3WAN Protein Binding date May 06, 2013
title Crystal Structure Of Atg13 Lir-Fused Human Lc3a_2-121
authors H.Suzuki, K.Tabata, E.Morita, M.Kawasaki, R.Kato, R.C.J.Dobson, T.Yoshimori, S.Wakatsuki
compound source
Molecule: Autophagy-Related Protein 13, Microtubule-Associa Proteins 1a1b Light Chain 3a;
Chain: A, B
Fragment: Unp Residues 436-447, 2-121
Synonym: Autophagy-Related Protein Lc3 A, Autophagy-Related Ubiquitin-Like Modifier Lc3 A, Map1 Light Chain 3-Like Prot Map1amap1b Light Chain 3 A, Map1amap1b Lc3 A, Microtubule Associated Protein 1 Light Chain 3 Alpha;
Engineered: Yes
Other_details: The Fusion Protein Of Autophagy-Related Gene (Residues 436-447), Linker (Gly Ser) And Microtubule-Associ Proteins 1a1b Light Chain 3a (Residues 2-121)
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Map1lc3a
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30
symmetry Space Group: P 1 21 1
R_factor 0.174 R_Free 0.227
length a length b length c angle alpha angle beta angle gamma
34.730 47.880 77.080 90.00 94.22 90.00
method X-Ray Diffractionresolution 1.77 Å
ligand MPD enzyme
A, B

Primary referenceStructural Basis of the Autophagy-Related LC3/Atg13 LIR Complex: Recognition and Interaction Mechanism., Suzuki H, Tabata K, Morita E, Kawasaki M, Kato R, Dobson RC, Yoshimori T, Wakatsuki S, Structure. 2013 Nov 25. pii: S0969-2126(13)00401-2. doi:, 10.1016/j.str.2013.09.023. PMID:24290141
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (93 Kb) [Save to disk]
  • Biological Unit Coordinates (3wan.pdb1.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 3WAN
  • CSU: Contacts of Structural Units for 3WAN
  • Structure Factors (981 Kb)
  • Retrieve 3WAN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3WAN from S2C, [Save to disk]
  • Re-refined 3wan structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3WAN 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 3WAN
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3WAN, from MSDmotif at EBI
  • Fold representative 3wan from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3wan] [3wan_B] [3wan_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3WAN
  • Community annotation for 3WAN at PDBWiki (http://pdbwiki.org)

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