ProGP166 (Chondroitinase-B)
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| ProGP ID | ProGP166 (Chondroitinase-B) |
| Validation Status | Characterized |
| Organism Information | |
| Organism Name | Pedobacter heparinus (strain ATCC 13125 / DSM 2366 / NCIB 9290) |
| Domain | Bacteria |
| Classification | Phylum : Bacteroidetes Class : Sphingobacteriia Orders : Sphingobaccteriales Family : Sphingobacteriaceae Genus : Pedobacter Species : heparinus Strain : ATCC 13125 / DSM 2366 / NCIB 9290 |
| Taxonomic ID (NCBI) | 485917 |
| Genome Information | |
| GenBank | CP001681.1 |
| EMBL | CP001681 |
| Organism Additional Information | Pedobacter heparinus is a Gram-negative, nonpathogenic soil organism. |
| Gene Information | |
| Gene Name | cslB (Phep_0789) |
| NCBI Gene ID | 8251878 |
| GenBank Gene Sequence | NC_013061 |
| Protein Information | |
| Protein Name | Chondroitinase-B |
| UniProtKB/SwissProt ID | Q46079 |
| NCBI RefSeq | WP_012780957.1 |
| EMBL-CDS | ACU03011.1 |
| UniProtKB Sequence | >sp|Q46079|CSLB_PEDHD Chondroitinase-B OS=Pedobacter heparinus (strain ATCC 13125 / DSM 2366 / NCIB 9290) GN=cslB PE=1 SV=2 MKMLNKLAGYLLPIMVLLNVAPCLGQVVASNETLYQVVKEVKPGGLVQIADGTYKDVQLI VSNSGKSGLPITIKALNPGKVFFTGDAKVELRGEHLILEGIWFKDGNRAIQAWKSHGPGL VAIYGSYNRITACVFDCFDEANSAYITTSLTEDGKVPQHCRIDHCSFTDKITFDQVINLN NTARAIKDGSVGGPAMYHRVDHCFFSNPQKPGNAGGGIRIGYYRNDIGRCLVDSNLFMRQ DSEAEIITSKSQENVYYGNTYLNCQGTMNFRHGDHQVAINNFYIGNDQRFGYGGMFVWGS RHVIACNYFELSETIKSRGNAALYLNPGAMASEHALAFDMLIANNAFINVNGYAIHFNPL DERRKEYCAANRLKFETPHQLMLKGNLFFKDKPYVYPFFKDDYFIAGKNSWTGNVALGVE KGIPVNISANRSAYKPVKIKDIQPIEGIALDLNALISKGITGKPLSWDEVRPYWLKEMPG TYALTARLSADRAAKFKAVIKRNKEH |
| Sequence length | 506 AA |
| Subcellular Location | Periplasm |
| Function | GAG lyase. Cleaves the glycosaminoglycan, dermatan sulfate. EC= 4.2.2.19. |
| Protein Structure | |
| PDB ID | 1DBG, 1DBO, 1OFL, 1OFM |
| Glycosylation Status | |
| Glycosylation Type | O- (Ser) linked |
| Experimentally Validated Glycosite(s) in Full Length Protein | S234 |
| Experimentally Validated Glycosite(s ) in Mature Protein | S234 |
| Glycosite(s) Annotated Protein Sequence | >sp|Q46079|CSLB_PEDHD Chondroitinase-B OS=Pedobacter heparinus (strain ATCC 13125 / DSM 2366 / NCIB 9290) GN=cslB PE=1 SV=2 MKMLNKLAGYLLPIMVLLNVAPCLGQVVASNETLYQVVKEVKPGGLVQIADGTYKDVQLI VSNSGKSGLPITIKALNPGKVFFTGDAKVELRGEHLILEGIWFKDGNRAIQAWKSHGPGL VAIYGSYNRITACVFDCFDEANSAYITTSLTEDGKVPQHCRIDHCSFTDKITFDQVINLN NTARAIKDGSVGGPAMYHRVDHCFFSNPQKPGNAGGGIRIGYYRNDIGRCLVDS*(234)NLFMRQ DSEAEIITSKSQENVYYGNTYLNCQGTMNFRHGDHQVAINNFYIGNDQRFGYGGMFVWGS RHVIACNYFELSETIKSRGNAALYLNPGAMASEHALAFDMLIANNAFINVNGYAIHFNPL DERRKEYCAANRLKFETPHQLMLKGNLFFKDKPYVYPFFKDDYFIAGKNSWTGNVALGVE KGIPVNISANRSAYKPVKIKDIQPIEGIALDLNALISKGITGKPLSWDEVRPYWLKEMPG TYALTARLSADRAAKFKAVIKRNKEH |
| Sequence Around Glycosites (21 AA) | RNDIGRCLVDSNLFMRQDSEA |
| Technique(s) used for Glycosylation Detection | Deduced Crystal structure |
| Technique(s) used for Glycosylated Residue(s) Detection | Crystallographic analysis (electron density maps) |
| Glycan Information | |
| Glycan Annotation | Linkages: Man- Ser. The approx. weight of attached glycan was 1180 Da. Branched heptasaccharide is: galactose-β(1-4)[galactose-α(1-3)](2-O-Me)fucose-β(1-4)xylose-β (1-4)glucuronic acid-α(1-2)[rhamnose-α(1-4)]mannose-α(1-O)Ser. |
| GlyTouCan | G07644FE |
| Technique(s) used for Glycan Identification | Crystallographic analysis (electron density maps) |
| Protein Glycosylation linked (PGL) gene(s) | |
| Additional Comment | Sequon features: Identified glycosylation Sequon features: Consensus sequon observed Asp-Ser or Asp-Thr-Thr, at turns. |
| Literature | |
| Year of Identification | 1999 |
| Year of Identification Month Wise | 1999 |
| Year of Validation | 1999 |
| Reference | Michel, G., Pojasek, K., Li, Y., Sulea, T., Linhardt, R.J., Raman, R., Prabhakar, V., Sasisekharan, R. and Cygler, M., 2004. The structure of chondroitin B lyase complexed with glycosaminoglycan oligosaccharides unravels a calcium-dependent catalytic machinery. Journal of Biological Chemistry, 279(31), pp.32882-32896. |
| Corresponding Author | Miroslaw Cygler |
| Contact | Biotechnology Research Institute, National Research Council of Canada, Montreal, Quebec H4P 2R2, Canada. |
| Reference | Huang, W., Matte, A., Li, Y., Kim, Y.S., Linhardt, R.J., Su, H. and Cygler, M., 1999. Crystal structure of chondroitinase B from Flavobacterium heparinum and its complex with a disaccharide product at 1.7 Å resolution. Journal of molecular biology, 294(5), pp.1257-1269. |
| Corresponding Author | Miroslaw Cygler |
| Contact | Biotechnology Research Institute, National Research Council of Canada, 6100 Royalmount Avenue, Montréal, Québec, Canada H4P 2R2. |