Annotations: 6M4N

Cryo-EM structure of the dimeric SPT-ORMDL3 complex

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	AAA	e6m4nF1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA	ECOD (v295.2)
B	Syntaxin	e6m4nB01	A: alpha arrays	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Syntaxin	ECOD (v295.2)
E	AAA	e6m4nE1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA	ECOD (v295.2)
A	AAA	e6m4nA1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: AAA	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	3.40.640.10	Alpha Beta	3-Layer(aba) Sandwich	Aspartate Aminotransferase	domain 2	CATH (utative)
A	3.40.640.10	Alpha Beta	3-Layer(aba) Sandwich	Aspartate Aminotransferase	domain 2	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D, H	PF11779	Small subunit of serine palmitoyltransferase-like (SPT_ssu-like)	Small subunit of serine palmitoyltransferase-like	-	Family
B, F	PF00155	Aminotransferase class I and II (Aminotran_1_2)	Aminotransferase class I and II		Domain
A, E	PF00155	Aminotransferase class I and II (Aminotran_1_2)	Aminotransferase class I and II		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D, H	Serine palmitoyltransferase small subunit A	C-palmitoyltransferase activity acyltransferase activity serine C-palmitoyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity palmitoyltransferase activity catalytic activity	polyol metabolic process sphingoid biosynthetic process sphingolipid biosynthetic process small molecule biosynthetic process lipid biosynthetic process sphingolipid metabolic process primary metabolic process alcohol metabolic process diol biosynthetic process sphingosine metabolic process sphingoid metabolic process sphingosine biosynthetic process diol metabolic process biosynthetic process polyol biosynthetic process polyol metabolic process sphingoid biosynthetic process sphingolipid biosynthetic process small molecule biosynthetic process lipid biosynthetic process sphingolipid metabolic process primary metabolic process alcohol metabolic process diol biosynthetic process sphingosine metabolic process sphingoid metabolic process sphingosine biosynthetic process diol metabolic process biosynthetic process polyol biosynthetic process alcohol biosynthetic process metabolic process cellular process small molecule metabolic process lipid metabolic process ceramide metabolic process ceramide biosynthetic process sphingomyelin biosynthetic process phospholipid biosynthetic process phospholipid metabolic process organophosphate metabolic process organophosphate biosynthetic process phosphorus metabolic process sphingomyelin metabolic process carbohydrate derivative biosynthetic process glycolipid metabolic process glycosphingolipid metabolic process liposaccharide metabolic process carbohydrate derivative metabolic process glycolipid biosynthetic process glycosphingolipid biosynthetic process localization macromolecule localization intracellular protein localization	membrane-bounded organelle intracellular anatomical structure organelle subcompartment cytoplasmic side of membrane membrane intracellular membrane-bounded organelle endomembrane system side of membrane endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane-bounded organelle intracellular anatomical structure organelle subcompartment cytoplasmic side of membrane membrane intracellular membrane-bounded organelle endomembrane system side of membrane endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasmic side of endoplasmic reticulum membrane cytoplasm organelle membrane endoplasmic reticulum membrane serine palmitoyltransferase complex protein-containing complex catalytic complex palmitoyltransferase complex transferase complex
C, G	ORM1-like protein 3	-	regulation of localization regulation of biological process regulation of protein localization positive regulation of protein localization to nucleus biological regulation positive regulation of biological process regulation of protein localization to nucleus protein localization to nucleus localization macromolecule localization protein localization to organelle positive regulation of protein localization intracellular protein localization regulation of cellular process regulation of localization regulation of biological process regulation of protein localization positive regulation of protein localization to nucleus biological regulation positive regulation of biological process regulation of protein localization to nucleus protein localization to nucleus localization macromolecule localization protein localization to organelle positive regulation of protein localization intracellular protein localization regulation of cellular process sphingolipid biosynthetic process regulation of lipid metabolic process negative regulation of biological process lipid biosynthetic process negative regulation of lipid biosynthetic process regulation of primary metabolic process cellular component biogenesis regulation of sphingolipid biosynthetic process negative regulation of cellular process cellular component organization or biogenesis regulation of ceramide biosynthetic process negative regulation of sphingolipid biosynthetic process regulation of biosynthetic process ceramide metabolic process negative regulation of metabolic process primary metabolic process sphingolipid metabolic process regulation of macromolecule metabolic process regulation of cellular component biogenesis macromolecule biosynthetic process negative regulation of ceramide biosynthetic process biosynthetic process negative regulation of biosynthetic process ceramide biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process regulation of lipid biosynthetic process macromolecule metabolic process regulation of metabolic process negative regulation of lipid metabolic process lipid metabolic process positive regulation of autophagy catabolic process autophagy regulation of catabolic process regulation of autophagy positive regulation of catabolic process positive regulation of metabolic process process utilizing autophagic mechanism positive regulation of cellular process regulation of leukocyte apoptotic process regulation of lymphocyte apoptotic process regulation of B cell apoptotic process negative regulation of programmed cell death leukocyte apoptotic process regulation of apoptotic process B cell apoptotic process regulation of programmed cell death cell death negative regulation of B cell apoptotic process lymphocyte apoptotic process negative regulation of apoptotic process negative regulation of leukocyte apoptotic process apoptotic process programmed cell death negative regulation of lymphocyte apoptotic process	cell periphery cellular anatomical structure plasma membrane membrane membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cell periphery cellular anatomical structure plasma membrane membrane membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system specific granule membrane intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle organelle membrane secretory granule membrane specific granule serine palmitoyltransferase complex protein-containing complex catalytic complex palmitoyltransferase complex transferase complex endoplasmic reticulum organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane
B, F	Serine palmitoyltransferase 2	C-palmitoyltransferase activity acyltransferase activity serine C-palmitoyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity palmitoyltransferase activity catalytic activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding anion binding heterocyclic compound binding C-palmitoyltransferase activity acyltransferase activity serine C-palmitoyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity palmitoyltransferase activity catalytic activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding anion binding heterocyclic compound binding small molecule binding	developmental process connective tissue development adipose tissue development animal organ development anatomical structure development tissue development animal gross anatomical part developmental process polyol metabolic process sphingoid biosynthetic process sphingolipid biosynthetic process small molecule biosynthetic process lipid biosynthetic process sphingolipid metabolic process primary metabolic process developmental process connective tissue development adipose tissue development animal organ development anatomical structure development tissue development animal gross anatomical part developmental process polyol metabolic process sphingoid biosynthetic process sphingolipid biosynthetic process small molecule biosynthetic process lipid biosynthetic process sphingolipid metabolic process primary metabolic process alcohol metabolic process diol biosynthetic process sphingosine metabolic process sphingoid metabolic process sphingosine biosynthetic process diol metabolic process biosynthetic process polyol biosynthetic process alcohol biosynthetic process metabolic process cellular process small molecule metabolic process lipid metabolic process ceramide metabolic process ceramide biosynthetic process sphingomyelin biosynthetic process phospholipid biosynthetic process phospholipid metabolic process organophosphate metabolic process organophosphate biosynthetic process phosphorus metabolic process sphingomyelin metabolic process carbohydrate derivative biosynthetic process glycolipid metabolic process glycosphingolipid metabolic process liposaccharide metabolic process carbohydrate derivative metabolic process glycolipid biosynthetic process glycosphingolipid biosynthetic process positive regulation of autophagy regulation of biological process catabolic process regulation of cellular process lipophagy macroautophagy autophagy biological regulation positive regulation of biological process regulation of catabolic process regulation of autophagy positive regulation of catabolic process positive regulation of metabolic process regulation of macroautophagy positive regulation of lipophagy regulation of lipophagy positive regulation of macroautophagy process utilizing autophagic mechanism regulation of metabolic process positive regulation of cellular process	membrane-bounded organelle intracellular anatomical structure organelle subcompartment cytoplasmic side of membrane membrane intracellular membrane-bounded organelle endomembrane system side of membrane endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane-bounded organelle intracellular anatomical structure organelle subcompartment cytoplasmic side of membrane membrane intracellular membrane-bounded organelle endomembrane system side of membrane endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasmic side of endoplasmic reticulum membrane cytoplasm organelle membrane endoplasmic reticulum membrane serine palmitoyltransferase complex protein-containing complex catalytic complex palmitoyltransferase complex transferase complex
A, E	Serine palmitoyltransferase 1	C-palmitoyltransferase activity acyltransferase activity serine C-palmitoyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity palmitoyltransferase activity catalytic activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding anion binding heterocyclic compound binding C-palmitoyltransferase activity acyltransferase activity serine C-palmitoyltransferase activity acyltransferase activity, transferring groups other than amino-acyl groups transferase activity palmitoyltransferase activity catalytic activity vitamin binding vitamin B6 binding pyridoxal phosphate binding ion binding binding anion binding heterocyclic compound binding small molecule binding	sphingolipid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process polyol metabolic process sphingoid biosynthetic process sphingolipid biosynthetic process small molecule biosynthetic process lipid biosynthetic process alcohol metabolic process diol biosynthetic process sphingosine metabolic process sphingoid metabolic process sphingolipid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process polyol metabolic process sphingoid biosynthetic process sphingolipid biosynthetic process small molecule biosynthetic process lipid biosynthetic process alcohol metabolic process diol biosynthetic process sphingosine metabolic process sphingoid metabolic process sphingosine biosynthetic process diol metabolic process biosynthetic process polyol biosynthetic process alcohol biosynthetic process small molecule metabolic process regulation of biological process regulation of cellular process regulation of apoptotic process biological regulation regulation of programmed cell death cell death regulation of fat cell apoptotic process fat cell apoptotic process apoptotic process programmed cell death ceramide metabolic process ceramide biosynthetic process sphingomyelin biosynthetic process phospholipid biosynthetic process phospholipid metabolic process organophosphate metabolic process organophosphate biosynthetic process phosphorus metabolic process sphingomyelin metabolic process carbohydrate derivative biosynthetic process glycolipid metabolic process glycosphingolipid metabolic process liposaccharide metabolic process carbohydrate derivative metabolic process glycolipid biosynthetic process glycosphingolipid biosynthetic process positive regulation of autophagy catabolic process lipophagy macroautophagy autophagy positive regulation of biological process regulation of catabolic process regulation of autophagy positive regulation of catabolic process positive regulation of metabolic process regulation of macroautophagy positive regulation of lipophagy regulation of lipophagy positive regulation of macroautophagy process utilizing autophagic mechanism regulation of metabolic process positive regulation of cellular process	membrane-bounded organelle intracellular anatomical structure organelle subcompartment cytoplasmic side of membrane membrane intracellular membrane-bounded organelle endomembrane system side of membrane endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane-bounded organelle intracellular anatomical structure organelle subcompartment cytoplasmic side of membrane membrane intracellular membrane-bounded organelle endomembrane system side of membrane endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasmic side of endoplasmic reticulum membrane cytoplasm organelle membrane endoplasmic reticulum membrane serine palmitoyltransferase complex protein-containing complex catalytic complex palmitoyltransferase complex transferase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D, H	IPR024512	Small subunit of serine palmitoyltransferase-like	Family
D, H	IPR051900	Serine palmitoyltransferase small subunit	Family
C, G	IPR007203	ORMDL family	Family
B, F	IPR001917	Aminotransferase, class-II, pyridoxal-phosphate binding site	Binding Site
B, F	IPR015421	Pyridoxal phosphate-dependent transferase, major domain	Homologous Superfamily
B, F	IPR015422	Pyridoxal phosphate-dependent transferase, small domain	Homologous Superfamily
B, F	IPR015424	Pyridoxal phosphate-dependent transferase	Homologous Superfamily
B, F	IPR004839	Aminotransferase, class I/classII, large domain	Domain
B, F	IPR050087	8-amino-7-oxononanoate synthase class-II	Family
A, E	IPR015421	Pyridoxal phosphate-dependent transferase, major domain	Homologous Superfamily
A, E	IPR015422	Pyridoxal phosphate-dependent transferase, small domain	Homologous Superfamily
A, E	IPR015424	Pyridoxal phosphate-dependent transferase	Homologous Superfamily
A, E	IPR004839	Aminotransferase, class I/classII, large domain	Domain
A, E	IPR050087	8-amino-7-oxononanoate synthase class-II	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
D, H	: Q969W0	adrenal cortex carcinoma glioblastoma invasive ductal breast carcinoma malignant colon neoplasm osteosarcoma psoriasis breast cancer hereditary spastic paraplegia lung adenocarcinoma malignant ependymoma ovarian cancer ductal breast carcinoma in situ interstitial lung disease lung cancer malignant glioma adrenal cortex carcinoma glioblastoma invasive ductal breast carcinoma malignant colon neoplasm osteosarcoma psoriasis breast cancer hereditary spastic paraplegia lung adenocarcinoma malignant ependymoma ovarian cancer ductal breast carcinoma in situ interstitial lung disease lung cancer malignant glioma pancreatic ductal adenocarcinoma
C, G	: Q8N138	asthma ulcerative colitis acute lymphoblastic leukemia atrial fibrillation osteosarcoma systemic lupus erythematosus allergic rhinitis cervical cancer primary biliary cholangitis systemic sclerosis Crohn disease rheumatoid arthritis
B, F	: O15270	neuropathy, hereditary sensory and autonomic, type 1C peripheral neuropathy pancreatic intraductal papillary-mucinous neoplasm Riley-Day syndrome atypical teratoid rhabdoid tumor glioblastoma intellectual disability malignant pancreatic neoplasm neurodegenerative disease osteosarcoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pilocytic astrocytoma subependymal giant cell astrocytoma Charcot-Marie-Tooth disease neuropathy, hereditary sensory and autonomic, type 1C peripheral neuropathy pancreatic intraductal papillary-mucinous neoplasm Riley-Day syndrome atypical teratoid rhabdoid tumor glioblastoma intellectual disability malignant pancreatic neoplasm neurodegenerative disease osteosarcoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pilocytic astrocytoma subependymal giant cell astrocytoma Charcot-Marie-Tooth disease hepatocellular carcinoma lung adenocarcinoma medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous carcinoma peripheral nervous system disease psoriasis tuberculosis cutaneous lupus erythematosus Hereditary Sensory Autonomic Neuropathy, Type 1 malignant glioma multiple sclerosis non-small cell lung carcinoma
A, E	: O15269	neuropathy, hereditary sensory and autonomic, type 1A peripheral neuropathy Charcot-Marie-Tooth disease tuberculosis adenoma Emery-Dreifuss muscular dystrophy juvenile dermatomyositis myopathy ovarian cancer peripheral nervous system disease psoriasis astrocytic tumor Hereditary Sensory Autonomic Neuropathy, Type 1 large cell medulloblastoma neurodegenerative disease neuropathy, hereditary sensory and autonomic, type 1A peripheral neuropathy Charcot-Marie-Tooth disease tuberculosis adenoma Emery-Dreifuss muscular dystrophy juvenile dermatomyositis myopathy ovarian cancer peripheral nervous system disease psoriasis astrocytic tumor Hereditary Sensory Autonomic Neuropathy, Type 1 large cell medulloblastoma neurodegenerative disease Riley-Day syndrome intellectual disability pancreatic intraductal papillary-mucinous neoplasm plasma cell myeloma

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D, E A, B, C, D, E, F, G, H	OPM	Transmembrane	Alpha-helical polytopic	ORMDL family	ORMDL family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F, G, H	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F, G, H	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D, E A, B, C, D, E, F, G, H	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	S-acyltransferases	Serine palmitoyltransferase (SPT) in complex with ORMDL3, dimer