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Structure paper

TitleRecognition of protein-linked glycans as a determinant of peptidase activity.
Journal, issue, pagesProc. Natl. Acad. Sci. U.S.A., Vol. 114, Page E679-E688, Year 2017
Publish dateJun 7, 2016 (structure data deposition date)
AuthorsNoach, I. / Ficko-Blean, E. / Pluvinage, B. / Stuart, C. / Jenkins, M.L. / Brochu, D. / Buenbrazo, N. / Wakarchuk, W. / Burke, J.E. / Gilbert, M. / Boraston, A.B.
External linksProc. Natl. Acad. Sci. U.S.A. / PubMed:28096352
MethodsX-ray diffraction
Resolution1.6 - 2.4 Å
Structure data

PDB-5kd2:
BT_4244 metallopeptidase from Bacteroides thetaiotaomicron
Method: X-RAY DIFFRACTION / Resolution: 2.15 Å

PDB-5kd5:
BT_4244 metallopeptidase from Bacteroides thetaiotaomicron
Method: X-RAY DIFFRACTION / Resolution: 1.65 Å

PDB-5kd8:
BT_4244 metallopeptidase in complex with Tn antigen.
Method: X-RAY DIFFRACTION / Resolution: 2.3 Å

PDB-5kdj:
ZmpB metallopeptidase from Clostridium perfringens
Method: X-RAY DIFFRACTION / Resolution: 2.15 Å

PDB-5kdn:
ZmpB metallopeptidase from Clostridium perfringens
Method: X-RAY DIFFRACTION / Resolution: 1.66 Å

PDB-5kds:
ZmpB metallopeptidase in complex with an O-glycopeptide (a2,6-sialylated core-3 pentapeptide).
Method: X-RAY DIFFRACTION / Resolution: 1.6 Å

PDB-5kdu:
ZmpB metallopeptidase in complex with a2,6-Sialyl T-antigen
Method: X-RAY DIFFRACTION / Resolution: 2.0 Å

PDB-5kdv:
IMPa metallopeptidase from Pseudomonas aeruginosa
Method: X-RAY DIFFRACTION / Resolution: 1.93 Å

PDB-5kdw:
IMPa metallopeptidase from Pseudomonas aeruginosa
Method: X-RAY DIFFRACTION / Resolution: 1.85 Å

PDB-5kdx:
IMPa metallopeptidase in complex with T-antigen
Method: X-RAY DIFFRACTION / Resolution: 2.4 Å

Chemicals

ChemComp-ZN:
Unknown entry

ChemComp-EDO:
1,2-ETHANEDIOL / Ethylene glycol

ChemComp-HOH:
WATER / Water

ChemComp-PO4:
PHOSPHATE ION / Phosphate

ChemComp-NI:
NICKEL (II) ION / Nickel

ChemComp-NA:
Unknown entry

ChemComp-SER:
SERINE / Serine

ChemComp-A2G:
2-acetamido-2-deoxy-alpha-D-galactopyranose / N-Acetylgalactosamine

ChemComp-GOL:
GLYCEROL / Glycerol

ChemComp-TLA:
L(+)-TARTARIC ACID / Tartaric acid

ChemComp-EPE:
4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID / pH buffer*YM / HEPES

ChemComp-SO4:
SULFATE ION / Sulfate

Source
  • bacteroides thetaiotaomicron (bacteria)
  • bacteroides thetaiotaomicron (strain atcc 29148 / dsm 2079 / nctc 10582 / e50 / vpi-5482) (bacteria)
  • clostridium perfringens (strain atcc 13124 / dsm 756 / jcm 1290 / ncimb 6125 / nctc 8237 / type a) (bacteria)
  • bos taurus (cattle)
  • pseudomonas aeruginosa (strain atcc 15692 / pao1 / 1c / prs 101 / lmg 12228) (bacteria)
KeywordsHYDROLASE / O-Glycopeptidase / PF13402/M60-like / O-glycan / Hydrolase. / Bovine submaxillary mucin / Glycopeptidase / PF13402 / core-1 O-glycan

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