2DIK	Transferase	date	Sep 03, 1998
title	R337a Mutant Of Pyruvate Phosphate Dikinase
authors	K.Huang, O.Herzberg
compound		source
Molecule: Protein (Pyruvate Phosphate Dikinase) Chain: A Synonym: Ppdk Ec: 2.7.9.1 Engineered: Yes Mutation: Yes		Organism_scientific: Clostridium Symbiosum Organism_taxid: 1512 Strain: Jm 101 Gene: Ppdk Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Jm 101 Expression_system_plasmid: Pacyc184d-12 Expression_system_gene: Ppdk
symmetry	Space Group: P 1 2 1	R_factor 0.185 R_Free NULL
crystal cell	length a length b length c angle alpha angle beta angle gamma 89.800 58.800 102.000 90.00 94.80 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	SO4	enzyme	Transferase E.C.2.7.9.1 BRENDA
note	2DIK supersedes 1BUK
related structures	by homologous chain: 1DIK, 1GGO
Gene Ontology	Chain Function Process Component A
Primary reference	Location of the phosphate binding site within Clostridium symbiosum pyruvate phosphate dikinase., McGuire M, Huang K, Kapadia G, Herzberg O, Dunaway-Mariano D, Biochemistry 1998 Sep 29;37(39):13463-74. PMID:9753432

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (141 Kb) [Save to disk] Biological Unit Coordinates (2dik.pdb1.gz) 266 Kb Biological Unit Coordinates (2dik.pdb2.gz) 266 Kb LPC: Ligand-Protein Contacts for 2DIK CSU: Contacts of Structural Units for 2DIK Likely Quarternary Molecular Structure file(s) for 2DIK Retrieve 2DIK in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2DIK from S2C, [Save to disk]

View 2DIK 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 2DIK

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2DIK, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d2dika3, region A:2-376 [Jmol] [rasmolscript] [script source]     - Domain d2dika2, region A:377-505 [Jmol] [rasmolscript] [script source]     - Domain d2dika1, region A:510-874 [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: [2dik] [2dik_A] SWISS-PROT database: [P22983] Domain organization of [PPDK_CLOSY] by SWISSPFAM

Other resources with information on 2DIK

Community annotation for 2DIK 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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