2D59	Structural Genomics, Unknown Function	date	Oct 31, 2005
title	Hypothetical Protein From Pyrococcus Horikoshii Ot3
authors	T.B.Hiyama, S.Sekine, S.Yokoyama, Riken Structural Genomicspro Initiative (Rsgi)
compound		source
Molecule: Hypothetical Protein Ph1109 Chain: A Engineered: Yes		Organism_scientific: Pyrococcus Horikoshii Organism_taxid: 70601 Strain: Ot3 Gene: Ph1109 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid
symmetry	Space Group: P 31 2 1	R_factor 0.212 R_Free 0.239
crystal cell	length a length b length c angle alpha angle beta angle gamma 61.758 61.758 61.389 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.65 Å
Gene Ontology	Chain Function Process Component A
Primary reference	Structural basis of CoA recognition by the Pyrococcus single-domain CoA-binding proteins., Hiyama TB, Zhao M, Kitago Y, Yao M, Sekine S, Terada T, Kuroishi C, Liu ZJ, Rose JP, Kuramitsu S, Shirouzu M, Watanabe N, Yokoyama S, Tanaka I, Wang BC, J Struct Funct Genomics. 2006 Dec;7(3-4):119-29. Epub 2007 Mar 7. PMID:17342453

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (30 Kb) [Save to disk] Biological Unit Coordinates (2d59.pdb1.gz) 26 Kb CSU: Contacts of Structural Units for 2D59 Likely Quarternary Molecular Structure file(s) for 2D59 Structure Factors (125 Kb) Retrieve 2D59 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2D59 from S2C, [Save to disk] Re-refined 2d59 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2D59 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 2D59

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 2D59, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2d59] [2d59_A] SWISS-PROT database: [O58836] Domain organization of [O58836_PYRHO] by SWISSPFAM Domain found in 2D59: [CoA_binding ] by SMART

Other resources with information on 2D59

Community annotation for 2D59 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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