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Conserved domains on  [gi|1635301174|gb|TKR98520|]
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F-box protein [Populus alba]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN00046 PLN00046
photosystem I reaction center subunit O; Provisional
 317-447 5.78e-71

photosystem I reaction center subunit O; Provisional


:

Pssm-ID: 215040  Cd Length: 141  Bit Score: 220.85  E-value: 5.78e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635301174 317 MACIATGIAVFKICLSSGFVKSPVAARSPLRLAGTHGGKFMcFERDWLRKDLNVIGFGLIGWLAPSSIPAIGGKSLSGLF 396
Cdd:PLN00046   11 VSGLGSSSLSAPRRLSSGFVKGPVTVRRRAVLARASGSKKT-FDRDWLRKDLNVIGFGLIGWLAPSSIPAIGGNSLTGLF 89

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1635301174 397 FESIGTELAHFPTPPPLTSQFWLWLVTWHLGLFICLTFGQIGFKGRIEEYF 447
Cdd:PLN00046   90 FDSIGTELAHFPTGPALDSKFWLWLITWHLGLFLCLTFGQIGFKGRKQGYF 140
F-box_SF super family cl45894
F-box domain superfamily; This short domain is commonly found at the N-terminus of various ...
 23-63 1.84e-05

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 cd22165:

Pssm-ID: 459239  Cd Length: 46  Bit Score: 41.88  E-value: 1.84e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1635301174  23 PDILQTHILTLLDGPTLAATACASSELHALSTEDKLWQKIC 63
Cdd:cd22165     6 PTELKLKILELLPGVDLARMACVCSELRFLASNDDLWKQKF 46
 
Name Accession Description Interval E-value
PLN00046 PLN00046
photosystem I reaction center subunit O; Provisional
 317-447 5.78e-71

photosystem I reaction center subunit O; Provisional


Pssm-ID: 215040  Cd Length: 141  Bit Score: 220.85  E-value: 5.78e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635301174 317 MACIATGIAVFKICLSSGFVKSPVAARSPLRLAGTHGGKFMcFERDWLRKDLNVIGFGLIGWLAPSSIPAIGGKSLSGLF 396
Cdd:PLN00046   11 VSGLGSSSLSAPRRLSSGFVKGPVTVRRRAVLARASGSKKT-FDRDWLRKDLNVIGFGLIGWLAPSSIPAIGGNSLTGLF 89

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1635301174 397 FESIGTELAHFPTPPPLTSQFWLWLVTWHLGLFICLTFGQIGFKGRIEEYF 447
Cdd:PLN00046   90 FDSIGTELAHFPTGPALDSKFWLWLITWHLGLFLCLTFGQIGFKGRKQGYF 140
psaOeuk TIGR03059
photosystem I protein PsaO; Members of this family are the PsaO protein of photosystem I. This ...
 368-447 2.41e-34

photosystem I protein PsaO; Members of this family are the PsaO protein of photosystem I. This protein is found in chloroplasts but not in Cyanobacteria.


Pssm-ID: 132103  Cd Length: 82  Bit Score: 123.03  E-value: 2.41e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635301174 368 LNVIGFGLIGWLAPS--SIPAIGGKSLSGLFFESIGTELAHFPTPPPLTSQFWLWLVTWHLGLFICLTFGQIGFKGRIEE 445
Cdd:TIGR03059   1 APVAAIGFVGWVLPTvlNVPLYGGKSLTGLFASSIGENLAHFPAPPALDDPFWLLLFTWHSGLFLVMTFGQIGWQGRKNG 80


                  ..
gi 1635301174 446 YF 447
Cdd:TIGR03059  81 YY 82
F-box_AtSKIP22-like cd22165
F-box domain found in Arabidopsis thaliana SKP1-interacting partner 22 (AtSKIP22) and similar ...
 23-63 1.84e-05

F-box domain found in Arabidopsis thaliana SKP1-interacting partner 22 (AtSKIP22) and similar proteins; AtSKIP22, also called F-box protein SKIP22, 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 interacts with SKP1A/ASK1 and SPK1B/ASK2. 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: 438936  Cd Length: 46  Bit Score: 41.88  E-value: 1.84e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1635301174  23 PDILQTHILTLLDGPTLAATACASSELHALSTEDKLWQKIC 63
Cdd:cd22165     6 PTELKLKILELLPGVDLARMACVCSELRFLASNDDLWKQKF 46
 
Name Accession Description Interval E-value
PLN00046 PLN00046
photosystem I reaction center subunit O; Provisional
 317-447 5.78e-71

photosystem I reaction center subunit O; Provisional


Pssm-ID: 215040  Cd Length: 141  Bit Score: 220.85  E-value: 5.78e-71
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635301174 317 MACIATGIAVFKICLSSGFVKSPVAARSPLRLAGTHGGKFMcFERDWLRKDLNVIGFGLIGWLAPSSIPAIGGKSLSGLF 396
Cdd:PLN00046   11 VSGLGSSSLSAPRRLSSGFVKGPVTVRRRAVLARASGSKKT-FDRDWLRKDLNVIGFGLIGWLAPSSIPAIGGNSLTGLF 89

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1635301174 397 FESIGTELAHFPTPPPLTSQFWLWLVTWHLGLFICLTFGQIGFKGRIEEYF 447
Cdd:PLN00046   90 FDSIGTELAHFPTGPALDSKFWLWLITWHLGLFLCLTFGQIGFKGRKQGYF 140
psaOeuk TIGR03059
photosystem I protein PsaO; Members of this family are the PsaO protein of photosystem I. This ...
 368-447 2.41e-34

photosystem I protein PsaO; Members of this family are the PsaO protein of photosystem I. This protein is found in chloroplasts but not in Cyanobacteria.


Pssm-ID: 132103  Cd Length: 82  Bit Score: 123.03  E-value: 2.41e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1635301174 368 LNVIGFGLIGWLAPS--SIPAIGGKSLSGLFFESIGTELAHFPTPPPLTSQFWLWLVTWHLGLFICLTFGQIGFKGRIEE 445
Cdd:TIGR03059   1 APVAAIGFVGWVLPTvlNVPLYGGKSLTGLFASSIGENLAHFPAPPALDDPFWLLLFTWHSGLFLVMTFGQIGWQGRKNG 80


                  ..
gi 1635301174 446 YF 447
Cdd:TIGR03059  81 YY 82
F-box_AtSKIP22-like cd22165
F-box domain found in Arabidopsis thaliana SKP1-interacting partner 22 (AtSKIP22) and similar ...
 23-63 1.84e-05

F-box domain found in Arabidopsis thaliana SKP1-interacting partner 22 (AtSKIP22) and similar proteins; AtSKIP22, also called F-box protein SKIP22, 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 interacts with SKP1A/ASK1 and SPK1B/ASK2. 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: 438936  Cd Length: 46  Bit Score: 41.88  E-value: 1.84e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1635301174  23 PDILQTHILTLLDGPTLAATACASSELHALSTEDKLWQKIC 63
Cdd:cd22165     6 PTELKLKILELLPGVDLARMACVCSELRFLASNDDLWKQKF 46
F-box_FBXO3 cd22084
F-box domain found in F-box only protein 3 (FBXO3) and similar proteins; FBXO3, also called ...
 23-67 3.70e-04

F-box domain found in F-box only protein 3 (FBXO3) and similar proteins; FBXO3, also called FBX3, is the substrate-recognition component of an SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex. It mediates the ubiquitination of HIPK2 and probably that of EP300, leading to rapid degradation by the proteasome. It also promotes ubiquitylation and transcriptional activity of AIRE (autoimmune regulator). 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: 438856  Cd Length: 49  Bit Score: 38.01  E-value: 3.70e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1635301174  23 PDILQTHILTLLDGPTLAATACASSELHALSTEDKLWQKICTSTW 67
Cdd:cd22084     5 PSDPLLNILSFLDYRDLISCSQVCRRLNQLCSHDPLWKRLCKKYW 49
F-box_FBXO36 cd22106
F-box domain found in F-box only protein 36 (FBXO36) and similar proteins; FBXO36, also called ...
 23-62 2.67e-03

F-box domain found in F-box only protein 36 (FBXO36) and similar proteins; FBXO36, also called FBX36, likely functions as 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: 438878  Cd Length: 46  Bit Score: 35.63  E-value: 2.67e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1635301174  23 PDILQTHILTLLDGPTLAATACASSELHALSTEDKLWQKI 62
Cdd:cd22106     5 PDKLLLYIISYLDLEDIARLSQTSKRFKKLCNSDELWEKI 44
F-box_AtGID2-like cd22151
F-box domain found in Arabidopsis thaliana F-box protein GID2 and similar proteins; AtGID2, ...
 21-63 7.54e-03

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: 34.22  E-value: 7.54e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1635301174  21 LHPDILQThILTLLDGPTLAATACASSELHALSTEDKLWQKIC 63
Cdd:cd22151     3 LPDDLLQE-IFKRLDPKSLARAACVCRRWRAAARSESLWENAC 44
 
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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