Annotations: 9HIQ

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Thi4/GidA-like	8092224	3000051	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Helix-hairpin-helix tandem	8092228	3000163	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Thi4/GidA-like	8092224	3000051	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Helix-hairpin-helix tandem	8092228	3000163	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Ras-like P-loop GTPases	8058049	3002022	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Ras-like P-loop GTPases	8058049	3002022	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ras-like P-loop GTPases	8058049	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8058049	3002022	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, D	PF13932	tRNA modifying enzyme MnmG/GidA C-terminal helical bundle (SAM_GIDA_C)	tRNA modifying enzyme MnmG/GidA C-terminal helical bundle	The GidA associated domain is a domain that has been identified at the C-terminus of protein GidA. It consists of several helices, last three being rather short and forming small bundle and are represented in this entry. GidA is a tRNA modification e ...	The GidA associated domain is a domain that has been identified at the C-terminus of protein GidA. It consists of several helices, last three being rather short and forming small bundle and are represented in this entry. GidA is a tRNA modification enzyme found in bacteria and mitochondrial. Based on mutational analysis the C-terminal helices have been suggested to be implicated in binding of the D-stem of tRNA [2] and, specifically this domain, to be responsible for the interaction with protein MnmE [1]. Structures of GidA in complex with either tRNA or MnmE are missing. Reported to bind to Pfam family MnmE, Pfam:PF12631.	Domain
C, D	PF21680	tRNA modifying enzyme MnmG/GidA C-terminal helical domain (GIDA_C_1st)	tRNA modifying enzyme MnmG/GidA C-terminal helical domain	The GidA associated domain is a domain that has been identified at the C-terminus of protein GidA. It consists of several helices, the last three being rather short and forming small bundle. GidA is an tRNA modification enzyme found in bacteria and m ...	The GidA associated domain is a domain that has been identified at the C-terminus of protein GidA. It consists of several helices, the last three being rather short and forming small bundle. GidA is an tRNA modification enzyme found in bacteria and mitochondrial. Based on mutational analysis this domain has been suggested to be implicated in binding of the D-stem of tRNA [2] and, in particular the small bundle, to be responsible for the interaction with protein MnmE [1]. Structures of GidA in complex with either tRNA or MnmE are missing. Reported to bind to Pfam family MnmE, Pfam:PF12631. This entry represents the first helices of the GidA associated domain. The last three helices are covered in Pfam:PF13932.	Domain
C, D	PF01134	Glucose inhibited division protein A (GIDA)	Glucose inhibited division protein A	-	Family
A, B, E, F	PF12631	MnmE helical domain (MnmE_helical)	MnmE helical domain	-	Family
A, B, E, F	PF10396	GTP-binding protein TrmE N-terminus (TrmE_N)	GTP-binding protein TrmE N-terminus	-	Family
A, B, E, F	PF01926	50S ribosome-binding GTPase (MMR_HSR1)	50S ribosome-binding GTPase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	tRNA uridine 5-carboxymethylaminomethyl modification enzyme MnmG	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity flavin adenine dinucleotide binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding	RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process tRNA processing RNA processing tRNA modification primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process macromolecule methylation tRNA metabolic process RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process tRNA processing RNA processing tRNA modification primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process macromolecule methylation tRNA metabolic process RNA modification biosynthetic process methylation macromolecule modification metabolic process cellular process macromolecule metabolic process RNA methylation tRNA methylation tRNA wobble uridine modification tRNA wobble base 5-methoxycarbonylmethyl-2-thiouridinylation tRNA wobble base modification response to light stimulus response to stimulus response to radiation response to abiotic stimulus response to UV regulation of cytoplasmic translational fidelity regulation of cellular process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of translational elongation regulation of biological quality protein metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process translation regulation of cytoplasmic translational elongation regulation of gene expression regulation of translation translational elongation cytoplasmic translation regulation of macromolecule biosynthetic process cytoplasmic translational elongation regulation of translational fidelity regulation of metabolic process	protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex cytosolic tRNA wobble base thiouridylase complex sulfurtransferase complex transferase complex cytoplasm cytosol intracellular protein-containing complex
A, B, E, F	tRNA modification GTPase MnmE	cation binding ion binding binding potassium ion binding alkali metal ion binding metal ion binding small molecule binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding cation binding ion binding binding potassium ion binding alkali metal ion binding metal ion binding small molecule binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding GDP binding identical protein binding protein binding protein homodimerization activity protein dimerization activity pyrophosphatase activity GTPase 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	response to stimulus response to pH response to abiotic stimulus RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process tRNA processing RNA processing tRNA modification primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process response to stimulus response to pH response to abiotic stimulus RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process tRNA processing RNA processing tRNA modification primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process macromolecule methylation tRNA metabolic process RNA modification biosynthetic process methylation macromolecule modification metabolic process cellular process macromolecule metabolic process RNA methylation tRNA methylation tRNA wobble uridine modification tRNA wobble base 5-methoxycarbonylmethyl-2-thiouridinylation tRNA wobble base modification regulation of cytoplasmic translational fidelity regulation of cellular process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression regulation of translational elongation regulation of biological quality protein metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process biological regulation regulation of macromolecule metabolic process translation regulation of cytoplasmic translational elongation regulation of gene expression regulation of translation translational elongation cytoplasmic translation regulation of macromolecule biosynthetic process cytoplasmic translational elongation regulation of translational fidelity regulation of metabolic process	protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex cytosolic tRNA wobble base thiouridylase complex sulfurtransferase complex transferase complex cytoplasm cytosol intracellular protein-containing complex cell periphery plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR036188	FAD/NAD(P)-binding domain superfamily	Homologous Superfamily
C, D	IPR004416	tRNA uridine 5-carboxymethylaminomethyl modification enzyme MnmG	Family
C, D	IPR020595	MnmG-related, conserved site	Conserved Site
C, D	IPR047001	tRNA uridine 5-carboxymethylaminomethyl modification enzyme, C-terminal subdomain	Domain
C, D	IPR040131	MnmG, N-terminal domain	Domain
C, D	IPR049312	tRNA uridine 5-carboxymethylaminomethyl modification enzyme, C-terminal, N-terninal subdomain	Domain
C, D	IPR026904	tRNA uridine 5-carboxymethylaminomethyl modification enzyme MnmG, C-terminal	Domain
C, D	IPR044920	tRNA uridine 5-carboxymethylaminomethyl modification enzyme, C-terminal subdomain superfamily	Homologous Superfamily
C, D	IPR002218	tRNA uridine 5-carboxymethylaminomethyl modification enzyme MnmG-related	Family
A, B, E, F	IPR027266	Aminomethyltransferase superfamily	Homologous Superfamily
A, B, E, F	IPR018948	GTP-binding protein TrmE, N-terminal	Domain
A, B, E, F	IPR031168	TrmE-type guanine nucleotide-binding domain	Domain
A, B, E, F	IPR004520	tRNA modification GTPase MnmE	Family
A, B, E, F	IPR025867	MnmE, helical domain	Domain
A, B, E, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, E, F	IPR005225	Small GTP-binding domain	Domain
A, B, E, F	IPR027368	tRNA modification GTPase MnmE domain 2	Homologous Superfamily
A, B, E, F	IPR006073	GTP binding domain	Domain

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 R01GM157729.