4QUM Hydrolase date Jul 10, 2014
title Crystal Structure Of Ptpn3 (Ptph1) In Complex With A Dually Phosphorylated Mapk12 Peptide
authors K.E.Chen, T.C.Meng, A.H.J.Wang
compound source
Molecule: Tyrosine-Protein Phosphatase Non-Receptor Type 3
Chain: A
Fragment: Catalytic Domain (Unp Residues 628-909)
Synonym: Protein-Tyrosine Phosphatase H1, Ptp-H1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ptph1, Ptpn3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg7

Molecule: Mitogen-Activated Protein Kinase 12
Chain: B
Fragment: Activation Loop (Unp Residues 182-190)
Synonym: Map Kinase 12, Mapk 12, Extracellular Signal-Regul Kinase 6, Erk-6, Mitogen-Activated Protein Kinase P38 Gamma Kinase P38 Gamma, Stress-Activated Protein Kinase 3;
Engineered: Yes
Mutation: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 31 2 1
R_factor 0.197 R_Free 0.245
length a length b length c angle alpha angle beta angle gamma
75.491 75.491 109.605 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.52 Å
ligand PTR, TPO enzyme Hydrolase E.C. BRENDA

Primary referenceReciprocal allosteric regulation of p38gamma and PTPN3 involves a PDZ domain-modulated complex formation., Chen KE, Lin SY, Wu MJ, Ho MR, Santhanam A, Chou CC, Meng TC, Wang AH, Sci Signal. 2014 Oct 14;7(347):ra98. doi: 10.1126/scisignal.2005722. PMID:25314968
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (4qum.pdb1.gz) 48 Kb
  • LPC: Ligand-Protein Contacts for 4QUM
  • CSU: Contacts of Structural Units for 4QUM
  • Structure Factors (387 Kb)
  • Retrieve 4QUM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4QUM from S2C, [Save to disk]
  • Re-refined 4qum structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4QUM 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 4QUM
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4QUM, from MSDmotif at EBI
  • Fold representative 4qum from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4qum] [4qum_A] [4qum_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4QUM: [PTPc ] by SMART
  • Other resources with information on 4QUM
  • Community annotation for 4QUM at PDBWiki (http://pdbwiki.org)

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