3CKC Sugar Binding Protein date Mar 14, 2008
title B. Thetaiotaomicron Susd
authors N.M.Koropatkin, E.C.Martens, J.I.Gordon, T.J.Smith
compound source
Molecule: Susd
Chain: A, B
Fragment: Unp Residues 26-551
Engineered: Yes
 Organism_scientific: Bacteroides Thetaiotaomicron
Organism_taxid: 226186
Strain: Vpi-5482
Gene: Susd
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-28a
symmetry Space Group: P 1
R_factor 0.192 R_Free 0.210
crystal
cell
length a length b length c angle alpha angle beta angle gamma
62.196 68.056 83.050 111.09 93.17 109.17
method X-Ray Diffractionresolution 1.50 Å
ligand CA, CSO, EDO, MES, PEG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStarch catabolism by a prominent human gut symbiont is directed by the recognition of amylose helices., Koropatkin NM, Martens EC, Gordon JI, Smith TJ, Structure. 2008 Jul;16(7):1105-15. PMID:18611383
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (191 Kb) [Save to disk]
  • Biological Unit Coordinates (3ckc.pdb1.gz) 93 Kb
  • Biological Unit Coordinates (3ckc.pdb2.gz) 96 Kb
  • LPC: Ligand-Protein Contacts for 3CKC
  • CSU: Contacts of Structural Units for 3CKC
  • Likely Quarternary Molecular Structure file(s) for 3CKC
  • Structure Factors (1413 Kb)
  • Retrieve 3CKC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3CKC from S2C, [Save to disk]
  • Re-refined 3ckc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3CKC 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 3CKC
  • 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
  • 3D motif for 3CKC, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ckc_B] [3ckc_A] [3ckc]
  • SWISS-PROT database: [Q8A1G2]
  • Belongs to the glycan-binding protein (susd) family according to TCDB.
  • Domain organization of [Q8A1G2_BACTN] by SWISSPFAM
    • Other resources with information on 3CKC
  • Community annotation for 3CKC at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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