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Conserved domains on  [gi|85724816|ref|NP_001033841|]
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yippee, isoform B [Drosophila melanogaster]

Protein Classification

yippee-like protein( domain architecture ID 41214)

yippee-like protein may contain zinc-finger-like, metal-binding domain; similar to the C-terminal domain of retinoic acid-inducible gene (RIG)-I-like receptors

Gene Ontology:  GO:0046872
PubMed:  15556292

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RLR_C_like super family cl13152
C-terminal domain of Retinoic acid-inducible gene (RIG)-I-like Receptors, Cereblon (CRBN), and ...
 14-93 2.32e-05

C-terminal domain of Retinoic acid-inducible gene (RIG)-I-like Receptors, Cereblon (CRBN), and similar protein domains; Retinoic acid-inducible gene (RIG)-I-like Receptors (RLRs) are cytoplasmic RNA receptors that recognize non-self RNA and act as molecular sensors to detect viral pathogens. They play crucial roles in innate antiviral responses, including the production of proinflammatory cytokines and type I interferon. There are three RLRs in vertebrates, RIG-I, LGP2, and MDA5. They are characterized by a central DExD/H-box helicase domain and a C-terminal domain, both of which are responsible for binding viral RNA. Cereblon is part of an E3 ubiquitin ligase complex, together with damaged DNA binding protein 1 (DDB1), CUL4A and ROC1. Cereblon interacts directly with DDB1, although the C-terminal domain characterized here does not contribute to that interaction. The C-terminal domain of Cereblon was shown to contain the binding site for thalidomide and its analogs, a class of teratogenic drugs that exhibit an antiproliferative effect on myelomas. Mutations in CRBN, some of which map onto the C-terminal domain, were associated with autosomal recessive mental retardation, which may have to do with interactions between CRBN and ion channels in the brain. RLRs and Cereblon contain a common conserved zinc binding site in their C-terminal domains.


The actual alignment was detected with superfamily member pfam03226:

Pssm-ID: 472430  Cd Length: 99  Bit Score: 39.99  E-value: 2.32e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 85724816    14 LFNCAQCHTNLTNRSQLISTrftGATGRAYLFKRVvnltfsniqERVMLTGRHMVRD-----------VMCKNCGAKLGW 82
Cdd:pfam03226   2 VFQCKRCNTILGDSLALVSS---GRELNTIVLKKV---------TRNVVVGKELVTSesgfddctyspLFCAGCGAVLGR 69

                          90
                  ....*....|.
gi 85724816    83 MYEfATEESQK 93
Cdd:pfam03226  70 KYR-STPEELD 79
 
Name Accession Description Interval E-value
Yippee-Mis18 pfam03226
Yippee zinc-binding/DNA-binding /Mis18, centromere assembly; This family includes both ...
 14-93 2.32e-05

Yippee zinc-binding/DNA-binding /Mis18, centromere assembly; This family includes both Yippee-type proteins and Mis18 kinetochore proteins. Yippee are putative zinc-binding/DNA-binding proteins. Mis18 are proteins involved in the priming of centromeres for recruiting CENP-A. Mis18-alpha and beta form part of a small complex with Mis18-binding protein. Mis18-alpha is found to interact with DNA de-methylases through a Leu-rich region located at its carboxyl terminus. This entry also includes the CULT domain proteins such as Cereblon.


Pssm-ID: 427204  Cd Length: 99  Bit Score: 39.99  E-value: 2.32e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 85724816    14 LFNCAQCHTNLTNRSQLISTrftGATGRAYLFKRVvnltfsniqERVMLTGRHMVRD-----------VMCKNCGAKLGW 82
Cdd:pfam03226   2 VFQCKRCNTILGDSLALVSS---GRELNTIVLKKV---------TRNVVVGKELVTSesgfddctyspLFCAGCGAVLGR 69

                          90
                  ....*....|.
gi 85724816    83 MYEfATEESQK 93
Cdd:pfam03226  70 KYR-STPEELD 79
CRBN_C_like cd15777
Thalidomide-binding C-terminal domain of cereblon (CRBN) and similar protein domains; Cereblon ...
 17-85 2.03e-03

Thalidomide-binding C-terminal domain of cereblon (CRBN) and similar protein domains; Cereblon is part of an E3 ubiquitin ligase complex, together with damaged DNA-binding protein 1 (DDB1), CUL4A and ROC1. Cereblon interacts directly with DDB1, although the C-terminal domain characterized here does not contribute to that interaction. Ubiquination of cellular targets by this complex increases levels of FGF8 and FGF10, which was shown to affect the development of limbs and auditory vesicles in embryogenesis. The C-terminal domain of Cereblon was shown to contain the binding site for thalidomide and its analogs, a class of teratogenic drugs that exhibit an antiproliferative effect on myelomas. Mutations in CRBN, some of which map onto the C-terminal domain, were associated with autosomal recessive mental retardation, which may have to do with interactions between CRBN and ion channels in the brain.


Pssm-ID: 276940  Cd Length: 101  Bit Score: 34.91  E-value: 2.03e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 85724816  17 CAQCHTNLTNRSQLISTrftGATGRAYLFkrvVN--------LTFSNIQErVMLTGR----------HMVRDVMCKNCGA 78
Cdd:cd15777   3 CRSCGAPITRKSDIFSM---SGEGHVHTF---VNphgyvfeiGTFSKAPG-CALVGPpstefswfpgYAWTIALCARCGS 75


                ....*..
gi 85724816  79 KLGWMYE 85
Cdd:cd15777  76 HLGWKFT 82
 
Name Accession Description Interval E-value
Yippee-Mis18 pfam03226
Yippee zinc-binding/DNA-binding /Mis18, centromere assembly; This family includes both ...
 14-93 2.32e-05

Yippee zinc-binding/DNA-binding /Mis18, centromere assembly; This family includes both Yippee-type proteins and Mis18 kinetochore proteins. Yippee are putative zinc-binding/DNA-binding proteins. Mis18 are proteins involved in the priming of centromeres for recruiting CENP-A. Mis18-alpha and beta form part of a small complex with Mis18-binding protein. Mis18-alpha is found to interact with DNA de-methylases through a Leu-rich region located at its carboxyl terminus. This entry also includes the CULT domain proteins such as Cereblon.


Pssm-ID: 427204  Cd Length: 99  Bit Score: 39.99  E-value: 2.32e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 85724816    14 LFNCAQCHTNLTNRSQLISTrftGATGRAYLFKRVvnltfsniqERVMLTGRHMVRD-----------VMCKNCGAKLGW 82
Cdd:pfam03226   2 VFQCKRCNTILGDSLALVSS---GRELNTIVLKKV---------TRNVVVGKELVTSesgfddctyspLFCAGCGAVLGR 69

                          90
                  ....*....|.
gi 85724816    83 MYEfATEESQK 93
Cdd:pfam03226  70 KYR-STPEELD 79
CRBN_C_like cd15777
Thalidomide-binding C-terminal domain of cereblon (CRBN) and similar protein domains; Cereblon ...
 17-85 2.03e-03

Thalidomide-binding C-terminal domain of cereblon (CRBN) and similar protein domains; Cereblon is part of an E3 ubiquitin ligase complex, together with damaged DNA-binding protein 1 (DDB1), CUL4A and ROC1. Cereblon interacts directly with DDB1, although the C-terminal domain characterized here does not contribute to that interaction. Ubiquination of cellular targets by this complex increases levels of FGF8 and FGF10, which was shown to affect the development of limbs and auditory vesicles in embryogenesis. The C-terminal domain of Cereblon was shown to contain the binding site for thalidomide and its analogs, a class of teratogenic drugs that exhibit an antiproliferative effect on myelomas. Mutations in CRBN, some of which map onto the C-terminal domain, were associated with autosomal recessive mental retardation, which may have to do with interactions between CRBN and ion channels in the brain.


Pssm-ID: 276940  Cd Length: 101  Bit Score: 34.91  E-value: 2.03e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 85724816  17 CAQCHTNLTNRSQLISTrftGATGRAYLFkrvVN--------LTFSNIQErVMLTGR----------HMVRDVMCKNCGA 78
Cdd:cd15777   3 CRSCGAPITRKSDIFSM---SGEGHVHTF---VNphgyvfeiGTFSKAPG-CALVGPpstefswfpgYAWTIALCARCGS 75


                ....*..
gi 85724816  79 KLGWMYE 85
Cdd:cd15777  76 HLGWKFT 82
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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