Gene detail

Detailed information of g1254.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: WP_119679292.1, RsmB/NOP family class I SAM-dependent RNA methyltransferase [Indioceanicola profundi]
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
Q9I7A9	Ribosomal RNA small subunit methyltransferase B OS=Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) OX=208964 GN=rsmB PE=3 SV=1
Q87KD3	Ribosomal RNA small subunit methyltransferase B OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) OX=223926 GN=rsmB PE=3 SV=1
Q88B41	Ribosomal RNA small subunit methyltransferase B OS=Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000) OX=223283 GN=rsmB PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000114 (this species only)
Orthogroup (gene family)	OG0000298 (this species only)
Orthogroup (gene family)	OG0002236 (this species only)
Orthogroup (gene family)	OG0002280 (this species only)
Orthogroup (gene family)	OG0003416 (this species only)
Orthogroup (gene family)	OG0005515 (this species only)
Orthogroup (gene family)	OG0005566 (this species only)
Orthogroup (gene family)	OG0006670 (this species only)
Orthogroup (gene family)	OG0008932 (this species only)
Orthogroup (gene family)	OG0014716 (this species only)
Orthogroup (gene family)	OG0025836 (this species only)
Orthogroup (gene family)	OG0172290 (this species only)
Orthogroup (gene family)	OG0173864 (this species only)
Orthogroup (gene family)	OG0174439 (this species only)
Transcription factor family	zf-C2H2 · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01266 all species →	DAO	FAD dependent oxidoreductase	Domain	Interproscan
PF00595 all species →	PDZ	PDZ domain	Domain	Interproscan
PF00147 all species →	Fibrinogen_C	Fibrinogen beta and gamma chains, C-terminal globular domain	Domain	Interproscan
PF00612 all species →	IQ	IQ calmodulin-binding motif	Motif	Interproscan
PF12796 all species →	Ank_2	Ankyrin repeats (3 copies)	Repeat	Interproscan
PF00096 all species →	zf-C2H2	Zinc finger, C2H2 type	Domain	Interproscan
PF01189 all species →	Methyltr_RsmB-F	16S rRNA methyltransferase RsmB/F	Family	Interproscan
PF01029 all species →	NusB	NusB family	Domain	Interproscan
PF01116 all species →	F_bP_aldolase	Fructose-bisphosphate aldolase class-II	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR023209 all species →	Family	D-amino-acid oxidase	Interproscan
IPR006076 all species →	Domain	FAD dependent oxidoreductase	Interproscan
IPR006181 all species →	Conserved_site	D-amino acid oxidase, conserved site	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan
IPR036892 all species →	Homologous_superfamily	L27 domain superfamily	Interproscan
IPR051342 all species →	Family	PDZ domain-containing scaffold protein	Interproscan
IPR014716 all species →	Homologous_superfamily	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Interproscan
IPR002181 all species →	Domain	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Interproscan
IPR050373 all species →	Family	Fibrinogen C-terminal domain-containing protein	Interproscan
IPR036056 all species →	Homologous_superfamily	Fibrinogen-like, C-terminal	Interproscan
IPR024881 all species →	Family	T-cell immunomodulatory protein	Interproscan
IPR002110 all species →	Repeat	Ankyrin repeat	Interproscan
IPR000048 all species →	Binding_site	IQ motif, EF-hand binding site	Interproscan
IPR036770 all species →	Homologous_superfamily	Ankyrin repeat-containing domain superfamily	Interproscan
IPR029063 all species →	Homologous_superfamily	S-adenosyl-L-methionine-dependent methyltransferase superfamily	Interproscan
IPR042086 all species →	Homologous_superfamily	Methyltransferase, alpha-helical capping domain	Interproscan
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan
IPR036236 all species →	Homologous_superfamily	Zinc finger C2H2 superfamily	Interproscan
IPR050329 all species →	Family	GLI C2H2-type zinc-finger	Interproscan
IPR035926 all species →	Homologous_superfamily	NusB-like superfamily	Interproscan
IPR049560 all species →	Domain	SAM-dependent methyltransferase RsmB-F/NOP2-type, catalytic core	Interproscan
IPR023267 all species →	Family	RNA (C5-cytosine) methyltransferase	Interproscan
IPR006027 all species →	Domain	NusB/RsmB/TIM44	Interproscan
IPR001678 all species →	Domain	SAM-dependent methyltransferase RsmB-F/NOP2-type domain	Interproscan
IPR013785 all species →	Homologous_superfamily	Aldolase-type TIM barrel	Interproscan
IPR000771 all species →	Family	Fructose-bisphosphate aldolase, class-II	Interproscan
IPR006411 all species →	Family	Fructose-bisphosphate aldolase, class II, yeast/E. coli subtype	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11530 all species →	D-AMINO ACID OXIDASE	Interproscan
PTHR19964 all species →	MULTIPLE PDZ DOMAIN PROTEIN	Interproscan
PTHR19143 all species →	FIBRINOGEN/TENASCIN/ANGIOPOEITIN	Interproscan
PTHR13412 all species →	T-CELL IMMUNOMODULATORY PROTEIN HOMOLOG	Interproscan
PTHR24126 all species →	ANKYRIN REPEAT, PH AND SEC7 DOMAIN CONTAINING PROTEIN SECG-RELATED	Interproscan
PTHR19818 all species →	ZINC FINGER PROTEIN ZIC AND GLI	Interproscan
PTHR22807 all species →	NOP2 YEAST -RELATED NOL1/NOP2/FMU SUN DOMAIN-CONTAINING	Interproscan
PTHR30559 all species →	FRUCTOSE-BISPHOSPHATE ALDOLASE CLASS 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003884 all species →	Molecular Function	D-amino-acid oxidase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0019478 all species →	Biological Process	D-amino acid catabolic process	Interproscan
GO:0046416 all species →	Biological Process	D-amino acid metabolic process	Interproscan
GO:0071949 all species →	Molecular Function	FAD binding	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0062023 all species →	Cellular Component	collagen-containing extracellular matrix	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0001510 all species →	Biological Process	RNA methylation	Interproscan
GO:0008173 all species →	Molecular Function	RNA methyltransferase activity	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0008168 all species →	Molecular Function	methyltransferase activity	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0016832 all species →	Molecular Function	aldehyde-lyase activity	Interproscan
GO:0004332 all species →	Molecular Function	fructose-bisphosphate aldolase activity	Interproscan
GO:0006096 all species →	Biological Process	glycolytic process	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	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
K01624	FBA, fbaA; fructose-bisphosphate aldolase, class II	EC:4.1.2.13	Methane metabolism	ko00680	deepkoala
K03500	rsmB, sun; 16S rRNA (cytosine967-C5)-methyltransferase	EC:2.1.1.176	Ribosome biogenesis	ko03009	deepkoala
K19626	INVS; inversin	-	Cilium and associated proteins	ko03037	deepkoala

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