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Conserved domains on  [gi|15221971|ref|NP_175901|]
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RNI-like superfamily protein [Arabidopsis thaliana]

Protein Classification

F-box/FBD/LRR-repeat protein( domain architecture ID 17779648)

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
Gene Ontology:  GO:0006511|GO:0019005|GO:0005515
PubMed:  31898225|11178263|11751054|14747988
SCOP:  4001927|4003523

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FBD pfam08387
FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it ...
 346-389 1.27e-14

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: 67.36  E-value: 1.27e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15221971   346 PKNVPECL-HHLEKFIWEGYKWKREEIEVAKYILKNTNRLKRAIF 389
Cdd:pfam08387   1 PSSVPECLlSSLETVEWRGYRGEEEEKEFAKYILENARVLKKATI 45
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 11-46 1.18e-10

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: 56.14  E-value: 1.18e-10
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 15221971  11 ISQLPEPLILQILGSLPTKVAITTSVLSKQWQSHWK 46
Cdd:cd22160   1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLWR 36
LRR_2 pfam07723
Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the ...
 154-179 2.91e-06

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: 43.53  E-value: 2.91e-06
                          10        20
                  ....*....|....*....|....*.
gi 15221971   154 SLKTLYLLAVDFKDDESVINLLSGCP 179
Cdd:pfam07723   1 SLKTLHLDSVVFSDEDSLEKLLSGCP 26
 
Name Accession Description Interval E-value
FBD pfam08387
FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it ...
 346-389 1.27e-14

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: 67.36  E-value: 1.27e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15221971   346 PKNVPECL-HHLEKFIWEGYKWKREEIEVAKYILKNTNRLKRAIF 389
Cdd:pfam08387   1 PSSVPECLlSSLETVEWRGYRGEEEEKEFAKYILENARVLKKATI 45
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
351-422 4.13e-13

domain in FBox and BRCT domain containing plant proteins;


Pssm-ID: 214730  Cd Length: 72  Bit Score: 64.09  E-value: 4.13e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15221971    351 ECL-HHLEKFIWEGYKWKREEIEVAKYILKNTNRLKRAIFSLKGISSEDRLVVVEDLKSVVMATTnSCQFQFI 422
Cdd:smart00579   1 ECLlSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASS-SCQVQFL 72
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 11-46 1.18e-10

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: 56.14  E-value: 1.18e-10
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 15221971  11 ISQLPEPLILQILGSLPTKVAITTSVLSKQWQSHWK 46
Cdd:cd22160   1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLWR 36
LRR_2 pfam07723
Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the ...
 154-179 2.91e-06

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: 43.53  E-value: 2.91e-06
                          10        20
                  ....*....|....*....|....*.
gi 15221971   154 SLKTLYLLAVDFKDDESVINLLSGCP 179
Cdd:pfam07723   1 SLKTLHLDSVVFSDEDSLEKLLSGCP 26
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 11-53 3.28e-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: 35.21  E-value: 3.28e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 15221971    11 ISQLPEPLILQILGSLPTKVAITTSVLSKQWQSHWKMMPKLEF 53
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWKK 43
 
Name Accession Description Interval E-value
FBD pfam08387
FBD; This region is found in F-box (pfam00646) and other domain containing plant proteins; it ...
 346-389 1.27e-14

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: 67.36  E-value: 1.27e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 15221971   346 PKNVPECL-HHLEKFIWEGYKWKREEIEVAKYILKNTNRLKRAIF 389
Cdd:pfam08387   1 PSSVPECLlSSLETVEWRGYRGEEEEKEFAKYILENARVLKKATI 45
FBD smart00579
domain in FBox and BRCT domain containing plant proteins;
351-422 4.13e-13

domain in FBox and BRCT domain containing plant proteins;


Pssm-ID: 214730  Cd Length: 72  Bit Score: 64.09  E-value: 4.13e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15221971    351 ECL-HHLEKFIWEGYKWKREEIEVAKYILKNTNRLKRAIFSLKGISSEDRLVVVEDLKSVVMATTnSCQFQFI 422
Cdd:smart00579   1 ECLlSSLEVLEIKGYRGTEEEKELVKYFLENAPCLKKLTISVETSDDEEKLEILKELLSLPRASS-SCQVQFL 72
F-box_AtFBL13-like cd22160
F-box domain found in Arabidopsis thaliana F-box/LRR-repeat protein 13 (AtARP13), 25 (AtARP25) ...
 11-46 1.18e-10

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: 56.14  E-value: 1.18e-10
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 15221971  11 ISQLPEPLILQILGSLPTKVAITTSVLSKQWQSHWK 46
Cdd:cd22160   1 ISDLPDELLCHILSFLPTKDAVKTSVLSKRWRHLWR 36
LRR_2 pfam07723
Leucine Rich Repeat; This Pfam entry includes some LRRs that fail to be detected with the ...
 154-179 2.91e-06

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: 43.53  E-value: 2.91e-06
                          10        20
                  ....*....|....*....|....*.
gi 15221971   154 SLKTLYLLAVDFKDDESVINLLSGCP 179
Cdd:pfam07723   1 SLKTLHLDSVVFSDEDSLEKLLSGCP 26
F-box pfam00646
F-box domain; This domain is approximately 50 amino acids long, and is usually found in the ...
 11-53 3.28e-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: 35.21  E-value: 3.28e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 15221971    11 ISQLPEPLILQILGSLPTKVAITTSVLSKQWQSHWKMMPKLEF 53
Cdd:pfam00646   1 LLDLPDDLLLEILSRLDPKDLLRLSLVSKRWRSLVDSLKLWKK 43
 
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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