5U1D Transport Protein date Nov 28, 2016
title Cryo-Em Structure Of The Human Tap Atp-Binding Cassette Tran
authors M.L.Oldham, J.Chen, N.Grigorieff
compound source
Molecule: Antigen Peptide Transporter 1
Chain: A
Synonym: Apt1, Atp-Binding Cassette Sub-Family B Member 2, Supply Factor 1, Peptide Transporter Psf1, Psf-1, Peptide T Tap1, Peptide Transporter Involved In Antigen Processing 1, Interesting New Gene 4 Protein;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tap1, Abcb2, Psf1, Ring4, Y3
Expression_system: Komagataella Pastoris
Expression_system_common: Pichia Pastoris
Expression_system_taxid: 4922

Molecule: Antigen Peptide Transporter 2
Chain: B
Synonym: Apt2, Atp-Binding Cassette Sub-Family B Member 3, Supply Factor 2, Peptide Transporter Psf2, Psf-2, Peptide T Tap2, Peptide Transporter Involved In Antigen Processing 2, Interesting New Gene 11 Protein;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tap2, Abcb3, Psf2, Ring11, Y1
Expression_system: Komagataella Pastoris
Expression_system_common: Pichia Pastoris
Expression_system_taxid: 4922

Molecule: Tap Transporter Inhibitor Icp47
Chain: X
Engineered: Yes
Organism_scientific: Human Herpesvirus 1
Organism_common: Hhv-1
Organism_taxid: 10298
Gene: Us12
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3) Ril
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
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 3.97 Å
Gene
Ontology
ChainFunctionProcessComponent
A


B


X


Primary referenceStructure of the transporter associated with antigen processing trapped by herpes simplex virus., Oldham ML, Grigorieff N, Chen J, Elife. 2016 Dec 9;5. pii: e21829. doi: 10.7554/eLife.21829. PMID:27935481
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (163 Kb) [Save to disk]
  • Biological Unit Coordinates (5u1d.pdb1.gz) 155 Kb
  • CSU: Contacts of Structural Units for 5U1D
  • Retrieve 5U1D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5U1D from S2C, [Save to disk]
    • View 5U1D 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 5U1D
  • 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: [5u1d] [5u1d_X] [5u1d_A] [5u1d_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5U1D
  • Community annotation for 5U1D at PDBWiki (http://pdbwiki.org)

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