5WB1 Membrane Protein date Jun 27, 2017
title Ligand-Free Us28 With Stabilizing Intracellular Nanobody
authors K.M.Jude, J.S.Burg, K.C.Garcia
compound source
Molecule: Envelope Protein Us28, Nanobody 7 Fusion Protein
Chain: A
Synonym: Us28 Protein
Engineered: Yes
 Organism_scientific: Human Cytomegalovirus, Lama Glama
Organism_common: Hhv-5, Llama
Organism_taxid: 10359, 9844
Gene: Us28
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293f
symmetry Space Group: P 1 21 1
R_factor 0.242 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
77.600 38.300 99.800 90.00 107.40 90.00
method X-Ray Diffractionresolution 3.51 Å
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceViral GPCR US28 can signal in response to chemokine agonists of nearly unlimited structural degeneracy., Miles TF, Spiess K, Jude KM, Tsutsumi N, Burg JS, Ingram JR, Waghray D, Hjorto GM, Larsen O, Ploegh HL, Rosenkilde MM, Garcia KC, Elife. 2018 Jun 8;7. pii: 35850. doi: 10.7554/eLife.35850. PMID:29882741
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (71 Kb) [Save to disk]
  • Biological Unit Coordinates (5wb1.pdb1.gz) 66 Kb
  • CSU: Contacts of Structural Units for 5WB1
  • Structure Factors (148 Kb)
  • Retrieve 5WB1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5WB1 from S2C, [Save to disk]
    • View 5WB1 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 5WB1
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1o5wb1, region B:1010-1298,B:1411-1512 [Jmol] [rasmolscript] [script source]
        - Domain d1r5wb1, region B:121-215 [Jmol] [rasmolscript] [script source]
        - Domain d1n5wb1, region B:6-146 [Jmol] [rasmolscript] [script source]
        - Domain d1t5wb1, region B:93-190 [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5wb1_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5WB1
  • Community annotation for 5WB1 at PDBWiki (http://pdbwiki.org)

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