5NVA Membrane Protein date May 03, 2017
title Substrate-Bound Outward-Open State Of A Na+-Coupled Sialic A Symporter Reveals A Novel Na+-Site
authors W.Y.Wahlgren, R.A.North, E.Dunevall, P.Goyal, M.Grabe, R.Dobson, J.Abramson, S.Ramaswamy, R.Friemann
compound source
Molecule: Putative Sodium:Solute Symporter
Chain: A
Engineered: Yes
 Organism_scientific: Proteus Mirabilis (Strain Hi4320)
Organism_taxid: 529507
Gene: Pmi2976
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 2 21 21
R_factor 0.224 R_Free 0.261
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.788 97.764 151.690 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.26 Å
ligand NA, SLB enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceSubstrate-bound outward-open structure of a Na(+)-coupled sialic acid symporter reveals a new Na(+) site., Wahlgren WY, Dunevall E, North RA, Paz A, Scalise M, Bisignano P, Bengtsson-Palme J, Goyal P, Claesson E, Caing-Carlsson R, Andersson R, Beis K, Nilsson UJ, Farewell A, Pochini L, Indiveri C, Grabe M, Dobson RCJ, Abramson J, Ramaswamy S, Friemann R, Nat Commun. 2018 May 1;9(1):1753. doi: 10.1038/s41467-018-04045-7. PMID:29717135
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (5nva.pdb1.gz) 77 Kb
  • LPC: Ligand-Protein Contacts for 5NVA
  • CSU: Contacts of Structural Units for 5NVA
  • Structure Factors (851 Kb)
  • Retrieve 5NVA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5NVA from S2C, [Save to disk]
    • View 5NVA 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 5NVA
  • 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: [5nva_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5NVA
  • Community annotation for 5NVA at PDBWiki (http://pdbwiki.org)

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