1GOY Hydrolase date Oct 26, 2001
title Hydrolase(Endoribonuclease)Ribonuclease Bi(G Specific Endonu (E.C.3.1.27.-) Complexed With Guanosine-3'-Phosphate (3'-Gm
authors K.M.Polyakov, A.A.Lebedev, A.G.Pavlovsky, R.G.Sanishvili, G.G.Do
compound source
Molecule: Ribonuclease
Chain: A, B
Synonym: Binase, G Specific Endonuclease
Ec: 3.1.27.3
Other_details: Ribonuclease Bi(G Specific Endonuclease) Com With Guanosine-3'-Phosphate (3'-Gmp)
Organism_scientific: Bacillus Intermedius
Organism_taxid: 1400
Other_details: Microorganism
symmetry Space Group: P 21 21 21
R_factor 0.184 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
111.380 69.560 33.460 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand 3GP, SO4 enzyme Hydrolase E.C.3.1.27.3 BRENDA
related structures by homologous chain: 1B21, 1BSE
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe structure of substrate-free microbial ribonuclease binase and of its complexes with 3'GMP and sulfate ions., Polyakov KM, Lebedev AA, Okorokov AL, Panov KI, Schulga AA, Pavlovsky AG, Karpeisky MY, Dodson GG, Acta Crystallogr D Biol Crystallogr 2002 May;58(Pt 5):744-50. PMID:11976484
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk]
  • Biological Unit Coordinates (1goy.pdb1.gz) 22 Kb
  • Biological Unit Coordinates (1goy.pdb2.gz) 21 Kb
  • LPC: Ligand-Protein Contacts for 1GOY
  • CSU: Contacts of Structural Units for 1GOY
  • Likely Quarternary Molecular Structure file(s) for 1GOY
  • Structure Factors (113 Kb)
  • Retrieve 1GOY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GOY from S2C, [Save to disk]
  • Re-refined 1goy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1GOY 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 1GOY
  • 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 1GOY, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1goya_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1goyb_, region B [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: [1goy_A] [1goy] [1goy_B]
  • SWISS-PROT database: [P00649]
  • Domain organization of [RN_BACIN] by SWISSPFAM
  • Other resources with information on 1GOY
  • Community annotation for 1GOY 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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