NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|22329872|ref|NP_174364|]
View 

F-box associated ubiquitination effector family protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
F_box_assoc_1 super family cl44343
F-box protein interaction domain; This model describes a large family of plant domains, with ...
 280-456 2.05e-27

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.


The actual alignment was detected with superfamily member TIGR01640:

Pssm-ID: 273726 [Multi-domain]  Cd Length: 230  Bit Score: 109.76  E-value: 2.05e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22329872   280 SSKQSR---CPKFP-----VNTRFVGYDPIDDQQKALSVSVPSRKRNL-EHKVLTLGGGGqgWRHIEVTNAPFSPVTVGV 350
Cdd:TIGR01640  22 STGQSRwlpTPKSRrsnkeSDTYFLGYDPIEKQYKVLCFSDRSGNRNQsEHQVYTLGSNS--WRTIECSPPHHPLKSRGV 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22329872   351 SIDGFVYYGAYSPTPPMNPVLVCFDVRSEKIS-FIKAPND------------------VLQW-----GFDLWILEDVERH 406
Cdd:TIGR01640 100 CINGVLYYLAYTLKTNPDYFIVSFDVSSERFKeFIPLPCGnsdsvdylslinykgklaVLKQkkdtnNFDLWVLNDAGKQ 179

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 22329872   407 EWSKQtCVFPSSVAWDYVGDIQmsfpgtnkagigddeefrrCSGFVDEGE 456
Cdd:TIGR01640 180 EWSKL-FTVPIPPLPDLVDDNF-------------------LSGFTDKGE 209
F-box_SF super family cl45894
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 234-272 6.48e-07

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: 45.53  E-value: 6.48e-07
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 22329872 234 DSLPFDLKMVILTRLSAKSLTNFKRVSKMWSSIIGSQRF 272
Cdd:cd22157   1 SSLPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 39
 
Name Accession Description Interval E-value
F_box_assoc_1 TIGR01640
F-box protein interaction domain; This model describes a large family of plant domains, with ...
 280-456 2.05e-27

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: 109.76  E-value: 2.05e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22329872   280 SSKQSR---CPKFP-----VNTRFVGYDPIDDQQKALSVSVPSRKRNL-EHKVLTLGGGGqgWRHIEVTNAPFSPVTVGV 350
Cdd:TIGR01640  22 STGQSRwlpTPKSRrsnkeSDTYFLGYDPIEKQYKVLCFSDRSGNRNQsEHQVYTLGSNS--WRTIECSPPHHPLKSRGV 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22329872   351 SIDGFVYYGAYSPTPPMNPVLVCFDVRSEKIS-FIKAPND------------------VLQW-----GFDLWILEDVERH 406
Cdd:TIGR01640 100 CINGVLYYLAYTLKTNPDYFIVSFDVSSERFKeFIPLPCGnsdsvdylslinykgklaVLKQkkdtnNFDLWVLNDAGKQ 179

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 22329872   407 EWSKQtCVFPSSVAWDYVGDIQmsfpgtnkagigddeefrrCSGFVDEGE 456
Cdd:TIGR01640 180 EWSKL-FTVPIPPLPDLVDDNF-------------------LSGFTDKGE 209
FBA_3 pfam08268
F-box associated domain;
349-438 1.54e-23

F-box associated domain;


Pssm-ID: 285468  Cd Length: 125  Bit Score: 95.43  E-value: 1.54e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22329872   349 GVSIDGFVYYGAYspTPPM-NPVLVCFDVRSEKISFIKAPNDVLQW---------------------GFDLWILEDVERH 406
Cdd:pfam08268   1 GICINGVLYYGAW--TSDNsKSVIVSFDVRSEKFDFIKLPVPLANDlsstlinykgklavvshtsdgGIELWVLEDAEKH 78

                          90       100       110
                  ....*....|....*....|....*....|..
gi 22329872   407 EWSKQTCVFPSSvAWDYVGDIQMSFPGTNKAG 438
Cdd:pfam08268  79 EWSKKIFVLPPS-HEHLVDNTDLSVVGTTRTG 109
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 234-272 6.48e-07

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: 45.53  E-value: 6.48e-07
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 22329872 234 DSLPFDLKMVILTRLSAKSLTNFKRVSKMWSSIIGSQRF 272
Cdd:cd22157   1 SSLPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 39
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 233-272 3.00e-06

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: 44.07  E-value: 3.00e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 22329872   233 LDSLPFDLKMVILTRLSAKSLTNFKRVSKMWSSIIGSQRF 272
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKL 40
FBOX smart00256
A Receptor for Ubiquitination Targets;
236-272 9.22e-05

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 39.73  E-value: 9.22e-05
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 22329872    236 LPFDLKMVILTRLSAKSLTNFKRVSKMWSSIIGSQRF 272
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
 
Name Accession Description Interval E-value
F_box_assoc_1 TIGR01640
F-box protein interaction domain; This model describes a large family of plant domains, with ...
 280-456 2.05e-27

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: 109.76  E-value: 2.05e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22329872   280 SSKQSR---CPKFP-----VNTRFVGYDPIDDQQKALSVSVPSRKRNL-EHKVLTLGGGGqgWRHIEVTNAPFSPVTVGV 350
Cdd:TIGR01640  22 STGQSRwlpTPKSRrsnkeSDTYFLGYDPIEKQYKVLCFSDRSGNRNQsEHQVYTLGSNS--WRTIECSPPHHPLKSRGV 99

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22329872   351 SIDGFVYYGAYSPTPPMNPVLVCFDVRSEKIS-FIKAPND------------------VLQW-----GFDLWILEDVERH 406
Cdd:TIGR01640 100 CINGVLYYLAYTLKTNPDYFIVSFDVSSERFKeFIPLPCGnsdsvdylslinykgklaVLKQkkdtnNFDLWVLNDAGKQ 179

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 22329872   407 EWSKQtCVFPSSVAWDYVGDIQmsfpgtnkagigddeefrrCSGFVDEGE 456
Cdd:TIGR01640 180 EWSKL-FTVPIPPLPDLVDDNF-------------------LSGFTDKGE 209
FBA_3 pfam08268
F-box associated domain;
349-438 1.54e-23

F-box associated domain;


Pssm-ID: 285468  Cd Length: 125  Bit Score: 95.43  E-value: 1.54e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 22329872   349 GVSIDGFVYYGAYspTPPM-NPVLVCFDVRSEKISFIKAPNDVLQW---------------------GFDLWILEDVERH 406
Cdd:pfam08268   1 GICINGVLYYGAW--TSDNsKSVIVSFDVRSEKFDFIKLPVPLANDlsstlinykgklavvshtsdgGIELWVLEDAEKH 78

                          90       100       110
                  ....*....|....*....|....*....|..
gi 22329872   407 EWSKQTCVFPSSvAWDYVGDIQMSFPGTNKAG 438
Cdd:pfam08268  79 EWSKKIFVLPPS-HEHLVDNTDLSVVGTTRTG 109
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 234-272 6.48e-07

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: 45.53  E-value: 6.48e-07
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 22329872 234 DSLPFDLKMVILTRLSAKSLTNFKRVSKMWSSIIGSQRF 272
Cdd:cd22157   1 SSLPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 39
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 233-272 3.00e-06

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: 44.07  E-value: 3.00e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 22329872   233 LDSLPFDLKMVILTRLSAKSLTNFKRVSKMWSSIIGSQRF 272
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKL 40
FBOX smart00256
A Receptor for Ubiquitination Targets;
236-272 9.22e-05

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 39.73  E-value: 9.22e-05
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 22329872    236 LPFDLKMVILTRLSAKSLTNFKRVSKMWSSIIGSQRF 272
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
F-box_SpPof1-like cd22147
F-box domain found in Schizosaccharomyces pombe Skp1-binding protein 1 (SpPof1) and similar ...
 236-271 2.83e-04

F-box domain found in Schizosaccharomyces pombe Skp1-binding protein 1 (SpPof1) and similar proteins; SpPof1, also called F-box/WD repeat-containing protein pof1, probably recognizes and binds to some phosphorylated proteins and promotes their ubiquitination and degradation. It is required for the inactivation of zip1 via ubiquitination. This subfamily also includes Saccharomyces cerevisiae methionine-requiring protein 30 (ScMET30, also called E3 ubiquitin ligase complex SCF(Met30) subunit MET30), Aspergillus niger sulfur controller B (AnSCONB, also called sulfur metabolite repression control protein B) and Neurospora crassa sulfur controller 2 (NcSCON2, also called sulfur metabolite repression control protein 2). ScMET30 acts as a transcriptional inhibitor that negatively regulates the expression of sulfur amino acid biosynthesis genes. It controls cell cycle function (being required for the G1/S transition and M-phase but not the S-phase), sulfur metabolism, and methionine biosynthesis as part of the E3 ubiquitin ligase complex SCF(Met30). AnSCONB and NcSCON2 are components of the SCF (sconB/scon-2) E3 ubiquitin ligase complexes involved in the regulation of sulfur metabolite repression, probably by mediating the inactivation or degradation of the metR transcription factor. 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: 438918  Cd Length: 46  Bit Score: 38.45  E-value: 2.83e-04
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 22329872 236 LPFDLKMVILTRLSAKSLTNFKRVSKMWSSIIGSQR 271
Cdd:cd22147   5 LPVELSLKILSYLDAKSLCRAAQVSKKWRNLADDDE 40
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 234-267 2.29e-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: 35.50  E-value: 2.29e-03
                        10        20        30
                ....*....|....*....|....*....|....
gi 22329872 234 DSLPFDLKMVILTRLSAKSLTNFKRVSKMWSSII 267
Cdd:cd09917   1 SDLPDEILLKILSYLDPRDLLRLSLVCKRWRELA 34
 
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