1V1T Crystal structure of the PDZ tandem of human syntenin in complex with TNEYKV peptide date
authors Grembecka, J., Cierpicki, T., Devedjiev, Y., Cooper, D.R., Derewenda, U., Derewenda, Z.S.
compound source
symmetry
R_factor
R_Free 0.229
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.80
ligand BEZ enzyme
related structures by homologous chain: 1OBY, 1OBZ
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe binding of the PDZ tandem of syntenin to target proteins., Grembecka J, Cierpicki T, Devedjiev Y, Derewenda U, Kang BS, Bushweller JH, Derewenda ZS, Biochemistry. 2006 Mar 21;45(11):3674-83. PMID:16533050
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (122 Kb) [Save to disk]
  • Biological Unit Coordinates (1v1t.pdb1.gz) 117 Kb
  • LPC: Ligand-Protein Contacts for 1V1T
  • CSU: Contacts of Structural Units for 1V1T
  • Likely Quarternary Molecular Structure file(s) for 1V1T
  • Structure Factors (241 Kb)
  • Retrieve 1V1T in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1V1T from S2C, [Save to disk]
  • Re-refined 1v1t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1V1T 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 1V1T
  • 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 1V1T, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1v1t] [1v1t_S] [1v1t_B] [1v1t_A] [1v1t_T]
  • SWISS-PROT database: [O00560]
  • Belongs to the ezrin/radixin/moesin-binding phosphoprotein 50 (ebp50) family according to TCDB.
  • Domain organization of [SDCB1_HUMAN] by SWISSPFAM
  • Domain found in 1V1T: [PDZ ] by SMART
  • Other resources with information on 1V1T
  • Community annotation for 1V1T 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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