2VGF	Transferase	date	Nov 12, 2007
title	Human Erythrocyte Pyruvate Kinase: T384m Mutant
authors	G.Valentini, L.R.Chiarelli, R.Fortin, M.Dolzan, A.Galizzi, D.J.Ab C.Wang, P.Bianchi, A.Zanella, A.Mattevi
compound		source
Molecule: Pyruvate Kinase Isozymes Rl Chain: A, B, C, D Fragment: Residues 47-574 Synonym: R-Typel-Type Pyruvate Kinase, Red Cellliver Pyru Kinase, Pyruvate Kinase 1, Pyruvate Kinase; Ec: 2.7.1.40 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 511693 Expression_system_strain: Bl21
symmetry	Space Group: P 1 21 1	R_factor 0.268 R_Free 0.303
crystal cell	length a length b length c angle alpha angle beta angle gamma 76.296 172.976 85.779 90.00 93.12 90.00
method	X-Ray Diffraction	resolution	2.75 Å
ligand	FBP, K, MN, PGA	enzyme	Transferase E.C.2.7.1.40 BRENDA
note	2VGF supersedes 1LIW
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Structure and function of human erythrocyte pyruvate kinase. Molecular basis of nonspherocytic hemolytic anemia., Valentini G, Chiarelli LR, Fortin R, Dolzan M, Galizzi A, Abraham DJ, Wang C, Bianchi P, Zanella A, Mattevi A, J Biol Chem. 2002 Jun 28;277(26):23807-14. Epub 2002 Apr 17. PMID:11960989

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (307 Kb) [Save to disk] Biological Unit Coordinates (2vgf.pdb1.gz) 296 Kb LPC: Ligand-Protein Contacts for 2VGF CSU: Contacts of Structural Units for 2VGF Likely Quarternary Molecular Structure file(s) for 2VGF Structure Factors (408 Kb) Retrieve 2VGF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2VGF from S2C, [Save to disk] Re-refined 2vgf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2VGF 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 2VGF

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 2VGF, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2vgf_D] [2vgf] [2vgf_C] [2vgf_B] [2vgf_A] SWISS-PROT database: [P30613] Domain organization of [KPYR_HUMAN] by SWISSPFAM

Other resources with information on 2VGF

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

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