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67  structures 5365  species 0  interactions 39038  sequences 212  architectures

Clan: DinB (CL0310)


DinB-like superfamily Add an annotation

This superfamily are thought to be metalloenzymes. They possess a four helical bundle core structure with a beta hairpin. Members of the superfamily have a predicted active site composed of three histidines that chelate Nickel or Zinc. In some cases these histidines are replaced with Aspartate or Glutamate. Mostly they form a dimeric structure. The dinB gene is one of the DNA-damage-induced genes and the corresponding protein, DinB, is the founding member of the clan. The protein contains a four-helix up-down-down-up bundle that has previously been described in the literature in three disparate proteins: the enzyme MDMPI (mycothiol-dependent maleylpyruvate isomerase), YfiT and TTHA0303, a member of a small DUF (domain of unknown function). Most (but not all) clan members seem to have the ability to coordinate a metal ion using a conserved histidine-triad motif. The proteins that share the fold exhibit four different quaternary structures: monomeric and three different dimeric forms [1].

This clan contains 8 families and the total number of domains in the clan is 39038. The clan was built by A Bateman.

Literature references

  1. Cooper DR, Grelewska K, Kim CY, Joachimiak A, Derewenda ZS;, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010;66:219-224.: The structure of DinB from Geobacillus stearothermophilus: a representative of a unique four-helix-bundle superfamily. PUBMED:20208147 EPMC:20208147


This clan contains the following 8 member families:

DinB DinB_2 DUF1569 DUF1572 DUF1706 DUF1993 DUF664 MDMPI_N

External database links

Domain organisation

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

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

Pfam family Num. domains Alignment
DinB_2 (PF12867) 12601 (32.3%) View
MDMPI_N (PF11716) 11181 (28.6%) View
DUF664 (PF04978) 6228 (16.0%) View
DinB (PF05163) 4434 (11.4%) View
DUF1993 (PF09351) 2052 (5.3%) View
DUF1572 (PF07609) 966 (2.5%) View
DUF1569 (PF07606) 816 (2.1%) View
DUF1706 (PF08020) 760 (1.9%) View
Total: 8 Total: 39038 Clan alignment

Please note: Clan alignments can be very large and can cause problems for some browsers. Read the note above before viewing.

Family relationships

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

Species distribution

Tree controls


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



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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