1H1W Transferase date Jul 23, 2002
title High Resolution Crystal Structure Of The Human Pdk1 Catalytic Domain
authors R.M.Biondi, D.Komander, C.C.Thomas, J.M.Lizcano, M.Deak, D.R.Alessi, D.M.F.Van Aalten
compound source
Molecule: 3-Phosphoinositide Dependent Protein Kinase-1
Chain: A
Fragment: Kinase Catalytic Domain, Residues 71-359
Synonym: Hpdk1
Ec: 2.7.11.1
Engineered: Yes
Other_details: Activation Loop Phosphorylation (Ser241)
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_strain: Sf21
Expression_system_vector_type: Baculovirus
symmetry Space Group: P 32 2 1
R_factor 0.196 R_Free 0.223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
123.013 123.013 47.624 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
ligand ATP, GOL, SEP, SO4 enzyme Transferase E.C.2.7.11.1 BRENDA
related structures by homologous chain: 1Z5M, 2BIY
Primary referenceHigh resolution crystal structure of the human PDK1 catalytic domain defines the regulatory phosphopeptide docking site., Biondi RM, Komander D, Thomas CC, Lizcano JM, Deak M, Alessi DR, van Aalten DM, EMBO J. 2002 Aug 15;21(16):4219-28. PMID:12169624
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (59 Kb) [Save to disk]
  • Biological Unit Coordinates (1h1w.pdb1.gz) 107 Kb
  • LPC: Ligand-Protein Contacts for 1H1W
  • CSU: Contacts of Structural Units for 1H1W
  • Likely Quarternary Molecular Structure file(s) for 1H1W
  • Structure Factors (209 Kb)
  • Retrieve 1H1W in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1H1W from S2C, [Save to disk]
  • Re-refined 1h1w structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1H1W 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 1H1W
  • 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 1H1W, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1h1wa_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1h1w from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1h1w_A] [1h1w]
  • SWISS-PROT database: [O15530]
  • Domain organization of [PDPK1_HUMAN] by SWISSPFAM
  • Domain found in 1H1W: [S_TKc ] by SMART
  • Other resources with information on 1H1W
  • Community annotation for 1H1W 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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