8XQX | pdb_00008xqx

Cryo-EM structure of the Ycf2-FtsHi motor complex from Chlamydomonas reinhardtii in apo state

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	WD40	e8xqxC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B	WD40	e8xqxB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
E	WD40	e8xqxE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
J	WD40	e8xqxJ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
Q	WD40	e8xqxQ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
F	WD40	e8xqxF1	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
G	PF03747	ADP-ribosylglycohydrolase (ADP_ribosyl_GH)	ADP-ribosylglycohydrolase	This family includes enzymes that ADP-ribosylations, for example ADP-ribosylarginine hydrolase EC:3.2.2.19 cleaves ADP-ribose-L-arginine [1]. The family also includes dinitrogenase reductase activating glycohydrolase [2]. Most surprisingly the family ...	This family includes enzymes that ADP-ribosylations, for example ADP-ribosylarginine hydrolase EC:3.2.2.19 cleaves ADP-ribose-L-arginine [1]. The family also includes dinitrogenase reductase activating glycohydrolase [2]. Most surprisingly the family also includes jellyfish crystallins [2], these proteins appear to have lost the presumed active site residues.	Domain
H	PF05996	Ferredoxin-dependent bilin reductase (Fe_bilin_red)	Ferredoxin-dependent bilin reductase	This family consists of several different but closely related proteins which include phycocyanobilin:ferredoxin oxidoreductase EC:1.3.7.5 (PcyA), 15,16-dihydrobiliverdin:ferredoxin oxidoreductase EC:1.3.7.2 (PebA) and phycoerythrobilin:ferredoxin oxi ...	This family consists of several different but closely related proteins which include phycocyanobilin:ferredoxin oxidoreductase EC:1.3.7.5 (PcyA), 15,16-dihydrobiliverdin:ferredoxin oxidoreductase EC:1.3.7.2 (PebA) and phycoerythrobilin:ferredoxin oxidoreductase EC:1.3.7.3 (PebB). Phytobilins are linear tetrapyrrole precursors of the light-harvesting prosthetic groups of the phytochrome photoreceptors of plants and the phycobiliprotein photosynthetic antennae of cyanobacteria, red algae, and cryptomonads. It is known that that phytobilins are synthesised from heme via the intermediary of biliverdin IX alpha (BV), which is reduced subsequently by ferredoxin-dependent bilin reductases with different double-bond specificities [1].	Domain
J	PF00550	Phosphopantetheine attachment site (PP-binding)	Phosphopantetheine attachment site	A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes memb ...	A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes members not included in Prosite. The inclusion of these members is supported by sequence analysis and functional evidence. The related domain of Swiss:P19828 has the attachment serine replaced by an alanine.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, C	Fhl3	-	-	-
D	Ycf2	-	-	-
E	Ctap1	-	-	-
G	ARHL	hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity poly(ADP-ribose) glycohydrolase activity catalytic activity	-	-
H	PcyA	cation binding transition metal ion binding ion binding binding metal ion binding cobalt ion binding small molecule binding oxidoreductase activity, acting on the CH-CH group of donors, iron-sulfur protein as acceptor oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors catalytic activity	phytochromobilin biosynthetic process tetrapyrrole metabolic process oxoacid metabolic process small molecule biosynthetic process dicarboxylic acid metabolic process carboxylic acid metabolic process carboxylic acid biosynthetic process tetrapyrrole biosynthetic process biosynthetic process small molecule metabolic process metabolic process cellular process dicarboxylic acid biosynthetic process	-
J	ACP	phosphopantetheine-dependent carrier activity prosthetic group binding binding acyl carrier activity molecular carrier activity ACP phosphopantetheine attachment site binding	-	-
K	CrTam29	-	-	-
L	CrTam34	-	-	-
N	CrTam15	-	-	-
O	CrTam49	-	-	-
P	Ctap7	-	-	-
Q	Tic22	-	-	-
R	DnaJ	cation binding ion binding binding metal ion binding small molecule binding	-	-
V	UNK	-	-	-
I	CrTam39	-	-	-
F	Ctap6	-	-	-
U	UNK	-	-	-
T	CrTam31	-	-	-
S	CrTam35	-	-	-
M	FADL	oxidoreductase activity catalytic activity	-	-
A	Fhl1	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D	IPR050168	AAA ATPase domain-containing protein	Family
D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
G	IPR050792	ADP-ribosylglycohydrolase-like	Family
G	IPR036705	ADP-ribosylation/Crystallin J1 superfamily	Homologous Superfamily
G	IPR005502	ADP-ribosylation/Crystallin J1	Family
H	IPR009249	Ferredoxin-dependent bilin reductase	Family
J	IPR009081	Phosphopantetheine binding ACP domain	Domain
J	IPR044813	Acyl carrier protein, chloroplastic	Family
J	IPR036736	ACP-like superfamily	Homologous Superfamily
J	IPR003231	Acyl carrier protein	Family
M	IPR012171	Fatty acid desaturase	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B, C	TPO	Parent Component: THR : AA0038 : O-phospho-L-threonine MOD:00047
J	4HH	Parent Component: SER : AA0038
R	SEP	Parent Component: SER : AA0038 , AA0037 : O-phospho-L-threonine MOD:00047 , O-phospho-L-serine MOD:00046
R	TPO	Parent Component: THR : AA0038 , AA0037 , AA0038 : O-phospho-L-threonine MOD:00047 , O-phospho-L-serine MOD:00046 , O-phospho-L-threonine MOD:00047
V	UNK	: AA0038 , AA0037 , AA0038
U	UNK	: AA0038 , AA0037 , AA0038
T	SEP	Parent Component: SER : AA0038 , AA0037 , AA0038 , AA0037 : O-phospho-L-threonine MOD:00047 , O-phospho-L-serine MOD:00046 , O-phospho-L-threonine MOD:00047 , O-phospho-L-serine MOD:00046
S	SEP	Parent Component: SER : AA0038 , AA0037 , AA0038 , AA0037 , AA0037 : O-phospho-L-threonine MOD:00047 , O-phospho-L-serine MOD:00046 , O-phospho-L-threonine MOD:00047 , O-phospho-L-serine MOD:00046 , O-phospho-L-serine MOD:00046
S	TPO	Parent Component: THR : AA0038 , AA0037 , AA0038 , AA0037 , AA0037 , AA0038 : O-phospho-L-threonine MOD:00047 , O-phospho-L-serine MOD:00046 , O-phospho-L-threonine MOD:00047 , O-phospho-L-serine MOD:00046 , O-phospho-L-serine MOD:00046 , O-phospho-L-threonine MOD:00047

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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.