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Conserved domains on  [gi|15219960|ref|NP_173138|]
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F-box/RNI-like/FBD-like domains-containing protein [Arabidopsis thaliana]

Protein Classification

F-box/FBD/LRR-repeat protein( domain architecture ID 17779756)

F-box/FBD/LRR-repeat protein may be a component of an SCF (Skp1-Cullin-F-box protein) ubiquitin-protein ligase that is involved in ubiquitin-dependent degradation

CATH:  1.20.1280.50|3.80.10.10
Gene Ontology:  GO:0006511|GO:0019005|GO:0005515|GO:0016567
PubMed:  31898225|11178263|10581972|14747988|7583641|11751054
SCOP:  4001927|4003523

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
345-414 4.25e-17

domain in FBox and BRCT domain containing plant proteins;


:

Pssm-ID: 214730  Cd Length: 72  Bit Score: 75.26  E-value: 4.25e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15219960    345 QCVLSSLEFVEVKA-REVADMKKLWSYFMENSTVLKKFTLCLDHIEDQRDHVMLSKLFTFPRRSNKCEVVV 414
Cdd:smart00579   1 ECLLSSLEVLEIKGyRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASSSCQVQF 71
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 13-47 3.51e-11

F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) and similar proteins; AtARP13 and AtARP25 belong to the largest subfamily of plant F-box proteins, F-box/LRR-repeat protein (FBLs). It contains tandem leucine-rich repeats (LRRs). Like other F-box proteins, they may be components of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target 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: 438931  Cd Length: 36  Bit Score: 57.69  E-value: 3.51e-11
                        10        20        30
                ....*....|....*....|....*....|....*
gi 15219960  13 INQLPDSLLCEIFFNLPTEEVVKTSLICRRWRYVW 47
Cdd:cd22160   1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLW 35
 
Name Accession Description Interval E-value
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
345-414 4.25e-17

domain in FBox and BRCT domain containing plant proteins;


Pssm-ID: 214730  Cd Length: 72  Bit Score: 75.26  E-value: 4.25e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15219960    345 QCVLSSLEFVEVKA-REVADMKKLWSYFMENSTVLKKFTLCLDHIEDQRDHVMLSKLFTFPRRSNKCEVVV 414
Cdd:smart00579   1 ECLLSSLEVLEIKGyRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASSSCQVQF 71
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 13-47 3.51e-11

F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) and similar proteins; AtARP13 and AtARP25 belong to the largest subfamily of plant F-box proteins, F-box/LRR-repeat protein (FBLs). It contains tandem leucine-rich repeats (LRRs). Like other F-box proteins, they may be components of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target 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: 438931  Cd Length: 36  Bit Score: 57.69  E-value: 3.51e-11
                        10        20        30
                ....*....|....*....|....*....|....*
gi 15219960  13 INQLPDSLLCEIFFNLPTEEVVKTSLICRRWRYVW 47
Cdd:cd22160   1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLW 35
FBD pfam08387
FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it ...
 341-383 2.57e-08

FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it is repeated in two family members. Its precise function is unknown, but it is thought to be associated with nuclear processes. In fact, several family members are annotated as being similar to transcription factors.


Pssm-ID: 462458  Cd Length: 45  Bit Score: 49.64  E-value: 2.57e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15219960   341 SDVPQCVLSSLEFVEVK--AREVADMkKLWSYFMENSTVLKKFTL 383
Cdd:pfam08387   2 SSVPECLLSSLETVEWRgyRGEEEEK-EFAKYILENARVLKKATI 45
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 13-51 4.66e-05

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: 40.60  E-value: 4.66e-05
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 15219960    13 INQLPDSLLCEIFFNLPTEEVVKTSLICRRWRYVWQSLP 51
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLK 39
FBOX smart00256
A Receptor for Ubiquitination Targets;
16-49 7.31e-05

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 39.73  E-value: 7.31e-05
                           10        20        30
                   ....*....|....*....|....*....|....
gi 15219960     16 LPDSLLCEIFFNLPTEEVVKTSLICRRWRYVWQS 49
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDS 34
 
Name Accession Description Interval E-value
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
345-414 4.25e-17

domain in FBox and BRCT domain containing plant proteins;


Pssm-ID: 214730  Cd Length: 72  Bit Score: 75.26  E-value: 4.25e-17
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 15219960    345 QCVLSSLEFVEVKA-REVADMKKLWSYFMENSTVLKKFTLCLDHIEDQRDHVMLSKLFTFPRRSNKCEVVV 414
Cdd:smart00579   1 ECLLSSLEVLEIKGyRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASSSCQVQF 71
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 13-47 3.51e-11

F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) and similar proteins; AtARP13 and AtARP25 belong to the largest subfamily of plant F-box proteins, F-box/LRR-repeat protein (FBLs). It contains tandem leucine-rich repeats (LRRs). Like other F-box proteins, they may be components of SCF (Skp1 Cdc53 F-box protein) E3 ubiquitin ligase complexes, which may mediate the ubiquitination and subsequent proteasomal degradation of target 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: 438931  Cd Length: 36  Bit Score: 57.69  E-value: 3.51e-11
                        10        20        30
                ....*....|....*....|....*....|....*
gi 15219960  13 INQLPDSLLCEIFFNLPTEEVVKTSLICRRWRYVW 47
Cdd:cd22160   1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLW 35
FBD pfam08387
FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it ...
 341-383 2.57e-08

FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it is repeated in two family members. Its precise function is unknown, but it is thought to be associated with nuclear processes. In fact, several family members are annotated as being similar to transcription factors.


Pssm-ID: 462458  Cd Length: 45  Bit Score: 49.64  E-value: 2.57e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15219960   341 SDVPQCVLSSLEFVEVK--AREVADMkKLWSYFMENSTVLKKFTL 383
Cdd:pfam08387   2 SSVPECLLSSLETVEWRgyRGEEEEK-EFAKYILENARVLKKATI 45
F-box_FBXL12 cd22123
F-box domain found in F-box/LRR-repeat protein 12 (FBXL12) and similar proteins; FBXL12, also ...
 13-44 1.68e-05

F-box domain found in F-box/LRR-repeat protein 12 (FBXL12) and similar proteins; FBXL12, also called F-box and leucine-rich repeat protein 12, or F-box protein FBL12, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. It mediates the polyubiquitination and proteasomal degradation of calcium/calmodulin dependent protein kinase I (CAMK1) leading to disruption of cyclin D1/CDK4 complex assembly, which results in G1 cell cycle arrest in lung epithelia. It regulates T-cell differentiation in a cell-autonomous manner. 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: 438895  Cd Length: 42  Bit Score: 41.57  E-value: 1.68e-05
                        10        20        30
                ....*....|....*....|....*....|..
gi 15219960  13 INQLPDSLLCEIFFNLPTEEVVKTSLICRRWR 44
Cdd:cd22123   1 LDQLPENVLLEILSYLPVRDLLRISRVCKRWR 32
F-box_FBXW5 cd22132
F-box domain found in F-box/WD repeat-containing protein 5 (FBXW5) and similar proteins; FBXW5, ...
 16-46 1.94e-05

F-box domain found in F-box/WD repeat-containing protein 5 (FBXW5) and similar proteins; FBXW5, also called F-box and WD-40 domain-containing protein 5, is the substrate-recognition component of both SCF (SKP1-CUL1-F-box protein) and DCX (DDB1-CUL4-X-box) E3 ubiquitin-protein ligase complexes. 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: 438904 [Multi-domain]  Cd Length: 46  Bit Score: 41.44  E-value: 1.94e-05
                        10        20        30
                ....*....|....*....|....*....|.
gi 15219960  16 LPDSLLCEIFFNLPTEEVVKTSLICRRWRYV 46
Cdd:cd22132   4 LPDSLLLHIFSYLSPKDLLAAGQVCKQWYRV 34
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 13-51 4.66e-05

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: 40.60  E-value: 4.66e-05
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 15219960    13 INQLPDSLLCEIFFNLPTEEVVKTSLICRRWRYVWQSLP 51
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLK 39
FBOX smart00256
A Receptor for Ubiquitination Targets;
16-49 7.31e-05

A Receptor for Ubiquitination Targets;


Pssm-ID: 197608  Cd Length: 41  Bit Score: 39.73  E-value: 7.31e-05
                           10        20        30
                   ....*....|....*....|....*....|....
gi 15219960     16 LPDSLLCEIFFNLPTEEVVKTSLICRRWRYVWQS 49
Cdd:smart00256   1 LPDEILEEILSKLDPKDLLRLRKVSRKWRSLIDS 34
F-box-like pfam12937
F-box-like; This is an F-box-like family.
 13-50 2.86e-04

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


Pssm-ID: 463757 [Multi-domain]  Cd Length: 45  Bit Score: 38.23  E-value: 2.86e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 15219960    13 INQLPDSLLCEIFFNLPTEEVVKTSLICRRWR------YVWQSL 50
Cdd:pfam12937   1 LSSLPDEILLQIFSYLDPKDLLRLALVCRRWRelasddSLWRRL 44
F-box_SF cd09917
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 14-46 4.45e-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: 37.42  E-value: 4.45e-04
                        10        20        30
                ....*....|....*....|....*....|...
gi 15219960  14 NQLPDSLLCEIFFNLPTEEVVKTSLICRRWRYV 46
Cdd:cd09917   1 SDLPDEILLKILSYLDPRDLLRLSLVCKRWREL 33
F-box_AtGID2-like cd22151
F-box domain found in Arabidopsis thaliana F-box protein GID2 and similar proteins; AtGID2, ...
 14-49 4.73e-04

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: 37.69  E-value: 4.73e-04
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 15219960  14 NQLPDSLLCEIFFNLPTEEVVKTSLICRRWRYVWQS 49
Cdd:cd22151   1 RKLPDDLLQEIFKRLDPKSLARAACVCRRWRAAARS 36
F-box_FBXL7 cd22120
F-box domain found in F-box/LRR-repeat protein 7 (FBXL7) and similar proteins; FBXL7, also ...
 13-48 6.77e-04

F-box domain found in F-box/LRR-repeat protein 7 (FBXL7) and similar proteins; FBXL7, also called F-box and leucine-rich repeat protein 7, or F-box protein FBL6/FBL7, 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 Aurora kinase A (AURKA) during mitosis, causing mitotic arrest. 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: 438892  Cd Length: 44  Bit Score: 37.36  E-value: 6.77e-04
                        10        20        30
                ....*....|....*....|....*....|....*..
gi 15219960  13 INQLPDSLLCEIFFNLPTEEVVKTSLICRRW-RYVWQ 48
Cdd:cd22120   1 FDRLPDDVILQIFSHLPTNQLCRCARVCRRWyNLAWD 37
F-box_FBXO18 cd22095
F-box domain found in F-box only protein 18 (FBXO18) and similar proteins; FBXO18, also called ...
 13-44 1.80e-03

F-box domain found in F-box only protein 18 (FBXO18) and similar proteins; FBXO18, also called FBX18, or F-box DNA helicase 1 (FBH1), is a 3'-5' DNA helicase and the substrate-recognition component of the SCF(FBH1) E3 ubiquitin ligase complex that plays a key role in response to stalled/damaged replication forks. 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: 438867  Cd Length: 48  Bit Score: 36.10  E-value: 1.80e-03
                        10        20        30
                ....*....|....*....|....*....|...
gi 15219960  13 INQLPDSLLCEIFFNLPTEEVVKT-SLICRRWR 44
Cdd:cd22095   2 IQQLPEELLRNIFAFLPAEDLYQNiSLVCRHWR 34
F-box_FBXL1 cd22114
F-box domain found in F-box/LRR-repeat protein 1 (FBXL1) and similar proteins; FBXL1, also ...
 14-44 4.78e-03

F-box domain found in F-box/LRR-repeat protein 1 (FBXL1) and similar proteins; FBXL1, also called S-phase kinase-associated protein 2, cyclin-A/CDK2-associated protein p45, F-box protein Skp2, or p45skp2, 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 involved in cell cycle progression, signal transduction and transcription. It specifically recognizes phosphorylated CDKN1B/p27kip and is involved in regulation of G1/S transition. 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: 438886  Cd Length: 41  Bit Score: 34.69  E-value: 4.78e-03
                        10        20        30
                ....*....|....*....|....*....|.
gi 15219960  14 NQLPDSLLCEIFFNLPTEEVVKTSLICRRWR 44
Cdd:cd22114   2 DSLPDELLLGIFSCLCLPDLLKVSQVCKRWY 32
F-box_FBXO13 cd22092
F-box domain found in F-box only protein 13 (FBXO13) and similar proteins; FBXO13, also called ...
 13-44 7.91e-03

F-box domain found in F-box only protein 13 (FBXO13) and similar proteins; FBXO13, also called FBX13, F-box/LRR-repeat protein 17 (FBL17), or F-box and leucine-rich repeat protein 17 (FBXL17), is the substrate-recognition component of SCF(FBXL17) E3 ubiquitin ligase complex, a key component of a quality control pathway required to ensure functional dimerization of BTB domain-containing proteins (dimerization quality control, DQC). 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: 438864  Cd Length: 49  Bit Score: 34.32  E-value: 7.91e-03
                        10        20        30
                ....*....|....*....|....*....|...
gi 15219960  13 INQLPDSLLCEIFFNLPTEEVVKT-SLICRRWR 44
Cdd:cd22092   2 INQLPDSILLKIFSYLSLQERCLSaSLVCKYWR 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.
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