5F0P	Protein Transport	date	Nov 27, 2015
title	Structure Of Retromer Vps26-Vps35 Subunits Bound To Snx3 And Dmt1(L557m) (Semet Labeled)
authors	M.Lucas, D.Gershlick, A.Vidaurrazaga, A.L.Rojas, J.S.Bonifacino,
compound		source
Molecule: Vacuolar Protein Sorting-Associated Protein 35 Chain: A Fragment: Residues 14-470 Synonym: Hvps35,Maternal-Embryonic 3,Vesicle Protein Sortin Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Vps35, Mem3, Tcccta00141 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgst-Parallel2
Molecule: Vacuolar Protein Sorting-Associated Protein 26a Chain: B Fragment: Residues 1-321 Synonym: Vesicle Protein Sorting 26a,Hvps26 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Vps26a, Vps26 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_variant: B834(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-Sumo3
Molecule: Sorting Nexin-3 Chain: C Fragment: Residues 1-162 Synonym: Protein Sdp3 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Snx3 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_vector_type: Plasmid Expression_system_plasmid: Phis-Mbp-Parallel2
Molecule: Natural Resistance-Associated Macrophage Protein Chain: D Synonym: Nramp 2,Divalent Cation Transporter 1,Divalent Met Transporter 1,Dmt-1,Solute Carrier Family 11 Member 2, Diva Cation Transporter II; Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Slc11a2, Dct1, Dmt1, Nramp2, Oksw-Cl.20 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_variant: B834(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet-Sumo3
symmetry	Space Group: C 1 2 1	R_factor 0.219 R_Free 0.261
crystal cell	length a length b length c angle alpha angle beta angle gamma 371.290 75.320 57.270 90.00 97.66 90.00
method	X-Ray Diffraction	resolution	2.78 Å
ligand	EDO, GOL, MSE, SO4, ZN	enzyme
Gene Ontology	Chain Function Process Component A B C
Primary reference	Structural Mechanism for Cargo Recognition by the Retromer Complex., Lucas M, Gershlick DC, Vidaurrazaga A, Rojas AL, Bonifacino JS, Hierro A, Cell. 2016 Dec 1;167(6):1623-1635.e14. doi: 10.1016/j.cell.2016.10.056. Epub 2016, Nov 23. PMID:27889239

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (160 Kb) [Save to disk] Biological Unit Coordinates (5f0p.pdb1.gz) 153 Kb LPC: Ligand-Protein Contacts for 5F0P CSU: Contacts of Structural Units for 5F0P Structure Factors (1135 Kb) Retrieve 5F0P in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5F0P from S2C, [Save to disk] Re-refined 5f0p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

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Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5f0p_D] [5f0p_C] [5f0p_B] [5f0p] [5f0p_A] SWISS-PROT database: Domain organization of by SWISSPFAM

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