5Y3S Immune System date Jul 30, 2017
title Crystal Structure Of Human Nlrp1 Leucine Rich Repeat Domain
authors T.Jin, T.S.Xiao
compound source
Molecule: Nacht, Lrr And Pyd Domains-Containing Protein 1
Chain: A, B, C, D
Fragment: Unp Residues 790-990
Synonym: Caspase Recruitment Domain-Containing Protein 7,De Effector Filament-Forming Ced-4-Like Apoptosis Protein,Nucl Binding Domain And Caspase Recruitment Domain;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nlrp1, Card7, Defcap, Kiaa0926, Nac, Nalp1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: H 3 2
R_factor 0.212 R_Free 0.259
length a length b length c angle alpha angle beta angle gamma
141.480 141.480 294.000 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.45 Å
ligand NA, PO4 enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (130 Kb) [Save to disk]
  • Biological Unit Coordinates (5y3s.pdb1.gz) 33 Kb
  • Biological Unit Coordinates (5y3s.pdb2.gz) 32 Kb
  • Biological Unit Coordinates (5y3s.pdb3.gz) 33 Kb
  • Biological Unit Coordinates (5y3s.pdb4.gz) 33 Kb
  • LPC: Ligand-Protein Contacts for 5Y3S
  • CSU: Contacts of Structural Units for 5Y3S
  • Structure Factors (747 Kb)
  • Retrieve 5Y3S in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5Y3S from S2C, [Save to disk]
  • View 5Y3S 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 5Y3S
  • 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 5y3s from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5y3s_C] [5y3s_B] [5y3s_A] [5y3s_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5Y3S
  • Community annotation for 5Y3S at PDBWiki (http://pdbwiki.org)

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