4LRT

Crystal and solution structures of the bifunctional enzyme (Aldolase/Aldehyde dehydrogenase) from Thermomonospora curvata, reveal a cofactor-binding domain motion during NAD+ and CoA accommodation whithin the shared cofactor-binding site

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4lrta2	All alpha proteins	RuvA C-terminal domain-like	post-HMGL domain-like	automated matches	automated matches	(Thermomonospora curvata DSM 43183 ) [TaxId: 471852 ],	SCOPe (2.08)
A	d4lrta1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	automated matches	automated matches	(Thermomonospora curvata DSM 43183 ) [TaxId: 471852 ],	SCOPe (2.08)
C	d4lrtc2	All alpha proteins	RuvA C-terminal domain-like	post-HMGL domain-like	automated matches	automated matches	(Thermomonospora curvata DSM 43183 ) [TaxId: 471852 ],	SCOPe (2.08)
C	d4lrtc1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	automated matches	automated matches	(Thermomonospora curvata DSM 43183 ) [TaxId: 471852 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	post-HMGL domain-like	8101077	3001285	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Aldolase	8097560	3000445	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	post-HMGL domain-like	8101077	3001285	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Aldolase	8097560	3000445	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GAPDH-like	8085565	3000043	SCOP2B (2022-06-29)
B	SCOP2 Family	Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)-like	8085564	4000077	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	GAPDH-like	8085565	3000043	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	DmpG_comm	e4lrtA2	A: alpha arrays	X: RuvA-C	H: post-HMGL domain-like (From Topology)	T: post-HMGL domain-like	F: DmpG_comm	ECOD (1.6)
A	HMGL-like_1	e4lrtA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: HMGL-like_1	ECOD (1.6)
C	DmpG_comm	e4lrtC2	A: alpha arrays	X: RuvA-C	H: post-HMGL domain-like (From Topology)	T: post-HMGL domain-like	F: DmpG_comm	ECOD (1.6)
C	HMGL-like_1	e4lrtC1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: HMGL-like_1	ECOD (1.6)
D	AcetDehyd-dimer	e4lrtD1	A: a+b two layers	X: FwdE/GAPDH domain-like	H: Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain (From Topology)	T: Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	F: AcetDehyd-dimer	ECOD (1.6)
D	Semialdhyde_dh	e4lrtD2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: Semialdhyde_dh	ECOD (1.6)
B	AcetDehyd-dimer	e4lrtB1	A: a+b two layers	X: FwdE/GAPDH domain-like	H: Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain (From Topology)	T: Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain	F: AcetDehyd-dimer	ECOD (1.6)
B	Semialdhyde_dh	e4lrtB2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: Semialdhyde_dh	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
A	1.10.8.60	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
C	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
C	1.10.8.60	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
D	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
D	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
B	3.30.360.10	Alpha Beta	2-Layer Sandwich	Dihydrodipicolinate Reductase	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF07836	DmpG-like communication domain (DmpG_comm)	DmpG-like communication domain	This domain is found towards the C-terminal region of various aldolase enzymes. It consists of five alpha-helices, four of which form an antiparallel helical bundle that plugs the C-terminus of the N-terminal TIM barrel domain [1]. The communicatio ...	This domain is found towards the C-terminal region of various aldolase enzymes. It consists of five alpha-helices, four of which form an antiparallel helical bundle that plugs the C-terminus of the N-terminal TIM barrel domain [1]. The communication domain is thought to play an important role in the heterodimerisation of the enzyme [1].	Domain
A, C	PF00682	HMGL-like (HMGL-like)	HMGL-like	This family contains a diverse set of enzymes. These include various aldolases and a region of pyruvate carboxylase.	Domain
B, D	PF01118	Semialdehyde dehydrogenase, NAD binding domain (Semialdhyde_dh)	Semialdehyde dehydrogenase, NAD binding domain	This Pfam entry contains the following members: N-acetyl-glutamine semialdehyde dehydrogenase (AgrC) Aspartate-semialdehyde dehydrogenase	Domain
B, D	PF09290	Prokaryotic acetaldehyde dehydrogenase, dimerisation (AcetDehyd-dimer)	Prokaryotic acetaldehyde dehydrogenase, dimerisation	Members of this family are found in prokaryotic acetaldehyde dehydrogenase (acylating), and adopt a structure consisting of an alpha-beta-alpha-beta(3) core. They mediate dimerisation of the protein [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	4-hydroxy-2-oxovalerate aldolase	cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding 4-hydroxy-2-oxovalerate aldolase activity oxo-acid-lyase activity lyase activity catalytic activity carbon-carbon lyase activity	-	-
B, D	Acetaldehyde dehydrogenase	NAD binding binding nucleoside phosphate binding purine nucleotide binding organic cyclic compound binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on the aldehyde or oxo group of donors catalytic activity acetaldehyde dehydrogenase (acetylating) activity oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR012425	DmpG-like communication	Domain
A, C	IPR035685	4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain	Domain
A, C	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A, C	IPR017629	4-hydroxy-2-oxovalerate aldolase	Family
A, C	IPR000891	Pyruvate carboxyltransferase	Domain
B, D	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
B, D	IPR015426	Acetaldehyde dehydrogenase, C-terminal	Domain
B, D	IPR003361	Acetaldehyde dehydrogenase	Family
B, D	IPR000534	Semialdehyde dehydrogenase, NAD-binding	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.