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1550  structures 3255  species 52  interactions 98343  sequences 1667  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 98343. 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 DUF1971 DUF386 DUF4437 DUF4867 Ectoine_synth EutQ FdtA FTO_NTD GPI HgmA HutD JmjC KduI MannoseP_isomer Ofd1_CTDD Oxygenase-NA PCO_ADO PhyH Pirin Pirin_C PMI_typeI Popeye Pox_C4_C10 TauD Tet_JBP Ureidogly_lyase 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) 13198 (13.4%) View
2OG-FeII_Oxy (PF03171) 11323 (11.5%) View
AraC_binding (PF02311) 6143 (6.2%) View
TauD (PF02668) 5637 (5.7%) View
Cupin_1 (PF00190) 5500 (5.6%) View
2OG-FeII_Oxy_3 (PF13640) 5248 (5.3%) View
JmjC (PF02373) 4795 (4.9%) View
PhyH (PF05721) 4511 (4.6%) View
2OG-FeII_Oxy_2 (PF13532) 3824 (3.9%) View
Pirin (PF02678) 3583 (3.6%) View
Cupin_8 (PF13621) 3536 (3.6%) View
dTDP_sugar_isom (PF00908) 2382 (2.4%) View
Pirin_C (PF05726) 2327 (2.4%) View
PMI_typeI (PF01238) 2220 (2.3%) View
MannoseP_isomer (PF01050) 1547 (1.6%) View
HgmA (PF04209) 1410 (1.4%) View
VIT (PF08487) 1367 (1.4%) View
Cupin_3 (PF05899) 1145 (1.2%) View
AraC_binding_2 (PF14525) 1138 (1.2%) View
Cupin_4 (PF08007) 1092 (1.1%) View
ARD (PF03079) 1061 (1.1%) View
KduI (PF04962) 992 (1.0%) View
Cupin_6 (PF12852) 977 (1.0%) View
CDO_I (PF05995) 952 (1.0%) View
Cupin_5 (PF06172) 891 (0.9%) View
Asp_Arg_Hydrox (PF05118) 886 (0.9%) View
Cupin_7 (PF12973) 881 (0.9%) View
AraC_N (PF06719) 878 (0.9%) View
PCO_ADO (PF07847) 752 (0.8%) View
Pfam family Num. domains Alignment
DUF386 (PF04074) 629 (0.6%) View
Ureidogly_lyase (PF04115) 614 (0.6%) View
3-HAO (PF06052) 564 (0.6%) View
DUF1479 (PF07350) 550 (0.6%) View
2OG-FeII_Oxy_4 (PF13661) 499 (0.5%) View
Ofd1_CTDD (PF10637) 461 (0.5%) View
FdtA (PF05523) 445 (0.5%) View
DUF1255 (PF06865) 389 (0.4%) View
HutD (PF05962) 374 (0.4%) View
Ectoine_synth (PF06339) 347 (0.4%) View
CENP-C_C (PF11699) 346 (0.4%) View
Tet_JBP (PF12851) 336 (0.3%) View
Popeye (PF04831) 332 (0.3%) View
EutQ (PF06249) 300 (0.3%) View
2OG-Fe_Oxy_2 (PF10014) 295 (0.3%) View
2OG-FeII_Oxy_5 (PF13759) 239 (0.2%) View
Oxygenase-NA (PF09859) 223 (0.2%) View
GPI (PF06560) 215 (0.2%) View
DUF1971 (PF09313) 192 (0.2%) View
DUF1498 (PF07385) 157 (0.2%) View
DUF4867 (PF16161) 127 (0.1%) View
VIT_2 (PF13757) 123 (0.1%) View
Auxin_BP (PF02041) 100 (0.1%) View
FTO_NTD (PF12933) 93 (0.1%) View
DMSP_lyase (PF16867) 70 (0.1%) View
DUF4437 (PF14499) 69 (0.1%) View
CsiD (PF08943) 48 (0.0%) View
Pox_C4_C10 (PF03336) 10 (0.0%) View
Total: 57 Total: 98343
No alignment ℹ

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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...



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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