| ProGlyProt ID | BC162 |
| 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 Sequence (s) |
| GeneBank | CP001681.1 |
| EMBL | U27585 |
| Gene Information |
| Gene Name | hep B |
| NCBI Gene ID | 8253515 |
| GenBank Gene Sequence | 8253515 |
| Protein Information |
| Protein Name | Heparinase II |
| UniProtKB/SwissProt ID | Q46080 |
| NCBI RefSeq | YP_003092674.1 |
| EMBL-CDS | AAB18277.1 |
| UniProtKB Sequence | >tr|Q46080|Q46080_PEDHE Heparinase II protein OS=Pedobacter heparinus GN=HepB PE=1 SV=1
MKRQLYLYVIFVVVELMVFTTKGYSQTKADVVWKDVDGVSMPIPPKTHPRLYLREQQVPD
LKNRMNDPKLKKVWADMIKMQEDWKPADIPEVKDFRFYFNQKGLTVRVELMALNYLMTKD
PKVGREAITSIIDTLETATFKPAGDISRGIGLFMVTGAIVYDWCYDQLKPEEKTRFVKAF
VRLAKMLECGYPPVKDKSIVGHASEWMIMRDLLSVGIAIYDEFPEMYNLAAGRFFKEHLV
ARNWFYPSHNYHQGMSYLNVRFTNDLFALWILDRMGAGNVFNPGQQFILYDAIYKRRPDG
QILAGGDVDYSRKKPKYYTMPALLAGSYYKDEYLNYEFLKDPNVEPHCKLFEFLWRDTQL
GSRKPDDLPLSRYSGSPFGWMIARTGWGPESVIAEMKVNEYSFLNHQHQDAGAFQIYYKG
PLAIDAGSYTGSSGGYNSPHNKNFFKRTIAHNSLLIYDPKETFSSSGYGGSDHTDFAAND
GGQRLPGKGWIAPRDLKEMLAGDFRTGKILAQGFGPDNQTPDYTYLKGDITAAYSAKVKE
VKRSFLFLNLKDAKVPAAMIVFDKVVASNPDFKKFWLLHSIEQPEIKGNQITIKRTKNGD
SGMLVNTALLPDAANSNITSIGGKGKDFWVFGTNYTNDPKPGTDEALERGEWRVEITPKK
AAAEDYYLNVIQIADNTQQKLHEVKRIDGDKVVGVQLADRIVTFSKTSETVDRPFGFSVV
GKGTFKFVMTDLLPGTWQVLKDGKILYPALSAKGDDGPLYFEGTEGTYRFLR
|
| Sequence length | 772 AA |
| Subcellular Location | Periplasm |
| Function | GAG lyase. It acts in an endolytic manner and displays broad selectivity, catalyzing the cleavage of linkages adjacent not only to IdoA and GlcA but also to the rare -L-galacturonic acid residues present in the polymer. Although HepII has greater affinity for heparin, its turnover rate for heparan sulfate is higher. |
| Protein Structure |
| PDB ID | 2FUQ, 2FUT |
| Glycosylation Status |
| Glycosylation Type | O (Thr) linked |
| Experimentally Validated Glycosite(s) in Full Length Protein | T134 |
| Experimentally Validated Glycosite(s ) in Mature Protein | T134 |
| Glycosite(s) Annotated Protein Sequence | >tr|Q46080|Q46080_PEDHE Heparinase II protein OS=Pedobacter heparinus GN=HepB PE=1 SV=1
MKRQLYLYVIFVVVELMVFTTKGYSQTKADVVWKDVDGVSMPIPPKTHPRLYLREQQVPD
LKNRMNDPKLKKVWADMIKMQEDWKPADIPEVKDFRFYFNQKGLTVRVELMALNYLMTKD
PKVGREAITSIIDT*(134)LETATFKPAGDISRGIGLFMVTGAIVYDWCYDQLKPEEKTRFVKAF
VRLAKMLECGYPPVKDKSIVGHASEWMIMRDLLSVGIAIYDEFPEMYNLAAGRFFKEHLV
ARNWFYPSHNYHQGMSYLNVRFTNDLFALWILDRMGAGNVFNPGQQFILYDAIYKRRPDG
QILAGGDVDYSRKKPKYYTMPALLAGSYYKDEYLNYEFLKDPNVEPHCKLFEFLWRDTQL
GSRKPDDLPLSRYSGSPFGWMIARTGWGPESVIAEMKVNEYSFLNHQHQDAGAFQIYYKG
PLAIDAGSYTGSSGGYNSPHNKNFFKRTIAHNSLLIYDPKETFSSSGYGGSDHTDFAAND
GGQRLPGKGWIAPRDLKEMLAGDFRTGKILAQGFGPDNQTPDYTYLKGDITAAYSAKVKE
VKRSFLFLNLKDAKVPAAMIVFDKVVASNPDFKKFWLLHSIEQPEIKGNQITIKRTKNGD
SGMLVNTALLPDAANSNITSIGGKGKDFWVFGTNYTNDPKPGTDEALERGEWRVEITPKK
AAAEDYYLNVIQIADNTQQKLHEVKRIDGDKVVGVQLADRIVTFSKTSETVDRPFGFSVV
GKGTFKFVMTDLLPGTWQVLKDGKILYPALSAKGDDGPLYFEGTEGTYRFLR
|
| Sequence Around Glycosites (21 AA) | GREAITSIIDTLETATFKPAG |
| Glycosite Sequence Logo | seqlogo |
| Glycosite Sequence Logo |  |
| Technique(s) used for Glycosylation Detection | Presence of multiple isoforms in the RPHPLC (reverse-phase high pressure liquid chromatography) profile, and mass excess (approx. 1.3 kDa) detected using mass spectrometry. |
| Technique(s) used for Glycosylated Residue(s) Detection | Crystallographic analysis (electron density maps) |
| Protein Glycosylation- Implication | |
| Glycan Information |
| Glycan Annotation | Linkage: Man-Thr.
Tetrasaccharide glycan observed in crystal structure: Man-(Rha)-GlcUA-Xyl (xylose-β (1–4)glucuronic acid-α(1–2)[rhamnose-α(1–4)]mannose-α(1-O)Ser. Two more sugars were visible but their density was too weak to be reliably modeled. The branched Rha sugar fills a depression in the protein surface while the remaining sugars extend away from the surface of the protein. |
| Technique(s) used for Glycan Identification | Crystallographic analysis (electron density maps) |
| Protein Glycosylation linked (PGL) gene(s) |
| OST Gene Name | |
| OST NCBI Gene ID | |
| OST GenBank Gene Sequence | |
| OST Protein Name | |
| OST UniProtKB/ SwissProt ID | |
| OST NCBI RefSeq | |
| OST EMBL-CDS | |
| OST UniProtKB Sequence | |
| OST EC Number (BRENDA) | |
| OST Genome Context | |
| Characterized Accessory Gene(s) | Information currently not available with us. |
| PGL Additional Links | CAZy |
| Literatures |
| Reference(s) | 1) 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]
2) 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] |
| Additional Comments | Sequon features: Asp-Thr consensus sequon is found in this protein. |
| Year of Identification | 1996 |
| Year of Validation | 2006 |
