3R1H	Rna Binding Protein Rna	date	Mar 10, 2011
title	Crystal Structure Of The Class I Ligase Ribozyme-Substrate P Complex, C47u Mutant, Ca2+ Bound
authors	D.M.Shechner, D.P.Bartel
compound		source
Molecule: U1 Small Nuclear Ribonucleoprotein A Chain: A, D Fragment: Rna Binding Domain (Unp Residues 1-98) Synonym: U1a, U1 Snrnp A, 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: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: P11u1adb
Molecule: 5'-R(Upcpcpapgpupa)-3' Chain: B, E Engineered: Yes Other_details: Ligase Substrate		Synthetic: Yes
Molecule: Class I Ligase Ribozyme Chain: C, F Engineered: Yes Mutation: Yes Other_details: Unligated C47u Mutant		Synthetic: Yes Other_details: Rna Was Prepared By In Vitro Transcription W Rna Polymerase From Linearized Plasmid P307hu_c47u
symmetry	Space Group: P 1	R_factor 0.212 R_Free 0.255
crystal cell	length a length b length c angle alpha angle beta angle gamma 58.690 70.011 71.858 99.85 99.74 103.65
method	X-Ray Diffraction	resolution	3.15 Å
ligand	A23, CA, GTP	enzyme
Gene Ontology	Chain Function Process Component A, D 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	The structural basis of RNA-catalyzed RNA polymerization., Shechner DM, Bartel DP, Nat Struct Mol Biol. 2011 Aug 21;18(9):1036-42. doi: 10.1038/nsmb.2107. PMID:21857665

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (157 Kb) [Save to disk] Biological Unit Coordinates (3r1h.pdb1.gz) 76 Kb Biological Unit Coordinates (3r1h.pdb2.gz) 76 Kb LPC: Ligand-Protein Contacts for 3R1H CSU: Contacts of Structural Units for 3R1H Structure Factors (135 Kb) Retrieve 3R1H in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3R1H from S2C, [Save to disk] Re-refined 3r1h structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3R1H 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 3R1H

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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 3R1H, from MSDmotif at EBI Fold representative 3r1h from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3r1h_A] [3r1h_B] [3r1h_C] [3r1h_D] [3r1h_E] [3r1h_F] SWISS-PROT database: Domain organization of by SWISSPFAM Alignments of the sequence of 3R1H with the sequences similar proteins can be viewed for 3R1H'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 3R1H

Community annotation for 3R1H at PDBWiki (http://pdbwiki.org)

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