6BNT Endocytosis date Nov 17, 2017
title Crystal Structure Of Ap2 Mu1 Adaptin C-Terminal Domain With Peptide
authors S.Kikuchi, E.Choi, H.Yu
compound source
Molecule: Ap-2 Complex Subunit Mu
Chain: A
Fragment: C-Terminal Domain (Unp Residues 158-433)
Synonym: Ap-2 Mu Chain, Adaptin-Mu2, Adaptor Protein Comple Subunit Mu, Adaptor-Related Protein Complex 2 Subunit Mu, C Assembly Protein Complex 2 Mu Medium Chain, Clathrin Coat A Protein Ap50, Clathrin Coat-Associated Protein Ap50, Ha2 50 Subunit, Plasma Membrane Adaptor Ap-2 50 Kda Protein;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ap2m1, Clapm1, Kiaa0109
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Insulin Receptor Substrate 1
Chain: B
Fragment: Unp Residues 607-620
Synonym: Irs-1
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Irs1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 64
R_factor 0.206 R_Free 0.234
length a length b length c angle alpha angle beta angle gamma
125.334 125.334 74.818 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.20 Å

Primary referenceMitotic regulators and the SHP2-MAPK pathway promote IR endocytosis and feedback regulation of insulin signaling., Choi E, Kikuchi S, Gao H, Brodzik K, Nassour I, Yopp A, Singal AG, Zhu H, Yu H, Nat Commun. 2019 Apr 1;10(1):1473. doi: 10.1038/s41467-019-09318-3. PMID:30931927
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (6bnt.pdb1.gz) 43 Kb
  • CSU: Contacts of Structural Units for 6BNT
  • Structure Factors (270 Kb)
  • Retrieve 6BNT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6BNT from S2C, [Save to disk]
  • View 6BNT 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 6BNT
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6bnt from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6bnt_B] [6bnt_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6BNT
  • Community annotation for 6BNT at PDBWiki (http://pdbwiki.org)

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