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1053  structures 6169  species 47  interactions 107825  sequences 1522  architectures

Clan: Ubiquitin (CL0072)

Summary

Ubiquitin superfamily Add an annotation

This family includes proteins that share the ubiquitin fold. It currently unites four SCOP superfamilies.

This clan contains 41 families and the total number of domains in the clan is 107825. The clan was built by A Bateman.

Members

This clan contains the following 41 member families:

APG12 Atg8 Blt1 Caps_synth_GfcC CIDE-N Cobl DUF1315 DUF2407 DUF4430 DWNN FERM_N Lambda_tail_I Multi_ubiq NQRA_SLBB PB1 PI3K_rbd Plug Prok_Ub RA Rad60-SLD Rad60-SLD_2 Ras_bdg_2 RBD SLBB Telomere_Sde2 TGS ThiS ThiS-like TmoB TUG-UBL1 Ub-Mut7C Ub-RnfH ubiquitin Ubiquitin_2 Ubiquitin_3 UBX Ufm1 UN_NPL4 Urm1 YchF-GTPase_C YukD

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
Plug (PF07715) 36469 (33.8%) View
SLBB (PF10531) 11758 (10.9%) View
ubiquitin (PF00240) 11560 (10.7%) View
TGS (PF02824) 10557 (9.8%) View
ThiS (PF02597) 6781 (6.3%) View
YchF-GTPase_C (PF06071) 5012 (4.6%) View
RA (PF00788) 3464 (3.2%) View
FERM_N (PF09379) 3027 (2.8%) View
PB1 (PF00564) 2276 (2.1%) View
UBX (PF00789) 2190 (2.0%) View
Ub-RnfH (PF03658) 1334 (1.2%) View
Lambda_tail_I (PF06805) 1136 (1.1%) View
Rad60-SLD (PF11976) 1068 (1.0%) View
Caps_synth_GfcC (PF06251) 1054 (1.0%) View
Atg8 (PF02991) 1011 (0.9%) View
YukD (PF08817) 869 (0.8%) View
DUF1315 (PF07023) 846 (0.8%) View
NQRA_SLBB (PF11973) 761 (0.7%) View
RBD (PF02196) 710 (0.7%) View
DUF4430 (PF14478) 701 (0.7%) View
Ubiquitin_2 (PF14560) 602 (0.6%) View
continued
Pfam family Num. domains Alignment
PI3K_rbd (PF00794) 588 (0.5%) View
DWNN (PF08783) 408 (0.4%) View
CIDE-N (PF02017) 382 (0.4%) View
Rad60-SLD_2 (PF13881) 319 (0.3%) View
Urm1 (PF09138) 304 (0.3%) View
Ubiquitin_3 (PF14836) 283 (0.3%) View
APG12 (PF04110) 282 (0.3%) View
Telomere_Sde2 (PF13019) 270 (0.3%) View
Ub-Mut7C (PF14451) 253 (0.2%) View
TUG-UBL1 (PF11470) 216 (0.2%) View
UN_NPL4 (PF11543) 177 (0.2%) View
Ufm1 (PF03671) 177 (0.2%) View
ThiS-like (PF14453) 166 (0.2%) View
Multi_ubiq (PF14452) 160 (0.1%) View
DUF2407 (PF10302) 152 (0.1%) View
Ras_bdg_2 (PF14847) 148 (0.1%) View
Cobl (PF09469) 145 (0.1%) View
Prok_Ub (PF14454) 94 (0.1%) View
Blt1 (PF12754) 75 (0.1%) View
TmoB (PF06234) 40 (0.0%) View
Total: 41 Total: 107825 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...

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Interactions

There are 47 interactions for this clan. More...

Interacting families
A B
TGS tRNA_SAD
YchF-GTPase_C MMR_HSR1
YchF-GTPase_C
Atg8 Atg8
Peptidase_C54
UBX CDC48_N
CDC48_2
ubiquitin SH3_1
UQ_con
ubiquitin
UCH
UBA
ThiF
Peptidase_C12
zf-A20
UBACT
zf-UBP
UIM
CUE
Peptidase_C48
UDG
UBA_e1_thiolCys
Vps36_ESCRT-II
TmoB YHS
ThiS ThiF
MoaE
ThiS
MoeZ_MoeB
ThiG
DUF1952
RA RasGEF
PB1 SH3_1
PB1
PX
FERM_N FERM_M
FERM_N
FERM_C
PI3K_rbd Ras
PI3_PI4_kinase
PI3Ka
RBD Ras
Plug TonB_dep_Rec
Colicin_Ia
E2R135
CIDE-N CIDE-N
APG12 APG12
YukD YukD

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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