1RDC Hydrolase(Endoribonuclease) date Jun 23, 1993
title Crystal Structures Of Ribonuclease Hi Active Site Mutants Fr Escherichia Coli
authors K.Katayanagi, K.Morikawa
compound source
Molecule: Ribonuclease H
Chain: A
Ec: 3.1.26.4
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
symmetry Space Group: P 21 21 21
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.010 86.420 35.950 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand
enzyme Hydrolase E.C.3.1.26.4 BRENDA
related structures by homologous chain: 1WSF, 1WSG
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structures of ribonuclease HI active site mutants from Escherichia coli., Katayanagi K, Ishikawa M, Okumura M, Ariyoshi M, Kanaya S, Kawano Y, Suzuki M, Tanaka I, Morikawa K, J Biol Chem 1993 Oct 15;268(29):22092-9. PMID:8408067
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk]
  • Biological Unit Coordinates (1rdc.pdb1.gz) 27 Kb
  • CSU: Contacts of Structural Units for 1RDC
  • Likely Quarternary Molecular Structure file(s) for 1RDC
  • Structure Factors (26 Kb)
  • Retrieve 1RDC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RDC from S2C, [Save to disk]
  • Re-refined 1rdc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1RDC 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 1RDC
  • 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
  • 3D motif for 1RDC, from MSDmotif at EBI
  • Genome occurence of 1RDC's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1rdc__, region [Jmol] [rasmolscript] [script source]
  • 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: [1rdc_A] [1rdc]
  • SWISS-PROT database: [P0A7Y4]
  • Domain organization of [RNH_ECOLI] by SWISSPFAM
  • Other resources with information on 1RDC
  • Community annotation for 1RDC 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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