3PUZ | pdb_00003puz

Crystal Structure of a pre-translocation state MBP-Maltose transporter complex bound to AMP-PNP

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: OPM
Membrane Protein Annotation: PDBTM
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)
E [auth B]	d3puzb2	All beta proteins	OB-fold	MOP-like	ABC-transporter additional domain	Maltose transport protein MalK, C-terminal domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
E [auth B]	d3puzb1	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 K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D [auth A]	d3puza2	All beta proteins	OB-fold	MOP-like	ABC-transporter additional domain	Maltose transport protein MalK, C-terminal domain	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D [auth A]	d3puza1	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 K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C [auth G]	d3puzg_	Membrane and cell surface proteins and peptides	MetI-like	MetI-like	MetI-like	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B [auth F]	d3puzf1	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]	d3puzf2	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]	d3puze_	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)
E [auth B]	SCOP2B Superfamily	MOP-like	8057782	3000099	SCOP2B (2022-06-29)
E [auth B]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8057781	3002020	SCOP2B (2022-06-29)
D [auth A]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8057781	3002020	SCOP2B (2022-06-29)
D [auth A]	SCOP2B Superfamily	MOP-like	8057782	3000099	SCOP2B (2022-06-29)
C [auth G]	SCOP2B Superfamily	MetI-like	8058270	3001716	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 linker domain-like	8091379	3002501	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	MetI-like	8018431	3001716	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)
E [auth B]	4HBT_3	e3puzB1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: 4HBT_3	ECOD (v294.1)
E [auth B]	PCI	e3puzB4	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: PCI	ECOD (v294.1)
D [auth A]	4HBT_3	e3puzA1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: 4HBT_3	ECOD (v294.1)
D [auth A]	PCI	e3puzA4	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: PCI	ECOD (v294.1)
C [auth G]	4HBT_3	e3puzG1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: 4HBT_3	ECOD (v294.1)
B [auth F]	THUMP	e3puzF1	A: a/b three-layered sandwiches	X: Transmembrane heme-binding four-helical bundle	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: THUMP	ECOD (v294.1)
A [auth E]	LysR_substrate	e3puzE1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Glycosyl hydrolase domain	T: Glycosyl hydrolase domain	F: LysR_substrate	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
C [auth G]	1.10.3720.10	Mainly Alpha	Orthogonal Bundle	MetI-like fold	MetI-like	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
D [auth A], E [auth B]	PF08402	TOBE domain (TOBE_2)	TOBE domain	The TOBE domain [1] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. Probably involved in the recognition of small ligands such as molybdenum (eg Swiss:P46930) and sulphate (Swiss: ...	The TOBE domain [1] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. Probably involved in the recognition of small ligands such as molybdenum (eg Swiss:P46930) and sulphate (Swiss:P16676). Found in ABC transporters immediately after the ATPase domain. In this family a strong RPE motif is found at the presumed N-terminus of the domain.	Domain
D [auth A], E [auth B]	PF00005	ABC transporter (ABC_tran)	ABC transporter	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are comp ...	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain Pfam:PF00664. These four domains may belong to a single polypeptide as in Swiss:P13569, or belong in different polypeptide chains.	Domain
C [auth G]	PF00528	Binding-protein-dependent transport system inner membrane component (BPD_transp_1)	Binding-protein-dependent transport system inner membrane component	-	Family
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
D [auth A], E [auth B]	Fused maltose transport subunit, ATP-binding component of ABC superfamily; regulatory protein	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 transcription factor binding protein binding DNA-binding transcription factor binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity 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 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	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 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 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 ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing maltose transport complex enzyme IIA-maltose transporter complex
C [auth G]	Maltose transporter subunit; membrane component of ABC superfamily	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	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 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 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
B [auth F]	Maltose transporter subunit; membrane component of ABC superfamily	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 transporter subunit; periplasmic-binding component of ABC superfamily	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 extracellular region 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 extracellular region periplasmic space outer membrane-bounded periplasmic space cell envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth A], E [auth B]	IPR013611	Transport-associated OB, type 2	Domain
D [auth A], E [auth B]	IPR017871	ABC transporter-like, conserved site	Conserved Site
D [auth A], E [auth B]	IPR047641	ABC transporter, ATP-binding protein MalK/UgpC-like	Family
D [auth A], E [auth B]	IPR003439	ABC transporter-like, ATP-binding domain	Domain
D [auth A], E [auth B]	IPR003593	AAA+ ATPase domain	Domain
D [auth A], E [auth B]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
D [auth A], E [auth B]	IPR008995	Molybdate/tungstate binding, C-terminal	Homologous Superfamily
D [auth A], E [auth B]	IPR015855	ABC transporter, maltose/maltodextrin import, MalK-like	Domain
D [auth A], E [auth B]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C [auth G]	IPR000515	ABC transporter type 1, transmembrane domain MetI-like	Domain
C [auth G]	IPR050901	Binding-protein-dependent ABC transporter permease	Family
C [auth G]	IPR035906	MetI-like superfamily	Homologous Superfamily
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: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth E], B [auth F], C [auth G], D [auth A], E [auth B]	OPM	Transmembrane	Alpha-helical polytopic	ABC transporters	Binding-protein-dependent transport system

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth E], B [auth F], C [auth G], D [auth A], E [auth B]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	ATP Binding Cassette (ABC) Transporters	MalFGK₂-MBP Maltose uptake transporter complex