5Z7L Signaling Protein date Jan 29, 2018
title Crystal Structure Of Ndp52 Skich Region In Complex With Nap1
authors T.Fu, L.F.Pan
compound source
Molecule: Calcium-Binding And Coiled-Coil Domain-Containing 2;
Chain: A, B
Fragment: Unp Residues 10-126
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Calcoco2
Expression_system: Escherichia Coli-Pichia Pastoris Shuttle Ppparg4;
Expression_system_taxid: 1182032

Molecule: 5-Azacytidine-Induced Protein 2
Chain: C, D
Fragment: Unp Residues 33-75
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Azi2
Expression_system: Escherichia Coli-Pichia Pastoris Shuttle Ppparg4;
Expression_system_taxid: 1182032
symmetry Space Group: C 1 2 1
R_factor 0.170 R_Free 0.222
crystal
cell
length a length b length c angle alpha angle beta angle gamma
113.639 45.026 86.679 90.00 123.77 90.00
method X-Ray Diffractionresolution 2.02 Å
ligand GOL enzyme
Primary referenceMechanistic insights into the interactions of NAP1 with the SKICH domains of NDP52 and TAX1BP1., Fu T, Liu J, Wang Y, Xie X, Hu S, Pan L, Proc Natl Acad Sci U S A. 2018 Dec 11;115(50):E11651-E11660. doi:, 10.1073/pnas.1811421115. Epub 2018 Nov 20. PMID:30459273
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (118 Kb) [Save to disk]
  • Biological Unit Coordinates (5z7l.pdb1.gz) 112 Kb
  • LPC: Ligand-Protein Contacts for 5Z7L
  • CSU: Contacts of Structural Units for 5Z7L
  • Structure Factors (367 Kb)
  • Retrieve 5Z7L in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5Z7L from S2C, [Save to disk]
  • View 5Z7L 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 5Z7L
  • 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: [5z7l_B] [5z7l_D] [5z7l_A] [5z7l_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5Z7L
  • Community annotation for 5Z7L at PDBWiki (http://pdbwiki.org)

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