420D Rna date Aug 13, 1998
title Crystal Structure Of A 16-Mer Rna Duplex With Non-Adjacent A(Anti).G(Syn) Mismatches
authors B.Pan, S.N.Mitra, M.Sundaralingam
compound source
Molecule: Rna (5'- R(Gpcpapgpapgpupupapapapupcpupgpc)-3');
Chain: A, B
Engineered: Yes
Synthetic: Yes
symmetry Space Group: H 3
R_factor 0.197 R_Free 0.296
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.530 42.530 128.060 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.90 Å
ligand NA enzyme
Primary referenceCrystal structure of an RNA 16-mer duplex R(GCAGAGUUAAAUCUGC)2 with nonadjacent G(syn).A+(anti) mispairs., Pan B, Mitra SN, Sundaralingam M, Biochemistry 1999 Mar 2;38(9):2826-31. PMID:10052954
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (18 Kb) [Save to disk]
  • Biological Unit Coordinates (420d.pdb1.gz) 15 Kb
  • LPC: Ligand-Protein Contacts for 420D
  • CSU: Contacts of Structural Units for 420D
  • Likely Quarternary Molecular Structure file(s) for 420D
  • Retrieve 420D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 420D from S2C, [Save to disk]
  • View 420D 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 420D
  • 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 420D, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Fold representative 420d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [420d] [420d_B] [420d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 420D
  • Community annotation for 420D 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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