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Conserved domains on  [gi|1072927717|ref|XP_018474616|]
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probable FBD-associated F-box protein At1g32375 [Raphanus sativus]

Protein Classification

F-box/FBD/LRR-repeat protein( domain architecture ID 17779682)

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|11751054|14747988|10581972|7583641
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;
350-421 8.22e-27

domain in FBox and BRCT domain containing plant proteins;


:

Pssm-ID: 214730  Cd Length: 72  Bit Score: 102.22  E-value: 8.22e-27
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1072927717  350 ECLLTSLETLEWTNYEGTKEEKEVVEFILRNGRCLKKVTISSKPTDSDKKLEMIKELALSFRRSPVCQLVFD 421
Cdd:smart00579   1 ECLLSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASSSCQVQFL 72
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 4-40 4.26e-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: 57.30  E-value: 4.26e-11
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1072927717   4 ISQLPDHLLLKILSFLPTtKEVVATMVLSKRWQFLWT 40
Cdd:cd22160     1 ISDLPDELLCHILSFLPT-KDAVKTSVLSKRWRHLWR 36
LRR_2 pfam07723
Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the ...
 155-181 2.26e-03

Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the pfam00560 model.


:

Pssm-ID: 336782  Cd Length: 26  Bit Score: 35.44  E-value: 2.26e-03
                          10        20
                  ....*....|....*....|....*..
gi 1072927717 155 SLKKLSLDNIKYPgGDKYVNRLLSNCP 181
Cdd:pfam07723   1 SLKTLHLDSVVFS-DEDSLEKLLSGCP 26
 
Name Accession Description Interval E-value
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
350-421 8.22e-27

domain in FBox and BRCT domain containing plant proteins;


Pssm-ID: 214730  Cd Length: 72  Bit Score: 102.22  E-value: 8.22e-27
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1072927717  350 ECLLTSLETLEWTNYEGTKEEKEVVEFILRNGRCLKKVTISSKPTDSDKKLEMIKELALSFRRSPVCQLVFD 421
Cdd:smart00579   1 ECLLSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASSSCQVQFL 72
FBD pfam08387
FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it ...
 346-389 1.18e-18

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: 78.91  E-value: 1.18e-18
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1072927717 346 SLVPECLLTSLETLEWTNYEGTKEEKEVVEFILRNGRCLKKVTI 389
Cdd:pfam08387   2 SSVPECLLSSLETVEWRGYRGEEEEKEFAKYILENARVLKKATI 45
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 4-40 4.26e-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: 57.30  E-value: 4.26e-11
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1072927717   4 ISQLPDHLLLKILSFLPTtKEVVATMVLSKRWQFLWT 40
Cdd:cd22160     1 ISDLPDELLCHILSFLPT-KDAVKTSVLSKRWRHLWR 36
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 4-47 1.51e-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: 39.06  E-value: 1.51e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1072927717   4 ISQLPDHLLLKILSFLPtTKEVVATMVLSKRWQFLWTLVPRLVY 47
Cdd:pfam00646   1 LLDLPDDLLLEILSRLD-PKDLLRLSLVSKRWRSLVDSLKLWKK 43
LRR_2 pfam07723
Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the ...
 155-181 2.26e-03

Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the pfam00560 model.


Pssm-ID: 336782  Cd Length: 26  Bit Score: 35.44  E-value: 2.26e-03
                          10        20
                  ....*....|....*....|....*..
gi 1072927717 155 SLKKLSLDNIKYPgGDKYVNRLLSNCP 181
Cdd:pfam07723   1 SLKTLHLDSVVFS-DEDSLEKLLSGCP 26
 
Name Accession Description Interval E-value
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
350-421 8.22e-27

domain in FBox and BRCT domain containing plant proteins;


Pssm-ID: 214730  Cd Length: 72  Bit Score: 102.22  E-value: 8.22e-27
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1072927717  350 ECLLTSLETLEWTNYEGTKEEKEVVEFILRNGRCLKKVTISSKPTDSDKKLEMIKELALSFRRSPVCQLVFD 421
Cdd:smart00579   1 ECLLSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASSSCQVQFL 72
FBD pfam08387
FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it ...
 346-389 1.18e-18

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: 78.91  E-value: 1.18e-18
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1072927717 346 SLVPECLLTSLETLEWTNYEGTKEEKEVVEFILRNGRCLKKVTI 389
Cdd:pfam08387   2 SSVPECLLSSLETVEWRGYRGEEEEKEFAKYILENARVLKKATI 45
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 4-40 4.26e-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: 57.30  E-value: 4.26e-11
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1072927717   4 ISQLPDHLLLKILSFLPTtKEVVATMVLSKRWQFLWT 40
Cdd:cd22160     1 ISDLPDELLCHILSFLPT-KDAVKTSVLSKRWRHLWR 36
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 4-47 1.51e-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: 39.06  E-value: 1.51e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1072927717   4 ISQLPDHLLLKILSFLPtTKEVVATMVLSKRWQFLWTLVPRLVY 47
Cdd:pfam00646   1 LLDLPDDLLLEILSRLD-PKDLLRLSLVSKRWRSLVDSLKLWKK 43
LRR_2 pfam07723
Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the ...
 155-181 2.26e-03

Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the pfam00560 model.


Pssm-ID: 336782  Cd Length: 26  Bit Score: 35.44  E-value: 2.26e-03
                          10        20
                  ....*....|....*....|....*..
gi 1072927717 155 SLKKLSLDNIKYPgGDKYVNRLLSNCP 181
Cdd:pfam07723   1 SLKTLHLDSVVFS-DEDSLEKLLSGCP 26
F-box_DdgacFF-like cd22148
F-box domain found in Dictyostelium discoideum Rho GTPase-activating protein gacFF (DdgacFF) ...
 4-38 5.92e-03

F-box domain found in Dictyostelium discoideum Rho GTPase-activating protein gacFF (DdgacFF) and similar proteins; DdgacFF, also called GTPase activating factor for raC protein FF, is a Rho GTPase-activating protein involved in the signal transduction 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: 438919  Cd Length: 44  Bit Score: 34.56  E-value: 5.92e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1072927717   4 ISQLPDHLLLKILSFLpTTKEVVATMVLSKRWQFL 38
Cdd:cd22148     2 ISLLPEHLALKILSYL-SPKELLIASQVSKTWRRL 35
F-box_FBXL12 cd22123
F-box domain found in F-box/LRR-repeat protein 12 (FBXL12) and similar proteins; FBXL12, also ...
 4-48 9.11e-03

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: 33.86  E-value: 9.11e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1072927717   4 ISQLPDHLLLKILSFLPtTKEVVATMVLSKRWQflwtlvpRLVYD 48
Cdd:cd22123     1 LDQLPENVLLEILSYLP-VRDLLRISRVCKRWR-------RLVYD 37
 
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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