1NZL Transferase date Feb 18, 2003
title Crystal Structure Of Src Sh2 Domain Bound To Doubly Phosphor Peptide Pqpyepyipi
authors O.Y.Lubman, G.Waksman
compound source
Molecule: Tyrosine-Protein Kinase Transforming Protein Src
Chain: A, B
Fragment: Sh2 Domain
Synonym: P60-Src
Engineered: Yes
Organism_scientific: Rous Sarcoma Virus (Strain Schmidt-Rup
Organism_taxid: 11889
Strain: Schmidt-Ruppin
Gene: V-Src
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3

Molecule: Doubly Phosphorylated Peptide Ligand (Pqpyepyipi)
Chain: C
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 21 21 2
R_factor 0.223 R_Free 0.265
length a length b length c angle alpha angle beta angle gamma
100.321 68.455 29.732 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand CL, PG4, PTR BindingDB enzyme Transferase E.C. BRENDA
related structures by homologous chain: 1IS0, 1O4P
Primary referenceStructural and thermodynamic basis for the interaction of the Src SH2 domain with the activated form of the PDGF beta-receptor., Lubman OY, Waksman G, J Mol Biol 2003 May 2;328(3):655-68. PMID:12706723
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (42 Kb) [Save to disk]
  • Biological Unit Coordinates (1nzl.pdb1.gz) 19 Kb
  • Biological Unit Coordinates (1nzl.pdb2.gz) 20 Kb
  • LPC: Ligand-Protein Contacts for 1NZL
  • CSU: Contacts of Structural Units for 1NZL
  • Likely Quarternary Molecular Structure file(s) for 1NZL
  • Structure Factors (250 Kb)
  • Retrieve 1NZL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NZL from S2C, [Save to disk]
  • Re-refined 1nzl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1NZL 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 1NZL
  • 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
  • 3D motif for 1NZL, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nzla_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1nzlb_, region B [Jmol] [rasmolscript] [script source]
  • 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: [1nzl_C] [1nzl_B] [1nzl] [1nzl_A]
  • SWISS-PROT database: [P00524]
  • Domain organization of [SRC_RSVSA] by SWISSPFAM
  • Domain found in 1NZL: [SH2 ] by SMART
  • Other resources with information on 1NZL
  • Community annotation for 1NZL 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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