5J6Y Cell Adhesion date Apr 05, 2016
title Crystal Structure Of Pa14 Domain Of Mpafp Antifreeze Protein
authors S.Guo
compound source
Molecule: Antifreeze Protein
Chain: A
Engineered: Yes
Organism_scientific: Marinomonas Primoryensis
Organism_taxid: 178399
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.155 R_Free 0.164
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.220 50.550 79.420 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.03 Å
ligand BGC, CA, GLC enzyme
Primary referenceStructure of a 1.5-MDa adhesin that binds its Antarctic bacterium to diatoms and ice., Guo S, Stevens CA, Vance TDR, Olijve LLC, Graham LA, Campbell RL, Yazdi SR, Escobedo C, Bar-Dolev M, Yashunsky V, Braslavsky I, Langelaan DN, Smith SP, Allingham JS, Voets IK, Davies PL, Sci Adv. 2017 Aug 9;3(8):e1701440. doi: 10.1126/sciadv.1701440. eCollection 2017 , Aug. PMID:28808685
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (43 Kb) [Save to disk]
  • Biological Unit Coordinates (5j6y.pdb1.gz) 36 Kb
  • LPC: Ligand-Protein Contacts for 5J6Y
  • CSU: Contacts of Structural Units for 5J6Y
  • Structure Factors (4897 Kb)
  • Retrieve 5J6Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5J6Y from S2C, [Save to disk]
  • Re-refined 5j6y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5J6Y 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 5J6Y
  • 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 5j6y from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5j6y_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5J6Y
  • Community annotation for 5J6Y at PDBWiki (http://pdbwiki.org)

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