5VLR Transferase Transferase Regulator date Apr 26, 2017
title Crystal Structure Of Pi3k Delta In Complex With A Trifluoro- Pyrazol-Pyrolotriazine Inhibitor
authors J.S.Sack
compound source
Molecule: Phosphatidylinositol 4,5-Bisphosphate 3-Kinase Ca Subunit Delta Isoform;
Chain: A
Synonym: Ptdins-3-Kinase Subunit Delta,Phosphatidylinositol Bisphosphate 3-Kinase 110 Kda Catalytic Subunit Delta,P110d
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pik3cd
Expression_system: Unidentified Baculovirus
Expression_system_taxid: 10469

Molecule: Phosphatidylinositol 3-Kinase Regulatory Subunit
Chain: B
Synonym: Ptdins-3-Kinase Regulatory Subunit Alpha, Phosphatidylinositol 3-Kinase 85 Kda Regulatory Subunit Alp 3-Kinase Regulatory Subunit P85-Alpha;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pik3r1, Grb1
Expression_system: Unidentified Baculovirus
Expression_system_taxid: 10469
symmetry Space Group: P 21 21 21
R_factor 0.208 R_Free 0.279
length a length b length c angle alpha angle beta angle gamma
90.847 108.579 142.734 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand 9EM enzyme Transferase E.C. BRENDA

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (180 Kb) [Save to disk]
  • Biological Unit Coordinates (5vlr.pdb1.gz) 145 Kb
  • Biological Unit Coordinates (5vlr.pdb2.gz) 32 Kb
  • Biological Unit Coordinates (5vlr.pdb3.gz) 173 Kb
  • LPC: Ligand-Protein Contacts for 5VLR
  • CSU: Contacts of Structural Units for 5VLR
  • Structure Factors (532 Kb)
  • Retrieve 5VLR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5VLR from S2C, [Save to disk]
  • Re-refined 5vlr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5VLR 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 5VLR
  • 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
  • Fold representative 5vlr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5vlr_A] [5vlr_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5VLR
  • Community annotation for 5VLR at PDBWiki (http://pdbwiki.org)

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