1YGR Hydrolase date Jan 05, 2005
title Crystal Structure Of The Tandem Phosphatase Domain Of Rptp C
authors H.J.Nam, F.Poy, H.Saito, C.A.Frederick
compound source
Molecule: Cd45 Protein Tyrosine Phosphatase
Chain: A, B
Fragment: Cytoplasmic Domain
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11

Molecule: T-Cell Receptor Cd3 Zeta Itam-1
Chain: C, D
Fragment: Itam-1 (Residues 80-85; Sws:P20963)
Engineered: Yes

Synthetic: Yes
Other_details: This Sequence Occurs Naturally In Humans.
symmetry Space Group: P 1 21 1
R_factor 0.255 R_Free 0.312
length a length b length c angle alpha angle beta angle gamma
86.010 59.700 160.530 90.00 99.53 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand MSE, PTR enzyme
related structures by homologous chain: 1YGU
A, B

Primary referenceStructural basis for the function and regulation of the receptor protein tyrosine phosphatase CD45., Nam HJ, Poy F, Saito H, Frederick CA, J Exp Med 2005 Feb 7;201(3):441-52. Epub 2005 Jan 31. PMID:15684325
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (199 Kb) [Save to disk]
  • Biological Unit Coordinates (1ygr.pdb1.gz) 98 Kb
  • Biological Unit Coordinates (1ygr.pdb2.gz) 97 Kb
  • LPC: Ligand-Protein Contacts for 1YGR
  • CSU: Contacts of Structural Units for 1YGR
  • Likely Quarternary Molecular Structure file(s) for 1YGR
  • Retrieve 1YGR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YGR from S2C, [Save to disk]
  • View 1YGR 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 1YGR
  • 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 1YGR, from MSDmotif at EBI
  • Fold representative 1ygr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ygr_D] [1ygr_C] [1ygr_A] [1ygr_B] [1ygr]
  • SWISS-PROT database: [P20963] [P08575]
  • Domain organization of [CD3Z_HUMAN] [PTPRC_HUMAN] by SWISSPFAM
  • Domain found in 1YGR: [PTPc ] by SMART
  • Other resources with information on 1YGR
  • Community annotation for 1YGR 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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