1U6B	Structural Protein Rna	date	Jul 29, 2004
title	Crystal Structure Of A Self-Splicing Group I Intron With Bot
authors	P.L.Adams, M.R.Stahley, A.B.Kosek, J.Wang, S.A.Strobel
compound		source
Molecule: 197-Mer Chain: B Fragment: Group I Intron Engineered: Yes		Synthetic: Yes Other_details: Rna Was Is Transcribed By T7 Rna Polymerase.
Molecule: 5'-R(Apapgpcpcpapcpapcpapapapcpcpa Gp Gpcpc)-3'; Chain: C Fragment: Group I Exon Engineered: Yes		Synthetic: Yes
Molecule: 5'-R(Cpap(5mu))-3' Chain: D Engineered: Yes		Synthetic: Yes
Molecule: U1 Small Nuclear Ribonucleoprotein A Chain: A 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_vector_type: Plasmid Expression_system_plasmid: Pet11
symmetry	Space Group: P 41 2 2	R_factor 0.246 R_Free 0.279
crystal cell	length a length b length c angle alpha angle beta angle gamma 108.541 108.541 249.158 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.10 Å
ligand	5MU, A23, GTP, K, MG	enzyme
note	1U6B (Molecule of the Month:pdb65)supersedes 1T42
Gene Ontology	Chain Function Process Component A 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 a self-splicing group I intron with both exons., Adams PL, Stahley MR, Kosek AB, Wang J, Strobel SA, Nature 2004 Jul 1;430(6995):45-50. Epub 2004 Jun 2. PMID:15175762

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (122 Kb) [Save to disk] Biological Unit Coordinates (1u6b.pdb1.gz) 114 Kb LPC: Ligand-Protein Contacts for 1U6B CSU: Contacts of Structural Units for 1U6B Likely Quarternary Molecular Structure file(s) for 1U6B Structure Factors (199 Kb) Retrieve 1U6B in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1U6B from S2C, [Save to disk] Re-refined 1u6b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1U6B 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 1U6B

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 1U6B, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1u6ba_, region A [Jmol] [rasmolscript] [script source] Fold representative 1u6b from FSSP and Dali (Families of Structurally Similar Proteins) Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1u6b_A] [1u6b_B] [1u6b_C] [1u6b_D] SWISS-PROT database: [P09012] Domain organization of [SNRPA_HUMAN] by SWISSPFAM Domain found in 1U6B: [RRM ] by SMART Alignments of the sequence of 1U6B with the sequences similar proteins can be viewed for 1U6B'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 1U6B

Community annotation for 1U6B at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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