Summary: CIDE-N domain
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CIDE-N domain Provide feedback
Enari M, Sakahira H, Yokoyama H, Okawa K, Iwamatsu A, Nagata S; , Nature 1998;391:43-50.: A caspase-activated DNase that degrades DNA during apoptosis, and its inhibitor ICAD [see comments] [published erratum appears in Nature 1998 May 28;393(6683):396] PUBMED:9422506 EPMC:9422506
Lugovskoy AA, Zhou P, Chou JJ, McCarty JS, Li P, Wagner G; , Cell 1999;99:747-755.: Solution structure of the CIDE-N domain of CIDE-B and a model for CIDE- N/CIDE-N interactions in the DNA fragmentation pathway of apoptosis [In Process Citation] PUBMED:10619428 EPMC:10619428
Internal database links
|Similarity to PfamA using HHSearch:||KHA|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR003508
The CIDE-N or CAD domain is a ~78 amino acid protein-protein interaction domain in the N-terminal part of Cell death-Inducing DFF45-like Effector (CIDE) proteins, involved in apoptosis. At the final stage of programmed cell death, chromosomal DNA is degraded into fragments by Caspase-activated DNase (CAD), also named DNA fragmentation factor 40kDa (DFF40). In normal cells CAD/DFF40 is completely inhibited by its binding to DFF45 or Inhibitor of CAD (ICAD). Apoptotic stimuli provoke cleavage of ICAD/DFF45 by caspases, resulting in self-assembly of CAD/DFF40 into the active dimer [ PUBMED:15149602 ].
Both CAD/DFF40 and ICAD/DFF45 possess an N-terminal CIDE-N domain that is involved in their interaction. The name of the CIDE-N domain refers to the CIDE proteins and CAD, where the domain forms the N-terminal part [ PUBMED:9564035 , PUBMED:10619428 ]. The CIDE-N domains from different proteins can interact, e.g. CIDE-N of CIDE-B and ICAD/DFF45 with CIDE-N of CAD/DFF40, and such interactions can also be needed for proper folding [ PUBMED:10764577 , PUBMED:11371636 ].
Tertiary structures show that the CIDE-N domain forms an alpha/beta roll fold of five beta-strands forming a single, mixed parallel/anti-parallel beta-sheet with one [ PUBMED:10764577 ] or two [ PUBMED:10619428 , PUBMED:11371636 ] alpha-helices packed against the sheet. Binding surfaces of the CIDE-N domain form a central hydrophobic cluster, while specific binding interfaces can be formed by charged patches.
Some proteins known to contain a CIDE-N domain include:
- Mammalian DNA fragmentation factor 40kDa (DFF40) or Caspase-activated deoxyribonuclease (CAD), an endonuclease that induces DNA fragmentation and chromatin condensation during apoptosis. The degradation of chromosomal DNA by CAD/DFF40 will kill the cells.
- Mammalian DNA fragmentation factor 45kDa (DFF45) or Inhibitor of CAD (ICAD), which controls the activity and proper folding of CAD/DFF40.
- Mammalian CIDE-A and CIDE-B, activators of cell death and DNA fragmentation that can be inhibited by ICAD/DFF45. In contrast with CAD and ICAD, the CIDE proteins are expressed in a highly restricted way and show pronounced tissue specificity.
- Fruit fly DNAation factor DREP1, a DFF45 homologue that can inhibit CIDE-A-induced apoptosis.
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Biological process||apoptotic process (GO:0006915)|
Below is a listing of the unique domain organisations or architectures in which this domain is found. More...
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This family includes proteins that share the ubiquitin fold. It currently unites four SCOP superfamilies.
The clan contains the following 79 members:APG12 APG5 ATG8 AUX_IAA B1 BILBO1_N Blt1 Caps_syn_GfcC_C CHIPS CIDE-N Cobl CRIM Crinkler DCX DIX Dsc3_N DUF348 DUF4430 DWNN FERM_f0 FERM_N FERM_N_2 Flg_new Flg_new_2 Formin_GBD_N GABP-alpha IgG_binding_B Kindlin_2_N Lambda_tail_I Muc_B2 MucBP MucBP_2 Multi_ubiq NLE NQRA_SLBB Oxidored_molyb Par3_HAL_N_term PB1 Phenol_monoox PI3K_p85B PI3K_rbd Plexin_RBD Prok_Ub RA Rad60-SLD Rad60-SLD_2 Ras_bdg_2 RAWUL RBD SAP18 Sde2_N_Ubi SHIRT SLBB SSSPR-51 Stap_Strp_tox_C Staphylokinase TBK1_ULD TGS ThiS ThiS-like TmoB TUG-UBL1 Tugs Ub-Mut7C Ub-RnfH ubiquitin Ubiquitin_2 Ubiquitin_3 Ubiquitin_4 Ubiquitin_5 UBX Ufm1 ULD UN_NPL4 Urm1 USP7_C2 USP7_ICP0_bdg YchF-GTPase_C YukD
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|Number in seed:||85|
|Number in full:||1898|
|Average length of the domain:||73.10 aa|
|Average identity of full alignment:||38 %|
|Average coverage of the sequence by the domain:||25.31 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||18|
|Download:||download the raw HMM for this family|
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For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the CIDE-N domain has been found. There are 29 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.
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AlphaFold Structure Predictions
The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.