1K06 Transferase date Sep 18, 2001
title Crystallographic Binding Study Of 100 Mm N-Benzoyl-N'-Beta-D Glucopyranosyl Urea To Glycogen Phosphorylase B
authors N.G.Oikonomakos, M.Kosmopoulou, S.E.Zographos, D.D.Leonidas, E.D.Chrysina, L.Somsak, V.Nagy, J.P.Praly, T.Docsa, B.Toth, P.Ger
compound source
Molecule: Glycogen Phosphorylase
Chain: A
Synonym: Myophosphorylase
Ec: 2.4.1.1
Organism_scientific: Oryctolagus Cuniculus
Organism_common: Rabbit
Organism_taxid: 9986
Tissue: Muscle
symmetry Space Group: P 43 21 2
R_factor 0.215 R_Free 0.246
crystal
cell
length a length b length c angle alpha angle beta angle gamma
128.653 128.653 116.750 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand BZD, PLP BindingDB enzyme Transferase E.C.2.4.1.1 BRENDA
related structures by homologous chain: 1A8I, 1XC7
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceBinding of N-acetyl-N '-beta-D-glucopyranosyl urea and N-benzoyl-N '-beta-D-glucopyranosyl urea to glycogen phosphorylase b: kinetic and crystallographic studies., Oikonomakos NG, Kosmopoulou M, Zographos SE, Leonidas DD, Chrysina ED, Somsak L, Nagy V, Praly JP, Docsa T, Toth B, Gergely P, Eur J Biochem 2002 Mar;269(6):1684-96. PMID:11895439
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (142 Kb) [Save to disk]
  • Biological Unit Coordinates (1k06.pdb1.gz) 271 Kb
  • LPC: Ligand-Protein Contacts for 1K06
  • CSU: Contacts of Structural Units for 1K06
  • Likely Quarternary Molecular Structure file(s) for 1K06
  • Retrieve 1K06 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1K06 from S2C, [Save to disk]
  • View 1K06 in 3D
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  • Visual 3D analysis of 1K06
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1K06, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1k06a_, region A [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: [1k06_A] [1k06]
  • SWISS-PROT database: [P00489]
  • Domain organization of [PYGM_RABIT] by SWISSPFAM
  • Other resources with information on 1K06
  • Community annotation for 1K06 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
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