4GGF Antimicrobial Protein date Aug 06, 2012
title Crystal Structure Of Mn2+ Bound Calprotectin
authors S.M.Damo, G.Fritz
compound source
Molecule: Protein S100-A8
Chain: A, K, S, U
Synonym: Calgranulin-A, Calprotectin L1l Subunit, Cystic Fi Antigen, Cfag, Leukocyte L1 Complex Light Chain, Migration Factor-Related Protein 8, Mrp-8, P8, S100 Calcium-Binding P Urinary Stone Protein Band A;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: S100a8, Caga, Cfag, Mrp8
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet1120

Molecule: Protein S100-A9
Chain: C, L, T, V
Synonym: Calgranulin-B, Calprotectin L1h Subunit, Leukocyte Complex Heavy Chain, Migration Inhibitory Factor-Related Pr Mrp-14, P14, S100 Calcium-Binding Protein A9;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: S100a9, Cagb, Cfag, Mrp14
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 2
R_factor 0.177 R_Free 0.202
crystal
cell
length a length b length c angle alpha angle beta angle gamma
82.027 217.002 53.022 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand CA, GOL, MN, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
S, A, K, U


T, V, C, L
  • antioxidant activity


  • Primary referenceMolecular basis for manganese sequestration by calprotectin and roles in the innate immune response to invading bacterial pathogens., Damo SM, Kehl-Fie TE, Sugitani N, Holt ME, Rathi S, Murphy WJ, Zhang Y, Betz C, Hench L, Fritz G, Skaar EP, Chazin WJ, Proc Natl Acad Sci U S A. 2013 Feb 19. PMID:23431180
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (303 Kb) [Save to disk]
  • Biological Unit Coordinates (4ggf.pdb1.gz) 148 Kb
  • Biological Unit Coordinates (4ggf.pdb2.gz) 145 Kb
  • LPC: Ligand-Protein Contacts for 4GGF
  • CSU: Contacts of Structural Units for 4GGF
  • Structure Factors (1773 Kb)
  • Retrieve 4GGF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4GGF from S2C, [Save to disk]
  • Re-refined 4ggf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4GGF 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 4GGF
  • 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 4GGF, from MSDmotif at EBI
  • Fold representative 4ggf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ggf_V] [4ggf_C] [4ggf_L] [4ggf_A] [4ggf_S] [4ggf_T] [4ggf_U] [4ggf] [4ggf_K]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4GGF: [S_100 ] by SMART
  • Other resources with information on 4GGF
  • Community annotation for 4GGF at PDBWiki (http://pdbwiki.org)

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