3IIN Rna Binding Protein Dna Rna date Aug 02, 2009
title Plasticity Of The Kink Turn Structural Motif
authors S.V.Lipchock, S.A.Strobel, A.H.Antonioli, J.C.Cochrane
compound source
Molecule: U1 Small Nuclear Ribonucleoprotein A
Chain: A
Fragment: Unp Residues 4-98, Rrm 1, U1 Small Nuclear Ribonucleoprotein A Rna Binding Domain;
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

Molecule: Group I Intron
Chain: B
Engineered: Yes

Synthetic: Yes

Molecule: Dnarna (5'- R(Apapgpcpcpapcpapcpapgpapcpc)-D(Papgpa)- R(Pcpgpgpcpc)-3');
Chain: C
Engineered: Yes
Mutation: Yes
Other_details: Group I Intron P9-3' Exon

Synthetic: Yes

Molecule: Dnarna (5'-R(Cpa)-D(Pt)-3')
Chain: D
Engineered: Yes
Other_details: 5' Exon

Synthetic: Yes
symmetry Space Group: P 41 2 2
R_factor 0.290 R_Free 0.323
crystal
cell
length a length b length c angle alpha angle beta angle gamma
109.826 109.826 250.218 90.00 90.00 90.00
method X-Ray Diffractionresolution 4.18 Å
ligand A23, GTP, K, MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referencePlasticity of the RNA kink turn structural motif., Antonioli AH, Cochrane JC, Lipchock SV, Strobel SA, RNA. 2010 Feb 9. PMID:20145044
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (116 Kb) [Save to disk]
  • Biological Unit Coordinates (3iin.pdb1.gz) 110 Kb
  • LPC: Ligand-Protein Contacts for 3IIN
  • CSU: Contacts of Structural Units for 3IIN
  • Structure Factors (88 Kb)
  • Retrieve 3IIN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IIN from S2C, [Save to disk]
  • Re-refined 3iin structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3IIN 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 3IIN
  • 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 3IIN, from MSDmotif at EBI
  • Fold representative 3iin from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3iin_D] [3iin_C] [3iin_A] [3iin] [3iin_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3IIN with the sequences similar proteins can be viewed for 3IIN'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 3IIN
  • Community annotation for 3IIN at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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