ProGP106 (Heparin lyase I or Heparinase I)
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| ProGP ID | ProGP106 (Heparin lyase I or Heparinase I) |
| Validation Status | Characterized |
| Organism Information | |
| Organism Name | Pedobacter heparinus (Flavobacterium heparinum) |
| Domain | Bacteria |
| Classification | Family: Sphingobacteriaceae Order: "Sphingobacteriales" Class: "Sphingobacteria" Division or phylum: "Bacteroidetes" |
| Taxonomic ID (NCBI) | 984 |
| Genome Information | |
| GenBank | CP001681.1 |
| EMBL | L12534 |
| Organism Additional Information | Pedobacter heparinus is a Gram-negative, nonpathogenic soil organism. |
| Gene Information | |
| Gene Name | hep A |
| NCBI Gene ID | 8251559 |
| GenBank Gene Sequence | NC_013061 |
| Protein Information | |
| Protein Name | Heparin lyase I or Heparinase I |
| UniProtKB/SwissProt ID | Q05819 |
| NCBI RefSeq | YP_003090758.1 |
| EMBL-CDS | AAA24920.1 |
| UniProtKB Sequence | >sp|Q05819|HEP1_PEDHE Heparin lyase I OS=Pedobacter heparinus PE=1 SV=1 MKKQILYLIVLQQLFLCSAYAQQKKSGNIPYRVNVQADSAKQKAIIDNKWVAVGINKPYA LQYDDKLRFNGKPSYRFELKAEDNSLEGYAAGETKGRTELSYSYATTNDFKKFPPSVYQN AQKLKTVYHYGKGICEQGSSRSYTFSVYIPSSFPDNATTIFAQWHGAPSRTLVATPEGEI KTLSIEEFLALYDRMIFKKNIAHDKVEKKDKDGKITYVAGKPNGWKVEQGGYPTLAFGFS KGYFYIKANSDRQWLTDKADRNNANPENSEVMKPYSSEYKTSTIAYKMPFAQFPKDCWIT FDVAIDWTKYGKEANTILKPGKLDVMMTYTKNKKPQKAHIVNQQEILIGRNDDDGYYFKF GIYRVGNSTVPVTYNLSGYSETAR |
| Sequence length | 384 AA |
| Subcellular Location | Periplasm |
| Function | GAG lyase. EC= 4.2.2.7. It has been assigned to the polysaccharide lyase family PL13. Degrades heparin and heparan sulfate. Also implicated in the release of heparin-bound growth factors from the extracellular matrix. |
| Glycosylation Status | |
| Glycosylation Type | O- (Ser) linked |
| Experimentally Validated Glycosite(s) in Full Length Protein | S39 |
| Experimentally Validated Glycosite(s ) in Mature Protein | S39 |
| Glycosite(s) Annotated Protein Sequence | >sp|Q05819|HEP1_PEDHE Heparin lyase I OS=Pedobacter heparinus PE=1 SV=1 MKKQILYLIVLQQLFLCSAYAQQKKSGNIPYRVNVQADS*(39)AKQKAIIDNKWVAVGINKPYA LQYDDKLRFNGKPSYRFELKAEDNSLEGYAAGETKGRTELSYSYATTNDFKKFPPSVYQN AQKLKTVYHYGKGICEQGSSRSYTFSVYIPSSFPDNATTIFAQWHGAPSRTLVATPEGEI KTLSIEEFLALYDRMIFKKNIAHDKVEKKDKDGKITYVAGKPNGWKVEQGGYPTLAFGFS KGYFYIKANSDRQWLTDKADRNNANPENSEVMKPYSSEYKTSTIAYKMPFAQFPKDCWIT FDVAIDWTKYGKEANTILKPGKLDVMMTYTKNKKPQKAHIVNQQEILIGRNDDDGYYFKF GIYRVGNSTVPVTYNLSGYSETAR |
| Sequence Around Glycosites (21 AA) | IPYRVNVQADSAKQKAIIDNK |
| Technique(s) used for Glycosylation Detection | Presence of multiple isoforms in the RPHPLC (reverse-phase high pressure liquid chromatography) profile, and mass excess (approx. 1.1 kDa) detected using mass spectrometry. |
| Technique(s) used for Glycosylated Residue(s) Detection | NMR and mass spectrometry |
| Glycan Information | |
| Glycan Annotation | Linkage: Man-Ser. Branched heptasaccharide is: galactose-?(1–4)[galactose-?(1–3)](2-O-Me)fucose-?(1–4)xylose-? (1–4)glucuronic acid-?(1–2)[rhamnose-?(1–4)]mannose-?(1-O)Ser. |
| GlyTouCan | G07644FE |
| Technique(s) used for Glycan Identification | Combination of enzymatic digestion, NMR and mass spectroscopy. |
| Literature | |
| Year of Identification | 1995 |
| Year of Identification Month Wise | 1995.05 |
| Year of Validation | 1995 |
| Reference | Shaya, D., Tocilj, A., Li, Y., Myette, J., Venkataraman, G., Sasisekharan, R. and Cygler, M. (2006) Crystal structure of heparinase II from Pedobacter heparinus and its complex with a disaccharide product. J Biol Chem, 281, 15525-15535. [PubMed: 16565082] |
| Author | Shaya, D., Tocilj, A., Li, Y., Myette, J., Venkataraman, G., Sasisekharan, R. and Cygler, M. |
| Research Group | Department of Biochemistry, McGill University, Montreal, Quebec H3G 1Y6, Canada. |
| Corresponding Author | Cygler, M. |
| Contact | Department of Biochemistry, McGill University, Montreal, Quebec H3G 1Y6, Canada. |
| Reference | Godavarti, R. and Sasisekharan, R. (1996) A comparative analysis of the primary sequences and characteristics of heparinases I, II, and III from Flavobacterium heparinum. Biochem Biophys Res Commun, 229, 770-777. [PubMed: 8954971] |
| Author | Godavarti, R. Sasisekharan, R. |
| Research Group | Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, 02139, USA. |
| Corresponding Author | Sasisekharan, R. |
| Contact | Department of Chemical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, 02139, USA. |
| Reference | Huang L., van Halbeek H., Eggimann B., Zimmermannn J. (1995) Structural characterization of the novel O-linked carbohydrate structure of Flavobacterium heparinum heparinase I. Glycobiology 5, 712-712. |
| Author | Huang L., van Halbeek H., Eggimann B., Zimmermannn J |
| Corresponding Author | Zimmermannn J |
| Reference | Sasisekharan, R., Bulmer, M., Moremen, K.W., Cooney, C.L. and Langer, R. (1993) Cloning and expression of heparinase I gene from Flavobacterium heparinum. Proc Natl Acad Sci U S A, 90, 3660-3664. [PubMed: 8475114] |
| Author | Sasisekharan, R., Bulmer, M., Moremen, K.W., Cooney, C.L. Langer, R. |
| Research Group | Building, King’s Buildings, University of Edinburgh, |
| Corresponding Author | Langer, R. |
| Contact | Building, King’s Buildings, University of Edinburgh, |