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Conserved domains on  [gi|1443042428|ref|XP_025878134|]
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F-box/LRR-repeat protein At1g67190 [Oryza sativa Japonica Group]

Protein Classification

F-box protein( domain architecture ID 1903342)

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:0019005|GO:0005515|GO:0006511
PubMed:  31898225|11178263
SCOP:  4001927

Graphical summary

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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 ...
 2-35 3.41e-06

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 cd22121:

Pssm-ID: 459239  Cd Length: 35  Bit Score: 43.50  E-value: 3.41e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1443042428   2 EHLPVEVIGNILAHLSaARDVMVASGVCRKWRTA 35
Cdd:cd22121     1 NALPEEILVHIFRHLS-LRDRYAAAQVCKHWREA 33
LRR super family cl34836
Leucine-rich repeat (LRR) protein [Transcription];
124-203 3.75e-03

Leucine-rich repeat (LRR) protein [Transcription];


The actual alignment was detected with superfamily member COG4886:

Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 39.15  E-value: 3.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443042428 124 QKLEVLDLDHNTITGVEPSYQRFTCLKSLSLRHVSISALDLSLlvAACPKIESLALDFLEvVTSDPQSTMELTShtLKSL 203
Cdd:COG4886   113 TNLESLDLSGNQLTDLPEELANLTNLKELDLSNNQLTDLPEPL--GNLTNLKSLDLSNNQ-LTDLPEELGNLTN--LKEL 187
 
Name Accession Description Interval E-value
F-box_FBXL8 cd22121
F-box domain found in F-box/LRR-repeat protein 8 (FBXL8) and similar proteins; FBXL8, also ...
 2-35 3.41e-06

F-box domain found in F-box/LRR-repeat protein 8 (FBXL8) and similar proteins; FBXL8, also called F-box and leucine-rich repeat protein 8, or F-box protein FBL8, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. 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: 438893  Cd Length: 35  Bit Score: 43.50  E-value: 3.41e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1443042428   2 EHLPVEVIGNILAHLSaARDVMVASGVCRKWRTA 35
Cdd:cd22121     1 NALPEEILVHIFRHLS-LRDRYAAAQVCKHWREA 33
FBOX smart00256
A Receptor for Ubiquitination Targets;
4-39 5.08e-05

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 40.11  E-value: 5.08e-05
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1443042428    4 LPVEVIGNILAHLSAaRDVMVASGVCRKWRTACRKH 39
Cdd:smart00256   1 LPDEILEEILSKLDP-KDLLRLRKVSRKWRSLIDSH 35
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 1-40 1.18e-04

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


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 39.39  E-value: 1.18e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1443042428   1 MEHLPVEVIGNILAHLSAaRDVMVASGVCRKWRTACRKHL 40
Cdd:pfam12937   1 LSSLPDEILLQIFSYLDP-KDLLRLALVCRRWRELASDDS 39
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
124-203 3.75e-03

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 39.15  E-value: 3.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443042428 124 QKLEVLDLDHNTITGVEPSYQRFTCLKSLSLRHVSISALDLSLlvAACPKIESLALDFLEvVTSDPQSTMELTShtLKSL 203
Cdd:COG4886   113 TNLESLDLSGNQLTDLPEELANLTNLKELDLSNNQLTDLPEPL--GNLTNLKSLDLSNNQ-LTDLPEELGNLTN--LKEL 187
 
Name Accession Description Interval E-value
F-box_FBXL8 cd22121
F-box domain found in F-box/LRR-repeat protein 8 (FBXL8) and similar proteins; FBXL8, also ...
 2-35 3.41e-06

F-box domain found in F-box/LRR-repeat protein 8 (FBXL8) and similar proteins; FBXL8, also called F-box and leucine-rich repeat protein 8, or F-box protein FBL8, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. 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: 438893  Cd Length: 35  Bit Score: 43.50  E-value: 3.41e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1443042428   2 EHLPVEVIGNILAHLSaARDVMVASGVCRKWRTA 35
Cdd:cd22121     1 NALPEEILVHIFRHLS-LRDRYAAAQVCKHWREA 33
FBOX smart00256
A Receptor for Ubiquitination Targets;
4-39 5.08e-05

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 40.11  E-value: 5.08e-05
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 1443042428    4 LPVEVIGNILAHLSAaRDVMVASGVCRKWRTACRKH 39
Cdd:smart00256   1 LPDEILEEILSKLDP-KDLLRLRKVSRKWRSLIDSH 35
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 1-40 1.18e-04

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


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 39.39  E-value: 1.18e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1443042428   1 MEHLPVEVIGNILAHLSAaRDVMVASGVCRKWRTACRKHL 40
Cdd:pfam12937   1 LSSLPDEILLQIFSYLDP-KDLLRLALVCRRWRELASDDS 39
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 2-37 2.22e-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: 38.19  E-value: 2.22e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1443042428   2 EHLPVEVIGNILAHLSAaRDVMVASGVCRKWRTACR 37
Cdd:cd09917     1 SDLPDEILLKILSYLDP-RDLLRLSLVCKRWRELAS 35
F-box_AtSKP2-like cd22161
F-box domain found in Arabidopsis thaliana SKP2-like proteins (AtSKP2A and AtSKP2B) and ...
 2-45 2.39e-04

F-box domain found in Arabidopsis thaliana SKP2-like proteins (AtSKP2A and AtSKP2B) and similar proteins; AtSKP2A, also called FBL5-like protein (AtFBL5), is an F-box protein that regulates cell division and is degraded via the ubiquitin pathway. It acts as an auxin receptor. AtSKP2B, also called F-box/LRR-repeat protein 5 (AtFB5), is an F-box protein that does not interact with auxin. Both AtSKP2A and AtSKP2B are components of SCF(SKP2A/SKP2B) E3 ubiquitin ligase complexes, which mediate the ubiquitination and subsequent proteasomal degradation of target proteins (including cell cycle repressors). AtSKP2A regulates the stability of the transcription factors E2FC and DPB, repressors of cell proliferation. It confers increased tolerance to osmotic stress by promoting cell division, especially in meristems and promotes the formation of lateral root primordia. 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: 438932  Cd Length: 48  Bit Score: 38.57  E-value: 2.39e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1443042428   2 EHLPVEVIGNILAhLSAARDVMVASGVCRKWRTACRKHLHSLSF 45
Cdd:cd22161     3 KDLPMELLVRILS-LVDDRTVIIASGVCTGWRDAVSSGLTELSL 45
F-box_FBXO33 cd22104
F-box domain found in F-box only protein 33 (FBXO33) and similar proteins; FBXO33, also called ...
 4-35 5.75e-04

F-box domain found in F-box only protein 33 (FBXO33) and similar proteins; FBXO33, also called FBX33, is the 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 target proteins. It exerts similar functions as F-box involved in polyQ pathogenesis (FipoQ) in modulating the ubiquitination and solubility of expanded SCA3-polyQ 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: 438876  Cd Length: 48  Bit Score: 37.62  E-value: 5.75e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1443042428   4 LPVEVIGNILAHLSAaRDVMVASGVCRKWRTA 35
Cdd:cd22104     4 LPSVVLVHIFSYLPP-RDRLRASSTCRRWREA 34
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 1-39 1.06e-03

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: 36.75  E-value: 1.06e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1443042428   1 MEHLPVEVIGNILAHLSAaRDVMVASGVCRKWRTACRKH 39
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDP-KDLLRLSLVSKRWRSLVDSL 38
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
124-203 3.75e-03

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 39.15  E-value: 3.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1443042428 124 QKLEVLDLDHNTITGVEPSYQRFTCLKSLSLRHVSISALDLSLlvAACPKIESLALDFLEvVTSDPQSTMELTShtLKSL 203
Cdd:COG4886   113 TNLESLDLSGNQLTDLPEELANLTNLKELDLSNNQLTDLPEPL--GNLTNLKSLDLSNNQ-LTDLPEELGNLTN--LKEL 187
LRR COG4886
Leucine-rich repeat (LRR) protein [Transcription];
125-180 4.55e-03

Leucine-rich repeat (LRR) protein [Transcription];


Pssm-ID: 443914 [Multi-domain]  Cd Length: 414  Bit Score: 39.15  E-value: 4.55e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1443042428 125 KLEVLDLDHNTITGVEPSYQRFTCLKSLSLRHVSISALDLSLlvAACPKIESLALD 180
Cdd:COG4886   160 NLKSLDLSNNQLTDLPEELGNLTNLKELDLSNNQITDLPEPL--GNLTNLEELDLS 213
 
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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