2H6D Signaling Protein,Transferase date May 31, 2006
title Protein Kinase Domain Of The Human 5'-Amp-Activated Protein Catalytic Subunit Alpha-2 (Ampk Alpha-2 Chain)
authors D.R.Littler, J.R.Walker, L.Wybenga-Groot, E.M.Newman, C.Butler-C F.Mackenzie, P.J.Finerty, J.Weigelt, M.Sundstrom, C.H.Arrowsmit A.M.Edwards, A.Bochkarev, S.Dhe-Paganon, Structural Genomics C (Sgc)
compound source
Molecule: 5'-Amp-Activated Protein Kinase Catalytic Subunit
Chain: A
Fragment: Kinase Domain
Synonym: Ampk Alpha-2 Chain
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Prkaa2, Ampk, Ampk2
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28-Lic
symmetry Space Group: P 1 21 1
R_factor 0.188 R_Free 0.227
length a length b length c angle alpha angle beta angle gamma
39.454 67.410 50.493 90.00 91.30 90.00
method X-Ray Diffractionresolution 1.85 Å
enzyme Transferase E.C. BRENDA

Primary referenceA conserved mechanism of autoinhibition for the AMPK kinase domain: ATP-binding site and catalytic loop refolding as a means of regulation., Littler DR, Walker JR, Davis T, Wybenga-Groot LE, Finerty PJ Jr, Newman E, Mackenzie F, Dhe-Paganon S, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Feb 1;66(Pt, 2):143-51. Epub 2010 Jan 27. PMID:20124709
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (97 Kb) [Save to disk]
  • Biological Unit Coordinates (2h6d.pdb1.gz) 89 Kb
  • CSU: Contacts of Structural Units for 2H6D
  • Likely Quarternary Molecular Structure file(s) for 2H6D
  • Structure Factors (360 Kb)
  • Retrieve 2H6D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2H6D from S2C, [Save to disk]
  • Re-refined 2h6d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2H6D 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 2H6D
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2H6D, from MSDmotif at EBI
  • Fold representative 2h6d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2h6d_A] [2h6d]
  • SWISS-PROT database: [P54646]
  • Domain organization of [AAPK2_HUMAN] by SWISSPFAM
  • Domain found in 2H6D: [S_TKc ] by SMART
  • Other resources with information on 2H6D
  • Community annotation for 2H6D 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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