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Literature summary for 4.2.2.8 extracted from

  • Hashimoto, W.; Maruyama, Y.; Nakamichi, Y.; Mikami, B.; Murata, K.
    Crystal structure of Pedobacter heparinus heparin lyase Hep III with the active site in a deep cleft (2014), Biochemistry, 53, 777-786.
    View publication on PubMed

Crystallization (Commentary)

Crystallization (Comment) Organism
isoform Hep III, to 2.2 A resolution. The enzyme comprises an N-terminal alpha/alpha-barrel domain and a C-terminal antiparallel beta-sheet domain as its basic scaffold. Isoform Hep III exhibits an open form compared with the closed form of Hep II. An active site of Hep III is located in the deep cleft at the interface between its two domains Pedobacter heparinus

Protein Variants

Protein Variants Comment Organism
E237A 40.8% of wild-type activitiy Pedobacter heparinus
F423A 42.4% of wild-type activitiy Pedobacter heparinus
H241A 29.7% of wild-type activitiy Pedobacter heparinus
H424A 0.3% of wild-type activitiy Pedobacter heparinus
I29V/L657S 42.7% of wild-type activitiy Pedobacter heparinus
N240A 3.1% of wild-type activitiy Pedobacter heparinus
Q238A 88.5% of wild-type activitiy Pedobacter heparinus
W350A 27.7% of wild-type activitiy Pedobacter heparinus
Y294F 2.8% of wild-type activitiy Pedobacter heparinus
Y450F 5.6% of wild-type activitiy Pedobacter heparinus
Y590 7.7% of wild-type activitiy Pedobacter heparinus

Organism

Organism UniProt Comment Textmining
Pedobacter heparinus Q59289
-
-
Pedobacter heparinus DSM 2366 Q59289
-
-

Synonyms

Synonyms Comment Organism
Hep III
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Pedobacter heparinus

Temperature Stability [°C]

Temperature Stability Minimum [°C] Temperature Stability Maximum [°C] Comment Organism
39.4
-
melting temperature, presence of 1 mM heparin tetrasaccharide Pedobacter heparinus
40.5
-
melting temperature, presence of 0.1 mM heparin tetrasaccharide Pedobacter heparinus
43.9
-
melting temperature, presence of 0.1 mM heparin disaccharide Pedobacter heparinus
44.3
-
melting temperature, presence of 0.1 mM N-acetyl glucosamine Pedobacter heparinus
45.2
-
melting temperature, presence of 0.1 mM gellan tetrasaccharide Pedobacter heparinus
45.44
-
melting temperature Pedobacter heparinus