SUPERFAMILY 1.73 HMM library and genome assignments server


Thioredoxin-like superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   Alpha and beta proteins (a/b) [ 51349] (141)
  Mainly parallel beta sheets (beta-alpha-beta units)
Fold:   Thioredoxin fold [ 52832] (2)
  core: 3 layers, a/b/a; mixed beta-sheet of 4 strands, order 4312; strand 3 is antiparallel to the rest
Superfamily:   Thioredoxin-like [ 52833] (22)
Families:   Thioltransferase [ 52834] (15)
  PDI-like [ 52849] (2)
  duplication: contains two tandem repeats of this fold
  Calsequestrin [ 52855]
  duplication: contains three tandem repeats of this fold
  DsbA-like [ 100953] (3)
  contains an all-alpha subdomain insertion
  Glutathione S-transferase (GST), N-terminal domain [ 52862] (18)
  Phosducin [ 52888]
  ERP29 N domain-like [ 52892] (2)
  spliceosomal protein U5-15Kd [ 52895]
  SH3BGR (SH3-binding, glutamic acid-rich protein-like) [ 102446]
  related to glutaredoxin 1 (GRX1) but lacks both conserved cysteine residues
  KaiB-like [ 102449] (2)
  Pfam 07689; contains members with alternative folds
  DsbC/DsbG C-terminal domain-like [ 52898] (2)
  elaborated common fold
  Glutathione peroxidase-like [ 52901] (28)
  Thioredoxin-like 2Fe-2S ferredoxin [ 52918]
  ArsC-like [ 69518] (3)
  Pfam 03960
  Txnl5-like [ 110612]
  Pfam 06110
  YuzD-like [ 117605]
  Pfam 07315
  YKR049C-like [ 142395]
  Pfam 07955; DUF1687; contains an all-alpha insert subdomain
  Atu2684-like [ 142398]
  Pfam 06764; DUF1223; contains extra C-terminal domain of Immunoglobulin-like fold (scop_cf 48725), intimately associated with the N-terminal thioredixin-like domain and contributing to the active site
  HyaE-like [ 142401]
  Pfam 07449; have evolved a different function; contains no conserved cysteine residues
  NQO2-like [ 142405]
  complex I 24 kDa subunit; contains 2Fe-2S cluster in the active site; includes extra N-terminal four-helical bundle
  Mitochondrial ribosomal protein L51/S25/CI-B8 domain [ 142408]
  Pfam 05047; "minimalized" version of the thioredoxin-like fold; variable positions for cysteine residues in the putative active site
  Selenoprotein W-related [ 142411] (3)
  Pfam 05169; "minimalized" version of the thioredoxin-like fold


Superfamily statistics
Genomes (1,231) UniProt 15.0 PDB chains (SCOP 1.73)
Domains 54,344 52,017 291
Proteins 49,483 49,030 282


Functional annotation
General category Metabolism
Detailed category Redox

Function annotation of SCOP domain superfamilies
InterPro annotation
Cross references IPR012336 SSF52833 Protein matches
Abstract

Several biological processes regulate the activity of target proteins through changes in the redox state of thiol groups (S2 to SH2), where a hydrogen donor is linked to an intermediary disulphide protein. Such processes include the ferredoxin/thioredoxin system, the NADP/thioredoxin system, and the glutathione/glutaredoxin system [PubMed15862094]. Several of these disulphide proteins share a common structure, consisting of a three-layer alpha/beta/alpha core. Proteins that contain this thioredoxin fold include: 2Fe-2S ferredoxin, thioltransferase, phosducin, glutathione peroxidase-like enzymes, arsenate reductase, disulphide bond isomerase DsbC (C-terminal domain), disulphide bond facilitator DsbA (contains an alpha-helical insertion), glutathione S-transferase (N-terminal domain), Endoplasmic reticulum protein ERP29 (N-terminal domain), spliceosomal protein U5-15Kd, circadian oscillation regulator KaiB, protein disulphide isomerase PDI (contains two tandem repeats of this fold), and calsequestrin (contains three tandem repeats of this fold).

This entry differs from the thioredoxin fold protein, the classification of this fold is in the glutathione S-transferase enzymes, where this entry defines two regions containing this fold, and the thioredoxin fold protein defines only the N-terminal as containing this fold.


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

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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 170 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 Thioredoxin-like 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 170 hidden Markov models representing the Thioredoxin-like superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Internal database links ]