NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|15220334|ref|NP_172594|]
View 

F-box and associated interaction domains-containing 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_SF super family cl45894
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
35-71 9.92e-10

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: 53.23  E-value: 9.92e-10
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 15220334  35 LPHDVVGLILERLPVESLLRFKCVSNQWKSTIESQCF 71
Cdd:cd22157   3 LPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 39
F_box_assoc_1 super family cl44343
F-box protein interaction domain; This model describes a large family of plant domains, with ...
124-274 1.76e-08

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: 53.90  E-value: 1.76e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15220334   124 YGSCEGLICiyCVYSPNIVV-NPATKWHRSCPLSNLQqFLDDKFEKkeydfptpkLAFGKDKLNGTYKQVWLYNSSEFRL 202
Cdd:TIGR01640   1 VVPCDGLIC--FSYGKRLVVwNPSTGQSRWLPTPKSR-RSNKESDT---------YFLGYDPIEKQYKVLCFSDRSGNRN 68
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15220334   203 DDvtTCEVFDFSNNAWRYVHPaSPYRINDYQDPVYSDGSVHWLTEGKESK----ILSFHLHTETFQVLCEAPFLRE 274
Cdd:TIGR01640  69 QS--EHQVYTLGSNSWRTIEC-SPPHHPLKSRGVCINGVLYYLAYTLKTNpdyfIVSFDVSSERFKEFIPLPCGNS 141
 
Name Accession Description Interval E-value
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
35-71 9.92e-10

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: 53.23  E-value: 9.92e-10
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 15220334  35 LPHDVVGLILERLPVESLLRFKCVSNQWKSTIESQCF 71
Cdd:cd22157   3 LPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 39
F_box_assoc_1 TIGR01640
F-box protein interaction domain; This model describes a large family of plant domains, with ...
124-274 1.76e-08

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: 53.90  E-value: 1.76e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15220334   124 YGSCEGLICiyCVYSPNIVV-NPATKWHRSCPLSNLQqFLDDKFEKkeydfptpkLAFGKDKLNGTYKQVWLYNSSEFRL 202
Cdd:TIGR01640   1 VVPCDGLIC--FSYGKRLVVwNPSTGQSRWLPTPKSR-RSNKESDT---------YFLGYDPIEKQYKVLCFSDRSGNRN 68
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15220334   203 DDvtTCEVFDFSNNAWRYVHPaSPYRINDYQDPVYSDGSVHWLTEGKESK----ILSFHLHTETFQVLCEAPFLRE 274
Cdd:TIGR01640  69 QS--EHQVYTLGSNSWRTIEC-SPPHHPLKSRGVCINGVLYYLAYTLKTNpdyfIVSFDVSSERFKEFIPLPCGNS 141
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
33-71 1.06e-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: 44.84  E-value: 1.06e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 15220334    33 LLLPHDVVGLILERLPVESLLRFKCVSNQWKSTIESQCF 71
Cdd:pfam00646   2 LDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKL 40
FBOX smart00256
A Receptor for Ubiquitination Targets;
35-71 2.59e-06

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 43.58  E-value: 2.59e-06
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 15220334     35 LPHDVVGLILERLPVESLLRFKCVSNQWKSTIESQCF 71
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
FBA_1 pfam07734
F-box associated; Most of these proteins contain pfam00646 at the N terminus, suggesting that ...
235-291 1.38e-03

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: 38.74  E-value: 1.38e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15220334   235 PVYSDGSVHWLTEGKESK----ILSFHLHTETFQVLCEAPFLRERDPVGDSMCILDNRLCV 291
Cdd:pfam07734   1 GVSLKGNTYWLAREKETNeedfLLSFDFTTERFGPRLPLPFQSPDLDTVSLSVVREEKLAV 61
 
Name Accession Description Interval E-value
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
35-71 9.92e-10

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: 53.23  E-value: 9.92e-10
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 15220334  35 LPHDVVGLILERLPVESLLRFKCVSNQWKSTIESQCF 71
Cdd:cd22157   3 LPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 39
F_box_assoc_1 TIGR01640
F-box protein interaction domain; This model describes a large family of plant domains, with ...
124-274 1.76e-08

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: 53.90  E-value: 1.76e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15220334   124 YGSCEGLICiyCVYSPNIVV-NPATKWHRSCPLSNLQqFLDDKFEKkeydfptpkLAFGKDKLNGTYKQVWLYNSSEFRL 202
Cdd:TIGR01640   1 VVPCDGLIC--FSYGKRLVVwNPSTGQSRWLPTPKSR-RSNKESDT---------YFLGYDPIEKQYKVLCFSDRSGNRN 68
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 15220334   203 DDvtTCEVFDFSNNAWRYVHPaSPYRINDYQDPVYSDGSVHWLTEGKESK----ILSFHLHTETFQVLCEAPFLRE 274
Cdd:TIGR01640  69 QS--EHQVYTLGSNSWRTIEC-SPPHHPLKSRGVCINGVLYYLAYTLKTNpdyfIVSFDVSSERFKEFIPLPCGNS 141
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
33-71 1.06e-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: 44.84  E-value: 1.06e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 15220334    33 LLLPHDVVGLILERLPVESLLRFKCVSNQWKSTIESQCF 71
Cdd:pfam00646   2 LDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKL 40
FBOX smart00256
A Receptor for Ubiquitination Targets;
35-71 2.59e-06

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 43.58  E-value: 2.59e-06
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 15220334     35 LPHDVVGLILERLPVESLLRFKCVSNQWKSTIESQCF 71
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
FBA_1 pfam07734
F-box associated; Most of these proteins contain pfam00646 at the N terminus, suggesting that ...
235-291 1.38e-03

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: 38.74  E-value: 1.38e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15220334   235 PVYSDGSVHWLTEGKESK----ILSFHLHTETFQVLCEAPFLRERDPVGDSMCILDNRLCV 291
Cdd:pfam07734   1 GVSLKGNTYWLAREKETNeedfLLSFDFTTERFGPRLPLPFQSPDLDTVSLSVVREEKLAV 61
F-box_FBXO1 cd22082
F-box domain found in F-box only protein 1 (FBXO1) and similar proteins; FBXO1, also called ...
35-68 5.08e-03

F-box domain found in F-box only protein 1 (FBXO1) and similar proteins; FBXO1, also called FBX1, or cyclin-F, is a 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 CP110 during G2 phase, thereby acting as an inhibitor of centrosome reduplication. It is the largest among all cyclins and oscillates in the cell cycle like other cyclins. 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: 438854  Cd Length: 52  Bit Score: 34.53  E-value: 5.08e-03
                        10        20        30
                ....*....|....*....|....*....|....
gi 15220334  35 LPHDVVGLILERLPVESLLRFKCVSNQWKSTIES 68
Cdd:cd22082   5 LPEEVLLHILKGLPIKDLLNMRAVHSRFKDLIDS 38
F-box_AtAFR-like cd22152
F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and ...
35-69 6.19e-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: 34.08  E-value: 6.19e-03
                        10        20        30
                ....*....|....*....|....*....|....*
gi 15220334  35 LPHDVVGLILERLPVESLLRFKCVSNQWKSTIESQ 69
Cdd:cd22152   5 LPDDIALQCLARVPRSSHPSLSLVSKSWRSLLSSP 39
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
35-67 7.72e-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: 33.57  E-value: 7.72e-03
                        10        20        30
                ....*....|....*....|....*....|...
gi 15220334  35 LPHDVVGLILERLPVESLLRFKCVSNQWKSTIE 67
Cdd:cd09917   3 LPDEILLKILSYLDPRDLLRLSLVCKRWRELAS 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