• Dx-SOR
  • HTH-Dx-SOR
  • Classe II
  • Classe III
  • Classe IV
  • TAT-SOR
  • Other
The Dx-SOR class correspond to the previous SOR class 1 (desulforedoxin or Dx), represented by the enzymes of Desulfovibrio desulfuricans (Moura et al, 1990, Coelho et al, 1997), Desulfoarculus baarsii (Lombard et al, 2000), Archaeoglobus fulgidus (Rodrigues et al, 2007) and Desulfovibrio vulgaris Hildenborough (Moura et al, 1990, Coulter et al, 2000).

This class is registered in NCBI cl00018 , Pfam PF01880 and TIGR TIGR00320. Dx is registered in NCBI cd00974 , Pfam PF06397 and TIGR TIGR00319
Superoxide reductases of the Dx-SOR class contain two non-heme iron centres: the active site [Fe2+N4S1] called Centre II (SOR) and located in the C-terminal part and a second iron centre (desulforedoxin or Dx), called Centre I, located in the N-terminal region. Centre I types are involved in electron transfer reactions (Auchère et al, 2006) but are not necessary for the SOR activity (Emerson et al, 2003).

SORGOdb defined a Dx-SOR domain using --(CXXCX15CC)(E)(K)(HXP)(HX5HXI)(CXXHXXW)-- which are conserved amino acid. Amino acid ligands of the catalytic center are in bold character.

To access all SORGOdb proteins with Dx-SOR domain, click Get Proteins

The HTH-Dx_SOR class corresponds to a Dx-ncSOR combination (see description in Dx-SOR tag) fused with an additional N-terminal Helix-turn-helix XRE domain (HTH_XRE).
We distinguish proteins with full length SOR domains (SOR) from proteins with truncated SOR domains (ncSOR: non canonical SOR). HTH_XRE proteins belong to the xenobiotic response element family of transcriptional regulators that includes DNA binding helix-turn helix proteins involved in various mechanisms such as plasmid copy control, bacteriophage transcription control and DNA methylation.

HTH_XRE domain is registered in SMART SM00530, Pfam PF01381 and Interpro IPR001387.

SORGOdb defines a Dx-SOR domain using (CXXCX15CC)(E)(K)(HXP)(HX5HXI)(CXXHXXW)-- which are conserved amino acid. Amino acid ligands of the catalytic center are in bold character. HTH domains were defined using NCBI CDD and PFAM.

To access all SORGOdb proteins with an HTH-Dx-SOR domain, click Get Proteins

The Class II related SOR corresponding to the previous SOR class II. The previous SOR class II contains proteins formerly called neelaredoxine (nlr) because of their blue colour ("neela" means blue in Sanskrit) (Chen et al, 1994). These proteins have been characterized by many biochemical and spectroscopic studies and are mainly represented by the SOR of Archaeoglobus fulgidus (Abreu et al, 2000), Pyrococcus furiosus (Jenney et al, 1999) and Desulfovibrio gigas (Moura et al, 1980).

The SOR class is registered in NCBI cd03172 and TIGR TIGR00332.
SORGOdb defined a SOR domain using --(E)(K)(HXP)(HX5HXI)(CXXHXXW)-- which are conserved amino acid. Amino acid ligands of the catalytic center 1Fe-SOR are in bold character.


To access all SORGOdb Class II related SOR , click Get Proteins

The Class III related SOR corresponding to the previous SOR class III. The previous SOR class III, which contains an extended non-iron N-terminal domain of unknown function, formed a subclasse of the SORGOdb SOR class. Class III is mainly represented by the SOR of Treponema pallidum (Lombard et al, 2000; Jovanovic et al, 2000) and Clostridium acetobutylicum (Ascenso et al, 2000). Spectroscopic resonance data indicate that the active site of the T. pallidum SOR has similar characteristics to the class II SOR of P. furiosous (Mathé et al, 2006) and three of the four cysteines forming the Centre I, are absent from SOR Class III, making the formation of a desulforedoxin iron-centre impossible.

The SOR class is registered in NCBI cd03172 and TIGR TIGR00332.
SORGOdb defined a SOR domain using --(E)(K)(HXP)(HX5HXI)(CXXHXXW)-- which are conserved amino acid. Amino acid ligands of the catalytic center 1Fe-SOR are in bold character.


To access all SORGOdb Class III related SOR (homologous SOR to Treponema SOR), click Get Proteins


The Class IV related SOR correspond to the SOR containing three cystein residues and an extended highly charged C-terminus with an additional cystein. The additional cystein is suspected to be responsible for the coordination of the [4Fe-4S] cluster (Pubmed).

The SOR class is registered in NCBI cd03172 and TIGR TIGR00332.
SORGOdb defined a SOR domain using --(E)(K)(HXP)(HX5HXI)(CXXHXXW)-- which are conserved amino acid. Amino acid ligands of the catalytic center 1Fe-SOR are in bold character.


To access all SORGOdb Class IV related SOR (homologous SOR to MM_0632), click Get Proteins


The TAT-SOR a new class of SOR with an additional N-terminal predicted as being a signal peptide for secretion by the twin-arginine translocation (Tat) pathway.


The TAT signal is registered in PFAM PF10518.
The SOR class is registered in NCBI cd03172 and TIGR TIGR00332.
SORGOdb defined a SOR domain using --(E)(K)(HXP)(HX5HXI)(CXXHXXW)-- which are conserved amino acid. Amino acid ligands of the catalytic center 1Fe-SOR are in bold character.


To access all SORGOdb TAT-SOR , click Get Proteins

Atypical SOR are proteins which have at least one SOR centre II and other domains not usually associated or which have been mutated (with a non canonical SOR domain or Dx domain) Domains fused with the SOR domain are: the MBLac domain corresponding to the NCBI cl00446, , a super family that includes the metallo-beta-lactamase superfamily; the FMN domain corresponding to the NCBI cl00438, a super family that includes NADPH-dependent FMN reductase the NAT_SF domain corresponding to the NCBI cl00443, a super family that includes N-acyltransferase : Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate the ELIP domain corresponding to the NCBI cl12031, a super family that includes Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-).

To access all SORGOdb Atypical SOR , click Get Proteins

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Please cite the following reference for this database: C. Lucchetti-Miganeh, D. Goudenège, D. Thybert, G. Salbert and F. Barloy-Hubler. SORGOdb: Superoxide Reductase Gene Ontology DataBase. [LINK] CONTACT US