1YJF	Luminescent Protein	date	Jan 14, 2005
title	Cyclized Post-Translational Product For S65a Y66s (Gfphal) G Fluorescent Protein Variant
authors	D.P.Barondeau, C.J.Kassmann, J.A.Tainer, E.D.Getzoff
compound		source
Molecule: Green Fluorescent Protein Chain: A Engineered: Yes Mutation: Yes		Organism_scientific: Aequorea Victoria Organism_taxid: 6100 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Ril Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet11a
symmetry	Space Group: P 21 21 21	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 50.971 62.636 71.532 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.35 Å
ligand	MDO, MG	enzyme
related structures	by homologous chain: 1KYP, 1OXE
Gene Ontology	Chain Function Process Component A
Primary reference	Understanding GFP Chromophore Biosynthesis: Controlling Backbone Cyclization and Modifying Post-translational Chemistry(,)., Barondeau DP, Kassmann CJ, Tainer JA, Getzoff ED, Biochemistry 2005 Feb 15;44(6):1960-70. PMID:15697221

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (49 Kb) [Save to disk] Biological Unit Coordinates (1yjf.pdb1.gz) 45 Kb LPC: Ligand-Protein Contacts for 1YJF CSU: Contacts of Structural Units for 1YJF Likely Quarternary Molecular Structure file(s) for 1YJF Structure Factors (523 Kb) Retrieve 1YJF in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1YJF from S2C, [Save to disk] Re-refined 1yjf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1YJF 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 1YJF

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1YJF from the CEP Server. Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1YJF, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1yjf] [1yjf_A] SWISS-PROT database: [P42212] Domain organization of [GFP_AEQVI] by SWISSPFAM

Other resources with information on 1YJF

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

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