1D4O	Oxidoreductase	date	Oct 04, 1999
title	Crystal Structure Of Transhydrogenase Domain III At 1.2 Angs Resolution
authors	G.S.Prasad, V.Sridhar, M.Yamaguchi, Y.Hatefi, C.D.Stout
compound		source
Molecule: Nadp(H) Transhydrogenase Chain: A Fragment: Nadp(H) Binding Domain Ec: 1.6.1.1 Engineered: Yes		Organism_scientific: Bos Taurus Organism_common: Cattle Organism_taxid: 9913 Cellular_location: Mitochondria Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 1	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 33.660 36.730 38.490 68.36 87.99 74.80
method	X-Ray Diffraction	resolution	1.21 Å
ligand	NAP	enzyme	Oxidoreductase E.C.1.6.1.1 BRENDA
note	1D4O is a representative structure
related structures	by homologous chain: 1DJL
Primary reference	Crystal structure of transhydrogenase domain III at 1.2 A resolution., Prasad GS, Sridhar V, Yamaguchi M, Hatefi Y, Stout CD, Nat Struct Biol 1999 Dec;6(12):1126-31. PMID:10581554

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (36 Kb) [Save to disk] Biological Unit Coordinates (1d4o.pdb1.gz) 33 Kb LPC: Ligand-Protein Contacts for 1D4O CSU: Contacts of Structural Units for 1D4O Likely Quarternary Molecular Structure file(s) for 1D4O Structure Factors (148 Kb) Retrieve 1D4O in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1D4O from S2C, [Save to disk] Re-refined 1d4o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1D4O 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 1D4O

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1D4O from the CEP Server. Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1D4O, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1d4oa_, region A [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: [1d4o_A] [1d4o] SWISS-PROT database: [P11024] Belongs to the proton-translocating transhydrogenase (pth) family according to TCDB. Domain organization of [NNTM_BOVIN] by SWISSPFAM

Other resources with information on 1D4O

Community annotation for 1D4O at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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