3P49	Rna Binding Protein Rna	date	Oct 06, 2010
title	Crystal Structure Of A Glycine Riboswitch From Fusobacterium
authors	E.B.Butler, J.Wang, Y.Xiong, S.Strobel
compound		source
Molecule: Glycine Riboswitch Chain: A Engineered: Yes		Synthetic: Yes Other_details: In Vitro Synthesis From A Plasmid Dna With T Polymerase;
Molecule: U1 Small Nuclear Ribonucleoprotein A Chain: B Fragment: Rna Binding Domain (Unp Residues 1-98) Synonym: U1 Snrnp A, U1-A, U1a Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Snrpa Expression_system: Escherichia Coli Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet11
symmetry	Space Group: P 21 21 21	R_factor 0.282 R_Free 0.310
crystal cell	length a length b length c angle alpha angle beta angle gamma 54.580 104.617 156.509 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.55 Å
ligand	GLY, MG	enzyme
Gene Ontology	Chain Function Process Component B nucleotide binding nucleic acid binding RNA binding protein binding snRNA binding mRNA splicing, via spliceoso... mRNA processing RNA splicing gene expression nucleus nucleoplasm spliceosomal complex ribonucleoprotein complex
Primary reference	Structural basis of cooperative ligand binding by the glycine riboswitch., Butler EB, Xiong Y, Wang J, Strobel SA, Chem Biol. 2011 Mar 25;18(3):293-8. PMID:21439473

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (197 Kb) [Save to disk] Biological Unit Coordinates (3p49.pdb1.gz) 191 Kb Biological Unit Coordinates (3p49.pdb2.gz) 159 Kb Biological Unit Coordinates (3p49.pdb3.gz) 34 Kb LPC: Ligand-Protein Contacts for 3P49 CSU: Contacts of Structural Units for 3P49 Structure Factors (225 Kb) Retrieve 3P49 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3P49 from S2C, [Save to disk] Re-refined 3p49 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3P49 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 3P49

Cartoon representation from PDB Cartoon 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 Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 3P49, from MSDmotif at EBI Fold representative 3p49 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3p49_A] [3p49_B] SWISS-PROT database: Domain organization of by SWISSPFAM Alignments of the sequence of 3P49 with the sequences similar proteins can be viewed for 3P49's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.

Other resources with information on 3P49

Community annotation for 3P49 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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