4NYO | pdb_00004nyo

The 1.8 Angstrom Crystal Structure of the Periplasmic Divalent Cation Tolerance Protein Cuta 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
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d4nyof_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Divalent ion tolerance proteins CutA (CutA1)	Cut A1	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
E	d4nyoe_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Divalent ion tolerance proteins CutA (CutA1)	Cut A1	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
D	d4nyod_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Divalent ion tolerance proteins CutA (CutA1)	Cut A1	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
C	d4nyoc_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Divalent ion tolerance proteins CutA (CutA1)	Cut A1	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
B	d4nyob_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Divalent ion tolerance proteins CutA (CutA1)	Cut A1	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)
A	d4nyoa_	Alpha and beta proteins (a+b)	Ferredoxin-like	GlnB-like	Divalent ion tolerance proteins CutA (CutA1)	Cut A1	(Pyrococcus horikoshii OT3 ) [TaxId: 70601 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	GlnB-like	8041866	3001165	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	GlnB-like	8041866	3001165	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GlnB-like	8041866	3001165	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GlnB-like	8041866	3001165	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GlnB-like	8041866	3001165	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GlnB-like	8041866	3001165	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)
F	PepSY_like	e4nyoF1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Nucleotide-binding domain	F: PepSY_like	ECOD (v294.1)
E	PepSY_like	e4nyoE1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Nucleotide-binding domain	F: PepSY_like	ECOD (v294.1)
D	PepSY_like	e4nyoD1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Nucleotide-binding domain	F: PepSY_like	ECOD (v294.1)
C	PepSY_like	e4nyoC1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Nucleotide-binding domain	F: PepSY_like	ECOD (v294.1)
B	PepSY_like	e4nyoB1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: Nucleotide-binding domain	F: PepSY_like	ECOD (v294.1)
A	SHMT	e4nyoA1	A: a/b three-layered sandwiches	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: SHMT	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
E	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
D	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
C	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
B	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
A	3.30.70.120	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		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, E A, B, C, D, E, F	Divalent-cation tolerance protein CutA	cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding	response to stimulus response to metal ion response to chemical	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR004323	Divalent ion tolerance protein, CutA	Family
A, B, C, D, E A, B, C, D, E, F	IPR015867	Nitrogen regulatory protein PII/ATP phosphoribosyltransferase, C-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR011322	Nitrogen regulatory PII-like, alpha/beta	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR053426	Divalent-cation tolerance CutA	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C, D, E A, B, C, D, E, F	CSD	Parent Component: CYS RESID: AA0262 PSI-MOD : L-cysteine sulfinic acid MOD:00267

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.