6EZI Protein Binding date Nov 15, 2017
title Pdzk1 Domain 4 In Complex With C-Terminal Peptide Of Human P
authors C.Loew, A.Flayhan, J.Pieprzyk
compound source
Molecule: Na(+)H(+) Exchange Regulatory Cofactor Nhe-Rf3
Chain: A
Synonym: Nherf-3,Cftr-Associated Protein Of 70 Kda,Na(+)H( Exchanger Regulatory Factor 3,Napi Cotransporter C-Termina Associated Protein 1,Napi-Cap1,Pdz Domain-Containing Protei Sodium-Hydrogen Exchanger Regulatory Factor 3;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pdzk1, Cap70, Nherf3, Pdzd1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Solute Carrier Family 15 Member 2
Chain: B
Synonym: Kidney H(+)Peptide Cotransporter,Oligopeptide Tra Kidney Isoform,Peptide Transporter 2;
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 65 2 2
R_factor 0.194 R_Free 0.214
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.400 54.400 150.760 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.50 Å
ligand GOL enzyme
Primary referenceProbing the Architecture of a Multi-PDZ Domain Protein: Structure of PDZK1 in Solution., Hajizadeh NR, Pieprzyk J, Skopintsev P, Flayhan A, Svergun DI, Low C, Structure. 2018 Aug 16. pii: S0969-2126(18)30262-4. doi:, 10.1016/j.str.2018.07.016. PMID:30220543
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (41 Kb) [Save to disk]
  • Biological Unit Coordinates (6ezi.pdb1.gz) 36 Kb
  • LPC: Ligand-Protein Contacts for 6EZI
  • CSU: Contacts of Structural Units for 6EZI
  • Structure Factors (168 Kb)
  • Retrieve 6EZI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6EZI from S2C, [Save to disk]
  • View 6EZI 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 6EZI
  • 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: [6ezi_A] [6ezi_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6EZI
  • Community annotation for 6EZI at PDBWiki (http://pdbwiki.org)

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