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1343  structures 21601  species 52  interactions 406570  sequences 1655  architectures

Clan: Cupin (CL0029)


Cupin fold Add an annotation

This clan represents the conserved barrel domain of the 'cupin' superfamily [1] ('cupa' is the Latin term for a small barrel). The cupin fold is found in a wide variety of enzymes, but notably contains the non-enzymatic seed storage proteins also.

This clan contains 57 families and the total number of domains in the clan is 406570. The clan was built by A Bateman.

Literature references

  1. Dunwell JM; , Biotechnol Genet Eng Rev 1998;15:1-32.: Cupins: a new superfamily of functionally diverse proteins that include germins and plant storage proteins. PUBMED:9573603 EPMC:9573603


This clan contains the following 57 member families:

2OG-Fe_Oxy_2 2OG-FeII_Oxy 2OG-FeII_Oxy_2 2OG-FeII_Oxy_3 2OG-FeII_Oxy_4 2OG-FeII_Oxy_5 3-HAO AraC_binding AraC_binding_2 AraC_N ARD Asp_Arg_Hydrox Auxin_BP CDO_I CENP-C_C CsiD Cupin_1 Cupin_2 Cupin_3 Cupin_4 Cupin_5 Cupin_6 Cupin_7 Cupin_8 DMSP_lyase dTDP_sugar_isom DUF1255 DUF1479 DUF1498 DUF1637 DUF1971 DUF386 DUF4437 DUF4867 Ectoine_synth EutQ FdtA FTO_NTD GPI HgmA HutD JmjC KduI MannoseP_isomer Ofd1_CTDD Oxygenase-NA PhyH Pirin Pirin_C PMI_typeI Popeye Pox_C4_C10 TauD Tet_JBP Ureidogly_hydro VIT VIT_2

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
Cupin_2 (PF07883) 70751 (17.4%) View
AraC_binding (PF02311) 47760 (11.7%) View
Pirin (PF02678) 21814 (5.4%) View
PMI_typeI (PF01238) 20648 (5.1%) View
TauD (PF02668) 18826 (4.6%) View
2OG-FeII_Oxy (PF03171) 15040 (3.7%) View
DUF386 (PF04074) 14936 (3.7%) View
dTDP_sugar_isom (PF00908) 11961 (2.9%) View
2OG-FeII_Oxy_2 (PF13532) 11142 (2.7%) View
2OG-FeII_Oxy_3 (PF13640) 10944 (2.7%) View
PhyH (PF05721) 10627 (2.6%) View
MannoseP_isomer (PF01050) 9749 (2.4%) View
Pirin_C (PF05726) 9213 (2.3%) View
Cupin_3 (PF05899) 7888 (1.9%) View
AraC_N (PF06719) 7845 (1.9%) View
KduI (PF04962) 7515 (1.8%) View
AraC_binding_2 (PF14525) 7417 (1.8%) View
Cupin_1 (PF00190) 7399 (1.8%) View
Cupin_6 (PF12852) 7310 (1.8%) View
Cupin_4 (PF08007) 6996 (1.7%) View
Cupin_5 (PF06172) 6326 (1.6%) View
DUF1971 (PF09313) 5677 (1.4%) View
DUF1255 (PF06865) 5595 (1.4%) View
Ureidogly_hydro (PF04115) 5019 (1.2%) View
JmjC (PF02373) 4978 (1.2%) View
HutD (PF05962) 4845 (1.2%) View
Asp_Arg_Hydrox (PF05118) 4747 (1.2%) View
EutQ (PF06249) 4383 (1.1%) View
Cupin_8 (PF13621) 4094 (1.0%) View
Pfam family Num. domains Alignment
CDO_I (PF05995) 4017 (1.0%) View
DUF1479 (PF07350) 3353 (0.8%) View
Cupin_7 (PF12973) 3034 (0.7%) View
CsiD (PF08943) 3030 (0.7%) View
HgmA (PF04209) 2961 (0.7%) View
ARD (PF03079) 2592 (0.6%) View
Oxygenase-NA (PF09859) 2364 (0.6%) View
FdtA (PF05523) 1872 (0.5%) View
DUF1498 (PF07385) 1820 (0.4%) View
VIT (PF08487) 1707 (0.4%) View
Ectoine_synth (PF06339) 1064 (0.3%) View
3-HAO (PF06052) 1064 (0.3%) View
2OG-Fe_Oxy_2 (PF10014) 1043 (0.3%) View
DUF1637 (PF07847) 656 (0.2%) View
GPI (PF06560) 561 (0.1%) View
2OG-FeII_Oxy_5 (PF13759) 560 (0.1%) View
Ofd1_CTDD (PF10637) 476 (0.1%) View
Popeye (PF04831) 454 (0.1%) View
Tet_JBP (PF12851) 426 (0.1%) View
CENP-C_C (PF11699) 366 (0.1%) View
2OG-FeII_Oxy_4 (PF13661) 357 (0.1%) View
DUF4867 (PF16161) 351 (0.1%) View
DUF4437 (PF14499) 211 (0.1%) View
DMSP_lyase (PF16867) 210 (0.1%) View
Pox_C4_C10 (PF03336) 151 (0.0%) View
Auxin_BP (PF02041) 148 (0.0%) View
VIT_2 (PF13757) 139 (0.0%) View
FTO_NTD (PF12933) 138 (0.0%) View
Total: 57 Total: 406570 Clan alignment

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Family relationships

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

We could not retrieve a family relationship diagram for this clan.

Species distribution

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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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