Gene detail

Detailed information of g72.t1 in Calvadosia cruxmelitensis

Genomic Location: not available for this species
NR annotation: MCG8335096.1, serine hydroxymethyltransferase [Pseudomonadota 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
C6E348	Serine hydroxymethyltransferase OS=Geobacter sp. (strain M21) OX=443144 GN=glyA PE=3 SV=1
B5E8U0	Serine hydroxymethyltransferase OS=Citrifermentans bemidjiense (strain ATCC BAA-1014 / DSM 16622 / JCM 12645 / Bem) OX=404380 GN=glyA PE=3 SV=1
B8J189	Serine hydroxymethyltransferase OS=Desulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949 / MB) OX=525146 GN=glyA PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000038 (this species only)
Orthogroup (gene family)	OG0000046 (this species only)
Orthogroup (gene family)	OG0000596 (this species only)
Orthogroup (gene family)	OG0001347 (this species only)
Orthogroup (gene family)	OG0001922 (this species only)
Orthogroup (gene family)	OG0001960 (this species only)
Orthogroup (gene family)	OG0002844 (this species only)
Orthogroup (gene family)	OG0004894 (this species only)
Orthogroup (gene family)	OG0006064 (this species only)
Orthogroup (gene family)	OG0007258 (this species only)
Orthogroup (gene family)	OG0008907 (this species only)
Orthogroup (gene family)	OG0012158 (this species only)
Orthogroup (gene family)	OG0059639 (this species only)
Orthogroup (gene family)	OG0170996 (this species only)
Orthogroup (gene family)	OG0172140 (this species only)
Ubiquitin family	DUB\|OTU\|OTU · all ubiquitin genes in this species
Ubiquitin family	DUB\|ULP\|ULP · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF06244 all species →	Ccdc124	Coiled-coil domain-containing protein 124 /Oxs1	Family	Interproscan
PF00464 all species →	SHMT	Serine hydroxymethyltransferase	Domain	Interproscan
PF02502 all species →	LacAB_rpiB	Ribose/Galactose Isomerase	Family	Interproscan
PF02902 all species →	Peptidase_C48	Ulp1 protease family, C-terminal catalytic domain	Domain	Interproscan
PF10444 all species →	Nbl1_Borealin_N	Nbl1 / Borealin N terminal	Family	Interproscan
PF02338 all species →	OTU	OTU-like cysteine protease	Family	Interproscan
PF00514 all species →	Arm	Armadillo/beta-catenin-like repeat	Repeat	Interproscan
PF08385 all species →	DHC_N1	Dynein heavy chain, N-terminal region 1	Family	Interproscan
PF08393 all species →	DHC_N2	Dynein heavy chain, N-terminal region 2	Family	Interproscan
PF12774 all species →	AAA_6	Hydrolytic ATP binding site of dynein motor region	Domain	Interproscan
PF12775 all species →	AAA_7	P-loop containing dynein motor region	Domain	Interproscan
PF17852 all species →	Dynein_AAA_lid	Dynein heavy chain AAA lid domain	Domain	Interproscan
PF00665 all species →	rve	Integrase core domain	Domain	Interproscan
PF13976 all species →	gag_pre-integrs	GAG-pre-integrase domain	Domain	Interproscan
PF00078 all species →	RVT_1	Reverse transcriptase (RNA-dependent DNA polymerase)	Domain	Interproscan
PF01699 all species →	Na_Ca_ex	Sodium/calcium exchanger protein	Family	Interproscan
PF13843 all species →	DDE_Tnp_1_7	Transposase IS4	Domain	Interproscan
PF00168 all species →	C2	C2 domain	Domain	Interproscan
PF06292 all species →	MUN	MUN domain	Repeat	Interproscan
PF00153 all species →	Mito_carr	Mitochondrial carrier protein	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010422 all species →	Family	Coiled-coil domain-containing protein 124/Oxs1	Interproscan
IPR036910 all species →	Homologous_superfamily	High mobility group box domain superfamily	Interproscan
IPR036569 all species →	Homologous_superfamily	Sugar-phosphate isomerase, RpiB/LacA/LacB superfamily	Interproscan
IPR001085 all species →	Family	Serine hydroxymethyltransferase	Interproscan
IPR039429 all species →	Domain	Serine hydroxymethyltransferase-like domain	Interproscan
IPR049943 all species →	Family	Serine hydroxymethyltransferase-like	Interproscan
IPR015424 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase	Interproscan
IPR015421 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, major domain	Interproscan
IPR019798 all species →	Binding_site	Serine hydroxymethyltransferase, pyridoxal phosphate binding site	Interproscan
IPR003500 all species →	Family	Sugar-phosphate isomerase, RpiB/LacA/LacB family	Interproscan
IPR015422 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, small domain	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR003653 all species →	Domain	Ulp1 protease family, C-terminal catalytic domain	Interproscan
IPR018851 all species →	Domain	Borealin, N-terminal	Interproscan
IPR018867 all species →	Family	Cell division protein borealin	Interproscan
IPR003323 all species →	Domain	OTU domain	Interproscan
IPR050704 all species →	Family	OTU domain-containing ubiquitin thioesterase	Interproscan
IPR011989 all species →	Homologous_superfamily	Armadillo-like helical	Interproscan
IPR000225 all species →	Repeat	Armadillo	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR013594 all species →	Domain	Dynein heavy chain, tail	Interproscan
IPR042228 all species →	Homologous_superfamily	Dynein heavy chain, linker, subdomain 3	Interproscan
IPR026983 all species →	Family	Dynein heavy chain	Interproscan
IPR013602 all species →	Domain	Dynein heavy chain, linker	Interproscan
IPR035699 all species →	Domain	Dynein heavy chain, hydrolytic ATP-binding dynein motor region	Interproscan
IPR042222 all species →	Homologous_superfamily	Dynein heavy chain, domain 2, N-terminal	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan
IPR041466 all species →	Domain	Dynein heavy chain, AAA 5 extension domain	Interproscan
IPR043157 all species →	Homologous_superfamily	Dynein heavy chain, AAA1 domain, small subdomain	Interproscan
IPR001584 all species →	Domain	Integrase, catalytic core	Interproscan
IPR012337 all species →	Homologous_superfamily	Ribonuclease H-like superfamily	Interproscan
IPR036397 all species →	Homologous_superfamily	Ribonuclease H superfamily	Interproscan
IPR025724 all species →	Domain	GAG-pre-integrase domain	Interproscan
IPR043502 all species →	Homologous_superfamily	DNA/RNA polymerase superfamily	Interproscan
IPR000477 all species →	Domain	Reverse transcriptase domain	Interproscan
IPR044880 all species →	Homologous_superfamily	NCX, central ion-binding domain superfamily	Interproscan
IPR051171 all species →	Family	Calcium/Cation Antiporter	Interproscan
IPR004837 all species →	Domain	Sodium/calcium exchanger membrane region	Interproscan
IPR029526 all species →	Domain	PiggyBac transposable element-derived protein	Interproscan
IPR014770 all species →	Domain	Munc13 homology 1	Interproscan
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	Interproscan
IPR052095 all species →	Family	UNC-13 domain-containing protein	Interproscan
IPR014772 all species →	Domain	Mammalian uncoordinated homology 13, domain 2	Interproscan
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR010439 all species →	Domain	MUN domain	Interproscan
IPR018108 all species →	Repeat	Mitochondrial substrate/solute carrier	Interproscan
IPR023395 all species →	Homologous_superfamily	Mitochondrial carrier domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21680 all species →	UNCHARACTERIZED	Interproscan
PTHR11680 all species →	SERINE HYDROXYMETHYLTRANSFERASE	Interproscan
PTHR12606 all species →	SENTRIN/SUMO-SPECIFIC PROTEASE	Interproscan
PTHR16040 all species →	AUSTRALIN, ISOFORM A-RELATED	Interproscan
PTHR12419 all species →	OTU DOMAIN CONTAINING PROTEIN	Interproscan
PTHR23314 all species →	SPERM-ASSOCIATED ANTIGEN 6 ARMADILLO REPEAT-CONTAINING	Interproscan
PTHR46532 all species →	MALE FERTILITY FACTOR KL5	Interproscan
PTHR42648 all species →	TRANSPOSASE, PUTATIVE-RELATED	Interproscan
PTHR47027 all species →	REVERSE TRANSCRIPTASE DOMAIN-CONTAINING PROTEIN	Interproscan
PTHR11878 all species →	SODIUM/CALCIUM EXCHANGER	Interproscan
PTHR46599 all species →	PIGGYBAC TRANSPOSABLE ELEMENT-DERIVED PROTEIN 4	Interproscan
PTHR45999 all species →	UNC-13-4A, ISOFORM B	Interproscan
PTHR46181 all species →	MITOCHONDRIAL GLYCINE TRANSPORTER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003713 all species →	Molecular Function	transcription coactivator activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006366 all species →	Biological Process	transcription by RNA polymerase II	Interproscan
GO:0005975 all species →	Biological Process	carbohydrate metabolic process	Interproscan
GO:0016853 all species →	Molecular Function	isomerase activity	Interproscan
GO:0004372 all species →	Molecular Function	glycine hydroxymethyltransferase activity	Interproscan
GO:0019264 all species →	Biological Process	glycine biosynthetic process from serine	Interproscan
GO:0030170 all species →	Molecular Function	pyridoxal phosphate binding	Interproscan
GO:0035999 all species →	Biological Process	tetrahydrofolate interconversion	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006565 all species →	Biological Process	L-serine catabolic process	Interproscan
GO:0006730 all species →	Biological Process	one-carbon metabolic process	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0046653 all species →	Biological Process	tetrahydrofolate metabolic process	Interproscan
GO:0046655 all species →	Biological Process	folic acid metabolic process	Interproscan
GO:0050897 all species →	Molecular Function	cobalt ion binding	Interproscan
GO:0070905 all species →	Molecular Function	serine binding	Interproscan
GO:0016926 all species →	Biological Process	protein desumoylation	Interproscan
GO:0016929 all species →	Molecular Function	deSUMOylase activity	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008234 all species →	Molecular Function	cysteine-type peptidase activity	Interproscan
GO:0000070 all species →	Biological Process	mitotic sister chromatid segregation	Interproscan
GO:0000775 all species →	Cellular Component	chromosome, centromeric region	Interproscan
GO:0032133 all species →	Cellular Component	chromosome passenger complex	Interproscan
GO:0051233 all species →	Cellular Component	spindle midzone	Interproscan
GO:0004843 all species →	Molecular Function	cysteine-type deubiquitinase activity	Interproscan
GO:0016579 all species →	Biological Process	protein deubiquitination	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0003341 all species →	Biological Process	cilium movement	Interproscan
GO:0008017 all species →	Molecular Function	microtubule binding	Interproscan
GO:0015630 all species →	Cellular Component	microtubule cytoskeleton	Interproscan
GO:0005858 all species →	Cellular Component	axonemal dynein complex	Interproscan
GO:0007018 all species →	Biological Process	microtubule-based movement	Interproscan
GO:0030286 all species →	Cellular Component	dynein complex	Interproscan
GO:0045505 all species →	Molecular Function	dynein intermediate chain binding	Interproscan
GO:0051959 all species →	Molecular Function	dynein light intermediate chain binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0015074 all species →	Biological Process	DNA integration	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0005432 all species →	Molecular Function	calcium:sodium antiporter activity	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0015491 all species →	Molecular Function	obsolete cation:cation antiporter activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0030001 all species →	Biological Process	metal ion transport	Interproscan
GO:0030424 all species →	Cellular Component	axon	Interproscan
GO:0035725 all species →	Biological Process	sodium ion transmembrane transport	Interproscan
GO:0042383 all species →	Cellular Component	sarcolemma	Interproscan
GO:0098703 all species →	Biological Process	calcium ion import across plasma membrane	Interproscan
GO:0098794 all species →	Cellular Component	postsynapse	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0099503 all species →	Cellular Component	secretory vesicle	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0015187 all species →	Molecular Function	glycine transmembrane transporter activity	Interproscan
GO:1904983 all species →	Biological Process	glycine import into mitochondrion	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
K00600	glyA, SHMT; glycine hydroxymethyltransferase	EC:2.1.2.1	Antifolate resistance	ko01523	deepkoala
K10408	DNAH; dynein axonemal heavy chain	-	Cytoskeleton proteins	ko04812	deepkoala
K11514	CDCA8; Borealin	-	Chromosome and associated proteins	ko03036	deepkoala
K12655	OTUD5, DUBA; OTU domain-containing protein 5	EC:3.4.19.12	Ubiquitin system	ko04121	deepkoala
K25532	SPAG6; sperm-associated antigen 6	-	Cilium and associated proteins	ko03037	deepkoala

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