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128  structures 9251  species 6  interactions 26950  sequences 205  architectures

Clan: SLOG (CL0349)

Summary

SMF/DprA-LOG (SLOG) Add an annotation

Members of the SLOG superfamily were shown in bacteria and plants to cleave modified AMPs to release the base as cytokinins, which function as growth-stimulating hormones in plants. Known family members such as DprA is a member of the recombination-mediator protein family, dedicated to natural bacterial transformation [1]. This clan includes members such as the classical LOG family which generates cytokinin-like molecules, the Smf/DprA family which binds single-stranded (ss)DNA and interacts with RecA during transformation and recombination and the molybdenum cofactor-binding (MoCoBD) family. The SLOG domain adopts a three-layered alpha/beta sandwich Rossmannoid fold with a characteristic substrate-binding loop rich in glycine and small residues in the standard location between strand-1 and helix-1. It is suggested that the SLOG superfamily is likely to encompass dual functions, with certain versions serving as (oligo)nucleotide sensors and others as enzymes that operate on nucleotides [2].

This clan contains 13 families and the total number of domains in the clan is 26950. The clan was built by A Bateman and S El-Gebali.

Literature references

  1. Mortier-Barriere I, Velten M, Dupaigne P, Mirouze N, Pietrement O, McGovern S, Fichant G, Martin B, Noirot P, Le Cam E, Polard P, Claverys JP; , Cell. 2007;130:824-836.: A key presynaptic role in transformation for a widespread bacterial protein: DprA conveys incoming ssDNA to RecA. PUBMED:17803906 EPMC:17803906
  2. Burroughs AM, Zhang D, Schaffer DE, Iyer LM, Aravind L;, Nucleic Acids Res. 2015;43:10633-10654.: Comparative genomic analyses reveal a vast, novel network of nucleotide-centric systems in biological conflicts, immunity and signaling. PUBMED:26590262 EPMC:26590262

Members

This clan contains the following 13 member families:

cpYpsA DNA_processg_A DUF3412 LD_cluster2 LD_cluster3 LDcluster4 LSDAT_euk LSDAT_prok Lysine_decarbox STALD TPALS YAcAr YpsA

External database links

Domain organisation

Below is a listing of the unique domain organisations or architectures from this clan. More...

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Alignments

The table below shows the number of occurrences of each domain throughout the sequence database. More...

Pfam family Num. domains Alignment
Lysine_decarbox (PF03641) 11421 (42.4%) View
DNA_processg_A (PF02481) 8394 (31.1%) View
LSDAT_euk (PF18139) 2068 (7.7%) View
LDcluster4 (PF18306) 1524 (5.7%) View
YAcAr (PF10686) 1186 (4.4%) View
YpsA (PF06908) 964 (3.6%) View
DUF3412 (PF11892) 773 (2.9%) View
cpYpsA (PF12694) 228 (0.8%) View
STALD (PF18185) 137 (0.5%) View
LSDAT_prok (PF18171) 97 (0.4%) View
LD_cluster2 (PF18163) 77 (0.3%) View
LD_cluster3 (PF18180) 50 (0.2%) View
TPALS (PF18178) 31 (0.1%) View
Total: 13 Total: 26950 Clan alignment
 

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Family relationships

This diagram shows the relationships between members of this clan. More...

Species distribution

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This tree shows the occurrence of the domains in this clan across different species. More...

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Interactions

There are 6 interactions for this clan. More...

Interacting families
A B
DUF3412 DUF4478
DUF4478 DUF3412
Lysine_decarbox
Lysine_decarbox DUF3412
DUF4478
Lysine_decarbox

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.

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