4KHZ | pdb_00004khz

Crystal structure of the maltose-binding protein/maltose transporter complex in an pre-translocation conformation bound to maltoheptaose

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
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C [auth G]	d4khzg_	Membrane and cell surface proteins and peptides	MetI-like	MetI-like	MetI-like	Maltose transport system permease protein MalG	(Escherichia coli DH1 ) [TaxId: 536056 ],	SCOPe (2.08)
E [auth B]	d4khzb2	All beta proteins	OB-fold	MOP-like	ABC-transporter additional domain	Maltose transport protein MalK, C-terminal domain	(Escherichia coli DH1 ) [TaxId: 536056 ],	SCOPe (2.08)
E [auth B]	d4khzb1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	ABC transporter ATPase domain-like	Maltose transport protein MalK, N-terminal domain	(Escherichia coli DH1 ) [TaxId: 536056 ],	SCOPe (2.08)
D [auth A]	d4khza2	All beta proteins	OB-fold	MOP-like	ABC-transporter additional domain	Maltose transport protein MalK, C-terminal domain	(Escherichia coli DH1 ) [TaxId: 536056 ],	SCOPe (2.08)
D [auth A]	d4khza1	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	ABC transporter ATPase domain-like	Maltose transport protein MalK, N-terminal domain	(Escherichia coli DH1 ) [TaxId: 536056 ],	SCOPe (2.08)
B [auth F]	d4khzf1	Multi-domain proteins (alpha and beta)	MalF N-terminal region-like	MalF N-terminal region-like	MalF N-terminal region-like	Maltose transport system permease protein MalF	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B [auth F]	d4khzf2	Membrane and cell surface proteins and peptides	MetI-like	MetI-like	MetI-like	Maltose transport system permease protein MalF	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A [auth E]	d4khze_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like II	Periplasmic binding protein-like II	Phosphate binding protein-like	D-maltodextrin-binding protein, MBP	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth F]	SCOP2B Superfamily	MetI-like	8018431	3001716	SCOP2B (2022-06-29)
B [auth F]	SCOP2B Superfamily	MalF P2 linker domain-like	8091379	3002501	SCOP2B (2022-06-29)
B [auth F]	SCOP2B Superfamily	MalF N-terminal region-like	8053508	3002199	SCOP2B (2022-06-29)
B [auth F]	SCOP2B Superfamily	MalF P2 beta-barrel domain-like	8018435	3001643	SCOP2B (2022-06-29)
B [auth F]	SCOP2B Superfamily	MalF P2 linker domain-like	8091379	3002501	SCOP2B (2022-06-29)
A [auth E]	SCOP2B Superfamily	Type 2 solute binding protein-like	8058187	3000083	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C [auth G]	Sigma70_r2,Sigma70_ner	e4khzG1	A: alpha bundles	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: Sigma70_r2,Sigma70_ner	ECOD (develop294)
E [auth B]	Sigma70_r2,Sigma70_ner	e4khzB3	A: alpha bundles	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: Sigma70_r2,Sigma70_ner	ECOD (develop294)
E [auth B]	PCI	e4khzB4	A: alpha bundles	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: PCI	ECOD (develop294)
D [auth A]	PCI	e4khzA6	A: alpha bundles	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: PCI	ECOD (develop294)
B [auth F]	S-AdoMet_synt_N	e4khzF3	A: alpha bundles	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: S-AdoMet_synt_N	ECOD (develop294)
A [auth E]	LysR_substrate	e4khzE1	A: alpha bundles	X: Rossmann-like	H: Glycosyl hydrolase domain	T: Glycosyl hydrolase domain	F: LysR_substrate	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth G]	1.10.3720.10	Mainly Alpha	Orthogonal Bundle	MetI-like fold	MetI-like	CATH (4.3.0)
E [auth B]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
E [auth B]	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.3.0)
E [auth B]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
D [auth A]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
D [auth A]	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.3.0)
D [auth A]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
B [auth F]	1.20.58.370	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
B [auth F]	3.10.650.10	Alpha Beta	Roll	MalF N-terminal region-like	MalF N-terminal region-like	CATH (4.3.0)
B [auth F]	2.40.430.10	Mainly Beta	Beta Barrel	Periplasmic binding protein-like II	D-maltodextrin-binding protein, MBP	CATH (4.3.0)
B [auth F]	1.10.3720.10	Mainly Alpha	Orthogonal Bundle	MetI-like fold	MetI-like	CATH (4.3.0)
A [auth E]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth F]	PF00528	Binding-protein-dependent transport system inner membrane component (BPD_transp_1)	Binding-protein-dependent transport system inner membrane component	-	Family
B [auth F]	PF14785	Maltose transport system permease protein MalF P2 domain (MalF_P2)	Maltose transport system permease protein MalF P2 domain	-	Family
A [auth E]	PF01547	Bacterial extracellular solute-binding protein (SBP_bac_1)	Bacterial extracellular solute-binding protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth G]	Binding-protein-dependent transport systems inner membrane component	-	-	-
D [auth A], E [auth B]	Binding-protein-dependent transport systems inner membrane component	-	-	-
B [auth F]	Maltose transport system permease protein MalF	primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity oligosaccharide transmembrane transporter activity disaccharide transmembrane transporter activity maltose transmembrane transporter activity ABC-type oligosaccharide transporter activity ATP-dependent activity ABC-type transporter activity active transmembrane transporter activity transporter activity carbohydrate transmembrane transporter activity transmembrane transporter activity ABC-type carbohydrate transporter activity ABC-type maltose transporter activity	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of localization regulation of biological process regulation of transport transport regulation of maltose transport biological regulation negative regulation of biological process carbohydrate transport cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of localization regulation of biological process regulation of transport transport regulation of maltose transport biological regulation negative regulation of biological process carbohydrate transport negative regulation of transport oligosaccharide transport establishment of localization negative regulation of maltose transport localization disaccharide transport maltose transport polysaccharide localization dextrin transport macromolecule localization maltodextrin transmembrane transport polysaccharide transport regulation of cellular process negative regulation of transmembrane transport transmembrane transport regulation of transmembrane transport negative regulation of cellular process	ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex ATP-binding cassette (ABC) transporter complex cell periphery cellular anatomical structure transmembrane transporter complex maltose transport complex enzyme IIA-maltose transporter complex
A [auth E]	Maltose-binding periplasmic protein	transporter activity carbohydrate transmembrane transporter activity transmembrane transporter activity oligosaccharide binding binding disaccharide binding carbohydrate binding maltose binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process cell chemotaxis chemotaxis response to external stimulus cellular response to chemical stimulus taxis response to chemical cell migration cell motility cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process cell chemotaxis chemotaxis response to external stimulus cellular response to chemical stimulus taxis response to chemical cell migration cell motility locomotion localization transport carbohydrate transport oligosaccharide transport disaccharide transport establishment of localization maltose transport polysaccharide localization dextrin transport macromolecule localization maltodextrin transmembrane transport polysaccharide transport response to disaccharide response to oxygen-containing compound detection of maltose stimulus detection of stimulus response to carbohydrate detection of chemical stimulus detection of disaccharide stimulus response to maltose detection of carbohydrate stimulus	ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex ATP-binding cassette (ABC) transporter complex cell periphery cellular anatomical structure transmembrane transporter complex ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing maltose transport complex periplasmic space ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex ATP-binding cassette (ABC) transporter complex cell periphery cellular anatomical structure transmembrane transporter complex ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing maltose transport complex periplasmic space outer membrane-bounded periplasmic space cell envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth F]	IPR029345	Maltose transport system permease protein MalF, P2 domain	Domain
B [auth F]	IPR035277	MalF, N-terminal	Homologous Superfamily
B [auth F]	IPR000515	ABC transporter type 1, transmembrane domain MetI-like	Domain
B [auth F]	IPR048464	MalF, N-terminal region, transmembrane helices	Domain
B [auth F]	IPR035906	MetI-like superfamily	Homologous Superfamily
B [auth F]	IPR047103	Maltose transport system permease protein MalF, P2 domain superfamily	Homologous Superfamily
A [auth E]	IPR006061	Solute-binding family 1, conserved site	Conserved Site
A [auth E]	IPR006060	Maltose/Cyclodextrin ABC transporter, substrate-binding protein	Family
A [auth E]	IPR006059	Bacterial-type extracellular solute-binding protein	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth E], B [auth F]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth E], B [auth F]	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth E], B [auth F]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	ATP Binding Cassette (ABC) Transporters	MalFGK₂-MBP Maltose uptake transporter complex; pre-translocation conformation bound to maltoheptaose

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.