Annotations: 6OEI

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Spc42p coiled coil	8103701	3002806	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	PF01590	e6oeiA1	A: a+b three layers	X: Profilin-like	H: sensor domains (From Topology)	T: sensor domains	F: PF01590	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF11544	Spindle pole body component Spc42p (Spc42p)	Spindle pole body component Spc42p	-	Coiled-coil
A	PF01590	GAF domain (GAF)	GAF domain	This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl cyclases, phytochromes, FhlA and NifA. Adenylyl and guanylyl cyclases catalyse ATP and GTP to the second messengers cAMP and cGMP, respectively, these products up-regul ...	This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl cyclases, phytochromes, FhlA and NifA. Adenylyl and guanylyl cyclases catalyse ATP and GTP to the second messengers cAMP and cGMP, respectively, these products up-regulating catalytic activity by binding to the regulatory GAF domain(s). The opposite hydrolysis reaction is catalysed by phosphodiesterase. cGMP-dependent 3',5'-cyclic phosphodiesterase catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. Here too, cGMP regulates catalytic activity by GAF-domain binding. Phytochromes are regulatory photoreceptors in plants and bacteria which exist in two thermally-stable states that are reversibly inter-convertible by light: the Pr state absorbs maximally in the red region of the spectrum, while the Pfr state absorbs maximally in the far-red region. This domain is also found in FhlA (formate hydrogen lyase transcriptional activator) and NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54. This domain can bind biliverdine and phycocyanobilin (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Spindle pole body component SPC42,Sigma-54-dependent transcriptional regulator	structural constituent of cytoskeleton structural molecule activity 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 structural constituent of cytoskeleton structural molecule activity 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 pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity sequence-specific DNA binding DNA binding nucleic acid binding	spindle pole body duplication microtubule organizing center organization microtubule cytoskeleton organization cellular component organization cellular component biogenesis organelle organization cellular component assembly spindle pole body organization cellular process microtubule-based process cell cycle cellular component organization or biogenesis cytoskeleton organization cell cycle process spindle pole body duplication microtubule organizing center organization microtubule cytoskeleton organization cellular component organization cellular component biogenesis organelle organization cellular component assembly spindle pole body organization cellular process microtubule-based process cell cycle cellular component organization or biogenesis cytoskeleton organization cell cycle process regulation of cytoskeleton organization regulation of microtubule polymerization or depolymerization regulation of cellular process regulation of cellular component organization regulation of protein-containing complex assembly microtubule polymerization or depolymerization protein-containing complex assembly protein polymerization regulation of biological process protein-containing complex organization biological regulation regulation of microtubule-based process microtubule polymerization regulation of cellular component biogenesis regulation of microtubule nucleation regulation of organelle organization microtubule nucleation regulation of microtubule polymerization regulation of protein polymerization regulation of supramolecular fiber organization supramolecular fiber organization regulation of microtubule cytoskeleton organization cellular biosynthetic 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 organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process cellular metabolic process primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	intracellular anatomical structure intermediate layer of spindle pole body cellular anatomical entity intracellular organelle microtubule organizing center cytoskeleton organelle intracellular non-membrane-bounded organelle spindle pole body microtubule cytoskeleton non-membrane-bounded organelle central plaque of spindle pole body cytoplasm membrane-bounded organelle intracellular anatomical structure intermediate layer of spindle pole body cellular anatomical entity intracellular organelle microtubule organizing center cytoskeleton organelle intracellular non-membrane-bounded organelle spindle pole body microtubule cytoskeleton non-membrane-bounded organelle central plaque of spindle pole body cytoplasm membrane-bounded organelle nucleus intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR021611	Spindle pole body component Spc42	Family
A	IPR002197	DNA binding HTH domain, Fis-type	Domain
A	IPR002078	RNA polymerase sigma factor 54 interaction domain	Domain
A	IPR009057	Homeobox-like domain superfamily	Homologous Superfamily
A	IPR025662	Sigma-54 interaction domain, ATP-binding site 1	Binding Site
A	IPR003593	AAA+ ATPase domain	Domain
A	IPR003018	GAF domain	Domain
A	IPR029016	GAF-like domain superfamily	Homologous Superfamily
A	IPR025943	Sigma-54 interaction domain, ATP-binding site 2	Binding Site
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	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 R01GM133198.