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945  structures 6529  species 29  interactions 112082  sequences 1162  architectures

Clan: Cupin (CL0029)

Summary

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 53 families and the total number of domains in the clan is 112082. 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

Members

This clan contains the following 53 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 dTDP_sugar_isom DUF1255 DUF1479 DUF1498 DUF1637 DUF1971 DUF386 DUF4437 Ectoine_synth EutQ FdtA FTO_NTD GPI HgmA HutD JmjC KduI MannoseP_isomer Ofd1_CTDD Oxygenase-NA PhyH Pirin Pirin_C PMI_typeI Pox_C4_C10 TauD Tet_JBP 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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Alignments

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

Pfam family Num. domains Alignment
Cupin_2 (PF07883) 20335 (18.1%) View
AraC_binding (PF02311) 10833 (9.7%) View
2OG-FeII_Oxy (PF03171) 7390 (6.6%) View
TauD (PF02668) 5659 (5.0%) View
Pirin (PF02678) 4965 (4.4%) View
PMI_typeI (PF01238) 4066 (3.6%) View
2OG-FeII_Oxy_3 (PF13640) 3739 (3.3%) View
Cupin_1 (PF00190) 3563 (3.2%) View
dTDP_sugar_isom (PF00908) 3552 (3.2%) View
DUF386 (PF04074) 3287 (2.9%) View
2OG-FeII_Oxy_2 (PF13532) 3255 (2.9%) View
PhyH (PF05721) 3239 (2.9%) View
JmjC (PF02373) 2778 (2.5%) View
MannoseP_isomer (PF01050) 2703 (2.4%) View
Pirin_C (PF05726) 2522 (2.3%) View
Cupin_8 (PF13621) 2241 (2.0%) View
KduI (PF04962) 2006 (1.8%) View
AraC_binding_2 (PF14525) 1819 (1.6%) View
Cupin_4 (PF08007) 1723 (1.5%) View
Cupin_6 (PF12852) 1675 (1.5%) View
AraC_N (PF06719) 1635 (1.5%) View
Cupin_3 (PF05899) 1583 (1.4%) View
Cupin_5 (PF06172) 1200 (1.1%) View
DUF1971 (PF09313) 1196 (1.1%) View
HgmA (PF04209) 1185 (1.1%) View
Asp_Arg_Hydrox (PF05118) 1101 (1.0%) View
Cupin_7 (PF12973) 1076 (1.0%) View
continued
Pfam family Num. domains Alignment
DUF1255 (PF06865) 1071 (1.0%) View
VIT (PF08487) 1019 (0.9%) View
HutD (PF05962) 985 (0.9%) View
ARD (PF03079) 964 (0.9%) View
CDO_I (PF05995) 920 (0.8%) View
EutQ (PF06249) 785 (0.7%) View
DUF1479 (PF07350) 709 (0.6%) View
FdtA (PF05523) 624 (0.6%) View
CsiD (PF08943) 476 (0.4%) View
Ectoine_synth (PF06339) 443 (0.4%) View
2OG-Fe_Oxy_2 (PF10014) 432 (0.4%) View
3-HAO (PF06052) 387 (0.3%) View
DUF1498 (PF07385) 356 (0.3%) View
DUF1637 (PF07847) 328 (0.3%) View
Tet_JBP (PF12851) 327 (0.3%) View
2OG-FeII_Oxy_5 (PF13759) 313 (0.3%) View
Oxygenase-NA (PF09859) 288 (0.3%) View
Ofd1_CTDD (PF10637) 253 (0.2%) View
GPI (PF06560) 215 (0.2%) View
CENP-C_C (PF11699) 190 (0.2%) View
2OG-FeII_Oxy_4 (PF13661) 165 (0.1%) View
Pox_C4_C10 (PF03336) 127 (0.1%) View
VIT_2 (PF13757) 116 (0.1%) View
FTO_NTD (PF12933) 102 (0.1%) View
DUF4437 (PF14499) 81 (0.1%) View
Auxin_BP (PF02041) 80 (0.1%) View
Total: 53 Total: 112082 Clan alignment
 

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Family relationships

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

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Species distribution

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

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Interactions

There are 29 interactions for this clan. More...

Interacting families
A B
HgmA HgmA
CsiD CsiD
Pirin_C Pirin
AraC_binding AraC_binding
Cupin_1 Cupin_1
PhyH PhyH
GPI GPI
PMI_typeI PMI_typeI
Cupin_2 HTH_3
Cupin_3
Cupin_2
DUF1255 DUF1255
2OG-FeII_Oxy 2OG-FeII_Oxy
MannoseP_isomer NTP_transferase
MannoseP_isomer
Cupin_4 Cupin_4
Asp_Arg_Hydrox Pro_3_hydrox_C
FdtA FdtA
TauD TauD
HutD HutD
JmjC JmjC
JmjN
3-HAO 3-HAO
Cupin_5 Cupin_5
dTDP_sugar_isom dTDP_sugar_isom
DUF386 DUF386
Cupin_3 Cupin_3
Cupin_2
Pirin Pirin_C

Structures

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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