9FQ7 | pdb_00009fq7

Perkinsus marinus Respiratory supercomplex CII2CIII2CIV2 in c1 state

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
MC [auth 4q]	LRR_6, LRR_NLRC3	e9fq74q1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: LRR_6, LRR_NLRC3	ECOD (v295.2)
JC [auth 4n]	V-set	e9fq74n1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: V-set	ECOD (v295.2)
WB [auth 4a]		e9fq74a1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: Hypothetical protein YqbG-like	F:	ECOD (v295.2)
PA [auth 3h]	7tm_1	e9fq73h1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: 7tm_1	ECOD (v295.2)
L [auth 2n]	p450	e9fq72n1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: p450	ECOD (v295.2)
OA [auth 3g]	MIOS_a-sol	e9fq73g1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: MIOS_a-sol	ECOD (v295.2)
Y [auth 3C]	Ribosomal_S2	e9fq73C1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Ribosomal_S2	ECOD (v295.2)
JA [auth 3b]	p450	e9fq73b1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: Hypothetical protein YqbG-like	F: p450	ECOD (v295.2)
IA [auth 3a]	RhiE-like_linker	e9fq73a1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: RhiE-like_linker	ECOD (v295.2)
K [auth 2m]	Ribosomal_L4	e9fq72m3	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Ribosomal_L4	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G [auth 2S], Q [auth 2s]	PF20715	Domain of unknown function (DUF6827) (DUF6827)	Domain of unknown function (DUF6827)	This presumed domain is functionally uncharacterised. This domain is predominantly found in sequences from Apicomplexa. There are highly conserved motifs: NWxD, EDxxDH and GxGLAI/LLRQ.	Domain
TB [auth 4X], TC [auth 4x]	PF01215	Cytochrome c oxidase subunit Vb (COX5B)	Cytochrome c oxidase subunit Vb		Domain
JB [auth 4N], JC [auth 4n]	PF00116	Cytochrome C oxidase subunit II, periplasmic domain (COX2)	Cytochrome C oxidase subunit II, periplasmic domain		Domain
WA [auth 4A], WB [auth 4a]	PF02297	Cytochrome oxidase c subunit VIb (COX6B)	Cytochrome oxidase c subunit VIb	Cytochrome c oxidase, a 13 sub-unit complex, EC:1.9.3.1 is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of the potentially heme-binding subunit IVb of the oxidase.	Domain
FA [auth 3J], RA [auth 3j]	PF02320	Ubiquinol-cytochrome C reductase hinge protein (UCR_hinge)	Ubiquinol-cytochrome C reductase hinge protein	The ubiquinol-cytochrome C reductase complex (cytochrome bc1 complex) is a respiratory multienzyme complex [1]. This Pfam family represents the 'hinge' protein of the complex which is thought to mediate formation of the cytochrome c1 and cytochrome c ...	The ubiquinol-cytochrome C reductase complex (cytochrome bc1 complex) is a respiratory multienzyme complex [1]. This Pfam family represents the 'hinge' protein of the complex which is thought to mediate formation of the cytochrome c1 and cytochrome c complex.	Domain
EA [auth 3I], QA [auth 3i]	PF02271	Ubiquinol-cytochrome C reductase complex 14kD subunit (UCR_14kD)	Ubiquinol-cytochrome C reductase complex 14kD subunit	-	Family
DA [auth 3H], PA [auth 3h]	PF00355	Rieske [2Fe-2S] domain (Rieske)	Rieske [2Fe-2S] domain	The rieske domain has a [2Fe-2S] centre. Two conserved cysteines coordinate one Fe ion, while the other Fe ion is coordinated by two conserved histidines. In hyperthermophilic archaea there is a SKTPCX(2-3)C motif at the C-terminus. The cysteines in ...	The rieske domain has a [2Fe-2S] centre. Two conserved cysteines coordinate one Fe ion, while the other Fe ion is coordinated by two conserved histidines. In hyperthermophilic archaea there is a SKTPCX(2-3)C motif at the C-terminus. The cysteines in this motif form a disulphide bridge, which stabilises the protein [4].	Domain
B [auth 2N], L [auth 2n]	PF13085	2Fe-2S iron-sulfur cluster binding domain (Fer2_3)	2Fe-2S iron-sulfur cluster binding domain	The 2Fe-2S ferredoxin family have a general core structure consisting of beta(2)-alpha-beta(2) which abeta-grasp type fold. The domain is around one hundred amino acids with four conserved cysteine residues to which the 2Fe-2S cluster is ligated.	Domain
B [auth 2N], L [auth 2n]	PF13534	4Fe-4S dicluster domain (Fer4_17)	4Fe-4S dicluster domain	This family includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. The structure of the domain is an alpha-antiparallel beta sandwich.	Domain
AA [auth 3E], MA [auth 3e]	PF05365	Cytochrome b-c1 complex subunit 9 (UCR_UQCRX_QCR9)	Cytochrome b-c1 complex subunit 9	-	Family
KA [auth 3c], Y [auth 3C]	PF02167	Cytochrome C1 family (Cytochrom_C1)	Cytochrome C1 family	-	Family
JA [auth 3b], X [auth 3B]	PF05193	Peptidase M16 inactive domain (Peptidase_M16_C)	Peptidase M16 inactive domain	Peptidase M16 consists of two structurally related domains. One is the active peptidase, whereas the other is inactive. The two domains hold the substrate like a clamp [1].	Domain
JA [auth 3b], X [auth 3B]	PF00675	Insulinase (Peptidase family M16) (Peptidase_M16)	Insulinase (Peptidase family M16)	-	Family
IA [auth 3a], W [auth 3A]	PF05193	Peptidase M16 inactive domain (Peptidase_M16_C)	Peptidase M16 inactive domain	Peptidase M16 consists of two structurally related domains. One is the active peptidase, whereas the other is inactive. The two domains hold the substrate like a clamp [1].	Domain
IA [auth 3a], W [auth 3A]	PF00675	Insulinase (Peptidase family M16) (Peptidase_M16)	Insulinase (Peptidase family M16)	-	Family
J [auth 2V], T [auth 2v]	PF23513	Apicomplexa microprotein (Microp_apicomplexa_9)	Apicomplexa microprotein	-	Family
A [auth 2M], K [auth 2m]	PF02910	Fumarate reductase flavoprotein C-term (Succ_DH_flav_C)	Fumarate reductase flavoprotein C-term	This family contains fumarate reductases, succinate dehydrogenases and L-aspartate oxidases.	Domain
A [auth 2M], K [auth 2m]	PF00890	FAD binding domain (FAD_binding_2)	FAD binding domain	This family includes members that bind FAD. This family includes the flavoprotein subunits from succinate and fumarate dehydrogenase, aspartate oxidase and the alpha subunit of adenylylsulphate reductase.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth 2U], S [auth 2u]	SDHC	-	-	-
H [auth 2T], R [auth 2t]	Rab-GAP TBC domain-containing protein	-	-	-
G [auth 2S], Q [auth 2s]	DUF6827 domain-containing protein	-	-	-
F [auth 2R], P [auth 2r]	SDHH	-	-	-
VB [auth 4Z], VC [auth 4z]	Cytochrome c oxidase subunit 31	-	-	-
UB [auth 4Y], UC [auth 4y]	Cytochrome c oxidase subunit 18	-	-	-
E [auth 2Q], O [auth 2q]	Kinesin-like protein	-	-	-
TB [auth 4X], TC [auth 4x]	Cytochrome Coxidase subunit, putative	-	-	-
SB [auth 4W], SC [auth 4w]	Cytochrome c oxidase subunit 19	-	-	-
RB [auth 4V], RC [auth 4v]	Cytochrome c oxidase subunit 4	-	-	-
QB [auth 4U], QC [auth 4u]	Amino acid transporter transmembrane domain-containing protein	L-amino acid transmembrane transporter activity amino acid transmembrane transporter activity transporter activity carboxylic acid transmembrane transporter activity transmembrane transporter activity	-	cellular anatomical structure membrane
PB [auth 4T], PC [auth 4t]	Cytochrome c oxidase subunit 13	-	-	-
OB [auth 4S], OC [auth 4s]	Cytochrome c oxidase subunit 7C	-	-	-
NB [auth 4R], NC [auth 4r]	Cytochrome c oxidase subunit 32	-	-	-
MB [auth 4Q], MC [auth 4q]	Cytochrome c oxidase subunit 1	-	-	-
LB [auth 4P], LC [auth 4p]	Cytochrome oxidase subunit II copper A binding domain-containing protein	-	-	-
KB [auth 4O], KC [auth 4o]	GINS subunit domain-containing protein	-	mitotic DNA replication DNA-templated DNA replication DNA strand elongation involved in mitotic DNA replication nuclear DNA replication cell cycle DNA replication primary metabolic process DNA metabolic process DNA strand elongation involved in nuclear cell cycle DNA replication nucleic acid metabolic process mitotic cell cycle nucleobase-containing compound metabolic process DNA strand elongation DNA replication mitotic cell cycle process DNA strand elongation involved in cell cycle DNA replication mitotic DNA replication DNA-templated DNA replication DNA strand elongation involved in mitotic DNA replication nuclear DNA replication cell cycle DNA replication primary metabolic process DNA metabolic process DNA strand elongation involved in nuclear cell cycle DNA replication nucleic acid metabolic process mitotic cell cycle nucleobase-containing compound metabolic process DNA strand elongation DNA replication mitotic cell cycle process DNA strand elongation involved in cell cycle DNA replication metabolic process cellular process macromolecule metabolic process cell cycle DNA strand elongation involved in DNA replication cell cycle process	GINS complex membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen GINS complex membrane-bounded organelle DNA replication preinitiation complex protein-containing complex intracellular anatomical structure protein-DNA complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome intracellular membraneless organelle chromosome intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle membraneless organelle nuclear lumen
D [auth 2P], N [auth 2p]	Transmembrane protein	-	-	-
JB [auth 4N], JC [auth 4n]	Cytochrome c oxidase polypeptide II	cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding 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 cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding 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 oxidative phosphorylation energy derivation by oxidation of organic compounds respiratory electron transport chain ATP synthesis coupled electron transport electron transport chain metabolic process cellular process generation of precursor metabolites and energy	cellular anatomical structure membrane
IB [auth 4M], IC [auth 4m]	Cytochrome c oxidase subunit 35	-	-	-
HB [auth 4L], HC [auth 4l]	Cytochrome c oxidase subunit 7A	-	-	-
GB [auth 4K], GC [auth 4k]	Cytochrome c oxidase subunit 37	-	-	-
FB [auth 4J], FC [auth 4j]	Cytochrome c oxidase subunit 24	-	-	-
EB [auth 4I], EC [auth 4i]	Cytochrome c oxidase subunit 6C	-	-	-
DB [auth 4H], DC [auth 4h]	Cytochrome c oxidase subunit 30	-	-	-
CB [auth 4G], CC [auth 4g]	Cytochrome c oxidase subunit 33	-	-	-
BB [auth 4F], BC [auth 4f]	Ubiquitin, putative	-	-	-
AB [auth 4E], AC [auth 4e]	Merozoite surface protein, putative	-	-	-
C [auth 2O], M [auth 2o]	SDHG	-	-	-
ZA [auth 4D], ZB [auth 4d]	Cytochrome c oxidase subunit 34	-	-	-
YA [auth 4C], YB [auth 4c]	Cytochrome c oxidase subunit 40	-	-	-
XA [auth 4B], XB [auth 4b]	Peptidase M14 carboxypeptidase A domain-containing protein	peptidase activity catalytic activity, acting on a protein metallocarboxypeptidase activity hydrolase activity metallopeptidase activity exopeptidase activity catalytic activity metalloexopeptidase activity carboxypeptidase activity cation binding transition metal ion binding zinc ion binding ion binding binding peptidase activity catalytic activity, acting on a protein metallocarboxypeptidase activity hydrolase activity metallopeptidase activity exopeptidase activity catalytic activity metalloexopeptidase activity carboxypeptidase activity cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding	proteolysis metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process	-
WA [auth 4A], WB [auth 4a]	Cytochrome c oxidase subunit 6B	-	-	-
UA [auth 40], VA [auth 41]	Cytochrome c oxidase subunit 3	-	-	-
HA [auth 3L], TA [auth 3l]	Aurora kinase	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups	-	-
GA [auth 3K], SA [auth 3k]	QCR11	-	-	-
FA [auth 3J], RA [auth 3j]	Ubiquinol-cytochrome c reductase complex 7.8 kDa protein, putative	-	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, ubiquinol to cytochrome c 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
EA [auth 3I], QA [auth 3i]	Ubiquinol-cytochrome C reductase complex 14kD subunit, putative	-	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, ubiquinol to cytochrome c 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 transporter complex respiratory chain complex III transmembrane transporter complex oxidoreductase complex
DA [auth 3H], PA [auth 3h]	Ubiquinol-cytochrome c reductase, iron-sulfur subunit, putative	-	-	-
B [auth 2N], L [auth 2n]	Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial	-	-	-
CA [auth 3G], OA [auth 3g]	Cytochrome b	-	-	-
BA [auth 3F], NA [auth 3f]	QCR10	-	-	-
AA [auth 3E], MA [auth 3e]	QCR9	-	-	-
LA [auth 3d], Z [auth 3D]	QCR8	-	-	-
KA [auth 3c], Y [auth 3C]	CytC1	binding tetrapyrrole binding heme binding electron transfer 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, ubiquinol to cytochrome c 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
JA [auth 3b], X [auth 3B]	Alpha-MPP	-	-	-
IA [auth 3a], W [auth 3A]	Mitochondrial processing peptidase beta subunit	-	-	-
V [auth 31]	ISPR1	-	-	-
U [auth 30]	ISPR2	-	-	-
J [auth 2V], T [auth 2v]	SDHI	-	-	-
A [auth 2M], K [auth 2m]	Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G [auth 2S], Q [auth 2s]	IPR049230	Domain of unknown function DUF6827	Domain
QB [auth 4U], QC [auth 4u]	IPR013057	Amino acid transporter, transmembrane domain	Domain
KB [auth 4O], KC [auth 4o]	IPR005339	GINS complex, subunit Psf1	Family
KB [auth 4O], KC [auth 4o]	IPR036224	GINS, helical bundle-like domain superfamily	Homologous Superfamily
JB [auth 4N], JC [auth 4n]	IPR002429	Cytochrome c oxidase subunit II-like C-terminal	Domain
JB [auth 4N], JC [auth 4n]	IPR008972	Cupredoxin	Homologous Superfamily
JB [auth 4N], JC [auth 4n]	IPR001505	Copper centre Cu(A)	Binding Site
JB [auth 4N], JC [auth 4n]	IPR045187	Cytochrome c/quinol oxidase subunit II	Family
BB [auth 4F], BC [auth 4f]	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
BB [auth 4F], BC [auth 4f]	IPR000626	Ubiquitin-like domain	Domain
XA [auth 4B], XB [auth 4b]	IPR000834	Peptidase M14, carboxypeptidase A	Domain
HA [auth 3L], TA [auth 3l]	IPR017441	Protein kinase, ATP binding site	Binding Site
HA [auth 3L], TA [auth 3l]	IPR000719	Protein kinase domain	Domain
HA [auth 3L], TA [auth 3l]	IPR030616	Aurora kinase-like	Family
HA [auth 3L], TA [auth 3l]	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
HA [auth 3L], TA [auth 3l]	IPR008271	Serine/threonine-protein kinase, active site	Active Site
FA [auth 3J], RA [auth 3j]	IPR003422	Cytochrome b-c1 complex, subunit 6	Family
FA [auth 3J], RA [auth 3j]	IPR023184	Ubiquinol-cytochrome C reductase hinge domain	Domain
FA [auth 3J], RA [auth 3j]	IPR036811	Ubiquinol-cytochrome C reductase hinge domain superfamily	Homologous Superfamily
EA [auth 3I], QA [auth 3i]	IPR003197	Cytochrome b-c1 complex subunit 7	Family
EA [auth 3I], QA [auth 3i]	IPR036544	Cytochrome b-c1 complex subunit 7 superfamily	Homologous Superfamily
KA [auth 3c], Y [auth 3C]	IPR036909	Cytochrome c-like domain superfamily	Homologous Superfamily
KA [auth 3c], Y [auth 3C]	IPR002326	Cytochrome c1	Family
KA [auth 3c], Y [auth 3C]	IPR021157	Cytochrome c1, transmembrane anchor, C-terminal	Homologous Superfamily
J [auth 2V], T [auth 2v]	IPR056348	Microprotein, apicomplexa 9	Family