1DZ5 Ribonucleoprotein Rna date Feb 16, 2000
title The Nmr Structure Of The 38kda U1a Protein-Pie Rna Complex Reveals The Basis Of Cooperativity In Regulation Of Polyadenylation By Human U1a Protein
authors L.Varani, S.I.Gunderson, I.W.Mattaj, L.E.Kay, D.Neuhaus, G.Varani
compound source
Molecule: U1 Small Nuclear Ribonucleoprotein A
Chain: A, B
Fragment: Residues 2-102
Synonym: U1 Snrnp A, U1-A, U1a
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet13a

Molecule: Pie, Rna (5'-R(Gpapgpapcpapupupgpcpap Cpgpgpapgpupcpupc)-3');
Chain: C, D
Fragment: 3' Utr Polyadenylation Inhibition Element
Mutation: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Produced By In Vitro Transcription
methodSolution NMR
related structures by homologous chain: 1AUD, 1FHT
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe NMR structure of the 38 kDa U1A protein - PIE RNA complex reveals the basis of cooperativity in regulation of polyadenylation by human U1A protein., Varani L, Gunderson SI, Mattaj IW, Kay LE, Neuhaus D, Varani G, Nat Struct Biol 2000 Apr;7(4):329-35. PMID:10742179
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1035 Kb) [Save to disk]
  • Biological Unit Coordinates (1dz5.pdb1.gz) 80 Kb
  • CSU: Contacts of Structural Units for 1DZ5
  • Original NMR restraints for 1DZ5 from PDB
  • Retrieve 1DZ5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DZ5 from S2C, [Save to disk]
  • View 1DZ5 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 1DZ5
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1DZ5, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dz5a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1dz5b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1dz5 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: [1dz5] [1dz5_D] [1dz5_B] [1dz5_C] [1dz5_A]
  • SWISS-PROT database: [P09012]
  • Domain organization of [SNRPA_HUMAN] by SWISSPFAM
  • Domain found in 1DZ5: [RRM ] by SMART
  • Alignments of the sequence of 1DZ5 with the sequences similar proteins can be viewed for 1DZ5'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 1DZ5
  • Community annotation for 1DZ5 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1DZ5 from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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