5F2V

Crystal structure of the small alarmone synthethase 1 from Bacillus subtilis bound to AMPCPP

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-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C [auth T]	d5f2vt_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
E [auth Y]	d5f2vy_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
G [auth Z]	d5f2vz_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
A [auth V]	d5f2vv_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
B [auth X]	d5f2vx_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
D [auth S]	d5f2vs_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
F [auth O]	d5f2vo_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
H [auth W]	d5f2vw_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
I [auth U]	d5f2vu_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
J [auth P]	d5f2vp_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
K [auth R]	d5f2vr_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)
L [auth Q]	d5f2vq_	Alpha and beta proteins (a+b)	Nucleotidyltransferase	Nucleotidyltransferase	RelA/SpoT domain	automated matches	(Bacillus subtilis PY79 ) [TaxId: 1415167 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth T]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
E [auth Y]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
G [auth Z]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
A [auth V]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
B [auth X]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
D [auth S]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
F [auth O]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
H [auth W]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
I [auth U]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
J [auth P]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
K [auth R]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	SCOP2B (2022-06-29)
L [auth Q]	SCOP2B Superfamily	Nucleotidyltransferase-like	8058788	3000129	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 T]	PF04607	e5f2vT1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
E [auth Y]	PF04607	e5f2vY1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
G [auth Z]	PF04607	e5f2vZ1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
A [auth V]	PF04607	e5f2vV1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
B [auth X]	PF04607	e5f2vX1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
D [auth S]	PF04607	e5f2vS1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
F [auth O]	PF04607	e5f2vO1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
H [auth W]	PF04607	e5f2vW1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
I [auth U]	PF04607	e5f2vU1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
J [auth P]	PF04607	e5f2vP1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
K [auth R]	PF04607	e5f2vR1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)
L [auth Q]	PF04607	e5f2vQ1	A: a+b three layers	X: Nucleotidyltransferase-like	H: Nucleotidyltransferase (From Topology)	T: Nucleotidyltransferase	F: PF04607	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth T]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
C [auth T]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
E [auth Y]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
E [auth Y]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
G [auth Z]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
G [auth Z]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
A [auth V]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
A [auth V]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
B [auth X]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
B [auth X]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
D [auth S]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
D [auth S]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
F [auth O]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
F [auth O]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
H [auth W]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
H [auth W]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
I [auth U]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
I [auth U]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
J [auth P]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
J [auth P]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
K [auth R]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
K [auth R]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)
L [auth Q]	3.30.460.10	Alpha Beta	2-Layer Sandwich	Beta Polymerase	domain 2	CATH (4.3.0)
L [auth Q]	1.10.287.860	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Nucleotidyltransferase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth V], B [auth X], C [auth T], D [auth S], E [auth Y], A [auth V], B [auth X], C [auth T], D [auth S], E [auth Y], F [auth O], G [auth Z], H [auth W], I [auth U], J [auth P], K [auth R], L [auth Q]	PF04607	Region found in RelA / SpoT proteins (RelA_SpoT)	Region found in RelA / SpoT proteins	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth V], B [auth X], C [auth T], D [auth S], E [auth Y], A [auth V], B [auth X], C [auth T], D [auth S], E [auth Y], F [auth O], G [auth Z], H [auth W], I [auth U], J [auth P], K [auth R], L [auth Q]	GTP pyrophosphokinase YjbM	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding kinase activity transferase activity catalytic activity transferase activity, transferring phosphorus-containing groups GTP diphosphokinase activity diphosphotransferase activity guanyl nucleotide binding GTP binding guanyl ribonucleotide binding cation binding metal ion binding	phosphorylation cellular metabolic process phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process ribose phosphate metabolic process nucleoside bisphosphate metabolic process purine nucleoside bisphosphate metabolic process ribonucleoside bisphosphate biosynthetic process ribonucleoside bisphosphate metabolic process guanosine tetraphosphate biosynthetic process nucleotide biosynthetic process organonitrogen compound biosynthetic process phosphorylation cellular metabolic process phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process ribose phosphate metabolic process nucleoside bisphosphate metabolic process purine nucleoside bisphosphate metabolic process ribonucleoside bisphosphate biosynthetic process ribonucleoside bisphosphate metabolic process guanosine tetraphosphate biosynthetic process nucleotide biosynthetic process organonitrogen compound biosynthetic process carbohydrate derivative metabolic process purine ribonucleotide biosynthetic process purine ribonucleoside bisphosphate metabolic process purine ribonucleoside bisphosphate biosynthetic process nucleobase-containing compound metabolic process ribonucleotide biosynthetic process purine nucleotide metabolic process organic substance metabolic process guanosine tetraphosphate metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process organic substance biosynthetic process small molecule metabolic process purine nucleoside bisphosphate biosynthetic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process organonitrogen compound metabolic process nucleoside bisphosphate biosynthetic process primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process purine-containing compound metabolic process organic cyclic compound metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process organic cyclic compound biosynthetic process nucleoside phosphate biosynthetic process purine ribonucleotide metabolic process purine nucleotide biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth V], B [auth X], C [auth T], D [auth S], E [auth Y], A [auth V], B [auth X], C [auth T], D [auth S], E [auth Y], F [auth O], G [auth Z], H [auth W], I [auth U], J [auth P], K [auth R], L [auth Q]	IPR043519	Nucleotidyltransferase superfamily	Homologous Superfamily
A [auth V], B [auth X], C [auth T], D [auth S], E [auth Y], A [auth V], B [auth X], C [auth T], D [auth S], E [auth Y], F [auth O], G [auth Z], H [auth W], I [auth U], J [auth P], K [auth R], L [auth Q]	IPR007685	RelA/SpoT	Domain