6V1D Sugar Binding Protein date Nov 20, 2019
title Crystal Structure Of Human Trefoil Factor 1
authors M.A.Jarva, J.P.Lingford, A.John, N.E.Scott, E.D.Goddard-Borger
compound source
Molecule: Trefoil Factor 1
Chain: A, B, C
Synonym: Breast Cancer Estrogen-Inducible Protein,Pnr-2,Pol P1.A,Hp1.A,Protein Ps2;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tff1, Bcei, Ps2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.194 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.928 41.905 45.831 90.00 115.57 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand PCA enzyme
Primary referenceTrefoil factors share a lectin activity that defines their role in mucus., Jarva MA, Lingford JP, John A, Soler NM, Scott NE, Goddard-Borger ED, Nat Commun. 2020 May 13;11(1):2265. doi: 10.1038/s41467-020-16223-7. PMID:32404934
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (6v1d.pdb1.gz) 9 Kb
  • Biological Unit Coordinates (6v1d.pdb2.gz) 9 Kb
  • Biological Unit Coordinates (6v1d.pdb3.gz) 9 Kb
  • LPC: Ligand-Protein Contacts for 6V1D
  • CSU: Contacts of Structural Units for 6V1D
  • Structure Factors (225 Kb)
  • Retrieve 6V1D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6V1D from S2C, [Save to disk]
  • View 6V1D 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 6V1D
  • 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 6v1d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6v1d_B] [6v1d_C] [6v1d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6V1D
  • Community annotation for 6V1D at PDBWiki (http://pdbwiki.org)

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