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207  structures 6019  species 0  interactions 18737  sequences 88  architectures

Family: DegT_DnrJ_EryC1 (PF01041)

Summary: DegT/DnrJ/EryC1/StrS aminotransferase family

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DegT/DnrJ/EryC1/StrS aminotransferase family Provide feedback

The members of this family are probably all pyridoxal-phosphate-dependent aminotransferase enzymes with a variety of molecular functions. The family includes StsA P72454 StsC P77952 and StsS [1]. The aminotransferase activity was demonstrated for purified StsC protein as the L-glutamine:scyllo-inosose aminotransferase EC:, which catalyses the first amino transfer in the biosynthesis of the streptidine subunit of streptomycin [1].

Literature references

  1. Ahlert J, Distler J, Mansouri K, Piepersberg W; , Arch Microbiol 1997;168:102-113.: Identification of stsC, the gene encoding the L-glutamine:scyllo-inosose aminotransferase from streptomycin-producing Streptomycetes. PUBMED:9238101 EPMC:9238101

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR000653

This entry represents the 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn) that are probably all pyridoxal-phosphate-dependent aminotransferase enzymes with a variety of molecular functions. Members of the family have the same structural fold as members of the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily [ PUBMED:10433690 ]. The AHBA_synfamily includes are involved in various biosynthetic pathways for secondary metabolites. The AHBA_synfamily includes StsA SWISSPROT , StsC SWISSPROT and StsS [ PUBMED:9238101 ]. The aminotransferase activity was demonstrated for purified StsC protein as the L-glutamine:scyllo-inosose aminotransferase EC , which catalyses the first amino transfer in the biosynthesis of the streptidine subunit of streptomycin [ PUBMED:9238101 ]. Some other well studied proteins in this family are AHBA_synthase, the protein product of the pleiotropic regulatory gene degT, Arnb aminotransferase and pilin glycosylation protein. The prototype of this family, the AHBA_synthase, is a dimeric PLP dependent enzyme. AHBA_syn is the terminal enzyme of 3-amino-5-hydroxybenzoic acid (AHBA) formation which is involved in the biosynthesis of ansamycin antibiotics, including rifamycin B. Some members of this family are involved in 4-amino-6-deoxy-monosaccharide D-perosamine synthesis. Perosamine is an important element in the glycosylation of several cell products, such as antibiotics and lipopolysaccharides of Gram-positive and Gram-negative bacteria. The pilin glycosylation protein encoded by gene pglA, is a galactosyltransferase involved in pilin glycosylation. Additionally, this family consists of ArnB (PmrH) aminotransferase, a 4-amino-4-deoxy-L-arabinose lipopolysaccharide-modifying enzyme. This family also includes several predicted pyridoxal phosphate-dependent enzymes apparently involved in regulation of cell wall biogenesis. The catalytic lysine which is present in all characterized PLP dependent enzymes is replaced by histidine in some members of this family [ PUBMED:12429098 , PUBMED:18247575 , PUBMED:16894611 , PUBMED:17456741 , PUBMED:9238101 , PUBMED:7748903 , PUBMED:9914259 , PUBMED:10223296 , PUBMED:10800595 , PUBMED:17504214 , PUBMED:17109392 , PUBMED:11933250 , PUBMED:10673430 ].

Domain organisation

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Pfam Clan

This family is a member of clan PLP_aminotran (CL0061), which has the following description:

This superfamily contains a variety of PLP-dependent enzymes.

The clan contains the following 16 members:

Alliinase_C Aminotran_1_2 Aminotran_3 Aminotran_5 Asp_aminotransf Beta_elim_lyase ComK Cys_Met_Meta_PP DegT_DnrJ_EryC1 GDC-P Met_gamma_lyase OKR_DC_1 Pyridoxal_deC SelA SepSecS SHMT


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You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

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HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...


This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

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Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Pfam-B_239 (release 3.0)
Previous IDs: DegT_DnrJ_EryC1_fam;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Bateman A , Parkhill J
Number in seed: 21
Number in full: 18737
Average length of the domain: 339.00 aa
Average identity of full alignment: 27 %
Average coverage of the sequence by the domain: 90.41 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 19.8 19.8
Trusted cut-off 19.8 19.8
Noise cut-off 19.7 19.7
Model length: 360
Family (HMM) version: 20
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the DegT_DnrJ_EryC1 domain has been found. There are 207 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
L0T6V0 View 3D Structure Click here
L0T8G4 View 3D Structure Click here
P27833 View 3D Structure Click here
P77690 View 3D Structure Click here
P9WGJ7 View 3D Structure Click here
P9WLV7 View 3D Structure Click here
Q58466 View 3D Structure Click here