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 Diffraction	resolution	3.00 Å
ligand	NAD, OXQ BindingDB	enzyme	Oxidoreductase E.C.1.1.1.27 BRENDA
related structures	by homologous chain: 2LDX
Gene Ontology	Chain Function Process Component A, D, C, B lactate dehydrogenase activi... L-lactate dehydrogenase acti... oxidoreductase activity kinase binding identical protein binding NAD binding lactate metabolic process pyruvate metabolic process glycolysis NAD metabolic process small molecule metabolic pro... oxidation-reduction process cytoplasm mitochondrion cytosol
Primary reference	Identification 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 (214 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 1T2F

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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_A] [1t2f_B] [1t2f_C] [1t2f_D] SWISS-PROT database: [P07195] Domain organization of [LDHB_HUMAN] by SWISSPFAM Alignments of the sequence of 1T2F with the sequences similar proteins can be viewed for 1T2F's classification [LDHB_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [LDHB_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 1T2F

Community annotation for 1T2F at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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