4CFE Transferase date Nov 14, 2013
title Structure Of Full Length Human Ampk In Complex With A Small Activator, A Benzimidazole Derivative (991)
authors B.Xiao, M.J.Sanders, D.Carmena, N.J.Bright, L.F.Haire, E.Underwoo B.R.Patel, R.B.Heath, P.A.Walker, S.Hallen, F.Giordanetto, S.R.M D.Carling, S.J.Gamblin
compound source
Molecule: 5'-Amp-Activated Protein Kinase Catalytic Subunit
Chain: A, C
Synonym: Ampk Subunit Alpha-2, Acetyl-Coa Carboxylase Kinas Kinase, Hydroxymethylglutaryl-Coa Reductase Kinase, Hmgcr K
Ec: 2.7.11.1, 2.7.11.27, 2.7.11.31
Engineered: Yes
Other_details: A 172 Thr And C 172 Thr Are Phosphorylated.
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 Beta-1
Chain: B, D
Synonym: Ampk Subunit Beta-1, Ampkb
Engineered: Yes
Other_details: B 108 Ser And D 108 Ser Are Phosphorylated.

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, F
Synonym: Ampk Gamma1, Ampk Subunit Gamma-1, Ampkg
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.218 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
76.030 134.141 140.558 90.00 92.42 90.00
method X-Ray Diffractionresolution 3.02 Å
ligand 992, AMP, SEP, STU, TPO enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C
  • histone serine kinase activi...


  • D, B


    F, E
  • cAMP-dependent protein kinas...


  • Primary referenceStructural basis of AMPK regulation by small molecule activators., Xiao B, Sanders MJ, Carmena D, Bright NJ, Haire LF, Underwood E, Patel BR, Heath RB, Walker PA, Hallen S, Giordanetto F, Martin SR, Carling D, Gamblin SJ, Nat Commun. 2013 Dec 19;4:3017. doi: 10.1038/ncomms4017. PMID:24352254
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (634 Kb) [Save to disk]
  • Biological Unit Coordinates (4cfe.pdb1.gz) 307 Kb
  • Biological Unit Coordinates (4cfe.pdb2.gz) 316 Kb
  • LPC: Ligand-Protein Contacts for 4CFE
  • CSU: Contacts of Structural Units for 4CFE
  • Structure Factors (547 Kb)
  • Retrieve 4CFE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4CFE from S2C, [Save to disk]
  • Re-refined 4cfe structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4CFE 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 4CFE
  • 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 4CFE, from MSDmotif at EBI
  • Fold representative 4cfe from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4cfe] [4cfe_C] [4cfe_D] [4cfe_E] [4cfe_A] [4cfe_B] [4cfe_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4CFE: [AMPKBI] [CBS] [S_TKc ] by SMART
  • Other resources with information on 4CFE
  • Community annotation for 4CFE at PDBWiki (http://pdbwiki.org)

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