1MZU

Crystal Structure of the Photoactive Yellow Protein Domain from the Sensor Histidine Kinase Ppr from Rhodospirillum centenum

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)
A	d1mzua_	Alpha and beta proteins (a+b)	Profilin-like	PYP-like sensor domain (PAS domain)	PYP-like	PYP domain of sensor histidine kinase Ppr	(Rhodospirillum centenum ) [TaxId: 34018 ],	SCOPe (2.08)
B	d1mzub_	Alpha and beta proteins (a+b)	Profilin-like	PYP-like sensor domain (PAS domain)	PYP-like	PYP domain of sensor histidine kinase Ppr	(Rhodospirillum centenum ) [TaxId: 34018 ],	SCOPe (2.08)
C	d1mzuc_	Alpha and beta proteins (a+b)	Profilin-like	PYP-like sensor domain (PAS domain)	PYP-like	PYP domain of sensor histidine kinase Ppr	(Rhodospirillum centenum ) [TaxId: 34018 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	PYP-like sensor domain (PAS domain)	8043921	3000471	SCOP2B (2022-06-29)
B	SCOP2 Family	PYP-like	8031543	4001863	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	PYP-like sensor domain (PAS domain)	8043921	3000471	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	PYP-like sensor domain (PAS domain)	8043921	3000471	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)
A	PAS_1	e1mzuA1	A: a+b three layers	X: Profilin-like	H: sensor domains (From Topology)	T: sensor domains	F: PAS_1	ECOD (1.6)
B	PAS_1	e1mzuB1	A: a+b three layers	X: Profilin-like	H: sensor domains (From Topology)	T: sensor domains	F: PAS_1	ECOD (1.6)
C	PAS_1	e1mzuC1	A: a+b three layers	X: Profilin-like	H: sensor domains (From Topology)	T: sensor domains	F: PAS_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.450.20	Alpha Beta	2-Layer Sandwich	Beta-Lactamase	PAS domain	CATH (4.3.0)
B	3.30.450.20	Alpha Beta	2-Layer Sandwich	Beta-Lactamase	PAS domain	CATH (4.3.0)
C	3.30.450.20	Alpha Beta	2-Layer Sandwich	Beta-Lactamase	PAS domain	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	PPR	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 molecular sensor activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity phosphotransferase activity, nitrogenous group as acceptor phosphotransferase activity, alcohol group as acceptor protein histidine kinase activity transferase activity, transferring phosphorus-containing groups phosphorelay sensor kinase activity molecular function regulator activity catalytic activity molecular transducer activity photoreceptor activity signaling receptor activity	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process phototransduction cellular response to stimulus detection of light stimulus response to light stimulus detection of external stimulus response to stimulus signaling response to external stimulus detection of abiotic stimulus cell communication detection of stimulus response to abiotic stimulus response to radiation signal transduction detection of visible light	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR013515	Phytochrome, central region	Domain
A, B, C	IPR000014	PAS domain	Domain
A, B, C	IPR036097	Signal transduction histidine kinase, dimerisation/phosphoacceptor domain superfamily	Homologous Superfamily
A, B, C	IPR043150	Phytochrome, PHY domain superfamily	Homologous Superfamily
A, B, C	IPR036890	Histidine kinase/HSP90-like ATPase superfamily	Homologous Superfamily
A, B, C	IPR003661	Signal transduction histidine kinase, dimerisation/phosphoacceptor domain	Domain
A, B, C	IPR013654	PAS fold-2	Domain
A, B, C	IPR035965	PAS domain superfamily	Homologous Superfamily
A, B, C	IPR003594	Histidine kinase/HSP90-like ATPase domain	Domain
A, B, C	IPR005467	Histidine kinase domain	Domain
A, B, C	IPR003018	GAF domain	Domain
A, B, C	IPR029016	GAF-like domain superfamily	Homologous Superfamily
A, B, C	IPR001294	Phytochrome	Family
A, B, C	IPR012130	Photoactive yellow-protein	Family
A, B, C	IPR016132	Phytochrome chromophore attachment domain	Domain

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.