.Winter, R.B.Sessions, R.L.Brady, L.Vivas, A.Easton, H.Kendrick, S.L.Croft, D.Barros, J.L.Lavandera, J.J.Martin, F.Risco, S.Garcia-Ochoa, F.J.Gamo, L.Sanz, L.Leon, J.R.Ruiz, R.Gabarro, A.Mallo, F.G.De Las Heras
compound source
Molecule: L-Lactate Dehydrogenase B Chain
Chain: A, B, C, D
Synonym: Ldh-B, Ldh Heart Subunit, Ldh-H
Ec: 1.1.1.27
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ldhb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pkk223
symmetry Space Group: P 21 21 2
R_factor 0.215 R_Free 0.321
crystal
cell
length a length b length c angle alpha angle beta angle gamma
137.397 160.443 59.366 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand NAD, OXQ BindingDB enzyme Oxidoreductase E.C.1.1.1.27 BRENDA
related structures by homologous chain: 2LDX
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceIdentification and activity of a series of azole-based compounds with lactate dehydrogenase-directed anti-malarial activity., Cameron A, Read JA, Tranter R, Winter VJ, Sessions RB, Brady RL, Vivas L, Easton A, Kendrick H, Croft SL, Barros D, Lavandera JL, Martin JJ, Risco F, Garcia-Ochoa S, Gamo FJ, Sanz L, Leon L, Ruiz JR, Gabarro R, Mallo A, Gomez De Las Heras F, J Biol Chem 2004 Apr 26;. PMID:15117937
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (226 Kb) [Save to disk]
  • Biological Unit Coordinates (1t2f.pdb1.gz) 215 Kb
  • LPC: Ligand-Protein Contacts for 1T2F
  • CSU: Contacts of Structural Units for 1T2F
  • Likely Quarternary Molecular Structure file(s) for 1T2F
  • Structure Factors (210 Kb)
  • Retrieve 1T2F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1T2F from S2C, [Save to disk]
  • Re-refined 1t2f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1T2F 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 1T2F
  • 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 1T2F, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1t2fa1, region A:1-160 [Jmol] [rasmolscript] [script source]
        - Domain d1t2fa2, region A:161-332 [Jmol] [rasmolscript] [script source]
        - Domain d1t2fb1, region B:1-160 [Jmol] [rasmolscript] [script source]
        - Domain d1t2fb2, region B:161-332 [Jmol] [rasmolscript] [script source]
        - Domain d1t2fc1, region C:1-160 [Jmol] [rasmolscript] [script source]
        - Domain d1t2fc2, region C:161-332 [Jmol] [rasmolscript] [script source]
        - Domain d1t2fd1, region D:1-160 [Jmol] [rasmolscript] [script source]
        - Domain d1t2fd2, region D:161-332 [Jmol] [rasmolscript] [script source]
  • Fold representative 1t2f from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1t2f_C] [1t2f] [1t2f_D] [1t2f_B] [1t2f_A]
  • SWISS-PROT database: [P07195]
  • Domain organization of [LDHB_HUMAN] by SWISSPFAM
  • Other resources with information on 1T2F
  • Community annotation for 1T2F 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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