2M2D Apoptosis date Dec 18, 2012
title Human Programmed Cell Death 1 Receptor
authors V.Veverka, X.Cheng, L.C.Waters, F.W.Muskett, S.Morgan, A.Lesley, M.Griffiths, C.Stubberfield, R.Griffin, A.J.Henry, M.K.Robinson A.Jansson, J.E.Ladbury, S.Ikemizu, S.J.Davis, M.D.Carr
compound source
Molecule: Programmed Cell Death Protein 1
Chain: A
Synonym: Protein Pd-1, Hpd-1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pdcd1, Pd1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet
methodSolution NMR
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure and interactions of the human programmed cell death 1 receptor., Cheng X, Veverka V, Radhakrishnan A, Waters LC, Muskett FW, Morgan S, Huo J, Yu C, Evans EJ, Leslie AJ, Griffiths M, Stubberfield C, Griffin R, Henry AJ, Jansson A, Ladbury JE, Ikemizu S, Carr MD, Davis SJ, J Biol Chem. 2013 Feb 15. PMID:23417675
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1076 Kb) [Save to disk]
  • Biological Unit Coordinates (2m2d.pdb1.gz) 32 Kb
  • CSU: Contacts of Structural Units for 2M2D
  • Original NMR restraints for 2M2D from PDB
  • Retrieve 2M2D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2M2D from S2C, [Save to disk]
  • View 2M2D 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 2M2D
  • 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 2M2D, from MSDmotif at EBI
  • Fold representative 2m2d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2m2d] [2m2d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2M2D: [IGv ] by SMART
  • Other resources with information on 2M2D
  • Community annotation for 2M2D at PDBWiki (http://pdbwiki.org)

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