1YQN	Lyase	date	Feb 02, 2005
title	E. Coli Ispf Double Mutant
authors	T.Sgraja, L.E.Kemp, N.Ramsden, W.N.Hunter
compound		source
Molecule: 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synt Chain: A Synonym: Cytidine 5-Diphosphate, Mecps, Mecdp-Synthase Ec: 4.6.1.12 Engineered: Yes Mutation: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Gene: Ispf Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet15b
symmetry	Space Group: I 21 3	R_factor 0.188 R_Free 0.209
crystal cell	length a length b length c angle alpha angle beta angle gamma 143.778 143.778 143.778 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.11 Å
ligand	CDP, GPP, MN, ZN	enzyme	Lyase E.C.4.6.1.12 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	A double mutation of Escherichia coli2C-methyl-D-erythritol-2,4-cyclodiphosphate synthase disrupts six hydrogen bonds with, yet fails to prevent binding of, an isoprenoid diphosphate., Sgraja T, Kemp LE, Ramsden N, Hunter WN, Acta Crystallograph Sect F Struct Biol Cryst Commun. 2005 Jul 1;61(Pt, 7):625-9. Epub 2005 Jun 30. PMID:16511114

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk] Biological Unit Coordinates (1yqn.pdb1.gz) 75 Kb LPC: Ligand-Protein Contacts for 1YQN CSU: Contacts of Structural Units for 1YQN Likely Quarternary Molecular Structure file(s) for 1YQN Structure Factors (74 Kb) Retrieve 1YQN in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YQN from S2C, [Save to disk] Re-refined 1yqn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1YQN 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 1YQN

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 1YQN, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1yqn_A] [1yqn] SWISS-PROT database: [P62617] Domain organization of [ISPF_ECOLI] by SWISSPFAM

Other resources with information on 1YQN

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

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