Formyltransferase superfamily

SCOP classification

Root:	SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:	Alpha and beta proteins (a/b) [ 51349] (147)
Fold:	Formyltransferase [ 53327]
Superfamily:	Formyltransferase [ 53328]
Families:	Formyltransferase [ 53329] (4)

Superfamily statistics

	Genomes (2,353)	Uniprot 2013_05	PDB chains (SCOP 1.75)
Domains	6,818	21,382	13
Proteins	6,789	21,368	13

Functional annotation

General category	Metabolism
Detailed category	Transferases

Document: Function annotation of SCOP domain superfamilies

Gene Ontology (high-quality)

(show details)

	GO term	FDR (singleton)	FDR (all)	SDFO level	Annotation (direct or inherited)
Biological Process (BP)	cellular aromatic compound metabolic process	0.0006004	5.157e-06	Least Informative	Direct
Biological Process (BP)	heterocycle metabolic process	0.0005625	3.07e-06	Least Informative	Direct
Biological Process (BP)	organic cyclic compound metabolic process	0.0009523	1.223e-05	Least Informative	Direct
Biological Process (BP)	nitrogen compound metabolic process	0.001979	2.01e-07	Least Informative	Inherited
Biological Process (BP)	biosynthetic process	0.03123	9.587e-10	Least Informative	Inherited
Biological Process (BP)	single-organism metabolic process	0.004228	3.534e-05	Least Informative	Inherited
Biological Process (BP)	organophosphate metabolic process	0.000976	3.403e-05	Moderately Informative	Direct
Biological Process (BP)	cellular nitrogen compound biosynthetic process	0.0001913	9.807e-05	Moderately Informative	Direct
Biological Process (BP)	phosphate-containing compound metabolic process	0.001649	8.062e-05	Moderately Informative	Inherited
Biological Process (BP)	nucleobase-containing small molecule metabolic process	0.003893	1.617e-05	Moderately Informative	Inherited
Biological Process (BP)	heterocycle biosynthetic process	0.00533	0.002404	Moderately Informative	Inherited
Biological Process (BP)	aromatic compound biosynthetic process	0.002917	0.002221	Moderately Informative	Inherited
Biological Process (BP)	organic cyclic compound biosynthetic process	0.006725	0.006807	Moderately Informative	Inherited
Biological Process (BP)	organonitrogen compound biosynthetic process	0.01344	0.0009551	Moderately Informative	Inherited
Biological Process (BP)	purine-containing compound biosynthetic process	1.907e-07	3.496e-08	Informative	Direct
Biological Process (BP)	purine nucleotide metabolic process	1.073e-05	0.4323	Informative	Inherited
Biological Process (BP)	nucleotide biosynthetic process	8.297e-07	0.01195	Informative	Inherited
Molecular Function (MF)	transferase activity	0.0002133	0.0002148	Least Informative	Direct
Molecular Function (MF)	transferase activity, transferring one-carbon groups	9.236e-09	0	Informative	Direct
Molecular Function (MF)	hydroxymethyl-, formyl- and related transferase activity	2.317e-14	0	Highly Informative	Direct

Document: GO annotation of SCOP domains

Gene Ontology (high-coverage)

(show details)

	GO term	FDR (all)	SDFO level	Annotation (direct or inherited)
Biological Process (BP)	cellular aromatic compound metabolic process	5.157e-06	Least Informative	Direct
Biological Process (BP)	nitrogen compound metabolic process	2.01e-07	Least Informative	Direct
Biological Process (BP)	biosynthetic process	9.587e-10	Least Informative	Direct
Biological Process (BP)	single-organism metabolic process	3.534e-05	Least Informative	Direct
Biological Process (BP)	heterocycle metabolic process	3.07e-06	Least Informative	Direct
Biological Process (BP)	organic cyclic compound metabolic process	1.223e-05	Least Informative	Direct
Biological Process (BP)	protein metabolic process	1	Least Informative	Inherited
Biological Process (BP)	cellular macromolecule metabolic process	1	Least Informative	Inherited
Biological Process (BP)	cellular amino acid metabolic process	0.0006695	Moderately Informative	Direct
Biological Process (BP)	phosphate-containing compound metabolic process	8.062e-05	Moderately Informative	Direct
Biological Process (BP)	organophosphate metabolic process	3.403e-05	Moderately Informative	Direct
Biological Process (BP)	cellular nitrogen compound biosynthetic process	9.807e-05	Moderately Informative	Direct
Biological Process (BP)	cofactor metabolic process	1.215e-05	Moderately Informative	Direct
Biological Process (BP)	nucleobase-containing small molecule metabolic process	1.617e-05	Moderately Informative	Direct
Biological Process (BP)	organonitrogen compound biosynthetic process	0.0009551	Moderately Informative	Direct
Biological Process (BP)	carbohydrate derivative metabolic process	0.00604	Moderately Informative	Inherited
Biological Process (BP)	gene expression	0.0395	Moderately Informative	Inherited
Biological Process (BP)	cellular macromolecule biosynthetic process	0.3162	Moderately Informative	Inherited
Biological Process (BP)	heterocycle biosynthetic process	0.002404	Moderately Informative	Inherited
Biological Process (BP)	aromatic compound biosynthetic process	0.002221	Moderately Informative	Inherited
Biological Process (BP)	organic cyclic compound biosynthetic process	0.006807	Moderately Informative	Inherited
Biological Process (BP)	cellular modified amino acid metabolic process	0.000181	Informative	Direct
Biological Process (BP)	purine-containing compound biosynthetic process	3.496e-08	Informative	Direct
Biological Process (BP)	ribose phosphate metabolic process	0.001763	Informative	Inherited
Biological Process (BP)	nucleotide biosynthetic process	0.01195	Informative	Inherited
Biological Process (BP)	purine nucleotide metabolic process	0.4323	Informative	Inherited
Biological Process (BP)	nucleobase metabolic process	1.374e-05	Highly Informative	Direct
Biological Process (BP)	pteridine-containing compound metabolic process	5.697e-11	Highly Informative	Direct
Molecular Function (MF)	transferase activity	0.0002148	Least Informative	Direct
Molecular Function (MF)	transferase activity, transferring one-carbon groups	0	Informative	Direct
Molecular Function (MF)	hydroxymethyl-, formyl- and related transferase activity	0	Highly Informative	Direct
Cellular Component (CC)	intracellular membrane-bounded organelle	0.4782	Least Informative	Inherited
Cellular Component (CC)	cytoplasmic part	0.03216	Least Informative	Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)

	EC term	FDR (all)	SDEO level	Annotation (direct or inherited)
Enzyme Commission (EC)	Transferring one-carbon groups	0	Least Informative	Direct
Enzyme Commission (EC)	Ligases	1	Least Informative	Inherited
Enzyme Commission (EC)	Oxidoreductases	1	Least Informative	Inherited
Enzyme Commission (EC)	With NAD(+) or NADP(+) as acceptor	3.085e-09	Moderately Informative	Direct
Enzyme Commission (EC)	Forming carbon-nitrogen bonds	1	Moderately Informative	Inherited
Enzyme Commission (EC)	In linear amides	0.9421	Moderately Informative	Inherited
Enzyme Commission (EC)	Acting on the CH-NH group of donors	0.06006	Moderately Informative	Inherited
Enzyme Commission (EC)	Hydroxymethyl-, formyl- and related transferases	0	Informative	Direct
Enzyme Commission (EC)	Other carbon--nitrogen ligases	0.9519	Informative	Inherited
Enzyme Commission (EC)	Cyclo-ligases	0.006156	Informative	Inherited
Enzyme Commission (EC)	With NAD(+) or NADP(+) as acceptor	0.03395	Informative	Inherited
Enzyme Commission (EC)	UDP-4-amino-4-deoxy-L-arabinose formyltransferase	0	Highly Informative	Direct
Enzyme Commission (EC)	Formyltetrahydrofolate dehydrogenase	0	Highly Informative	Direct
Enzyme Commission (EC)	Phosphoribosylamine--glycine ligase	4.785e-08	Highly Informative	Direct
Enzyme Commission (EC)	Phosphoribosylglycinamide formyltransferase	1.658e-07	Highly Informative	Direct
Enzyme Commission (EC)	Phosphoribosylformylglycinamidine cyclo-ligase	0.0003963	Highly Informative	Direct

Document: EC annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)

	XA term	FDR (all)	SDXA level	Annotation (direct or inherited)
Xenopus ANatomical entity (XAN)	alimentary system	0	Least Informative	Direct
Xenopus ANatomical entity (XAN)	viscus	0	Least Informative	Direct
Xenopus ANatomical entity (XAN)	portion of tissue	0	Least Informative	Direct
Xenopus ANatomical entity (XAN)	intestine	0	Moderately Informative	Direct

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details)

	AP term	FDR (all)	SDAP level	Annotation (direct or inherited)
Plant structure DEvelopment stage (PDE)	4 leaf senescence stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	E expanded cotyledon stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	F mature embryo stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	C globular stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	D bilateral stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	LP.12 twelve leaves visible stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	LP.02 two leaves visible stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	LP.10 ten leaves visible stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	LP.04 four leaves visible stage	0	Least Informative	Direct
Plant structure DEvelopment stage (PDE)	LP.06 six leaves visible stage	0	Least Informative	Direct

Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)

	EC term	FDR (all)	SDEC level	Annotation (direct or inherited)
Enzyme Commission (EC)	Oxidoreductases	1	Least Informative	Inherited
Enzyme Commission (EC)	Hydrolases	1	Least Informative	Inherited
Enzyme Commission (EC)	Transferring one-carbon groups	0	Moderately Informative	Direct
Enzyme Commission (EC)	Acting on the CH-OH group of donors	8.639e-09	Moderately Informative	Direct
Enzyme Commission (EC)	Acting on carbon-nitrogen bonds, other than peptide bonds	1	Moderately Informative	Inherited
Enzyme Commission (EC)	Ligases	1	Moderately Informative	Inherited
Enzyme Commission (EC)	Hydroxymethyl-, formyl- and related transferases	0	Informative	Direct
Enzyme Commission (EC)	With NAD(+) or NADP(+) as acceptor	3.257e-10	Informative	Direct
Enzyme Commission (EC)	Acting on the CH-NH group of donors	0.0556	Informative	Inherited
Enzyme Commission (EC)	In linear amides	0.926	Informative	Inherited
Enzyme Commission (EC)	Other carbon--nitrogen ligases	1	Informative	Inherited
Enzyme Commission (EC)	Phosphoribosylamine--glycine ligase	4.095e-08	Highly Informative	Direct
Enzyme Commission (EC)	Phosphoribosylglycinamide formyltransferase	8.836e-08	Highly Informative	Direct
Enzyme Commission (EC)	Cyclo-ligases	0.005534	Highly Informative	Inherited

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)

	KW term	FDR (all)	SDKW level	Annotation (direct or inherited)
Biological process	Lipid metabolism	7.059e-08	Moderately Informative	Direct
Biological process	Antibiotic resistance	0	Informative	Direct
Biological process	Lipid biosynthesis	0	Informative	Direct
Biological process	Purine biosynthesis	1.882e-05	Informative	Direct
Biological process	Lipid A biosynthesis	0	Highly Informative	Direct
Biological process	Lipopolysaccharide biosynthesis	0	Highly Informative	Direct
Molecular function	NAD	8.268e-09	Moderately Informative	Direct
Molecular function	Phosphopantetheine	6.92e-07	Highly Informative	Direct
Post-translational modification	Transferase	0	Least Informative	Direct

Document: KW annotation of SCOP domains

UniProtKB UniPathway (UP)

(show details)

	UP term	FDR (all)	SDUP level	Annotation (direct or inherited)
UniPathway (UP)	biopolymer metabolism	0	Least Informative	Direct
UniPathway (UP)	carbohydrate metabolism	0	Least Informative	Direct
UniPathway (UP)	lipid metabolism	0	Least Informative	Direct
UniPathway (UP)	aromatic compound metabolism	0.002676	Least Informative	Inherited
UniPathway (UP)	biopolymer biosynthesis	0	Moderately Informative	Direct
UniPathway (UP)	lipid biosynthesis	0	Moderately Informative	Direct
UniPathway (UP)	nucleotide metabolism	0	Moderately Informative	Direct
UniPathway (UP)	cellular component biogenesis	0	Moderately Informative	Direct
UniPathway (UP)	membrane lipid metabolism	0	Moderately Informative	Direct
UniPathway (UP)	purine metabolism	4.84e-15	Moderately Informative	Direct
UniPathway (UP)	lipopolysaccharide biosynthesis	0	Informative	Direct
UniPathway (UP)	IMP biosynthesis via de novo pathway	0	Informative	Direct
UniPathway (UP)	nucleotide-sugar biosynthesis	0	Informative	Direct
UniPathway (UP)	UDP-4-deoxy-4-formamido-beta-L-arabinose biosynthesis	0	Highly Informative	Direct

Document: UP annotation of SCOP domains

InterPro annotation

Cross references IPR002376 SSF53328 Protein matches

Abstract A number of formyl transferases belong to this group. Methionyl-tRNA formyltransferase transfers a formyl group onto the amino terminus of the acyl moiety of the methionyl aminoacyl-tRNA. The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and by impairing its binding to EFTU-GTP. Formyltetrahydrofolate dehydrogenase produces formate from formyl- tetrahydrofolate. This is the N-terminal domain of these enzymes and is found upstream of the C-terminal domain .
The trifunctional glycinamide ribonucleotide synthetase-aminoimidazole ribonucleotide synthetase-glycinamide ribonucleotide transformylase catalyses the second, third and fifth steps in de novo purine biosynthesis. The glycinamide ribonucleotide transformylase belongs to this group.

InterPro database

PDBeMotif information about ligands, sequence and structure motifs

Cross references

PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-quality) · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · UniProtKB UniPathway (UP) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.

Alignments of sequences to 7 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.

Browse and view proteins in genomes which have different domain combinations including a Formyltransferase domain.

Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.

Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 7 hidden Markov models representing the Formyltransferase superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.

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Formyltransferase superfamily