9EOT | pdb_00009eot

Structure of human ceramide synthase 6 (CerS6) bound to C16:0 (nanobody Nb02)

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	Ank, Ank_2, Ank_4, Ank_5	e9eotB01	A: alpha bundles	X: Helical bundle insertion in helicase domains	H: Helical bundle in Hef helicase	T: Helical bundle in Hef helicase	F: Ank, Ank_2, Ank_4, Ank_5	ECOD (develop294)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B, C [auth D]	Heavy Chain	IGHV1	-	isoform 2 of ceramide synthase 6	SAbDab (2026-03-20)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D [auth C]	PF00046	Homeodomain (Homeodomain)	Homeodomain		Domain
A, D [auth C]	PF03798	TLC domain (TRAM_LAG1_CLN8)	TLC domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, C [auth D]	Nanobody-02	-	-	-
A, D [auth C]	Isoform 2 of Ceramide synthase 6	DNA binding binding nucleic acid binding acyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity sphingosine N-acyltransferase activity catalytic activity N-acyltransferase activity	developmental process multicellular organismal process oligodendrocyte development cellular developmental process cell development nervous system development glial cell development multicellular organism development neurogenesis central nervous system development gliogenesis oligodendrocyte differentiation glial cell differentiation cell differentiation anatomical structure development developmental process multicellular organismal process oligodendrocyte development cellular developmental process cell development nervous system development glial cell development multicellular organism development neurogenesis central nervous system development gliogenesis oligodendrocyte differentiation glial cell differentiation cell differentiation anatomical structure development cellular process system development regulation of glial cell apoptotic process regulation of biological process oligodendrocyte apoptotic process regulation of cellular process positive regulation of programmed cell death positive regulation of glial cell apoptotic process regulation of apoptotic process positive regulation of oligodendrocyte apoptotic process biological regulation positive regulation of biological process regulation of programmed cell death cell death positive regulation of apoptotic process glial cell apoptotic process regulation of oligodendrocyte apoptotic process apoptotic process programmed cell death positive regulation of cellular process ceramide metabolic process sphingolipid biosynthetic process biosynthetic process ceramide biosynthetic process lipid biosynthetic process sphingolipid metabolic process primary metabolic process metabolic process lipid metabolic process response to stimulus defense response response to stress inflammatory response	cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D [auth C]	IPR009057	Homedomain-like superfamily	Homologous Superfamily
A, D [auth C]	IPR006634	TRAM/LAG1/CLN8 homology domain	Domain
A, D [auth C]	IPR001356	Homeodomain	Domain
A, D [auth C]	IPR016439	Sphingosine N-acyltransferase Lag1/Lac1-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, D [auth C]	Pharos: Q6ZMG9	non-small cell lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Prescription Drug Abuse breast cancer substance abuse cystic fibrosis drug dependence tuberculosis ductal breast carcinoma in situ large cell medulloblastoma lung carcinoma malignant pancreatic neoplasm pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma non-small cell lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia Prescription Drug Abuse breast cancer substance abuse cystic fibrosis drug dependence tuberculosis ductal breast carcinoma in situ large cell medulloblastoma lung carcinoma malignant pancreatic neoplasm pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma psoriasis breast carcinoma diabetes mellitus substance-related disorder glioblastoma lung adenocarcinoma malignant ependymoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm pituitary cancer rheumatoid arthritis cutaneous lupus erythematosus substance dependence invasive ductal breast carcinoma lung cancer malignant mesothelioma

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, D [auth C]	PDBTM	Annotated as membrane protein by PDBTM

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.