3EUK | pdb_00003euk

Crystal structure of MukE-MukF(residues 292-443)-MukB(head domain)-ATPgammaS complex, asymmetric dimer

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E [auth H]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8018600	3002020	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8018600	3002020	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8018600	3002020	SCOP2B (2022-06-29)
D [auth F]	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8018600	3002020	SCOP2B (2022-06-29)
C [auth E]	SCOP2 Family	MukF C-terminal domain-like	8004418	4007733	SCOP2 (2022-06-29)
C [auth E]	SCOP2 Superfamily	MukF C-terminal domain-like	8056324	3002345	SCOP2 (2022-06-29)
F [auth J]	SCOP2B Superfamily	MukF C-terminal domain-like	8056324	3002345	SCOP2B (2022-06-29)
G [auth L]	SCOP2 Family	MukE-like	8045686	4004616	SCOP2 (2022-06-29)
G [auth L]	SCOP2 Superfamily	Winged helix DNA-binding domain	8053909	3000034	SCOP2 (2022-06-29)
G [auth L]	SCOP2 Superfamily	Winged helix DNA-binding domain	8053908	3000034	SCOP2 (2022-06-29)
H [auth M]	SCOP2B Superfamily	Winged helix DNA-binding domain	8053908	3000034	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 H]	MukB	e3eukH1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: MukB	ECOD (1.6)
A	MukB	e3eukA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: MukB	ECOD (1.6)
B [auth C]	MukB	e3eukC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: MukB	ECOD (1.6)
D [auth F]	MukB	e3eukF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: MukB	ECOD (1.6)
C [auth E]	MukF_C	e3eukE1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: MukF_C	ECOD (1.6)
F [auth J]	MukF_C	e3eukJ1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: MukF_C	ECOD (1.6)
G [auth L]	MukE_C	e3eukL2	A: alpha arrays	X: HTH	H: HTH	T: winged	F: MukE_C	ECOD (1.6)
G [auth L]	MukE_N	e3eukL1	A: a+b two layers	X: Chromosome partition protein mukE N-terminal domain (From Topology)	H: Chromosome partition protein mukE N-terminal domain (From Topology)	T: Chromosome partition protein mukE N-terminal domain	F: MukE_N	ECOD (1.6)
H [auth M]	MukE_C,MukE_N	e3eukM1	A: a+b two layers	X: Chromosome partition protein mukE N-terminal domain (From Topology)	H: Chromosome partition protein mukE N-terminal domain (From Topology)	T: Chromosome partition protein mukE N-terminal domain	F: MukE_C,MukE_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E [auth H]	3.40.1140.10	Alpha Beta	3-Layer(aba) Sandwich	N-terminal domain of mukB		CATH (4.3.0)
A	3.40.1140.10	Alpha Beta	3-Layer(aba) Sandwich	N-terminal domain of mukB		CATH (4.3.0)
B [auth C]	3.40.1140.10	Alpha Beta	3-Layer(aba) Sandwich	N-terminal domain of mukB		CATH (4.3.0)
D [auth F]	3.40.1140.10	Alpha Beta	3-Layer(aba) Sandwich	N-terminal domain of mukB		CATH (4.3.0)
C [auth E]	1.10.225.40	Mainly Alpha	Orthogonal Bundle	NK-Lysin	MukF, C-terminal domain	CATH (4.3.0)
F [auth J]	1.10.225.40	Mainly Alpha	Orthogonal Bundle	NK-Lysin	MukF, C-terminal domain	CATH (4.3.0)
G [auth L]	1.10.10.2250	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth C], D [auth F], E [auth H]	PF13558	SbcC/RAD50-like, Walker B motif (SbcC_Walker_B)	SbcC/RAD50-like, Walker B motif	This entry represents the Walker B domain of RAD50 from eukaryotes and the prokaryotic homologue SbcCD complex subunit C. RAD50-ATPase forms a complex with Mre11-nuclease that detects and processes diverse and obstructed DNA ends. This domain is sepa ...	This entry represents the Walker B domain of RAD50 from eukaryotes and the prokaryotic homologue SbcCD complex subunit C. RAD50-ATPase forms a complex with Mre11-nuclease that detects and processes diverse and obstructed DNA ends. This domain is separated of the Walker A domain by a long coiled-coil domain and forms the nucleotide-binding domain (NBD) when the coiled coils fold back on themselves and bring together Walker A and B domains [1,2,3,4]. Two RAD50-NBDs forms heterotetramers with a Mre11 nuclease dimer that assemble as catalytic head module that binds and cleaves DNA in an ATP-dependent reaction. Through secondary structural analysis, it has been suggested that there is a wide structural conservation in the Rad50/SMC protein family as seen in structural similarities between RAD50's hook and ABC-ATPase MukB's elbow region [4].	Domain
A, B [auth C], D [auth F], E [auth H]	PF04310	MukB N-terminal (MukB)	MukB N-terminal	This family represents the N-terminal region of MukB, one of a group of bacterial proteins essential for the movement of nucleoids from mid-cell towards the cell quarters (i.e. chromosome partitioning). The structure of the N-terminal domain consist ...	This family represents the N-terminal region of MukB, one of a group of bacterial proteins essential for the movement of nucleoids from mid-cell towards the cell quarters (i.e. chromosome partitioning). The structure of the N-terminal domain consists of an antiparallel six-stranded beta sheet surrounded by one helix on one side and by five helices on the other side [1]. It contains an exposed Walker A loop in an unexpected helix-loop-helix motif (in other proteins, Walker A motifs generally adopt a P loop conformation as part of a strand-loop-helix motif embedded in a conserved topology of alternating helices and (parallel) beta strands)[1].	Domain
G [auth L], H [auth M]	PF21980	Condensin complex protein MksE (MksE)	Condensin complex protein MksE	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C], D [auth F], E [auth H]	Chromosome partition protein mukB, Linker	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 DNA binding nucleic acid binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cell division cell cycle chromosome segregation cell cycle process cellular component organization organelle organization nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cell division cell cycle chromosome segregation cell cycle process cellular component organization organelle organization chromosome condensation chromosome organization cellular component organization or biogenesis	cellular anatomical structure nucleoid intracellular anatomical structure cytoplasm
C [auth E], F [auth J]	Chromosome partition protein mukF	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cell division cell cycle chromosome segregation cell cycle process cellular component organization organelle organization nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cell division cell cycle chromosome segregation cell cycle process cellular component organization organelle organization chromosome condensation chromosome organization cellular component organization or biogenesis	cellular anatomical structure nucleoid intracellular anatomical structure cytoplasm
G [auth L], H [auth M]	Chromosome partition protein mukE	-	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cell division cell cycle chromosome segregation cell cycle process cellular component organization organelle organization nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cell division cell cycle chromosome segregation cell cycle process cellular component organization organelle organization chromosome condensation chromosome organization cellular component organization or biogenesis	cellular anatomical structure nucleoid intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], D [auth F], E [auth H]	IPR042501	MukB, hinge domain superfamily	Homologous Superfamily
A, B [auth C], D [auth F], E [auth H]	IPR050308	Chromosome partition protein MukB/SMC	Family
A, B [auth C], D [auth F], E [auth H]	IPR007406	MukB, N-terminal domain	Domain
A, B [auth C], D [auth F], E [auth H]	IPR032520	MukB, hinge domain	Domain
A, B [auth C], D [auth F], E [auth H]	IPR012090	Chromosome partition protein MukB	Family
A, B [auth C], D [auth F], E [auth H]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C [auth E], F [auth J]	IPR005582	Chromosome partition protein MukF	Family
C [auth E], F [auth J]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
C [auth E], F [auth J]	IPR036141	MukF, middle domain superfamily	Homologous Superfamily
C [auth E], F [auth J]	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
C [auth E], F [auth J]	IPR033439	Chromosome partition protein MukF, winged-helix domain	Domain
C [auth E], F [auth J]	IPR038198	MukF, C-terminal domain superfamily	Homologous Superfamily
C [auth E], F [auth J]	IPR033441	Chromosome partition protein MukF, C-terminal domain	Domain
C [auth E], F [auth J]	IPR033440	Chromosome partition protein MukF, middle domain	Domain
G [auth L], H [auth M]	IPR042038	MukE, N-terminal domain	Homologous Superfamily
G [auth L], H [auth M]	IPR042037	MukE, C-terminal domain	Homologous Superfamily
G [auth L], H [auth M]	IPR007385	Prokaryotic chromosome segregation/condensation protein MukE	Family

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.