4A6A | pdb_00004a6a

A115V variant of dCTP deaminase-dUTPase from Mycobacterium tuberculosis in complex with dTTP

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)
L	d4a6al_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
K	d4a6ak_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
J	d4a6aj_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
I	d4a6ai_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
H	d4a6ah_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
G	d4a6ag_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
F	d4a6af_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
E	d4a6ae_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
D	d4a6ad_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
C	d4a6ac_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
B	d4a6ab_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
A	d4a6aa_	All beta proteins	beta-clip	dUTPase-like	dUTPase-like	Deoxycytidine triphosphate deaminase (dCTP deaminase)	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	dUTPase-like	8079560	3001957	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	dUTPase-like	8079560	3001957	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)
L		e4a6aL1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: V-set	F:	ECOD (20:10:01)
K		e4a6aK2	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T:	F:	ECOD (20:10:01)
J		e4a6aJ2	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T:	F:	ECOD (20:10:01)
I		e4a6aI1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: V-set	F:	ECOD (20:10:01)
H		e4a6aH1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: V-set	F:	ECOD (20:10:01)
G		e4a6aG1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: V-set	F:	ECOD (20:10:01)
F		e4a6aF1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: V-set	F:	ECOD (20:10:01)
E		e4a6aE2	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T:	F:	ECOD (20:10:01)
D		e4a6aD2	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T:	F:	ECOD (20:10:01)
C		e4a6aC1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: V-set	F:	ECOD (20:10:01)
B		e4a6aB2	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T:	F:	ECOD (20:10:01)
A		e4a6aA1	A: Globin-like	X: Nucleoside diphosphate kinases	H: Nucleoside diphosphate kinases	T: Aldo_ket_red	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
K	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
J	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
I	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
H	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
G	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
F	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
E	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
D	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
C	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
B	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)
A	2.70.40.10	Mainly Beta	Distorted Sandwich	Deoxyuridine 5'-Triphosphate Nucleotidohydrolase	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF22769	dCTP deaminase-like (DCD)	dCTP deaminase-like	This entry represents a dCTP deaminase (DCD) domain found in archaea and bacteria [1-5]. Methanococcus jannaschii, has a bifunctional enzyme DCD-DUT, that harbors both dCTP deaminase and dUTP pyrophosphatase activities [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	DEOXYCYTIDINE TRIPHOSPHATE DEAMINASE	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines hydrolase activity dCTP deaminase (dUMP-forming) activity catalytic activity deaminase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds dCTP deaminase activity pyrophosphatase activity nucleoside triphosphate diphosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides dUTP diphosphatase activity hydrolase activity, acting on acid anhydrides binding nucleoside phosphate binding hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines hydrolase activity dCTP deaminase (dUMP-forming) activity catalytic activity deaminase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds dCTP deaminase activity pyrophosphatase activity nucleoside triphosphate diphosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides dUTP diphosphatase activity hydrolase activity, acting on acid anhydrides binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding	pyrimidine deoxyribonucleotide metabolic process deoxyribose phosphate biosynthetic process nucleotide biosynthetic process dUTP metabolic process carbohydrate derivative metabolic process pyrimidine nucleotide metabolic process pyrimidine deoxyribonucleoside triphosphate biosynthetic process nucleobase-containing compound metabolic process deoxyribonucleotide biosynthetic process pyrimidine deoxyribonucleotide biosynthetic process deoxyribonucleotide metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process pyrimidine deoxyribonucleoside triphosphate metabolic process pyrimidine deoxyribonucleotide metabolic process deoxyribose phosphate biosynthetic process nucleotide biosynthetic process dUTP metabolic process carbohydrate derivative metabolic process pyrimidine nucleotide metabolic process pyrimidine deoxyribonucleoside triphosphate biosynthetic process nucleobase-containing compound metabolic process deoxyribonucleotide biosynthetic process pyrimidine deoxyribonucleotide biosynthetic process deoxyribonucleotide metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process pyrimidine deoxyribonucleoside triphosphate metabolic process small molecule metabolic process pyrimidine-containing compound biosynthetic process pyrimidine nucleoside triphosphate biosynthetic process phosphorus metabolic process nucleoside phosphate metabolic process carbohydrate derivative biosynthetic process pyrimidine-containing compound metabolic process pyrimidine nucleoside triphosphate metabolic process dUTP biosynthetic process nucleoside triphosphate biosynthetic process 2'-deoxyribonucleotide metabolic process 2'-deoxyribonucleotide biosynthetic process primary metabolic process nucleotide metabolic process nucleobase-containing compound biosynthetic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process nucleoside phosphate biosynthetic process metabolic process cellular process nucleoside triphosphate metabolic process pyrimidine nucleotide biosynthetic process pyrimidine deoxyribonucleoside monophosphate metabolic process deoxyribonucleoside monophosphate biosynthetic process pyrimidine deoxyribonucleoside monophosphate biosynthetic process nucleoside monophosphate metabolic process pyrimidine nucleoside monophosphate metabolic process dUMP biosynthetic process nucleoside monophosphate biosynthetic process dUMP metabolic process pyrimidine nucleoside monophosphate biosynthetic process dTTP biosynthetic process dTTP metabolic process nucleobase-containing small molecule interconversion	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR011962	dCTP deaminase	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR033704	dUTPase, trimeric	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR036157	dUTPase-like superfamily	Homologous Superfamily

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.