Annotations: 8UCM

Komagataella pastoris Cytochrome c oxidase in complex with human VMAT2 and Reserpine

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
A	WD40	e8ucmA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B [auth a]	WD40	e8ucma1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
C [auth b]	WD40	e8ucmb1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
D [auth c]	WD40	e8ucmc1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
E [auth d]	WD40	e8ucmd1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
F [auth e]	WD40	e8ucme1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
G [auth f]	WD40	e8ucmf1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
H [auth g]	WD40	e8ucmg1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
I [auth h]	WD40	e8ucmh1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF07690	Major Facilitator Superfamily (MFS_1)	Major Facilitator Superfamily	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Synaptic vesicular amine transporter	monoatomic cation transmembrane transporter activity monoamine:proton antiporter activity antiporter activity proton transmembrane transporter activity active transmembrane transporter activity monoamine transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity secondary active transmembrane transporter activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity solute:sodium symporter activity solute:monoatomic cation symporter activity monoatomic cation transmembrane transporter activity monoamine:proton antiporter activity antiporter activity proton transmembrane transporter activity active transmembrane transporter activity monoamine transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity secondary active transmembrane transporter activity monoatomic anion transmembrane transporter activity chloride transmembrane transporter activity solute:sodium symporter activity solute:monoatomic cation symporter activity monoatomic anion:sodium symporter activity sodium ion transmembrane transporter activity serotonin:sodium:chloride symporter activity sodium:chloride symporter activity monoatomic anion:monoatomic cation symporter activity chloride:monoatomic cation symporter activity metal ion transmembrane transporter activity symporter activity	localization transport neurotransmitter transport establishment of localization behavior multicellular organismal process locomotory behavior regulation of biological process cellular localization nitrogen compound transport secretion signaling biological regulation export from cell localization transport neurotransmitter transport establishment of localization behavior multicellular organismal process locomotory behavior regulation of biological process cellular localization nitrogen compound transport secretion signaling biological regulation export from cell cell-cell signaling organic hydroxy compound transport dopamine secretion cell communication catecholamine secretion secretion by cell signal release establishment of localization in cell cellular process somato-dendritic dopamine secretion import into cell serotonin uptake neurotransmitter uptake neurotransmitter reuptake reactive oxygen species biosynthetic process regulation of biosynthetic process regulation of cellular process negative regulation of metabolic process reactive oxygen species metabolic process negative regulation of biological process regulation of reactive oxygen species biosynthetic process negative regulation of reactive oxygen species metabolic process biosynthetic process negative regulation of reactive oxygen species biosynthetic process negative regulation of biosynthetic process negative regulation of cellular process metabolic process regulation of metabolic process regulation of reactive oxygen species metabolic process establishment of organelle localization regulated exocytosis response to stimulus cell activation involved in immune response leukocyte degranulation vesicle-mediated transport myeloid leukocyte activation myeloid leukocyte mediated immunity leukocyte mediated immunity regulation of biological quality immune response regulation of hormone levels histamine secretion by mast cell vacuolar localization mast cell degranulation immune effector process histamine secretion involved in inflammatory response exocytosis lysosome localization inflammatory response histamine production involved in inflammatory response hormone secretion histamine secretion leukocyte activation organelle localization response to stress leukocyte activation involved in immune response histamine transport mast cell activation mast cell mediated immunity production of molecular mediator involved in inflammatory response defense response cell activation myeloid cell activation involved in immune response mast cell activation involved in immune response immune system process exocytic process hormone transport response to chemical response to toxic substance histamine uptake trans-synaptic signaling synaptic signaling anterograde trans-synaptic signaling chemical synaptic transmission serotonin secretion serotonin production involved in inflammatory response serotonin secretion involved in inflammatory response serotonin secretion by mast cell synaptic vesicle cycle vesicle-mediated transport in synapse amine transport intercellular transport aminergic neurotransmitter loading into synaptic vesicle neurotransmitter loading into synaptic vesicle response to amine response to nitrogen compound response to amphetamine developmental process multicellular organism development anatomical structure development post-embryonic development	cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure clathrin-sculpted vesicle intracellular vesicle transport vesicle membrane endomembrane system intracellular organelle bounding membrane of organelle vesicle membrane cytoplasmic vesicle clathrin-coated vesicle coated vesicle cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure clathrin-sculpted vesicle intracellular vesicle transport vesicle membrane endomembrane system intracellular organelle bounding membrane of organelle vesicle membrane cytoplasmic vesicle clathrin-coated vesicle coated vesicle vesicle clathrin-coated vesicle membrane clathrin-sculpted monoamine transport vesicle transport vesicle intracellular membrane-bounded organelle clathrin-sculpted monoamine transport vesicle membrane cytoplasmic vesicle membrane coated vesicle membrane organelle cytoplasm organelle membrane axon synapse neuron projection axon terminus plasma membrane bounded cell projection presynapse cell projection distal axon terminal bouton cell junction neuron projection terminus centrosome microtubule organizing center cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cell periphery plasma membrane somatodendritic compartment dendrite dendritic tree dopaminergic synapse secretory granule secretory vesicle secretory granule membrane synaptic vesicle synaptic vesicle membrane exocytic vesicle membrane exocytic vesicle
B [auth a]	Cytochrome c oxidase subunit 1	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreductase activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity oxidoreductase activity, acting on a heme group of donors monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity catalytic activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreductase activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity oxidoreductase activity, acting on a heme group of donors monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity catalytic activity binding tetrapyrrole binding heme binding cation binding ion binding metal ion binding small molecule binding	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport electron transport coupled proton transport aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport electron transport coupled proton transport transport proton transmembrane transport monoatomic ion transmembrane transport establishment of localization monoatomic cation transmembrane transport transmembrane transport localization energy coupled proton transmembrane transport, against electrochemical gradient monoatomic ion transport monoatomic cation transport	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane respiratory chain complex protein-containing complex catalytic complex cytochrome complex membrane protein complex respiratory chain complex IV transporter complex transmembrane transporter complex oxidoreductase complex
C [auth b]	Cytochrome c oxidase subunit 2	oxidoreductase activity catalytic activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity oxidoreductase activity, acting on a heme group of donors monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity oxidoreductase activity catalytic activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity oxidoreductase activity, acting on a heme group of donors monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane respiratory chain complex protein-containing complex catalytic complex cytochrome complex membrane protein complex respiratory chain complex IV transporter complex transmembrane transporter complex oxidoreductase complex
D [auth c]	Cytochrome c oxidase subunit 3	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreductase activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity oxidoreductase activity, acting on a heme group of donors monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity catalytic activity	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane respiratory chain complex protein-containing complex catalytic complex cytochrome complex membrane protein complex respiratory chain complex IV transporter complex transmembrane transporter complex oxidoreductase complex
E [auth d]	Cytochrome c oxidase subunit 4	cation binding ion binding binding metal ion binding small molecule binding	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane respiratory chain complex protein-containing complex catalytic complex cytochrome complex membrane protein complex respiratory chain complex IV transporter complex transmembrane transporter complex oxidoreductase complex
F [auth e]	Cytochrome c oxidase subunit 5	oxidoreductase activity catalytic activity	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane respiratory chain complex protein-containing complex catalytic complex cytochrome complex membrane protein complex respiratory chain complex IV transporter complex transmembrane transporter complex oxidoreductase complex
G [auth f]	Cytochrome c oxidase subunit 6	cation binding ion binding binding metal ion binding small molecule binding	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane respiratory chain complex protein-containing complex catalytic complex cytochrome complex membrane protein complex respiratory chain complex IV transporter complex transmembrane transporter complex oxidoreductase complex
H [auth g]	Cytochrome c oxidase subunit 7	-	-	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane
I [auth h]	Cytochrome c oxidase subunit 8	-	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane respiratory chain complex protein-containing complex catalytic complex cytochrome complex membrane protein complex respiratory chain complex IV transporter complex transmembrane transporter complex oxidoreductase complex
J [auth i]	Cytochrome c oxidase subunit 9	oxidoreductase activity catalytic activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity oxidoreductase activity, acting on a heme group of donors monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity	aerobic respiration cellular respiration aerobic electron transport chain oxidative phosphorylation energy derivation by oxidation of organic compounds ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy mitochondrial electron transport, cytochrome c to oxygen respiratory electron transport chain metabolic process cellular process mitochondrial ATP synthesis coupled electron transport	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR011701	Major facilitator superfamily	Family
A	IPR050930	Major Facilitator Superfamily Vesicular Transporter	Family
A	IPR020846	Major facilitator superfamily domain	Domain
A	IPR036259	MFS transporter superfamily	Homologous Superfamily
B [auth a]	IPR036927	Cytochrome c oxidase-like, subunit I superfamily	Homologous Superfamily
B [auth a]	IPR000883	Cytochrome c oxidase subunit I	Family
B [auth a]	IPR023615	Cytochrome c oxidase, subunit I, copper-binding site	Binding Site
B [auth a]	IPR023616	Cytochrome c oxidase-like, subunit I domain	Domain
B [auth a]	IPR033944	Cytochrome c oxidase subunit I domain	Domain
C [auth b]	IPR011759	Cytochrome C oxidase subunit II, transmembrane domain	Domain
C [auth b]	IPR036257	Cytochrome C oxidase subunit II, transmembrane domain superfamily	Homologous Superfamily
C [auth b]	IPR034210	Cytochrome c oxidase subunit 2, C-terminal	Domain
C [auth b]	IPR045187	Cytochrome c/quinol oxidase subunit II	Family
C [auth b]	IPR002429	Cytochrome c oxidase subunit II-like C-terminal	Domain
C [auth b]	IPR008972	Cupredoxin	Homologous Superfamily
C [auth b]	IPR001505	Copper centre Cu(A)	Binding Site
C [auth b]	IPR014222	Cytochrome c oxidase, subunit II	Domain
D [auth c]	IPR035973	Cytochrome c oxidase subunit III-like superfamily	Homologous Superfamily
D [auth c]	IPR013833	Cytochrome c oxidase, subunit III, 4-helical bundle	Homologous Superfamily
D [auth c]	IPR000298	Cytochrome c oxidase subunit III-like	Domain
D [auth c]	IPR033945	Cytochrome c oxidase subunit III domain	Domain
D [auth c]	IPR024791	Cytochrome c oxidase subunit III	Family
E [auth d]	IPR002124	Cytochrome c oxidase, subunit Vb	Family
E [auth d]	IPR036972	Cytochrome c oxidase, subunit Vb superfamily	Homologous Superfamily
F [auth e]	IPR004203	Cytochrome c oxidase subunit IV family	Family
F [auth e]	IPR036639	Cytochrome c oxidase subunit IV superfamily	Homologous Superfamily
G [auth f]	IPR003204	Cytochrome c oxidase, subunit Va/VI	Family
G [auth f]	IPR036545	Cytochrome c oxidase, subunit Va/VI superfamily	Homologous Superfamily
H [auth g]	IPR039297	Cytochrome c oxidase subunit VII	Family
I [auth h]	IPR036636	Cytochrome c oxidase subunit VIIc superfamily	Homologous Superfamily
I [auth h]	IPR004202	Cytochrome c oxidase subunit VIIc	Family
J [auth i]	IPR014368	Cytochrome c oxidase, subunit VIIa, fungal	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	: Q05940	Parkinson disease Nerve Degeneration nervous system disorder large cell medulloblastoma obesity disorder parkinsonian disorder parkinsonism-dystonia, infantile, 2 psoriasis schizophrenia brain dopamine-serotonin vesicular transport disease cutaneous lupus erythematosus hypertensive disorder osteosarcoma atopic eczema psychotic disorder Parkinson disease Nerve Degeneration nervous system disorder large cell medulloblastoma obesity disorder parkinsonian disorder parkinsonism-dystonia, infantile, 2 psoriasis schizophrenia brain dopamine-serotonin vesicular transport disease cutaneous lupus erythematosus hypertensive disorder osteosarcoma atopic eczema psychotic disorder binge eating disorder cocaine dependence depressive disorder head and neck cancer invasive ductal breast carcinoma narcolepsy non-small cell lung carcinoma attention deficit hyperactivity disorder, inattentive type autosomal recessive juvenile Parkinson disease 2 bipolar disorder dystonic disorder Huntington disease

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B [auth a], C [auth b], D [auth c], E [auth d] A, B [auth a], C [auth b], D [auth c], E [auth d], F [auth e], G [auth f], H [auth g], I [auth h], J [auth i]	PDBTM	Annotated as membrane protein by PDBTM