2D13 | pdb_00002d13

Crystal Structure of PH1257 from Pyrococcus horikoshii OT3

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
D	d2d13d_	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Adenine nucleotide alpha hydrolases-like	N-type ATP pyrophosphatases	automated matches	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
C	d2d13c_	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Adenine nucleotide alpha hydrolases-like	N-type ATP pyrophosphatases	automated matches	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
B	d2d13b_	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Adenine nucleotide alpha hydrolases-like	N-type ATP pyrophosphatases	automated matches	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
A	d2d13a1	Alpha and beta proteins (a/b)	Adenine nucleotide alpha hydrolase-like	Adenine nucleotide alpha hydrolases-like	N-type ATP pyrophosphatases	Hypothetical protein PH1257	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Adenine nucleotide alpha hydrolases-like	8039482	3001593	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Adenine nucleotide alpha hydrolases-like	8039482	3001593	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Adenine nucleotide alpha hydrolases-like	8039482	3001593	SCOP2B (2022-06-29)
A	SCOP2 Family	N-type ATP pyrophosphatases	8027103	4003831	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Adenine nucleotide alpha hydrolases-like	8039482	3001593	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Usp	e2d13D1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Usp	ECOD (v294.1)
C	Usp	e2d13C1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Usp	ECOD (v294.1)
B	Usp	e2d13B1	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: Usp	ECOD (v294.1)
A	Diphthami_syn_2, PF28410	e2d13A1	A: a/b three-layered sandwiches	X: HUP domain-like	H: HUP domains	T: HUP domains	F: Diphthami_syn_2, PF28410	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
D	3.90.1490.10	Alpha Beta	Alpha-Beta Complex	putative n-type atp pyrophosphatase, domain 2	putative n-type atp pyrophosphatase, domain 2	CATH (4.3.0)
C	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
C	3.90.1490.10	Alpha Beta	Alpha-Beta Complex	putative n-type atp pyrophosphatase, domain 2	putative n-type atp pyrophosphatase, domain 2	CATH (4.3.0)
B	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
B	3.90.1490.10	Alpha Beta	Alpha-Beta Complex	putative n-type atp pyrophosphatase, domain 2	putative n-type atp pyrophosphatase, domain 2	CATH (4.3.0)
A	3.40.50.620	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HUPs	CATH (4.3.0)
A	3.90.1490.10	Alpha Beta	Alpha-Beta Complex	putative n-type atp pyrophosphatase, domain 2	putative n-type atp pyrophosphatase, domain 2	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	hypothetical protein PH1257	diphthine-ammonia ligase activity acid-ammonia (or amide) ligase activity catalytic activity ligase activity, forming carbon-nitrogen bonds ligase activity	peptidyl-histidine modification macromolecule modification peptidyl-amino acid modification metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process protein modification process protein histidyl modification to diphthamide	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR030662	Diphthine--ammonia ligase/Uncharacterised protein MJ0570	Family
A, B, C, D	IPR002761	Diphthamide synthase domain	Domain
A, B, C, D	IPR022427	Uncharacterised protein MJ0570, ATP-binding	Family
A, B, C, D	IPR005237	Uncharacterised protein MJ0570	Family
A, B, C, D	IPR014729	Rossmann-like alpha/beta/alpha sandwich fold	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.