3HHN	Ligase Rna	date	May 15, 2009
title	Crystal Structure Of Class I Ligase Ribozyme Self-Ligation Product, In Complex With U1a Rbd
authors	D.M.Shechner, R.A.Grant, S.C.Bagby, D.P.Bartel
compound		source
Molecule: Class I Ligase Ribozyme, Self-Ligation Product Chain: C, E Engineered: Yes		Synthetic: Yes Other_details: Synthetic Construct Transcribed In Vitro Using T7 Rna Polymerase Off Of A Linearized Plasmid Puc307hp;
Molecule: U1 Small Nuclear Ribonucleoprotein A Chain: B, D Fragment: Rna Binding Domain: Unp Residues 1-100 Synonym: U1 Snrnp Protein A, U1a Protein, U1-A Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Snrpa Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Modified Pet11a
symmetry	Space Group: P 1	R_factor 0.202 R_Free 0.234
crystal cell	length a length b length c angle alpha angle beta angle gamma 59.561 70.412 70.906 100.29 99.61 103.89
method	X-Ray Diffraction	resolution	2.99 Å
ligand	A23, MG	enzyme
Gene Ontology	Chain Function Process Component D, 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	Crystal structure of the catalytic core of an RNA-polymerase ribozyme., Shechner DM, Grant RA, Bagby SC, Koldobskaya Y, Piccirilli JA, Bartel DP, Science. 2009 Nov 27;326(5957):1271-5. PMID:19965478

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (163 Kb) [Save to disk] Biological Unit Coordinates (3hhn.pdb1.gz) 154 Kb LPC: Ligand-Protein Contacts for 3HHN CSU: Contacts of Structural Units for 3HHN Structure Factors (148 Kb) Retrieve 3HHN in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3HHN from S2C, [Save to disk] Re-refined 3hhn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3HHN 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 3HHN

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 3HHN, from MSDmotif at EBI Fold representative 3hhn from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3hhn_B] [3hhn_C] [3hhn_D] [3hhn_E] SWISS-PROT database: [P09012] Domain organization of [SNRPA_HUMAN] by SWISSPFAM Domain found in 3HHN: [RRM ] by SMART Alignments of the sequence of 3HHN with the sequences similar proteins can be viewed for 3HHN's classification [SNRPA_HUMAN] 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 [SNRPA_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 3HHN

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

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