NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15234812|ref|NP_192725|]
View 

F-box and associated interaction domains-containing protein [Arabidopsis thaliana]

Protein Classification

F-box protein( domain architecture ID 18135504)

F-box protein functions as the substrate-recognition component of an SCF (Skp1-Cullin-F-box protein) ubiquitin-protein ligase that is involved in ubiquitin-dependent degradation

CATH:  1.20.1280.50
Gene Ontology:  GO:0006511|GO:0019005|GO:0005515
PubMed:  31898225|11178263
SCOP:  4001927

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
FBA_1 pfam07734
F-box associated; Most of these proteins contain pfam00646 at the N terminus, suggesting that ...
 152-322 9.18e-55

F-box associated; Most of these proteins contain pfam00646 at the N terminus, suggesting that they are effectors linked with ubiquitination.


:

Pssm-ID: 254394  Cd Length: 159  Bit Score: 176.26  E-value: 9.18e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812   152 CVSLKGKTYWLTFDKKDRELD-MFSFDYATESFGNRMPLPYQFprCSYETVALSVVREEKLSVLLQLRGTSRKEIWVTNK 230
Cdd:pfam07734   1 GVSLKGNTYWLAREKETNEEDfLLSFDFTTERFGPRLPLPFQS--PDLDTVSLSVVREEKLAVLLQEDDTSKIEIWVTTK 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812   231 INETtqVLSWSKVLTLDNSD----FGYCPGLSFFVDEEKKQVLCFEKCRvfhihtndEVFENKVYTVGEDNKVTQLRfeq 306
Cdd:pfam07734  79 IEPN--AVSWSKFLTVDMPPlpglFFHFFAGSFFIDEEKKVAVVCDKDK--------EKKTNTIYIIGEDGYFKEVD--- 145

                         170
                  ....*....|....*.
gi 15234812   307 sfCPKMDPYVFGYVPS 322
Cdd:pfam07734 146 --SSYCSPLVCSYVPS 159
F-box_SF super family cl45894
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 4-41 1.71e-09

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.


The actual alignment was detected with superfamily member cd22157:

Pssm-ID: 459239  Cd Length: 39  Bit Score: 52.46  E-value: 1.71e-09
                        10        20        30
                ....*....|....*....|....*....|....*...
gi 15234812   4 SELSQDLLEEILCRVPAISLKKLRSTCKLWNSLFIDKR 41
Cdd:cd22157   1 SSLPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPS 38
 
Name Accession Description Interval E-value
FBA_1 pfam07734
F-box associated; Most of these proteins contain pfam00646 at the N terminus, suggesting that ...
 152-322 9.18e-55

F-box associated; Most of these proteins contain pfam00646 at the N terminus, suggesting that they are effectors linked with ubiquitination.


Pssm-ID: 254394  Cd Length: 159  Bit Score: 176.26  E-value: 9.18e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812   152 CVSLKGKTYWLTFDKKDRELD-MFSFDYATESFGNRMPLPYQFprCSYETVALSVVREEKLSVLLQLRGTSRKEIWVTNK 230
Cdd:pfam07734   1 GVSLKGNTYWLAREKETNEEDfLLSFDFTTERFGPRLPLPFQS--PDLDTVSLSVVREEKLAVLLQEDDTSKIEIWVTTK 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812   231 INETtqVLSWSKVLTLDNSD----FGYCPGLSFFVDEEKKQVLCFEKCRvfhihtndEVFENKVYTVGEDNKVTQLRfeq 306
Cdd:pfam07734  79 IEPN--AVSWSKFLTVDMPPlpglFFHFFAGSFFIDEEKKVAVVCDKDK--------EKKTNTIYIIGEDGYFKEVD--- 145

                         170
                  ....*....|....*.
gi 15234812   307 sfCPKMDPYVFGYVPS 322
Cdd:pfam07734 146 --SSYCSPLVCSYVPS 159
F_box_assoc_1 TIGR01640
F-box protein interaction domain; This model describes a large family of plant domains, with ...
 54-280 9.03e-37

F-box protein interaction domain; This model describes a large family of plant domains, with several hundred members in Arabidopsis thaliana. Most examples are found C-terminal to an F-box (pfam00646), a 60 amino acid motif involved in ubiquitination of target proteins to mark them for degradation. Two-hybid experiments support the idea that most members are interchangeable F-box subunits of SCF E3 complexes. Some members have two copies of this domain.


Pssm-ID: 273726 [Multi-domain]  Cd Length: 230  Bit Score: 132.10  E-value: 9.03e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812    54 VFHCDGLLLYINGvdTIMVVWNPFMGQTRWVQPI----ARDQTHKYVLGsYQDIKSritSYKILRYRYTLCGS-KLAFEI 128
Cdd:TIGR01640   1 VVPCDGLICFSYG--KRLVVWNPSTGQSRWLPTPksrrSNKESDTYFLG-YDPIEK---QYKVLCFSDRSGNRnQSEHQV 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812   129 CELYSSSWRVLDITMDFDLYHNSCVSLKGKTYWLTFDKKDRELDMF-SFDYATESFGNRMPLPYQFPrCSYETVALSVVR 207
Cdd:TIGR01640  75 YTLGSNSWRTIECSPPHHPLKSRGVCINGVLYYLAYTLKTNPDYFIvSFDVSSERFKEFIPLPCGNS-DSVDYLSLINYK 153

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15234812   208 eEKLSVLLQLRGTSRKEIWVTN-KINETtqvlsWSKVLTLDNSDFGYCPG---LSFFVDeEKKQVLCFEKCRVFHIH 280
Cdd:TIGR01640 154 -GKLAVLKQKKDTNNFDLWVLNdAGKQE-----WSKLFTVPIPPLPDLVDdnfLSGFTD-KGEIVLCCEDENPFYIF 223
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 4-41 1.71e-09

F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) and similar proteins; AtFBW1, also called WD-40-associated F-box protein 1, is an F-box protein that contains four WD-40 repeats, which are separated from each other by a spacer region. Like other F-box proteins, AtFBW1 may be a component of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. This subfamily also contains many F-box only proteins that do not have any WD repeat. 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: 438928  Cd Length: 39  Bit Score: 52.46  E-value: 1.71e-09
                        10        20        30
                ....*....|....*....|....*....|....*...
gi 15234812   4 SELSQDLLEEILCRVPAISLKKLRSTCKLWNSLFIDKR 41
Cdd:cd22157   1 SSLPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPS 38
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 3-43 2.49e-05

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: 40.99  E-value: 2.49e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 15234812     3 ISELSQDLLEEILCRVPAISLKKLRSTCKLWNSLFIDKRVR 43
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLW 41
FBOX smart00256
A Receptor for Ubiquitination Targets;
6-46 1.71e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 38.57  E-value: 1.71e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 15234812      6 LSQDLLEEILCRVPAISLKKLRSTCKLWNSLFIDKRVRNEL 46
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDFWFKL 41
 
Name Accession Description Interval E-value
FBA_1 pfam07734
F-box associated; Most of these proteins contain pfam00646 at the N terminus, suggesting that ...
 152-322 9.18e-55

F-box associated; Most of these proteins contain pfam00646 at the N terminus, suggesting that they are effectors linked with ubiquitination.


Pssm-ID: 254394  Cd Length: 159  Bit Score: 176.26  E-value: 9.18e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812   152 CVSLKGKTYWLTFDKKDRELD-MFSFDYATESFGNRMPLPYQFprCSYETVALSVVREEKLSVLLQLRGTSRKEIWVTNK 230
Cdd:pfam07734   1 GVSLKGNTYWLAREKETNEEDfLLSFDFTTERFGPRLPLPFQS--PDLDTVSLSVVREEKLAVLLQEDDTSKIEIWVTTK 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812   231 INETtqVLSWSKVLTLDNSD----FGYCPGLSFFVDEEKKQVLCFEKCRvfhihtndEVFENKVYTVGEDNKVTQLRfeq 306
Cdd:pfam07734  79 IEPN--AVSWSKFLTVDMPPlpglFFHFFAGSFFIDEEKKVAVVCDKDK--------EKKTNTIYIIGEDGYFKEVD--- 145

                         170
                  ....*....|....*.
gi 15234812   307 sfCPKMDPYVFGYVPS 322
Cdd:pfam07734 146 --SSYCSPLVCSYVPS 159
F_box_assoc_1 TIGR01640
F-box protein interaction domain; This model describes a large family of plant domains, with ...
 54-280 9.03e-37

F-box protein interaction domain; This model describes a large family of plant domains, with several hundred members in Arabidopsis thaliana. Most examples are found C-terminal to an F-box (pfam00646), a 60 amino acid motif involved in ubiquitination of target proteins to mark them for degradation. Two-hybid experiments support the idea that most members are interchangeable F-box subunits of SCF E3 complexes. Some members have two copies of this domain.


Pssm-ID: 273726 [Multi-domain]  Cd Length: 230  Bit Score: 132.10  E-value: 9.03e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812    54 VFHCDGLLLYINGvdTIMVVWNPFMGQTRWVQPI----ARDQTHKYVLGsYQDIKSritSYKILRYRYTLCGS-KLAFEI 128
Cdd:TIGR01640   1 VVPCDGLICFSYG--KRLVVWNPSTGQSRWLPTPksrrSNKESDTYFLG-YDPIEK---QYKVLCFSDRSGNRnQSEHQV 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15234812   129 CELYSSSWRVLDITMDFDLYHNSCVSLKGKTYWLTFDKKDRELDMF-SFDYATESFGNRMPLPYQFPrCSYETVALSVVR 207
Cdd:TIGR01640  75 YTLGSNSWRTIECSPPHHPLKSRGVCINGVLYYLAYTLKTNPDYFIvSFDVSSERFKEFIPLPCGNS-DSVDYLSLINYK 153

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15234812   208 eEKLSVLLQLRGTSRKEIWVTN-KINETtqvlsWSKVLTLDNSDFGYCPG---LSFFVDeEKKQVLCFEKCRVFHIH 280
Cdd:TIGR01640 154 -GKLAVLKQKKDTNNFDLWVLNdAGKQE-----WSKLFTVPIPPLPDLVDdnfLSGFTD-KGEIVLCCEDENPFYIF 223
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 4-41 1.71e-09

F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) and similar proteins; AtFBW1, also called WD-40-associated F-box protein 1, is an F-box protein that contains four WD-40 repeats, which are separated from each other by a spacer region. Like other F-box proteins, AtFBW1 may be a component of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. This subfamily also contains many F-box only proteins that do not have any WD repeat. 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: 438928  Cd Length: 39  Bit Score: 52.46  E-value: 1.71e-09
                        10        20        30
                ....*....|....*....|....*....|....*...
gi 15234812   4 SELSQDLLEEILCRVPAISLKKLRSTCKLWNSLFIDKR 41
Cdd:cd22157   1 SSLPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPS 38
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 3-43 2.49e-05

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: 40.99  E-value: 2.49e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 15234812     3 ISELSQDLLEEILCRVPAISLKKLRSTCKLWNSLFIDKRVR 43
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLW 41
FBOX smart00256
A Receptor for Ubiquitination Targets;
6-46 1.71e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 38.57  E-value: 1.71e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 15234812      6 LSQDLLEEILCRVPAISLKKLRSTCKLWNSLFIDKRVRNEL 46
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDFWFKL 41
F-box_FBA cd22083
F-box domain found in the F-box associated (FBA) family of F-box proteins; The F-box ...
 3-36 3.63e-04

F-box domain found in the F-box associated (FBA) family of F-box proteins; The F-box associated (FBA) family is composed of FBXO2, FBXO6, FBXO17, FBXO27, and FBXO44, which contain a conserved G domain that mediates substrate binding. Members of this family play diverse roles in glycoprotein quality control. They bind high mannose and sulfated glycoproteins, with one FBA protein, FBXO44, failing to bind any glycans on the tested arrays. FBA proteins are components of canonical SCF (Skp1, Cullin1, and Rbx1) complexes, yet FBXO2 bound very little Cullin1, suggesting that FBXO2 may exist primarily as a heterodimer with Skp1. 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: 438855  Cd Length: 37  Bit Score: 37.37  E-value: 3.63e-04
                        10        20        30
                ....*....|....*....|....*....|....*
gi 15234812   3 ISELSQDLLEEILCRVPAISL-KKLRSTCKLWNSL 36
Cdd:cd22083   1 LNEIPEELLLEILTHVPATSLiTNCRLVCTLWRDI 35
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 4-37 1.17e-03

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: 35.88  E-value: 1.17e-03
                        10        20        30
                ....*....|....*....|....*....|....
gi 15234812   4 SELSQDLLEEILCRVPAISLKKLRSTCKLWNSLF 37
Cdd:cd09917   1 SDLPDEILLKILSYLDPRDLLRLSLVCKRWRELA 34
F-box_AtAFR-like cd22152
F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and ...
 2-36 4.25e-03

F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and similar proteins; AtAFR, also called SKP1-interacting partner 29 (AtSKIP29), or F-box protein AFR, is a component of SCF (SKP1/ASK-cullin-F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target proteins. It is part of the phyA-mediated signaling transduction pathway leading to the regulation of gene expression and hypocotyl elongation in response to red and far-red light exposure. This subfamily also includes many other Arabidopsis thaliana SKP1-interacting partner 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: 438923  Cd Length: 45  Bit Score: 34.85  E-value: 4.25e-03
                        10        20        30
                ....*....|....*....|....*....|....*
gi 15234812   2 SISELSQDLLEEILCRVPAISLKKLRSTCKLWNSL 36
Cdd:cd22152   1 LIPGLPDDIALQCLARVPRSSHPSLSLVSKSWRSL 35
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH