2Y8L Transferase date Feb 07, 2011
title Structure Of The Regulatory Fragment Of Mammalian Ampk In Co Two Adp
authors B.Xiao, M.J.Sanders, E.Underwood, R.Heath, F.Mayer, D.Carmena, C.J P.A.Walker, J.F.Eccleston, L.F.Haire, P.Saiu, S.A.Howell, R.Aasl S.R.Martin, D.Carling, S.J.Gamblin
compound source
Molecule: 5'-Amp-Activated Protein Kinase Catalytic Subunit
Chain: A
Fragment: Residues 407-555
Synonym: Ampk Subunit Alpha-1
Ec: 2.7.11.1
Engineered: Yes
Other_details: The Residues From A 393-395 And 545-550 Are As A Result Of Cloning Strategy.;
 Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: 5'-Amp-Activated Protein Kinase Subunit Beta-2
Chain: B
Fragment: Residues 187-272
Synonym: Ampk Subunit Beta-2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: 5'-Amp-Activated Protein Kinase Subunit Gamma-1
Chain: E
Fragment: Residues 1-330
Synonym: Ampk Gamma1, Ampk Subunit Gamma-1, Ampkg
Engineered: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.228 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.567 121.464 125.922 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand ADP, AMP enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


E


Primary referenceStructure of mammalian AMPK and its regulation by ADP., Xiao B, Sanders MJ, Underwood E, Heath R, Mayer FV, Carmena D, Jing C, Walker PA, Eccleston JF, Haire LF, Saiu P, Howell SA, Aasland R, Martin SR, Carling D, Gamblin SJ, Nature. 2011 Apr 14;472(7342):230-3. Epub 2011 Mar 13. PMID:21399626
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (177 Kb) [Save to disk]
  • Biological Unit Coordinates (2y8l.pdb1.gz) 169 Kb
  • LPC: Ligand-Protein Contacts for 2Y8L
  • CSU: Contacts of Structural Units for 2Y8L
  • Structure Factors (194 Kb)
  • Retrieve 2Y8L in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Y8L from S2C, [Save to disk]
  • Re-refined 2y8l structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2Y8L 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 2Y8L
  • 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 2Y8L, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2y8l_A] [2y8l] [2y8l_E] [2y8l_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 2Y8L: [AMPKBI] [CBS ] by SMART
    • Other resources with information on 2Y8L
  • Community annotation for 2Y8L at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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  • Images from IMB Jena Image Library of Biological Macromolecules.

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