Gene detail

Detailed information of g261.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: PCI30291.1, DNA topoisomerase (ATP-hydrolyzing) subunit B [SAR324 cluster bacterium]
Species Calvadosia cruxmelitensis · all data for this species · gene families

Sequence

Sequence data are not available for Calvadosia cruxmelitensis.
Nucleotide and protein sequences are provided for the species whose genome annotation is complete (see annotated genomes); for this species only the assembly is archived. The functional annotation below is likewise unavailable.

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9I7C2	DNA gyrase subunit B OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=gyrB PE=1 SV=1
P13364	DNA gyrase subunit B OS=Pseudomonas putida OX=303 GN=gyrB PE=3 SV=2
P05652	DNA gyrase subunit B OS=Bacillus subtilis (strain 168) OX=224308 GN=gyrB PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001783 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0002678 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005527 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0005644 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0006331 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0009665 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0010415 (this species only) · gene tree & orthology
Orthogroup (gene family)	OG0061867 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16741 all species →	mRNA_decap_C	mRNA-decapping enzyme C-terminus	Domain	Interproscan
PF06058 all species →	DCP1	Dcp1-like decapping family	Domain	Interproscan
PF01593 all species →	Amino_oxidase	Flavin containing amine oxidoreductase	Domain	Interproscan
PF13450 all species →	NAD_binding_8	NAD(P)-binding Rossmann-like domain	Domain	Interproscan
PF01532 all species →	Glyco_hydro_47	Glycosyl hydrolase family 47	Repeat	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan
PF01751 all species →	Toprim	Toprim domain	Family	Interproscan
PF00204 all species →	DNA_gyraseB	DNA gyrase B	Domain	Interproscan
PF02518 all species →	HATPase_c	Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase	Domain	Interproscan
PF00986 all species →	DNA_gyraseB_C	DNA gyrase B subunit, carboxyl terminus	Family	Interproscan
PF02196 all species →	RBD	Raf-like Ras-binding domain	Domain	Interproscan
PF00069 all species →	Pkinase	Protein kinase domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR031953 all species →	Domain	mRNA-decapping enzyme, C-terminal	Interproscan
IPR010334 all species →	Family	mRNA-decapping enzyme subunit 1	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR002937 all species →	Domain	Amine oxidase	Interproscan
IPR052206 all species →	Family	All-trans-retinol saturase	Interproscan
IPR012341 all species →	Homologous_superfamily	Six-hairpin glycosidase-like superfamily	Interproscan
IPR050749 all species →	Family	Glycosyl Hydrolase Family 47	Interproscan
IPR001382 all species →	Family	Glycoside hydrolase family 47	Interproscan
IPR036026 all species →	Homologous_superfamily	Seven-hairpin glycosidases	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR018522 all species →	Conserved_site	DNA topoisomerase, type IIA, conserved site	Interproscan
IPR020568 all species →	Homologous_superfamily	Ribosomal protein uS5 domain 2-type superfamily	Interproscan
IPR013759 all species →	Homologous_superfamily	DNA topoisomerase, type IIA, subunit B, C-terminal	Interproscan
IPR006171 all species →	Domain	TOPRIM domain	Interproscan
IPR011557 all species →	Family	DNA gyrase, subunit B	Interproscan
IPR014721 all species →	Homologous_superfamily	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Interproscan
IPR013506 all species →	Domain	DNA topoisomerase, type IIA, subunit B, domain 2	Interproscan
IPR000565 all species →	Family	DNA topoisomerase, type IIA, subunit B	Interproscan
IPR036890 all species →	Homologous_superfamily	Histidine kinase/HSP90-like ATPase superfamily	Interproscan
IPR003594 all species →	Domain	Histidine kinase/HSP90-like ATPase	Interproscan
IPR013760 all species →	Homologous_superfamily	DNA topoisomerase, type IIA-like domain superfamily	Interproscan
IPR034160 all species →	Domain	DNA gyrase subunit B, TOPRIM domain	Interproscan
IPR002288 all species →	Domain	DNA gyrase B subunit, C-terminal	Interproscan
IPR001241 all species →	Family	DNA topoisomerase, type IIA	Interproscan
IPR003109 all species →	Conserved_site	GoLoco motif	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR046995 all species →	Family	Regulator of G-protein signaling 10/12/14-like	Interproscan
IPR003116 all species →	Domain	Raf-like Ras-binding	Interproscan
IPR000719 all species →	Domain	Protein kinase domain	Interproscan
IPR017441 all species →	Binding_site	Protein kinase, ATP binding site	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16290 all species →	TRANSCRIPTION FACTOR SMIF DECAPPING ENZYME DCP1	Interproscan
PTHR46091 all species →	BLR7054 PROTEIN	Interproscan
PTHR11742 all species →	MANNOSYL-OLIGOSACCHARIDE ALPHA-1,2-MANNOSIDASE-RELATED	Interproscan
PTHR47027 all species →	REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR45866 all species →	DNA GYRASE/TOPOISOMERASE SUBUNIT B	Interproscan
PTHR45945 all species →	REGULATOR OF G-PROTEIN SIGNALING LOCO	Interproscan
PTHR24351 all species →	RIBOSOMAL PROTEIN S6 KINASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000290 all species →	Biological Process	deadenylation-dependent decapping of nuclear-transcribed mRNA	Interproscan
GO:0000932 all species →	Cellular Component	P-body	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0008047 all species →	Molecular Function	enzyme activator activity	Interproscan
GO:0031087 all species →	Biological Process	deadenylation-independent decapping of nuclear-transcribed mRNA	Interproscan
GO:0043085 all species →	Biological Process	positive regulation of catalytic activity	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0004571 all species →	Molecular Function	mannosyl-oligosaccharide 1,2-alpha-mannosidase activity	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:1904382 all species →	Biological Process	mannose trimming involved in glycoprotein ERAD pathway	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003918 all species →	Molecular Function	DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006265 all species →	Biological Process	DNA topological change	Interproscan
GO:0005694 all species →	Cellular Component	chromosome	Interproscan
GO:0030695 all species →	Molecular Function	GTPase regulator activity	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0008277 all species →	Biological Process	regulation of G protein-coupled receptor signaling pathway	Interproscan
GO:0007165 all species →	Biological Process	signal transduction	Interproscan
GO:0004672 all species →	Molecular Function	protein kinase activity	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0018105 all species →	Biological Process	peptidyl-serine phosphorylation	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02470	gyrB; DNA gyrase subunit B	EC:5.6.2.2	DNA repair and recombination proteins	ko03400	deepkoala
K09516	RETSAT; all-trans-retinol 13,14-reductase	EC:1.3.99.23	Retinol metabolism	ko00830	deepkoala
K12611	DCP1B; mRNA-decapping enzyme 1B	EC:3.-.-.-	Messenger RNA biogenesis	ko03019	deepkoala
K23741	MAN1B, MNS3; endoplasmic reticulum Man9GlcNAc2 1,2-alpha-mannosidase	EC:3.2.1.209	Membrane trafficking	ko04131	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.