6DM4 Protein Binding date Jun 04, 2018
title Crystal Structure Of The Sh2 Domain From Ravo (Lpg1129) From Legionella Pneumophila In Complex With Homo Sapiens Shc1 Ph Tyr317 Peptide
authors P.J.Stogios, E.Evdokimova, R.Di Leo, T.Kaneko, S.Li, A.Savchenko, Center For Structural Genomics (Mcsg)
compound source
Molecule: Ravo
Chain: A, B, C, D
Engineered: Yes
 Organism_scientific: Legionella Pneumophila Subsp. Pneumoph (Strain Philadelphia 1 Atcc 33152 Dsm 7513);
Organism_taxid: 272624
Strain: Philadelphia 1 Atcc 33152 Dsm 7513
Gene: Lpg1129
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21-Codonplus(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg53

Molecule: Shc1 Phospho-Tyr317 Peptide
Chain: E, G, H
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1
R_factor 0.183 R_Free 0.230
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.454 45.035 74.748 72.60 90.14 77.55
method X-Ray Diffractionresolution 1.90 Å
ligand PTR, SO4 enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (191 Kb) [Save to disk]
  • Biological Unit Coordinates (6dm4.pdb1.gz) 93 Kb
  • Biological Unit Coordinates (6dm4.pdb2.gz) 92 Kb
  • LPC: Ligand-Protein Contacts for 6DM4
  • CSU: Contacts of Structural Units for 6DM4
  • Structure Factors (344 Kb)
  • Retrieve 6DM4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DM4 from S2C, [Save to disk]
    • View 6DM4 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 6DM4
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6dm4_G] [6dm4_A] [6dm4_B] [6dm4_H] [6dm4_D] [6dm4_C] [6dm4_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6DM4
  • Community annotation for 6DM4 at PDBWiki (http://pdbwiki.org)

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