ProGlyProt IDBC164
Organism Information
Organism NamePedobacter heparinus (strain ATCC 13125 / DSM 2366 / NCIB 9290)
DomainBacteria
ClassificationFamily: Sphingobacteriaceae
Order: "Sphingobacteriales"
Class: "Sphingobacteria"
Division or phylum: "Bacteroidetes"
Taxonomic ID (NCBI)485917
Genome Sequence (s)
GeneBankCP001681.1
EMBLCP001681
Gene Information
Gene NamecslB (Phep_0789)
NCBI Gene ID8251878
GenBank Gene Sequence8251878
Protein Information
Protein NameChondroitinase-B
UniProtKB/SwissProt IDQ46079
NCBI RefSeqYP_003091073.1
EMBL-CDSACU03011.1
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 LocationPeriplasm
FunctionGAG lyase. Cleaves the glycosaminoglycan, dermatan sulfate. EC= 4.2.2.19.
Protein Structure
PDB ID1DBG, 1DBO
Glycosylation Status
Glycosylation TypeO (Ser) linked
Experimentally Validated Glycosite(s) in Full Length ProteinS234
Experimentally Validated Glycosite(s ) in Mature ProteinS234
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
Glycosite Sequence Logoseqlogo
Glycosite Sequence Logo
Technique(s) used for Glycosylation DetectionDeduced Crystal structure
Technique(s) used for Glycosylated Residue(s) DetectionCrystallographic analysis (electron density maps)
Protein Glycosylation- Implication
Glycan Information
Glycan AnnotationLinkages: 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.
Technique(s) used for Glycan IdentificationCrystallographic 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 LinksCAZy
Literatures
Reference(s)1) 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. J Biol Chem, 279, 32882-32896. [PubMed: 15155751]
2) 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
Additional CommentsSequon features: Identified glycosylation Sequon features: Consensus sequon observed Asp-Ser or Asp-Thr-Thr, at turns.
Year of Identification1999
Year of Validation1999