Top Level Name

  ⌊ Superfamily (core) Radical SAM

    ⌊ Subgroup SPASM/twitch domain containing

Family known
Total 100% <100% Family unknown
Functional domains 18807 5721 339 12747
UniProtKB 4203 0 729 3474
GI 7934 1642 16 6276
Structures 10
Reactions 0
Functional domains of this subgroup were last updated on June 10, 2017
New functional domains were last added to this subgroup on Oct. 7, 2014

The high structural homology in the auxiliary cluster binding region between BtrN, fellow AdoMet radical dehydrogenase anSME, and molybdenum cofactor biosynthetic enzyme MoaA provides support for the establishment of an AdoMet radical structural motif that is likely common to all the AdoMet radical enzymes in this subgroup. Most appear to be involved in prosthetic group cofactor and peptide maturation processes.

Puehringer S, Metlitzky M, Schwarzenbacher R

The pyrroloquinoline quinone biosynthesis pathway revisited: a structural approach

▸ Abstract

BMC Biochem. 2008;9(8):None-None | PubMed ID: 18371220

Goldman PJ, Grove TL, Booker SJ, Drennan CL

X-ray analysis of butirosin biosynthetic enzyme BtrN redefines structural motifs for AdoMet radical chemistry

▸ Abstract

Proc Natl Acad Sci U S A 2013;110(40):15949-15954 | PubMed ID: 24048029

Grell TA, Goldman PJ, Drennan CL

SPASM and Twitch Domains in AdoMet Radical Enzyme Structures

▸ Abstract

J Biol Chem 2014;None(None):None-None | PubMed ID: 25477505

The alignment was made using known members only.

Sequence Similarity Networks

Download a Sequence Similarity Network of this subgroup (XGMML format ).

Network downloads are XGMML files that are readable by program such as Cytoscape. In these networks, nodes represent proteins and edges represent pairwise similarities better than a given edge-score cutoff. The edge score is either a bit score for full networks or mean E values for a Repnet. Additionally, these networks contain several attributes with data from the SFLD.

No edge data is available for this network. Contact an SFLD curator to request this network.

List of files included in the download. A detailed list of included node attributes, their definitions, and their uses [revised: 1/24/2014].

Disclaimer
Although the download speed has improved please keep in mind that network files can be quite large. We are currently working on improving the network download and finding ways to make large networks manageable. Please see How to increase memory for Cytoscape.

Multiple Sequence Alignment

View the alignment of a representative set of sequences of this subgroup using

Multiple Sequence Alignment

Align one or multiple sequences to the alignment of a representative set of sequences of this subgroup.
Enter FASTA formatted sequence(s) : and view results using

Downloads

Data Type All (#) Known (#) Unknown (#)
Full length FASTA (18807) (6060) (12747)
Complete annotation (.tsv) (18807) (6060) (12747)
Annotation suitable for Excel ® (.tsv) (18807) (6060) (12747)
Clear form

Some of these files can be quite large, please be patient during the download.

To identify your sequence later, please make sure to provide a header line starting with '>' for each sequence. Empty headers are allowed, but a header line is always required.
Cutoff Value
The least significant edge-score at which pairwise similarities are included in the network. A bit score for the full network, or a mean E value for the Repnet.
XGMML format
Open in Cytoscape via:
 Menu
 →Import
 →Network (multiple file types)
Download the annotation of all sequences as shown in the table below as a ͟Tab ͟Separated ͟Value (TSV) file. This file can be imported into a spreadsheet application.
Full length FASTA
Full length sequences in FASTA format.
Functional Domain FASTA
Sequences of the Functional Domain in FASTA format.
Complete annotation
Download complete annotation of sequences sets of this superfamily as a ͟Tab ͟Separated ͟Value (TSV) file. This file has all data but cell size can exceed the maximum supported by spreadsheet programs (such as Microsoft Excel ®).
Spreadsheet ready annotation
Annotation of sequences sets of this superfamily in a ͟Tab ͟Separated ͟Value (TSV) file. This file can be imported into a spreadsheet application. Cells which exceed the allowed spreadsheet maximum (32.5K) are preceded by the word "Truncated" and clipped short.
Total number of functional domains in this group.
Number of Functional Domains that have been manually or automatically been assigned to a family.
Number of Functional Domains that have not been assigned to a family.
Number of structures available from the PDB for members of this group.
Number of Functional Domains with 100% of Conserved Residues
Number of Functional Domains with less than 100% Conserved Residues
Subgroup ▸ Legend T K C U S
SPASM/twitch domain containing 18807 6060 5721 12747 10
┗ adenosyl-hopene transferase 539 539 533 0
┗ cytosylglucuronate decarboxylase 5 5 5 0
┗ KxxxW cyclic peptide maturase (StrB-like) 18 18 18 0
┗ neomycin C-like epimerase 4 4 4 0
┗ pcfB-like 1 1 0 0
┗ UDP-N-acetyl-tunicamine-uracil synthase (TunB-like) 4 4 4 0
┗ 1: BtrN-like SPASM domain containing 756 49 47 707 2
┗ 2-deoxy-scyllo-inosamine dehydrogenase (BtrN-like) 10 10 9 2
┗ tungsten cofactor oxidoreducase radical SAM maturase 39 39 38 0
┗ 1: main SPASM domain-containing 16026 5439 5109 10587 8
┗ coenzyme PQQ synthesis protein E (PqqE-like) 1061 1061 1034 0
┗ 2: dehydrogenase like 2360 1813 1693 547 4
┗ anaerobic Cys-type sulfatase-maturating enzyme 163 163 159 4
┗ anaerobic Ser-type sulfatase-maturating enzyme 1650 1650 1534 0
┗ 2: thioether bond formation requiring one auxiliary iron-sulfur cluster 126 107 107 19 0
┗ antilisterial bacteriocin subtilosin biosynthesis protein (AlbA-like) 49 49 49 0
┗ sporulation killing factor protein (SkfB-like) 6 6 6 0
┗ thuricin CD (TrnCD-like) 46 46 46 0
┗ thurincin H (ThnB-like) 6 6 6 0
┗ 2: cyclic pyranopterin phosphate synthase (MoaA-like) 6347 1760 1579 4587 4
┗ cyclic pyranopterin phosphate synthase (MoaA-like) 1760 1760 1579 4
┗ 2: thioether bond formation requiring two auxiliary iron-sulfur clusters 1448 113 112 1335 0
┗ quinohemoprotein amine dehydrogenase maturation protein (QhpD-like) 112 112 111 0
┗ Tte1186a maturase 1 1 1 0
┗ 2: heme carboxy lyase like 1827 586 585 1241 0
┗ alternative heme biosynthesis C (AhbC-like) 146 146 145 0
┗ alternative heme biosynthesis D (AhbD-like) 71 71 71 0
┗ C-terminal tyrosine decarboxylase (MftC-like) 181 181 181 0
┗ heme D1 biosynthesis (NirJ-like) 188 188 188 0
Depth of the multi-level Subgroup hierarchy.