Gene detail

Detailed information of HOLI00002.G20175 in Hydra oligactis

Genomic Location: HOLI00002:3474136...3476855
NR annotation: MCD6020153.1, ribosomal protein methylthiotransferase [Bacteroidota bacterium]
Species abbreviation HOLIG · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

HOLI00002.g20175.t1

ATGGGGCAGCTGCGCGCCAACAATTTTAATGTAGAGCATGAAAGCGAAGAGGACAATCATAACATTGTGATTATTAACACCTGTGGTTTTGTGGAAAATGCCAAGCAGGAAAGCATTGATACCATCCTGCGTTATGTGGATGCCAAAAAAGAAGGAAGCATCGAAAAGCTCTATGTGACGGGCTGCCTGAGCGAGCGCTATAAAGGCGACCTCGAAAAAGAGATTCCCGATGTGGATGCTTATTTCGGAACACGCGAGCTTCCCAAGATCTTAAAGACCCTCAAAGCCGATTATAAGAAGGAACTGGTAGGAGAGCGCCTGCTCACTACGCCGAATCATTATGCTTATTTCAAGATCAGCGAAGGCTGCGACAGGCCTTGCAGCTTCTGCGCCATCCCGCTGATGCGCGGCGGGCATATTTCGGAGCCGGTCGAATCGCTGGTGGAAAGGGCGAAGCTGCTGGCCTCCAAAGGGACACGCGAGCTGCTGCTGATTGCACAGGACCTCACGTATTACGGCCTGGATATTTATAAAAAGAGAGAGCTCGCTAACCTGGTGGATCGCCTCAGCGATGTGGAGGGAATTGATTGGATCAGGCTGCACTATGCCTTTCCGAGCGGCTTCCCGATGGAAGTGCTGGATGTGATGAACCGCAAAGCCAATGTCTGCAACTACCTGGACATGCCCCTGCAGCACATCACCGATAACATGCTTAAAAGCATGCGCCGCGGCATTACCAAGCAAAAAACGATTGATACGGTGAATATGATCCGTGATAAGGTGCCGGGCATTGCCATCCGTACCACGCTCATCGCGGGCTACCCGGGAGAAACAGAGCAGGACCATGAGGAAATGCTACAGTGGGTATCGGATTCGAAGTTTGAGCGCCTGGGAATTTTCACTTACTCGCACGAAGAAAATACGCATGCCTACAACCTGAAGGACGATGTGAAAGAAAAGGTGAAACGCGCACGCGCCGACGCTGTGATGCAGGTTCAGCAGGAGATCTCCTATAACCTGAACCAGGAAAAGATCGGCAAAACCTACAAGGTGTTATTCGACCGCAAGGAGAACGATTATTTTGTGGGACGCACCGAGTTCGACAGCCCGGATGTGGACAACGAAGTGCTGGTGAAGGCTACGGACGAGAACTATGTGCGCATCGGCGATTTCGCCAACGTCAAGATCAACGACGCCAGCGATTTCGACTTGTACGGGGAGTTGTATAAAACGGTATATGAAAAAAGCGATCTTATTCTTTCCATCCTGTTCAGCTCCCTGTGCTATTCCCAGACCATTCAGAACAGCAGCTACAGCACCGAGGGCTACATCAAAGAAGATGGCACCGTGCAAAACAGCAGCTACGCTACCATTGGTTACATCAAAGCCGACGGCACGGTACAAAACAGCAGCTACTCCACCATCGGTTACATTAAAGACGATGGAACTATCCAGAACAGGAGCTATTCCACCATCGGTTATATTAAAAGCGACGGTACGATCCAGAACAACAGCTATTCTACCATTGGCTATATTAAGGAAGATGGCACCATGCAAAACAGTAGCTACAGCACCATTGGCTATGCCAAAAATATAAGCCTAAACCTTATCCCTACAATCCCGTATCGGGAAAAGATATCTTATCGAACGGACTCATCGGCTGCTTTGTGGCTTTTTTTTCTGCTGGTATTTGAGCCTTTCGATATCTCTTTGTGGGAAACGCCGTACCGCTTCTGGAAGATCCTGGGCTTTGGCTTCGTGTCTTTTTTATGCCCCACCGTTTTCAGGCTTTTGTCGGTATTGGTACTGTACCGCAGCAGGCCCGAAGAAAGCTGGACGGTGTGGAAGGAAATTTTGTCTCTCGTACTTGTGCTTTTATTCATTGCCCTGGGCAATATGTTGTACGGGAACCTGATCGGGATTGCCACCATCAGCTTCGGCCAGCTGGCCCTGGCAACGCTCGCGACTTTTCTGCTGGGTATTTTTCCCATTACCGCCAATGTGGCGCTTAAGTACAACCGCTTCCAGGCGCTTAACCGGAAAGAGGCGCAGCACATGGAGCAGGAGGTGAAAAGCTACCAGCAGCGTGCGGAAGTCAACCACAGCGGGGAGAACCATCCTCCAACAGAGGAAAGTCCATGGCTGGTACTCATGGCCGAGAATGAAAAAGACCGCCTGGAGCTAAACCCCGAAGACCTGCTCTACATTGAGTCGGCAGATAATTATTCCAACATTGTTTATCTGAAAGGAGGTTTGCTTTCCCGGCAGCTCATCCGTGGGAGCCTGAAACGGCTTGAAACGCAAATTGCTATTCCGTACATTATCCGCTGCCACAGGAGCTACATCGTCAATATCAGGCAGGTGAGTGAGGTGAGCGGAAATGCCCAGGGCTACAAGATCAGCTTCAAAACCGCCGGGGTTAATCCCGTTCCCGTTTCCAGGAATTATGGAAAAGAAGTGCTTGCACACCTGGAAACCATAGCTTAA

Transcript

HOLI00002.g20175.t1

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q11XC6	Ribosomal protein uS12 methylthiotransferase RimO OS=Cytophaga hutchinsonii (strain ATCC 33406 / DSM 1761 / CIP 103989 / NBRC 15051 / NCIMB 9469 / D465) OX=269798 GN=rimO PE=3 SV=1
A0M3K8	Ribosomal protein uS12 methylthiotransferase RimO OS=Christiangramia forsetii (strain DSM 17595 / CGMCC 1.15422 / KT0803) OX=411154 GN=rimO PE=3 SV=1
A5FA30	Ribosomal protein uS12 methylthiotransferase RimO OS=Flavobacterium johnsoniae (strain ATCC 17061 / DSM 2064 / JCM 8514 / BCRC 14874 / CCUG 350202 / NBRC 14942 / NCIMB 11054 / UW101) OX=376686 GN=rimO PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0012304 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18693 all species →	TRAM_2	TRAM domain	Domain	Interproscan
PF00919 all species →	UPF0004	Uncharacterized protein family UPF0004	Family	Interproscan
PF04055 all species →	Radical_SAM	Radical SAM superfamily	Domain	Interproscan
PF04397 all species →	LytTR	LytTr DNA-binding domain	Domain	Interproscan
PF21785 all species →	Bflower_2	5-fold beta-flower protein	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005840 all species →	Family	Ribosomal protein uS12 methylthiotransferase RimO	Interproscan
IPR013848 all species →	Domain	Methylthiotransferase, N-terminal	Interproscan
IPR023404 all species →	Homologous_superfamily	Radical SAM, alpha/beta horseshoe	Interproscan
IPR007492 all species →	Domain	LytTR DNA-binding domain	Interproscan
IPR006638 all species →	Domain	Elp3/MiaA/NifB-like, radical SAM core domain	Interproscan
IPR007197 all species →	Domain	Radical SAM	Interproscan
IPR002792 all species →	Domain	TRAM domain	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR038135 all species →	Homologous_superfamily	Methylthiotransferase, N-terminal domain superfamily	Interproscan
IPR048910 all species →	Family	5-fold beta-flower protein	Interproscan
IPR005839 all species →	Family	Methylthiotransferase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43837 all species →	RIBOSOMAL PROTEIN S12 METHYLTHIOTRANSFERASE RIMO	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016740 all species →	Molecular Function	transferase activity	Interproscan
GO:0018339 all species →	Biological Process	peptidyl-L-beta-methylthioaspartic acid biosynthetic process from peptidyl-aspartic acid	Interproscan
GO:0051539 all species →	Molecular Function	4 iron, 4 sulfur cluster binding	Interproscan
GO:0035596 all species →	Molecular Function	methylthiotransferase activity	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0051536 all species →	Molecular Function	iron-sulfur cluster binding	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0035599 all species →	Molecular Function	aspartic acid methylthiotransferase activity	Interproscan
GO:0006400 all species →	Biological Process	tRNA modification	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

No KEGG orthology assignment for HOLI00002.G20175.

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