6DMY Protein Binding date Jun 05, 2018
title Cryo-Em Structure Of Human Ptch1 And Shhn Complex
authors N.Yan, X.Gong, H.W.Qian
compound source
Molecule: Protein Patched Homolog 1
Chain: A
Synonym: Ptc1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ptch1, Ptch
Expression_system: Homo Sapiens
Expression_system_taxid: 9606

Molecule: Sonic Hedgehog Protein
Chain: B
Synonym: Shh,Hhg-1,Shh Unprocessed N-Terminal Signaling And Terminal Autoprocessing Domains,Shhnc;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Shh
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768
symmetry Space Group: P 1
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.60 Å


Primary referenceStructural basis for the recognition of Sonic Hedgehog by human Patched1., Gong X, Qian H, Cao P, Zhao X, Zhou Q, Lei J, Yan N, Science. 2018 Jun 28. pii: science.aas8935. doi: 10.1126/science.aas8935. PMID:29954986
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (192 Kb) [Save to disk]
  • Biological Unit Coordinates (6dmy.pdb1.gz) 184 Kb
  • CSU: Contacts of Structural Units for 6DMY
  • Retrieve 6DMY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DMY from S2C, [Save to disk]
  • View 6DMY 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 6DMY
  • 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
  • Fold representative 6dmy from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6dmy_B] [6dmy_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6DMY
  • Community annotation for 6DMY at PDBWiki (http://pdbwiki.org)

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