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Conserved domains on  [gi|18395236|ref|NP_564193|]
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Kelch repeat-containing F-box family protein [Arabidopsis thaliana]

Protein Classification

F-box/kelch-repeat protein( domain architecture ID 13799724)

F-box/kelch-repeat protein may be a component of SCF (Skp1-Cullin-F-box protein) E3 ubiquitin ligase complexes, which mediate the ubiquitination and subsequent proteasomal degradation of target proteins

CATH:  1.20.1280.50|2.120.10.80
Gene Ontology:  GO:0019005|GO:0005515|GO:0006511|GO:0016567
PubMed:  31898225|11178263|10603472|31442578|24959344|10581972
SCOP:  4001927|3000448

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 23-52 2.48e-05

F-box-like; This is an F-box-like family.


:

Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 41.31  E-value: 2.48e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 18395236    23 DILESILSYLPLLDLDSACQVSKSWNRAVF 52
Cdd:pfam12937   7 EILLQIFSYLDPKDLLRLALVCRRWRELAS 36
NanM super family cl34543
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
81-238 9.27e-05

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


The actual alignment was detected with superfamily member COG3055:

Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 43.61  E-value: 9.27e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236  81 AMAYDPKSEAWIELntASSPvehvsVARSSHSTLLY-----------ALSPARFSFSTDAFHLTWQHVAPPRVWRIDPIV 149
Cdd:COG3055  92 VYVYDPATNTWTKL--APMP-----TPRGGATALLLdgkiyvvggwdDGGNVAWVEVYDPATGTWTQLAPLPTPRDHLAA 164

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236 150 AVV-GRSLIIAGGVcdfeedrfavelfDIESGDGAWERCESMPDFLYesasstWLSVAVSSEKMYVTEKRSGV---TCSF 225
Cdd:COG3055 165 AVLpDGKILVIGGR-------------NGSGFSNTWTTLAPLPTARA------GHAAAVLGGKILVFGGESGFsdeVEAY 225

                       170
                ....*....|...
gi 18395236 226 NPVTRSWTKLLDL 238
Cdd:COG3055 226 DPATNTWTALGEL 238
 
Name Accession Description Interval E-value
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 23-52 2.48e-05

F-box-like; This is an F-box-like family.


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 41.31  E-value: 2.48e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 18395236    23 DILESILSYLPLLDLDSACQVSKSWNRAVF 52
Cdd:pfam12937   7 EILLQIFSYLDPKDLLRLALVCRRWRELAS 36
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 23-51 2.72e-05

F-box domain superfamily; This short domain is commonly found at the N-terminus of various proteins, and typically co-occurs with one or more other conserved domains or motifs, such as leucine rich repeats, WD40 repeats, kelch, tub, spry, and others. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression. One of the best researched roles of F-box proteins is their participation in SCF (Skp1-Cul1-F-box protein), a multi-protein complex that functions as a ubiquitin E3 ligase, where the role of the F-box protein is to recruit target substrates. Gene families containing the F-box are found greatly expanded in narrow taxonomic lineages, such as flowering plants and nematodes. In this hierarchical classification, many of the subfamilies are named according to their domain architectures.


Pssm-ID: 438852  Cd Length: 35  Bit Score: 40.89  E-value: 2.72e-05
                        10        20
                ....*....|....*....|....*....
gi 18395236  23 DILESILSYLPLLDLDSACQVSKSWNRAV 51
Cdd:cd09917   6 EILLKILSYLDPRDLLRLSLVCKRWRELA 34
FBOX smart00256
A Receptor for Ubiquitination Targets;
23-51 3.79e-05

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 40.50  E-value: 3.79e-05
                           10        20
                   ....*....|....*....|....*....
gi 18395236     23 DILESILSYLPLLDLDSACQVSKSWNRAV 51
Cdd:smart00256   4 EILEEILSKLDPKDLLRLRKVSRKWRSLI 32
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
81-238 9.27e-05

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 43.61  E-value: 9.27e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236  81 AMAYDPKSEAWIELntASSPvehvsVARSSHSTLLY-----------ALSPARFSFSTDAFHLTWQHVAPPRVWRIDPIV 149
Cdd:COG3055  92 VYVYDPATNTWTKL--APMP-----TPRGGATALLLdgkiyvvggwdDGGNVAWVEVYDPATGTWTQLAPLPTPRDHLAA 164

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236 150 AVV-GRSLIIAGGVcdfeedrfavelfDIESGDGAWERCESMPDFLYesasstWLSVAVSSEKMYVTEKRSGV---TCSF 225
Cdd:COG3055 165 AVLpDGKILVIGGR-------------NGSGFSNTWTTLAPLPTARA------GHAAAVLGGKILVFGGESGFsdeVEAY 225

                       170
                ....*....|...
gi 18395236 226 NPVTRSWTKLLDL 238
Cdd:COG3055 226 DPATNTWTALGEL 238
 
Name Accession Description Interval E-value
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 23-52 2.48e-05

F-box-like; This is an F-box-like family.


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 41.31  E-value: 2.48e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 18395236    23 DILESILSYLPLLDLDSACQVSKSWNRAVF 52
Cdd:pfam12937   7 EILLQIFSYLDPKDLLRLALVCRRWRELAS 36
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 23-51 2.72e-05

F-box domain superfamily; This short domain is commonly found at the N-terminus of various proteins, and typically co-occurs with one or more other conserved domains or motifs, such as leucine rich repeats, WD40 repeats, kelch, tub, spry, and others. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression. One of the best researched roles of F-box proteins is their participation in SCF (Skp1-Cul1-F-box protein), a multi-protein complex that functions as a ubiquitin E3 ligase, where the role of the F-box protein is to recruit target substrates. Gene families containing the F-box are found greatly expanded in narrow taxonomic lineages, such as flowering plants and nematodes. In this hierarchical classification, many of the subfamilies are named according to their domain architectures.


Pssm-ID: 438852  Cd Length: 35  Bit Score: 40.89  E-value: 2.72e-05
                        10        20
                ....*....|....*....|....*....
gi 18395236  23 DILESILSYLPLLDLDSACQVSKSWNRAV 51
Cdd:cd09917   6 EILLKILSYLDPRDLLRLSLVCKRWRELA 34
FBOX smart00256
A Receptor for Ubiquitination Targets;
23-51 3.79e-05

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 40.50  E-value: 3.79e-05
                           10        20
                   ....*....|....*....|....*....
gi 18395236     23 DILESILSYLPLLDLDSACQVSKSWNRAV 51
Cdd:smart00256   4 EILEEILSKLDPKDLLRLRKVSRKWRSLI 32
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
81-238 9.27e-05

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 43.61  E-value: 9.27e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236  81 AMAYDPKSEAWIELntASSPvehvsVARSSHSTLLY-----------ALSPARFSFSTDAFHLTWQHVAPPRVWRIDPIV 149
Cdd:COG3055  92 VYVYDPATNTWTKL--APMP-----TPRGGATALLLdgkiyvvggwdDGGNVAWVEVYDPATGTWTQLAPLPTPRDHLAA 164

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236 150 AVV-GRSLIIAGGVcdfeedrfavelfDIESGDGAWERCESMPDFLYesasstWLSVAVSSEKMYVTEKRSGV---TCSF 225
Cdd:COG3055 165 AVLpDGKILVIGGR-------------NGSGFSNTWTTLAPLPTARA------GHAAAVLGGKILVFGGESGFsdeVEAY 225

                       170
                ....*....|...
gi 18395236 226 NPVTRSWTKLLDL 238
Cdd:COG3055 226 DPATNTWTALGEL 238
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 23-51 1.56e-04

F-box domain; This domain is approximately 50 amino acids long, and is usually found in the N-terminal half of a variety of proteins. Two motifs that are commonly found associated with the F-box domain are the leucine rich repeats (LRRs; pfam00560 and pfam07723) and the WD repeat (pfam00400). The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 425796  Cd Length: 43  Bit Score: 38.67  E-value: 1.56e-04
                          10        20
                  ....*....|....*....|....*....
gi 18395236    23 DILESILSYLPLLDLDSACQVSKSWNRAV 51
Cdd:pfam00646   7 DLLLEILSRLDPKDLLRLSLVSKRWRSLV 35
F-box_FBXW2 cd22131
F-box domain found in F-box/WD repeat-containing protein 2 (FBXW2) and similar proteins; FBXW2, ...
 24-51 3.00e-04

F-box domain found in F-box/WD repeat-containing protein 2 (FBXW2) and similar proteins; FBXW2, also called F-box and WD-40 domain-containing protein 2, or protein MD6, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. It acts as a tumor suppressor by promoting SKP2 degradation. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438903  Cd Length: 40  Bit Score: 38.08  E-value: 3.00e-04
                        10        20
                ....*....|....*....|....*...
gi 18395236  24 ILESILSYLPLLDLDSACQVSKSWNRAV 51
Cdd:cd22131  10 LSFYLLSFLDPESLLTCCLVSKQWNKVI 37
F-box_FBXO42 cd22110
F-box domain found in F-box only protein 42 (FBXO42) and similar proteins; FBXO42, also called ...
 23-51 3.55e-04

F-box domain found in F-box only protein 42 (FBXO42) and similar proteins; FBXO42, also called FBX42, or just one F-box and Kelch domain-containing protein (JFK), is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. It specifically recognizes p53/TP53, promoting its ubiquitination and degradation. FBXO42 is also involved in the ubiquitin-proteasome system that may play a role in the pathogenesis of Parkinson's disease (PD). The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438882  Cd Length: 38  Bit Score: 37.70  E-value: 3.55e-04
                        10        20        30
                ....*....|....*....|....*....|
gi 18395236  23 DILESILSYL-PLLDLDSACQVSKSWNRAV 51
Cdd:cd22110   7 EILEYILSYLsPYGDLKSAALVCKRWHRII 36
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
84-221 8.36e-04

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 40.91  E-value: 8.36e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236  84 YDPKSEAWIELNTASSPVEHVSVARSSHSTLLYALsparfSFSTDAFHLTWQHVAPPRVWRIDPIVAVVGRSLIIAGGVC 163
Cdd:COG3055 142 YDPATGTWTQLAPLPTPRDHLAAAVLPDGKILVIG-----GRNGSGFSNTWTTLAPLPTARAGHAAAVLGGKILVFGGES 216

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236 164 DFEEDrfaVELFDIESgdGAWERCESMPdflyesASSTWLSVAVSSEKMYVT--EKRSGV 221
Cdd:COG3055 217 GFSDE---VEAYDPAT--NTWTALGELP------TPRHGHAAVLTDGKVYVIggETKPGV 265
F-box_FBXL3 cd22178
F-box domain found in F-box/LRR-repeat protein 3 (FBXL3) and similar proteins; FBXL3, also ...
 23-50 8.40e-04

F-box domain found in F-box/LRR-repeat protein 3 (FBXL3) and similar proteins; FBXL3, also called F-box and leucine-rich repeat protein 3A, or F-box/LRR-repeat protein 3A, is the substrate-recognition component of the SCF(FBXL3) E3 ubiquitin ligase complex that mainly acts in the nucleus and mediates ubiquitination and subsequent degradation of CRY1 and CRY2, and thus, is involved in circadian rhythm function. It plays a key role in the maintenance of both the speed and the robustness of the circadian clock oscillation. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438949  Cd Length: 43  Bit Score: 36.80  E-value: 8.40e-04
                        10        20
                ....*....|....*....|....*...
gi 18395236  23 DILESILSYLPLLDLDSACQVSKSWNRA 50
Cdd:cd22178   9 DIILQIFQYLPLLDRAHASQVCRNWNQV 36
F-box_FBXO22 cd22097
F-box domain found in F-box only protein 22 (FBXO22) and similar proteins; FBXO22, also called ...
 24-65 1.09e-03

F-box domain found in F-box only protein 22 (FBXO22) and similar proteins; FBXO22, also called FBX22, or F-box protein FBX22p44, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. It promotes the proteasome-dependent degradation of key sarcomeric proteins, such as alpha-actinin (ACTN2) and filamin-C (FLNC), essential for maintenance of normal contractile function. FBXO22 regulates histone H3 lysine 9 and 36 methylation levels by targeting histone demethylase KDM4A for ubiquitin-mediated proteasomal degradation. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438869  Cd Length: 48  Bit Score: 36.57  E-value: 1.09e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|..
gi 18395236  24 ILESILSYLPLLDLDSACQVSKSWNRAVFYSLRRLKTMPWLF 65
Cdd:cd22097   7 IVERILSFLPAKALLRCARVCRLWRDCARRILRTRQRLTWIS 48
F-box_EMI cd22086
F-box domain found in the early mitotic inhibitor (EMI) family of F-box proteins; The EMI ...
 23-52 1.18e-03

F-box domain found in the early mitotic inhibitor (EMI) family of F-box proteins; The EMI family includes FBX5 (EMI1) and FBX43 (EMI2), which are anaphase-promoting complex/cyclosome (APC/C) inhibitors that bind APC/C-CCD20 (Cell division cycle protein 20) and/or APC/C-CDH1 (CDC20 homologue 1) complexes. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438858  Cd Length: 48  Bit Score: 36.32  E-value: 1.18e-03
                        10        20        30
                ....*....|....*....|....*....|
gi 18395236  23 DILESILSYLPLLDLDSACQVSKSWNRAVF 52
Cdd:cd22086  10 HILSKILSYLSPEDLCRVSCVSKTWRQICL 39
NanM COG3055
N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];
83-294 1.89e-03

N-acetylneuraminic acid mutarotase [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442289 [Multi-domain]  Cd Length: 277  Bit Score: 39.75  E-value: 1.89e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236  83 AYDPKSEAWIELNTASSPVEHVSVARSSHSTLL----YALSPARFSFSTDAFHL-----TWQHVAPPRVWRIDPIVAVVG 153
Cdd:COG3055  42 VYDPATNTWSELAPLPGPPRHHAAAVAQDGKLYvfggFTGANPSSTPLNDVYVYdpatnTWTKLAPMPTPRGGATALLLD 121

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395236 154 RSLIIAGGVcDFEEDRFAVELFDIESgdGAWERCESMPdflyesASSTWLSVAVSSE-KMYVTekrSGVTcsFNPVTRSW 232
Cdd:COG3055 122 GKIYVVGGW-DDGGNVAWVEVYDPAT--GTWTQLAPLP------TPRDHLAAAVLPDgKILVI---GGRN--GSGFSNTW 187

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18395236 233 TKLLDLcPGECSlySRSIGFSVNRLIMAGiiGDEYNPTGIELWEVIDSdeshlKFESIGSMP 294
Cdd:COG3055 188 TTLAPL-PTARA--GHAAAVLGGKILVFG--GESGFSDEVEAYDPATN-----TWTALGELP 239
F-box_FBXO33 cd22104
F-box domain found in F-box only protein 33 (FBXO33) and similar proteins; FBXO33, also called ...
 24-54 2.31e-03

F-box domain found in F-box only protein 33 (FBXO33) and similar proteins; FBXO33, also called FBX33, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein) E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins. It exerts similar functions as F-box involved in polyQ pathogenesis (FipoQ) in modulating the ubiquitination and solubility of expanded SCA3-polyQ proteins. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438876  Cd Length: 48  Bit Score: 35.69  E-value: 2.31e-03
                        10        20        30
                ....*....|....*....|....*....|.
gi 18395236  24 ILESILSYLPLLDLDSACQVSKSWNRAVFYS 54
Cdd:cd22104   8 VLVHIFSYLPPRDRLRASSTCRRWREALFHP 38
F-box_FBXO45 cd22111
F-box domain found in F-box only protein 45 (FBXO45) and similar proteins; FBXO45, also called ...
 23-49 4.84e-03

F-box domain found in F-box only protein 45 (FBXO45) and similar proteins; FBXO45, also called FBX45, or F-box/SPRY domain-containing protein 1, functions as the substrate-recognition component of E3 ubiquitin ligase complexes. It is critical for synaptogenesis, neuronal migration, and synaptic transmission. The F-box domain has a role in mediating protein-protein interactions in a variety of contexts, such as polyubiquitination, transcription elongation, centromere binding and translational repression.


Pssm-ID: 438883  Cd Length: 36  Bit Score: 34.57  E-value: 4.84e-03
                        10        20
                ....*....|....*....|....*..
gi 18395236  23 DILESILSYLPLLDLDSACQVSKSWNR 49
Cdd:cd22111   7 RVLEVIFSYLDLPDLRNCSLVCKSWYR 33
 
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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