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Conserved domains on  [gi|30682162|ref|NP_192993|]
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F-box and associated interaction domains-containing protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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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 ...
 96-329 2.65e-25

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: 102.82  E-value: 2.65e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30682162    96 NGLIGLSNSpTDLAVFNPSTRQIHRLPPSsidlPDGSSTRGYVFYGLGYDSVSDDYKVVRMVQFKIDsedelgcSFPYEV 175
Cdd:TIGR01640   5 DGLICFSYG-KRLVVWNPSTGQSRWLPTP----KSRRSNKESDTYFLGYDPIEKQYKVLCFSDRSGN-------RNQSEH 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30682162   176 KVFSLKKNSWKRIESvassiqllfyFYYHLLYRRGyGV-LAGNsLHWVLPRRPGLIaFNLIVRFDLALEEFEIVRFPEAV 254
Cdd:TIGR01640  73 QVYTLGSNSWRTIEC----------SPPHHPLKSR-GVcINGV-LYYLAYTLKTNP-DYFIVSFDVSSERFKEFIPLPCG 139

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 30682162   255 ANGNVDIqMDIGVLDGCLCLMC-NYDQSYVDVWMMKEYNVRDsWTKVFTVQKPKSvKSFSYMRPLVYSKDKKKVLL 329
Cdd:TIGR01640 140 NSDSVDY-LSLINYKGKLAVLKqKKDTNNFDLWVLNDAGKQE-WSKLFTVPIPPL-PDLVDDNFLSGFTDKGEIVL 212
F-box_SF super family cl45894
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 4-40 2.62e-08

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: 49.38  E-value: 2.62e-08
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 30682162   4 IPMDIVNDIFLRLPAKTLVRCRALSKPCYHLINDPDF 40
Cdd:cd22157   3 LPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 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 ...
 96-329 2.65e-25

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: 102.82  E-value: 2.65e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30682162    96 NGLIGLSNSpTDLAVFNPSTRQIHRLPPSsidlPDGSSTRGYVFYGLGYDSVSDDYKVVRMVQFKIDsedelgcSFPYEV 175
Cdd:TIGR01640   5 DGLICFSYG-KRLVVWNPSTGQSRWLPTP----KSRRSNKESDTYFLGYDPIEKQYKVLCFSDRSGN-------RNQSEH 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30682162   176 KVFSLKKNSWKRIESvassiqllfyFYYHLLYRRGyGV-LAGNsLHWVLPRRPGLIaFNLIVRFDLALEEFEIVRFPEAV 254
Cdd:TIGR01640  73 QVYTLGSNSWRTIEC----------SPPHHPLKSR-GVcINGV-LYYLAYTLKTNP-DYFIVSFDVSSERFKEFIPLPCG 139

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 30682162   255 ANGNVDIqMDIGVLDGCLCLMC-NYDQSYVDVWMMKEYNVRDsWTKVFTVQKPKSvKSFSYMRPLVYSKDKKKVLL 329
Cdd:TIGR01640 140 NSDSVDY-LSLINYKGKLAVLKqKKDTNNFDLWVLNDAGKQE-WSKLFTVPIPPL-PDLVDDNFLSGFTDKGEIVL 212
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 4-40 2.62e-08

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: 49.38  E-value: 2.62e-08
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 30682162   4 IPMDIVNDIFLRLPAKTLVRCRALSKPCYHLINDPDF 40
Cdd:cd22157   3 LPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 39
FBOX smart00256
A Receptor for Ubiquitination Targets;
4-40 2.13e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 38.57  E-value: 2.13e-04
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 30682162      4 IPMDIVNDIFLRLPAKTLVRCRALSKPCYHLINDPDF 40
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 4-40 5.34e-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: 37.52  E-value: 5.34e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 30682162     4 IPMDIVNDIFLRLPAKTLVRCRALSKPCYHLINDPDF 40
Cdd:pfam00646   4 LPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKL 40
 
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 ...
 96-329 2.65e-25

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: 102.82  E-value: 2.65e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30682162    96 NGLIGLSNSpTDLAVFNPSTRQIHRLPPSsidlPDGSSTRGYVFYGLGYDSVSDDYKVVRMVQFKIDsedelgcSFPYEV 175
Cdd:TIGR01640   5 DGLICFSYG-KRLVVWNPSTGQSRWLPTP----KSRRSNKESDTYFLGYDPIEKQYKVLCFSDRSGN-------RNQSEH 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30682162   176 KVFSLKKNSWKRIESvassiqllfyFYYHLLYRRGyGV-LAGNsLHWVLPRRPGLIaFNLIVRFDLALEEFEIVRFPEAV 254
Cdd:TIGR01640  73 QVYTLGSNSWRTIEC----------SPPHHPLKSR-GVcINGV-LYYLAYTLKTNP-DYFIVSFDVSSERFKEFIPLPCG 139

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 30682162   255 ANGNVDIqMDIGVLDGCLCLMC-NYDQSYVDVWMMKEYNVRDsWTKVFTVQKPKSvKSFSYMRPLVYSKDKKKVLL 329
Cdd:TIGR01640 140 NSDSVDY-LSLINYKGKLAVLKqKKDTNNFDLWVLNDAGKQE-WSKLFTVPIPPL-PDLVDDNFLSGFTDKGEIVL 212
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 4-40 2.62e-08

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: 49.38  E-value: 2.62e-08
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 30682162   4 IPMDIVNDIFLRLPAKTLVRCRALSKPCYHLINDPDF 40
Cdd:cd22157   3 LPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 39
FBOX smart00256
A Receptor for Ubiquitination Targets;
4-40 2.13e-04

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 38.57  E-value: 2.13e-04
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 30682162      4 IPMDIVNDIFLRLPAKTLVRCRALSKPCYHLINDPDF 40
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 4-40 5.34e-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: 37.52  E-value: 5.34e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 30682162     4 IPMDIVNDIFLRLPAKTLVRCRALSKPCYHLINDPDF 40
Cdd:pfam00646   4 LPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKL 40
 
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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