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Conserved domains on  [gi|186490792|ref|NP_001117485|]
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F-box and associated interaction domains-containing protein [Arabidopsis thaliana]

Protein Classification

F-box protein( domain architecture ID 17779041)

F-box protein is the substrate-recognition component of an SCF (Skp1-cullin-F-box protein) E3 ubiquitin ligase complex that mediates the ubiquitination and subsequent proteasomal degradation of target proteins

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

Graphical summary

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List of domain hits

 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 ...
 181-413 5.82e-74

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: 232.25  E-value: 5.82e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186490792  181 SPLCGFICRRgkrNLDTMVICNPVTGESVSLPKVELKSINTETRPY-LGYDPVRKQLKVLCIKSDDIPNTCDEHQVLTLE 259
Cdd:TIGR01640   2 VPCDGLICFS---YGKRLVVWNPSTGQSRWLPTPKSRRSNKESDTYfLGYDPIEKQYKVLCFSDRSGNRNQSEHQVYTLG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186490792  260 NGnhLWRTIQCKP--HYPKSDGICIDGILYYTAGFDMRARVSMVVCFDVRSEKFS-FINIHVFMLMNDSC-TLINYKGKL 335
Cdd:TIGR01640  79 SN--SWRTIECSPphHPLKSRGVCINGVLYYLAYTLKTNPDYFIVSFDVSSERFKeFIPLPCGNSDSVDYlSLINYKGKL 156

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 186490792  336 GALQFTCLSPKrLRFWVLVNAEKNIWTKCIYALPPLWNNLVQhtELAIVGMTDGGEVVLSQYCLiYAFYIYYFNLESK 413
Cdd:TIGR01640 157 AVLKQKKDTNN-FDLWVLNDAGKQEWSKLFTVPIPPLPDLVD--DNFLSGFTDKGEIVLCCEDE-NPFYIFYYNVGEN 230
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 80-118 1.52e-11

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: 58.63  E-value: 1.52e-11
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 186490792  80 RYIPIDLLMDIFSRVPAKSIARFRCVSKLWESILCRPDF 118
Cdd:cd22157    1 SSLPDDLVEEILSRLPAKSLLRFRCVCKQWNSLISSPSF 39
Ntn_hydrolase super family cl00467
The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are ...
 447-461 8.36e-04

The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-layered alpha, beta, beta, alpha core structure. This family of hydrolases includes penicillin acylase, the 20S proteasome alpha and beta subunits, and glutamate synthase. The mechanism of activation of these proteins is conserved, although they differ in their substrate specificities. All known members catalyze the hydrolysis of amide bonds in either proteins or small molecules, and each one of them is synthesized as a preprotein. For each, an autocatalytic endoproteolytic process generates a new N-terminal residue. This mature N-terminal residue is central to catalysis and acts as both a polarizing base and a nucleophile during the reaction. The N-terminal amino group acts as the proton acceptor and activates either the nucleophilic hydroxyl in a Ser or Thr residue or the nucleophilic thiol in a Cys residue. The position of the N-terminal nucleophile in the active site and the mechanism of catalysis are conserved in this family, despite considerable variation in the protein sequences.


The actual alignment was detected with superfamily member cd03753:

Pssm-ID: 469781 [Multi-domain]  Cd Length: 213  Bit Score: 40.78  E-value: 8.36e-04
                         10
                 ....*....|....*
gi 186490792 447 YDRGFNTFSPQGRLF 461
Cdd:cd03753    1 YDRGVNTFSPEGRLF 15
 
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 ...
 181-413 5.82e-74

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: 232.25  E-value: 5.82e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186490792  181 SPLCGFICRRgkrNLDTMVICNPVTGESVSLPKVELKSINTETRPY-LGYDPVRKQLKVLCIKSDDIPNTCDEHQVLTLE 259
Cdd:TIGR01640   2 VPCDGLICFS---YGKRLVVWNPSTGQSRWLPTPKSRRSNKESDTYfLGYDPIEKQYKVLCFSDRSGNRNQSEHQVYTLG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186490792  260 NGnhLWRTIQCKP--HYPKSDGICIDGILYYTAGFDMRARVSMVVCFDVRSEKFS-FINIHVFMLMNDSC-TLINYKGKL 335
Cdd:TIGR01640  79 SN--SWRTIECSPphHPLKSRGVCINGVLYYLAYTLKTNPDYFIVSFDVSSERFKeFIPLPCGNSDSVDYlSLINYKGKL 156

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 186490792  336 GALQFTCLSPKrLRFWVLVNAEKNIWTKCIYALPPLWNNLVQhtELAIVGMTDGGEVVLSQYCLiYAFYIYYFNLESK 413
Cdd:TIGR01640 157 AVLKQKKDTNN-FDLWVLNDAGKQEWSKLFTVPIPPLPDLVD--DNFLSGFTDKGEIVLCCEDE-NPFYIFYYNVGEN 230
FBA_3 pfam08268
F-box associated domain;
279-405 7.75e-46

F-box associated domain;


Pssm-ID: 285468  Cd Length: 125  Bit Score: 155.14  E-value: 7.75e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186490792  279 GICIDGILYYTAGFDmRARVSMVVCFDVRSEKFSFINIHVFMLMNDSCTLINYKGKLGALQFTclSPKRLRFWVLVNAEK 358
Cdd:pfam08268   1 GICINGVLYYGAWTS-DNSKSVIVSFDVRSEKFDFIKLPVPLANDLSSTLINYKGKLAVVSHT--SDGGIELWVLEDAEK 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 186490792  359 NIWTKCIYALPPLWNNLVQHTELAIVGMTDGGEVVL-SQYCLIYAFYI 405
Cdd:pfam08268  78 HEWSKKIFVLPPSHEHLVDNTDLSVVGTTRTGEIILvLPSTLSKPFYV 125
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 80-118 1.52e-11

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: 58.63  E-value: 1.52e-11
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 186490792  80 RYIPIDLLMDIFSRVPAKSIARFRCVSKLWESILCRPDF 118
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 ...
 82-121 4.11e-07

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: 46.38  E-value: 4.11e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 186490792   82 IPIDLLMDIFSRVPAKSIARFRCVSKLWESILCRPDFKEL 121
Cdd:pfam00646   4 LPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWKK 43
FBOX smart00256
A Receptor for Ubiquitination Targets;
82-118 2.98e-06

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 43.96  E-value: 2.98e-06
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 186490792    82 IPIDLLMDIFSRVPAKSIARFRCVSKLWESILCRPDF 118
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
proteasome_alpha_type_5 cd03753
proteasome_alpha_type_5. The 20S proteasome, multisubunit proteolytic complex, is the central ...
 447-461 8.36e-04

proteasome_alpha_type_5. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.


Pssm-ID: 239722 [Multi-domain]  Cd Length: 213  Bit Score: 40.78  E-value: 8.36e-04
                         10
                 ....*....|....*
gi 186490792 447 YDRGFNTFSPQGRLF 461
Cdd:cd03753    1 YDRGVNTFSPEGRLF 15
Proteasome_A_N pfam10584
Proteasome subunit A N-terminal signature; This domain is conserved in the A subunits of the ...
 447-461 6.09e-03

Proteasome subunit A N-terminal signature; This domain is conserved in the A subunits of the proteasome complex proteins.


Pssm-ID: 463156 [Multi-domain]  Cd Length: 23  Bit Score: 34.25  E-value: 6.09e-03
                          10
                  ....*....|....*
gi 186490792  447 YDRGFNTFSPQGRLF 461
Cdd:pfam10584   1 YDRSITTFSPDGRLF 15
Proteasome_A_N smart00948
Proteasome subunit A N-terminal signature Add an annotation; This domain is conserved in the A ...
 447-461 8.46e-03

Proteasome subunit A N-terminal signature Add an annotation; This domain is conserved in the A subunits of the proteasome complex proteins.


Pssm-ID: 198016 [Multi-domain]  Cd Length: 23  Bit Score: 33.62  E-value: 8.46e-03
                           10
                   ....*....|....*
gi 186490792   447 YDRGFNTFSPQGRLF 461
Cdd:smart00948   1 YDRSLTTFSPDGRLF 15
 
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 ...
 181-413 5.82e-74

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: 232.25  E-value: 5.82e-74
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186490792  181 SPLCGFICRRgkrNLDTMVICNPVTGESVSLPKVELKSINTETRPY-LGYDPVRKQLKVLCIKSDDIPNTCDEHQVLTLE 259
Cdd:TIGR01640   2 VPCDGLICFS---YGKRLVVWNPSTGQSRWLPTPKSRRSNKESDTYfLGYDPIEKQYKVLCFSDRSGNRNQSEHQVYTLG 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186490792  260 NGnhLWRTIQCKP--HYPKSDGICIDGILYYTAGFDMRARVSMVVCFDVRSEKFS-FINIHVFMLMNDSC-TLINYKGKL 335
Cdd:TIGR01640  79 SN--SWRTIECSPphHPLKSRGVCINGVLYYLAYTLKTNPDYFIVSFDVSSERFKeFIPLPCGNSDSVDYlSLINYKGKL 156

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 186490792  336 GALQFTCLSPKrLRFWVLVNAEKNIWTKCIYALPPLWNNLVQhtELAIVGMTDGGEVVLSQYCLiYAFYIYYFNLESK 413
Cdd:TIGR01640 157 AVLKQKKDTNN-FDLWVLNDAGKQEWSKLFTVPIPPLPDLVD--DNFLSGFTDKGEIVLCCEDE-NPFYIFYYNVGEN 230
FBA_3 pfam08268
F-box associated domain;
279-405 7.75e-46

F-box associated domain;


Pssm-ID: 285468  Cd Length: 125  Bit Score: 155.14  E-value: 7.75e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 186490792  279 GICIDGILYYTAGFDmRARVSMVVCFDVRSEKFSFINIHVFMLMNDSCTLINYKGKLGALQFTclSPKRLRFWVLVNAEK 358
Cdd:pfam08268   1 GICINGVLYYGAWTS-DNSKSVIVSFDVRSEKFDFIKLPVPLANDLSSTLINYKGKLAVVSHT--SDGGIELWVLEDAEK 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 186490792  359 NIWTKCIYALPPLWNNLVQHTELAIVGMTDGGEVVL-SQYCLIYAFYI 405
Cdd:pfam08268  78 HEWSKKIFVLPPSHEHLVDNTDLSVVGTTRTGEIILvLPSTLSKPFYV 125
F-box_AtFBW1-like cd22157
F-box domain found in Arabidopsis thaliana F-box/WD-40 repeat-containing protein 1 (AtFBW1) ...
 80-118 1.52e-11

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: 58.63  E-value: 1.52e-11
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 186490792  80 RYIPIDLLMDIFSRVPAKSIARFRCVSKLWESILCRPDF 118
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 ...
 82-121 4.11e-07

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: 46.38  E-value: 4.11e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 186490792   82 IPIDLLMDIFSRVPAKSIARFRCVSKLWESILCRPDFKEL 121
Cdd:pfam00646   4 LPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWKK 43
FBOX smart00256
A Receptor for Ubiquitination Targets;
82-118 2.98e-06

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 43.96  E-value: 2.98e-06
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 186490792    82 IPIDLLMDIFSRVPAKSIARFRCVSKLWESILCRPDF 118
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDSHDF 37
F-box_AtGID2-like cd22151
F-box domain found in Arabidopsis thaliana F-box protein GID2 and similar proteins; AtGID2, ...
 82-109 2.27e-05

F-box domain found in Arabidopsis thaliana F-box protein GID2 and similar proteins; AtGID2, also called protein SLEEPY 1, is an essential component of the SCF-type E3 ligase complex, SCF(GID2), a complex that positively regulates the gibberellin signaling pathway. Upon gibberellin treatment, the SCF(GID2) complex mediates the ubiquitination and subsequent degradation of DELLA proteins (GAI, RGA and RGL2), some repressors of the gibberellin pathway, leading to the activation of the pathway. 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: 438922  Cd Length: 44  Bit Score: 41.54  E-value: 2.27e-05
                         10        20
                 ....*....|....*....|....*...
gi 186490792  82 IPIDLLMDIFSRVPAKSIARFRCVSKLW 109
Cdd:cd22151    3 LPDDLLQEIFKRLDPKSLARAACVCRRW 30
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 82-109 3.96e-04

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: 37.81  E-value: 3.96e-04
                         10        20
                 ....*....|....*....|....*...
gi 186490792  82 IPIDLLMDIFSRVPAKSIARFRCVSKLW 109
Cdd:cd09917    3 LPDEILLKILSYLDPRDLLRLSLVCKRW 30
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 79-116 4.78e-04

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


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 37.85  E-value: 4.78e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 186490792   79 FRYIPIDLLMDIFSRVPAKSIARFRCVSKLWESILCRP 116
Cdd:pfam12937   1 LSSLPDEILLQIFSYLDPKDLLRLALVCRRWRELASDD 38
proteasome_alpha_type_5 cd03753
proteasome_alpha_type_5. The 20S proteasome, multisubunit proteolytic complex, is the central ...
 447-461 8.36e-04

proteasome_alpha_type_5. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.


Pssm-ID: 239722 [Multi-domain]  Cd Length: 213  Bit Score: 40.78  E-value: 8.36e-04
                         10
                 ....*....|....*
gi 186490792 447 YDRGFNTFSPQGRLF 461
Cdd:cd03753    1 YDRGVNTFSPEGRLF 15
F-box_AtAFR-like cd22152
F-box domain found in Arabidopsis thaliana protein ATTENUATED FAR-RED RESPONSE (AtAFR) and ...
 82-118 3.94e-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: 35.24  E-value: 3.94e-03
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 186490792  82 IPIDLLMDIFSRVPAKSIARFRCVSKLWESILCRPDF 118
Cdd:cd22152    5 LPDDIALQCLARVPRSSHPSLSLVSKSWRSLLSSPEL 41
Proteasome_A_N pfam10584
Proteasome subunit A N-terminal signature; This domain is conserved in the A subunits of the ...
 447-461 6.09e-03

Proteasome subunit A N-terminal signature; This domain is conserved in the A subunits of the proteasome complex proteins.


Pssm-ID: 463156 [Multi-domain]  Cd Length: 23  Bit Score: 34.25  E-value: 6.09e-03
                          10
                  ....*....|....*
gi 186490792  447 YDRGFNTFSPQGRLF 461
Cdd:pfam10584   1 YDRSITTFSPDGRLF 15
F-box_FBA cd22083
F-box domain found in the F-box associated (FBA) family of F-box proteins; The F-box ...
 79-112 7.81e-03

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: 34.29  E-value: 7.81e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 186490792  79 FRYIPIDLLMDIFSRVPAKS-IARFRCVSKLWESI 112
Cdd:cd22083    1 LNEIPEELLLEILTHVPATSlITNCRLVCTLWRDI 35
Proteasome_A_N smart00948
Proteasome subunit A N-terminal signature Add an annotation; This domain is conserved in the A ...
 447-461 8.46e-03

Proteasome subunit A N-terminal signature Add an annotation; This domain is conserved in the A subunits of the proteasome complex proteins.


Pssm-ID: 198016 [Multi-domain]  Cd Length: 23  Bit Score: 33.62  E-value: 8.46e-03
                           10
                   ....*....|....*
gi 186490792   447 YDRGFNTFSPQGRLF 461
Cdd:smart00948   1 YDRSLTTFSPDGRLF 15
 
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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