8CD0 | pdb_00008cd0

Human heparan sulfate N-deacetylase-N-sulfotransferase 1 in complex with calcium, 3'-phosphoadenosine-5'-phosphosulfate, and nanobody nAb7 (composite map and model)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	P-loop nucleotide/nucleoside kinase-like	8054278	3002021	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B [auth C]	TSP_1	e8cd0C01	A: alpha bundles	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: TSP_1	ECOD (develop294)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth C]	Heavy Chain	IGHV1	-	bifunctional heparan sulfate n-deacetylase/n-sulfotransferase 1	SAbDab (2026-03-20)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF12062	Heparan sulfate-N-deacetylase, deacetylase domain (HSNSD-CE)	Heparan sulfate-N-deacetylase, deacetylase domain	This entry includes heparan sulfate N-deacetylase enzymes and it represents the deacetylase domain which has a fold closely related to the CE domain of Agd3 from A. fumigatus [2].	Domain
A	PF00685	Sulfotransferase domain (Sulfotransfer_1)	Sulfotransferase domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth C]	Nanobody nAb7	-	-	-
A	Bifunctional heparan sulfate N-deacetylase/N-sulfotransferase 1	deacetylase activity hydrolase activity, acting on ester bonds deacylase activity carboxylic ester hydrolase activity hydrolase activity heparan sulfate N-deacetylase activity catalytic activity heparan sulfate sulfotransferase activity transferase activity, transferring sulphur-containing groups sulfotransferase activity proteoglycan sulfotransferase activity transferase activity heparan sulfate N-sulfotransferase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides deacetylase activity hydrolase activity, acting on ester bonds deacylase activity carboxylic ester hydrolase activity hydrolase activity heparan sulfate N-deacetylase activity catalytic activity heparan sulfate sulfotransferase activity transferase activity, transferring sulphur-containing groups sulfotransferase activity proteoglycan sulfotransferase activity transferase activity heparan sulfate N-sulfotransferase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides N-acetylglucosamine deacetylase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds	developmental process multicellular organismal process head development animal organ development brain development nervous system development multicellular organism development central nervous system development midbrain development anatomical structure development system development heart development cardiac septum development cardiac chamber development developmental process multicellular organismal process head development animal organ development brain development nervous system development multicellular organism development central nervous system development midbrain development anatomical structure development system development heart development cardiac septum development cardiac chamber development circulatory system development embryonic organ morphogenesis embryonic viscerocranium morphogenesis embryonic cranial skeleton morphogenesis chordate embryonic development embryonic morphogenesis embryo development anatomical structure morphogenesis embryo development ending in birth or egg hatching skeletal system development cranial skeletal system development animal organ morphogenesis embryonic skeletal system development skeletal system morphogenesis embryonic organ development embryonic skeletal system morphogenesis carbohydrate derivative biosynthetic process heparin proteoglycan biosynthetic process glycoprotein biosynthetic process carbohydrate derivative metabolic process primary metabolic process glycoprotein metabolic process macromolecule biosynthetic process biosynthetic process protein O-linked glycosylation via xylose protein O-linked glycosylation metabolic process cellular process protein metabolic process macromolecule metabolic process proteoglycan metabolic process heparin proteoglycan metabolic process cell population proliferation respiratory gaseous exchange by respiratory system cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction cell communication positive regulation of response to stimulus positive regulation of smoothened signaling pathway signal transduction positive regulation of cellular process regulation of smoothened signaling pathway regulation of biological process regulation of signaling cell surface receptor signaling pathway biological regulation smoothened signaling pathway regulation of response to stimulus regulation of cell communication positive regulation of signaling artery development aorta development vasculature development blood vessel development proteoglycan biosynthetic process heparan sulfate proteoglycan biosynthetic process heparan sulfate proteoglycan metabolic process forebrain development intracellular signal transduction regulation of intracellular signal transduction intracellular signaling cassette positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade carbohydrate metabolic process polysaccharide metabolic process polysaccharide biosynthetic process carbohydrate biosynthetic process response to fibroblast growth factor cellular response to growth factor stimulus response to endogenous stimulus cell surface receptor protein tyrosine kinase signaling pathway cellular response to endogenous stimulus fibroblast growth factor receptor signaling pathway response to growth factor cellular response to fibroblast growth factor stimulus enzyme-linked receptor protein signaling pathway embryonic neurocranium morphogenesis defense response response to stress inflammatory response glycosaminoglycan metabolic process aminoglycan metabolic process coronary vasculature development	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system Golgi membrane membrane bounding membrane of organelle organelle membrane Golgi apparatus subcompartment membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system Golgi membrane membrane bounding membrane of organelle organelle membrane Golgi apparatus subcompartment organelle subcompartment trans-Golgi network membrane trans-Golgi network

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000863	Sulfotransferase domain	Domain
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR021930	Heparan sulphate-N-deacetylase, deacetylase domain	Domain
A	IPR037359	Heparan sulfate sulfotransferase	Family
A	IPR056793	Heparan sulfate-N-deacetylase, N-terminal domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P52848	intellectual disability, autosomal recessive 46 intellectual disability Eye Abnormalities gastrointestinal stromal tumor cerebral cortical dysplasia lung carcinoma psoriasis large cell medulloblastoma lung adenocarcinoma malignant mesothelioma

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.