1DKM	Hydrolase	date	Dec 08, 1999
title	Crystal Structure Of Escherichia Coli Phytase At Ph 6.6 With Cation Acting As An Intermolecular Bridge
authors	D.Lim, S.Golovan, C.W.Forsberg, Z.Jia
compound		source
Molecule: Phytase Chain: A Synonym: Ph 2.5 Acid Phosphatase Ec: 3.1.3.2 Engineered: Yes Mutation: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_plasmid: Pet21a
symmetry	Space Group: P 21 21 21	R_factor 0.225 R_Free 0.266
crystal cell	length a length b length c angle alpha angle beta angle gamma 71.026 74.543 89.359 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.25 Å
ligand	HG	enzyme	Hydrolase E.C.3.1.3.2 BRENDA
related structures	by homologous chain: 1DKP, 1DKQ
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structures of Escherichia coli phytase and its complex with phytate., Lim D, Golovan S, Forsberg CW, Jia Z, Nat Struct Biol 2000 Feb;7(2):108-13. PMID:10655611

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (71 Kb) [Save to disk] Biological Unit Coordinates (1dkm.pdb1.gz) 66 Kb LPC: Ligand-Protein Contacts for 1DKM CSU: Contacts of Structural Units for 1DKM Likely Quarternary Molecular Structure file(s) for 1DKM Structure Factors (307 Kb) Retrieve 1DKM in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1DKM from S2C, [Save to disk] Re-refined 1dkm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1DKM 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 1DKM

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 1DKM, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1dkma_, region A [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1dkm_A] [1dkm] SWISS-PROT database: [P07102] Domain organization of [PPA_ECOLI] by SWISSPFAM

Other resources with information on 1DKM

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

Movements, Movies and Images

Domain movements in 1DKM from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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